Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 149 of 182
Found at i:45931569 original size:94 final size:92
Alignment explanation
Indices: 45931462--45931734 Score: 347
Period size: 94 Copynumber: 2.9 Consensus size: 92
45931452 AACCCGTGCG
45931462 ACTTACATAACTTATTAATACAAACTCAGTTAATACATAACTTATATAATACGACATAACTTATT
1 ACTTACATAACTTATTAATACAAACT-A-TTAATACATAACTTATATAATACGACATAACTTATT
**
45931527 AATATATATATAT-TTTAAGATGATACATA
64 AATATATATATATGGATAA-ATGATACATA
* * *
45931556 TCTTACATAACTTATTAATACATAACTTATATAATATATAACTTACATAATACGACATAACTTAT
1 ACTTACATAACTTATTAATACA-AAC-TAT-TAATACATAACTTATATAATACGACATAACTTAT
45931621 TAATATAT-T-TATGGATAAATGATACATA
63 TAATATATATATATGGATAAATGATACATA
* * *
45931649 ACTTACATAACTTATTAATACTTTTACATTTTTAATACATAACTTATATAATACGACATAACTTA
1 ACTTACATAACTTATTAATAC----AAACTATTAATACATAACTTATATAATACGACATAACTTA
45931714 TTAATATATATCATAT-GATAA
62 TTAATATATAT-ATATGGATAA
45931735 CTTAGATAGT
Statistics
Matches: 157, Mismatches: 11, Indels: 20
0.84 0.06 0.11
Matches are distributed among these distances:
93 33 0.21
94 66 0.42
95 47 0.30
96 7 0.04
97 4 0.03
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (92 bp):
ACTTACATAACTTATTAATACAAACTATTAATACATAACTTATATAATACGACATAACTTATTAA
TATATATATATGGATAAATGATACATA
Found at i:45937339 original size:66 final size:66
Alignment explanation
Indices: 45937199--45937368 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 66
45937189 AGCAAATTAC
* ** *
45937199 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTGCAGC
1 ACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTGCAGC
45937264 T
66 T
* *
45937265 ACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTTCAG
1 ACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTGCAG
45937329 C-
65 CT
* * * *
45937330 AGTAGCTTAAAGCAGATGCGGCCGCGAGAGAAGCAGAGG
1 A-CAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGG
45937369 CTGCAGGGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 87 0.95
67 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCGGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTGCAGC
T
Found at i:45937383 original size:21 final size:21
Alignment explanation
Indices: 45937339--45937408 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
45937329 CAGTAGCTTA
* * * *
45937339 AAGCAGATGCGGCCGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
*
45937360 AAGCAGAGGCTGCAGGGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
45937381 AAGTAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
45937402 AAGCAGA
1 AAGCAGA
45937409 ACAGCTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.46, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:45937784 original size:43 final size:42
Alignment explanation
Indices: 45937718--45937924 Score: 274
Period size: 43 Copynumber: 4.9 Consensus size: 42
45937708 TTAGCGGCAT
45937718 TTTTTG-CATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTGTC-TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * *
45937760 TTTTTCGTCTAAGCGCCACGAAAGACCATGGTCTATAGTAGCG
1 TTTTT-GTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
45937803 TTTTTAGTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTT-GTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
** * * *
45937846 TTTTTTGGATAAGCGCCGCTAAAGACTATTGTCTATAGTGGTG
1 -TTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* *
45937889 TTTTT-TTTAAGTGCCGCTAAAGACCATGGTCTATAG
1 TTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAG
45937925 CGGCATTGTA
Statistics
Matches: 145, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
41 26 0.18
42 10 0.07
43 103 0.71
44 6 0.04
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
Found at i:45938750 original size:30 final size:29
Alignment explanation
Indices: 45938712--45938819 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 29
45938702 TTAATTAATT
*
45938712 TTTTAAAATTTAAAAATTA-TAAAAACTA
1 TTTTAAAAATTAAAAATTACTAAAAACTA
* * *
45938740 TTTCTAAAAATTAAAAATCATTTAAAACTA
1 TTT-TAAAAATTAAAAATTACTAAAAACTA
* *
45938770 --TTAAAAATTATAAAAATTACAAATAAAATA
1 TTTTAAAAA-T-TAAAAATTACTAA-AAACTA
*
45938800 TTTTTAAATATTAAAAATTA
1 -TTTTAAAAATTAAAAATTA
45938820 ATTAAATGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
27 6 0.10
28 5 0.08
29 23 0.37
30 13 0.21
31 9 0.14
32 1 0.02
33 6 0.10
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTTAAAAATTAAAAATTACTAAAAACTA
Found at i:45940021 original size:21 final size:23
Alignment explanation
Indices: 45939988--45940030 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
45939978 TTTGTGCATG
45939988 TATCAATCTTCT-A-CCTTCACA
1 TATCAATCTTCTAAGCCTTCACA
45940009 TATCATATC-TCTAAGCCTTCAC
1 TATCA-ATCTTCTAAGCCTTCAC
45940031 TCTCTCACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (23 bp):
TATCAATCTTCTAAGCCTTCACA
Found at i:45946125 original size:18 final size:20
Alignment explanation
Indices: 45946098--45946137 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
45946088 TTTTAAAATT
*
45946098 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGTAA
45946116 TTTTAAAAATTATTTTGTAA
1 TTTTAAAAATTATTTTGTAA
45946136 TT
1 TT
45946138 ATTGTTGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGTAA
Found at i:45952538 original size:104 final size:104
Alignment explanation
Indices: 45952425--45952625 Score: 321
Period size: 104 Copynumber: 1.9 Consensus size: 104
45952415 TTTATATTAC
* * * *
45952425 TATTAACAGTAGATAGTTTATTTATCAAAATATCATTATCAATATTAAATATAAAATTAAAATAT
1 TATTAACAGTAAATAATTTATTTATCAAAATATCATTATCAATACTAAATATAAAATTAAAACAT
** *
45952490 ACTATCTGTTTTTGTACTCTATATTAAATTTTATGTAAA
66 ACTATCCATTTTTATACTCTATATTAAATTTTATGTAAA
* *
45952529 TATTAACAGTAAATAATTTATTTATCAAAATATCATTATCGATACTAAATATAAAATTAACACAT
1 TATTAACAGTAAATAATTTATTTATCAAAATATCATTATCAATACTAAATATAAAATTAAAACAT
45952594 ACTATCCATTTTTATACTCTATATTAAATTTT
66 ACTATCCATTTTTATACTCTATATTAAATTTT
45952626 GTACAACATT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
104 88 1.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (104 bp):
TATTAACAGTAAATAATTTATTTATCAAAATATCATTATCAATACTAAATATAAAATTAAAACAT
ACTATCCATTTTTATACTCTATATTAAATTTTATGTAAA
Found at i:45978412 original size:27 final size:27
Alignment explanation
Indices: 45978382--45978454 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
45978372 TGTCTTGAAT
45978382 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
45978409 TTGTTAGATATTGAATTGATTATGTTTTAAGC
1 TTGTTAG--A-T--ATTGATTATGTTTTAAGC
*
45978441 TTGTTGGATATTGA
1 TTGTTAGATATTGA
45978455 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 12 0.30
29 2 0.05
30 2 0.05
32 24 0.60
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:45978427 original size:32 final size:32
Alignment explanation
Indices: 45978391--45978461 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
45978381 TTTGTTAGAT
45978391 ATTGATTATGTTTTAAGCTTGTTAGATATTGA
1 ATTGATTATGTTTTAAGCTTGTTAGATATTGA
*
45978423 ATTGATTATGTTTTAAGCTTGTTGGATATTGA
1 ATTGATTATGTTTTAAGCTTGTTAGATATTGA
*
45978455 AATGATT
1 ATTGATT
45978462 GACAATGACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (32 bp):
ATTGATTATGTTTTAAGCTTGTTAGATATTGA
Found at i:45983700 original size:15 final size:16
Alignment explanation
Indices: 45983680--45983712 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45983670 CTTAATGTAC
45983680 ATAACA-CTTTTATAA
1 ATAACATCTTTTATAA
*
45983695 ATAACATTTTTTATAA
1 ATAACATCTTTTATAA
45983711 AT
1 AT
45983713 TTACTATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAACATCTTTTATAA
Found at i:45984505 original size:23 final size:23
Alignment explanation
Indices: 45984476--45984620 Score: 182
Period size: 23 Copynumber: 6.3 Consensus size: 23
45984466 ATAAGTGCCA
*
45984476 CACTGATGTGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
45984499 CATTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
45984522 CACTGAAATGTAATCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45984545 CACTGATATGTAGCAGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
45984568 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
45984591 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
45984614 CACTGAT
1 CACTGAT
45984621 CAATAACACT
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 101 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:45984543 original size:46 final size:45
Alignment explanation
Indices: 45984484--45984619 Score: 209
Period size: 46 Copynumber: 3.0 Consensus size: 45
45984474 CACACTGATG
* *
45984484 TGTAGCCGAAGCTACCATTGATACGTAGCCGTAGCTACCACTGAAA
1 TGTAG-CGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAA
* *
45984530 TGTAATCGAAGCTACCACTGATATGTAGCAGTAGCTACCACTGAAA
1 TGT-AGCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAA
45984576 TGTAGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGA
1 TGTAGC-GAAGCTACCACTGATATGTAGCCGTAGCTACCACTGA
45984620 TCAATAACAC
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.02
46 79 0.96
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (45 bp):
TGTAGCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAA
Found at i:45985096 original size:29 final size:30
Alignment explanation
Indices: 45985063--45985120 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
45985053 TCCTTGACTC
45985063 AAAC-TTTGCAAAATTACA-ATTTTGCCCCT
1 AAACTTTTGCAAAATTACACATTTT-CCCCT
* *
45985092 AAACTTTTGCATATTTACACATTTTCCCC
1 AAACTTTTGCAAAATTACACATTTTCCCC
45985121 AAAGCTCGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.16
30 16 0.64
31 5 0.20
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACATTTTCCCCT
Found at i:45986380 original size:18 final size:18
Alignment explanation
Indices: 45986357--45986399 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45986347 GTTCAAGGTG
45986357 CAATTAATTTAAAATT-TT
1 CAATTAA-TTAAAATTATT
45986375 CAATTAATTAAAATTATT
1 CAATTAATTAAAATTATT
*
45986393 TAATTAA
1 CAATTAA
45986400 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
CAATTAATTAAAATTATT
Found at i:45986723 original size:10 final size:10
Alignment explanation
Indices: 45986696--45986735 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
45986686 AAAAGAAGTT
*
45986696 TTTAATATTA
1 TTTAATAATA
*
45986706 TTTGATAATA
1 TTTAATAATA
45986716 TTTAATAATA
1 TTTAATAATA
45986726 TTTATATAAT
1 TTTA-ATAAT
45986736 TGTGAATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 21 0.81
11 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
TTTAATAATA
Found at i:45987917 original size:20 final size:21
Alignment explanation
Indices: 45987868--45987918 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
45987858 ATTACAAAAT
*
45987868 AATTTCAAAATAATTTTCAAA
1 AATTTCAAAATAATTATCAAA
*
45987889 AAGTT-AAAATAATTAT-AAA
1 AATTTCAAAATAATTATCAAA
*
45987908 ATTTTCAAAAT
1 AATTTCAAAAT
45987919 TTATGTATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTTCAAAATAATTATCAAA
Found at i:45987963 original size:20 final size:20
Alignment explanation
Indices: 45987925--45987963 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45987915 AAATTTATGT
*
45987925 ATTCTTAAAAAATTCTAAAA
1 ATTCTTAAAAAATTATAAAA
45987945 ATTC-TAAAAAATATATAAA
1 ATTCTTAAAAAAT-TATAAA
45987964 GAAAGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTCTTAAAAAATTATAAAA
Found at i:45988776 original size:5 final size:6
Alignment explanation
Indices: 45988759--45988783 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45988749 AAAATCTTTC
45988759 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
45988784 AGAGTACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:45989028 original size:15 final size:15
Alignment explanation
Indices: 45989004--45989033 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45988994 TACATATTTT
45989004 ATTAAATAATAAAAA
1 ATTAAATAATAAAAA
*
45989019 ATTAAGTAATAAAAA
1 ATTAAATAATAAAAA
45989034 TAATTAGAAG
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:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
ATTAAATAATAAAAA
Found at i:45990382 original size:3 final size:3
Alignment explanation
Indices: 45990374--45990409 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45990364 AGGTGTCGTC
45990374 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45990410 CTTTCTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45990691 original size:43 final size:43
Alignment explanation
Indices: 45990602--45990698 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
45990592 GAGTCGTTAA
*
45990602 CTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGCT
1 CTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
* * * **
45990645 CTTTAGCGGCGTTTGTGACTTAAGCGCCGTTAAAGGTTATTAT
1 CTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
45990688 CTTTAGCGGCG
1 CTTTAGCGGCG
45990699 CTTTACCCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGACTTAAGCGCCGCTAAAAGTCAAGAT
Found at i:45990736 original size:43 final size:42
Alignment explanation
Indices: 45990689--45990937 Score: 173
Period size: 43 Copynumber: 5.8 Consensus size: 42
45990679 GGTTATTATC
* *
45990689 TTTAGCGGCGCTTTACCCACAATCGCCGCTAAAGAGCTTGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA-AGCTTGACT
** * * *
45990732 TTTAGCGGCGC--TTCCACTACAAACGTAGCAAAATACCTTGACC
1 TTTAGCGGCGCTTTTCC-C-ACAAACGCCGCTAAA-AGCTTGACT
*** * *
45990775 TTTAGCGGCGCTTTGATCACAAACGCTGCTAAAAGGCATT-AGGT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAA-GC-TTGA-CT
* *
45990819 TTTAGC-GCGCTTTTCTCACAAACGCCGCGAAAAGACCTTGACT
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAG--CTTGACT
* ** * * * * *
45990862 TTTAGCGACGCTTTTCATAAAAACGCCACTAAATGCATTAACC
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGC-TTGACT
*
45990905 TTTAGCGGCACTTTTCCCACAAACGCCGCTAAA
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
45990938 TTGAACAGCT
Statistics
Matches: 157, Mismatches: 37, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
41 3 0.02
42 4 0.03
43 117 0.75
44 32 0.20
45 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCTTGACT
Found at i:45990886 original size:87 final size:87
Alignment explanation
Indices: 45990761--45990933 Score: 197
Period size: 87 Copynumber: 2.0 Consensus size: 87
45990751 CAAACGTAGC
* * * * ** ***
45990761 AAAATACCTTGACCTTTAGCGGCGCTTTGATCACAAACGCTGCTAAAAGGCATTAGGTTTTAGC-
1 AAAAGACCTTGACCTTTAGCGACGCTTTCATCAAAAACGCCACT-AAAGGCATTAACCTTTAGCG
* *
45990825 GCGCTTTTCTCACAAACGCCGCG
65 GCACTTTTCCCACAAACGCCGCG
* *
45990848 AAAAGACCTTGACTTTTAGCGACGCTTTTCAT-AAAAACGCCACTAAATGCATTAACCTTTAGCG
1 AAAAGACCTTGACCTTTAGCGACGC-TTTCATCAAAAACGCCACTAAAGGCATTAACCTTTAGCG
45990912 GCACTTTTCCCACAAACGCCGC
65 GCACTTTTCCCACAAACGCCGC
45990934 TAAATTGAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
86 15 0.21
87 51 0.72
88 5 0.07
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (87 bp):
AAAAGACCTTGACCTTTAGCGACGCTTTCATCAAAAACGCCACTAAAGGCATTAACCTTTAGCGG
CACTTTTCCCACAAACGCCGCG
Found at i:45990906 original size:130 final size:130
Alignment explanation
Indices: 45990689--45990937 Score: 288
Period size: 130 Copynumber: 1.9 Consensus size: 130
45990679 GGTTATTATC
* * * * *
45990689 TTTAGCGGCGCTTTACCCACAATCGCCGCTAAAGAGCTTGACTTTTAGCGGCGCTTCCACTACAA
1 TTTAGCGGCGCTTTACCCACAAACGCCGCAAAAGACCTTGACTTTTAGCGACGCTTCCACTAAAA
* * * * * *
45990754 ACGTAGCAAAATACCTTGACCTTTAGCGGCGCTTTGATCACAAACGCTGCTAAAAGGCATTAGGT
66 ACGCAGCAAAATACATTAACCTTTAGCGGCACTTTGACCACAAACGCCGCTAAAAGGCATTAGGT
* * *
45990819 TTTAGC-GCGCTTTTCTCACAAACGCCGCGAAAAGACCTTGACTTTTAGCGACGCTTTTCA-TAA
1 TTTAGCGGCGCTTTACCCACAAACGCCGC-AAAAGACCTTGACTTTTAGCGACGC-TTCCACTAA
* * **
45990882 AAACGCCA-CTAAATGCATTAACCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAA
64 AAACG-CAGCAAAATACATTAACCTTTAGCGGCACTTTGACCACAAACGCCGCTAAA
45990938 TTGAACAGCT
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
129 19 0.19
130 74 0.76
131 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (130 bp):
TTTAGCGGCGCTTTACCCACAAACGCCGCAAAAGACCTTGACTTTTAGCGACGCTTCCACTAAAA
ACGCAGCAAAATACATTAACCTTTAGCGGCACTTTGACCACAAACGCCGCTAAAAGGCATTAGGT
Found at i:45994390 original size:16 final size:16
Alignment explanation
Indices: 45994363--45994416 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
45994353 ATGTAACTTA
45994363 TTATGTTATTATGTAAG
1 TTATG-TATTATGTAAG
45994380 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
* *
45994396 TTAAGTATTATATAAG
1 TTATGTATTATGTAAG
45994412 TTATG
1 TTATG
45994417 CAAGTCCGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 29 0.85
17 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:45994534 original size:19 final size:19
Alignment explanation
Indices: 45994510--45994585 Score: 82
Period size: 19 Copynumber: 4.5 Consensus size: 19
45994500 TTACGTAACT
45994510 TATTATGTAATAAGTTATG
1 TATTATGTAATAAGTTATG
45994529 TATTATG---TAAG-T-T-
1 TATTATGTAATAAGTTATG
45994542 TA-TA--T-ATAAGTTATG
1 TATTATGTAATAAGTTATG
45994557 TATTATGTAATAAGTTATG
1 TATTATGTAATAAGTTATG
45994576 TATTATGTAA
1 TATTATGTAA
45994586 GTTTATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
12 6 0.12
13 3 0.06
14 2 0.04
15 3 0.06
16 6 0.12
18 1 0.02
19 27 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (19 bp):
TATTATGTAATAAGTTATG
Found at i:45994553 original size:28 final size:28
Alignment explanation
Indices: 45994519--45994600 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
45994509 TTATTATGTA
45994519 ATAAGTTATGTATTATGTAAGTTTATAT
1 ATAAGTTATGTATTATGTAAGTTTATAT
45994547 ATAAGTTATGTATTA--T--G----TA-
1 ATAAGTTATGTATTATGTAAGTTTATAT
45994566 ATAAGTTATGTATTATGTAAGTTTATAT
1 ATAAGTTATGTATTATGTAAGTTTATAT
45994594 ATAAGTT
1 ATAAGTT
45994601 GTTATATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 18
0.71 0.00 0.29
Matches are distributed among these distances:
19 15 0.33
20 2 0.04
21 1 0.02
23 1 0.02
24 1 0.02
26 1 0.02
27 2 0.04
28 22 0.49
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (28 bp):
ATAAGTTATGTATTATGTAAGTTTATAT
Found at i:45994629 original size:47 final size:47
Alignment explanation
Indices: 45994510--45994600 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
45994500 TTACGTAACT
45994510 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTTATG
1 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTTATG
45994557 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTT
1 TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTT
45994601 GTTATATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.49
Consensus pattern (47 bp):
TATTATGTAATAAGTTATGTATTATGTAAGTTTATATATAAGTTATG
Found at i:45994880 original size:21 final size:21
Alignment explanation
Indices: 45994782--45994880 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 21
45994772 AATTCTTTCT
45994782 AAAATTATAAAATTTATTATTG
1 AAAA-TATAAAATTTATTATTG
* * *
45994804 AAAATAT-AGATGTTAATATTT
1 AAAATATAAAAT-TTATTATTG
* *
45994825 AGAAA-ATAACATTTACAATTATTTCT
1 A-AAATATAAAATTT---ATTA-TT-G
45994851 AAAATTATAAAATTTATTATTG
1 AAAA-TATAAAATTTATTATTG
45994873 AAAATATA
1 AAAATATA
45994881 GATGTTAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 21
0.68 0.08 0.24
Matches are distributed among these distances:
20 3 0.05
21 19 0.32
22 14 0.23
23 2 0.03
24 7 0.12
25 5 0.08
26 2 0.03
27 8 0.13
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (21 bp):
AAAATATAAAATTTATTATTG
Found at i:45994940 original size:70 final size:69
Alignment explanation
Indices: 45994693--45994949 Score: 437
Period size: 69 Copynumber: 3.7 Consensus size: 69
45994683 TTGAATTATG
45994693 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
1 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
45994758 AAAA
66 AAAA
45994762 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
1 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
45994827 AAAA
66 AAAA
*
45994831 TAACATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
1 TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
45994896 AAAAA
66 -AAAA
* * *
45994901 TAACATGTACAATTAGTTT-TAAAAATATAAAATTTATTATT-AACAATAT
1 TAACATTTACAATT-CTTTCTAAAATTATAAAATTTATTATTGAA-AATAT
45994950 TTAAATATAG
Statistics
Matches: 181, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
69 135 0.75
70 43 0.24
71 3 0.02
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (69 bp):
TAACATTTACAATTCTTTCTAAAATTATAAAATTTATTATTGAAAATATAGATGTTAATATTTAG
AAAA
Found at i:45996455 original size:12 final size:12
Alignment explanation
Indices: 45996418--45996457 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
45996408 CAAACAGTTT
*
45996418 CAAACTTATGAA
1 CAAAATTATGAA
45996430 CAAAATTA-GTAA
1 CAAAATTATG-AA
45996442 CAAAATTATGAA
1 CAAAATTATGAA
45996454 CAAA
1 CAAA
45996458 CAGTATTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.23
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:45996468 original size:24 final size:24
Alignment explanation
Indices: 45996407--45996468 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
45996397 ATCCTGTAAT
*
45996407 ACAAACAGT-TT-CAAACTTATGA
1 ACAAACAGTATTACAAAATTATGA
* *
45996429 ACAAA-ATTAGTAACAAAATTATGA
1 ACAAACAGTA-TTACAAAATTATGA
45996453 ACAAACAGTATTACAA
1 ACAAACAGTATTACAA
45996469 GCCCGCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 1 0.03
24 20 0.65
25 3 0.10
ACGTcount: A:0.53, C:0.15, G:0.08, T:0.24
Consensus pattern (24 bp):
ACAAACAGTATTACAAAATTATGA
Found at i:45996523 original size:12 final size:12
Alignment explanation
Indices: 45996506--45996531 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45996496 ACAGGATAGT
45996506 CAAAATTATGAA
1 CAAAATTATGAA
45996518 CAAAATTATGAA
1 CAAAATTATGAA
45996530 CA
1 CA
45996532 GTTTCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (12 bp):
CAAAATTATGAA
Found at i:45996970 original size:23 final size:24
Alignment explanation
Indices: 45996933--45996988 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 24
45996923 TCTAGAATTA
*
45996933 GGGGATTTTTGGGGGAAAATTTGG
1 GGGGAATTTTGGGGGAAAATTTGG
*
45996957 GGGGAATTTT-GGGGATAATTTGG
1 GGGGAATTTTGGGGGAAAATTTGG
45996980 GGGGAATTT
1 GGGGAATTT
45996989 CGGCTAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (24 bp):
GGGGAATTTTGGGGGAAAATTTGG
Found at i:45996987 original size:11 final size:11
Alignment explanation
Indices: 45996940--45996988 Score: 53
Period size: 12 Copynumber: 4.3 Consensus size: 11
45996930 TTAGGGGATT
*
45996940 TTTGGGGGAAAA
1 TTTGGGGG-GAA
45996952 TTTGGGGGGAA
1 TTTGGGGGGAA
**
45996963 TTTTGGGGATAA
1 -TTTGGGGGGAA
45996975 TTTGGGGGGAA
1 TTTGGGGGGAA
45996986 TTT
1 TTT
45996989 CGGCTAAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 14 0.45
12 17 0.55
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (11 bp):
TTTGGGGGGAA
Found at i:45997319 original size:16 final size:17
Alignment explanation
Indices: 45997300--45997334 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
45997290 ATTTATTTCA
*
45997300 TAATTTTATC-TTTAAT
1 TAATTGTATCTTTTAAT
45997316 TAATTGTATCTTTTAAT
1 TAATTGTATCTTTTAAT
45997333 TA
1 TA
45997335 CTAAGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (17 bp):
TAATTGTATCTTTTAAT
Found at i:45997860 original size:15 final size:15
Alignment explanation
Indices: 45997840--45997876 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
45997830 AAACCCCGAA
45997840 CCCTAAATACCTAAC
1 CCCTAAATACCTAAC
* *
45997855 CCCTAAGTCCCTAAC
1 CCCTAAATACCTAAC
45997870 CCCTAAA
1 CCCTAAA
45997877 CCTTAATCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.43, G:0.03, T:0.19
Consensus pattern (15 bp):
CCCTAAATACCTAAC
Found at i:45997892 original size:36 final size:36
Alignment explanation
Indices: 45997811--45997893 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
45997801 CTAACTTGAG
* *
45997811 TACCTAACCCCTAAATACCAAACCCCGAACCCTAAA
1 TACCAAACCCCTAAATACCAAACCCCGAAACCTAAA
* * * * * *
45997847 TACCTAACCCCTAAGTCCCTAACCCCTAAACCTTAA
1 TACCAAACCCCTAAATACCAAACCCCGAAACCTAAA
*
45997883 TCCCAAACCCC
1 TACCAAACCCC
45997894 AAAACCCCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.45, G:0.02, T:0.17
Consensus pattern (36 bp):
TACCAAACCCCTAAATACCAAACCCCGAAACCTAAA
Found at i:45997894 original size:7 final size:7
Alignment explanation
Indices: 45997884--45997984 Score: 85
Period size: 7 Copynumber: 14.3 Consensus size: 7
45997874 AAACCTTAAT
45997884 CCCAAAC
1 CCCAAAC
45997891 CCCAAAAC
1 CCC-AAAC
45997899 CCCAAAC
1 CCCAAAC
** *
45997906 CATAAAT
1 CCCAAAC
*
45997913 CACAAAC
1 CCCAAAC
45997920 CCCAAAC
1 CCCAAAC
45997927 CCCAAAC
1 CCCAAAC
*
45997934 CCTAAAC
1 CCCAAAC
* *
45997941 CACTAAC
1 CCCAAAC
*
45997948 CCCAAAT
1 CCCAAAC
*
45997955 CCCAAAT
1 CCCAAAC
*
45997962 CCCAAAT
1 CCCAAAC
*
45997969 CCCAAAT
1 CCCAAAC
*
45997976 CCCTAAC
1 CCCAAAC
45997983 CC
1 CC
45997985 TAGACCCTAA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
7 71 0.91
8 7 0.09
ACGTcount: A:0.44, C:0.48, G:0.00, T:0.09
Consensus pattern (7 bp):
CCCAAAC
Found at i:45997940 original size:21 final size:21
Alignment explanation
Indices: 45997884--45997984 Score: 96
Period size: 21 Copynumber: 4.8 Consensus size: 21
45997874 AAACCTTAAT
*
45997884 CCCAAACCCCAAAACCCCAAAC
1 CCCAAATCCC-AAACCCCAAAC
** *
45997906 CATAAATCACAAACCCCAAAC
1 CCCAAATCCCAAACCCCAAAC
* *
45997927 CCCAAA-CCCTAAACCACTAAC
1 CCCAAATCCC-AAACCCCAAAC
* *
45997948 CCCAAATCCCAAATCCCAAAT
1 CCCAAATCCCAAACCCCAAAC
*
45997969 CCCAAATCCCTAACCC
1 CCCAAATCCCAAACCC
45997985 TAGACCCTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
20 2 0.03
21 51 0.82
22 9 0.15
ACGTcount: A:0.44, C:0.48, G:0.00, T:0.09
Consensus pattern (21 bp):
CCCAAATCCCAAACCCCAAAC
Found at i:45997958 original size:28 final size:28
Alignment explanation
Indices: 45997867--45997960 Score: 109
Period size: 28 Copynumber: 3.3 Consensus size: 28
45997857 CTAAGTCCCT
* *
45997867 AACCCCTAAACCTTAATCC-CAAACCCCAA
1 AACCCC-AAACCATAAACCACAAACCCC-A
*
45997896 AACCCCAAACCATAAATCACAAACCCCA
1 AACCCCAAACCATAAACCACAAACCCCA
* *
45997924 AACCCCAAACCCTAAACCACTAACCCCA
1 AACCCCAAACCATAAACCACAAACCCCA
*
45997952 AATCCCAAA
1 AACCCCAAA
45997961 TCCCAAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
28 43 0.75
29 14 0.25
ACGTcount: A:0.46, C:0.45, G:0.00, T:0.10
Consensus pattern (28 bp):
AACCCCAAACCATAAACCACAAACCCCA
Found at i:45999480 original size:41 final size:41
Alignment explanation
Indices: 45999430--45999570 Score: 117
Period size: 41 Copynumber: 3.4 Consensus size: 41
45999420 CTGGCGGTTT
* *
45999430 CTCACAAACGCCACTAAAAGACCCACCATTAGCGGCGTATA
1 CTCAAAAACGCCGCTAAAAGACCCACCATTAGCGGCGTATA
* * ** ** * *
45999471 CTCAAAAACGCCGGTAAAAGTCATAGAATTTGCAGCGCTATTA
1 CTCAAAAACGCCGCTAAAAGACCCACCATTAGCGGCG-TA-TA
* *
45999514 -T-AAAAACGCCGC-AAAAAACCCTACCATTAGCGGCGTCTA
1 CTCAAAAACGCCGCTAAAAGACCC-ACCATTAGCGGCGTATA
*
45999553 CTCAAAAACGCCGTTAAA
1 CTCAAAAACGCCGCTAAA
45999571 GGTCTCAGCA
Statistics
Matches: 73, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
39 2 0.03
40 7 0.10
41 56 0.77
42 6 0.08
43 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (41 bp):
CTCAAAAACGCCGCTAAAAGACCCACCATTAGCGGCGTATA
Found at i:45999603 original size:82 final size:82
Alignment explanation
Indices: 45999435--45999611 Score: 205
Period size: 82 Copynumber: 2.2 Consensus size: 82
45999425 GGTTTCTCAC
*
45999435 AAACGCCACTAAAAGACCCACCATTAGCGGCGTATACTCAAAAACGCCGGTAAAAGTCATAGAAT
1 AAACGCCACTAAAAAACCCACCATTAGCGGCGTATACTCAAAAACGCCGGTAAAAGTCATAGAAT
* * *
45999500 TTGCAGCGCTATTATAA
66 TAGCAGCACTAATATAA
* * * * *
45999517 AAACGCCGC-AAAAAACCCTACCATTAGCGGCGTCTACTCAAAAACGCCGTTAAAGGTC-TCAGC
1 AAACGCCACTAAAAAACCC-ACCATTAGCGGCGTATACTCAAAAACGCCGGTAAAAGTCAT-AGA
** **
45999580 ATTAGTGGCACTAATATTG
64 ATTAGCAGCACTAATATAA
45999599 AAACGCCACTAAA
1 AAACGCCACTAAA
45999612 GCCCTTCGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
81 9 0.12
82 66 0.85
83 3 0.04
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (82 bp):
AAACGCCACTAAAAAACCCACCATTAGCGGCGTATACTCAAAAACGCCGGTAAAAGTCATAGAAT
TAGCAGCACTAATATAA
Found at i:46002158 original size:13 final size:13
Alignment explanation
Indices: 46002140--46002166 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46002130 AGTCAATGAA
46002140 GTTGTAACAGGGT
1 GTTGTAACAGGGT
46002153 GTTGTAACAGGGT
1 GTTGTAACAGGGT
46002166 G
1 G
46002167 CAATATATCT
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:0.07, G:0.41, T:0.30
Consensus pattern (13 bp):
GTTGTAACAGGGT
Found at i:46003738 original size:51 final size:50
Alignment explanation
Indices: 46003656--46003760 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 50
46003646 GTAGCTATAA
* * *
46003656 ATCATTTGTTTATATTAAGTGTCCATGTGTTGTATGTATCAAGATAGGGT
1 ATCATTTGTTTATATTAAGTGTCCATGTGTTGCACGTATAAAGATAGGGT
*
46003706 ATCATTTGTTTATATTTAAGTGTCCATTTGTTGCACGTATAAAGATAGGGT
1 ATCATTTGTTTATA-TTAAGTGTCCATGTGTTGCACGTATAAAGATAGGGT
46003757 ATCA
1 ATCA
46003761 AAACCAGCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 14 0.28
51 36 0.72
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.43
Consensus pattern (50 bp):
ATCATTTGTTTATATTAAGTGTCCATGTGTTGCACGTATAAAGATAGGGT
Found at i:46009679 original size:18 final size:19
Alignment explanation
Indices: 46009657--46009698 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
46009647 TTATTTTTGA
46009657 ATTTTAAAGATTTTTATTT
1 ATTTTAAAGATTTTTATTT
** *
46009676 -TTTTTCATATTTTTATTT
1 ATTTTAAAGATTTTTATTT
46009694 ATTTT
1 ATTTT
46009699 TAAATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTAAAGATTTTTATTT
Found at i:46010990 original size:20 final size:20
Alignment explanation
Indices: 46010960--46010997 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46010950 AATTAATTAA
46010960 TTTTTTATATATTTATTTATG
1 TTTTTTATATATTT-TTTATG
46010981 TTTTTT-TATATTTTTTA
1 TTTTTTATATATTTTTTA
46010998 CCTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTTATATATTTTTTATG
Found at i:46011563 original size:23 final size:23
Alignment explanation
Indices: 46011523--46011588 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
46011513 TTATTTATCT
*
46011523 TTTTAAA-ATCTTTCTTATTTTAA
1 TTTTAAATAT-TTTTTTATTTTAA
46011546 TTTTAAATATTTTTTTATTTT--
1 TTTTAAATATTTTTTTATTTTAA
* *
46011567 TTTT-CATAATTTTTTATTTTAA
1 TTTTAAATATTTTTTTATTTTAA
46011589 AAAATATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 14 0.38
21 4 0.11
23 17 0.46
24 2 0.05
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTAAATATTTTTTTATTTTAA
Found at i:46011584 original size:43 final size:42
Alignment explanation
Indices: 46011509--46011608 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 42
46011499 GAATTTTAGA
* *
46011509 ATTTTTATTTATCTTTTTAAAATCTTTCTTATTTTAATTTTAAATAT
1 ATTTTTATTT-T-TTTTCAAAATCTTTCTTATTTTAA---AAAATAT
* *
46011556 TTTTTTATTTTTTTTCATAAT-TTT-TTATTTTAAAAAATAT
1 ATTTTTATTTTTTTTCAAAATCTTTCTTATTTTAAAAAATAT
46011596 ATTTTTATTTTTT
1 ATTTTTATTTTTT
46011609 AAAAAAATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
40 18 0.38
43 9 0.19
44 3 0.06
45 8 0.17
46 1 0.02
47 9 0.19
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (42 bp):
ATTTTTATTTTTTTTCAAAATCTTTCTTATTTTAAAAAATAT
Found at i:46011612 original size:20 final size:20
Alignment explanation
Indices: 46011546--46011612 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
46011536 CTTATTTTAA
*
46011546 TTTT-AAATATTTTTTTATT
1 TTTTAAAATATATTTTTATT
***
46011565 TTTTTTCATA-ATTTTTTATT
1 TTTTAAAATATA-TTTTTATT
**
46011585 TTAAAAAATATATTTTTATT
1 TTTTAAAATATATTTTTATT
46011605 TTTTAAAA
1 TTTTAAAA
46011613 AAATTATAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
19 4 0.11
20 30 0.86
21 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAAAATATATTTTTATT
Found at i:46011626 original size:26 final size:24
Alignment explanation
Indices: 46011575--46011635 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
46011565 TTTTTTCATA
46011575 ATTTTTTA--TTTT-AAAAAATAT
1 ATTTTTTATTTTTTAAAAAAATAT
46011596 A-TTTTTATTTTTTAAAAAAATTAT
1 ATTTTTTATTTTTTAAAAAAA-TAT
*
46011620 AGTTTTTAATTTTTTA
1 A-TTTTTTATTTTTTA
46011636 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 6 0.18
21 1 0.03
22 4 0.12
23 6 0.18
24 4 0.12
26 12 0.36
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTTTATTTTTTAAAAAAATAT
Found at i:46015349 original size:22 final size:21
Alignment explanation
Indices: 46015302--46015353 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
46015292 CCGGCCCATT
46015302 TTTTAAAAAAATACCAAAAAAA
1 TTTTAAAAAAATA-CAAAAAAA
46015324 -TTTAAAAAAATA-AAAAAAGTA
1 TTTTAAAAAAATACAAAAAA--A
46015345 TTTTAAAAA
1 TTTTAAAAA
46015354 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.22
21 13 0.48
22 8 0.30
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
TTTTAAAAAAATACAAAAAAA
Found at i:46015364 original size:41 final size:40
Alignment explanation
Indices: 46015319--46015416 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 40
46015309 AAAATACCAA
46015319 AAAAATTTAAAAAAATAAAAAAAGTATTTTAAAAATATTTT
1 AAAAA-TTAAAAAAATAAAAAAAGTATTTTAAAAATATTTT
*
46015360 AAAAA-TAAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTT
1 AAAAATTAAAAAAA--TAAAAAAAGTATTTTAAAAATATTTT
46015401 -AAAATT-AAAAAATAAA
1 AAAAATTAAAAAAATAAA
46015417 TATATTTATT
Statistics
Matches: 53, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.08
39 8 0.15
40 10 0.19
41 31 0.58
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (40 bp):
AAAAATTAAAAAAATAAAAAAAGTATTTTAAAAATATTTT
Found at i:46015381 original size:17 final size:17
Alignment explanation
Indices: 46015348--46015381 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46015338 AAAAGTATTT
* *
46015348 TAAAAATATTTTAAAAA
1 TAAAAAAATTTAAAAAA
46015365 TAAAAAAATTTAAAAAA
1 TAAAAAAATTTAAAAAA
46015382 AGTATTTTAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAAATTTAAAAAA
Found at i:46025531 original size:20 final size:20
Alignment explanation
Indices: 46025506--46025552 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
46025496 TAAAATTATT
* *
46025506 GATACCCTCAATAAAGTATC
1 GATACCCTCAACAAAGTATA
* *
46025526 GATACCTTGAACAAAGTATA
1 GATACCCTCAACAAAGTATA
46025546 GATACCC
1 GATACCC
46025553 ATGTTTTGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (20 bp):
GATACCCTCAACAAAGTATA
Found at i:46025639 original size:20 final size:20
Alignment explanation
Indices: 46025609--46025663 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
46025599 ACGCAAAATC
46025609 CAAATGTATCGATACCTTTAA
1 CAAA-GTATCGATACCTTTAA
46025630 CAAAGTATCGATACCTTTAA
1 CAAAGTATCGATACCTTTAA
*
46025650 CAAAGTATCAATAC
1 CAAAGTATCGATAC
46025664 GTTCCCTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (20 bp):
CAAAGTATCGATACCTTTAA
Found at i:46025784 original size:20 final size:20
Alignment explanation
Indices: 46025739--46025776 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
46025729 TTAAGCAAAA
*
46025739 ATAAAAAGTATTGATACCCT
1 ATAAAAAGTATTAATACCCT
*
46025759 AAAAAAAGTATTAATACC
1 ATAAAAAGTATTAATACC
46025777 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (20 bp):
ATAAAAAGTATTAATACCCT
Found at i:46028675 original size:19 final size:19
Alignment explanation
Indices: 46028651--46028697 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
46028641 TATACTTGTT
46028651 TATTTATTTTAATTAATCA
1 TATTTATTTTAATTAATCA
*
46028670 TATTTAATTTAATTAATCA
1 TATTTATTTTAATTAATCA
*
46028689 TAATTATTT
1 TATTTATTT
46028698 AACCTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATTTTAATTAATCA
Found at i:46036450 original size:11 final size:13
Alignment explanation
Indices: 46036430--46036461 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46036420 AATAAATTAA
46036430 TAAAATATCAT-T
1 TAAAATATCATAT
46036442 TAAAA-ATCATAT
1 TAAAATATCATAT
46036454 TAAAATAT
1 TAAAATAT
46036462 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:46036558 original size:21 final size:21
Alignment explanation
Indices: 46036508--46036549 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46036498 ATATCACCAA
46036508 CATCATCATCGCCTTCTAGAT
1 CATCATCATCGCCTTCTAGAT
46036529 CATCATCATCGCCTTCTAGAT
1 CATCATCATCGCCTTCTAGAT
46036550 TTCTCTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (21 bp):
CATCATCATCGCCTTCTAGAT
Found at i:46044563 original size:117 final size:117
Alignment explanation
Indices: 46044357--46044593 Score: 474
Period size: 117 Copynumber: 2.0 Consensus size: 117
46044347 CTCCCAAATA
46044357 AGAACTAAAGCTACCAAGGGACAAGTTCCCTTGAGTACGAATTTCAATGAGTGAAAATAATGGGA
1 AGAACTAAAGCTACCAAGGGACAAGTTCCCTTGAGTACGAATTTCAATGAGTGAAAATAATGGGA
46044422 ATGGAGGAAAAGCAAAATTTGTACCGATTTCACTGAAAAATAATCTTTAATT
66 ATGGAGGAAAAGCAAAATTTGTACCGATTTCACTGAAAAATAATCTTTAATT
46044474 AGAACTAAAGCTACCAAGGGACAAGTTCCCTTGAGTACGAATTTCAATGAGTGAAAATAATGGGA
1 AGAACTAAAGCTACCAAGGGACAAGTTCCCTTGAGTACGAATTTCAATGAGTGAAAATAATGGGA
46044539 ATGGAGGAAAAGCAAAATTTGTACCGATTTCACTGAAAAATAATCTTTAATT
66 ATGGAGGAAAAGCAAAATTTGTACCGATTTCACTGAAAAATAATCTTTAATT
46044591 AGA
1 AGA
46044594 GCAAGAGTTG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 120 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (117 bp):
AGAACTAAAGCTACCAAGGGACAAGTTCCCTTGAGTACGAATTTCAATGAGTGAAAATAATGGGA
ATGGAGGAAAAGCAAAATTTGTACCGATTTCACTGAAAAATAATCTTTAATT
Found at i:46048931 original size:20 final size:20
Alignment explanation
Indices: 46048906--46048945 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46048896 AATATTTTCC
*
46048906 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46048926 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46048946 TAATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46048960 original size:34 final size:35
Alignment explanation
Indices: 46048894--46048960 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46048884 CAAACACCAG
* *
46048894 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATAATTTTACAGAAAAGT
*
46048929 AAAACATTTTCCAG-AAATAATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATAATTTTACAGAAAA
46048961 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATAATTTTACAGAAAAGT
Found at i:46049374 original size:22 final size:20
Alignment explanation
Indices: 46049349--46049388 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
46049339 AAATTACAAA
46049349 AAAAAATACAAAAATATATTTT
1 AAAAAATA-AAAAAT-TATTTT
*
46049371 AAAAATTAAAAAATTATT
1 AAAAAATAAAAAATTATT
46049389 AAAAATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATAAAAAATTATTTT
Found at i:46049400 original size:18 final size:17
Alignment explanation
Indices: 46049350--46049402 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 17
46049340 AATTACAAAA
46049350 AAAAATACAAAAATATATTTT
1 AAAAATA-AAAAAT-TA--TT
46049371 AAAAATTAAAAAATTATT
1 AAAAA-TAAAAAATTATT
*
46049389 AAAAATAGAAAATT
1 AAAAATAAAAAATT
46049403 TATAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 8 0.27
18 7 0.23
20 2 0.07
21 11 0.37
22 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATAAAAAATTATT
Found at i:46049435 original size:21 final size:20
Alignment explanation
Indices: 46049397--46049436 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46049387 TTAAAAATAG
* *
46049397 AAAATTTATAAATTTAAAAT
1 AAAATTTAAAAATATAAAAT
46049417 AAAATTATAAAAATATAAAA
1 AAAATT-TAAAAATATAAAA
46049437 AACTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAAATATAAAAT
Found at i:46049810 original size:17 final size:17
Alignment explanation
Indices: 46049790--46049900 Score: 63
Period size: 17 Copynumber: 6.5 Consensus size: 17
46049780 AAATTTTCAT
46049790 ATTTTATATTTTTTGTA
1 ATTTTATATTTTTTGTA
46049807 ATTTTATAAGTTTTTCTGT-
1 ATTTTAT-A-TTTTT-TGTA
*
46049826 -TTTTA-ATATTTTGTA
1 ATTTTATATTTTTTGTA
*
46049841 ATTTTAAATATTATTTTTGGA
1 ATTTT--ATA-T-TTTTTGTA
** *
46049862 ATTTT-T-TAATATGT-
1 ATTTTATATTTTTTGTA
*
46049876 ATTTTTTATTTTTTGTA
1 ATTTTATATTTTTTGTA
46049893 ATTTTATA
1 ATTTTATA
46049901 ATTATTATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 26
0.65 0.10 0.24
Matches are distributed among these distances:
14 8 0.11
15 8 0.11
16 11 0.16
17 14 0.20
18 8 0.11
19 6 0.09
20 4 0.06
21 11 0.16
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.66
Consensus pattern (17 bp):
ATTTTATATTTTTTGTA
Found at i:46049872 original size:22 final size:22
Alignment explanation
Indices: 46049834--46049881 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46049824 GTTTTTAATA
*
46049834 TTTTGTAATTTTAAATAT-TAT
1 TTTTGGAATTTTAAATATGTAT
*
46049855 TTTTGGAATTTTTTAATATGTAT
1 TTTTGGAA-TTTTAAATATGTAT
46049878 TTTT
1 TTTT
46049882 TATTTTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 7 0.30
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (22 bp):
TTTTGGAATTTTAAATATGTAT
Found at i:46049896 original size:31 final size:32
Alignment explanation
Indices: 46049854--46049918 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
46049844 TTAAATATTA
*
46049854 TTTTTGGAATTTTTTAA-TATGTATTTTT-TAT
1 TTTTTGGAATTTTATAATTAT-TATTTTTCTAT
*
46049885 TTTTTGTAATTTTATAATTATTATTTTTCTAT
1 TTTTTGGAATTTTATAATTATTATTTTTCTAT
46049917 TT
1 TT
46049919 CAATAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (32 bp):
TTTTTGGAATTTTATAATTATTATTTTTCTAT
Found at i:46049984 original size:9 final size:9
Alignment explanation
Indices: 46049956--46050012 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
46049946 TTTTAACTTT
*
46049956 ATATTTTTT
1 ATATTTTTA
*
46049965 CTATTTCTTA
1 ATATTT-TTA
46049975 ATATTTTTA
1 ATATTTTTA
46049984 ATATTTTT-
1 ATATTTTTA
*
46049992 ATAGCTTTTTT
1 ATA--TTTTTA
46050003 ATATTTTTA
1 ATATTTTTA
46050012 A
1 A
46050013 AGTTTTTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 3 0.08
9 22 0.55
10 12 0.30
11 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (9 bp):
ATATTTTTA
Found at i:46050000 original size:19 final size:19
Alignment explanation
Indices: 46049978--46050024 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
46049968 TTTCTTAATA
*
46049978 TTTTTAATATTTTTATAGC
1 TTTTTAATATTTTTAAAGC
* *
46049997 TTTTTTATATTTTTAAAGT
1 TTTTTAATATTTTTAAAGC
46050016 TTTTTAATA
1 TTTTTAATA
46050025 ACGTTAGGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTAATATTTTTAAAGC
Found at i:46051636 original size:7 final size:7
Alignment explanation
Indices: 46051615--46051648 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
46051605 CTTTTCATTC
*
46051615 TTTTTGT
1 TTTTTAT
*
46051622 TTTATAT
1 TTTTTAT
46051629 TTTTTAT
1 TTTTTAT
46051636 TTTTTAT
1 TTTTTAT
46051643 TTTTTA
1 TTTTTA
46051649 AAAAAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:46052711 original size:22 final size:22
Alignment explanation
Indices: 46052681--46052723 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46052671 ACAGCAAAAC
* *
46052681 AGGTTTTTAACGGCGTTTTTTT
1 AGGTCTTTAACGGCGCTTTTTT
*
46052703 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAACGGCGCTTTTT
46052724 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAACGGCGCTTTTTT
Found at i:46052906 original size:42 final size:42
Alignment explanation
Indices: 46052785--46053097 Score: 382
Period size: 43 Copynumber: 7.4 Consensus size: 42
46052775 ACGTCGCTAA
* * *
46052785 CTTTTGCGGCGCTTACATAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATGTT
*
46052828 CTTTAGCGGCGCTTAGAATAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAA-AAAAACGCCGCTAAAGATCATGTT
*
46052871 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
46052913 CTTTAGCGGCGCTTAGAAAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
*
46052956 CTTTAGCGGCGCTTAGAAACAAAC-CCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCC-GCTAAAGATCATGTT
* * * *
46052998 CTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* ***
46053041 CTATAGCGGCGCTTATTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGA-TCA-TGTT
*
46053083 CTTTAGTGGCGCTTA
1 CTTTAGCGGCGCTTA
46053098 TTTCACAAAC
Statistics
Matches: 239, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.01
42 108 0.45
43 126 0.53
44 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:46052936 original size:85 final size:85
Alignment explanation
Indices: 46052785--46053073 Score: 411
Period size: 85 Copynumber: 3.4 Consensus size: 85
46052775 ACGTCGCTAA
* * *
46052785 CTTTTGCGGCGCTTACATAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAATAAA
1 CTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAA
46052850 AACGCCCCTAAAGATCATGTT
65 AACGCCCCTAAAGATCATGTT
46052871 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAA
46052936 ACGCCCCTAAAGATCATGTT
66 ACGCCCCTAAAGATCATGTT
* * * * *
46052956 CTTTAGCGGCGCTTAGAAACAAAC-CCTGCTAAAGATCATGTTCTTTAGCGGCGCTTTGGAAGAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCC-GCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAA
* *
46053020 AACGCCTCTAAA-AGTAATGTT
65 AACGCCCCTAAAGA-TCATGTT
* ***
46053041 CTATAGCGGCGCTTATTCAAAAACGCCGCTAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAA
46053074 AGTAGTGTTC
Statistics
Matches: 185, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
84 3 0.02
85 165 0.89
86 17 0.09
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTAGAAAAAAA
ACGCCCCTAAAGATCATGTT
Found at i:46053551 original size:21 final size:21
Alignment explanation
Indices: 46053527--46053616 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
46053517 GCTTCTATTG
46053527 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
46053548 CTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
46053569 CTGCTTCTCTCACTGTAGCCGT
1 CTGCTTCTCTCGCTGCAGCC-T
* * *
46053591 -TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
46053611 CTGCTT
1 CTGCTT
46053617 TAAGTTGCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:46053595 original size:42 final size:42
Alignment explanation
Indices: 46053527--46053616 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
46053517 GCTTCTATTG
* * *
46053527 CTGCTTCTCTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
*
46053569 CTGCTTCTCTCACTGTAGCCGT-TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCACTGCAGCC-TCTGCTTCCCTCGCTGCCGCAT
46053611 CTGCTT
1 CTGCTT
46053617 TAAGTTGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (42 bp):
CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
Found at i:46058403 original size:79 final size:79
Alignment explanation
Indices: 46058272--46058431 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
46058262 CTGTTGGTTT
46058272 TTCCGATCGCCCCAATACAACATGCAGTCATTTGGGCAACTATGGATTTTGTTGTACCCAAGGCC
1 TTCCGATCGCCCCAATACAACATGCAGTCATTTGGGCAACTATGGATTTTGTTGTACCCAAGGCC
*
46058337 TAAATCTTTTATCA
66 TAAATATTTTATCA
46058351 TTCCGATCGCCCCAATACAACATGCAGTCATTTGGGCAACTATGGATTTTGTTGTACCCAAGGCC
1 TTCCGATCGCCCCAATACAACATGCAGTCATTTGGGCAACTATGGATTTTGTTGTACCCAAGGCC
46058416 TAAATATTTTATCA
66 TAAATATTTTATCA
46058430 TT
1 TT
46058432 TTCTTCATAC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (79 bp):
TTCCGATCGCCCCAATACAACATGCAGTCATTTGGGCAACTATGGATTTTGTTGTACCCAAGGCC
TAAATATTTTATCA
Found at i:46059213 original size:7 final size:7
Alignment explanation
Indices: 46059201--46059254 Score: 63
Period size: 7 Copynumber: 7.1 Consensus size: 7
46059191 TGATATATTT
46059201 TTATGTA
1 TTATGTA
46059208 TTATGTAA
1 TTATGT-A
46059216 GTTATGTAA
1 -TTATGT-A
*
46059225 GTTCTGTA
1 -TTATGTA
46059233 TTATGTA
1 TTATGTA
46059240 TTATGTA
1 TTATGTA
46059247 TTATGTA
1 TTATGTA
46059254 T
1 T
46059255 GCCCCATGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 27 0.63
8 2 0.05
9 14 0.33
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:46059307 original size:27 final size:27
Alignment explanation
Indices: 46059277--46059567 Score: 420
Period size: 27 Copynumber: 10.4 Consensus size: 27
46059267 TAATGTAAGC
*
46059277 TATGTAAGTAATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
46059304 TATGTAAATTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
46059331 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
46059358 TATGTAAGTTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
46059385 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
46059412 TATGTAAATTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
46059439 TATGTAAGTTATGTAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
46059475 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
46059502 TATGTAAGTTATGTAAGATACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* ** *
46059529 TATGTAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
46059556 TATGTAAGTTAT
1 TATGTAAGTTAT
46059568 TTAATTTACT
Statistics
Matches: 244, Mismatches: 11, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
27 213 0.87
29 2 0.01
31 2 0.01
32 2 0.01
34 2 0.01
36 23 0.09
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
TATGTAAGTTATGTAAGATATTTAATT
Found at i:46059533 original size:18 final size:17
Alignment explanation
Indices: 46059312--46059548 Score: 150
Period size: 18 Copynumber: 13.2 Consensus size: 17
46059302 TTTATGTAAA
*
46059312 TTATGTAAGATATTTAAT
1 TTATGTAAGTTA-TTAAT
*
46059330 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTAT-TAAT
* * * *
46059348 ATATTTAATTTATGTAAG
1 TTATGTAAGTTAT-TAAT
* *
46059366 TTATGCAAGATATTTAAT
1 TTATGTAAGTTA-TTAAT
*
46059384 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTAT-TAAT
* * * *
46059402 ATATTTAATTTATGTAAA
1 TTATGTAAGTTAT-TAAT
*
46059420 TTATGTAAGATATTTAAT
1 TTATGTAAGTTA-TTAAT
*
46059438 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTAT-TAAT
* *
46059456 TTATTTAATTTACTTAAT
1 TTATGTAAGTTA-TTAAT
*
46059474 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTAT-TAAT
* * * *
46059492 ATATTTAATTTATGTAAG
1 TTATGTAAGTTAT-TAAT
*
46059510 TTATGTAAGATACTTAAT
1 TTATGTAAGTTA-TTAAT
46059528 TTATGTAAGTTATTTAAT
1 TTATGTAAGTTA-TTAAT
46059546 TTA
1 TTA
46059549 CTTAATTTAT
Statistics
Matches: 170, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
17 4 0.02
18 162 0.95
19 4 0.02
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (17 bp):
TTATGTAAGTTATTAAT
Found at i:46059580 original size:9 final size:9
Alignment explanation
Indices: 46059520--46059582 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
46059510 TTATGTAAGA
46059520 TACTTAATT
1 TACTTAATT
*
46059529 TA-TGTAAGT
1 TACT-TAATT
*
46059538 TATTTAATT
1 TACTTAATT
46059547 TACTTAATT
1 TACTTAATT
*
46059556 TA-TGTAAGT
1 TACT-TAATT
*
46059565 TATTTAATT
1 TACTTAATT
46059574 TACTTAATT
1 TACTTAATT
46059583 ATGATTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 2 0.05
9 40 0.91
10 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (9 bp):
TACTTAATT
Found at i:46060180 original size:13 final size:13
Alignment explanation
Indices: 46060158--46060194 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
46060148 CTCCATGGAA
46060158 ACAT-TTTTAATT
1 ACATATTTTAATT
46060170 ACATATTTTAATT
1 ACATATTTTAATT
46060183 ACATATTTTAAT
1 ACATATTTTAAT
46060195 AAACATTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
ACATATTTTAATT
Found at i:46062039 original size:14 final size:15
Alignment explanation
Indices: 46062008--46062042 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
46061998 TCTGACCCCA
*
46062008 AAATCCCTAAACCTT
1 AAATCCCTAAACCCT
46062023 AAATCCC-AAACCCT
1 AAATCCCTAAACCCT
46062037 AAATCC
1 AAATCC
46062043 ATACAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAACCCT
Found at i:46064957 original size:21 final size:18
Alignment explanation
Indices: 46064925--46064964 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
46064915 ATTTAGATGC
46064925 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
46064945 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
46064964 A
1 A
46064965 ACAAAACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:46066824 original size:98 final size:98
Alignment explanation
Indices: 46066654--46067425 Score: 1310
Period size: 98 Copynumber: 7.9 Consensus size: 98
46066644 CGAGGAAATA
* * * * *
46066654 AGATTCGCCGTTGCAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGG
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCC-AGAAGTAAGATTCGCCGTTGTGG
46066719 CTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
65 CTTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* *
46066753 AGATTCGCTGTTGTAGCTTCAATCTGCTCTACTGCATTGCCAGAAGTAAGATTCGCCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
46066818 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* *
46066851 AGATTCGCTGTTGTAGCTTCAATCTGCTCTACTGCATTGCCAGAAGTAAGATTCGCCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
46066916 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* *
46066949 AGATTCGCTGTTGTAGCTTCAATCTGCTCTACTGCATTGCCAGAAGTAAGATTCGCCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
*
46067014 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTA
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * * *
46067047 AGATTCACTGTTGTAGCTTTAATCTGTTCCACTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
*
46067112 TTCGATCTTTTAAATTGCAATGTCCGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* *
46067145 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCGCCGCTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
46067210 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* *
46067243 AGATTCGCTGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCAGAAGTAAGATTCACCGTTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
46067308 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
66 TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
* * * *
46067341 AGATTCGCTGTTGTAGCTTCAATCTACTCCGCTGCATCACCAGAAGTAAGATTCGCCGCTGTGGC
1 AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
46067406 TTCGATCTTTTAAATTGCAA
66 TTCGATCTTTTAAATTGCAA
46067426 ACTATGGTTT
Statistics
Matches: 644, Mismatches: 29, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
98 609 0.95
99 35 0.05
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (98 bp):
AGATTCGCTGTTGTAGCTTCAATCTGCTCCACTGCATCGCCAGAAGTAAGATTCGCCGTTGTGGC
TTCGATCTTTTAAATTGCAATGTCGGGGAAGTG
Found at i:46068751 original size:20 final size:20
Alignment explanation
Indices: 46068728--46068767 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46068718 TTGGCCTCTC
*
46068728 CTTTTTTTTTTTCTTTTTTT
1 CTTTTTGTTTTTCTTTTTTT
*
46068748 CTTTTTGTTTTTGTTTTTTT
1 CTTTTTGTTTTTCTTTTTTT
46068768 GAATGCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (20 bp):
CTTTTTGTTTTTCTTTTTTT
Found at i:46068752 original size:14 final size:13
Alignment explanation
Indices: 46068729--46068767 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
46068719 TGGCCTCTCC
46068729 TTTTTTTTTTTCT
1 TTTTTTTTTTTCT
*
46068742 TTTTTTCTTTTTGT
1 TTTTTT-TTTTTCT
46068756 TTTTGTTTTTTT
1 TTTT-TTTTTTT
46068768 GAATGCCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 15 0.65
15 2 0.09
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:46079557 original size:21 final size:18
Alignment explanation
Indices: 46079525--46079564 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
46079515 ATTTAGATGC
46079525 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
46079545 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
46079564 A
1 A
46079565 ACAAAACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:46081310 original size:633 final size:634
Alignment explanation
Indices: 46080105--46082022 Score: 2746
Period size: 633 Copynumber: 3.0 Consensus size: 634
46080095 CATTGAAGGC
* * *
46080105 GCGAATAACGAGGAATGACCAAAAGGGGAATAATCCTGTCCATCCAAAACGCTCAGCTTCAAGAT
1 GCGAATAACGAGGAAGGACCAAAAGGGGAATAATCTTGTCCATCCAAAACGCTCAACTTCAAGAT
*
46080170 GGGTCAGATTGAAATCTGAAAGAAATTCCAAGGCAAAATTAAAAATAAAATAAACCTAACAAAAA
66 GAGTCAGATTGAAATCTGAAAGAAATTCCAAGGCAAAATTAAAAATAAAATAAACCTAACAAAAA
46080235 GGGACTAAATCACAAAATGGGCGAAATGCGGAAGGATCCGCAGCGCAAATATCCCTTCACCGCAG
131 GGGACTAAATCACAAAATGGGCGAAATGCGGAAGGATCCGCAGCGCAAATATCCCTTCACCGCAG
46080300 AAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTATTAGGCGAAACGGCGTCGTTTT
196 AAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTATTAGGCGAAACGGCGTCGTTTT
46080365 AGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGTATAAATAGCAGAAAATAAAGA
261 AGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGTATAAATAGCAGAAAATAAAGA
46080430 AAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTCAGCTCTCTCCCCCTCTCTGCC
326 AAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTCAGCTCTCTCCCCCTCTCTGCC
46080495 CTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGCCCCGCCGTAGACGGTGGCCGA
391 CTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGCCCCGCCGTAGACGGTGGCCGA
46080560 GACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTTAAAAAAACGAGTCCTCCGGAC
456 GACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTTAAAAAAACGAGTCCTCCGGAC
46080625 TCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTTCGATTCCAACACCAGAGAAGA
521 TCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTTCGATTCCAACACCAGAGAAGA
46080690 TCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCCTT-GT
586 TCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCCTTCGT
* *
46080738 GCGAATAACGAGGAAGGACCAAAGGGGGAATAATCTTGTCCCTCCAAAACGCTCAACTTCAAGAT
1 GCGAATAACGAGGAAGGACCAAAAGGGGAATAATCTTGTCCATCCAAAACGCTCAACTTCAAGAT
*
46080803 GTGTCAGATTGAAATCTGAAAGAAATTCCAAGGCAAAATTAAAAATAAAATAAACCTAACAAAAA
66 GAGTCAGATTGAAATCTGAAAGAAATTCCAAGGCAAAATTAAAAATAAAATAAACCTAACAAAAA
46080868 GGGACTAAATCACAAAATGGGCGAAATGCGGAAGGATCCGCAGCGCAAATATCCCTTCACCGCAG
131 GGGACTAAATCACAAAATGGGCGAAATGCGGAAGGATCCGCAGCGCAAATATCCCTTCACCGCAG
46080933 AAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTATTAGGCGAAACGGCGTCGTTTT
196 AAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTATTAGGCGAAACGGCGTCGTTTT
46080998 AGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGTATAAATAGCAGAAAATAAAGA
261 AGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGTATAAATAGCAGAAAATAAAGA
46081063 AAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTCAGCTCTCTCCCCCTCTCTGCC
326 AAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTCAGCTCTCTCCCCCTCTCTGCC
46081128 CTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGCCCCGCCGTAGACGGTGGCCGA
391 CTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGCCCCGCCGTAGACGGTGGCCGA
46081193 GACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTTAAAAAAACGAGTCCTCCGGAC
456 GACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTTAAAAAAACGAGTCCTCCGGAC
46081258 TCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTTCGATTCCAACACCAGAGAAGA
521 TCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTTCGATTCCAACACCAGAGAAGA
*
46081323 TCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCCTTCCCTT
586 TCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCCTT--CGT
* * * * * * * *** ** ** * *
46081374 TCCATTTTTTGTTAAAGAAAGATAGAAAACAAAAAAAGTAAAATAAAATAAATAACAACACAAGA
1 GCGA-------ATAACG-AGGA-AG--GAC--CAAAAGGGGAATAATCT-TGT-CCATC-CAA-A
** **** * **** * ****** ** *** ***
46081439 ACAG-AAAAGGAAAAAGAACTAGAATCA-ACCTTTTCTTTTAGATCTCGTTTTTATTTCAGTTGT
49 AC-GCTCAA-CTTCAAG-A-T-GAGTCAGA--TTGAAATCT-GAAAGAAATTCCAAGGCA-AAAT
***** ** ** *** ** *** ** ** * **
46081502 TGTTGTTAAAA-AAA--T-ACAAAGATATTGTTTTTTTTGCTTTTAT-AAC-CCAT-C--TA-TT
105 TAAAAATAAAATAAACCTAACAAA-A-AGGGACTAAATCAC-AAAATGGGCGAAATGCGGAAGGA
******
46081557 TCTATTTTGCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTT
167 TCCGCAGCGCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTT
46081622 TCGGTTATTAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGG
232 TCGGTTATTAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGG
46081687 TGGCCTGTATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACA
297 TGGCCTGTATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACA
46081752 GAGAGCTCAGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCA
362 GAGAGCTCAGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCA
46081817 CCGCCGGCCCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCA
427 CCGCCGGCCCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCA
46081882 ACCCCTTTAAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCC
492 ACCCCTTTAAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCC
46081947 TTTCGGTTCGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTT
557 TTTCGGTTCGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTT
46082012 TCTTCCCCTTC
622 TCTTCCCCTTC
46082023 CCTTTCCATT
Statistics
Matches: 1171, Mismatches: 82, Indels: 46
0.90 0.06 0.04
Matches are distributed among these distances:
633 625 0.53
636 3 0.00
643 4 0.00
644 3 0.00
645 2 0.00
647 2 0.00
649 10 0.01
650 1 0.00
651 3 0.00
652 3 0.00
653 464 0.40
654 5 0.00
655 1 0.00
656 8 0.01
657 8 0.01
658 10 0.01
659 12 0.01
660 7 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (634 bp):
GCGAATAACGAGGAAGGACCAAAAGGGGAATAATCTTGTCCATCCAAAACGCTCAACTTCAAGAT
GAGTCAGATTGAAATCTGAAAGAAATTCCAAGGCAAAATTAAAAATAAAATAAACCTAACAAAAA
GGGACTAAATCACAAAATGGGCGAAATGCGGAAGGATCCGCAGCGCAAATATCCCTTCACCGCAG
AAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTATTAGGCGAAACGGCGTCGTTTT
AGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGTATAAATAGCAGAAAATAAAGA
AAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTCAGCTCTCTCCCCCTCTCTGCC
CTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGCCCCGCCGTAGACGGTGGCCGA
GACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTTAAAAAAACGAGTCCTCCGGAC
TCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTTCGATTCCAACACCAGAGAAGA
TCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCCTTCGT
Found at i:46082157 original size:653 final size:653
Alignment explanation
Indices: 46080912--46082217 Score: 2612
Period size: 653 Copynumber: 2.0 Consensus size: 653
46080902 GATCCGCAGC
46080912 GCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTAT
1 GCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTAT
46080977 TAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGT
66 TAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGT
46081042 ATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTC
131 ATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTC
46081107 AGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGC
196 AGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGC
46081172 CCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTT
261 CCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTT
46081237 AAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTT
326 AAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTT
46081302 CGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCC
391 CGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCC
46081367 TTCCCTTTCCATTTTTTGTTAAAGAAAGATAGAAAACAAAAAAAGTAAAATAAAATAAATAACAA
456 TTCCCTTTCCATTTTTTGTTAAAGAAAGATAGAAAACAAAAAAAGTAAAATAAAATAAATAACAA
46081432 CACAAGAACAGAAAAGGAAAAAGAACTAGAATCAACCTTTTCTTTTAGATCTCGTTTTTATTTCA
521 CACAAGAACAGAAAAGGAAAAAGAACTAGAATCAACCTTTTCTTTTAGATCTCGTTTTTATTTCA
46081497 GTTGTTGTTGTTAAAAAAATACAAAGATATTGTTTTTTTTGCTTTTATAACCCATCTATTTCTAT
586 GTTGTTGTTGTTAAAAAAATACAAAGATATTGTTTTTTTTGCTTTTATAACCCATCTATTTCTAT
46081562 TTT
651 TTT
46081565 GCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTAT
1 GCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTAT
46081630 TAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGT
66 TAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGT
46081695 ATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTC
131 ATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTC
46081760 AGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGC
196 AGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGC
46081825 CCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTT
261 CCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTT
46081890 AAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTT
326 AAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTT
46081955 CGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCC
391 CGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCC
46082020 TTCCCTTTCCATTTTTTGTTAAAGAAAGATAGAAAACAAAAAAAGTAAAATAAAATAAATAACAA
456 TTCCCTTTCCATTTTTTGTTAAAGAAAGATAGAAAACAAAAAAAGTAAAATAAAATAAATAACAA
46082085 CACAAGAACAGAAAAGGAAAAAGAACTAGAATCAACCTTTTCTTTTAGATCTCGTTTTTATTTCA
521 CACAAGAACAGAAAAGGAAAAAGAACTAGAATCAACCTTTTCTTTTAGATCTCGTTTTTATTTCA
46082150 GTTGTTGTTGTTAAAAAAATACAAAGATATTGTTTTTTTTGCTTTTATAACCCATCTATTTCTAT
586 GTTGTTGTTGTTAAAAAAATACAAAGATATTGTTTTTTTTGCTTTTATAACCCATCTATTTCTAT
46082215 TTT
651 TTT
46082218 TCTATTATTT
Statistics
Matches: 653, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
653 653 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (653 bp):
GCAAATATCCCTTCACCGCAGAAACACACGGATCCTAAAGGCCATCGGGTCGGGTTTTCGGTTAT
TAGGCGAAACGGCGTCGTTTTAGTCATAATACTCAAGCCCAAAACGGCGCCGTATGGTGGCCTGT
ATAAATAGCAGAAAATAAAGAAAAAAAATTTCATTCAATTTTAAAAGAAAAGAAACAGAGAGCTC
AGCTCTCTCCCCCTCTCTGCCCTCTCCGGGAGTTACCCTGAATCTGGCGAGAAATCACCGCCGGC
CCCGCCGTAGACGGTGGCCGAGACACCTAAAAGTCAAGCTTTTAAACCCCGTTTTCAACCCCTTT
AAAAAAACGAGTCCTCCGGACTCAATAGGCCGGAGAAGGAAGGGTATTTTGTACCCCTTTCGGTT
CGATTCCAACACCAGAGAAGATCTCCGGCGACGGGCTTTCGAAACCGGTAAGTACTTTCTTCCCC
TTCCCTTTCCATTTTTTGTTAAAGAAAGATAGAAAACAAAAAAAGTAAAATAAAATAAATAACAA
CACAAGAACAGAAAAGGAAAAAGAACTAGAATCAACCTTTTCTTTTAGATCTCGTTTTTATTTCA
GTTGTTGTTGTTAAAAAAATACAAAGATATTGTTTTTTTTGCTTTTATAACCCATCTATTTCTAT
TTT
Found at i:46084380 original size:20 final size:19
Alignment explanation
Indices: 46084355--46084419 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
46084345 AAAATAATCA
46084355 AAAATAATTTTCAAAAATTC
1 AAAATAATTTT-AAAAATTC
* *
46084375 AAAATAATTTTTAAAATTA
1 AAAATAATTTTAAAAATTC
46084394 AAAAT-ATTTATAAAAAATTC
1 AAAATAATTT-T-AAAAATTC
46084414 TAAAAT
1 -AAAAT
46084420 TTATATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 17 0.45
21 5 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTC
Found at i:46084409 original size:19 final size:19
Alignment explanation
Indices: 46084354--46084409 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
46084344 CAAAATAATC
46084354 AAAAATAATTTTCAAAAATT
1 AAAAATAATTTT-AAAAATT
* *
46084374 CAAAATAATTTTTAAAATT
1 AAAAATAATTTTAAAAATT
46084393 AAAAAT-ATTTATAAAAA
1 AAAAATAATTT-TAAAAA
46084410 ATTCTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 16 0.52
20 11 0.35
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATAATTTTAAAAATT
Found at i:46084468 original size:43 final size:41
Alignment explanation
Indices: 46084360--46084468 Score: 113
Period size: 44 Copynumber: 2.7 Consensus size: 41
46084350 AATCAAAAAT
46084360 AATTTTC--AAAAATTC--AAAATA-ATTTTTAAAATTAAA
1 AATTTTCAAAAAAATTCTAAAAATATATTTTTAAAATTAAA
* *
46084396 AATATTT-ATAAAAAATTCTAAAATTTATATTTTTAAAATTTTTAA
1 AAT-TTTCA-AAAAAATTCTAAAA-ATATATTTTTAAAA--TTAAA
46084441 AATTTTCAAAAAAATTCTAAAAATATAT
1 AATTTTCAAAAAAATTCTAAAAATATAT
46084469 ATAAAGAAAG
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 3 0.05
37 3 0.05
39 8 0.14
41 3 0.05
42 2 0.03
43 15 0.25
44 17 0.29
45 8 0.14
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (41 bp):
AATTTTCAAAAAAATTCTAAAAATATATTTTTAAAATTAAA
Found at i:46085925 original size:31 final size:31
Alignment explanation
Indices: 46085872--46085936 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
46085862 TACAATTTGA
** * *
46085872 TCACTAAACTATTTGAACGTTTTCATTTAAG
1 TCACTAAACTATTCAAAAGTTTTCATGTAAG
* *
46085903 TCACTAAATTATTCAAAAGTTTTTATGTAAG
1 TCACTAAACTATTCAAAAGTTTTCATGTAAG
46085934 TCA
1 TCA
46085937 ATGAGTGGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTTCATGTAAG
Found at i:46089259 original size:41 final size:41
Alignment explanation
Indices: 46089175--46089261 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
46089165 ACCGGCACTT
* *
46089175 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCAGCAATA
* * *
46089216 AGCCTGCTAGACATTTAGTCT-AAAGTGTTTCATCAGCAATA
1 AGCCTGCTAGACATATAGTCTGAAA-TATTTCACCAGCAATA
46089257 AGCCT
1 AGCCT
46089262 ACTAAGCGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.08
41 37 0.93
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACATATAGTCTGAAATATTTCACCAGCAATA
Found at i:46090876 original size:13 final size:13
Alignment explanation
Indices: 46090858--46090882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46090848 CAATCAAATG
46090858 CACACAAAATAAA
1 CACACAAAATAAA
46090871 CACACAAAATAA
1 CACACAAAATAA
46090883 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:46094954 original size:40 final size:39
Alignment explanation
Indices: 46094904--46095044 Score: 124
Period size: 40 Copynumber: 3.6 Consensus size: 39
46094894 AAACACACCA
* *
46094904 ATTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAAT
1 ATTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAAT
* * * *
46094943 ACTTTGACACCCAGTGTCTCATCGGCTAAACCGAAGTAA-
1 A-TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAAT
* * **
46094982 A-TTGGCACCTAGTGCCTCATCAAATATATCTGAAGTAAT
1 ATTTGACACCCAGTGCCTCATCGGATA-ATCTGAAGTAAT
** *
46095021 AATTTGACACTTAGTGTCTCATCG
1 -ATTTGACACCCAGTGCCTCATCG
46095045 ACTCGAAGCC
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
37 19 0.24
38 9 0.11
39 2 0.03
40 32 0.41
41 17 0.22
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (39 bp):
ATTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAAT
Found at i:46095643 original size:18 final size:19
Alignment explanation
Indices: 46095617--46095652 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46095607 TAAACTAAAT
*
46095617 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
46095635 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
46095653 AAATTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:46095816 original size:6 final size:7
Alignment explanation
Indices: 46095791--46095830 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
46095781 CTCCTTTCTT
46095791 TTTTTCTC
1 TTTTTC-C
46095799 TTTTTCC
1 TTTTTCC
46095806 TTTTTCC
1 TTTTTCC
46095813 TTTTTCC
1 TTTTTCC
*
46095820 TTTTTCA
1 TTTTTCC
46095827 TTTT
1 TTTT
46095831 CTGTTTTCGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCC
Found at i:46097363 original size:17 final size:17
Alignment explanation
Indices: 46097316--46097378 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
46097306 AACCAATTCC
*
46097316 AAATTAAAAATTAATAT
1 AAATAAAAAATTAATAT
* *
46097333 -AA-ACATAA-TAATAT
1 AAATAAAAAATTAATAT
* *
46097347 TAATAAAAATTTAATAT
1 AAATAAAAAATTAATAT
46097364 AAATAAAAAATTAAT
1 AAATAAAAAATTAAT
46097379 CAATAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
14 6 0.17
15 5 0.14
16 5 0.14
17 19 0.54
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAAAAATTAATAT
Found at i:46097434 original size:38 final size:36
Alignment explanation
Indices: 46097376--46097461 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
46097366 ATAAAAAATT
46097376 AATCAATAAAAAAAACTAAAAGTAAAACCTAAATTCCCA
1 AATC-ATAAAAAAAACTAAAAGT--AACCTAAATTCCCA
* * ** *
46097415 AATCATAAAAGAAATTAAAAGTTCCCTAAATTCTCA
1 AATCATAAAAAAAACTAAAAGTAACCTAAATTCCCA
*
46097451 AATCATTAAAA
1 AATCATAAAAA
46097462 TTATTATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 20 0.50
38 16 0.40
39 4 0.10
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.23
Consensus pattern (36 bp):
AATCATAAAAAAAACTAAAAGTAACCTAAATTCCCA
Found at i:46098331 original size:23 final size:23
Alignment explanation
Indices: 46098305--46098349 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
46098295 TCCCTCTCAA
*
46098305 TCCCCAACTCCGTTAATCTCTTC
1 TCCCCAACTCCGTTAACCTCTTC
*
46098328 TCCCCAACTCCTTTAACCTCTT
1 TCCCCAACTCCGTTAACCTCTT
46098350 AACTCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.44, G:0.02, T:0.36
Consensus pattern (23 bp):
TCCCCAACTCCGTTAACCTCTTC
Found at i:46100300 original size:26 final size:27
Alignment explanation
Indices: 46100241--46100300 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
46100231 TTTAAAATTT
* *
46100241 TATAATATTTTAAAATTTTTTATATAT
1 TATAATATTTTAAAATTTTTAATATAA
* *
46100268 TAT-ATATTTTTATATTTTTAAT-TAA
1 TATAATATTTTAAAATTTTTAATATAA
46100293 TATAATAT
1 TATAATAT
46100301 ATGATAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.18
26 20 0.71
27 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TATAATATTTTAAAATTTTTAATATAA
Found at i:46104095 original size:34 final size:34
Alignment explanation
Indices: 46104052--46104123 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
46104042 CATAAGTACA
*
46104052 TCCATTAACCACTTTAAATCATACCAAAGATACC
1 TCCATTAACCACTTTAAATCATACCAAACATACC
46104086 TCCATTAACCACTTTAAATCATACCAAACATACC
1 TCCATTAACCACTTTAAATCATACCAAACATACC
46104120 TCCA
1 TCCA
46104124 AAATATACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.32, G:0.01, T:0.26
Consensus pattern (34 bp):
TCCATTAACCACTTTAAATCATACCAAACATACC
Found at i:46104423 original size:25 final size:25
Alignment explanation
Indices: 46104389--46104459 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
46104379 AAGTGAGAAA
*
46104389 CGGTAAGCTCTTTCGAGCTG-AATAT
1 CGGTAAGCTCTTACGAGCTGTAA-AT
*
46104414 CGGTAAGCTCTTACGATCTGTAAAT
1 CGGTAAGCTCTTACGAGCTGTAAAT
* *
46104439 CGGTAAGCTCATACGAACTGT
1 CGGTAAGCTCTTACGAGCTGT
46104460 GGTGAGTTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 39 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
CGGTAAGCTCTTACGAGCTGTAAAT
Found at i:46106795 original size:23 final size:23
Alignment explanation
Indices: 46106761--46106819 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
46106751 CTGAGTTGAT
* *
46106761 AAACGGTAAGCTCTATCGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
* *
46106784 AAATGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
46106807 AAACGGTAAGCTC
1 AAACGGTAAGCTC
46106820 ATACAAGCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:46106828 original size:23 final size:22
Alignment explanation
Indices: 46106761--46106829 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
46106751 CTGAGTTGAT
46106761 AAACGGTAAGCTCTATCGAGCTG
1 AAACGGTAAGCTCTA-CGAGCTG
*
46106784 AAATGGTAAGCTCCGTA-GAGCTG
1 AAACGGTAAGCT-C-TACGAGCTG
*
46106807 AAACGGTAAGCTCATACAAGCTG
1 AAACGGTAAGCTC-TACGAGCTG
46106830 TGGTGAGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 3 0.08
23 33 0.85
24 1 0.03
25 2 0.05
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (22 bp):
AAACGGTAAGCTCTACGAGCTG
Found at i:46113723 original size:7 final size:7
Alignment explanation
Indices: 46113711--46113765 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
46113701 TTAAAAACTT
46113711 AATTAAC
1 AATTAAC
46113718 AATTAAC
1 AATTAAC
46113725 AATTAAC
1 AATTAAC
46113732 AATTAAC
1 AATTAAC
46113739 AATTAAC
1 AATTAAC
46113746 AATTAAC
1 AATTAAC
46113753 AATTAAC
1 AATTAAC
46113760 AATTAA
1 AATTAA
46113766 TGTCCATAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAC
Found at i:46116861 original size:106 final size:105
Alignment explanation
Indices: 46116676--46116869 Score: 273
Period size: 106 Copynumber: 1.8 Consensus size: 105
46116666 AAGGGAGGTC
* * * * ** *
46116676 TGTCTTGAGACTTAGTCTCTAGACTTGAGAAGTTATATTTTGAGGCATGGATTTCAATGTTCAAG
1 TGTCTTGAGACTGAGTCTCTAAACTTGAGAAGTCATATCTTGAGAAATAGATTTCAATGTTCAAG
46116741 ACATGTCAACATTGAAGCTAAAATAGCGAAACGGGGTTGTT
66 ACATGTCAACATTGAAGC-AAAATAGCGAAACGGGGTTGTT
*
46116782 TGTCTTGAGACTGAGTCTCTAAACTTGAGAAGTCATGTCTTGAGAAATAGATTTCAATGCTT-AA
1 TGTCTTGAGACTGAGTCTCTAAACTTGAGAAGTCATATCTTGAGAAATAGATTTCAATG-TTCAA
* *
46116846 TACGTGTCAACATTGAAGCAAAAT
65 GACATGTCAACATTGAAGCAAAAT
46116870 TTCTAGAAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
105 5 0.06
106 70 0.91
107 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (105 bp):
TGTCTTGAGACTGAGTCTCTAAACTTGAGAAGTCATATCTTGAGAAATAGATTTCAATGTTCAAG
ACATGTCAACATTGAAGCAAAATAGCGAAACGGGGTTGTT
Found at i:46119228 original size:992 final size:992
Alignment explanation
Indices: 46117304--46119288 Score: 3846
Period size: 992 Copynumber: 2.0 Consensus size: 992
46117294 TTGTCATTGA
46117304 TATGGAATGTCAGAATCATTACATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCGTT
1 TATGGAATGTCAGAATCATTACATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCGTT
46117369 ATGAGTATGTTTCTTGGATTATTATGTAATTGTCACGACATTACTCATAATGATTAATATTTATA
66 ATGAGTATGTTTCTTGGATTATTATGTAATTGTCACGACATTACTCATAATGATTAATATTTATA
46117434 TGATCCTCAGACTTGAGATCATCATAATCCCAACATCGTGAGTTGTATATTTTGATACAGTCAAA
131 TGATCCTCAGACTTGAGATCATCATAATCCCAACATCGTGAGTTGTATATTTTGATACAGTCAAA
46117499 CGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGA
196 CGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGA
*
46117564 TATGGTTGGTCGATATAGGATAAGTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTGAT
261 TATGGTTGGTCGATATAGGATAACTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTGAT
46117629 TAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAGTTGATATTAGATGTCATACTTATTTGT
326 TAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAGTTGATATTAGATGTCATACTTATTTGT
46117694 ATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAATGGACAATGCAAGTGTGACTATTCCATG
391 ATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAATGGACAATGCAAGTGTGACTATTCCATG
46117759 ACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTATTGCATAAAAGGTTAATCATAAAAAGG
456 ACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTATTGCATAAAAGGTTAATCATAAAAAGG
46117824 TTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTG
521 TTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTG
46117889 TTCGTAGCACTAGAATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAAGGTCACACCCT
586 TTCGTAGCACTAGAATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAAGGTCACACCCT
46117954 ATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTGTTTTTGGGATCGCTTGAATTAAATTAA
651 ATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTGTTTTTGGGATCGCTTGAATTAAATTAA
46118019 TTATAGAATTAATTTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTA
716 TTATAGAATTAATTTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTA
46118084 TAGTGAGGACATGAATTTGGTTAGCATAAGAATTCAAATAAATATATGATTATCCGAACTTATAT
781 TAGTGAGGACATGAATTTGGTTAGCATAAGAATTCAAATAAATATATGATTATCCGAACTTATAT
*
46118149 TATAATTAATGTAATTATAATTTTCAGATTAAAATATTATTATATTTATTTAATTCTTAAAAAAA
846 TATAATTAATGTAATTATAATTTTCAGATTAAAATATGATTATATTTATTTAATTCTTAAAAAAA
* *
46118214 ACCCTAAAACAAAAGGATATATATAATCCCATTTTTCTTTGTTTGAGTCTAGCAGCCGTCAAAGA
911 ACCCTAAAACAAAAAGATATATATAATCCCATTTTTCTTTGTTTGAGTCTAGCAACCGTCAAAGA
46118279 AAAATAACTCTCAAAAC
976 AAAATAACTCTCAAAAC
46118296 TATGGAATGTCAGAATCATTACATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCGTT
1 TATGGAATGTCAGAATCATTACATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCGTT
46118361 ATGAGTATGTTTCTTGGATTATTATGTAATTGTCACGACATTACTCATAATGATTAATATTTATA
66 ATGAGTATGTTTCTTGGATTATTATGTAATTGTCACGACATTACTCATAATGATTAATATTTATA
46118426 TGATCCTCAGACTTGAGATCATCATAATCCCAACATCGTGAGTTGTATATTTTGATACAGTCAAA
131 TGATCCTCAGACTTGAGATCATCATAATCCCAACATCGTGAGTTGTATATTTTGATACAGTCAAA
46118491 CGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGA
196 CGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGA
46118556 TATGGTTGGTCGATATAGGATAACTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTGAT
261 TATGGTTGGTCGATATAGGATAACTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTGAT
46118621 TAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAGTTGATATTAGATGTCATACTTATTTGT
326 TAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAGTTGATATTAGATGTCATACTTATTTGT
46118686 ATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAATGGACAATGCAAGTGTGACTATTCCATG
391 ATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAATGGACAATGCAAGTGTGACTATTCCATG
46118751 ACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTATTGCATAAAAGGTTAATCATAAAAAGG
456 ACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTATTGCATAAAAGGTTAATCATAAAAAGG
46118816 TTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTG
521 TTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTG
* *
46118881 TTCGTAGCATTAGAATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAGGGTCACACCCT
586 TTCGTAGCACTAGAATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAAGGTCACACCCT
*
46118946 ATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTGTTTTTGGGGTCGCTTGAATTAAATTAA
651 ATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTGTTTTTGGGATCGCTTGAATTAAATTAA
46119011 TTATAGAATTAATTTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTA
716 TTATAGAATTAATTTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTA
*
46119076 TAGTGAGGACATGAATTTGGTTAGCATAAGAATTCAAATAAATATATGGTT-TACCGAACTTATA
781 TAGTGAGGACATGAATTTGGTTAGCATAAGAATTCAAATAAATATATGATTAT-CCGAACTTATA
**
46119140 TTATAATTAATGTAATTATAATTTTTGGATTAAAATATGATTATATTTATTTAATTCTTAAAAAA
845 TTATAATTAATGTAATTATAATTTTCAGATTAAAATATGATTATATTTATTTAATTCTTAAAAAA
**
46119205 AACCCTAAAACAAAAAGATATATATAATCCTGTTTTTCTTTGTTTGAGTCTAGCAACCGTCAAAG
910 AACCCTAAAACAAAAAGATATATATAATCCCATTTTTCTTTGTTTGAGTCTAGCAACCGTCAAAG
46119270 AAAAATAACTCTCAAAAC
975 AAAAATAACTCTCAAAAC
46119288 T
1 T
46119289 GTTTTGGGGA
Statistics
Matches: 980, Mismatches: 12, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
991 1 0.00
992 979 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (992 bp):
TATGGAATGTCAGAATCATTACATGAATATGTGTGTTAGAGAACAACATATTGGACTGACCCGTT
ATGAGTATGTTTCTTGGATTATTATGTAATTGTCACGACATTACTCATAATGATTAATATTTATA
TGATCCTCAGACTTGAGATCATCATAATCCCAACATCGTGAGTTGTATATTTTGATACAGTCAAA
CGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTTGGATATACCACAATCTATGTAGAGGGA
TATGGTTGGTCGATATAGGATAACTCCCTCCTACATAATGGGAGTAATATCTTAGGCCACTTGAT
TAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAGTTGATATTAGATGTCATACTTATTTGT
ATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAATGGACAATGCAAGTGTGACTATTCCATG
ACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTATTGCATAAAAGGTTAATCATAAAAAGG
TTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAATGATGCATTGCTAGATGCCACTCATTG
TTCGTAGCACTAGAATCGTTCTAGTGTTACTGCTAACGTTACAAGAACCTACAAGGTCACACCCT
ATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTGTTTTTGGGATCGCTTGAATTAAATTAA
TTATAGAATTAATTTAATTCGGTAATCAAATTTCCAACACATTATGTACAAGGTTGTTGTACGTA
TAGTGAGGACATGAATTTGGTTAGCATAAGAATTCAAATAAATATATGATTATCCGAACTTATAT
TATAATTAATGTAATTATAATTTTCAGATTAAAATATGATTATATTTATTTAATTCTTAAAAAAA
ACCCTAAAACAAAAAGATATATATAATCCCATTTTTCTTTGTTTGAGTCTAGCAACCGTCAAAGA
AAAATAACTCTCAAAAC
Found at i:46120049 original size:27 final size:26
Alignment explanation
Indices: 46120019--46120069 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
46120009 ACTATGACTA
*
46120019 AATTAGCCAAATATGCTGATTTTTTTT
1 AATTAGCCAAATAGGCT-ATTTTTTTT
*
46120046 AATTAGTCAAATAGGCTATTTTTT
1 AATTAGCCAAATAGGCTATTTTTT
46120070 AAAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (26 bp):
AATTAGCCAAATAGGCTATTTTTTTT
Found at i:46127033 original size:15 final size:17
Alignment explanation
Indices: 46127015--46127046 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
46127005 CCGAAACATC
46127015 AAAAGAA-AAAG-TAAG
1 AAAAGAAGAAAGCTAAG
46127030 AAAAGAAGAAAGCTAAG
1 AAAAGAAGAAAGCTAAG
46127047 TTCGACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.06
Consensus pattern (17 bp):
AAAAGAAGAAAGCTAAG
Found at i:46127816 original size:28 final size:28
Alignment explanation
Indices: 46127770--46127863 Score: 116
Period size: 28 Copynumber: 3.4 Consensus size: 28
46127760 TGACTTTCGA
* *
46127770 CACTAAGTGTCCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
46127798 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
46127826 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
46127854 CACTAAGTGT
1 CACTAAGTGT
46127864 ACGAACTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:46128656 original size:70 final size:70
Alignment explanation
Indices: 46128569--46129156 Score: 765
Period size: 70 Copynumber: 8.3 Consensus size: 70
46128559 ATGTTCATGT
* *
46128569 AATTTTTATGCTTAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATTTGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46128634 TGTCC
66 TGTCC
* * * *
46128639 AATTTTGATG-TAAAAATGCTG-CTCAATTTGGTATATATATATGCTGCCCAAATTGTTGCATAT
1 AATTTTTATGCT-AAAATGCTGTC-CAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGTATAT
*
46128702 ATGCTGTCA
62 ATGCTGTCC
* * *
46128711 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCACAAATTGGTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
*
46128776 TGTCA
66 TGTCC
* *
46128781 AATTTTTATGCTAAAATGTTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGGATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46128846 TGTCC
66 TGTCC
* * *
46128851 AATTTTTATGCTTAAATGCTGCCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
*
46128916 TGTCG
66 TGTCC
* ** *
46128921 AATTTTTATGCTTAAATGCTACCCAATTTGTTGTATTTATGCTGCCCAATTTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46128986 TGTCC
66 TGTCC
* * * * *
46128991 AATTTTGATG-TAAAAATGCTG-CTCAATTTGGTATATATATAGGCTGCCCAAATTATTGTATAT
1 AATTTTTATGCT-AAAATGCTGTC-CAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGTATAT
46129054 ATGCTGTCC
62 ATGCTGTCC
* * *
46129063 AATTTTTATGCTAAAATGCTG-CTCAATTTGATGTATATATGTTGCCCAAATTGTTGTATATATG
1 AATTTTTATGCTAAAATGCTGTC-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATG
46129127 CTGTCC
65 CTGTCC
*
46129133 AATTTTTGGTG-TGAAAATGCTGTC
1 AATTTTT-ATGCT-AAAATGCTGTC
46129157 TAGTTTGATA
Statistics
Matches: 463, Mismatches: 41, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
69 4 0.01
70 319 0.69
71 18 0.04
72 119 0.26
73 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (70 bp):
AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
TGTCC
Found at i:46128972 original size:47 final size:47
Alignment explanation
Indices: 46128584--46129137 Score: 287
Period size: 47 Copynumber: 11.8 Consensus size: 47
46128574 TTATGCTTAA
* * *
46128584 ATGCTGTCCAATTTGT-TG-TATTTATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTATGCT-TATATGCTGCCCAATTTGTTGTATAT
* * * * * *
46128630 TTGCTGTCCAATTT-TGATG-TAAAAATGCTGCTCAATTTGGTATATATAT
1 ATGCTGCCCAATTTGT-ATGCT-TATATGCTGCCCAATTT-GT-TGTATAT
* * * * * *
46128679 ATGCTGCCCAAATTGT-TGCATATATGCTGTCAAATTTTTATGCTA-AA
1 ATGCTGCCCAATTTGTATGCTTATATGCTGCCCAATTTGT-TG-TATAT
* * * * * *
46128726 ATGCTGTCCAATTTGT-TG-TATTTATGCTGCACAAATTGGTGCATAT
1 ATGCTGCCCAATTTGTATGCT-TATATGCTGCCCAATTTGTTGTATAT
* * * * * * * *
46128772 ATGCTGTCAAATTTTTATGCTAAAATGTTGTCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTATGCTTATATGCTGCCCAATTTGTTGTATAT
* ** * * *
46128819 ATGCTGCCCAAATTGT-TGGATATATGCTGTCCAATTTTTATGCT-TAA
1 ATGCTGCCCAATTTGTATGCTTATATGCTGCCCAATTTGT-TG-TATAT
* * *
46128866 ATGCTGCCCAATTTGT-TG-TATTTATGCTGCCCAAATTGTTGCATAT
1 ATGCTGCCCAATTTGTATGCT-TATATGCTGCCCAATTTGTTGTATAT
* * * * * *
46128912 ATGCTGTCGAATTTTTATGCTTAAATGCTACCCAATTTGTTGTATTT
1 ATGCTGCCCAATTTGTATGCTTATATGCTGCCCAATTTGTTGTATAT
* * * *
46128959 ATGCTGCCCAATTTGT-TG-TATATATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAATTTGTATGCT-TATATGCTGCCCAA-TTTGTTGTATAT
* * * * *
46129006 ATGCTGCTCAATTTGGTAT-ATATATAGGCTGCCCAAATTATTGTATAT
1 ATGCTGCCCAATTT-GTATGCT-TATATGCTGCCCAATTTGTTGTATAT
* * * * * *
46129054 ATGCTGTCCAATTTTTATGCTAAAATGCTGCTCAATTTGATGTATAT
1 ATGCTGCCCAATTTGTATGCTTATATGCTGCCCAATTTGTTGTATAT
* * *
46129101 ATGTTGCCCAAATTGT-TG-TATATATGCTGTCCAATTT
1 ATGCTGCCCAATTTGTATGCT-TATATGCTGCCCAATTT
46129138 TTGGTGTGAA
Statistics
Matches: 375, Mismatches: 109, Indels: 48
0.70 0.20 0.09
Matches are distributed among these distances:
45 4 0.01
46 92 0.25
47 203 0.54
48 43 0.11
49 32 0.09
50 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (47 bp):
ATGCTGCCCAATTTGTATGCTTATATGCTGCCCAATTTGTTGTATAT
Found at i:46135177 original size:40 final size:40
Alignment explanation
Indices: 46135117--46135224 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
46135107 TTTTTAGTGA
*
46135117 TGTTTGTATAAAAAACGCCACTAAAAATCAAGCATTAGCGG
1 TGTTTTTA-AAAAAACGCCACTAAAAATCAAGCATTAGCGG
* ** ** *
46135158 TGTTTTTAAAAAAATGCCACTAAGGATTGAGTATTAGCGG
1 TGTTTTTAAAAAAACGCCACTAAAAATCAAGCATTAGCGG
* *
46135198 CGCTTTTT-AAAAAACGCCGCTAAAAAT
1 TG-TTTTTAAAAAAACGCCACTAAAAAT
46135225 GAGCAATAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
40 42 0.78
41 12 0.22
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (40 bp):
TGTTTTTAAAAAAACGCCACTAAAAATCAAGCATTAGCGG
Found at i:46135365 original size:41 final size:41
Alignment explanation
Indices: 46135302--46135500 Score: 335
Period size: 41 Copynumber: 4.9 Consensus size: 41
46135292 TTTTGAGGCA
* * *
46135302 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATACTCAGGGCT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGGCT
*
46135343 TTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGGCT
*
46135384 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGTTCAGGGCT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGGCT
* *
46135425 TTAGCGGCATTTTTTAAGAAGCGCCGCTAATGCTCAGGGAT
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGGCT
46135466 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTC
1 TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTC
46135501 TGATTTATCA
Statistics
Matches: 149, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCAGGGCT
Found at i:46136904 original size:185 final size:184
Alignment explanation
Indices: 46136593--46136943 Score: 639
Period size: 185 Copynumber: 1.9 Consensus size: 184
46136583 CGAACATCTA
*
46136593 GCATAATAGTCATATTTTAGTTAGGAATAAATATCTCTAATAAAATGGAGATTAAATAGGAAAAG
1 GCATAATAGTCATATTTTAGTTAAGAATAAATATCTCTAATAAAATGGAGATTAAATAGGAAAAG
46136658 AATAATATAAAATCATGATGAACATTTCAATATTTAATAGAAATCGTGATTAACATTGGATAATT
66 AATAATATAAAATCATGATGAACATTTCAATATTTAATAGAAATCGTGATTAACATTGGATAATT
46136723 CTAACATAATAATTAATTGTAGCCATTTAATCATTTGTTTTCTTATTAAAATAT
131 CTAACATAATAATTAATTGTAGCCATTTAATCATTTGTTTTCTTATTAAAATAT
* *
46136777 GCATAATAGTTATATTTTAGTTAAGAATAAATATCTCTAAATAAAATGGAGATTAAATCGGAAAA
1 GCATAATAGTCATATTTTAGTTAAGAATAAATATCTCT-AATAAAATGGAGATTAAATAGGAAAA
* *
46136842 GAATAATATAAAATCGTGATTAACATTTCAATATTTAATAGAAATCGTGATTAACATTGGATAAT
65 GAATAATATAAAATCATGATGAACATTTCAATATTTAATAGAAATCGTGATTAACATTGGATAAT
*
46136907 TCTAACTTAATAATTAATTGTAGCCATTTAATCATTT
130 TCTAACATAATAATTAATTGTAGCCATTTAATCATTT
46136944 AAACATTTCA
Statistics
Matches: 160, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
184 36 0.22
185 124 0.77
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (184 bp):
GCATAATAGTCATATTTTAGTTAAGAATAAATATCTCTAATAAAATGGAGATTAAATAGGAAAAG
AATAATATAAAATCATGATGAACATTTCAATATTTAATAGAAATCGTGATTAACATTGGATAATT
CTAACATAATAATTAATTGTAGCCATTTAATCATTTGTTTTCTTATTAAAATAT
Done.