Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 230 of 295
Found at i:79519946 original size:43 final size:43
Alignment explanation
Indices: 79519885--79519986 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
79519875 AAATTTCATT
*
79519885 ACTTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGCCATG
1 ACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATG
* *
79519928 ACTTTTAGCGGCGTTTGTGGGAAAGGCGCCGTTAAAGGCCATG
1 ACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATG
*
79519971 ACCTTTAGCGGCGTTT
1 ACTTTTAGCGGCGTTT
79519987 TTTCAAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (43 bp):
ACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATG
Found at i:79522665 original size:26 final size:26
Alignment explanation
Indices: 79522634--79522738 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
79522624 TGAAATGCCC
*
79522634 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
79522660 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
79522686 ATCAT-GAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79522711 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79522737 AT
1 AT
79522739 TAATTTGTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 23 0.32
26 50 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79522710 original size:51 final size:52
Alignment explanation
Indices: 79522634--79522738 Score: 185
Period size: 51 Copynumber: 2.0 Consensus size: 52
79522624 TGAAATGCCC
79522634 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
79522686 ATCAT-GAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
79522737 AT
1 AT
79522739 TAATTTGTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:79530285 original size:17 final size:17
Alignment explanation
Indices: 79530245--79530287 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
79530235 AGAATCATAT
79530245 TATTTGTTCCAACGTTAC
1 TATTT-TTCCAACGTTAC
79530263 TA-TTTTCTCAACGTTA-
1 TATTTTTC-CAACGTTAC
79530279 TATTTTTCC
1 TATTTTTCC
79530288 TATTTTTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.26
17 15 0.65
18 2 0.09
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.51
Consensus pattern (17 bp):
TATTTTTCCAACGTTAC
Found at i:79530871 original size:11 final size:11
Alignment explanation
Indices: 79530855--79530898 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
79530845 CCGTTTGCTT
79530855 TTTCTATTTTA
1 TTTCTATTTTA
79530866 TTTCTATTTTA
1 TTTCTATTTTA
79530877 CGTTT-TATTTTA
1 --TTTCTATTTTA
*
79530889 TTTTTATTTT
1 TTTCTATTTT
79530899 TTTATTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.10
11 17 0.57
12 7 0.23
13 3 0.10
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTCTATTTTA
Found at i:79533219 original size:21 final size:21
Alignment explanation
Indices: 79533195--79533237 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
79533185 AATCTTAACA
*
79533195 TGAATATATAAACCATC-AATT
1 TGAACATATAAA-CATCTAATT
*
79533216 TGAACATATCAACATCTAATT
1 TGAACATATAAACATCTAATT
79533237 T
1 T
79533238 ATTTAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (21 bp):
TGAACATATAAACATCTAATT
Found at i:79534623 original size:43 final size:43
Alignment explanation
Indices: 79534575--79534722 Score: 131
Period size: 43 Copynumber: 3.5 Consensus size: 43
79534565 GGGCGAATTT
79534575 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
* * *
79534618 GTGTAAGACTATGTTTGGGACATTGGCATTG-TAT-ATGATT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGA-GATTAC
* * * * ** * * *
79534659 GTATAAGACCCTTTTTGGGACAAAGGCATCGACATGTGATAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
* *
79534702 ATGTAAGAACCATATCTGGGA
1 GTGTAAG-ACCATGTCTGGGA
79534723 TATGACATTG
Statistics
Matches: 82, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
41 26 0.32
42 12 0.15
43 34 0.41
44 10 0.12
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTAC
Found at i:79534678 original size:41 final size:42
Alignment explanation
Indices: 79534578--79534690 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 42
79534568 CGAATTTGTG
* *
79534578 TAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACGTG
1 TAAGACCATGTTTGGGACATTGGCATCGATAT-AGATTACGTA
* *
79534621 TAAGACTATGTTTGGGACATTGGCATTG-TATATGATT-CGTA
1 TAAGACCATGTTTGGGACATTGGCATCGATATA-GATTACGTA
* * **
79534662 TAAGACCCTTTTTGGGACAAAGGCATCGA
1 TAAGACCATGTTTGGGACATTGGCATCGA
79534691 CATGTGATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 26 0.45
42 7 0.12
43 25 0.43
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TAAGACCATGTTTGGGACATTGGCATCGATATAGATTACGTA
Found at i:79542389 original size:41 final size:41
Alignment explanation
Indices: 79542280--79542399 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 41
79542270 ATTGAATTGA
*
79542280 ATTCATGTAAGACCATGTCTGGGACATTGGCATCGATATGAG
1 ATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-AG
* * * *
79542322 ATTACGTGTAAGACCGTGTTTAGGACATTGGTATCG-TATATG
1 ATT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATA-G
* * **
79542364 ATTCGTGTAAGACCCTATCTGGGACAGAGGCATCGA
1 ATTCGTGTAAGACCATGTCTGGGACATTGGCATCGA
79542400 CATGTGATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 26 0.41
42 10 0.16
43 27 0.43
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (41 bp):
ATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATAG
Found at i:79548722 original size:13 final size:13
Alignment explanation
Indices: 79548704--79548728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79548694 GATAGGTAAC
79548704 GGTATCAATACCA
1 GGTATCAATACCA
79548717 GGTATCAATACC
1 GGTATCAATACC
79548729 GCTTTCAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
GGTATCAATACCA
Found at i:79555557 original size:37 final size:36
Alignment explanation
Indices: 79555499--79555601 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 36
79555489 ATATTGATGC
* *
79555499 CAATACCATATCCTAGATATGGTCTTACATGGGATCA
1 CAATGCCATATCCCA-ATATGGTCTTACATGGGATCA
** *
79555536 CAATGCCATATCCCAACTATGGTCTTACATGTTATTA
1 CAATGCCATATCCCAA-TATGGTCTTACATGGGATCA
** *
79555573 TGATGCCATAGCCCAATTATGGTCTTACA
1 CAATGCCATATCCCAA-TATGGTCTTACA
79555602 CGTACTCACA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 1 0.02
37 55 0.98
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (36 bp):
CAATGCCATATCCCAATATGGTCTTACATGGGATCA
Found at i:79557025 original size:20 final size:17
Alignment explanation
Indices: 79556982--79557037 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 17
79556972 TGCATTTAAC
79556982 ATAAAATTCATGAAATT
1 ATAAAATTCATGAAATT
79556999 A-ACAAATTCTTATAGAAATT
1 ATA-AAATTC--AT-GAAATT
*
79557019 ATAAAATATCATAAAATT
1 ATAAAAT-TCATGAAATT
79557037 A
1 A
79557038 GGTGCAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
16 1 0.03
17 7 0.22
18 6 0.19
19 4 0.12
20 11 0.34
21 3 0.09
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (17 bp):
ATAAAATTCATGAAATT
Found at i:79559607 original size:24 final size:24
Alignment explanation
Indices: 79559550--79559640 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
79559540 CTATCCGAAG
* * *
79559550 CTTCCCAATATGGCTGTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
* *
79559574 CTTCCTGATATGGTTTTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
* * *
79559598 CTTCCCGATAAGATTCATTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
* *
79559622 CTTTCCGACTATGGCTCTT
1 CTTCCCGA-TATGGTTCTT
79559641 ATGACCTTCC
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
24 46 0.88
25 6 0.12
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.41
Consensus pattern (24 bp):
CTTCCCGATATGGTTCTTTGTGAA
Found at i:79559700 original size:23 final size:24
Alignment explanation
Indices: 79559669--79559724 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
79559659 AGCCCGGATA
* *
79559669 AGCTTCCCGATA-GGCTCTTTATG
1 AGCTTCCCGAAATGGCTCTATATG
* *
79559692 AGCTGCCCGAAATGGCTCTATGTG
1 AGCTTCCCGAAATGGCTCTATATG
79559716 AGCTTCCCG
1 AGCTTCCCG
79559725 TTACAAGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.18, C:0.29, G:0.25, T:0.29
Consensus pattern (24 bp):
AGCTTCCCGAAATGGCTCTATATG
Found at i:79591464 original size:38 final size:39
Alignment explanation
Indices: 79591389--79591471 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
79591379 ATACAGGCTA
**
79591389 TCACACGGTCATGTGTCATTATTATTTTAGATGTAGGTT
1 TCACACGGTCATGTGTCATTATTATTTTAGACATAGGTT
*
79591428 TCACACGGTCATGTGTCATTA-TATTTTAGGCATAGGTT
1 TCACACGGTCATGTGTCATTATTATTTTAGACATAGGTT
79591466 TCACAC
1 TCACAC
79591472 AATCTAAGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 20 0.49
39 21 0.51
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (39 bp):
TCACACGGTCATGTGTCATTATTATTTTAGACATAGGTT
Found at i:79591586 original size:54 final size:48
Alignment explanation
Indices: 79591528--79591645 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
79591518 TGTAACACAG
*
79591528 TTTGGCACACGGCCTATACACAGTTGTGTGACCCAACATCGAATGTACACATGA
1 TTTGGCACACGGCCTATACACAGTTCTGTG------CATCGAATGTACACATGA
*** * *
79591582 TTTGGCACACGATATATACACGGTTCTGTGCATCGAATGTATACATGA
1 TTTGGCACACGGCCTATACACAGTTCTGTGCATCGAATGTACACATGA
79591630 TTTGGCACACGGCCTA
1 TTTGGCACACGGCCTA
79591646 CGACACAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
48 30 0.55
54 25 0.45
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
TTTGGCACACGGCCTATACACAGTTCTGTGCATCGAATGTACACATGA
Found at i:79592983 original size:26 final size:26
Alignment explanation
Indices: 79592952--79593004 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
79592942 ATCAAGCAAG
*
79592952 TTGTTTTCTTTGGTAGCACCCTTGAC
1 TTGTTTTCTTTGGCAGCACCCTTGAC
79592978 TTGTTTTCTTTGGCAGCACCCTTGAC
1 TTGTTTTCTTTGGCAGCACCCTTGAC
79593004 T
1 T
79593005 GCATGAAGTT
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:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (26 bp):
TTGTTTTCTTTGGCAGCACCCTTGAC
Found at i:79595956 original size:19 final size:21
Alignment explanation
Indices: 79595915--79595958 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
79595905 ATTCTACAAG
79595915 AAAAAAAATTATATAATAAATT
1 AAAAAAAATTATATAAT-AATT
*
79595937 AAAATAAATT-TATAAT-ATT
1 AAAAAAAATTATATAATAATT
79595956 AAA
1 AAA
79595959 CATATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAAATTATATAATAATT
Found at i:79599374 original size:16 final size:16
Alignment explanation
Indices: 79599353--79599386 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
79599343 ATTTCAAATT
79599353 TAATATGATTATAGGA
1 TAATATGATTATAGGA
79599369 TAATATGATTATAGGA
1 TAATATGATTATAGGA
79599385 TA
1 TA
79599387 TGAAAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (16 bp):
TAATATGATTATAGGA
Found at i:79602796 original size:49 final size:46
Alignment explanation
Indices: 79602729--79602990 Score: 201
Period size: 49 Copynumber: 5.5 Consensus size: 46
79602719 AATTCTATGT
*
79602729 CATGCCCCAGACATGTCTTACACTGACTTTCATATATCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGACTTT-ATATATCG-GGTCGATG
* * * *
79602777 CCGTGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGGTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTGACT-TTATATATCGG-GTCGATG
* * * * *
79602826 CCATATCCCAGACATGTCTTACACTCACTTGTATATCTTGAGATCGATG
1 -CATGTCCCAGACATGTCTTACACTGACTT-TATATATCG-GGTCGATG
* * * * *
79602875 CATGTTCCAGACATGTCTTACATTGCCTCTCATA-AT-GTGTCCGATG
1 CATGTCCCAGACATGTCTTACACTGACT-TTATATATCGGGT-CGATG
* * *
79602921 CATGTCCCAGACATGTCTTACACT-AGCTCTCATAATGTC-GCT-GATG
1 CATGTCCCAGACATGTCTTACACTGA-CT-TTAT-ATATCGGGTCGATG
*
79602967 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
79602991 AGCACACATA
Statistics
Matches: 173, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 62 0.36
47 2 0.01
48 30 0.17
49 75 0.43
50 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTTATATATCGGGTCGATG
Found at i:79602846 original size:98 final size:94
Alignment explanation
Indices: 79602734--79602944 Score: 246
Period size: 98 Copynumber: 2.2 Consensus size: 94
79602724 TATGTCATGC
* * *
79602734 CCCAGACATGTCTTACACTGACTT-TCATATATCGAGGTCGATGCCGTGTCCCAGACAGGTCTTA
1 CCCAGACATGTCTTACACTCACTTGT-ATATATCGAGATCGATG-CATGTCCCAGACAGGTCTTA
* * *
79602798 CACTGGCTCTTATCTATCGGTGT-CGATGCCATAT
64 CACTGCCTCTCAT-AAT--GTGTCCGATG-CATAT
* * * *
79602832 CCCAGACATGTCTTACACTCACTTGTATATCTTGAGATCGATGCATGTTCCAGACATGTCTTACA
1 CCCAGACATGTCTTACACTCACTTGTATATATCGAGATCGATGCATGTCCCAGACAGGTCTTACA
* *
79602897 TTGCCTCTCATAATGTGTCCGATGCATGT
66 CTGCCTCTCATAATGTGTCCGATGCATAT
79602926 CCCAGACATGTCTTACACT
1 CCCAGACATGTCTTACACT
79602945 AGCTCTCATA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
94 27 0.27
95 5 0.05
96 2 0.02
97 27 0.27
98 37 0.37
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (94 bp):
CCCAGACATGTCTTACACTCACTTGTATATATCGAGATCGATGCATGTCCCAGACAGGTCTTACA
CTGCCTCTCATAATGTGTCCGATGCATAT
Found at i:79602932 original size:46 final size:46
Alignment explanation
Indices: 79602870--79602993 Score: 180
Period size: 46 Copynumber: 2.7 Consensus size: 46
79602860 ATCTTGAGAT
* *
79602870 CGATGCATGTTCCAGACATGTCTTACA-TTGCCTCTCATAATGT-GTC
1 CGATGCATGTCCCAGACATGTCTTACACTAG-CTCTCATAATGTCG-C
79602916 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTCGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTCGC
* *
79602962 TGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
79602994 ACACATATCA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 69 0.96
47 3 0.04
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTCGC
Found at i:79605770 original size:18 final size:18
Alignment explanation
Indices: 79605747--79605782 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79605737 TTCCTAAGTG
79605747 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
79605765 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
79605783 CAACAGTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:79610703 original size:97 final size:97
Alignment explanation
Indices: 79610537--79610716 Score: 256
Period size: 97 Copynumber: 1.9 Consensus size: 97
79610527 GGGATAAGAT
79610537 GCCGACGCCATGTCCCAAACATGGTCTTACACTGACGAGCATATCAAAGTCGATGCCATGTCCCA
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTGACGAGCATATCAAAGTCGATGCCATGTCCCA
*
79610602 GACAGGTCTTACACTGACTTTCATATACCGAG
66 GACAGATCTTACACTGACTTTCATATACCGAG
* * * *** *
79610634 GCCGATGCCGTGTCCCAAACA-GGTCTTACACTGGCTCTCATAT-ATCAGTTCGATGCCATGTCC
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTGACGAGCATATCA-AAG-TCGATGCCATGTCC
79610697 CAGACAGATCTTACACTGAC
64 CAGACAGATCTTACACTGAC
79610717 ACACAACAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 1 0.01
96 20 0.27
97 52 0.71
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (97 bp):
GCCGACGCCATGTCCCAAACATGGTCTTACACTGACGAGCATATCAAAGTCGATGCCATGTCCCA
GACAGATCTTACACTGACTTTCATATACCGAG
Found at i:79610709 original size:48 final size:49
Alignment explanation
Indices: 79610543--79610716 Score: 192
Period size: 48 Copynumber: 3.6 Consensus size: 49
79610533 AGATGCCGAC
* *** * *
79610543 GCCATGTCCCAAACATGGTCTTACACTGACGAGCATAT--CAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATACCGAGGTCGAT
* *
79610591 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATACCGAGGCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATACCGAGGTCGAT
* * * * *
79610640 GCCGTGTCCCAAACAGGTCTTACACTGGCTCTCATATATC-AGTTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATACCGAGGTCGAT
*
79610688 GCCATGTCCCAGACAGATCTTACACTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
79610717 ACACAACAAG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 19 0.18
48 45 0.42
49 42 0.40
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATACCGAGGTCGAT
Found at i:79610818 original size:17 final size:17
Alignment explanation
Indices: 79610796--79610833 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
79610786 TCCCAGACAT
79610796 GTCTTACACTACCTCTC
1 GTCTTACACTACCTCTC
79610813 GTCTTACACTACCTCTC
1 GTCTTACACTACCTCTC
79610830 GTCT
1 GTCT
79610834 CAATGTCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.39, G:0.08, T:0.37
Consensus pattern (17 bp):
GTCTTACACTACCTCTC
Found at i:79610897 original size:48 final size:46
Alignment explanation
Indices: 79610840--79611008 Score: 241
Period size: 46 Copynumber: 3.6 Consensus size: 46
79610830 GTCTCAATGT
* * *
79610840 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TGTATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATA-AT-GTGGC
* *
79610888 CGATGCATGTTCCAGACATGTCTTACAGTGGCTCTCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
*
79610934 CGATGCATGTCTCAGACATGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
*
79610980 GGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
79611009 AGCACACATA
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 74 0.67
47 1 0.01
48 34 0.31
49 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGC
Found at i:79613570 original size:25 final size:25
Alignment explanation
Indices: 79613542--79613598 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
79613532 ACCTGTATAT
* *
79613542 GTATGCTCA-TACGAGCTGTGAATTG
1 GTATGCTCACT-CGAGCTGTAAATCG
79613567 GTATGCTCACTCGAGCTGTAAATCG
1 GTATGCTCACTCGAGCTGTAAATCG
79613592 GTATGCT
1 GTATGCT
79613599 TTCACTAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTGTAAATCG
Found at i:79627198 original size:18 final size:20
Alignment explanation
Indices: 79627175--79627222 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
79627165 CAGCAAGTTG
79627175 CTGGAGGC-C-AATCTAATA
1 CTGGAGGCACAAATCTAATA
*
79627193 CTGGAGGTCACAAATCTATTA
1 CTGGAGG-CACAAATCTAATA
79627214 CTGAGAGGC
1 CTG-GAGGC
79627223 TTTGGGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 1 0.04
20 1 0.04
21 12 0.48
22 4 0.16
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (20 bp):
CTGGAGGCACAAATCTAATA
Found at i:79633235 original size:20 final size:23
Alignment explanation
Indices: 79633209--79633261 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 23
79633199 GAAAAAAAAG
79633209 TAAAAAAAAGAGCG-AAAT-AGA
1 TAAAAAAAAGAGCGAAAATGAGA
*
79633230 -AAAAAAAAGAGTGAAAATGAGA
1 TAAAAAAAAGAGCGAAAATGAGA
79633252 TAAAAAAAAG
1 TAAAAAAAAG
79633262 GGTGTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.43
21 4 0.14
22 3 0.11
23 9 0.32
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (23 bp):
TAAAAAAAAGAGCGAAAATGAGA
Found at i:79637317 original size:56 final size:57
Alignment explanation
Indices: 79637229--79637356 Score: 181
Period size: 56 Copynumber: 2.3 Consensus size: 57
79637219 TTCAAGTCAG
*
79637229 TTTCATTTTCATTTTGGAGAAAACCATCATCATTT-CAAATG-TTTCCATTTC-TCTAT
1 TTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTT-CATTTCTTC-AT
* **
79637285 TTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCATATGATTTTGTTTCTTCAT
1 TTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCATTTCTTCAT
79637342 TTTCATTTTCATTTT
1 TTTCATTTTCATTTT
79637357 CATTTTCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
56 34 0.52
57 26 0.40
58 5 0.08
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (57 bp):
TTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTTCATTTCTTCAT
Found at i:79637348 original size:6 final size:6
Alignment explanation
Indices: 79637337--79637368 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
79637327 ATTTTGTTTC
79637337 TTCATT TTCATT TTCATT TTCATT TTCATT TT
1 TTCATT TTCATT TTCATT TTCATT TTCATT TT
79637369 GGAAAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Found at i:79638634 original size:12 final size:12
Alignment explanation
Indices: 79638604--79638634 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
79638594 CATGTCATCA
*
79638604 CACATGACCTAC
1 CACATGGCCTAC
79638616 CACATGGCCTAC
1 CACATGGCCTAC
79638628 CACATGG
1 CACATGG
79638635 TCGTGTGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.39, G:0.16, T:0.16
Consensus pattern (12 bp):
CACATGGCCTAC
Found at i:79642789 original size:30 final size:30
Alignment explanation
Indices: 79642753--79642812 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
79642743 AAAAGGATAG
79642753 TTGATGAACTCAACTTCTCTATTAAATTCA
1 TTGATGAACTCAACTTCTCTATTAAATTCA
*
79642783 TTGATGAACTCAACTTCTCTATTGAATTCA
1 TTGATGAACTCAACTTCTCTATTAAATTCA
79642813 ATTAGAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (30 bp):
TTGATGAACTCAACTTCTCTATTAAATTCA
Found at i:79644651 original size:22 final size:21
Alignment explanation
Indices: 79644613--79644653 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
79644603 GTTAGAATCT
**
79644613 TTATTTTTTTATTATTTTTCA
1 TTATTTTTTTAAAATTTTTCA
79644634 TTATTTTATTTAAAATTTTT
1 TTATTTT-TTTAAAATTTTT
79644654 ATATAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTTTTTTAAAATTTTTCA
Found at i:79644800 original size:24 final size:24
Alignment explanation
Indices: 79644773--79644819 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
79644763 ATAGATATAG
79644773 ATTAAAGAAAATT-TATATTTTAAA
1 ATTAAAG-AAATTCTATATTTTAAA
* *
79644797 ATTATAGTAATTCTATATTTTAA
1 ATTAAAGAAATTCTATATTTTAA
79644820 TATACTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTAAAGAAATTCTATATTTTAAA
Found at i:79647390 original size:23 final size:23
Alignment explanation
Indices: 79647364--79647438 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
79647354 TGATTTTTAA
* *
79647364 ATTTTGAATTATTTAGAGATAAT
1 ATTTAGAATTATTTAGTGATAAT
79647387 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
79647410 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
79647433 ATTTAG
1 ATTTAG
79647439 GAAAAATCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:79647391 original size:13 final size:13
Alignment explanation
Indices: 79647373--79647438 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
79647363 AATTTTGAAT
79647373 TATTTAGAGATAA
1 TATTTAGAGATAA
79647386 TATTTAGA-AT--
1 TATTTAGAGATAA
*
79647396 TATTTAGTGATAA
1 TATTTAGAGATAA
79647409 TATTTAG-GAT--
1 TATTTAGAGATAA
*
79647419 TATTTAGTGATAA
1 TATTTAGAGATAA
79647432 TATTTAG
1 TATTTAG
79647439 GAAAAATCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
10 14 0.30
11 5 0.11
12 5 0.11
13 22 0.48
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (13 bp):
TATTTAGAGATAA
Found at i:79651492 original size:40 final size:40
Alignment explanation
Indices: 79651437--79651512 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
79651427 TATTCGGATG
79651437 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
79651477 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
79651513 CCCGAAGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:79651514 original size:21 final size:21
Alignment explanation
Indices: 79651488--79651533 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
79651478 TATCCGGGCT
79651488 AAGTCCCGAAGGCATTTGTGC
1 AAGTCCCGAAGGCATTTGTGC
79651509 AAGTCCCGAAGGCATTTGTGC
1 AAGTCCCGAAGGCATTTGTGC
79651530 AAGT
1 AAGT
79651534 TACTATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (21 bp):
AAGTCCCGAAGGCATTTGTGC
Found at i:79651523 original size:61 final size:61
Alignment explanation
Indices: 79651448--79651569 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
79651438 TATCCGGGCT
79651448 AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
79651509 AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
79651570 TAGTGACTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (61 bp):
AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
Found at i:79651564 original size:40 final size:40
Alignment explanation
Indices: 79651509--79651678 Score: 236
Period size: 40 Copynumber: 4.3 Consensus size: 40
79651499 GCATTTGTGC
*
79651509 AAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCT
*
79651549 AAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCT
** *
79651589 AAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCT
* * *
79651629 AAGACCTGAAGGCATTTGTGCAAGTTG-CTATAT-CTGGCT
1 AAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCT
*
79651668 AAATCCCGAAG
1 AAGTCCCGAAG
79651679 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.11
40 101 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCT
Found at i:79655179 original size:17 final size:17
Alignment explanation
Indices: 79655129--79655180 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
79655119 ATTACCCTAA
*
79655129 AATTTAAAATACTA-TTT
1 AATTTAATATA-TATTTT
*
79655146 AATTTAATTTATATTTT
1 AATTTAATATATATTTT
* *
79655163 AATTTTATATATTTTTT
1 AATTTAATATATATTTT
79655180 A
1 A
79655181 TAAATAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 2 0.07
17 27 0.93
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTAATATATATTTT
Found at i:79655538 original size:17 final size:17
Alignment explanation
Indices: 79655516--79655551 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
79655506 AAAAGAAGTG
79655516 TAGTTCTATATGGATTT
1 TAGTTCTATATGGATTT
79655533 TAGTTCTATATGGATTT
1 TAGTTCTATATGGATTT
79655550 TA
1 TA
79655552 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (17 bp):
TAGTTCTATATGGATTT
Found at i:79659813 original size:23 final size:23
Alignment explanation
Indices: 79659778--79659837 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
79659768 AAACCCTTTC
* *
79659778 GAGAA-AAAA-TCACTGGCAGAG
1 GAGAAGAAAATTCACTGGCAAAA
*
79659799 GAGAAGAAAATTCACTGGTAAAA
1 GAGAAGAAAATTCACTGGCAAAA
79659822 GAGAAGAAAATTCACT
1 GAGAAGAAAATTCACT
79659838 ATGTCAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 5 0.15
22 4 0.12
23 25 0.74
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (23 bp):
GAGAAGAAAATTCACTGGCAAAA
Found at i:79660118 original size:19 final size:20
Alignment explanation
Indices: 79660091--79660129 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
79660081 AAATAGTAAT
79660091 AATAGTTTAA-ATATAAAAA
1 AATAGTTTAATATATAAAAA
* *
79660110 AATATTTTAATTTATAAAAA
1 AATAGTTTAATATATAAAAA
79660130 TTAATAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAGTTTAATATATAAAAA
Found at i:79660367 original size:39 final size:39
Alignment explanation
Indices: 79660323--79660532 Score: 135
Period size: 39 Copynumber: 5.2 Consensus size: 39
79660313 GAAAAAAAAA
*
79660323 TTAAATAGAAGAGAATATATTTTCATGATATTGCTAAAT
1 TTAAATAGAAAAGAATATATTTTCATGATATTGCTAAAT
* * * * * *
79660362 TTAAATATTAAAATATTTATAATTT-AT-AAATTG-TGAAAAAAAA
1 TTAAATA-GAAAAGA-ATATATTTTCATGATATTGCT-----AAAT
79660405 TTAAATAGAAAAGAATATATTTTCATGATATTGCTAAAT
1 TTAAATAGAAAAGAATATATTTTCATGATATTGCTAAAT
* * * * * *
79660444 TTAAATATTAAAATATTTATAATTT-AT-AAATTG-TGAAAAAAAA
1 TTAAATA-GAAAAGA-ATATATTTTCATGATATTGCT-----AAAT
79660487 TTAAATAGAAAAGAATATATTTTCATGATATTGCTAAAT
1 TTAAATAGAAAAGAATATATTTTCATGATATTGCTAAAT
79660526 TTAAATA
1 TTAAATA
79660533 TTAAAATATT
Statistics
Matches: 126, Mismatches: 25, Indels: 40
0.66 0.13 0.21
Matches are distributed among these distances:
38 2 0.02
39 37 0.29
40 13 0.10
41 28 0.22
42 14 0.11
43 30 0.24
44 2 0.02
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (39 bp):
TTAAATAGAAAAGAATATATTTTCATGATATTGCTAAAT
Found at i:79660410 original size:82 final size:82
Alignment explanation
Indices: 79660315--79660561 Score: 485
Period size: 82 Copynumber: 3.0 Consensus size: 82
79660305 ACAAGTTTGA
*
79660315 AAAAAAAATTAAATAGAAGAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
1 AAAAAAAATTAAATAGAAAAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
79660380 ATAATTTATAAATTGTG
66 ATAATTTATAAATTGTG
79660397 AAAAAAAATTAAATAGAAAAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
1 AAAAAAAATTAAATAGAAAAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
79660462 ATAATTTATAAATTGTG
66 ATAATTTATAAATTGTG
79660479 AAAAAAAATTAAATAGAAAAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
1 AAAAAAAATTAAATAGAAAAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
79660544 ATAATTTATAAATTGTG
66 ATAATTTATAAATTGTG
79660561 A
1 A
79660562 TGATTGCACA
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 164 1.00
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (82 bp):
AAAAAAAATTAAATAGAAAAGAATATATTTTCATGATATTGCTAAATTTAAATATTAAAATATTT
ATAATTTATAAATTGTG
Found at i:79662213 original size:4 final size:4
Alignment explanation
Indices: 79662206--79662258 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
79662196 CAAAATAAAT
* * * *
79662206 ATTA ATTA ATTA ATTA ATTTA ATTA ACTAA ATTA ATTT CTTA ATTA AATA
1 ATTA ATTA ATTA ATTA A-TTA ATTA A-TTA ATTA ATTA ATTA ATTA ATTA
79662256 ATT
1 ATT
79662259 TTCTCAAGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
4 32 0.82
5 7 0.18
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:79662261 original size:17 final size:17
Alignment explanation
Indices: 79662211--79662262 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
79662201 TAAATATTAA
* **
79662211 TTAATTAATTAATTTAA
1 TTAATTAAATAATTTTC
*
79662228 TTAACTAAATTAA-TTTC
1 TTAATTAAA-TAATTTTC
79662245 TTAATTAAATAATTTTC
1 TTAATTAAATAATTTTC
79662262 T
1 T
79662263 CAAGCTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 22 0.79
18 3 0.11
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAATTAAATAATTTTC
Found at i:79671109 original size:12 final size:13
Alignment explanation
Indices: 79671075--79671112 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
79671065 TTTTTAATAC
*
79671075 TATAATAATATATG
1 TATAATAAT-TATA
79671089 TATAATAATTATA
1 TATAATAATTATA
79671102 TA-AATAATTAT
1 TATAATAATTAT
79671113 TATTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
13 5 0.22
14 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TATAATAATTATA
Found at i:79671509 original size:7 final size:7
Alignment explanation
Indices: 79671499--79671523 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
79671489 TAATAAACAA
79671499 TAATAGT
1 TAATAGT
79671506 TAATAGT
1 TAATAGT
79671513 TAATAGT
1 TAATAGT
79671520 TAAT
1 TAAT
79671524 GTACTACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TAATAGT
Found at i:79671550 original size:16 final size:16
Alignment explanation
Indices: 79671526--79671556 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79671516 TAGTTAATGT
79671526 ACTACTATTATATATA
1 ACTACTATTATATATA
*
79671542 ACTATTATTATATAT
1 ACTACTATTATATAT
79671557 TATAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
ACTACTATTATATATA
Found at i:79689270 original size:3 final size:3
Alignment explanation
Indices: 79689262--79689294 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
79689252 AATTCTAAAA
79689262 AAG AAG AAG AAG AAG AAG AAG -AG AA- AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
79689295 ATCATATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:79689425 original size:11 final size:11
Alignment explanation
Indices: 79689409--79689438 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
79689399 CTATATCGCC
79689409 AAAAAAACAAA
1 AAAAAAACAAA
79689420 AAAAAAACAAA
1 AAAAAAACAAA
79689431 AACAAAAA
1 AA-AAAAA
79689439 GATCATGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:79691006 original size:96 final size:96
Alignment explanation
Indices: 79690870--79691052 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
79690860 AGCCACCAGC
* *
79690870 CTTATCTCCCTGAAGTTGCAACAGAGCAGACTGAGGACAGCGAATCTTATTTCCCTGACATTGCA
1 CTTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGACATTGCA
* ** *
79690935 GTGGAGTAGATTGAAGCTACAAGTTACGGGT
66 GCGGAACAGATTAAAGCTACAAGTTACGGGT
** * * **
79690966 CTTATCTCCCTGAAGTTTTAGC-GAAACAGACTGAATACAGCGAATCTTATTTCCCTGATGTTGC
1 CTTATCTCCCTGAAGTTGCAACAG-AACAGACTGAAGACAGCGAATCTTATTTCCCTGACATTGC
79691030 AGCGGAACAGATTAAAGCTACAA
65 AGCGGAACAGATTAAAGCTACAA
79691053 ATTATGACGA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 73 0.99
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (96 bp):
CTTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGACATTGCA
GCGGAACAGATTAAAGCTACAAGTTACGGGT
Found at i:79691039 original size:45 final size:45
Alignment explanation
Indices: 79690870--79691267 Score: 136
Period size: 45 Copynumber: 8.4 Consensus size: 45
79690860 AGCCACCAGC
* * * **
79690870 CTTATCTCCCTGAAGTTGCAACAGAGCAGACTGAGGACAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAATACAGCGAAT
* * ** * **
79690915 CTTATTTCCCTGACA-TTGCAGTGGAGTAGATTGAAGCTACAAGTTACGGGT
1 CTTATCTCCCTGA-AGTTGCAGCGGAACAGACTGAA--TAC-AG---CGAAT
** *
79690966 CTTATCTCCCTGAAGTTTTAGCGAAACAGACTGAATACAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAATACAGCGAAT
* * * *
79691011 CTTATTTCCCTGATGTTGCAGCGGAACAGATTAAAGCTACAAATTATGACGAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAA--TAC-----A-G-CGAAT
* * * * ** * **
79691065 CTTGTCTTCCTGAAGTTGCAG-TGAAGCAGATTGAAGCCA-CCAGC
1 CTTATCTCCCTGAAGTTGCAGCGGAA-CAGACTGAATACAGCGAAT
** * * * *
79691109 CTTATCTCCCTGAAGTTGCAGCGGAGTAGACTAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAATACAGCGAAT
* ** * ** * * * *
79691154 CTTATTTCTTTAAAGTTGCAGTAGAGCAGATTGAAGCTACAAGTTACGGAC
1 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAA--TAC-AG---CGAAT
* *
79691205 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAATACAGCGAAT
* *
79691250 CTCATTTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
79691268 TAGTGGGGCA
Statistics
Matches: 249, Mismatches: 78, Indels: 52
0.66 0.21 0.14
Matches are distributed among these distances:
44 29 0.12
45 106 0.43
46 1 0.00
47 7 0.03
48 8 0.03
49 4 0.02
50 1 0.00
51 57 0.23
52 2 0.01
53 4 0.02
54 30 0.12
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAATACAGCGAAT
Found at i:79691236 original size:96 final size:96
Alignment explanation
Indices: 79691108--79691321 Score: 302
Period size: 96 Copynumber: 2.2 Consensus size: 96
79691098 AAGCCACCAG
** * **
79691108 CCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTAAAGATAGCAAATCTTATTTCTTTAAAGTTGC
1 CCTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAAGATAGCAAATCTCATTTCCCTAAAGTTGC
*
79691173 AGTAGAGCAGATTGAAGCTACAAGTTACGGA
66 AGTAGAGCAGATTAAAGCTACAAGTTACGGA
* * * *
79691204 CCTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAAGATAGCGAATCTCATTTCCCTGAAGTTGT
1 CCTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAAGATAGCAAATCTCATTTCCCTAAAGTTGC
* *
79691269 AGTGGGGCAGATTAAAGCTACAAGTTACGGA
66 AGTAGAGCAGATTAAAGCTACAAGTTACGGA
* *
79691300 TCTTATCTCTCTGAAGTTGCAG
1 CCTTATCTCCCTGAAGTTGCAG
79691322 TAGGTCAATC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 104 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (96 bp):
CCTTATCTCCCTGAAGTTGCAGCGGAACAGACTAAAGATAGCAAATCTCATTTCCCTAAAGTTGC
AGTAGAGCAGATTAAAGCTACAAGTTACGGA
Found at i:79691240 original size:51 final size:51
Alignment explanation
Indices: 79691166--79691322 Score: 155
Period size: 51 Copynumber: 3.2 Consensus size: 51
79691156 TATTTCTTTA
* *
79691166 AAGTTGCAGTAGAGCAGATTGAAGCTACAAGTTACGGACCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAGTTACGGATCTTATCTCCCTG
* * * * * * *
79691217 AAGTTGCAGCGGAACAGACTGAAG--A-TAG---CGAATCTCATTTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAGTTACGGATCTTATCTCCCTG
* * * *
79691262 AAGTTGTAGTGGGGCAGATTAAAGCTACAAGTTACGGATCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGATTGAAGCTACAAGTTACGGATCTTATCTCCCTG
79691313 AAGTTGCAGT
1 AAGTTGCAGT
79691323 AGGTCAATCA
Statistics
Matches: 79, Mismatches: 21, Indels: 12
0.71 0.19 0.11
Matches are distributed among these distances:
45 31 0.39
47 1 0.01
48 4 0.05
49 1 0.01
51 42 0.53
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (51 bp):
AAGTTGCAGTGGAGCAGATTGAAGCTACAAGTTACGGATCTTATCTCCCTG
Found at i:79691249 original size:239 final size:239
Alignment explanation
Indices: 79690830--79691291 Score: 665
Period size: 239 Copynumber: 1.9 Consensus size: 239
79690820 ATAAATCTCA
*
79690830 TCTTCCTGAAGTTGCAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAACAGA
1 TCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAACAGA
* * * * * *
79690895 GCAGACTGAGGACAGCGAATCTTATTTCCCTGACATTGCAGTGGAGTAGATTGAAGCTACAAGTT
66 GCAGACTAAAGACAGCAAATCTTATTTCCCTGAAATTGCAGTAGAGCAGATTGAAGCTACAAGTT
** ** * * *
79690960 ACGGGTCTTATCTCCCTGAAGTTTTAGCGAAACAGACTGAATACAGCGAATCTTATTTCCCTGAT
131 ACGGACCTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAAGACAGCGAATCTCATTTCCCTGAA
79691025 GTTGCAGCGGAACAGATTAAAGCTACAAATTATGACGAATCTTG
196 GTTGCAGCGGAACAGATTAAAGCTACAAATTATGACGAATCTTG
* * *
79691069 TCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGA
1 TCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAACAGA
* * * *
79691134 GTAGACTAAAGATAGCAAATCTTATTT-CTTTAAAGTTGCAGTAGAGCAGATTGAAGCTACAAGT
66 GCAGACTAAAGACAGCAAATCTTATTTCCCTGAAA-TTGCAGTAGAGCAGATTGAAGCTACAAGT
* *
79691198 TACGGACCTTATCTCCCTGAAGTTGCAGCGGAACAGACTGAAGATAGCGAATCTCATTTCCCTGA
130 TACGGACCTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAAGACAGCGAATCTCATTTCCCTGA
* * **
79691263 AGTTGTAGTGGGGCAGATTAAAGCTACAA
195 AGTTGCAGCGGAACAGATTAAAGCTACAA
79691292 GTTACGGATC
Statistics
Matches: 195, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
238 4 0.02
239 191 0.98
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (239 bp):
TCTTCCTGAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAACAGA
GCAGACTAAAGACAGCAAATCTTATTTCCCTGAAATTGCAGTAGAGCAGATTGAAGCTACAAGTT
ACGGACCTTATCTCCCTGAAGTTGCAGCGAAACAGACTGAAGACAGCGAATCTCATTTCCCTGAA
GTTGCAGCGGAACAGATTAAAGCTACAAATTATGACGAATCTTG
Found at i:79692973 original size:4 final size:4
Alignment explanation
Indices: 79692952--79692995 Score: 52
Period size: 4 Copynumber: 10.2 Consensus size: 4
79692942 AAATTTAATA
*
79692952 TTAT TTAT GTCAT GTTAT TTAT TTAT TTATT TTAT TTAT TTAT T
1 TTAT TTAT -TTAT -TTAT TTAT TTAT TTA-T TTAT TTAT TTAT T
79692996 CTTCTAGCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 25 0.69
5 11 0.31
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:79692986 original size:17 final size:17
Alignment explanation
Indices: 79692952--79692996 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
79692942 AAATTTAATA
79692952 TTATTTATGTCATGTTAT
1 TTATTTAT-TCATGTTAT
* *
79692970 TTATTTATTTATTTTAT
1 TTATTTATTCATGTTAT
79692987 TTATTTATTC
1 TTATTTATTC
79692997 TTCTAGCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (17 bp):
TTATTTATTCATGTTAT
Found at i:79692987 original size:13 final size:13
Alignment explanation
Indices: 79692969--79692995 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79692959 TGTCATGTTA
79692969 TTTATTTATTTAT
1 TTTATTTATTTAT
79692982 TTTATTTATTTAT
1 TTTATTTATTTAT
79692995 T
1 T
79692996 CTTCTAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:79697993 original size:28 final size:28
Alignment explanation
Indices: 79697939--79697993 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
79697929 CATAAAATTT
* * *
79697939 AAAAAAATAAAATATTATAAAGGTCATG
1 AAAAAAATAAAAAAATATAAAAGTCATG
* *
79697967 AAAAATATAAAAAAATATAAAATTCAT
1 AAAAAAATAAAAAAATATAAAAGTCAT
79697994 TATCAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.25
Consensus pattern (28 bp):
AAAAAAATAAAAAAATATAAAAGTCATG
Found at i:79698058 original size:11 final size:11
Alignment explanation
Indices: 79698042--79698070 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
79698032 TATAAAAATT
79698042 TTCTATTAAAA
1 TTCTATTAAAA
79698053 TTCTATTAAAA
1 TTCTATTAAAA
79698064 TTC-ATTA
1 TTCTATTA
79698071 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTATTAAAA
Found at i:79703296 original size:18 final size:16
Alignment explanation
Indices: 79703273--79703314 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
79703263 TTTCTCTTAA
79703273 ATAATTTAAACTATATT
1 ATAATTTAAA-TATATT
*
79703290 CATAATTTTAATATATT
1 -ATAATTTAAATATATT
79703307 A-AATTTAA
1 ATAATTTAA
79703315 TATTATCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATTTAAATATATT
Found at i:79703394 original size:8 final size:7
Alignment explanation
Indices: 79703379--79703441 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
79703369 ACTAATTAAT
79703379 CTAAACC
1 CTAAACC
79703386 CTAAAACC
1 CT-AAACC
*
79703394 CTAACCC
1 CTAAACC
*
79703401 CTAACCC
1 CTAAACC
79703408 CTAAACC
1 CTAAACC
*
79703415 CTAAGCC
1 CTAAACC
* **
79703422 ATAAAAT
1 CTAAACC
*
79703429 ATAAACC
1 CTAAACC
79703436 CTAAAC
1 CTAAAC
79703442 TTCTACCCCT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
7 38 0.84
8 7 0.16
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:79703466 original size:14 final size:14
Alignment explanation
Indices: 79703432--79703474 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
79703422 ATAAAATATA
* *
79703432 AACCCTAAACTTCT
1 AACCCTTAACCTCT
*
79703446 ACCCCTTAACCTCT
1 AACCCTTAACCTCT
*
79703460 AACCCTTACCCTCT
1 AACCCTTAACCTCT
79703474 A
1 A
79703475 TCATCTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (14 bp):
AACCCTTAACCTCT
Found at i:79703766 original size:15 final size:15
Alignment explanation
Indices: 79703743--79703793 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
79703733 CTACCCATGG
*
79703743 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
79703758 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
79703773 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
79703787 CCTTAAA
1 CCATAAA
79703794 TATTAAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:79703810 original size:7 final size:7
Alignment explanation
Indices: 79703746--79703809 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
79703736 CCCATGGCCA
79703746 TTAAACC
1 TTAAACC
79703753 TTAAACC
1 TTAAACC
*
79703760 ATAAAACC
1 -TTAAACC
*
79703768 CTAAACC
1 TTAAACC
* *
79703775 ATAGACC
1 TTAAACC
79703782 TTAAACC
1 TTAAACC
**
79703789 TTAAATA
1 TTAAACC
79703796 TTAAACC
1 TTAAACC
*
79703803 CTAAACC
1 TTAAACC
79703810 CAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:79704039 original size:41 final size:42
Alignment explanation
Indices: 79703994--79704091 Score: 141
Period size: 41 Copynumber: 2.4 Consensus size: 42
79703984 GTTATATGAC
79703994 TTTTTA-CGGCGTTTTGAG-AAAAAA-CACAGCTATTGCTCTAT
1 TTTTTAGCGGCGTTTTGAGCAAAAAAGC-C-GCTATTGCTCTAT
*
79704035 TTTTTAGCGGTG-TTTGAGCAAAAAAGCCGCTATTGCTCTAT
1 TTTTTAGCGGCGTTTTGAGCAAAAAAGCCGCTATTGCTCTAT
79704076 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
79704092 TGGTAAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
41 36 0.71
42 14 0.27
43 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (42 bp):
TTTTTAGCGGCGTTTTGAGCAAAAAAGCCGCTATTGCTCTAT
Found at i:79706731 original size:25 final size:23
Alignment explanation
Indices: 79706686--79706739 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
79706676 ACATATATAT
*
79706686 ATAAAAACAATAAATAATATAAAA
1 ATAAAAACAATAAAGAATAT-AAA
* * *
79706710 ATAAAACATAATAAAGATTATATA
1 ATAAAA-ACAATAAAGAATATAAA
79706734 ATAAAA
1 ATAAAA
79706740 TGTAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
ATAAAAACAATAAAGAATATAAA
Found at i:79706792 original size:43 final size:46
Alignment explanation
Indices: 79706729--79706827 Score: 111
Period size: 48 Copynumber: 2.2 Consensus size: 46
79706719 AATAAAGATT
79706729 ATATAATA-AAATGTAATAT-AAAC-ATATA-AGAA-AAATAATAG
1 ATATAATATAAATGTAATATAAAACAATATATAGAAGAAATAATAG
* *
79706770 ATATAATATAAA-GTAATGTATAAAACAATATATATAAGTAATTAATAG
1 ATATAATATAAATGTAA--TATAAAACAATATATAGAAG-AAATAATAG
79706818 ATATAATATA
1 ATATAATATA
79706828 TGTGAAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
41 12 0.25
42 3 0.06
43 3 0.06
44 4 0.08
45 5 0.10
46 3 0.06
48 18 0.38
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (46 bp):
ATATAATATAAATGTAATATAAAACAATATATAGAAGAAATAATAG
Found at i:79706928 original size:20 final size:22
Alignment explanation
Indices: 79706673--79706780 Score: 60
Period size: 22 Copynumber: 4.8 Consensus size: 22
79706663 CATGATATAC
*
79706673 ATAACATATATATATAA-AAACA
1 ATAATATATATATATAATAAA-A
*
79706695 ATAA-ATA-ATATAAAAATAAAA
1 ATAATATATATAT-ATAATAAAA
* *
79706716 CATAATAAAGATTATATAATAAAA
1 -ATAATATATA-TATATAATAAAA
* * * *
79706740 TGTAATATAAACATATAAGAAAA
1 -ATAATATATATATATAATAAAA
*
79706763 ATAATAGATATAATATAA
1 ATAATATATAT-ATATAA
79706781 AGTAATGTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
20 4 0.06
21 7 0.11
22 18 0.27
23 18 0.27
24 16 0.24
25 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (22 bp):
ATAATATATATATATAATAAAA
Found at i:79714324 original size:37 final size:36
Alignment explanation
Indices: 79714271--79714346 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
79714261 ATTCCAAAAA
*
79714271 TAATATTATTTTAATAGT-TTGATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
79714307 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
79714344 TAA
1 TAA
79714347 AATGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:79716500 original size:12 final size:13
Alignment explanation
Indices: 79716483--79716511 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
79716473 TGTTTTCTCC
79716483 AAAATGAAAAA-G
1 AAAATGAAAAACG
79716495 AAAATGAAAAACG
1 AAAATGAAAAACG
79716508 AAAA
1 AAAA
79716512 ATGACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (13 bp):
AAAATGAAAAACG
Found at i:79716887 original size:22 final size:24
Alignment explanation
Indices: 79716861--79716916 Score: 80
Period size: 22 Copynumber: 2.4 Consensus size: 24
79716851 ATTCTTATTT
*
79716861 AATTAGCAAATATATT-TTTAA-A
1 AATTAGAAAATATATTATTTAATA
*
79716883 AATTATAAAATATATTATTTAATA
1 AATTAGAAAATATATTATTTAATA
79716907 AATTAGAAAA
1 AATTAGAAAA
79716917 AACAGATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 14 0.48
23 5 0.17
24 10 0.34
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (24 bp):
AATTAGAAAATATATTATTTAATA
Found at i:79717741 original size:22 final size:22
Alignment explanation
Indices: 79717716--79717780 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
79717706 GCACTATTAA
79717716 ACAGAGAGCACTAAA-GTGCTAT
1 ACAGAGAGCAC-AAATGTGCTAT
*
79717738 ACAGAGAGCACAAATGTGCTAA
1 ACAGAGAGCACAAATGTGCTAT
* *
79717760 ACGGAAAGCA-ATAATGTGCTA
1 ACAGAGAGCACA-AATGTGCTA
79717781 ATAATCGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 4 0.11
22 34 0.89
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
ACAGAGAGCACAAATGTGCTAT
Found at i:79726933 original size:20 final size:19
Alignment explanation
Indices: 79726908--79726948 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
79726898 ATGTAAGAAA
*
79726908 ATAAAAATACTTAAAATAAC
1 ATAAAAAT-CTCAAAATAAC
*
79726928 ATAAAAATGTCAAAATAAC
1 ATAAAAATCTCAAAATAAC
79726947 AT
1 AT
79726949 CAATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAAAATCTCAAAATAAC
Found at i:79731420 original size:22 final size:21
Alignment explanation
Indices: 79731379--79731423 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
79731369 ACACAAAATA
79731379 AATACAAAAATCTACATTTTT
1 AATACAAAAATCTACATTTTT
*
79731400 AATACGAAAATCTACATTTTT
1 AATACAAAAATCTACATTTTT
79731421 AAT
1 AAT
79731424 CTTACAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (21 bp):
AATACAAAAATCTACATTTTT
Found at i:79734587 original size:17 final size:17
Alignment explanation
Indices: 79734565--79734609 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
79734555 TTTTTAATAA
79734565 ATAAATATGA-TTTATAT
1 ATAAATATGATTTTAT-T
79734582 ATAAATATGATTTTATT
1 ATAAATATGATTTTATT
*
79734599 TTAAATATGAT
1 ATAAATATGAT
79734610 AATGACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
ATAAATATGATTTTATT
Found at i:79735079 original size:17 final size:17
Alignment explanation
Indices: 79735047--79735080 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
79735037 TTACATTCAT
*
79735047 AATAATTTTTAATATAA
1 AATAATTTTGAATATAA
*
79735064 AATAATTTTGATTATAA
1 AATAATTTTGAATATAA
79735081 TCTTGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATAATTTTGAATATAA
Found at i:79736045 original size:13 final size:15
Alignment explanation
Indices: 79736011--79736047 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
79736001 TAATTATCAT
79736011 TTAATTAATATTAAAG
1 TTAATT-ATATTAAAG
79736027 TTAATTATATT-AA-
1 TTAATTATATTAAAG
79736040 TTAATTAT
1 TTAATTAT
79736048 TATTTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 5 0.24
16 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAATTATATTAAAG
Found at i:79740530 original size:26 final size:26
Alignment explanation
Indices: 79740500--79740551 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
79740490 AGGTTCTATT
*
79740500 TTTATAGACTAAGAAACTAAAATTAA
1 TTTATAGAATAAGAAACTAAAATTAA
*
79740526 TTTATAGAATAAGAAACTATAATTAA
1 TTTATAGAATAAGAAACTAAAATTAA
79740552 GGCAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTATAGAATAAGAAACTAAAATTAA
Found at i:79745730 original size:14 final size:15
Alignment explanation
Indices: 79745711--79745739 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79745701 TATATTATAC
79745711 ATTAATTAA-TTAAT
1 ATTAATTAACTTAAT
79745725 ATTAATTAACTTAAT
1 ATTAATTAACTTAAT
79745740 TAAAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATTAACTTAAT
Found at i:79752177 original size:46 final size:46
Alignment explanation
Indices: 79752123--79752215 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
79752113 CAACTTTTTC
*
79752123 ATAATCTTTATTAAAATATCTCAAATAATCATCATTTTGAAGATCT
1 ATAATCTTTATTAAAAGATCTCAAATAATCATCATTTTGAAGATCT
*
79752169 ATAATCTTTCTTAAAAGATCTCAAATAATCATCATTTTGAAGATCT
1 ATAATCTTTATTAAAAGATCTCAAATAATCATCATTTTGAAGATCT
79752215 A
1 A
79752216 ACTCTATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (46 bp):
ATAATCTTTATTAAAAGATCTCAAATAATCATCATTTTGAAGATCT
Found at i:79752213 original size:25 final size:25
Alignment explanation
Indices: 79752140--79752214 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
79752130 TTATTAAAAT
79752140 ATCTCAAATAATCATCATTTTGAAG
1 ATCTCAAATAATCATCATTTTGAAG
*
79752165 ATCT---ATAATC-T--TTCTTAAAAG
1 ATCTCAAATAATCATCATT-TT-GAAG
79752186 ATCTCAAATAATCATCATTTTGAAG
1 ATCTCAAATAATCATCATTTTGAAG
79752211 ATCT
1 ATCT
79752215 AACTCTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 8 0.20
22 6 0.15
24 6 0.15
25 12 0.30
26 2 0.05
27 2 0.05
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (25 bp):
ATCTCAAATAATCATCATTTTGAAG
Found at i:79752605 original size:11 final size:11
Alignment explanation
Indices: 79752589--79752616 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
79752579 GTATATTTTC
79752589 TTTTTTCATGT
1 TTTTTTCATGT
79752600 TTTTTTCATGT
1 TTTTTTCATGT
79752611 TTTTTT
1 TTTTTT
79752617 GTTTGTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTCATGT
Found at i:79760515 original size:22 final size:22
Alignment explanation
Indices: 79760489--79760535 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
79760479 CAAATTAATT
*
79760489 TATAAATTTATTGTGTATCATA
1 TATAAATTTATTGTGTAGCATA
* * *
79760511 TATAATTTTTTTGTTTAGCATA
1 TATAAATTTATTGTGTAGCATA
79760533 TAT
1 TAT
79760536 TATTCAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (22 bp):
TATAAATTTATTGTGTAGCATA
Found at i:79767747 original size:221 final size:220
Alignment explanation
Indices: 79767352--79767789 Score: 635
Period size: 221 Copynumber: 2.0 Consensus size: 220
79767342 CTTCCAAGAA
* * * * * * *
79767352 GGGTTTCCAATCTCTTTACTCACTCCATTCAGTGAACGTACTTAAATGCACACATATGGAATTAG
1 GGGTTTCCAATATCTTTACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTAG
*
79767417 CAAACTGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
66 CAAACTGTCAGTACTAAGTACTATTCCAAATTCGGAGCAAAATGCATGCAAATAAGAGATCAAAT
* * * * * * * *
79767482 ACACAATCCCATAGCATAAAAGACCAAAACATAAAACAAAAGCAAAGCTTTCAGCTTCATATAAT
131 ACAAAATCCCATAGCACAAAAAACCAAAACACAAAACAAAAGCAAAGCTTCCAACTCCATATAAC
79767547 TTGCATTTTTTTAAAAGGCTATAAAG
196 TTGCA-TTTTTTAAAAGGCTATAAAG
79767573 GGGTTTCCAATATCTTTGA-TCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTA
1 GGGTTTCCAATATCTTT-ACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTA
* *
79767637 GCAAACTGTCAGTACTAAGTACTATTCCAAATTCGGAGCAAAATGCATGCAGATAAGAGATCAAG
65 GCAAACTGTCAGTACTAAGTACTATTCCAAATTCGGAGCAAAATGCATGCAAATAAGAGATCAAA
* * * *
79767702 TACAAAATCTCATAGCACAAAAAACCATAACACAAACCTAAAGCAAAGCTTCCAACTCCATATAA
130 TACAAAATCCCATAGCACAAAAAACCAAAACACAAAACAAAAGCAAAGCTTCCAACTCCATATAA
* *
79767767 CTTGGATTTTTTAAAAGGTTATA
195 CTTGCATTTTTTAAAAGGCTATA
79767790 TATTGTTTCT
Statistics
Matches: 192, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
220 16 0.08
221 175 0.91
222 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (220 bp):
GGGTTTCCAATATCTTTACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTAG
CAAACTGTCAGTACTAAGTACTATTCCAAATTCGGAGCAAAATGCATGCAAATAAGAGATCAAAT
ACAAAATCCCATAGCACAAAAAACCAAAACACAAAACAAAAGCAAAGCTTCCAACTCCATATAAC
TTGCATTTTTTAAAAGGCTATAAAG
Found at i:79770309 original size:14 final size:14
Alignment explanation
Indices: 79770290--79770319 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79770280 TAAAAATTAT
79770290 AAATAATAATAGTA
1 AAATAATAATAGTA
*
79770304 AAATAATAGTAGTA
1 AAATAATAATAGTA
79770318 AA
1 AA
79770320 CGGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AAATAATAATAGTA
Found at i:79770373 original size:14 final size:14
Alignment explanation
Indices: 79770323--79770365 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
79770313 TAGTAAACGG
79770323 TAAA-AAAA-ATAA
1 TAAATAAAATATAA
*
79770335 TAAATAAAATATGA
1 TAAATAAAATATAA
79770349 TAAATAAAATATAA
1 TAAATAAAATATAA
79770363 TAA
1 TAA
79770366 GTATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 19 0.70
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAATAAAATATAA
Found at i:79770426 original size:32 final size:30
Alignment explanation
Indices: 79770369--79770427 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
79770359 ATAATAAGTA
**
79770369 TAATAAAATATATTTAAAATTATTAACTTT
1 TAATAAAATATATTTAAAAAAATTAACTTT
79770399 TAATAAAATATATATATAAAAAAATTAAC
1 TAATAAAATATAT-T-TAAAAAAATTAAC
79770428 ATAAGTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATAAAATATATTTAAAAAAATTAACTTT
Found at i:79772161 original size:135 final size:135
Alignment explanation
Indices: 79771928--79772234 Score: 443
Period size: 135 Copynumber: 2.3 Consensus size: 135
79771918 GATCTGCTGT
* * * * * *
79771928 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAAATCTGGTATGTTTAGCTTGCTCCACTCT
1 AATTTGATCTGCTTTGCTCCTGCTCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
* * * * *
79771993 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCTATTGCCGATATATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTC
*
79772058 ATCAA
131 ACCAA
*
79772063 AATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTTGCTCCTGCTCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
* * *
79772128 TGCTTAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTC
66 TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTC
79772193 ACCAA
131 ACCAA
* **
79772198 AATTTGAACTGCTCCGCTCCTGCTCAGTGAAGATAAG
1 AATTTGATCTGCTTTGCTCCTGCTCAGTGAAGATAAG
79772235 GCTGGTGGCT
Statistics
Matches: 152, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
135 152 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (135 bp):
AATTTGATCTGCTTTGCTCCTGCTCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGATGACTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTC
ACCAA
Found at i:79772218 original size:90 final size:90
Alignment explanation
Indices: 79772116--79772324 Score: 339
Period size: 90 Copynumber: 2.3 Consensus size: 90
79772106 TATATTTAGC
*
79772116 CTGCTCCACTCCTGCTTAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
79772181 GAGATAAGA-TTCACCAAAATTTGAA
66 GAGATAAGACTT-ACCAAAATTTGAA
* *
79772206 CTGCTCCGCTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
* *
79772271 GAGATAAGACTTGCCAAAATTTGAT
66 GAGATAAGACTTACCAAAATTTGAA
* *
79772296 TTGCTTCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
79772325 ATCTGGTATG
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
90 108 0.98
91 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (90 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATG
GAGATAAGACTTACCAAAATTTGAA
Found at i:79784333 original size:14 final size:14
Alignment explanation
Indices: 79784314--79784344 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79784304 TAAAAATTAT
79784314 AAATAATAATAGTA
1 AAATAATAATAGTA
*
79784328 AAATAATAGTAGTA
1 AAATAATAATAGTA
79784342 AAA
1 AAA
79784345 GGTAAATAAA
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:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (14 bp):
AAATAATAATAGTA
Found at i:79784396 original size:18 final size:17
Alignment explanation
Indices: 79784349--79784403 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
79784339 GTAAAAGGTA
* *
79784349 AATAAAATAATAAATAA
1 AATAAGATAATAAATAT
*
79784366 AATATGATAAATAAATAT
1 AATAAGAT-AATAAATAT
79784384 AATAAGCATAATAAACTAT
1 AATAAG-ATAATAAA-TAT
79784403 A
1 A
79784404 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 6 0.19
18 19 0.61
19 6 0.19
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (17 bp):
AATAAGATAATAAATAT
Found at i:79784449 original size:32 final size:30
Alignment explanation
Indices: 79784392--79784450 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
79784382 ATAATAAGCA
* **
79784392 TAATAAACTATATTTAAAATTATTAACTTT
1 TAATAAAATATATTTAAAAAAATTAACTTT
79784422 TAATAAAATATATATATAAAAAAATTAAC
1 TAATAAAATATAT-T-TAAAAAAATTAAC
79784451 ATAAGTAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.50
31 1 0.04
32 11 0.46
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (30 bp):
TAATAAAATATATTTAAAAAAATTAACTTT
Found at i:79784731 original size:23 final size:23
Alignment explanation
Indices: 79784705--79784763 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
79784695 ATAGTGTAAA
*
79784705 AAAATAA-TATAATAAATGATAGG
1 AAAATAACTA-AAAAAATGATAGG
*
79784728 AAAATAACTAAAAAAATGATAGT
1 AAAATAACTAAAAAAATGATAGG
* *
79784751 AAAAAAAATAAAA
1 AAAATAACTAAAA
79784764 TAGTAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (23 bp):
AAAATAACTAAAAAAATGATAGG
Found at i:79790763 original size:48 final size:47
Alignment explanation
Indices: 79790708--79791119 Score: 407
Period size: 48 Copynumber: 8.7 Consensus size: 47
79790698 GTGAATTTGT
* * *
79790708 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATAT-GC
* * * * *
79790756 CGATGCCATGTCCCAAACTTGGTCTTACACTAGCGCACATATTAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGC
* * * *
79790804 CGATGCCATGTTCCAAACATGGTCTTATATTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATAT-GC
* * * * * ** *
79790852 TGATGCCATGTCCCAAACACGGTCTTATACTAGCTCTCGTCTTAATAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGC
* * *
79790900 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATTTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATAT-GC
* *
79790948 TGATGCCATGTCCCAAACATGGTCTTACACTGGGTCTCATAATATG-
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGC
* * * *
79790994 -GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAT-ATCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT--ATGC
* * * *
79791041 CGATGCTATGTTCCAAACATGGTCTTACACTGGCTCTGATAATGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATAT-GC
* * *
79791089 TGATGCCATGTTCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAAACATGGTCTTACACT
79791120 AGCACGCATG
Statistics
Matches: 295, Mismatches: 59, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
44 2 0.01
45 34 0.12
46 3 0.01
47 4 0.01
48 248 0.84
49 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGC
Found at i:79790876 original size:96 final size:96
Alignment explanation
Indices: 79790708--79791119 Score: 451
Period size: 96 Copynumber: 4.3 Consensus size: 96
79790698 GTGAATTTGT
* *
79790708 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAAA
* *
79790773 CTTGGTCTTACACTAGCGCACATATTAATGC
66 CATGGTCTTACACTAGCGCTCATATTAATGC
* * * *
79790804 CGATGCCATGTTCCAAACATGGTCTTATATTGGCTCTCATAATGTGGCTGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAAA
* * * * * *
79790869 CACGGTCTTATACTAGCTCTCGTCTTAATAC
66 CATGGTCTTACACTAGCGCTCATATTAATGC
* *
79790900 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATTTGGCTGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAAA
* *
79790965 CATGGTCTTACACT-GGGTCTCATAAT-ATG-
66 CATGGTCTTACACTAGCG-CTCATATTAATGC
* * * * * * *
79790994 -GATGCCATGTCCCAGACATGGTCTTACACTAGCGCACAT-ATCAAT-GCCGATGCTATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT--GTGGCTGATGCCATGTCCCA
* * * * *
79791056 AACATGGTCTTACACTGGCTCTGATAAT-GTGGC
64 AACATGGTCTTACACTAGCGCTCATATTAAT-GC
* *
79791089 TGATGCCATGTTCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
79791120 AGCACGCATG
Statistics
Matches: 268, Mismatches: 41, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
92 2 0.01
93 73 0.27
94 3 0.01
95 3 0.01
96 187 0.70
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCCAAA
CATGGTCTTACACTAGCGCTCATATTAATGC
Found at i:79796257 original size:18 final size:18
Alignment explanation
Indices: 79796234--79796269 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
79796224 GAAAATTATA
79796234 TGAAAATCCCT-GAAGGAT
1 TGAAAAT-CCTAGAAGGAT
79796252 TGAAAATCCTAGAAGGAT
1 TGAAAATCCTAGAAGGAT
79796270 ATAGAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (18 bp):
TGAAAATCCTAGAAGGAT
Found at i:79805703 original size:42 final size:42
Alignment explanation
Indices: 79805656--79805843 Score: 216
Period size: 42 Copynumber: 4.5 Consensus size: 42
79805646 TGAGGTTACG
79805656 TGTAAGACCATATCTGGGACATGGCATCGATATGAGACTTCA
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGACTTCA
* * ** * *
79805698 TGTAAGACCATATCTGGAATATAACATCAATATGAGACTTCG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGACTTCA
* * ** * *
79805740 TGTAAGACCATAACTGGGATATTTCATTGATATGAGACTTCG
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAGACTTCA
* * *
79805782 TGTAAGACCATAGCTGGG-CTATTGGCATCGATACGAGAATTCA
1 TGTAAGACCATATCTGGGAC-A-TGGCATCGATATGAGACTTCA
79805825 TGTAAGACCATATCTGGGA
1 TGTAAGACCATATCTGGGA
79805844 TATGTAATTG
Statistics
Matches: 122, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 90 0.74
43 32 0.26
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCATCGATATGAGACTTCA
Found at i:79817881 original size:12 final size:12
Alignment explanation
Indices: 79817864--79817893 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
79817854 TCAGTGAGTT
*
79817864 ACACGGGGTAGG
1 ACACGGGCTAGG
79817876 ACACGGGCTAGG
1 ACACGGGCTAGG
79817888 ACACGG
1 ACACGG
79817894 CCATGTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.43, T:0.07
Consensus pattern (12 bp):
ACACGGGCTAGG
Found at i:79823160 original size:9 final size:9
Alignment explanation
Indices: 79823146--79823174 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
79823136 TGACTCCTAT
79823146 AGAGTTAAA
1 AGAGTTAAA
79823155 AGAGTTAAA
1 AGAGTTAAA
79823164 AGAGTTAAA
1 AGAGTTAAA
79823173 AG
1 AG
79823175 CTCAATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (9 bp):
AGAGTTAAA
Found at i:79825842 original size:26 final size:26
Alignment explanation
Indices: 79825813--79825870 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
79825803 CTATATGGGA
* *
79825813 ACCCGAGGAAGCTATGAGAAAATAGT
1 ACCCAAGGAAGCTATGAGAAAACAGT
*
79825839 ACCCAAGGAAGCTATGAGGAAACAGT
1 ACCCAAGGAAGCTATGAGAAAACAGT
79825865 ACCCAA
1 ACCCAA
79825871 ACTTATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (26 bp):
ACCCAAGGAAGCTATGAGAAAACAGT
Found at i:79842129 original size:294 final size:294
Alignment explanation
Indices: 79841600--79842202 Score: 1197
Period size: 294 Copynumber: 2.1 Consensus size: 294
79841590 AAAAACAGGG
79841600 GCACACGCCCGTGTGGGAGGTGACATGCCCGTGTGATCGGCTTGACATGGTCGTGTTGGTGACCC
1 GCACACGCCCGTGTGGGAGGTGACATGCCCGTGTGATCGGCTTGACATGGTCGTGTTGGTGACCC
79841665 GTGTGGTTCACACGGCCTGGTGTCTATTGGGACACGCCCGAGTCCCTAGCCCGTGTGGAATTTAA
66 GTGTGGTTCACACGGCCTGGTGTCTATTGGGACACGCCCGAGTCCCTAGCCCGTGTGGAATTTAA
79841730 TTTTTAGTTCAAAGTGCAGTGGTTTTCACACGGCTCGACACATGCCCATATGTCTGGCCCGTGTC
131 TTTTTAGTTCAAAGTGCAGTGGTTTTCACACGGCTCGACACATGCCCATATGTCTGGCCCGTGTC
79841795 TTCCCACACGACCTTAACACGCCGGTGTCTTGGCCCGTGTCTAAAAACTAGGGCATTCTGTTTCT
196 TTCCCACACGACCTTAACACGCCGGTGTCTTGGCCCGTGTCTAAAAACTAGGGCATTCTGTTTCT
79841860 AACGTCATCATAGCCAAAAAGTCACATGGCTGAA
261 AACGTCATCATAGCCAAAAAGTCACATGGCTGAA
79841894 GCACACGCCCGTGTGGGAGGTGACATGCCCGTGTGATCGGCTTGACATGGTCGTGTTGGTGACCC
1 GCACACGCCCGTGTGGGAGGTGACATGCCCGTGTGATCGGCTTGACATGGTCGTGTTGGTGACCC
79841959 GTGTGGTTCACACGGCCTGGTGTCTATTGGGACACGCCCGAGTCCCTAGCCCGTGTGGAATTTAA
66 GTGTGGTTCACACGGCCTGGTGTCTATTGGGACACGCCCGAGTCCCTAGCCCGTGTGGAATTTAA
79842024 TTTTTAGTTCAAAGTGCAGTGGTTTTCACACGGCTCGACACATGCCCATATGTCTGGCCCGTGTC
131 TTTTTAGTTCAAAGTGCAGTGGTTTTCACACGGCTCGACACATGCCCATATGTCTGGCCCGTGTC
79842089 TTCCCACACGACCTTAACACGCCGGTGTCTTGGCCCGTGTCTAAAAACTAGGGCATTCTGTTTCT
196 TTCCCACACGACCTTAACACGCCGGTGTCTTGGCCCGTGTCTAAAAACTAGGGCATTCTGTTTCT
79842154 AACGTCATCATAGCCAAAAAGTCACATGGCTGAA
261 AACGTCATCATAGCCAAAAAGTCACATGGCTGAA
*
79842188 GCACATGCCCGTGTG
1 GCACACGCCCGTGTG
79842203 CTAGGCCGTG
Statistics
Matches: 308, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
294 308 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (294 bp):
GCACACGCCCGTGTGGGAGGTGACATGCCCGTGTGATCGGCTTGACATGGTCGTGTTGGTGACCC
GTGTGGTTCACACGGCCTGGTGTCTATTGGGACACGCCCGAGTCCCTAGCCCGTGTGGAATTTAA
TTTTTAGTTCAAAGTGCAGTGGTTTTCACACGGCTCGACACATGCCCATATGTCTGGCCCGTGTC
TTCCCACACGACCTTAACACGCCGGTGTCTTGGCCCGTGTCTAAAAACTAGGGCATTCTGTTTCT
AACGTCATCATAGCCAAAAAGTCACATGGCTGAA
Found at i:79843281 original size:46 final size:47
Alignment explanation
Indices: 79843068--79843281 Score: 192
Period size: 46 Copynumber: 4.6 Consensus size: 47
79843058 GTGTCGATCC
* * *
79843068 CATGTCCCAGACATGGTCTTACACT-GACTATCAT-CTTGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTACCATACTCGTGGCCGATG
* * * *
79843115 CATGTCCCAGACATGTTTTACACTGGCTTA-CA-ACTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TACCATACTCGTGGCCGATG
* * *
79843161 CATGTCCCAAACATGTCTTACACTA-CCACTCGT-CTCAGT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTAC-CATACTC-GTGGCCGATG
* *
79843207 CCATGTCCCAAACATGGTCTTACACTAGCTACCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTACCATACTCGTGGCCGATG
*
79843255 CATGTCCCAGATATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
79843282 ACCCACAAGT
Statistics
Matches: 138, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 66 0.48
47 46 0.33
48 20 0.14
49 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTACCATACTCGTGGCCGATG
Found at i:79843656 original size:30 final size:30
Alignment explanation
Indices: 79843615--79843672 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
79843605 AAATTCACAT
*
79843615 CCTTGGTAAAATGACCATTTTGCCCCTAGA
1 CCTTGGCAAAATGACCATTTTGCCCCTAGA
79843645 CCTTGGCAAAATGACCATTTTGCCCCTA
1 CCTTGGCAAAATGACCATTTTGCCCCTA
79843673 TGCTCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (30 bp):
CCTTGGCAAAATGACCATTTTGCCCCTAGA
Found at i:79847646 original size:15 final size:15
Alignment explanation
Indices: 79847626--79847655 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79847616 GGGGAGTTGA
79847626 AAAGAAGTACCAAAT
1 AAAGAAGTACCAAAT
*
79847641 AAAGAAGTATCAAAT
1 AAAGAAGTACCAAAT
79847656 GCTCAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAGAAGTACCAAAT
Found at i:79849728 original size:26 final size:26
Alignment explanation
Indices: 79849699--79849751 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
79849689 TTTACAGTTT
79849699 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
79849725 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
79849751 T
1 T
79849752 GCATGTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:79852217 original size:17 final size:17
Alignment explanation
Indices: 79852195--79852230 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
79852185 CAAAGAAACA
*
79852195 TTGGATTTGTTTCTTAG
1 TTGGATTTGCTTCTTAG
79852212 TTGGATTTGCTTCTTAG
1 TTGGATTTGCTTCTTAG
79852229 TT
1 TT
79852231 CCCTTCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.22, T:0.58
Consensus pattern (17 bp):
TTGGATTTGCTTCTTAG
Found at i:79857455 original size:53 final size:54
Alignment explanation
Indices: 79857326--79857575 Score: 229
Period size: 53 Copynumber: 4.8 Consensus size: 54
79857316 ACACGGGTAC
* * * * *
79857326 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
79857375 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
79857428 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * *
79857483 CTTATCAATG---T--CTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
79857531 CCTTACTAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
79857576 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
48 3 0.02
49 43 0.26
50 29 0.18
51 2 0.01
52 3 0.02
53 47 0.29
54 3 0.02
55 34 0.21
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:79860708 original size:66 final size:66
Alignment explanation
Indices: 79860602--79860729 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
79860592 TTTTGGATTG
* * * *
79860602 AACTGATCTAACAAACAAGTTTGATCATCAACAAAGATTTTAGGAAATTACTTGGCTAAGTAATT
1 AACTGATCTAAAAAACAAGCTTGATCATCAACAAAGATTTTAAGAAATTACTTGGATAAGTAATT
79860667 A
66 A
* * *
79860668 AACTGATCTAAAAAACTAGCTTGATCATCATCTAAGATTTTAAGAAATTACTTGGATAAGTA
1 AACTGATCTAAAAAACAAGCTTGATCATCAACAAAGATTTTAAGAAATTACTTGGATAAGTA
79860730 CTTTGTAGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (66 bp):
AACTGATCTAAAAAACAAGCTTGATCATCAACAAAGATTTTAAGAAATTACTTGGATAAGTAATT
A
Found at i:79862457 original size:73 final size:73
Alignment explanation
Indices: 79862374--79862632 Score: 509
Period size: 73 Copynumber: 3.5 Consensus size: 73
79862364 TATTATTATT
*
79862374 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
79862439 ATTTTAAG
66 ATTTTAAG
79862447 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
79862512 ATTTTAAG
66 ATTTTAAG
79862520 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
79862585 ATTTTAAG
66 ATTTTAAG
79862593 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
79862633 GTCAAGTTGT
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 185 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:79866856 original size:3 final size:3
Alignment explanation
Indices: 79866848--79866879 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
79866838 ATCACATGTT
79866848 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
79866880 TGGATGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:79866999 original size:73 final size:73
Alignment explanation
Indices: 79866880--79867065 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
79866870 TATTATTATT
* *
79866880 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAATAGGTGGTGATTT
79866945 ATTTTAAG
66 ATTTTAAG
79866953 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAATAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAATAGGTGGTGATTT
79867018 ATTTTAAG
66 ATTTTAAG
79867026 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
79867066 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAATAGGTGGTGATTT
ATTTTAAG
Found at i:79874286 original size:21 final size:21
Alignment explanation
Indices: 79874254--79874294 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
79874244 AGGCTCGAGG
79874254 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
79874275 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
79874295 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:79895877 original size:39 final size:39
Alignment explanation
Indices: 79895673--79895895 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
79895663 TTGAATGCTG
* * * * * *
79895673 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
79895713 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
79895753 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
79895793 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
79895833 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
79895872 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
79895896 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:79895915 original size:79 final size:80
Alignment explanation
Indices: 79895753--79895930 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
79895743 AGATACAAGT
* * * *
79895753 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
79895818 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
79895833 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
79895897 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
79895912 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
79895931 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Done.