Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 119 of 325
Found at i:35753136 original size:30 final size:30
Alignment explanation
Indices: 35753102--35753158 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
35753092 TTTTGAGCAT
*
35753102 AGGGGTAAAATGGTCATTTTGCCAAAGTTC
1 AGGGGTAAAATGGTCATTTTACCAAAGTTC
35753132 AGGGGTAAAATGGTCATTTTACCAAAG
1 AGGGGTAAAATGGTCATTTTACCAAAG
35753159 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
AGGGGTAAAATGGTCATTTTACCAAAGTTC
Found at i:35753550 original size:46 final size:46
Alignment explanation
Indices: 35753494--35753665 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
35753484 GTTATTGTTG
* * *
35753494 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCAACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATCATGATGAGA
* * * *
35753540 GCCAGTGTAAGACCATGCCTGGGACATGGCATCGGCATTGA-GATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCA-TCATGATGAGA
* *
35753588 GCTAGTGTAAGACATGTCTGGGACATGCATCGGGC-TCGTGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-TGGCATCATGATG-AGA
*
35753634 GCTAGTGTAAGACATGTCTGGAACATGCATTG
1 GCTAGTGTAAGACATGTCTGGGACATGCATTG
35753666 CCTACGAGAT
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
45 2 0.02
46 49 0.46
47 29 0.27
48 25 0.24
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATCATGATGAGA
Found at i:35753609 original size:47 final size:47
Alignment explanation
Indices: 35753494--35753763 Score: 234
Period size: 47 Copynumber: 5.8 Consensus size: 47
35753484 GTTATTGTTG
* * * *
35753494 GCTAGTGTAAGA-CATGTTTGGGACATGCATTGGCAAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGA-GATGAGA
* * *
35753540 GCCAGTGTAAGACCATGCCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGATGAGA
*
35753588 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGGC-TCGTGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCATCGAGATG-AGA
* * * *
35753634 GCTAGTGTAAGA-CATGTCTGGAACATGCAT-TGCCTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGATGAGA
* * * * *
35753680 G-TCAGTGCAAGACCATGTCTAGGACATGGCATCGAC-TTGAGATGTGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGATGAGA
* *
35753727 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
35753764 CCATACCCAC
Statistics
Matches: 185, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 68 0.37
47 80 0.43
48 30 0.16
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGATGAGA
Found at i:35753746 original size:140 final size:141
Alignment explanation
Indices: 35753494--35753761 Score: 371
Period size: 140 Copynumber: 1.9 Consensus size: 141
35753484 GTTATTGTTG
* * * * *
35753494 GCTAGTGTAAGACATGTTTGGGACATGCATTGGCAACATTATGAGAGCCAGTGTAAGACCATGCC
1 GCTAGTGTAAGACATGTCTGGAACATGCATTGCCAACATGATGAGAGCCAGTGCAAGACCATGCC
* * * *
35753559 TGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGGC
66 TAGGACATGGCATCGACATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGGC
35753623 TCGTGATGTAA
131 TCGTGATGTAA
* * * *
35753634 GCTAGTGTAAGACATGTCTGGAACATGCATTGCCTACGA-GATGATAGTCAGTGCAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGAACATGCATTGCCAAC-ATGATGAGAGCCAGTGCAAGACCATGC
*
35753698 CTAGGACATGGCATCGAC-TTGAGATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG
65 CTAGGACATGGCATCGACATTGAGATGAGAGCCAGTGTAAGA-CATGTCTAGGACATGGCATCGG
35753762 CACCATACCC
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
139 21 0.19
140 82 0.74
141 8 0.07
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (141 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATTGCCAACATGATGAGAGCCAGTGCAAGACCATGCC
TAGGACATGGCATCGACATTGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGGC
TCGTGATGTAA
Found at i:35754744 original size:41 final size:42
Alignment explanation
Indices: 35754698--35754776 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 42
35754688 CATGTTTTTG
* * * *
35754698 CACAGGGCTAGGACATGGGCGTGT-TGTGGCCATGTGAGGGA
1 CACAGGCCAAGGACAAGGGCGTGTGTCTGGCCATGTGAGGGA
* *
35754739 CACAGGCCAATGACAAGGGCGTGTGTCTGGCCGTGTGA
1 CACAGGCCAAGGACAAGGGCGTGTGTCTGGCCATGTGA
35754777 AAGCCCCTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
41 20 0.65
42 11 0.35
ACGTcount: A:0.20, C:0.20, G:0.41, T:0.19
Consensus pattern (42 bp):
CACAGGCCAAGGACAAGGGCGTGTGTCTGGCCATGTGAGGGA
Found at i:35768060 original size:29 final size:29
Alignment explanation
Indices: 35767970--35768129 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
35767960 ACTCGATTTC
* * **
35767970 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
35767999 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
35768027 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
35768057 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35768086 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35768115 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
35768130 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:35776140 original size:29 final size:29
Alignment explanation
Indices: 35776050--35776207 Score: 176
Period size: 29 Copynumber: 5.4 Consensus size: 29
35776040 ACTCGATTTC
* * **
35776050 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
35776079 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
35776107 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
35776137 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35776166 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35776195 GCACACTTAGTGC
1 GCACACTTAGTGC
35776208 AATCTCGTCA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:35781101 original size:53 final size:53
Alignment explanation
Indices: 35781032--35781238 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 53
35781022 TTCCTTTTTA
* *
35781032 AACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
35781085 AACTCACCATTGCCATG-CATTGGCATGGTCTTACATGGGATCTTTGCCTTATTG
1 AACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * *
35781139 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* * *
35781194 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
35781239 AAACCCTAAT
Statistics
Matches: 124, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.35
54 40 0.32
55 38 0.31
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:35781187 original size:55 final size:53
Alignment explanation
Indices: 35781044--35781238 Score: 203
Period size: 54 Copynumber: 3.6 Consensus size: 53
35781034 CTTACCATTT
*
35781044 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
* * * ** * *
35781097 CCATG-CATTGGCATGGTCTTACATGGGATCTTTGCCTTATTGTAGTTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTA-TG-AACTCACCAATG
* * * * *
35781152 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * *
35781206 CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
35781239 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 1 0.01
53 34 0.30
54 40 0.35
55 38 0.33
56 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:35787875 original size:29 final size:29
Alignment explanation
Indices: 35787842--35787953 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 29
35787832 ATAATATGAT
35787842 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* **
35787871 TTGGGCCTGATGGGCCATATGAGCGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* ** * *
35787900 TTAGGCCGGATGGGCCATATAAATGAG-A
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
35787928 TTGGGCATAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
35787954 ATGTAGGGGT
Statistics
Matches: 66, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:35792540 original size:40 final size:39
Alignment explanation
Indices: 35792390--35792542 Score: 270
Period size: 39 Copynumber: 3.9 Consensus size: 39
35792380 GAATGTTCGA
35792390 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
35792429 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
35792468 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
35792507 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
35792543 GGTTACCATA
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 93 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:35792558 original size:40 final size:40
Alignment explanation
Indices: 35792397--35792578 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
35792387 CGAGTGATAT
* * *** *
35792397 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * *** *
35792436 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
35792475 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
35792514 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
35792554 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35792579 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 86 0.66
40 45 0.34
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:35794773 original size:40 final size:40
Alignment explanation
Indices: 35794717--35794884 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
35794707 CAATTGAATG
* * *
35794717 ATATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
35794758 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
35794797 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
35794837 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
35794877 ATATCCGG
1 ATATCCGG
35794885 TTGTATTCTG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 97 0.89
41 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:35794850 original size:80 final size:79
Alignment explanation
Indices: 35794717--35794884 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
35794707 CAATTGAATG
* *
35794717 ATATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
35794782 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
35794797 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCAAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
35794861 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
35794877 ATATCCGG
1 ATATCCGG
35794885 TTGTATTCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:35798532 original size:12 final size:12
Alignment explanation
Indices: 35798515--35798543 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35798505 CCTTACACGC
35798515 CCGTGTGCTAGG
1 CCGTGTGCTAGG
35798527 CCGTGTGCTAGG
1 CCGTGTGCTAGG
35798539 CCGTG
1 CCGTG
35798544 CCAATCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.41, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:35804589 original size:16 final size:16
Alignment explanation
Indices: 35804568--35804608 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
35804558 CATTGGGGGA
35804568 CAACTTTTCATATTCT
1 CAACTTTTCATATTCT
35804584 CAACTTTTCATATTCT
1 CAACTTTTCATATTCT
*
35804600 CAATTTTTC
1 CAACTTTTC
35804609 CCTATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (16 bp):
CAACTTTTCATATTCT
Found at i:35806952 original size:28 final size:27
Alignment explanation
Indices: 35806889--35806958 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
35806879 ATAGTGAGTC
35806889 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
35806916 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
35806944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35806959 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:35813815 original size:27 final size:27
Alignment explanation
Indices: 35813762--35813815 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35813752 TTGTTGTTCG
*
35813762 GGCAGACTACCCAATGTTTGATGTCTC
1 GGCAGACTACCCAATGTTTGATATCTC
*
35813789 GGCAGACTACCCTATGTTT-ACTATCTC
1 GGCAGACTACCCAATGTTTGA-TATCTC
35813816 AATGCACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (27 bp):
GGCAGACTACCCAATGTTTGATATCTC
Found at i:35826235 original size:40 final size:40
Alignment explanation
Indices: 35826190--35826319 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
35826180 CGGAATACAA
35826190 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
35826230 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35826270 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
35826310 CCGGATATAA
1 CCGGATATAA
35826320 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35829892 original size:2 final size:2
Alignment explanation
Indices: 35829885--35829909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35829875 ATGATTTGTG
35829885 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
35829910 AGTTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35835887 original size:17 final size:17
Alignment explanation
Indices: 35835865--35835901 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
35835855 TAAGACAATG
*
35835865 GTTGTTCTTGGATAAGA
1 GTTGTTCTTGAATAAGA
*
35835882 GTTGTTCTTGAATAATA
1 GTTGTTCTTGAATAAGA
35835899 GTT
1 GTT
35835902 ATTTTAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (17 bp):
GTTGTTCTTGAATAAGA
Found at i:35836228 original size:16 final size:16
Alignment explanation
Indices: 35836175--35836231 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
35836165 CAGAGTAACA
35836175 TAGTTGTTCCTAAAACTT
1 TAGTTGTT-CT-AAACTT
* **
35836193 T-GTTATTCTAAACAA
1 TAGTTGTTCTAAACTT
*
35836208 GAGTTGTTCTAAACTT
1 TAGTTGTTCTAAACTT
35836224 TAGTTGTT
1 TAGTTGTT
35836232 ATCAAATAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 4 0.13
16 20 0.67
17 5 0.17
18 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (16 bp):
TAGTTGTTCTAAACTT
Found at i:35840081 original size:2 final size:2
Alignment explanation
Indices: 35840062--35840109 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
35840052 AAATACTAAC
* *
35840062 TA TA TA AA TA TA CA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35840103 TA TA TA T
1 TA TA TA T
35840110 GTTATAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:35841140 original size:19 final size:18
Alignment explanation
Indices: 35841119--35841179 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
35841109 TTGATCCAAT
*
35841119 ATATATATAAACTAT-TA
1 ATATATATATACTATATA
35841136 ATATAGTATATACTATATA
1 ATATA-TATATACTATATA
35841155 ATATGATATA-ACATTATATA
1 ATAT-ATATATAC--TATATA
35841175 ATATA
1 ATATA
35841180 ATAAGAGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
17 5 0.13
18 11 0.29
19 11 0.29
20 11 0.29
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATATATATACTATATA
Found at i:35841233 original size:242 final size:232
Alignment explanation
Indices: 35840813--35841264 Score: 636
Period size: 242 Copynumber: 1.9 Consensus size: 232
35840803 ACATATATAC
* *
35840813 CTATTATTATAATATATATTATAATAAAAGATACAGTATTACATGATATTATAATATTTAGTCAT
1 CTATTATTATAATATAGATTATAATAAAAGATACAGCATTACATGATATTATAATATTTAGTCAT
* * * *
35840878 TGATGCATATATGTAAACTATTAATATATTATATGATATGATACAACATTATATAATATAATAGG
66 TGATCCATATATATAAACTATTAATATATTATATAATATGATACAACATTATATAATATAATAAG
* * *
35840943 AGAGCTAACTTTCAAATGTACGAAAAGTATAGAGAATTAGATCATATTTCAACTAATATAATAAT
131 AGAGCTAACTTTCAAATATACGAAAAGTATAGAGAATTAGAGCATATTTCAACCAATATAATAAT
**
35841008 AAATGATAATATATGATAATAAGTAATATATAATGTA
196 AAACAATAATATATGATAATAAGTAATATATAATGTA
* * *
35841045 CTATTATTATAATATAGATTATAATAAATGATATAGCATTACATGATATTATAATGTTTAGTCAT
1 CTATTATTATAATATAGATTATAATAAAAGATACAGCATTACATGATATTATAATATTTAGTCAT
*
35841110 TGATCCAATATATATATAAACTATTAATATAGTATATACTATATAATATGATATAACATTATATA
66 TGATCC---ATATATATAAACTA-T--TA-A-TATAT--TATATAATATGATACAACATTATATA
* * *
35841175 ATATAATAAGAGGGCTAACTTTCAAATATGCTAAAAGTATAG-GAATTTAGAGCATATTTCAACC
121 ATATAATAAGAGAGCTAACTTTCAAATATACGAAAAGTATAGAGAA-TTAGAGCATATTTCAACC
35841239 AATATAATAATAAACAATAATATATG
185 AATATAATAATAAACAATAATATATG
35841265 GTACTAATTA
Statistics
Matches: 191, Mismatches: 18, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
232 65 0.34
235 13 0.07
236 1 0.01
238 2 0.01
239 1 0.01
240 5 0.03
241 3 0.02
242 101 0.53
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (232 bp):
CTATTATTATAATATAGATTATAATAAAAGATACAGCATTACATGATATTATAATATTTAGTCAT
TGATCCATATATATAAACTATTAATATATTATATAATATGATACAACATTATATAATATAATAAG
AGAGCTAACTTTCAAATATACGAAAAGTATAGAGAATTAGAGCATATTTCAACCAATATAATAAT
AAACAATAATATATGATAATAAGTAATATATAATGTA
Found at i:35841362 original size:16 final size:17
Alignment explanation
Indices: 35841331--35841374 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
35841321 ATGAAATAAT
* *
35841331 ATATTTTATAAGTATTA
1 ATATATTATAACTATTA
35841348 ATATA-TATAACTATTA
1 ATATATTATAACTATTA
*
35841364 TTATATTATAA
1 ATATATTATAA
35841375 ATTATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATATTATAACTATTA
Found at i:35843765 original size:22 final size:22
Alignment explanation
Indices: 35843730--35843780 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
35843720 CCCACCTTTC
* * *
35843730 AATTA-TTAATTTTTTAAATTT
1 AATTATTTAACTTTTCAAAATT
35843751 AATTATTTAACTTTTCAAAATT
1 AATTATTTAACTTTTCAAAATT
*
35843773 AAATATTT
1 AATTATTT
35843781 TAGCCACTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTATTTAACTTTTCAAAATT
Found at i:35844246 original size:14 final size:14
Alignment explanation
Indices: 35844227--35844259 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
35844217 TAAGAAAAAA
35844227 TAAATATAAATTAG
1 TAAATATAAATTAG
35844241 TAAATATAAATTAG
1 TAAATATAAATTAG
35844255 -AAATA
1 TAAATA
35844260 GAGTAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
TAAATATAAATTAG
Found at i:35847854 original size:29 final size:29
Alignment explanation
Indices: 35847821--35847878 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
35847811 TTAAATATGC
*
35847821 TTAGTAAGTTCATATGTTTTAAACATAAA
1 TTAGTAAGTTCATATGGTTTAAACATAAA
35847850 TTAGTAAGTTCATATGGTTTAAACATAAA
1 TTAGTAAGTTCATATGGTTTAAACATAAA
35847879 GCTCACCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (29 bp):
TTAGTAAGTTCATATGGTTTAAACATAAA
Found at i:35850971 original size:15 final size:17
Alignment explanation
Indices: 35850953--35850984 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
35850943 TGGCATAATT
35850953 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
35850968 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
35850985 CAAGTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:35854560 original size:30 final size:30
Alignment explanation
Indices: 35854526--35854586 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35854516 TCCTTAACTC
35854526 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35854556 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35854586 A
1 A
35854587 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:35858689 original size:39 final size:39
Alignment explanation
Indices: 35858622--35858720 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
35858612 CACCAACACA
* * *
35858622 AAGCCTACGGGACTTTAAG-CTCGGATATAGTACAAGTACG
1 AAGCCTAC-GGACCTTAAGTC-CGAATATAGTACAAGCACG
* *
35858662 AAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCACG
1 AAGCCTACGGACCTTAAGTCCGAATATAGTACAAGCACG
*
35858701 AAGCCTACGGATCTTAAGTC
1 AAGCCTACGGACCTTAAGTC
35858721 GGATACAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 43 0.84
40 8 0.16
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.21
Consensus pattern (39 bp):
AAGCCTACGGACCTTAAGTCCGAATATAGTACAAGCACG
Found at i:35858935 original size:159 final size:158
Alignment explanation
Indices: 35858623--35859083 Score: 561
Period size: 159 Copynumber: 2.9 Consensus size: 158
35858613 ACCAACACAA
* * * * * * * * *
35858623 AGCCTACGGGACTTTAAGCTCGGATATAGTACAAGTACGAAGCCTGCGGACCTTAAGTCCGAATA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
* * * * * *
35858688 TAGTACCAGCACGAAGCCTACGGATCTTAAGTC-GGATACAATTCCAGCACGAAGCCTGCGGGTC
66 CAATTCTAGCACGAAGCCTGCGGGTCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGGTC
** *
35858752 TTTAAGCCTAGATACAATTCCAGCACGA-
131 TTTAAGCCCGGATATAATTCCAGCA-GAT
* * *
35858780 AGCCTGTGGGTCTTTAAGCCCTGATACAATTCCAGCACGAAGCCTGCGGACCTTAAATCCGGATA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
* * * *
35858845 CAATTCTAGCACAAAGCCTGCGGGTCTTTAAGCCTGGATATAATTCCAGCA-TATAGCCTGCGGG
66 CAATTCTAGCACGAAGCCTGCGGGTC-TTAAGTCTGGATACAATTCCAGCACGA-AGCCTGCGGG
*
35858909 TCTTTAAGCCCGGATATAATTCCAGCATAT
129 TCTTTAAGCCCGGATATAATTCCAGCAGAT
*
35858939 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
* ** * *
35859004 CAATTCTAGCACGAAGCTTGCGGACCTTAAGTCTAGATACAATTCCAGCACGAAGCCTGC-GGAC
66 CAATTCTAGCACGAAGCCTGCGGGTCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGGTC
* *
35859068 CTTAAGTCCGGATATA
131 TTTAAGCCCGGATATA
35859084 CATCAAATAT
Statistics
Matches: 258, Mismatches: 41, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
157 89 0.34
158 36 0.14
159 133 0.52
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (158 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
CAATTCTAGCACGAAGCCTGCGGGTCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGGTC
TTTAAGCCCGGATATAATTCCAGCAGAT
Found at i:35859066 original size:39 final size:39
Alignment explanation
Indices: 35858659--35859081 Score: 424
Period size: 40 Copynumber: 10.7 Consensus size: 39
35858649 TAGTACAAGT
* * * *
35858659 ACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
* *
35858698 ACGAAGCCTACGGATCTTAAGT-CGGATACAATTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
* * *
35858736 ACGAAGCCTGCGGGTCTTTAAG-CCTAGATACAATTCCAGC
1 ACGAAGCCTGC-GGACCTTAAGTCC-GGATACAATTCCAGC
* * * * *
35858776 ACGAAGCCTGTGGGTCTTTAAGCCCTGATACAATTCCAGC
1 ACGAAGCCTG-CGGACCTTAAGTCCGGATACAATTCCAGC
* *
35858816 ACGAAGCCTGCGGACCTTAAATCCGGATACAATTCTAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
* * * *
35858855 ACAAAGCCTGCGGGTCTTTAAG-CCTGGATATAATTCCAGC
1 ACGAAGCCTGC-GGACCTTAAGTCC-GGATACAATTCCAGC
* * * * *
35858895 A-TATAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGC
1 ACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGC
* * * *
35858935 A-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGC
1 ACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGC
* *
35858975 ACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCTAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
* **
35859014 ACGAAGCTTGCGGACCTTAAGTCTAGATACAATTCCAGC
1 ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
35859053 ACGAAGCCTGCGGACCTTAAGTCCGGATA
1 ACGAAGCCTGCGGACCTTAAGTCCGGATA
35859082 TACATCAAAT
Statistics
Matches: 334, Mismatches: 40, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
38 22 0.07
39 149 0.45
40 158 0.47
41 5 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
ACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGC
Found at i:35862205 original size:48 final size:47
Alignment explanation
Indices: 35862105--35862282 Score: 144
Period size: 48 Copynumber: 3.7 Consensus size: 47
35862095 GGTAAATTGT
* * * * * * * * *
35862105 CGATGTCATGTCCCAGACATGGTTTTAGACTGGCTCACATGTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* *
35862153 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TATCAATGC
* * * * *
35862201 CGATGCTATATCCTAGACATGGTCTTACATTGGCTCTC-AT-AATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAA--T-GC
*
35862249 TGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
35862283 ACACATATCA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 1 0.01
48 101 0.96
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTATCAATGC
Found at i:35865001 original size:71 final size:71
Alignment explanation
Indices: 35864913--35865076 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
35864903 GAGATGTATC
35864913 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35864978 AGGACA
66 AGGACA
*
35864984 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
35865049 CGGACA
66 AGGACA
35865055 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35865077 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35872602 original size:70 final size:71
Alignment explanation
Indices: 35872451--35872613 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
35872441 GAGATGTATC
35872451 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35872516 AGGACA
66 AGGACA
35872522 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
35872586 CGGACA
66 AGGACA
35872592 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35872614 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35874222 original size:67 final size:67
Alignment explanation
Indices: 35874139--35874272 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
35874129 CCCTTTGAGT
*
35874139 ATGAGCTCTTTGACGTGAAAGGTGAGATGGCGCTTGAGGTGCTGATGGATTCGCATTGCTCATGT
1 ATGAGCTCTTTGACGTGAAAGGTGAGATGGCGCTTGAGGTGCTAATGGATTCGCATTGCTCATGT
35874204 GG
66 GG
35874206 ATGAGCTCTTTGACGTGAAAGGTGAGATGGCGCTTGAGGTGCTAATGGATTCGCATTGCTCATGT
1 ATGAGCTCTTTGACGTGAAAGGTGAGATGGCGCTTGAGGTGCTAATGGATTCGCATTGCTCATGT
35874271 GG
66 GG
35874273 GAATGCTATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.20, C:0.15, G:0.35, T:0.30
Consensus pattern (67 bp):
ATGAGCTCTTTGACGTGAAAGGTGAGATGGCGCTTGAGGTGCTAATGGATTCGCATTGCTCATGT
GG
Found at i:35877991 original size:40 final size:40
Alignment explanation
Indices: 35877948--35878234 Score: 276
Period size: 40 Copynumber: 7.2 Consensus size: 40
35877938 ACTGATTGAT
* * * *
35877948 TCAGGGTTACTAG-AGTATAAACAGGGGCACGTAAGTGCAT
1 TCAGGGGTAC-AGAAGTACAAACAGGGGCACGTATGTGCAA
* * * *
35877988 TCAGGGGTACCGAAGTACAAATAGGGGCACATATGTCCAA
1 TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTGCAA
* * *
35878028 TCAAGAGTACCGAAGTACAAACAGGGGCACGTATGTGCAA
1 TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTGCAA
*
35878068 TCAGGGGTACCA-AAGTACAAACAGGGGCAAGTATGTGCAA
1 TCAGGGGTA-CAGAAGTACAAACAGGGGCACGTATGTGCAA
* * * * *
35878108 TTAGGGGTACCGAAGTAAAAAATAGGGGCAAGTATGTGCAA
1 TCAGGGGTACAGAAGT-ACAAACAGGGGCACGTATGTGCAA
* * * *
35878149 TCAGAGGTATC-GAAGTACAAACAAGGGCATGTATGTGTAA
1 TCAGGGGTA-CAGAAGTACAAACAGGGGCACGTATGTGCAA
* * * *
35878189 TTAGGGGCACTA-AAGTACAAACAGGGGTACGTATGTTCAA
1 TCAGGGGTAC-AGAAGTACAAACAGGGGCACGTATGTGCAA
35878229 TCAGGG
1 TCAGGG
35878235 ATAATTATCT
Statistics
Matches: 203, Mismatches: 37, Indels: 14
0.80 0.15 0.06
Matches are distributed among these distances:
39 3 0.01
40 164 0.81
41 35 0.17
42 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (40 bp):
TCAGGGGTACAGAAGTACAAACAGGGGCACGTATGTGCAA
Found at i:35878074 original size:20 final size:20
Alignment explanation
Indices: 35878049--35878114 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
35878039 GAAGTACAAA
35878049 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* ** * * *
35878069 CAGGGGTACCAAAGTACAAA
1 CAGGGGCACGTATGTGCAAT
*
35878089 CAGGGGCAAGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
*
35878109 TAGGGG
1 CAGGGG
35878115 TACCGAAGTA
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.17, G:0.35, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:35878103 original size:80 final size:80
Alignment explanation
Indices: 35877961--35878234 Score: 325
Period size: 80 Copynumber: 3.4 Consensus size: 80
35877951 GGGTTACTAG
* * * * *
35877961 AGTATAAACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACA-TATGTC
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCA-AGTATGTG
* * *
35878025 CAATCAAGAGTACCGA
65 CAATTAGGGGTACCGA
*
35878041 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCAAAGTACAAACAGGGGCAAGTATGTGC
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAAGTATGTGC
35878106 AATTAGGGGTACCGA
66 AATTAGGGGTACCGA
* * * * * * *
35878121 AGTAAAAAATAGGGGCAAGTATGTGCAATCAGAGGTATCGAAGTACAAACAAGGGCATGTATGTG
1 AGT-ACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAAGTATGTG
* * **
35878186 TAATTAGGGGCACTAA
65 CAATTAGGGGTACCGA
* *
35878202 AGTACAAACAGGGGTACGTATGTTCAATCAGGG
1 AGTACAAACAGGGGCACGTATGTGCAATCAGGG
35878235 ATAATTATCT
Statistics
Matches: 165, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 96 0.58
81 68 0.41
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (80 bp):
AGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAAGTATGTGC
AATTAGGGGTACCGA
Found at i:35878177 original size:121 final size:120
Alignment explanation
Indices: 35877961--35878234 Score: 356
Period size: 121 Copynumber: 2.3 Consensus size: 120
35877951 GGGTTACTAG
* * *
35877961 AGTATAAACAGGGGCACGTAAGTGC-ATTCAGGGGTACCGAAGTACAAATAGGGGCACATATGTC
1 AGTACAAACAGGGGCACGTATGTGCAATT-AGGGGTACCGAAGTAAAAATAGGGGCACATATGTC
* *
35878025 CAATCAAGAGTACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCAA
65 CAATCAAGAGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAGGGGCACCAA
*
35878081 AGTACAAACAGGGGCAAGTATGTGCAATTAGGGGTACCGAAGTAAAAAATAGGGGCA-AGTATGT
1 AGTACAAACAGGGGCACGTATGTGCAATTAGGGGTACCGAAGT-AAAAATAGGGGCACA-TATGT
* * * * * *
35878145 GCAATC-AGAGGTATCGAAGTACAAACAAGGGCATGTATGTGTAATTAGGGGCACTAA
64 CCAATCAAGA-GTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAGGGGCACCAA
* * *
35878202 AGTACAAACAGGGGTACGTATGTTCAATCAGGG
1 AGTACAAACAGGGGCACGTATGTGCAATTAGGG
35878235 ATAATTATCT
Statistics
Matches: 134, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
120 40 0.30
121 94 0.70
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (120 bp):
AGTACAAACAGGGGCACGTATGTGCAATTAGGGGTACCGAAGTAAAAATAGGGGCACATATGTCC
AATCAAGAGTACCGAAGTACAAACAAGGGCACGTATGTGCAATCAGGGGCACCAA
Found at i:35880460 original size:29 final size:29
Alignment explanation
Indices: 35880418--35880546 Score: 206
Period size: 29 Copynumber: 4.4 Consensus size: 29
35880408 GACGAGATTA
35880418 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
35880447 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
35880476 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
* ***
35880505 GCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGC-ATGCTGGAAATATATG
35880534 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35880547 GAGCTCGAAG
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 94 0.99
30 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:35880547 original size:29 final size:29
Alignment explanation
Indices: 35880418--35880606 Score: 170
Period size: 29 Copynumber: 6.5 Consensus size: 29
35880408 GACGAGATTA
* **
35880418 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAAGGTATG
* **
35880447 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAAGGTATG
* **
35880476 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAAGGTATG
*
35880505 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGAGCTCGAAAGGTATG
*
35880534 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGAGCTCGAAAGGTATG
* * * * *
35880563 GCACTATGTGTGCGGGCT-TAAATCGCATG
1 GCACTAAGTGTGCGAGCTCGAAA-GGTATG
35880592 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
35880607 AATCGAGTAT
Statistics
Matches: 146, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
28 2 0.01
29 143 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTCGAAAGGTATG
Found at i:35880563 original size:58 final size:59
Alignment explanation
Indices: 35880418--35880606 Score: 190
Period size: 58 Copynumber: 3.3 Consensus size: 59
35880408 GACGAGATTA
* * * **
35880418 GCACTAAGTGTGC-ATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCGA-GCTCGAAACGTATG
* * **
35880476 GCACTAAGTGTGC-ATGCTGGAAATATATGGCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCGAGCTCGAAACGTATG
* * * * * *
35880534 GCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGCGGGCT-TAAATCGCATG
1 GCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCGAGCTCGAAA-CGTATG
35880592 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
35880607 AATCGAGTAT
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
57 2 0.02
58 110 0.96
59 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
GCACTAAGTGTGCGATGCTCGAAAGATATGGCACTAAGTGTGCGAGCTCGAAACGTATG
Found at i:35880564 original size:87 final size:87
Alignment explanation
Indices: 35880443--35880606 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 87
35880433 GCTGGAAATA
* * * *
35880443 TATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATATGGC
1 TATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCAGGCT-GAAATCACATGGC
35880507 ACTAAGTGTGCGAGCTCGAAGGG
65 ACTAAGTGTGCGAGCTCGAAGGG
* * * * * *
35880530 TATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGCGGGCTTAAATCGCATGGC
1 TATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACATGGC
35880594 ACTAAGTGTGCGA
65 ACTAAGTGTGCGA
35880607 AATCGAGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 4 0.06
87 60 0.92
88 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.25
Consensus pattern (87 bp):
TATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGAAATCACATGGCA
CTAAGTGTGCGAGCTCGAAGGG
Found at i:35880646 original size:2 final size:2
Alignment explanation
Indices: 35880639--35880665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35880629 ATGCGTACTC
35880639 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
35880666 CTCCAATCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35882860 original size:33 final size:33
Alignment explanation
Indices: 35882817--35882891 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
35882807 GAGCTCTAAC
* * *
35882817 CAGTATCAGAATAGTCTGGGCCTTAGCCGTATA
1 CAGTAACAGAACAGTCTGGGCCTTAGCCCTATA
* *
35882850 TAGTAACAGAACAGTCTGGGCTTTAGCCCTATA
1 CAGTAACAGAACAGTCTGGGCCTTAGCCCTATA
35882883 CAGTAACAG
1 CAGTAACAG
35882892 TGTGGGCCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (33 bp):
CAGTAACAGAACAGTCTGGGCCTTAGCCCTATA
Found at i:35883108 original size:26 final size:27
Alignment explanation
Indices: 35883079--35883161 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
35883069 TGCCAGAAAT
35883079 AGTAAATGTGGCA-AGCCACCAGTATC
1 AGTAAATGTGGCATAGCCACCAGTATC
* *
35883105 AGTAATTGTGGCATAGCCACCAATAAT-
1 AGTAAATGTGGCATAGCCACCAGT-ATC
* * *
35883132 AGTGAATGTGACATAGTCACCAGTA-C
1 AGTAAATGTGGCATAGCCACCAGTATC
35883158 AGTA
1 AGTA
35883162 CTTCCACCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 16 0.35
27 28 0.61
28 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
AGTAAATGTGGCATAGCCACCAGTATC
Found at i:35883325 original size:27 final size:27
Alignment explanation
Indices: 35883294--35883374 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
35883284 TAAGGGTGTA
*
35883294 ATCGTCATTTTACCCTATAGGGGTATT
1 ATCGTCATTTTACCCTACAGGGGTATT
35883321 ATCGTCATTTTACCCTACAGGGGTATT
1 ATCGTCATTTTACCCTACAGGGGTATT
** *
35883348 A-CAGTCATTTTATGCTACAAGGGTATT
1 ATC-GTCATTTTACCCTACAGGGGTATT
35883375 TTAGTAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
ATCGTCATTTTACCCTACAGGGGTATT
Found at i:35883384 original size:27 final size:27
Alignment explanation
Indices: 35883335--35883386 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
35883325 TCATTTTACC
* *
35883335 CTACAGGGGTATTACAGTCATTTTATG
1 CTACAAGGGTATTACAGTAATTTTATG
**
35883362 CTACAAGGGTATTTTAGTAATTTTA
1 CTACAAGGGTATTACAGTAATTTTA
35883387 CAAACTGAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (27 bp):
CTACAAGGGTATTACAGTAATTTTATG
Found at i:35883397 original size:27 final size:27
Alignment explanation
Indices: 35883367--35883479 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
35883357 TTATGCTACA
*
35883367 AGGGTATTTTAGTAATTTTACAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* * *
35883394 AGGGTATTTCGGTAATTTCACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
35883421 AGGATATTTCGGTAATTTTAC-AACCT
1 AGGGTATTTCAGTAATTTTACAAATCG
35883447 AGGGGTATTTCAGTAATTTTACAAATCG
1 A-GGGTATTTCAGTAATTTTACAAATCG
35883475 AGGGT
1 AGGGT
35883480 CTTAATGACC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.06
27 62 0.87
28 5 0.07
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:35883423 original size:54 final size:54
Alignment explanation
Indices: 35883365--35883479 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
35883355 TTTTATGCTA
* *
35883365 CAAGGGTATTTTAGTAATTTTACAAACT-GAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAACTAG-GGGTATTTCAGTAATTTCACAAAT
* * * *
35883419 CAAGGATATTTCGGTAATTTTACAACCTAGGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCAGTAATTTCACAAAT
*
35883473 CGAGGGT
1 CAAGGGT
35883480 CTTAATGACC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCAGTAATTTCACAAAT
Found at i:35889948 original size:16 final size:16
Alignment explanation
Indices: 35889927--35889963 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
35889917 CTAAAAAAGG
* *
35889927 AAAAGGAAGATGACTA
1 AAAAGGAAAAGGACTA
35889943 AAAAGGAAAAGGACTA
1 AAAAGGAAAAGGACTA
35889959 AAAAG
1 AAAAG
35889964 ACAAATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.24, T:0.08
Consensus pattern (16 bp):
AAAAGGAAAAGGACTA
Found at i:35891629 original size:44 final size:44
Alignment explanation
Indices: 35891567--35891651 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
35891557 CAATATACAT
* * * * *
35891567 ATATGTAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAAAA
1 ATATATAGCCAAAACTATCTCAATCTCACACACTAAGTGCAAAA
* *
35891611 ATATATAGCCAAAACTATCTCAATTTCATACACTAAGTGCA
1 ATATATAGCCAAAACTATCTCAATCTCACACACTAAGTGCA
35891652 CATAATTAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (44 bp):
ATATATAGCCAAAACTATCTCAATCTCACACACTAAGTGCAAAA
Found at i:35895958 original size:34 final size:34
Alignment explanation
Indices: 35895920--35896001 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
35895910 TTTGGGCATA
* *
35895920 AGCCC-TTATCAGTAGCAATATCAGTGTGGGCCTT
1 AGCCCATTA-CAGTAACAATAGCAGTGTGGGCCTT
* * *
35895954 AGCCCATTACGGTAATAGTAGCAGTGTGGGCCTT
1 AGCCCATTACAGTAACAATAGCAGTGTGGGCCTT
35895988 AGCCCAATT-CAGTA
1 AGCCC-ATTACAGTA
35896002 CAGTATTAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 34 0.85
35 6 0.15
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (34 bp):
AGCCCATTACAGTAACAATAGCAGTGTGGGCCTT
Found at i:35898691 original size:47 final size:49
Alignment explanation
Indices: 35898570--35898696 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 49
35898560 TGAGTTATAG
* **
35898570 CTTGATTTGGCTACAGGCCATGGTATAAGTA-TTTTGGAGAATAGTTAC
1 CTTGATTTGGCTACGGGCCATGGTATAAGTACTTCAGGAGAATAGTTAC
* * * * * * *
35898618 CTTGATTTGGTTATGGGTCATTGTATAGGTACTTCAGGA-TA-AGTTTC
1 CTTGATTTGGCTACGGGCCATGGTATAAGTACTTCAGGAGAATAGTTAC
*
35898665 CTTGATTTGGCTACGGGCCATGGTATACGTAC
1 CTTGATTTGGCTACGGGCCATGGTATAAGTAC
35898697 CTATCAATTG
Statistics
Matches: 63, Mismatches: 15, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
47 32 0.51
48 26 0.41
49 5 0.08
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (49 bp):
CTTGATTTGGCTACGGGCCATGGTATAAGTACTTCAGGAGAATAGTTAC
Found at i:35899055 original size:19 final size:18
Alignment explanation
Indices: 35899026--35899075 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
35899016 GTATATATTT
*
35899026 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAAA
35899044 TAAATCTTATTTAGGTAAA
1 TAAAT-TTATTTAGGTAAA
35899063 TAAATTTTATTTA
1 TAAA-TTTATTTA
35899076 TATTCTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 23 0.79
20 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAAA
Found at i:35901440 original size:19 final size:19
Alignment explanation
Indices: 35901394--35901441 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
35901384 GTATATATTT
35901394 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
35901412 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
35901431 TAGATTTTATT
1 TAAATTTTATT
35901442 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:35901524 original size:42 final size:42
Alignment explanation
Indices: 35901466--35901549 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
35901456 ATTTTTATGT
* *
35901466 TTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATGTTTTAGCAGTTTATTAAAATAAGGGAACTATTTTCCC
35901508 TTATGTTTTAGCAGTTTATTAAAATAAGGGAACTATTTTCCC
1 TTATGTTTTAGCAGTTTATTAAAATAAGGGAACTATTTTCCC
35901550 AATTAGGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (42 bp):
TTATGTTTTAGCAGTTTATTAAAATAAGGGAACTATTTTCCC
Found at i:35907064 original size:39 final size:39
Alignment explanation
Indices: 35906981--35907120 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
35906971 CCGGTTATAG
* * * *
35906981 TAACTCGCACGAATGCCTTTGGGACTTAACCCGGGTTTAG
1 TAACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTAT
35907021 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
1 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
35907060 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
1 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
* *
35907099 TAACTCGCACGAACGCCTTCGG
1 TAACTCGCACAAATGCCTTCGG
35907121 ATCTTAGTCC
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 73 0.78
40 21 0.22
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
Found at i:35914225 original size:249 final size:252
Alignment explanation
Indices: 35913769--35914275 Score: 740
Period size: 250 Copynumber: 2.0 Consensus size: 252
35913759 GACACTTTCT
* *
35913769 TGGAAATGTTCGGGATCGATCTTGGGGTTCAAGATTTAAGATTTGGGGATTATTTAGATGATAAT
1 TGGAAATGTTCGGGATCGATCTTGGGGTTCAAAATTTAAGATTTGGGGATGATTTAGATGATAAT
*
35913834 AGATGGAAAAAATATTAAAGGAGATGGTGCACAATCTTGATACAAAAAGAAGAAGAAAGAGATGG
66 AGATGGAAAAAATATTAAA-GAGA----G-ACAATCTTGATACAAAAAGAACAAGAAAGAGATGG
35913899 CAAAATGGGAGGTGTAGGCAACAACAACAATGGGAGAAAGAAAGAAAATTGAAGAGAAAAGAGGA
125 CAAAATGGGAGGTGTAGGCAACAACAACAATGGGAGAAAGAAAGAAAATTGAAGAGAAAAGAGGA
* * *
35913964 GAGGATGAGGGTGAACAGCT-GGGTAGGGAAAACCTGAATTAAAGGCTAAAAAATAAAATAAA
190 GAGGAAGAGGGTGAACAACTAGGGTAGGAAAAACCTGAATTAAAGGCTAAAAAATAAAATAAA
* *
35914026 TGGAAATGTTCAGGG-TCGATCTTGGGGTTCAAAATTTCATATTTGGGGATGATTTAGATGATAA
1 TGGAAATGTTC-GGGATCGATCTTGGGGTTCAAAATTTAAGATTTGGGGATGATTTAGATGATAA
*
35914090 TAGATGGCAAAAAAAATATT-AA-A-A-ACAATCTTGATGCAAAAAGAACAAGAAAGAGATGGCA
65 TAGATGG---AAAAAATATTAAAGAGAGACAATCTTGATACAAAAAGAACAAGAAAGAGATGGCA
* *
35914151 AAATGGGA-GTGTAGGGAACGACAACAATGGGAGAAAGAAAGAAAATTGAAGAGAAAAGAGGAGA
127 AAATGGGAGGTGTAGGCAACAACAACAATGGGAGAAAGAAAGAAAATTGAAGAGAAAAGAGGAGA
* * * *
35914215 GGAAGAGGGTGAACAATTAGGGTAGGAAAAACTTGAATTGAAGGCTAAAATATAAAATAAA
192 GGAAGAGGGTGAACAACTAGGGTAGGAAAAACCTGAATTAAAGGCTAAAAAATAAAATAAA
35914276 AAGTTGTATT
Statistics
Matches: 230, Mismatches: 15, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
249 69 0.30
250 81 0.35
256 1 0.00
257 64 0.28
258 3 0.01
259 2 0.01
260 10 0.04
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.20
Consensus pattern (252 bp):
TGGAAATGTTCGGGATCGATCTTGGGGTTCAAAATTTAAGATTTGGGGATGATTTAGATGATAAT
AGATGGAAAAAATATTAAAGAGAGACAATCTTGATACAAAAAGAACAAGAAAGAGATGGCAAAAT
GGGAGGTGTAGGCAACAACAACAATGGGAGAAAGAAAGAAAATTGAAGAGAAAAGAGGAGAGGAA
GAGGGTGAACAACTAGGGTAGGAAAAACCTGAATTAAAGGCTAAAAAATAAAATAAA
Found at i:35917563 original size:37 final size:36
Alignment explanation
Indices: 35917513--35917599 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
35917503 TACGAAGTCT
35917513 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
35917549 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
35917586 TCACCCGGAACATA
1 T-ACCCGG-ACATA
35917600 TTTCTAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:35917734 original size:49 final size:48
Alignment explanation
Indices: 35917668--35917816 Score: 255
Period size: 49 Copynumber: 3.1 Consensus size: 48
35917658 TTTACCACAT
35917668 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATAT-TATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
35917717 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATAT-TATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
35917766 ATA-TATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
35917813 ATAT
1 ATAT
35917817 ATTATTATGT
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
47 45 0.47
49 51 0.53
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (48 bp):
ATATTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:35917796 original size:47 final size:47
Alignment explanation
Indices: 35917670--35917818 Score: 262
Period size: 47 Copynumber: 3.1 Consensus size: 47
35917660 TACCACATAT
35917670 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
35917717 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATA--TATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
* *
35917766 ATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
35917813 ATATAT
1 ATATAT
35917819 TATTATGTAC
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
47 51 0.52
49 47 0.48
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
Found at i:35920240 original size:20 final size:20
Alignment explanation
Indices: 35920215--35920252 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35920205 GTTTATTCGC
*
35920215 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
35920235 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
35920253 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:35921891 original size:28 final size:28
Alignment explanation
Indices: 35921859--35921926 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
35921849 GCGTAGATCA
35921859 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35921887 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
35921915 CG-AA-TACCCCTA
1 CGAAATTACCCCTA
35921927 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 8 0.20
27 2 0.05
28 30 0.75
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:35923781 original size:2 final size:2
Alignment explanation
Indices: 35923774--35923800 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35923764 GAGACTAGTC
35923774 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
35923801 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35926014 original size:27 final size:27
Alignment explanation
Indices: 35925969--35926256 Score: 152
Period size: 27 Copynumber: 10.7 Consensus size: 27
35925959 TTAGTTTACC
* ** *
35925969 AAATTACTAAAATGTCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
* * *
35925996 AAATTACTAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* *** *
35926023 GAATTACCATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* *** * *
35926050 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* * *** * *
35926077 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* * *** *
35926104 AAATTACTAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* *
35926131 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTATA
* * *
35926158 AAATTACCAAAATACCACT-AGTTTGTG
1 AAATTACCAAAATACC-CTCAATTTATA
* *
35926185 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
* *
35926212 AAATTACCAAAATA-CCTCTGATTTACA
1 AAATTACCAAAATACCCTC-AATTTATA
35926239 AAATTA-CATAAATACCCT
1 AAATTACCA-AAATACCCT
35926257 TGACTTTCTA
Statistics
Matches: 219, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.04
27 207 0.95
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTATA
Found at i:35926055 original size:54 final size:54
Alignment explanation
Indices: 35925984--35926139 Score: 177
Period size: 54 Copynumber: 2.9 Consensus size: 54
35925974 ACTAAAATGT
** * *
35925984 CCTCAATTTGTAAAATTACTAAAGTACCCTCGATTTATAGAATTACCATTTTAC
1 CCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTAC
* * *** *
35926038 CCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTAC
1 CCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTAC
* * * * *
35926092 CCTCGATTTACAAAATTACTAAAATACCTTTGGTTTACAAAATTACCA
1 CCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCA
35926140 AAATACCCCT
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (54 bp):
CCTCAATTTACAAAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTAC
Found at i:35926147 original size:54 final size:55
Alignment explanation
Indices: 35926089--35926312 Score: 163
Period size: 54 Copynumber: 4.1 Consensus size: 55
35926079 ATTACTATTT
* * **
35926089 TACCCTCGA-TTTACAAAATTACTAAAATACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* * * * *** *
35926143 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
* * * *
35926197 TACCCTC-AATTTGTAAAATTACCAAAATACCTCTGATTTACAAAATTA-CATAAA
1 TACCCTCGACTTTGCAAAATTACCAAAATACCACTGGTTTACAAAATTACCA-AAA
* ** * * **
35926251 TACCCTTGACTTT-CTAAAAATT-GTAGAAATGCCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGACTTTGC--AAAATTACCA-AAATACCACTGGTTTACAAAATTACCAAAA
35926307 TACCCT
1 TACCCT
35926313 TGGTTTGTAG
Statistics
Matches: 132, Mismatches: 30, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
53 3 0.02
54 88 0.67
55 6 0.05
56 35 0.27
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (55 bp):
TACCCTCGACTTTGCAAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAA
Found at i:35926402 original size:27 final size:27
Alignment explanation
Indices: 35926359--35926432 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
35926349 AAATGACTAA
*
35926359 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
** *
35926386 AA-AGCCCCTGTAGGGTAAAGTGATCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
35926413 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
35926433 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:35927284 original size:25 final size:25
Alignment explanation
Indices: 35927246--35927315 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
35927236 AGGAAGAGCT
* *
35927246 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
35927271 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
35927296 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
35927316 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:35927317 original size:24 final size:25
Alignment explanation
Indices: 35927246--35927340 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
35927236 AGGAAGAGCT
* * *
35927246 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAAGGCTATGCCCCAGTTTATCA
* * *
35927271 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAAGGCTATGCCCCAGTTTATCA
* *
35927296 AAAAAGGCTTTGCCCCAG-TTATTA
1 AAAAAGGCTATGCCCCAGTTTATCA
* *
35927320 AAAGAGGCTAGGCCTCCAGTT
1 AAAAAGGCTATGCC-CCAGTT
35927341 ATATGATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 16 0.28
25 41 0.71
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAAGGCTATGCCCCAGTTTATCA
Found at i:35931693 original size:28 final size:28
Alignment explanation
Indices: 35931632--35931729 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
35931622 TCACAAATTG
** * *
35931632 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
35931661 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
35931689 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
35931717 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35931730 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:35939312 original size:28 final size:28
Alignment explanation
Indices: 35939251--35939348 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
35939241 TCACAAATTG
** * *
35939251 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
35939280 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
35939308 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
35939336 GCACTAAGTGTGC
1 GCACTAAGTGTGC
35939349 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:35957994 original size:40 final size:40
Alignment explanation
Indices: 35957909--35958059 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
35957899 AATTGAATGA
* * *
35957909 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
35957949 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
35957990 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
35958029 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
35958060 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:35958073 original size:40 final size:40
Alignment explanation
Indices: 35957945--35958075 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
35957935 TATGCTGGAA
* * *
35957945 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
35957985 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
35958025 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
35958065 ATTATATCCGG
1 ATTATATCCGG
35958076 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:35966074 original size:40 final size:40
Alignment explanation
Indices: 35965948--35966076 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
35965938 TATGCTGGAA
* * *
35965948 ATTATATCCGGGTTAAGACCCGAAGGCA-AT-TGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
35965986 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
35966026 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
35966066 ATTATATCCGG
1 ATTATATCCGG
35966077 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
38 24 0.34
39 1 0.01
40 46 0.65
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:35975971 original size:29 final size:29
Alignment explanation
Indices: 35975938--35976030 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
35975928 TGACGAGATT
* *
35975938 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
35975967 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
35975996 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
35976025 GGCACT
1 GGCACT
35976031 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:35976043 original size:29 final size:29
Alignment explanation
Indices: 35975938--35976043 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
35975928 TGACGAGATT
* *
35975938 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
35975967 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
35975996 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
35976025 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
35976044 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:35977705 original size:79 final size:79
Alignment explanation
Indices: 35977585--35977925 Score: 508
Period size: 79 Copynumber: 4.3 Consensus size: 79
35977575 TACTCGTTCA
* * **
35977585 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
35977648 ATTTAGTGACTCGCACC
63 ATTTAGTGACTCGCACC
**
35977665 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAAATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
35977730 TAGTGACTCACACC
66 TAGTGACTCGCACC
35977744 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
35977809 TAGTGACTCGCACC
66 TAGTGACTCGCACC
* *
35977823 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCGTCGAATCTTAGTCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* *
35977888 TAGTCACTTAGCA-C
66 TAGTGAC-TCGCACC
*
35977902 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
35977926 CATCATTCGA
Statistics
Matches: 242, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
78 3 0.01
79 209 0.86
80 30 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
TAGTGACTCGCACC
Found at i:35977925 original size:40 final size:40
Alignment explanation
Indices: 35977583--35977925 Score: 396
Period size: 40 Copynumber: 8.7 Consensus size: 40
35977573 GCTACTCGTT
*
35977583 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
35977623 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35977663 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* ** * *
35977702 CAAATGCCTTC-GGATCTTAGTCCAAATTTAGTGACTCACA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
35977742 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35977781 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
35977821 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
35977860 CAAATGCCGTC-GAATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35977901 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35977926 CATCATTCGA
Statistics
Matches: 253, Mismatches: 39, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
38 5 0.02
39 92 0.36
40 138 0.55
41 18 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35980440 original size:27 final size:27
Alignment explanation
Indices: 35980410--35980560 Score: 221
Period size: 27 Copynumber: 5.6 Consensus size: 27
35980400 AGTACTCCCG
*
35980410 ATTTACAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCATTTTACCCTCA
35980437 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCATTTTACCCTCA
35980464 ATTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCATTTTACCCTCA
* * *
35980491 GTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCA
* ** *
35980518 ATTTATAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCA
*
35980545 ATTTACAAAATTACCA
1 ATTTACAGAATTACCA
35980561 AAATACCTCT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCTCA
Found at i:35980567 original size:27 final size:27
Alignment explanation
Indices: 35980389--35980676 Score: 118
Period size: 27 Copynumber: 10.7 Consensus size: 27
35980379 CTCGACTTGT
* *
35980389 AAAATTACTAAAGTACTCC-CGATTTAC
1 AAAATTACCAAAATAC-CCTCGATTTAC
* **** *
35980416 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* *** *
35980443 AGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* ***
35980470 AGAATTACCATTTTACCCTC-AGTTTAC
1 AAAATTACCAAAATACCCTCGA-TTTAC
* * *** *
35980497 AGAATTACTATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTAC
* *****
35980524 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTCGATTTAC
* **
35980551 AAAATTACCAAAATA-CCTCTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTAC
* * *
35980578 AAAACTACCAAAATACCC-CTGGTTTGC
1 AAAATTACCAAAATACCCTC-GATTTAC
* * **
35980605 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTCGATTTAC
* *
35980632 AAAATTACCAAAATACCCAT-GGTTTGC
1 AAAATTACCAAAATACCC-TCGATTTAC
*
35980659 AAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
35980677 CTGTAGGGTA
Statistics
Matches: 226, Mismatches: 28, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.03
27 215 0.95
28 4 0.02
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTAC
Found at i:35980688 original size:54 final size:54
Alignment explanation
Indices: 35980550--35980702 Score: 218
Period size: 54 Copynumber: 2.8 Consensus size: 54
35980540 CCTCGATTTA
* * *
35980550 CAAAATTACCAAAATACCTCTGGTTTGTAAAACTACCAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCATGGTTTG
*
35980604 CAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCATGGTTTG
1 CAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCATGGTTTG
* ** *
35980658 CAAAATTACTAAAATACCCCT-GTAGGGTAAAATTACCGAAATACC
1 CAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACC
35980703 TCTGTAGGGT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 2 0.02
54 87 0.98
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (54 bp):
CAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCATGGTTTG
Found at i:35980689 original size:27 final size:27
Alignment explanation
Indices: 35980551--35980722 Score: 118
Period size: 27 Copynumber: 6.4 Consensus size: 27
35980541 CTCGATTTAC
* **
35980551 AAAATTACCAAAATACCTCTGGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
* ** *
35980578 AAAACTACCAAAATACCCCTGGT-TTGC
1 AAAATTACCAAAATACCCCT-GTAGGGT
* **
35980605 AAAATTACCAAAATACCCTTGGT-TTGT
1 AAAATTACCAAAATACCCCT-GTAGGGT
* ** *
35980632 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCAAAATACCCCT-GTAGGGT
*
35980659 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
* *
35980686 AAAATTACCGAAATACCTCTGTAGGGT
1 AAAATTACCAAAATACCCCTGTAGGGT
*
35980713 AGAATTACCA
1 AAAATTACCA
35980723 TTTTGCCCCT
Statistics
Matches: 126, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
26 2 0.02
27 124 0.98
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGTAGGGT
Found at i:35980690 original size:81 final size:81
Alignment explanation
Indices: 35980551--35980702 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
35980541 CTCGATTTAC
* **
35980551 AAAATTACCAAAATACCTCTGGTTTGTAAAACTACCAAAATACCCCTGGTTTGCAAAATTACCAA
1 AAAATTACCAAAATACCTCTGGTTTGCAAAACTACCAAAATACCCCTGGTGGGCAAAATTACCAA
35980616 AATACCCTTGGTTTGT
66 AATACCCTTGGTTTGT
* * *
35980632 AAAATTACCAAAATACC-CATGGTTTGCAAAATTACTAAAATACCCCT-GTAGGGTAAAATTACC
1 AAAATTACCAAAATACCTC-TGGTTTGCAAAACTACCAAAATACCCCTGGT-GGGCAAAATTACC
*
35980695 GAAATACC
64 AAAATACC
35980703 TCTGTAGGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.05
81 59 0.95
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (81 bp):
AAAATTACCAAAATACCTCTGGTTTGCAAAACTACCAAAATACCCCTGGTGGGCAAAATTACCAA
AATACCCTTGGTTTGT
Found at i:35982963 original size:50 final size:50
Alignment explanation
Indices: 35982881--35983218 Score: 336
Period size: 50 Copynumber: 6.7 Consensus size: 50
35982871 ATCAAATTGG
* * *
35982881 GGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCT
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT
* * * * * *
35982931 GATACACGTAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGCTATCG
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCT
* * * **
35982982 GGTACACATAGTAGCCTGCACTTAGCACTACACATGCAACCTAACAATCT
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT
* * * *
35983032 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCG
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCT
* * * * * * * *
35983083 GGTACGCATAGTAGCCCGCACTAAGTACTACACATGCGACTTAACAATAT
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT
*
35983133 GGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-AACCGTCT
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA---TCT
*** * *
35983185 TAAACACATAGTAGCCTGCACATAGTACTACACA
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACA
35983219 TGTGTTCTCA
Statistics
Matches: 228, Mismatches: 55, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
49 2 0.01
50 118 0.52
51 78 0.34
52 30 0.13
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (50 bp):
GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCT
Found at i:35983012 original size:101 final size:101
Alignment explanation
Indices: 35982880--35983171 Score: 417
Period size: 101 Copynumber: 2.9 Consensus size: 101
35982870 TATCAAATTG
** * *
35982880 GGGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAG
1 GGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACAATCTGGTACACGTAGTAG
*
35982945 CCTGCAGTTAGTACTACACACGTGATCGAAGCTATC
66 CCTGCACTTAGTACTACACACGTGATCGAAGCTATC
*
35982981 GGGTACACATAGTAGCCTGCACTTAGCACT--ACACATGCAACCTAACAATCTGGTACACGTAGT
1 GGGTACACATAGTAGCCTGCACTTAGTACTACACACATG--ACCTAACAATCTGGTACACGTAGT
35983044 AGCCTGCACTTAGTACTACACACGTGATCGAAGCTATC
64 AGCCTGCACTTAGTACTACACACGTGATCGAAGCTATC
* * * *** * * *
35983082 GGGTACGCATAGTAGCCCGCACTAAGTACTACACATGCGACTTAACAATATGGTACATGTAGTAG
1 GGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACAATCTGGTACACGTAGTAG
35983147 CCTGCACTTAGTACTACACACGTGA
66 CCTGCACTTAGTACTACACACGTGA
35983172 CCTAAAACCG
Statistics
Matches: 171, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
99 7 0.04
101 160 0.94
103 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (101 bp):
GGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACAATCTGGTACACGTAGTAG
CCTGCACTTAGTACTACACACGTGATCGAAGCTATC
Found at i:35983155 original size:151 final size:151
Alignment explanation
Indices: 35982881--35983166 Score: 351
Period size: 151 Copynumber: 1.9 Consensus size: 151
35982871 ATCAAATTGG
* * * *
35982881 GGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATCGGATACACATAGTAGC
* * * * * *
35982946 CTGCAGTTAGTACTACACACGTGATCGAAGCTATCGGGTACACATAGTAGCCTGCACTTAGCACT
66 CCGCACTAAGTACTACACACGCGATCGAAGCAATAGGGTACACATAGTAGCCTGCACTTAGCACT
35983011 ACACATGCAACCTAACAATCT
131 ACACATGCAACCTAACAATCT
* * * * *
35983032 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTACGCATAGTAG
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCGAA-CCATCGGATACACATAGTAG
* * * ** *
35983097 CCCGCACTAAGTACTACACATGCGA-CTTAA-CAATATGGTACATGTAGTAGCCTGCACTTAGTA
65 CCCGCACTAAGTACTACACACGCGATC-GAAGCAATAGGGTACACATAGTAGCCTGCACTTAGCA
35983160 CTACACA
129 CTACACA
35983167 CGTGACCTAA
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
151 75 0.67
152 37 0.33
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (151 bp):
GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATCGGATACACATAGTAGC
CCGCACTAAGTACTACACACGCGATCGAAGCAATAGGGTACACATAGTAGCCTGCACTTAGCACT
ACACATGCAACCTAACAATCT
Found at i:35983175 original size:151 final size:151
Alignment explanation
Indices: 35982881--35983218 Score: 349
Period size: 151 Copynumber: 2.2 Consensus size: 151
35982871 ATCAAATTGG
* * * *
35982881 GGTACATGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATCGGATACACATAGTAGC
* * * * * *
35982946 CTGCAGTTAGTACTACACACGTGATCGAAGCTATCGGGTACACATAGTAGCCTGCACTTAGCACT
66 CCGCACTAAGTACTACACACGCGATCGAAGCAATAGGGTACACATAGTAGCCTGCACTTAGCACT
*
35983011 ACACATGCAACCTAACAA-TCT
131 ACACACGCAACCTAA-AACTCT
* * * * *
35983032 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTACGCATAGTAG
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCGAA-CCATCGGATACACATAGTAG
* * * ** *
35983097 CCCGCACTAAGTACTACACATGCGA-CTTAA-CAATATGGTACATGTAGTAGCCTGCACTTAGTA
65 CCCGCACTAAGTACTACACACGCGATC-GAAGCAATAGGGTACACATAGTAGCCTGCACTTAGCA
**
35983160 CTACACACGTGACCTAAAACCGTCT
129 CTACACACGCAACCTAAAA-C-TCT
*** * *
35983185 TAAACACATAGTAGCCTGCACATAGTACTACACA
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACA
35983219 TGTGTTCTCA
Statistics
Matches: 153, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
150 2 0.01
151 82 0.54
152 37 0.24
153 32 0.21
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (151 bp):
GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATCGGATACACATAGTAGC
CCGCACTAAGTACTACACACGCGATCGAAGCAATAGGGTACACATAGTAGCCTGCACTTAGCACT
ACACACGCAACCTAAAACTCT
Found at i:35991482 original size:20 final size:21
Alignment explanation
Indices: 35991459--35991503 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
35991449 TTGGAGTAGT
35991459 TTATAATA-TATTAATTATTA
1 TTATAATATTATTAATTATTA
*
35991479 TTAT-ATATTATTATTTATTA
1 TTATAATATTATTAATTATTA
35991499 TTATA
1 TTATA
35991504 CTAGTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATAATATTATTAATTATTA
Found at i:35991484 original size:17 final size:17
Alignment explanation
Indices: 35991458--35991499 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35991448 ATTGGAGTAG
*
35991458 TTTATAATATATTAATTA
1 TTTATTATATATT-ATTA
35991476 -TTATTATATATTATTA
1 TTTATTATATATTATTA
35991492 TTTATTAT
1 TTTATTAT
35991500 TATACTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTATATATTATTA
Found at i:35991487 original size:10 final size:10
Alignment explanation
Indices: 35991474--35991503 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
35991464 ATATATTAAT
35991474 TATTATTATA
1 TATTATTATA
*
35991484 TATTATTATT
1 TATTATTATA
35991494 TATTATTATA
1 TATTATTATA
35991504 CTAGTTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATTATTATA
Found at i:35991849 original size:44 final size:44
Alignment explanation
Indices: 35991793--35991882 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 44
35991783 TTTGAAATAA
*
35991793 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTATG-ATTT
1 AATAAAAGTTGTGATAATTAAACATTTAAAAATAATTA-GAATTT
35991837 AATAGAAA-TTGTGATAATTAAACATTTAAAAATAATTAGAATTT
1 AATA-AAAGTTGTGATAATTAAACATTTAAAAATAATTAGAATTT
35991881 AA
1 AA
35991883 ATTAAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 39 0.91
45 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTAAACATTTAAAAATAATTAGAATTT
Found at i:35991882 original size:17 final size:18
Alignment explanation
Indices: 35991850--35991883 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35991840 AGAAATTGTG
35991850 ATAATTAAACATTTAAAA
1 ATAATTAAACATTTAAAA
*
35991868 ATAATTAGA-ATTTAAA
1 ATAATTAAACATTTAAA
35991884 TTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTAAACATTTAAAA
Found at i:35996709 original size:28 final size:28
Alignment explanation
Indices: 35996677--35996733 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
35996667 AGTAATGTTC
35996677 TGACAATTACATAATAATCCAAGAAACA
1 TGACAATTACATAATAATCCAAGAAACA
35996705 TGACAATTACATAATAATCCAAGAAACA
1 TGACAATTACATAATAATCCAAGAAACA
35996733 T
1 T
35996734 ACTCATAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.23
Consensus pattern (28 bp):
TGACAATTACATAATAATCCAAGAAACA
Found at i:35999315 original size:12 final size:12
Alignment explanation
Indices: 35999298--35999322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35999288 AAGATGAACA
35999298 ATTTTGTCTTTT
1 ATTTTGTCTTTT
35999310 ATTTTGTCTTTT
1 ATTTTGTCTTTT
35999322 A
1 A
35999323 GTCCATTTAA
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:0.12, C:0.08, G:0.08, T:0.72
Consensus pattern (12 bp):
ATTTTGTCTTTT
Found at i:36000479 original size:21 final size:22
Alignment explanation
Indices: 36000450--36000490 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36000440 TCTACACTGA
*
36000450 AATTTTTAACA-AAAAAATAGG
1 AATTATTAACATAAAAAATAGG
*
36000471 AATTATTAACATAAAGAATA
1 AATTATTAACATAAAAAATA
36000491 TTGTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (22 bp):
AATTATTAACATAAAAAATAGG
Found at i:36002433 original size:22 final size:22
Alignment explanation
Indices: 36002408--36002483 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
36002398 ACATGCATAT
36002408 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
36002430 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
36002454 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
36002477 ATGTGAT
1 ATGTGAT
36002484 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:36002694 original size:47 final size:47
Alignment explanation
Indices: 36002387--36002674 Score: 504
Period size: 47 Copynumber: 6.1 Consensus size: 47
36002377 GATTTTATGA
36002387 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
36002434 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
36002481 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATAT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
36002528 GATGAATGTGAACTTGCATATGTGTGATAAGGTCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
36002575 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* **
36002622 GATGAATGTGAACATGCATATATGTGAAAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
36002669 GATGAA
1 GATGAA
36002675 CGTGGAAGTG
Statistics
Matches: 228, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 228 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:36002707 original size:47 final size:46
Alignment explanation
Indices: 36002387--36002714 Score: 388
Period size: 47 Copynumber: 7.0 Consensus size: 46
36002377 GATTTTATGA
* *
36002387 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGA-AAAGCTGAATGGCCAATGT
* *
36002434 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGA-AAAGCTGAATGGCCAATGT
* * * *
36002481 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATAT
1 GATGAATGTGAACATGCATATATGTGA-AAAGCTGAATGGCCAATGT
* * * *
36002528 GATGAATGTGAACTTGCATATGTGTGATAAGGTCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGAAAAGCT-GAATGGCCAATGT
* *
36002575 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGA-AAAGCTGAATGGCCAATGT
*
36002622 GATGAATGTGAACATGCATATATGTGAAAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGAAAAGCT-GAATGGCCAATGT
* * * ** *
36002669 GATGAACGTGGAA-GTGTATATATGTGGCGAAGCTGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGT-GAAAAGCTGAATGGCCAATG
36002715 CGAAACGTGT
Statistics
Matches: 250, Mismatches: 26, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
46 5 0.02
47 235 0.94
48 10 0.04
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (46 bp):
GATGAATGTGAACATGCATATATGTGAAAAGCTGAATGGCCAATGT
Found at i:36002707 original size:141 final size:141
Alignment explanation
Indices: 36002387--36002714 Score: 446
Period size: 141 Copynumber: 2.3 Consensus size: 141
36002377 GATTTTATGA
* * * * *
36002387 GATGAATGTGAACATGCATATATGTGATAAGGC-CGAATGGCCAATGTGATGAATGTGAACATGC
1 GATGAACGTGAACTTACATATGTGTGAGAA-GCTCGAATGGCCAATGTGATGAATGTGAACATGC
* *
36002451 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGATAAGGCCG
65 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGAAAAGGCAG
36002516 AATGGCCAATAT
130 AATGGCCAATAT
* * * *
36002528 GATGAATGTGAACTTGCATATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACTTACATATGTGTGAGAAGCTCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
36002593 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAAAAGGTAGA
66 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGAAAAGGCAGA
*
36002658 ATGGCCAATGT
131 ATGGCCAATAT
* * * *
36002669 GATGAACGTGGAAGTGTATATATGTG-GCGAAGCT-GAATGGCTAATG
1 GATGAACGT-GAACT-TACATATGTGTGAGAAGCTCGAATGGCCAATG
36002715 CGAAACGTGT
Statistics
Matches: 168, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
140 1 0.01
141 150 0.89
142 9 0.05
143 8 0.05
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
GATGAACGTGAACTTACATATGTGTGAGAAGCTCGAATGGCCAATGTGATGAATGTGAACATGCA
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTGAAAAGGCAGA
ATGGCCAATAT
Found at i:36002810 original size:50 final size:46
Alignment explanation
Indices: 36002698--36002874 Score: 246
Period size: 46 Copynumber: 3.8 Consensus size: 46
36002688 ATATGTGGCG
*
36002698 AAGCTGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* *
36002744 AAGCCGAATGGCTAATGCGGAATGTGTATGAGATGGACGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGAT----GGATATGAGGTA
*
36002794 AAGCCGAATGGTTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
36002840 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
36002875 TGTATATATA
Statistics
Matches: 116, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
46 73 0.63
50 43 0.37
ACGTcount: A:0.34, C:0.09, G:0.33, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:36002813 original size:96 final size:96
Alignment explanation
Indices: 36002698--36002874 Score: 302
Period size: 96 Copynumber: 1.8 Consensus size: 96
36002688 ATATGTGGCG
*
36002698 AAGCTGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAATGGCTAATGCG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAATGGCTAATG-G
*
36002763 GA-ATGTGTATGAGATGGACGGATATGAGGTA
65 GAGATATGTATGAGATGGACGGATATGAGGTA
* *
36002794 AAGCCGAATGGTTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAATGGCTAATGTG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAATGGCTAATGGG
36002859 AGATATGTATGAGATG
66 AGATATGTATGAGATG
36002875 TGTATATATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 2 0.03
96 74 0.97
ACGTcount: A:0.34, C:0.09, G:0.33, T:0.24
Consensus pattern (96 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAATGGCTAATGGG
AGATATGTATGAGATGGACGGATATGAGGTA
Found at i:36005995 original size:13 final size:13
Alignment explanation
Indices: 36005977--36006026 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
36005967 ACCATATATA
*
36005977 AATAATAAATAAT
1 AATAATTAATAAT
36005990 AATAA-TAATAAT
1 AATAATTAATAAT
*
36006002 AGTAATTAATAGA-
1 AATAATTAATA-AT
36006015 AATAATTAATAA
1 AATAATTAATAA
36006027 AACAACAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 11 0.34
13 20 0.62
14 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATAATTAATAAT
Found at i:36006354 original size:14 final size:14
Alignment explanation
Indices: 36006335--36006365 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36006325 ATATATTTAC
*
36006335 ATAATAAATATATA
1 ATAATAAATAAATA
36006349 ATAATAAATAAATA
1 ATAATAAATAAATA
36006363 ATA
1 ATA
36006366 TGATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:36006421 original size:63 final size:63
Alignment explanation
Indices: 36006348--36006485 Score: 162
Period size: 62 Copynumber: 2.3 Consensus size: 63
36006338 ATAAATATAT
* * *
36006348 AATAATAAATAAAT-AATATGATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAATAAA-AAATAAATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAA
* *
36006408 AATAATAAAAAATAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAATAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
*
36006471 AATAA-CAAAAATAAA
1 AATAATAAAAAATAAA
36006486 AAATGGGTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
59 4 0.06
60 20 0.30
61 7 0.10
62 29 0.43
63 7 0.10
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (63 bp):
AATAATAAAAAATAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
Found at i:36012238 original size:11 final size:12
Alignment explanation
Indices: 36012224--36012256 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
36012214 AATTCCCCCA
36012224 AAAAATCCTCT-
1 AAAAATCCTCTC
36012235 AAAAATCCTCTC
1 AAAAATCCTCTC
*
36012247 CAAAATCCTC
1 AAAAATCCTC
36012257 CCCATACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATCCTCTC
Found at i:36012379 original size:37 final size:37
Alignment explanation
Indices: 36012329--36012403 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
36012319 GATGGAGGTA
* *
36012329 GTGGGTGTGATGGAGGTTGTGGACGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
*
36012366 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
36012403 G
1 G
36012404 ATGGAGTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.15, C:0.01, G:0.53, T:0.31
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
Found at i:36012403 original size:29 final size:29
Alignment explanation
Indices: 36012370--36012432 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
36012360 TAGGGTGTGG
36012370 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
*
36012399 GGGTGATGGAGTTAGTGGTCGGTTTAGTA
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
36012428 GGGTG
1 GGGTG
36012433 TTTAATTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 1 0.03
29 31 0.97
ACGTcount: A:0.17, C:0.02, G:0.49, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:36012885 original size:133 final size:133
Alignment explanation
Indices: 36012645--36013352 Score: 1065
Period size: 133 Copynumber: 5.3 Consensus size: 133
36012635 GATCTGCTGT
* ** * ** *
36012645 AATTTGATCTGTTTTACACCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
* * * *
36012710 TGCTCAGTGAAGATAAGGCTGATGACTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATAC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
36012775 ATCAA
129 ACCAA
* * * *
36012780 AATTTGATCTGCTTTGCTCCTGCTTAGCGAAGATAAGATATAGTATATAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * * *
36012845 CTAAGTGAAGATAAGGCTGGTGGTTGAAATCTACTCCATTGCCGATACATAGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
36012910 CAA
131 CAA
*
36012913 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
36012978 CTCAGTGAAGATAAGGCTGGTAGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
36013043 CAA
131 CAA
** *
36013046 AATTTGATCTGCTTCGCTCCTGCTCAGTAAAGATAAGATCTAGTATTTAGCCTGCGCCACTCCTG
1 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* *
36013111 CTCAGTGAAGATAAGGTTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
36013176 CAA
131 CAA
* * *
36013179 AATTTGATCTGCTTCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCTTGCTCCACTCCTA
1 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * * **
36013244 CTCAGTGAAGATAAGGCTGGTGGTTTAAATCTGCTCCATTGCCGATATATGGAGATAAGATTCGT
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
36013309 CAA
131 CAA
* *
36013312 AATTTGATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATCT
1 AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCT
36013353 GTCGAAATTT
Statistics
Matches: 522, Mismatches: 51, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
133 485 0.93
135 37 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (133 bp):
AATTTGATCTGCTTCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
CAA
Found at i:36014726 original size:24 final size:24
Alignment explanation
Indices: 36014699--36014744 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
36014689 CTCTCCTTTG
* * *
36014699 CTTTACTTTTCTTTTTCTTTTTTA
1 CTTTACTCTTATTTTTCCTTTTTA
*
36014723 CTTTTCTCTTATTTTTCCTTTT
1 CTTTACTCTTATTTTTCCTTTT
36014745 CCTTTTTTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.74
Consensus pattern (24 bp):
CTTTACTCTTATTTTTCCTTTTTA
Found at i:36014738 original size:19 final size:19
Alignment explanation
Indices: 36014700--36014738 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36014690 TCTCCTTTGC
*
36014700 TTTACTTTTCTTTTTCTTT
1 TTTACTTTTCTTTATCTTT
36014719 TTTACTTTTCTCTTAT-TTT
1 TTTACTTTTCT-TTATCTTT
36014738 T
1 T
36014739 CCTTTTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTACTTTTCTTTATCTTT
Found at i:36014745 original size:30 final size:30
Alignment explanation
Indices: 36014705--36014765 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
36014695 TTTGCTTTAC
*
36014705 TTTT-CTTTTTCTTTTTTACT-TTTCTCTTAT
1 TTTTCCTTTTCCTTTTTT-CTCTTTC-CTTAT
36014735 TTTTCCTTTTCCTTTTTTCTCTTTCCTTAT
1 TTTTCCTTTTCCTTTTTTCTCTTTCCTTAT
36014765 T
1 T
36014766 CTCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTTCCTTTTCCTTTTTTCTCTTTCCTTAT
Found at i:36017490 original size:19 final size:20
Alignment explanation
Indices: 36017466--36017512 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
36017456 TTTTTTGAAT
* *
36017466 TAATGCACATG-ATGTGATG
1 TAATGCAAATGCATGGGATG
36017485 TAATGCAAATGCATGGGATG
1 TAATGCAAATGCATGGGATG
36017505 -AATGCAAA
1 TAATGCAAA
36017513 AGAAGATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGGGATG
Found at i:36018698 original size:18 final size:18
Alignment explanation
Indices: 36018660--36018698 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36018650 AAATATATTA
* * *
36018660 ATATTATTATATTATATT
1 ATATTATTAAATTAAAAT
36018678 ATATTATTAAATTAAAAT
1 ATATTATTAAATTAAAAT
36018696 ATA
1 ATA
36018699 AAGTAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTATTAAATTAAAAT
Found at i:36018795 original size:14 final size:15
Alignment explanation
Indices: 36018773--36018817 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
36018763 GAAATAGGGG
36018773 AGAAAAAAGGAGAAA
1 AGAAAAAAGGAGAAA
*
36018788 AG-AAAAAGGA-TAA
1 AGAAAAAAGGAGAAA
36018801 AGAAAAGAAGGAGAAA
1 AGAAAA-AAGGAGAAA
36018817 A
1 A
36018818 TTAGGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 4 0.16
14 11 0.44
15 7 0.28
16 3 0.12
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (15 bp):
AGAAAAAAGGAGAAA
Found at i:36022253 original size:48 final size:47
Alignment explanation
Indices: 36022182--36022454 Score: 228
Period size: 48 Copynumber: 5.7 Consensus size: 47
36022172 AGGGTAAACT
* * *
36022182 GCCGAGGCCATGTCCTAGACATGGTCTTACACTTGCTTACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATGTCGAG
* *
36022230 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATGTCGAG
* * * * *
36022278 GCTGATGCCATGTCCCAGACATGGTGTTACACTGGC-TCTTGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATG--TCGAG
* * * * * * ** *
36022326 ACCAATGCCATGTTCCAAACATGGTCTTACTCTTGCTTTCATAAC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATGTCGA-G
* * * * * *
36022374 GCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCTC-TTTATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATGT-CGAG
36022422 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
36022455 AGTACACATA
Statistics
Matches: 181, Mismatches: 35, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 172 0.95
50 3 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATGTCGAG
Done.