Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 34 of 221
Found at i:9336781 original size:16 final size:17
Alignment explanation
Indices: 9336742--9336782 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9336732 ATATTAAAAA
9336742 TATAATTTTATTATTTC
1 TATAATTTTATTATTTC
* *
9336759 AAT-ATTTTA-TATTTT
1 TATAATTTTATTATTTC
9336774 TATAATTTT
1 TATAATTTT
9336783 TAAAAGATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATAATTTTATTATTTC
Found at i:9338225 original size:4 final size:4
Alignment explanation
Indices: 9338216--9338245 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
9338206 CAGAAGGGAA
9338216 AAAG AAAG AAA- AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
9338246 AGGAGCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:9338228 original size:11 final size:11
Alignment explanation
Indices: 9338214--9338245 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
9338204 AACAGAAGGG
9338214 AAAAAGAAAGA
1 AAAAAGAAAGA
9338225 AAAAAGAAAGA
1 AAAAAGAAAGA
9338236 AAGAAAGAAA
1 AA-AAAGAAA
9338246 AGGAGCAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:9338955 original size:15 final size:15
Alignment explanation
Indices: 9338935--9338984 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
9338925 TGATAAATTT
9338935 ATTGAATTTATATTG
1 ATTGAATTTATATTG
9338950 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
9338967 ATTGAATATATATTG
1 ATTGAATTTATATTG
9338982 ATT
1 ATT
9338985 ATTTGAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:9340931 original size:42 final size:42
Alignment explanation
Indices: 9340824--9340931 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
9340814 TACACCGACT
* * * *
9340824 TTAAGCTTGCTAGACTTATAGTCCGAATTTATTTCGCCGGCA
1 TTAAGCCTGCTAGACATAAAGTCTGAATTTATTTCGCCGGCA
9340866 TTAAGCCTGCTAGACATAAAGTCTGAATTTATTT-GACCGGCA
1 TTAAGCCTGCTAGACATAAAGTCTGAATTTATTTCG-CCGGCA
*
9340908 TTAAGCCTGCTAGACGTAAAGTCT
1 TTAAGCCTGCTAGACATAAAGTCT
9340932 AAATGGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (42 bp):
TTAAGCCTGCTAGACATAAAGTCTGAATTTATTTCGCCGGCA
Found at i:9352798 original size:51 final size:51
Alignment explanation
Indices: 9352712--9353104 Score: 401
Period size: 51 Copynumber: 7.7 Consensus size: 51
9352702 TATCGATGAA
*
9352712 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
* * * * * * * *
9352763 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT--TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATAATT-GT
* * * *
9352814 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
* * * *
9352865 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAATT-GT
* *
9352916 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAA-TTG-T
* *
9352967 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCATAAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAA-TTG-T
* * *
9353018 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTG-T
* *
9353068 CACATGTGTAGTACTATGTGGAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
9353105 TGAATGATAA
Statistics
Matches: 288, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
50 48 0.17
51 236 0.82
52 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGT
Found at i:9352888 original size:102 final size:101
Alignment explanation
Indices: 9352712--9353103 Score: 486
Period size: 102 Copynumber: 3.9 Consensus size: 101
9352702 TATCGATGAA
* * * *
9352712 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTG-TCACATGTCTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAATAA-TGATCACATGTGTAGTA
* *
9352776 CTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
64 CTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * *
9352814 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAATAATGATCACATGTGTAGTAC
* *
9352879 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
65 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
*
9352916 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-AACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATAA--TGATCACATGTGTAGTA
* * * * * *
9352980 CTATGTGAAGGCTACTACGTGAACCATAAAAAC-TTGAT
64 CTAAGTGAAGGCTACTATGTGTACC-GAAAAGCTTTGGT
*
9353018 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-ACTTGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATA-ATGATCACATGTGTAGTAC
* * *
9353082 TATGTGGAGGCTACTACGTGTA
65 TAAGTGAAGGCTACTATGTGTA
9353104 TTGAATGATA
Statistics
Matches: 261, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
100 1 0.00
101 43 0.16
102 213 0.82
103 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATAATGATCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:9352971 original size:153 final size:151
Alignment explanation
Indices: 9352716--9353101 Score: 465
Period size: 153 Copynumber: 2.5 Consensus size: 151
9352706 GATGAACACG
* * *
9352716 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTCACATGTCTAGTACTAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAAT-ATTGGTCACATGTGTAGTACTAT
* * * * * * *
9352780 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTAC
64 GTGAAGGCTACTACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
* * *
9352845 GTGAATCGATAAATGA-TGGTCACA
129 GTGAA-CCATAAA-AACTGATCACA
* * * *
9352869 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGTCACGTGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA-TATTGGTCACATGTGTAGTACTATG
9352934 TGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
65 TGAAGGCTACTACGTGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTAC
*
9352998 GTGAACCATAAAAACTTGATCACG
129 GTGAACCATAAAAAC-TGATCACA
* * * *
9353022 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-CTTGATCACATGTGTAGTACTATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAATATTGGTCACATGTGTAGTACTATG
*
9353086 TGGAGGCTACTACGTG
65 TGAAGGCTACTACGTG
9353102 TATTGAATGA
Statistics
Matches: 201, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
151 1 0.00
152 47 0.23
153 145 0.72
154 8 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATATTGGTCACATGTGTAGTACTATGT
GAAGGCTACTACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGT
GAACCATAAAAACTGATCACA
Found at i:9360410 original size:20 final size:20
Alignment explanation
Indices: 9360382--9360424 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9360372 GGGTTATGGG
9360382 CACGAGCGTGTAGAGGGCCA
1 CACGAGCGTGTAGAGGGCCA
* *
9360402 CACGGGCGTGTGGAGGGCCA
1 CACGAGCGTGTAGAGGGCCA
9360422 CAC
1 CAC
9360425 TGGAATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.42, T:0.09
Consensus pattern (20 bp):
CACGAGCGTGTAGAGGGCCA
Found at i:9360433 original size:20 final size:20
Alignment explanation
Indices: 9360394--9360435 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9360384 CGAGCGTGTA
**
9360394 GAGGGCCACACGGGCGTGTG
1 GAGGGCCACACGGGAATGTG
*
9360414 GAGGGCCACACTGGAATGTG
1 GAGGGCCACACGGGAATGTG
9360434 GA
1 GA
9360436 ATAGTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.45, T:0.12
Consensus pattern (20 bp):
GAGGGCCACACGGGAATGTG
Found at i:9371948 original size:21 final size:21
Alignment explanation
Indices: 9371909--9371948 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9371899 GAGCTATCAT
**
9371909 ACATGGACGTGTGGGATTTCC
1 ACATGGACGTGTGCAATTTCC
*
9371930 ACATGGGCGTGTGCAATTT
1 ACATGGACGTGTGCAATTT
9371949 GCTTAAAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (21 bp):
ACATGGACGTGTGCAATTTCC
Found at i:9375256 original size:29 final size:28
Alignment explanation
Indices: 9375205--9375260 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
9375195 TTGATAAAAA
*
9375205 TGTAAATTAAGGATTAAATTGTGAAATG
1 TGTAAATTAAGGATTAAAATGTGAAATG
9375233 TGTAAATTGAATGG-TTAAAATGTGAAAT
1 TGTAAATT-AA-GGATTAAAATGTGAAAT
9375261 AAATGCAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 15 0.60
30 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (28 bp):
TGTAAATTAAGGATTAAAATGTGAAATG
Found at i:9375809 original size:31 final size:31
Alignment explanation
Indices: 9375774--9375866 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 31
9375764 AAATAATTTT
9375774 TATATGGTTATTCATTGTTGAAATTGAATTG
1 TATATGGTTATTCATTGTTGAAATTGAATTG
* *
9375805 TATAT-G-TATATAAGCTGTTGAAA-TG-ATTCG
1 TATATGGTTAT-TCA-TTGTTGAAATTGAATT-G
* *
9375835 TATATGGTTCA-ACATTGTTGAAATTAAATTG
1 TATATGGTT-ATTCATTGTTGAAATTGAATTG
9375866 T
1 T
9375867 TCATGAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
29 6 0.12
30 19 0.40
31 18 0.38
32 4 0.08
33 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.44
Consensus pattern (31 bp):
TATATGGTTATTCATTGTTGAAATTGAATTG
Found at i:9375849 original size:92 final size:91
Alignment explanation
Indices: 9375687--9375857 Score: 261
Period size: 92 Copynumber: 1.9 Consensus size: 91
9375677 GAATTGTTTT
* *
9375687 TGGTTATACATTGTTGATATTGAATTGTATATTACATAAGTTGCCGAAATGATTCGTATATGGTT
1 TGGTTATACATTGTTGAAATTGAATTGTATATTACATAAGCTGCCGAAATGATTCGTATATGGTT
*
9375752 GAACATTGCTGAAAATAATTTTTATA
66 CAACATTGCTGAAAATAATTTTTATA
* * **
9375778 TGGTTATTCATTGTTGAAATTGAATTGTATATGTATATAAGCTGTTGAAATGATTCGTATATGGT
1 TGGTTATACATTGTTGAAATTGAATTGTATAT-TACATAAGCTGCCGAAATGATTCGTATATGGT
*
9375843 TCAACATTGTTGAAA
65 TCAACATTGCTGAAA
9375858 TTAAATTGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 30 0.42
92 41 0.58
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (91 bp):
TGGTTATACATTGTTGAAATTGAATTGTATATTACATAAGCTGCCGAAATGATTCGTATATGGTT
CAACATTGCTGAAAATAATTTTTATA
Found at i:9375974 original size:61 final size:63
Alignment explanation
Indices: 9375889--9376020 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 63
9375879 GATGCTGAAT
* * *
9375889 TTGATTTGTATATGATTATACATTGCCAAAT-TAGATTCTTATATG-GT-TATATATTGCCGAA
1 TTGATTGGTATATGATTATACATTGCCAAATCT-GATTCGTATATGAATATATATATTGCCGAA
* * * * *
9375950 TTGCTTGGTATATCGA-TATTCATTGTCGAATCTGATTCGTATATGAATATATATATTGCTGAA
1 TTGATTGGTATAT-GATTATACATTGCCAAATCTGATTCGTATATGAATATATATATTGCCGAA
9376013 TTGATTGG
1 TTGATTGG
9376021 AGCATTAGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
61 34 0.59
62 4 0.07
63 20 0.34
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (63 bp):
TTGATTGGTATATGATTATACATTGCCAAATCTGATTCGTATATGAATATATATATTGCCGAA
Found at i:9387084 original size:2 final size:2
Alignment explanation
Indices: 9387077--9387113 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9387067 CTTCACTGAG
9387077 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9387114 CCATTTCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9391824 original size:14 final size:14
Alignment explanation
Indices: 9391807--9391856 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
9391797 TGGATTAAAG
9391807 CTTAATTAAATTAA
1 CTTAATTAAATTAA
*
9391821 CTTAATTAACATAAA
1 CTTAATTAA-ATTAA
* *
9391836 CATAATTTAATTAA
1 CTTAATTAAATTAA
9391850 CTTAATT
1 CTTAATT
9391857 CAACATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (14 bp):
CTTAATTAAATTAA
Found at i:9395190 original size:26 final size:27
Alignment explanation
Indices: 9395139--9395190 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
9395129 ATGGTGACAG
9395139 TTTTTATGGTGACTTTCTCTAGATACAA
1 TTTTTATGGTGAC-TTCTCTAGATACAA
9395167 TTTTTATGGTGAC-TCTCTAGATAC
1 TTTTTATGGTGACTTCTCTAGATAC
9395191 CAGGTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 11 0.46
28 13 0.54
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (27 bp):
TTTTTATGGTGACTTCTCTAGATACAA
Found at i:9395366 original size:9 final size:9
Alignment explanation
Indices: 9395354--9395380 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9395344 TAATTAAACT
9395354 CTTTAATTA
1 CTTTAATTA
9395363 CTTTAATTA
1 CTTTAATTA
9395372 CTTTAATTA
1 CTTTAATTA
9395381 ATTCTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
CTTTAATTA
Found at i:9395480 original size:22 final size:24
Alignment explanation
Indices: 9395434--9395480 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
9395424 GGTCAAATCT
9395434 CTGATTCAATTAAGTCTATAAACTCA
1 CTGATTCAATTAA--CTATAAACTCA
9395460 CTGATTCAATTAA-T-TAAACTC
1 CTGATTCAATTAACTATAAACTC
9395481 TCTTGATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
26 13 0.62
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (24 bp):
CTGATTCAATTAACTATAAACTCA
Found at i:9418896 original size:30 final size:30
Alignment explanation
Indices: 9418852--9418908 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9418842 CATGGGCTGG
* *
9418852 CACATGGGCATGTGTCCATCCCATGTGTAT
1 CACATGAGCATGTGTCCAGCCCATGTGTAT
* *
9418882 CACATGAGCGTGTGTCTAGCCCATGTG
1 CACATGAGCATGTGTCCAGCCCATGTG
9418909 GCTCTTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (30 bp):
CACATGAGCATGTGTCCAGCCCATGTGTAT
Found at i:9420730 original size:6 final size:6
Alignment explanation
Indices: 9420719--9420784 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
9420709 CAAGTCTAAG
* * *
9420719 AAAATA AAAATAA AACAACTA AAAATA AAAATA AACATA AACATA AAAAGA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
9420770 AAAAGA GAAATA AAA
1 AAAATA AAAATA AAA
9420785 CAAATAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
6 40 0.78
7 5 0.10
8 5 0.10
9 1 0.02
ACGTcount: A:0.77, C:0.06, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:9426155 original size:6 final size:6
Alignment explanation
Indices: 9426146--9426182 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
9426136 AATTATAATG
9426146 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TATAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA
9426183 AATGGCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:9435428 original size:26 final size:26
Alignment explanation
Indices: 9435392--9435444 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9435382 TGGAGGACCC
9435392 TATCTCGATGTTCTACTCTTAATGTT
1 TATCTCGATGTTCTACTCTTAATGTT
*
9435418 TATCTCGATGTTTTACTCTTAATGTT
1 TATCTCGATGTTCTACTCTTAATGTT
9435444 T
1 T
9435445 GTTATTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (26 bp):
TATCTCGATGTTCTACTCTTAATGTT
Found at i:9435444 original size:14 final size:14
Alignment explanation
Indices: 9435399--9435444 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
9435389 CCCTATCTCG
*
9435399 ATGTTCTACTCTTA
1 ATGTTTTACTCTTA
**
9435413 ATG-TTTA-TCTCG
1 ATGTTTTACTCTTA
9435425 ATGTTTTACTCTTA
1 ATGTTTTACTCTTA
9435439 ATGTTT
1 ATGTTT
9435445 GTTATTTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 12 0.48
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (14 bp):
ATGTTTTACTCTTA
Found at i:9446987 original size:26 final size:25
Alignment explanation
Indices: 9446939--9446996 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
9446929 ATCGCTCCAA
*
9446939 GAAAGAGAAAATTCTTGAAAGAAATC
1 GAAAGAGAAAATTCTTG-AAGAAAAC
9446965 GAAAGAGAAATATTCTCTG-AGAAAAC
1 GAAAGAGAAA-ATTCT-TGAAGAAAAC
9446991 GAAAGA
1 GAAAGA
9446997 AGAAGAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 22 0.76
27 5 0.17
28 2 0.07
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.17
Consensus pattern (25 bp):
GAAAGAGAAAATTCTTGAAGAAAAC
Found at i:9447700 original size:3 final size:3
Alignment explanation
Indices: 9447692--9447718 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9447682 GAGCAGAGCA
9447692 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
9447719 ACGGTTTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:9450353 original size:13 final size:13
Alignment explanation
Indices: 9450337--9450370 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9450327 CTGTAATTAG
9450337 TTTAAATTTTAAT
1 TTTAAATTTTAAT
*
9450350 TTT-AATTTTATT
1 TTTAAATTTTAAT
9450362 TTTAAATTT
1 TTTAAATTT
9450371 AGAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAAATTTTAAT
Found at i:9453017 original size:24 final size:24
Alignment explanation
Indices: 9452998--9453050 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
9452988 CTTAATATTT
9452998 AAGTAAATATATAATATAATAATA
1 AAGTAAATATATAATATAATAATA
*
9453022 AAGTAAATATAATAAAATAAATAAGTA
1 AAGTAAATAT-ATAATAT-AATAA-TA
9453049 AA
1 AA
9453051 TGAAATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 6 0.24
26 5 0.20
27 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (24 bp):
AAGTAAATATATAATATAATAATA
Found at i:9453034 original size:22 final size:22
Alignment explanation
Indices: 9452997--9453059 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
9452987 ACTTAATATT
*
9452997 TAAGTAAATAT-ATAATATAATAA
1 TAAGTAAATATAATAAAAT-A-AA
9453020 TAAAGTAAATATAATAAAATAAA
1 T-AAGTAAATATAATAAAATAAA
9453043 TAAGTAAATGA-AATAAA
1 TAAGTAAAT-ATAATAAA
9453060 GAAAGAAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 14 0.39
23 5 0.14
24 11 0.31
25 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
TAAGTAAATATAATAAAATAAA
Found at i:9453063 original size:8 final size:8
Alignment explanation
Indices: 9453036--9453108 Score: 55
Period size: 8 Copynumber: 9.4 Consensus size: 8
9453026 AAATATAATA
*
9453036 AAATAAAT
1 AAATAAAG
*
9453044 AAGTAAATG
1 AAATAAA-G
9453053 AAATAAAG
1 AAATAAAG
*
9453061 AAAGAAAG
1 AAATAAAG
9453069 AAAATAAA-
1 -AAATAAAG
9453077 AAA-AAAG
1 AAATAAAG
*
9453084 AAAGAAAG
1 AAATAAAG
9453092 -AA-AAAG
1 AAATAAAG
*
9453098 AAAGAAAG
1 AAATAAAG
9453106 AAA
1 AAA
9453109 AGAAAAAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
6 7 0.13
7 10 0.19
8 25 0.46
9 12 0.22
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
AAATAAAG
Found at i:9453064 original size:4 final size:4
Alignment explanation
Indices: 9453052--9453113 Score: 60
Period size: 4 Copynumber: 16.0 Consensus size: 4
9453042 ATAAGTAAAT
* *
9453052 GAAA TAAA GAAA GAAA GAAA -ATAA -AAA AAAA GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA
9453097 GAAA GAAA GAAAA GAAA
1 GAAA GAAA G-AAA GAAA
9453114 AAGGAAGGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
3 7 0.14
4 39 0.78
5 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:9453083 original size:23 final size:22
Alignment explanation
Indices: 9453057--9453113 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
9453047 TAAATGAAAT
9453057 AAAGAAAGAAAGAAAATAAAAAA
1 AAAGAAAGAAAGAAAA-AAAAAA
* *
9453080 AAAGAAAGAAAGAAAAAGAAAG
1 AAAGAAAGAAAGAAAAAAAAAA
9453102 AAAGAAAAGAAA
1 AAAG-AAAGAAA
9453114 AAGGAAGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (22 bp):
AAAGAAAGAAAGAAAAAAAAAA
Found at i:9453097 original size:14 final size:14
Alignment explanation
Indices: 9453057--9453113 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
9453047 TAAATGAAAT
*
9453057 AAAGAAAGAAAGA-
1 AAAGAAAGAAAAAG
* *
9453070 AAATAAAAAAAAAG
1 AAAGAAAGAAAAAG
9453084 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
9453098 AAAGAAAG-AAAAG
1 AAAGAAAGAAAAAG
9453111 AAA
1 AAA
9453114 AAGGAAGGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
13 18 0.47
14 20 0.53
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:9453116 original size:19 final size:19
Alignment explanation
Indices: 9453057--9453116 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
9453047 TAAATGAAAT
*
9453057 AAAGAAAGAAAGAAAATAA
1 AAAGAAAGAAAGAAAAGAA
*
9453076 AAAAAAAGAAAG-AAAGAA
1 AAAGAAAGAAAGAAAAGAA
9453094 AAAGAAAGAAAGAAAAGAA
1 AAAGAAAGAAAGAAAAGAA
9453113 AAAG
1 AAAG
9453117 GAAGGAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 16 0.43
19 21 0.57
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAGAAAGAAAGAAAAGAA
Found at i:9453816 original size:24 final size:24
Alignment explanation
Indices: 9453789--9453835 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9453779 ATTGAAATGG
9453789 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
9453813 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
9453836 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:9454037 original size:41 final size:38
Alignment explanation
Indices: 9453991--9454123 Score: 110
Period size: 37 Copynumber: 3.4 Consensus size: 38
9453981 CGACTTCGAG
9453991 TCGATGAGACACTGTGTGTCAATTTACTACTTCGAATTAAT
1 TCGATGAGACACTG-GTGTCAATTTA-TACTTCGAATT-AT
* * * * *
9454032 TCGATGAGGCATTGGGTGCCAA-TT-TACTTCG-GTTGAG
1 TCGATGAGACACT-GGTGTCAATTTATACTTCGAATT-AT
*
9454069 TCGATGAGACACTAGGTGTCAATTTATTACTTTGAATTAT
1 TCGATGAGACACT-GGTGTCAATTTA-TACTTCGAATTAT
* *
9454109 CCGATGAGGCACTGG
1 TCGATGAGACACTGG
9454124 ATGCCAAACT
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
37 21 0.29
38 9 0.12
39 2 0.03
40 20 0.28
41 19 0.26
42 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (38 bp):
TCGATGAGACACTGGTGTCAATTTATACTTCGAATTAT
Found at i:9454092 original size:37 final size:37
Alignment explanation
Indices: 9453974--9454094 Score: 102
Period size: 37 Copynumber: 3.1 Consensus size: 37
9453964 GAGTTCAGAG
*
9453974 ATTT-CTTCGACTTCGAGTCGATGAGACACTGTGTGTCA
1 ATTTACTTCGAATT-GAGTCGATGAGACACTG-GTGTCA
* * * * *
9454012 ATTTACTACTTCGAATTAATTCGATGAGGCATTGGGTGCCA
1 A-TT--TACTTCGAATTGAGTCGATGAGACACT-GGTGTCA
*
9454053 ATTTACTTCG-GTTGAGTCGATGAGACACTAGGTGTCA
1 ATTTACTTCGAATTGAGTCGATGAGACACT-GGTGTCA
9454090 ATTTA
1 ATTTA
9454095 TTACTTTGAA
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
37 25 0.38
38 8 0.12
39 2 0.03
40 2 0.03
41 19 0.29
42 9 0.14
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (37 bp):
ATTTACTTCGAATTGAGTCGATGAGACACTGGTGTCA
Found at i:9456965 original size:18 final size:18
Alignment explanation
Indices: 9456939--9456993 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
9456929 TAGTTTATGG
9456939 TAATTCTTTCAATGAATC
1 TAATTCTTTCAATGAATC
*
9456957 TATTTCTTTCAATGAATC
1 TAATTCTTTCAATGAATC
9456975 TAATTCTTTCAATGAATC
1 TAATTCTTTCAATGAATC
9456993 T
1 T
9456994 TTATCAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.47
Consensus pattern (18 bp):
TAATTCTTTCAATGAATC
Found at i:9459177 original size:5 final size:5
Alignment explanation
Indices: 9459167--9459199 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
9459157 GCAACCTACA
9459167 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9459200 GAATTCTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:9461430 original size:19 final size:20
Alignment explanation
Indices: 9461408--9461481 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 20
9461398 ATATAATATA
9461408 TTAAA-ATGTTAAAATAAAT
1 TTAAATATGTTAAAATAAAT
** *
9461427 TTAAATAAATTAACA-AAAT
1 TTAAATATGTTAAAATAAAT
* * *
9461446 TGAAATAGGTTGAAATAAA-
1 TTAAATATGTTAAAATAAAT
*
9461465 TTAAAGATGTTAAAATA
1 TTAAATATGTTAAAATA
9461482 TTTGAAAGAG
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 32 0.78
20 9 0.22
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.32
Consensus pattern (20 bp):
TTAAATATGTTAAAATAAAT
Found at i:9461480 original size:29 final size:28
Alignment explanation
Indices: 9461402--9461481 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
9461392 AAATAAATAT
* *
9461402 AATATATTAAAATGTTAAAATAAATTTA
1 AATAAATTAAAATGTTAAAATAAATTGA
** * **
9461430 AATAAATTAACAAAATTGAAATAGGTTGA
1 AATAAATTAA-AATGTTAAAATAAATTGA
9461459 AATAAATTAAAGATGTTAAAATA
1 AATAAATTAAA-ATGTTAAAATA
9461482 TTTGAAAGAG
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
28 10 0.25
29 30 0.75
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (28 bp):
AATAAATTAAAATGTTAAAATAAATTGA
Found at i:9461596 original size:13 final size:13
Alignment explanation
Indices: 9461578--9461609 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9461568 ATATGTATAC
*
9461578 ATATAATATTATT
1 ATATAATAGTATT
9461591 ATATAATAGTATT
1 ATATAATAGTATT
9461604 ATATAA
1 ATATAA
9461610 AAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
ATATAATAGTATT
Found at i:9461985 original size:3 final size:3
Alignment explanation
Indices: 9461973--9462003 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9461963 ATCAACAATT
*
9461973 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9462004 GCACAGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9463548 original size:23 final size:23
Alignment explanation
Indices: 9463522--9463573 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
9463512 TAATTTTTAA
9463522 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
9463545 ATTTAAAATTATTTATTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
9463568 ATTTAG
1 ATTTAG
9463574 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:9466624 original size:20 final size:18
Alignment explanation
Indices: 9466581--9466629 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
9466571 TAATATTACT
9466581 ATATTATTAATAAAATTTA
1 ATATT-TTAATAAAATTTA
*
9466600 TTATTTTAATAAATGATTTA
1 ATATTTTAATAAA--ATTTA
*
9466620 ATATTGTAAT
1 ATATTTTAAT
9466630 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
ATATTTTAATAAAATTTA
Found at i:9466880 original size:17 final size:18
Alignment explanation
Indices: 9466858--9466892 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
9466848 TTATAAAAAA
9466858 AATATAAATAT-TTTAAT
1 AATATAAATATGTTTAAT
9466875 AATATAAATATGTTTAAT
1 AATATAAATATGTTTAAT
9466893 TTATGCATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AATATAAATATGTTTAAT
Found at i:9467296 original size:14 final size:14
Alignment explanation
Indices: 9467274--9467307 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9467264 AATAGAAAAC
*
9467274 TTTTCATCACTTTT
1 TTTTTATCACTTTT
9467288 TTTTTATCACTTTT
1 TTTTTATCACTTTT
*
9467302 TCTTTA
1 TTTTTA
9467308 GCCTCCGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTATCACTTTT
Found at i:9476809 original size:17 final size:17
Alignment explanation
Indices: 9476787--9476821 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9476777 ATCTCGGGAA
9476787 TTAATAAAAGATCGTGT
1 TTAATAAAAGATCGTGT
9476804 TTAATAAAAGATCGTGT
1 TTAATAAAAGATCGTGT
9476821 T
1 T
9476822 CTAACTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (17 bp):
TTAATAAAAGATCGTGT
Found at i:9478983 original size:12 final size:12
Alignment explanation
Indices: 9478966--9478990 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9478956 GAAAAGCAAC
9478966 ACCAAAGCTACA
1 ACCAAAGCTACA
9478978 ACCAAAGCTACA
1 ACCAAAGCTACA
9478990 A
1 A
9478991 ATTAGACAAA
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:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
ACCAAAGCTACA
Found at i:9480652 original size:11 final size:11
Alignment explanation
Indices: 9480613--9480653 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9480603 ACAGTAACAA
9480613 CAAAATAGTAG
1 CAAAATAGTAG
* *
9480624 CAACATAATAG
1 CAAAATAGTAG
*
9480635 TAAAATAGTAG
1 CAAAATAGTAG
9480646 CAAAATAG
1 CAAAATAG
9480654 AAAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:9480661 original size:22 final size:22
Alignment explanation
Indices: 9480614--9480663 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
9480604 CAGTAACAAC
* *
9480614 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAAAGT
9480636 AAAATAGTAGCAAAATAGAAAG-
1 AAAATAGTAGCAAAATA-AAAGT
9480658 AAAATA
1 AAAATA
9480664 ATATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.14, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAAAGT
Found at i:9491232 original size:20 final size:20
Alignment explanation
Indices: 9491186--9491224 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9491176 CACTAAGGAG
*
9491186 GGGTGAGCTATACGAGCTCT
1 GGGTGAGCTACACGAGCTCT
9491206 GGGTGAGCTACACGAGCTC
1 GGGTGAGCTACACGAGCTC
9491225 GGCGTGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.36, T:0.21
Consensus pattern (20 bp):
GGGTGAGCTACACGAGCTCT
Found at i:9494693 original size:50 final size:48
Alignment explanation
Indices: 9494598--9494786 Score: 153
Period size: 51 Copynumber: 3.8 Consensus size: 48
9494588 AAAGTGAAAG
* **
9494598 TGATGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCATACC-GAA
* *
9494647 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGAA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCATACCGAA
* * * * *** * *
9494696 TAGTTTCGATCACGTGTGTAGTACAATGTGCAGGCTACTACATGTATCGTA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCATACCGAA
* * *
9494747 TGGTAATGGCCACATGTGTAGTACTATGTACAAGCTACTA
1 T-G--ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
9494787 TGTGAACCGA
Statistics
Matches: 110, Mismatches: 26, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
49 8 0.07
50 37 0.34
51 64 0.58
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (48 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCATACCGAA
Found at i:9494731 original size:101 final size:102
Alignment explanation
Indices: 9494604--9494788 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 102
9494594 AAAGTGATGG
* * * * *
9494604 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACAATGTGCAGGCTACTACATGTACC-GAATGATAATGGCCACATGTGTAGT
* *
9494667 ACTATGTGCAGGCTACTATGCATACCGAATAGTTTCGA
65 ACTATGTACAAGCTACTATGCATACCGAATAGTTTCGA
* * * *
9494705 TCACGTGTGTAGTACAATGTGCAGGCTACTACATGTATCGTATGGTAATGGCCACATGTGTAGTA
1 TCACATGTGTAGTACAATGTGCAGGCTACTACATGTACCGAATGATAATGGCCACATGTGTAGTA
9494770 CTATGTACAAGCTACTATG
66 CTATGTACAAGCTACTATG
9494789 TGAACCGAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
100 5 0.07
101 35 0.49
102 31 0.44
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACAATGTGCAGGCTACTACATGTACCGAATGATAATGGCCACATGTGTAGTA
CTATGTACAAGCTACTATGCATACCGAATAGTTTCGA
Found at i:9494848 original size:45 final size:45
Alignment explanation
Indices: 9494792--9494886 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
9494782 TACTATGTGA
* *
9494792 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
9494837 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
9494882 ACCGA
1 ACCGA
9494887 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:9498763 original size:22 final size:21
Alignment explanation
Indices: 9498738--9498788 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9498728 GGCACACACT
*
9498738 CGTGTGAAATGAGGCACATGGC
1 CGTGTGAAATAAGG-ACATGGC
**
9498760 CGTGTGACCTAAGGACATGGC
1 CGTGTGAAATAAGGACATGGC
*
9498781 TGTGTGAA
1 CGTGTGAA
9498789 CAAGCCGTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (21 bp):
CGTGTGAAATAAGGACATGGC
Found at i:9500442 original size:3 final size:3
Alignment explanation
Indices: 9500434--9500494 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
9500424 TATAAAAATG
* * * * *
9500434 ATA ATA ATA ATA TTA ACA AGA ATA ATA ATA TTA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
9500482 ATA A-A AAA ATA AT
1 ATA ATA ATA ATA AT
9500495 GGTATAACAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9508101 original size:12 final size:12
Alignment explanation
Indices: 9508084--9508108 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9508074 TGTGTATTTC
9508084 ATTAATTTTATA
1 ATTAATTTTATA
9508096 ATTAATTTTATA
1 ATTAATTTTATA
9508108 A
1 A
9508109 ATTATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTAATTTTATA
Found at i:9508341 original size:15 final size:15
Alignment explanation
Indices: 9508321--9508351 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9508311 AATTTTAAAA
9508321 TATTTTTTATAAATT
1 TATTTTTTATAAATT
*
9508336 TATTTTTTATATATT
1 TATTTTTTATAAATT
9508351 T
1 T
9508352 TTTCCATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTTATAAATT
Found at i:9511219 original size:27 final size:28
Alignment explanation
Indices: 9511184--9511250 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
9511174 AATTTATCAA
9511184 AATTA-ATTATAAAATTAATTAAAATTC
1 AATTATATTATAAAATTAATTAAAATTC
* **
9511211 AA-TATATTA-ATAATTTAATTTCAATTC
1 AATTATATTATA-AAATTAATTAAAATTC
*
9511238 AATTATTTTATAA
1 AATTATATTATAA
9511251 TTATTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
26 3 0.09
27 21 0.66
28 7 0.22
29 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTATATTATAAAATTAATTAAAATTC
Found at i:9514833 original size:19 final size:20
Alignment explanation
Indices: 9514809--9514850 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
9514799 TTCGACCAGT
9514809 TTTTGGG-TCTT-GGTCTCAA
1 TTTTGGGCTCTTGGGTC-CAA
9514828 TTTTGGGCTCTTGGGTCCAA
1 TTTTGGGCTCTTGGGTCCAA
9514848 TTT
1 TTT
9514851 ACGATCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.10, C:0.17, G:0.26, T:0.48
Consensus pattern (20 bp):
TTTTGGGCTCTTGGGTCCAA
Found at i:9521959 original size:51 final size:51
Alignment explanation
Indices: 9521878--9522195 Score: 487
Period size: 51 Copynumber: 6.3 Consensus size: 51
9521868 ACTTCTGATT
9521878 AGTGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
9521929 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACGCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
9521980 AGTGACAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
9522031 AGTGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
9522082 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
* * * *
9522133 AGTGGCAAGTGAGAAGTGGTAGCTT-AGCTACACTTATCTGATCAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
9522183 AGTGATAAGTGAT
1 AGTGACAAGTGAT
9522196 CATACGTAAG
Statistics
Matches: 244, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
50 34 0.14
51 209 0.86
52 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:9522040 original size:102 final size:102
Alignment explanation
Indices: 9521878--9522195 Score: 548
Period size: 102 Copynumber: 3.1 Consensus size: 102
9521868 ACTTCTGATT
* *
9521878 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
*
9521943 AGTGATAGCTTCAGCTACGCTTATCTGATCAGTGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
9521980 AGTGACAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
*
9522045 AGTGATAGCTTCAGCTACACTTATCTGATCAATGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
9522082 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGAGA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
* *
9522147 AGTGGTAGCTT-AGCTACACTTATCTGATCAGGGACA
66 AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
*
9522183 AGTGATAAGTGAT
1 AGTGACAAGTGAT
9522196 CATACGTAAG
Statistics
Matches: 205, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
101 35 0.17
102 170 0.83
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (102 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
AGTGATAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:9523011 original size:16 final size:16
Alignment explanation
Indices: 9522990--9523021 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9522980 TGGTAGTTTA
9522990 TCAAATTTTAATAGTG
1 TCAAATTTTAATAGTG
9523006 TCAAATTTTAATAGTG
1 TCAAATTTTAATAGTG
9523022 GATTGTCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TCAAATTTTAATAGTG
Found at i:9523823 original size:34 final size:34
Alignment explanation
Indices: 9523780--9523847 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
9523770 TTAAAAGGAA
9523780 ATCTCCTTCAGTGAACCCACATAATAAAGTTTAC
1 ATCTCCTTCAGTGAACCCACATAATAAAGTTTAC
9523814 ATCTCCTTCAGTGAACCCACATAATAAAGTTTAC
1 ATCTCCTTCAGTGAACCCACATAATAAAGTTTAC
9523848 CTTGGGGTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (34 bp):
ATCTCCTTCAGTGAACCCACATAATAAAGTTTAC
Found at i:9525475 original size:62 final size:59
Alignment explanation
Indices: 9525365--9525481 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
9525355 ATTACTTTAA
* * *
9525365 TATTAAATTAATACGATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAAGACGATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
9525424 TATTAAATTAAGA-GAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAAGACG-ATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATTAA
9525482 GATAATAACT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 1 0.02
59 19 0.37
61 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (59 bp):
TATTAAATTAAGACGATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:9525507 original size:20 final size:19
Alignment explanation
Indices: 9525460--9525509 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
9525450 CAAGATAAAC
9525460 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
9525477 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
9525497 ATTAAATTAATAA
1 ATTAAATTAATAA
9525510 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:9525525 original size:26 final size:26
Alignment explanation
Indices: 9525492--9525545 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
9525482 GATAATAACT
*
9525492 TTAATATTAAAT-TAATAAAATACTA
1 TTAATATTAAATCTAATAAAATAATA
*
9525517 TTAAGTATTAAATCTATTAAAATAATA
1 TTAA-TATTAAATCTAATAAAATAATA
9525544 TT
1 TT
9525546 TTTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 8 0.32
27 13 0.52
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAATATTAAATCTAATAAAATAATA
Found at i:9528049 original size:45 final size:44
Alignment explanation
Indices: 9527966--9528082 Score: 171
Period size: 45 Copynumber: 2.6 Consensus size: 44
9527956 GACAAGTTGT
* * * *
9527966 CATGTAGGTTGTGGATAAACCACCAAAATTCGTAGACAAGCTAC
1 CATGTAGGTTGTGGAGAAGCCACCAATATTCGCAGACAAGCTAC
9528010 CATGTAGGTTGTGGACGAAGCCACCAATATTCGCAGACAAGCTAC
1 CATGTAGGTTGTGGA-GAAGCCACCAATATTCGCAGACAAGCTAC
*
9528055 CATGTAGGTTGTAGATGAAGCCACCAAT
1 CATGTAGGTTGTGGA-GAAGCCACCAAT
9528083 TCTTTCTCCT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
44 15 0.23
45 51 0.77
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (44 bp):
CATGTAGGTTGTGGAGAAGCCACCAATATTCGCAGACAAGCTAC
Found at i:9531046 original size:27 final size:27
Alignment explanation
Indices: 9531016--9531193 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
9531006 ATATTGAGTC
* *
9531016 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
9531043 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
9531070 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
9531098 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
9531125 CACACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
9531152 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
9531179 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9531194 GTACAATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
27 101 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:9538415 original size:27 final size:27
Alignment explanation
Indices: 9538385--9538562 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
9538375 ATATTGAGTC
* *
9538385 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
9538412 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
9538439 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
9538467 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
9538494 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
9538521 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
9538548 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9538563 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:9538524 original size:82 final size:81
Alignment explanation
Indices: 9538406--9538561 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
9538396 TGCTATATAA
*
9538406 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCT-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-TAACATAGTCAAA-TCGC
9538470 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
9538488 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGTAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCA
9538552 CACTTAGTGC
65 CACTTAGTGC
9538562 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9545951 original size:28 final size:27
Alignment explanation
Indices: 9545889--9545951 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
9545879 GCATGTTGAC
*
9545889 CAAATAATT-ATTTATAAAAAAAATAT
1 CAAATAATTAATATATAAAAAAAATAT
* *
9545915 -AAAAAATTAATATATAAATAAAAGTAT
1 CAAATAATTAATATATAAA-AAAAATAT
9545942 CAAATAATTA
1 CAAATAATTA
9545952 CACATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 7 0.23
26 8 0.27
27 7 0.23
28 8 0.27
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
CAAATAATTAATATATAAAAAAAATAT
Found at i:9546550 original size:33 final size:35
Alignment explanation
Indices: 9546513--9546610 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
9546503 ATGGTTATAT
9546513 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
9546546 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
9546581 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
9546611 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.15
35 12 0.23
36 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:9546600 original size:30 final size:30
Alignment explanation
Indices: 9546561--9546617 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9546551 TTTTATAAAT
9546561 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
9546591 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
9546618 AACAAGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:9551917 original size:24 final size:24
Alignment explanation
Indices: 9551890--9551935 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
9551880 AAGCTCATGC
9551890 GAGCCAATAACGGGTAA-CTCCGAA
1 GAGCCAATAACGGG-AAGCTCCGAA
* *
9551914 GAGCTATTAACGGGAAGCTCCG
1 GAGCCAATAACGGGAAGCTCCG
9551936 GATAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.33, C:0.24, G:0.28, T:0.15
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTCCGAA
Found at i:9567373 original size:16 final size:16
Alignment explanation
Indices: 9567352--9567389 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
9567342 TTGATTTGTT
*
9567352 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
9567368 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
9567384 AATACA
1 ATTACA
9567390 GCGAGCCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:9573959 original size:30 final size:31
Alignment explanation
Indices: 9573920--9573979 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
9573910 GGAGGTGGGA
*
9573920 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
9573951 TGGG-AGGGACTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
9573980 TAAAAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:9577817 original size:34 final size:34
Alignment explanation
Indices: 9577718--9577822 Score: 140
Period size: 34 Copynumber: 3.1 Consensus size: 34
9577708 GTTCCTTTTT
* **
9577718 AAAAATTAATTAAATTAGGGTTTAG-GGGTTTAA
1 AAAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
*
9577751 AATAAATTAATTAAATTTGAGTTTAGTGTTTTTAA
1 AA-AAATTAATTAAATTTGGGTTTAGTGTTTTTAA
* *
9577786 GAAAATTAATTAAATTTGGGTTTAGTTTTTTTAA
1 AAAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
9577820 AAA
1 AAA
9577823 TAATATTGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
33 2 0.03
34 53 0.85
35 7 0.11
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (34 bp):
AAAAATTAATTAAATTTGGGTTTAGTGTTTTTAA
Found at i:9578170 original size:126 final size:126
Alignment explanation
Indices: 9577883--9578401 Score: 711
Period size: 126 Copynumber: 4.1 Consensus size: 126
9577873 GATTTTGGTT
*
9577883 TTTTTCTACAATAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTC-AAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * ** * ** * **
9577947 GCGCTTCAAACAGGATGCACGGTCAGC-AAATTACTGGAAAAAGCTCTTACATGGATGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
9578007 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * **
9578072 ACGCTTCAAGCAGGATACACTGTCAACAAAATTGTTGAAAAAAGCTCCCACGTGGACACTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
* * *
9578133 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
9578198 ACACTTCAAGCAGGATGCACTATCAGCAAAATTGA-TGAAAAAAGCTCCCACGTGAACATTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATT-ACTGAAAAAAGCTCCCACGTGGACACTC
* * **
9578259 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACATTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * * *
9578324 ATGTTTCAAGTAGGATTCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
* *
9578385 TGTTACTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
9578402 ATGTGTTGCC
Statistics
Matches: 354, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
124 60 0.17
125 26 0.07
126 268 0.76
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
Found at i:9580621 original size:16 final size:16
Alignment explanation
Indices: 9580600--9580632 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9580590 AGTGAATTAA
9580600 AAAAAT-ATTATAAAAT
1 AAAAATCATTA-AAAAT
9580616 AAAAATCATTAAAAAT
1 AAAAATCATTAAAAAT
9580632 A
1 A
9580633 TTTATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATCATTAAAAAT
Found at i:9580626 original size:28 final size:27
Alignment explanation
Indices: 9580595--9580647 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9580585 ATATAAGTGA
9580595 ATTAAAAAAATATTATAAAATAAAAATC
1 ATTAAAAAAAT-TTATAAAATAAAAATC
* * *
9580623 ATTAAAAATATTTATTATATAAAAA
1 ATTAAAAAAATTTATAAAATAAAAA
9580648 AATAAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTAAAAAAATTTATAAAATAAAAATC
Found at i:9580681 original size:23 final size:24
Alignment explanation
Indices: 9580651--9580700 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
9580641 ATAAAAAAAT
*
9580651 AAAGTAATACATTATAA-AAT-TA
1 AAAGTAATACATGATAATAATATA
*
9580673 AAAGATAATATATGATAATAATATA
1 AAAG-TAATACATGATAATAATATA
9580698 AAA
1 AAA
9580701 CTTAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 3 0.13
25 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAGTAATACATGATAATAATATA
Found at i:9580712 original size:20 final size:20
Alignment explanation
Indices: 9580687--9580752 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
9580677 ATAATATATG
9580687 ATAATAATATAAAACTTAAA
1 ATAATAATATAAAACTTAAA
* *
9580707 ATAATAGTAT---A--TAAT
1 ATAATAATATAAAACTTAAA
*
9580722 AGAATAATATAAAACTTAAA
1 ATAATAATATAAAACTTAAA
*
9580742 ATAATAGTATA
1 ATAATAATATA
9580753 TAATAGAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
15 11 0.32
17 1 0.03
18 1 0.03
20 21 0.62
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAATAATATAAAACTTAAA
Found at i:9580721 original size:30 final size:31
Alignment explanation
Indices: 9580663--9580767 Score: 110
Period size: 35 Copynumber: 3.3 Consensus size: 31
9580653 AGTAATACAT
*
9580663 TATAAAA-TTAAAAGATAATA-TATGATAATAA
1 TATAAAACTT-AAA-ATAATAGTATAATAATAA
9580694 TATAAAACTTAAAATAATAGTATATAATAGAATAA
1 TATAAAACTTAAAATAATAG--TATAAT--AATAA
9580729 TATAAAACTTAAAATAATAGTAT-ATAATAGA
1 TATAAAACTTAAAATAATAGTATAATAATA-A
9580760 -ATAAAACT
1 TATAAAACT
9580768 ATGTATATGA
Statistics
Matches: 66, Mismatches: 1, Indels: 15
0.80 0.01 0.18
Matches are distributed among these distances:
30 18 0.27
31 11 0.17
32 4 0.06
33 8 0.12
35 25 0.38
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (31 bp):
TATAAAACTTAAAATAATAGTATAATAATAA
Found at i:9580728 original size:35 final size:35
Alignment explanation
Indices: 9580689--9580763 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
9580679 AATATATGAT
9580689 AATAATATAAAACTTAAAATAATAGTATATAATAG
1 AATAATATAAAACTTAAAATAATAGTATATAATAG
9580724 AATAATATAAAACTTAAAATAATAGTATATAATAG
1 AATAATATAAAACTTAAAATAATAGTATATAATAG
9580759 AATAA
1 AATAA
9580764 AACTATGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (35 bp):
AATAATATAAAACTTAAAATAATAGTATATAATAG
Found at i:9580824 original size:12 final size:11
Alignment explanation
Indices: 9580801--9580861 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
9580791 ATATATAAAC
*
9580801 TAATATAGTAA
1 TAATATAATAA
9580812 TAATATCAATAA
1 TAATAT-AATAA
9580824 T-A-ATAATAA
1 TAATATAATAA
*
9580833 TATTAGTAATAA
1 TAATA-TAATAA
9580845 TAATGATAATAA
1 TAAT-ATAATAA
9580857 TAATA
1 TAATA
9580862 AATTAATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 9 0.21
12 24 0.57
13 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (11 bp):
TAATATAATAA
Found at i:9580825 original size:3 final size:3
Alignment explanation
Indices: 9580809--9580862 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
9580799 ACTAATATAG
* * *
9580809 TAA TAA T-A TCAA TAA TAA TAA TAA TAT TAG TAA TAA TAA TGA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9580854 TAA TAA TAA
1 TAA TAA TAA
9580863 ATTAATTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9582485 original size:143 final size:143
Alignment explanation
Indices: 9582201--9583118 Score: 1198
Period size: 143 Copynumber: 6.4 Consensus size: 143
9582191 ATCCACTCTA
** * * *
9582201 CTGCAACTTCAGATAGATTAGGATGG-GGCTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * * *
9582265 ATTCGCCATAACTTGTAGCTTTAATCTGTTTCACTGCAACACCAGGGAAATAAGATTTGCCGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
9582330 TCAGTCTGCTCCG
131 TCAGTCTGCTCCG
* * *
9582343 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTCCTCCACTGTAACTTCAGGAATATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * *
9582408 ATCCACCATAATTTGTAGCTTTAATCTGTCCCACTGCAATGCCAGGGAAATAAGATTCGCTATCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
* *
9582473 TCACTCTACTCCG
131 TCAGTCTGCTCCG
* *
9582486 CTGCAACTTCAGGGAGATAAGTCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * *
9582551 ATTCACCATAACTTGTAGCTTTAATCTGTTCCACTGCAACGCGAGGGAAATAAGATTCGTTGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
9582616 TCAGTCTGCTCCG
131 TCAGTCTGCTCCG
* *
9582629 CTGCAATTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAT
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* ** * * * * *
9582694 ATTCGCCATAATTTGTAGCTTTAATCTACTCCACTACAATGCCAAGGAAATAAAATCCGCTGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
*
9582759 TCAGTCTACTCCG
131 TCAGTCTGCTCCG
* * * **
9582772 TTGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATATGCTCCACCACAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * **
9582837 ATCCGCCATAATTTGTAACTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCATTGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
* *
9582902 CCAGTCTGCTCTG
131 TCAGTCTGCTCCG
* ** *
9582915 CTACAACTTCAGGGAGATAAGGCTAATGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * *
9582980 ATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACTAGGGAAATAAGATTCGAC-ATC
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG-CTGTC
* *
9583044 TTCAATCTGCTCCA
130 TTCAGTCTGCTCCG
* * ** * *
9583058 CTGCAACTTCAAGGAGATAAGACT--T-GCTTCAATCCACCCCCACTGCAACTTCAAGAAGATA
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT-CTGCTCCACTGCAACTTCAGGAAGATA
9583119 GGAATTATGT
Statistics
Matches: 676, Mismatches: 97, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
140 8 0.01
141 23 0.03
142 22 0.03
143 623 0.92
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (143 bp):
CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
TCAGTCTGCTCCG
Found at i:9582536 original size:44 final size:45
Alignment explanation
Indices: 9582282--9582692 Score: 172
Period size: 44 Copynumber: 8.8 Consensus size: 45
9582272 ATAACTTGTA
* * * ** * * **
9582282 GCTTTAATCTGTTTCACTGCAACACCAGGGAAATAAGATTTGCCG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
* * * *
9582327 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG-GCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
* * * * * *
9582371 GCTTCAATCTCCTCCACTGTAACTTCAGGAATATAAGATCCACCATAATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT----C-----TGGTG
* * * * *
9582425 GCTTTAATCTG-TCCCACTGCAA-TGCCAGGGAAATAAGAT-TCGCTA
1 GCTTCAATCTGCT-CCACTGCAACT-TCAGGGAGATAAGATCT-GGTG
* * * *
9582470 TCTTCACTCTACTCCGCTGCAACTTCAGGGAGATAAG-TCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
* * * *
9582514 GCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCACCATAACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-------AT--CTGGTG
* * * * *
9582568 GCTTTAATCTGTTCCACTGCAAC-GCGAGGGAAATAAGAT-TCGTTG
1 GCTTCAATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCT-GGTG
* * * * *
9582613 TCTTCAGTCTGCTCCGCTGCAATTTCAGGGAGATAAG-GCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
*
9582657 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
9582693 TATTCGCCAT
Statistics
Matches: 264, Mismatches: 72, Indels: 61
0.66 0.18 0.15
Matches are distributed among these distances:
44 103 0.39
45 86 0.33
46 3 0.01
47 2 0.01
49 1 0.00
52 1 0.00
53 3 0.01
54 65 0.25
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
Found at i:9584404 original size:14 final size:14
Alignment explanation
Indices: 9584377--9584420 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
9584367 TGGCCTCTCC
*
9584377 ATTTTTACATTTTTT
1 ATTTTTTCA-TTTTT
9584392 ATTTTTTCATTTTT
1 ATTTTTTCATTTTT
*
9584406 ATTTTTTTATTTTT
1 ATTTTTTCATTTTT
9584420 A
1 A
9584421 CGACTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTTCATTTTT
Found at i:9584412 original size:15 final size:16
Alignment explanation
Indices: 9584377--9584420 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
9584367 TGGCCTCTCC
*
9584377 ATTTTTACATTTTT-T
1 ATTTTTTCATTTTTAT
9584392 ATTTTTTCATTTTTAT
1 ATTTTTTCATTTTTAT
9584408 -TTTTTT-ATTTTTA
1 ATTTTTTCATTTTTA
9584421 CGACTGAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.26
15 19 0.70
16 1 0.04
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTTCATTTTTAT
Found at i:9584486 original size:50 final size:51
Alignment explanation
Indices: 9584409--9584525 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 51
9584399 CATTTTTATT
* *
9584409 TTTTTATTTTTACGACTGAAAGCGCCCTTTGCGAGTTTTCACCTTGGT-TTC
1 TTTTT-TTTTTAGGACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTCTTC
* *
9584460 TTTTTTTTTTAGGACTCAAGGTGCCCTTTGCGAGTTTTCACCTTGGTCCCTTC
1 TTTTTTTTTTAGGACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGT--CTTC
*
9584513 TTATTTTTTTAGG
1 TTTTTTTTTTAGG
9584526 CAAAGTCTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 38 0.66
51 5 0.09
53 15 0.26
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (51 bp):
TTTTTTTTTTAGGACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTCTTC
Found at i:9585484 original size:14 final size:14
Alignment explanation
Indices: 9585467--9585498 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
9585457 TTGAAATATT
*
9585467 TTTTGATTTTTTTA
1 TTTTGATTTTTATA
9585481 TTTTGATTTTTATA
1 TTTTGATTTTTATA
9585495 TTTT
1 TTTT
9585499 TTTTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTTGATTTTTATA
Found at i:9585490 original size:20 final size:20
Alignment explanation
Indices: 9585467--9585506 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9585457 TTGAAATATT
9585467 TTTTGAT-TTTTTTATTTTGA
1 TTTTGATATTTTTT-TTTTGA
*
9585487 TTTTTATATTTTTTTTTTGA
1 TTTTGATATTTTTTTTTTGA
9585507 AAATCATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTGATATTTTTTTTTTGA
Found at i:9587804 original size:16 final size:16
Alignment explanation
Indices: 9587762--9587804 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
9587752 ATGAGCATGT
*
9587762 CATGCAGTCAAGATGT
1 CATGCAGTCAAGATGC
* *
9587778 CGTACAGTCAAGATGC
1 CATGCAGTCAAGATGC
*
9587794 CATGCAATCAA
1 CATGCAGTCAA
9587805 AACGAAACAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (16 bp):
CATGCAGTCAAGATGC
Found at i:9589867 original size:23 final size:21
Alignment explanation
Indices: 9589821--9589871 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
9589811 AAAATATTTT
*
9589821 AATATAAATTGTATATACATA
1 AATATAAATAGTATATACATA
9589842 AATATGAAATAGTATTATATCA-A
1 AATAT-AAATAGTA-TATA-CATA
9589865 AATATAA
1 AATATAA
9589872 TTGTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 10 0.38
24 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (21 bp):
AATATAAATAGTATATACATA
Found at i:9589938 original size:16 final size:16
Alignment explanation
Indices: 9589917--9589949 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9589907 AGTGATTTAA
9589917 AAAAAT-ATTATAAAAT
1 AAAAATCATTA-AAAAT
9589933 AAAAATCATTAAAAAT
1 AAAAATCATTAAAAAT
9589949 A
1 A
9589950 TTTATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATCATTAAAAAT
Found at i:9590007 original size:23 final size:25
Alignment explanation
Indices: 9589970--9590016 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
9589960 AAAAAAATAA
*
9589970 AATAATACATTATAA-AAT-TAAAC
1 AATAATACATGATAATAATATAAAC
*
9589993 AATAATATATGATAATAATATAAA
1 AATAATACATGATAATAATATAAA
9590017 ACTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 3 0.15
25 4 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATACATGATAATAATATAAAC
Found at i:9590008 original size:33 final size:30
Alignment explanation
Indices: 9589971--9590049 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 30
9589961 AAAAAATAAA
9589971 ATAATACATTATAAAA-TTAAACAATAATA-TAT
1 ATAATA-A-TATAAAACTT-AA-AATAATAGTAT
9590003 GATAATAATATAAAACTTAAAATAATAGTAT
1 -ATAATAATATAAAACTTAAAATAATAGTAT
9590034 ATAATAGA-ATAAAACT
1 ATAATA-ATATAAAACT
9590050 ATAGTAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
30 21 0.49
31 13 0.30
32 3 0.07
33 6 0.14
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (30 bp):
ATAATAATATAAAACTTAAAATAATAGTAT
Found at i:9590070 original size:3 final size:3
Alignment explanation
Indices: 9590054--9590116 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
9590044 AAAACTATAG
* * * *
9590054 TAA TAA T-A TCAA TAA TAA TAA TAT TAG TAA TAA TAA TGA TAA TGA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9590099 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
9590117 ATTAATTGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9590113 original size:18 final size:18
Alignment explanation
Indices: 9589993--9590114 Score: 74
Period size: 18 Copynumber: 6.5 Consensus size: 18
9589983 AAAATTAAAC
9589993 AATAATATATGATAATAAT
1 AATAATA-ATGATAATAAT
* *
9590012 -ATAA-AACTTAAAATAAT
1 AATAATAA-TGATAATAAT
*
9590029 AGTATATAATAGAATAA-AACT
1 AATA-ATAAT-G-ATAATAA-T
9590050 ATAGTAATAAT-ATCAATAAT
1 A-A-TAATAATGAT-AATAAT
*
9590070 AATAAT-ATTAGTAATAAT
1 AATAATAATGA-TAATAAT
*
9590088 AATGATAATGATAATAAT
1 AATAATAATGATAATAAT
9590106 AATAATAAT
1 AATAATAAT
9590115 AAATTAATTG
Statistics
Matches: 80, Mismatches: 9, Indels: 29
0.68 0.08 0.25
Matches are distributed among these distances:
16 1 0.01
17 11 0.14
18 37 0.46
19 9 0.11
20 8 0.10
21 7 0.09
22 5 0.06
23 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (18 bp):
AATAATAATGATAATAAT
Found at i:9593410 original size:24 final size:23
Alignment explanation
Indices: 9593354--9593410 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
9593344 AAGAACTTTT
9593354 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
*
9593377 ATTTACTATTAAAATATTTAAAACA-A
1 ATTT--TATTAAAA-ATATAAAA-ATA
9593403 ATTTTATT
1 ATTTTATT
9593411 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 8 0.28
26 12 0.41
27 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:9593505 original size:21 final size:21
Alignment explanation
Indices: 9593479--9593548 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
9593469 GTGGTTCAGC
*
9593479 TTCCGGTGAGGGTTATGGTTG
1 TTCCGGTGAGGGTTGTGGTTG
*
9593500 CTCCGGTGAGGGTTGTGGTTG
1 TTCCGGTGAGGGTTGTGGTTG
9593521 TTCCGGTGAGGGTTGTGGTTG
1 TTCCGGTGAGGGTTGTGGTTG
9593542 TTCCGGT
1 TTCCGGT
9593549 TGTGGGTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.06, C:0.13, G:0.44, T:0.37
Consensus pattern (21 bp):
TTCCGGTGAGGGTTGTGGTTG
Found at i:9594663 original size:13 final size:13
Alignment explanation
Indices: 9594625--9594657 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
9594615 AGGCATAGAC
9594625 TACCTTTGTAACA
1 TACCTTTGTAACA
9594638 TACCTTTGTAACA
1 TACCTTTGTAACA
9594651 TACCTTT
1 TACCTTT
9594658 CGAACAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (13 bp):
TACCTTTGTAACA
Found at i:9595874 original size:18 final size:18
Alignment explanation
Indices: 9595851--9595886 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9595841 GGAAAAGTAA
*
9595851 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
9595869 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
9595887 GCGTACCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:9598302 original size:22 final size:22
Alignment explanation
Indices: 9598258--9598320 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
9598248 CTCACTCACG
*
9598258 TATTTTTACTTTTCATTTATTT
1 TATTTTTTCTTTTCATTTATTT
*
9598280 TATTTTTTCTTTTC-TTCTCTTT
1 TATTTTTTCTTTTCATT-TATTT
* *
9598302 TCTTTCTTTTTTTTCATTT
1 TATTT-TTTCTTTTCATTT
9598321 TGAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.06
22 21 0.62
23 9 0.26
24 2 0.06
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTTTCTTTTCATTTATTT
Found at i:9604610 original size:11 final size:12
Alignment explanation
Indices: 9604596--9604625 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9604586 TTTAGGCTTA
9604596 GTTTTCT-CTAG
1 GTTTTCTCCTAG
9604607 GTTTTCTCCTAG
1 GTTTTCTCCTAG
9604619 GTTTTCT
1 GTTTTCT
9604626 TCCTCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.20, G:0.17, T:0.57
Consensus pattern (12 bp):
GTTTTCTCCTAG
Found at i:9605340 original size:20 final size:19
Alignment explanation
Indices: 9605315--9605354 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
9605305 TTCTTTAAAA
9605315 TAAAAATGAATGTCAAATTT
1 TAAAAATGAATGTC-AATTT
**
9605335 TAAAAATTTATGTCAATTT
1 TAAAAATGAATGTCAATTT
9605354 T
1 T
9605355 TGGGGGGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
TAAAAATGAATGTCAATTT
Found at i:9607974 original size:21 final size:22
Alignment explanation
Indices: 9607935--9607992 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
9607925 CTCAAAAGTA
* * * *
9607935 AATAATTTTAATATCTAGATAT
1 AATATTTTTTATATCTAGAAAG
*
9607957 TATATTTTTTATAT-TAGAAAG
1 AATATTTTTTATATCTAGAAAG
9607978 AATATTGTTTTATAT
1 AATATT-TTTTATAT
9607993 AATATTGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
AATATTTTTTATATCTAGAAAG
Found at i:9613439 original size:15 final size:17
Alignment explanation
Indices: 9613416--9613458 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
9613406 TAACCATAAT
9613416 TAATATATTAAT-AAATA
1 TAAT-TATTAATAAAATA
9613433 -AATTATTAAATAAAATA
1 TAATTATT-AATAAAATA
9613450 TAATTATTA
1 TAATTATTA
9613459 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 6 0.26
17 6 0.26
18 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTATTAATAAAATA
Found at i:9617991 original size:16 final size:15
Alignment explanation
Indices: 9617966--9617995 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9617956 TCGTACTTTC
9617966 ATAGATATTAATTAT
1 ATAGATATTAATTAT
9617981 ATAGCATATTAATTA
1 ATAG-ATATTAATTA
9617996 GTTAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
ATAGATATTAATTAT
Found at i:9618005 original size:16 final size:16
Alignment explanation
Indices: 9617966--9618006 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
9617956 TCGTACTTTC
9617966 ATAG-ATATTAATTAT
1 ATAGAATATTAATTAT
*
9617981 ATAGCATATTAATTAGT
1 ATAGAATATTAATTA-T
9617998 -TAGAATATT
1 ATAGAATATT
9618007 TATAGATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (16 bp):
ATAGAATATTAATTAT
Found at i:9618359 original size:22 final size:22
Alignment explanation
Indices: 9618334--9618378 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9618324 CTCTAATTTA
*
9618334 TTAGCACATCGGTGCTCTCTGT
1 TTAGCACATCGGAGCTCTCTGT
*
9618356 TTAGCACATTGGAGCTCTCTGT
1 TTAGCACATCGGAGCTCTCTGT
9618378 T
1 T
9618379 CTATTAGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (22 bp):
TTAGCACATCGGAGCTCTCTGT
Found at i:9619683 original size:35 final size:35
Alignment explanation
Indices: 9619644--9619815 Score: 158
Period size: 35 Copynumber: 4.9 Consensus size: 35
9619634 CATGATCCGA
* * *
9619644 TTGAAACACGAGATTTTTTTTAAAACACGAGAATT
1 TTGAAACACGAGATATTTTTGAAAACACGAAAATT
*
9619679 TTGAAACACGATAATAATTTTTGAAAACACGAAAATT
1 TTGAAACACGA-GAT-ATTTTTGAAAACACGAAAATT
* *
9619716 TGTGAAACACGGGA-ATTGTTGAAAACACGAAAATT
1 T-TGAAACACGAGATATTTTTGAAAACACGAAAATT
* *
9619751 TTAGAAACACCGA-A-A-TTTTGTAAAACACTAAGATTT
1 TT-GAAACA-CGAGATATTTTTG-AAAACACGAA-AATT
*
9619787 TTGAAACACGA-AGATTTTTG-AAACACGAA
1 TTGAAACACGAGATATTTTTGAAAACACGAA
9619816 TTTTATTTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
34 17 0.15
35 56 0.48
36 14 0.12
37 20 0.17
38 9 0.08
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (35 bp):
TTGAAACACGAGATATTTTTGAAAACACGAAAATT
Found at i:9619697 original size:19 final size:16
Alignment explanation
Indices: 9619661--9619815 Score: 114
Period size: 17 Copynumber: 8.9 Consensus size: 16
9619651 ACGAGATTTT
* *
9619661 TTTTAAAACACGAGAA
1 TTTTGAAACACGAAAA
9619677 TTTTGAAACACGATAATAA
1 TTTTGAAACACG--AA-AA
9619696 TTTTTGAAAACACGAAAA
1 -TTTTG-AAACACGAAAA
**
9619714 TTTGTGAAACACGGGAA
1 TTT-TGAAACACGAAAA
9619731 TTGTTGAAAACACGAAAA
1 TT-TTG-AAACACGAAAA
9619749 TTTTAGAAACACCG-AAA
1 TTTT-GAAACA-CGAAAA
* *
9619766 TTTTGTAAAACACTAAGAT
1 TTTTG--AAACACGAA-AA
*
9619785 TTTTGAAACACGAAGAT
1 TTTTGAAACACGAA-AA
9619802 TTTTGAAACACGAA
1 TTTTGAAACACGAA
9619816 TTTTATTTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 27
0.76 0.06 0.18
Matches are distributed among these distances:
16 12 0.10
17 56 0.48
18 26 0.22
19 10 0.09
20 5 0.04
21 7 0.06
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (16 bp):
TTTTGAAACACGAAAA
Found at i:9619862 original size:29 final size:29
Alignment explanation
Indices: 9619829--9619884 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9619819 TATTTTTTTT
9619829 AAGAAACACAAAAATTTGTGAAAACACGA
1 AAGAAACACAAAAATTTGTGAAAACACGA
*
9619858 AAGAAACACAAAGATTTGTGAAAACAC
1 AAGAAACACAAAAATTTGTGAAAACAC
9619885 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (29 bp):
AAGAAACACAAAAATTTGTGAAAACACGA
Found at i:9619901 original size:20 final size:20
Alignment explanation
Indices: 9619876--9619914 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9619866 CAAAGATTTG
9619876 TGAAAACACAAATTTTTTTT
1 TGAAAACACAAATTTTTTTT
*
9619896 TGAAAACACGAATTTTTTT
1 TGAAAACACAAATTTTTTT
9619915 ATTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (20 bp):
TGAAAACACAAATTTTTTTT
Found at i:9620062 original size:27 final size:28
Alignment explanation
Indices: 9620032--9620089 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
9620022 CTTGATTCTA
*
9620032 TTAAAACACGAGAAATTTTT-ATTTTTT
1 TTAAAACACGAGAAATTTTTAATATTTT
*
9620059 TTAAAACACGAGAATTTTTTAATATTTT
1 TTAAAACACGAGAAATTTTTAATATTTT
9620087 TTA
1 TTA
9620090 TTTTTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (28 bp):
TTAAAACACGAGAAATTTTTAATATTTT
Done.