Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 19 of 770
Found at i:5092060 original size:22 final size:21
Alignment explanation
Indices: 5092026--5092066 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
5092016 CCAATCCCAT
*
5092026 GCATCAGATAATAACAACATG
1 GCATCAGAAAATAACAACATG
5092047 GCATGCAGAAAATAACAACA
1 GCAT-CAGAAAATAACAACA
5092067 GTCAAACTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
GCATCAGAAAATAACAACATG
Found at i:5093654 original size:26 final size:26
Alignment explanation
Indices: 5093615--5093722 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
5093605 TAAAATTCTC
*
5093615 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5093641 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
5093667 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5093693 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
5093719 ATCA
1 ATCA
5093723 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:5094566 original size:27 final size:27
Alignment explanation
Indices: 5094536--5094589 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
5094526 TACAAAAATT
5094536 ATAAGAAATAATCAAGAGTTGAGCTTA
1 ATAAGAAATAATCAAGAGTTGAGCTTA
5094563 ATAAGAAATAATCAAGAGTTGAGCTTA
1 ATAAGAAATAATCAAGAGTTGAGCTTA
5094590 CATGTAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (27 bp):
ATAAGAAATAATCAAGAGTTGAGCTTA
Found at i:5096850 original size:54 final size:54
Alignment explanation
Indices: 5096766--5096909 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
5096756 TGGAGGAAGC
*
5096766 GTCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
5096820 GTCCTGGTGGCTATGTCACAATTATTTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
5096874 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
5096910 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:5096908 original size:81 final size:81
Alignment explanation
Indices: 5096769--5096922 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
5096759 AGGAAGCGTC
*
5096769 CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACT-T
5096834 -GTCACAATTATTTGAT
65 CGTCACAATTATTTGAT
* * * *
5096850 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATACCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
5096913 TCGTCACAAT
64 TCGTCACAAT
5096923 ATCTGGCAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
80 11 0.17
81 54 0.83
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTTC
GTCACAATTATTTGAT
Found at i:5096920 original size:27 final size:27
Alignment explanation
Indices: 5096769--5096927 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
5096759 AGGAAGCGTC
* *
5096769 CTGGTGGCTATACCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
5096796 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
5096823 CTGGTGGCTATGTCACAATTATTTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
5096850 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
5096877 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
5096904 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
5096928 GCAGCCTCAC
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:5100835 original size:75 final size:75
Alignment explanation
Indices: 5100716--5100887 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
5100706 CATGGCAAAG
** *
5100716 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
5100775 CCATACTGAGC
65 CCATACCGAGC
5100786 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
5100851 CATACCGAGT
66 CATACCGAGC
***
5100861 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
5100888 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:5100854 original size:35 final size:35
Alignment explanation
Indices: 5100719--5100885 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
5100709 GGCAAAGTGT
* **
5100719 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
5100754 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
5100789 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
5100829 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
5100865 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
5100886 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:5100877 original size:36 final size:35
Alignment explanation
Indices: 5100815--5100885 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
5100805 ATTATCAAAT
* *
5100815 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
5100850 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
5100886 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:5109494 original size:16 final size:16
Alignment explanation
Indices: 5109473--5109503 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5109463 AAAAAAATTA
*
5109473 AAAAATCTTTAAAAAT
1 AAAAATATTTAAAAAT
5109489 AAAAATATTTAAAAA
1 AAAAATATTTAAAAA
5109504 ATATAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATTTAAAAAT
Found at i:5109513 original size:19 final size:18
Alignment explanation
Indices: 5109444--5109517 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 18
5109434 TATATTTTTA
*
5109444 TAAAAAATTAAAATATATG
1 TAAAAAATTAAAA-ATATT
*
5109463 AAAAAAATTAAAAA-ATCT
1 TAAAAAATTAAAAATAT-T
*
5109481 TTAAAAA-TAAAAATATT
1 TAAAAAATTAAAAATATT
5109498 TAAAAAATATAAAAAT-TT
1 TAAAAAAT-TAAAAATATT
5109516 TA
1 TA
5109518 GACCGAACTG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 15 0.33
18 12 0.26
19 19 0.41
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (18 bp):
TAAAAAATTAAAAATATT
Found at i:5124061 original size:23 final size:22
Alignment explanation
Indices: 5124013--5124066 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
5124003 TTTTTGCCGA
*
5124013 AATTTTTTACCCCTATAAGTCG
1 AATTTTTTCCCCCTATAAGTCG
*
5124035 -ATTTTTTCCTCCCTATTAGTCG
1 AATTTTTTCC-CCCTATAAGTCG
5124057 AATTTTTTCC
1 AATTTTTTCC
5124067 ATGTATTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.48
Consensus pattern (22 bp):
AATTTTTTCCCCCTATAAGTCG
Found at i:5124315 original size:23 final size:23
Alignment explanation
Indices: 5124245--5124315 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
5124235 AACTTTTTTT
* *
5124245 TTTTTTATCTCTATAATTT-GA-
1 TTTTTTGTCTCTATAATTTAAAC
* * *
5124266 TTTGTTTGTCCCTATAATTCAACC
1 TTT-TTTGTCTCTATAATTTAAAC
*
5124290 TTTTTTGTCTCTGTAATTTAAAC
1 TTTTTTGTCTCTATAATTTAAAC
5124313 TTT
1 TTT
5124316 ATTATTATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
21 3 0.08
22 13 0.34
23 19 0.50
24 3 0.08
ACGTcount: A:0.21, C:0.15, G:0.07, T:0.56
Consensus pattern (23 bp):
TTTTTTGTCTCTATAATTTAAAC
Found at i:5131072 original size:6 final size:6
Alignment explanation
Indices: 5131061--5131085 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5131051 AAGCTATACT
5131061 AGCACA AGCACA AGCACA AGCACA A
1 AGCACA AGCACA AGCACA AGCACA A
5131086 AGACAACTAC
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:0.52, C:0.32, G:0.16, T:0.00
Consensus pattern (6 bp):
AGCACA
Found at i:5135222 original size:96 final size:96
Alignment explanation
Indices: 5135051--5135241 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 96
5135041 GTGTCCGAGG
* ** * * * * *
5135051 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAAGGAACGATCGAGCAGACAAGGAGCCCAAAAAGCTTAGTTCGAGCAAGGG
*
5135116 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGACAAAGAGGAGC
*
5135147 AAGTCTGTCATCGAAAGGAACGAT-GAAGCAGACAAGGAGCTCAAAAAGCTTAGTTCGAGCAAGG
1 AAGTCTGTCATCGAAAGGAACGATCG-AGCAGACAAGGAGCCCAAAAAGCTTAGTTCGAGCAAGG
* * *
5135211 GTAAAGTCGAAGCCAAGAGGACTAAGAGGAG
65 GAAAAGCCGAAGCCAAGAGGACAAAGAGGAG
5135242 TAAAAAGAAG
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 80 0.99
ACGTcount: A:0.37, C:0.17, G:0.32, T:0.14
Consensus pattern (96 bp):
AAGTCTGTCATCGAAAGGAACGATCGAGCAGACAAGGAGCCCAAAAAGCTTAGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGACAAAGAGGAGC
Found at i:5136873 original size:22 final size:22
Alignment explanation
Indices: 5136842--5136887 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
5136832 CTTGATTATG
*
5136842 CTGTCTCTAGTACTGACATTCT
1 CTGTCCCTAGTACTGACATTCT
*
5136864 CTGTCCCTAGTATTGACATTCT
1 CTGTCCCTAGTACTGACATTCT
5136886 CT
1 CT
5136888 ACGAACTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.41
Consensus pattern (22 bp):
CTGTCCCTAGTACTGACATTCT
Found at i:5153744 original size:7 final size:7
Alignment explanation
Indices: 5153732--5153760 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
5153722 GAGGGTTTTT
5153732 ATTTTAA
1 ATTTTAA
5153739 ATTTTAA
1 ATTTTAA
5153746 ATTTTAA
1 ATTTTAA
5153753 ATTTTAA
1 ATTTTAA
5153760 A
1 A
5153761 ACAGAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTTAA
Found at i:5155581 original size:117 final size:117
Alignment explanation
Indices: 5155430--5155780 Score: 675
Period size: 117 Copynumber: 3.0 Consensus size: 117
5155420 CATGAACGGA
*
5155430 GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
* *
5155495 TGGGCTATCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
5155547 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
5155612 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
5155664 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
5155729 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
5155781 AGAAACTTAT
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 231 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (117 bp):
GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
Found at i:5156208 original size:174 final size:174
Alignment explanation
Indices: 5155918--5156270 Score: 625
Period size: 174 Copynumber: 2.0 Consensus size: 174
5155908 AGGAAGCACT
* *
5155918 TGAAATCAATGGTACCGGAAAAACAGAAGTTCCAGGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
* *
5155983 ATACAGTAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
* *
5156048 GGGGCTACAGCTGGTCTTGATTCAGTGGATGGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
* * *
5156092 TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGATGAGGAAAAAATAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
5156157 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
5156222 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
5156266 TGAAA
1 TGAAA
5156271 AAGCAAATAA
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 170 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (174 bp):
TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
Found at i:5156935 original size:6 final size:6
Alignment explanation
Indices: 5156924--5156949 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
5156914 AAGTGTCTCT
5156924 CAGGCA CAGGCA CAGGCA CAGGCA CA
1 CAGGCA CAGGCA CAGGCA CAGGCA CA
5156950 ACAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (6 bp):
CAGGCA
Found at i:5164554 original size:16 final size:14
Alignment explanation
Indices: 5164521--5164547 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5164511 TATTTTTAGA
5164521 ATATTTAAAAATTT
1 ATATTTAAAAATTT
5164535 ATATTTAAAAATT
1 ATATTTAAAAATT
5164548 ATTATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATTTAAAAATTT
Found at i:5164873 original size:99 final size:99
Alignment explanation
Indices: 5164702--5164895 Score: 361
Period size: 99 Copynumber: 2.0 Consensus size: 99
5164692 GTTGGATTAT
5164702 TATATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGAATAGAACCAA
1 TATATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGAATAGAACCAA
*
5164767 CATCTCTTATGTCATAACCATGATAATATACATA
66 CATCTCTTATGTCATAACCATGACAATATACATA
* *
5164801 TATATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGA
1 TATATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGAATAGAACCAA
5164866 CATCTCTTATGTCATAACCATGACAATATA
66 CATCTCTTATGTCATAACCATGACAATATA
5164896 AAAACGAAAT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (99 bp):
TATATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGAATAGAACCAA
CATCTCTTATGTCATAACCATGACAATATACATA
Found at i:5176625 original size:22 final size:22
Alignment explanation
Indices: 5176600--5176641 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5176590 TTTAATAAAA
5176600 AAAATATCTACAAAATATTCTT
1 AAAATATCTACAAAATATTCTT
* *
5176622 AAAATATTTACAGAATATTC
1 AAAATATCTACAAAATATTC
5176642 CTACACTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCTT
Found at i:5181220 original size:22 final size:22
Alignment explanation
Indices: 5181194--5181238 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5181184 TTTTAATAAA
5181194 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
5181216 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
5181238 A
1 A
5181239 CAAAAACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:5183615 original size:26 final size:26
Alignment explanation
Indices: 5183580--5183633 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
5183570 AAATATGATT
* *
5183580 AAATTATTTA-TTATTATTTTAATAA
1 AAATTATTTAGTAATAATTTTAATAA
*
5183605 AAATATATTTAGTAATAATTTTATTAA
1 AAAT-TATTTAGTAATAATTTTAATAA
5183632 AA
1 AA
5183634 TTTAATAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 6 0.25
27 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATTATTTAGTAATAATTTTAATAA
Found at i:5183830 original size:16 final size:16
Alignment explanation
Indices: 5183804--5183855 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
5183794 AGAATTACTG
* *
5183804 ATTACAACTCTATTTA
1 ATTACAGCTCTATTCA
*
5183820 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
5183836 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCA
5183852 ATTA
1 ATTA
5183856 TAGTAAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:5185630 original size:34 final size:36
Alignment explanation
Indices: 5185539--5185635 Score: 101
Period size: 36 Copynumber: 2.8 Consensus size: 36
5185529 TTATTTGATT
* * * *
5185539 TTATATGCGAGCCGTGATAT-CTGAACCATGTGTTTA
1 TTATATGCGAGCCATGATATGC-GAACCATATATTGA
** *
5185575 TTATATATGAGCCATGTTATGCGAACCATATATTGA
1 TTATATGCGAGCCATGATATGCGAACCATATATTGA
5185611 TTATATGCGAGCC-T-ATATGCGAACC
1 TTATATGCGAGCCATGATATGCGAACC
5185636 GTAGAATTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
34 10 0.20
35 1 0.02
36 38 0.76
37 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (36 bp):
TTATATGCGAGCCATGATATGCGAACCATATATTGA
Found at i:5185681 original size:29 final size:29
Alignment explanation
Indices: 5185619--5185716 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
5185609 GATTATATGC
* * *
5185619 GAGCCTATATGCGAACCGTA-GAATTATGCA
1 GAGCCTACATGCGAACCCTAGGAA-CATG-A
* *
5185649 -AGCCTATATGTGAACCCTAGGAACATGA
1 GAGCCTACATGCGAACCCTAGGAACATGA
* *
5185677 GAGCCTACATGCGAACCCTAGGTACATGC
1 GAGCCTACATGCGAACCCTAGGAACATGA
5185706 GAGCCTACATG
1 GAGCCTACATG
5185717 TGGGCCTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.02
29 55 0.93
30 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (29 bp):
GAGCCTACATGCGAACCCTAGGAACATGA
Found at i:5185781 original size:70 final size:70
Alignment explanation
Indices: 5185650--5185782 Score: 187
Period size: 70 Copynumber: 1.9 Consensus size: 70
5185640 AATTATGCAA
* *
5185650 GCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAACCCTAGGTACATGCGAGCCTACA
1 GCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAACCCTAGGTACATACAAGCCTACA
5185715 TGTGG
66 TGTGG
* * * * *
5185720 GCCTATATGTGAACCCTAGGAACTTGCGAGTCTAGATGC-AACCCCTAGGTGCATACAAGCCTA
1 GCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAA-CCCTAGGTACATACAAGCCTA
5185783 TACGATCATG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 2 0.04
70 53 0.96
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (70 bp):
GCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAACCCTAGGTACATACAAGCCTACA
TGTGG
Found at i:5187714 original size:24 final size:24
Alignment explanation
Indices: 5187672--5187727 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
5187662 TTCTTGATTA
* *
5187672 ATTGGCTCTCTGGAGCTTCCCGAT
1 ATTGGCTCGCTGGAACTTCCCGAT
* *
5187696 ATTGGCTCGCTTGAACTTCCCGTT
1 ATTGGCTCGCTGGAACTTCCCGAT
*
5187720 AATGGCTC
1 ATTGGCTC
5187728 TCCGGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.14, C:0.29, G:0.23, T:0.34
Consensus pattern (24 bp):
ATTGGCTCGCTGGAACTTCCCGAT
Found at i:5188568 original size:13 final size:13
Alignment explanation
Indices: 5188550--5188575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5188540 GGGATTTGTT
5188550 TTAACTAAACTAA
1 TTAACTAAACTAA
5188563 TTAACTAAACTAA
1 TTAACTAAACTAA
5188576 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:5189401 original size:13 final size:13
Alignment explanation
Indices: 5189383--5189409 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5189373 GCTCGACAGG
5189383 GACACGCCCGTGT
1 GACACGCCCGTGT
5189396 GACACGCCCGTGT
1 GACACGCCCGTGT
5189409 G
1 G
5189410 CGAGTGCTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:5189834 original size:2 final size:2
Alignment explanation
Indices: 5189822--5189859 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
5189812 GTGTATTTTG
*
5189822 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5189860 GTCCTTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5192049 original size:4 final size:4
Alignment explanation
Indices: 5192040--5192088 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
5192030 AGCAAACGTG
5192040 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
5192088 A
1 A
5192089 TAGAAAAGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:5192917 original size:47 final size:47
Alignment explanation
Indices: 5192853--5192963 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
5192843 GACATTGAGT
*
5192853 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
5192900 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
5192947 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
5192964 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:5194787 original size:29 final size:28
Alignment explanation
Indices: 5194723--5194787 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
5194713 TTTATTTCAT
* **
5194723 AAATAAATAATTTTGTTTTATTATATGA
1 AAATAAATAATTTTATTTTAAAATATGA
*
5194751 AATTAAAT-ATTTTATATTTAAAATAGTGA
1 AAATAAATAATTTTAT-TTTAAAATA-TGA
5194780 AAATAAAT
1 AAATAAAT
5194788 TAAAAGTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.20
28 14 0.47
29 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (28 bp):
AAATAAATAATTTTATTTTAAAATATGA
Found at i:5195650 original size:2 final size:2
Alignment explanation
Indices: 5195643--5195680 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5195633 AAGGTTTTAT
5195643 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5195681 AATGTATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5195868 original size:22 final size:22
Alignment explanation
Indices: 5195825--5195865 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5195815 ATATTAATTT
*
5195825 TTTTAAAATATATTTAATAATA
1 TTTTAAAATATATTGAATAATA
*
5195847 TTTTAGAAT-TATTGAATAA
1 TTTTAAAATATATTGAATAA
5195866 ATAAATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TTTTAAAATATATTGAATAATA
Found at i:5196096 original size:24 final size:25
Alignment explanation
Indices: 5196041--5196098 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
5196031 AATATAAAAA
5196041 TGAATAATATTTGATCCACCATCAG
1 TGAATAATATTTGATCCACCATCAG
* * *
5196066 TGCATAA-ATTTTATGCACCATC-G
1 TGAATAATATTTGATCCACCATCAG
5196089 TTGAATAATA
1 -TGAATAATA
5196099 ACATGACACG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 19 0.70
25 7 0.26
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (25 bp):
TGAATAATATTTGATCCACCATCAG
Found at i:5197123 original size:21 final size:21
Alignment explanation
Indices: 5197099--5197138 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5197089 TTAATGATGA
5197099 TTAAATTAAACTAATTAAGGG
1 TTAAATTAAACTAATTAAGGG
* **
5197120 TTAACTTAAGTTAATTAAG
1 TTAAATTAAACTAATTAAG
5197139 ATTAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
TTAAATTAAACTAATTAAGGG
Found at i:5199295 original size:24 final size:24
Alignment explanation
Indices: 5199268--5199318 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5199258 ATATGGTGGC
5199268 TATGAATTTTCATAGGTAGTTGCG
1 TATGAATTTTCATAGGTAGTTGCG
*
5199292 TATGAATTTTTATAGGTAGTTGCG
1 TATGAATTTTCATAGGTAGTTGCG
5199316 TAT
1 TAT
5199319 ATAAAGACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.45
Consensus pattern (24 bp):
TATGAATTTTCATAGGTAGTTGCG
Found at i:5199505 original size:17 final size:18
Alignment explanation
Indices: 5199478--5199523 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
5199468 GTATTAATTT
5199478 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
5199494 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
5199511 TATATATATTATA
1 TATATATATTATA
5199524 TGCATTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:5205248 original size:46 final size:44
Alignment explanation
Indices: 5205144--5205251 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
5205134 TGTCTTTGAC
** * * *
5205144 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
5205188 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
5205234 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
5205252 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:5211203 original size:46 final size:44
Alignment explanation
Indices: 5211099--5211206 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
5211089 TGTCTTTGAC
** * * *
5211099 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
5211143 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
5211189 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
5211207 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:5213481 original size:23 final size:24
Alignment explanation
Indices: 5213450--5213499 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
5213440 CGACCCATGC
*
5213450 AAACACAAAACAAACCAAAAAAAT
1 AAACACAAAAAAAACCAAAAAAAT
* *
5213474 AAAC-CAAAAAAAACCATAAACAT
1 AAACACAAAAAAAACCAAAAAAAT
5213497 AAA
1 AAA
5213500 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.74, C:0.20, G:0.00, T:0.06
Consensus pattern (24 bp):
AAACACAAAAAAAACCAAAAAAAT
Found at i:5213486 original size:14 final size:13
Alignment explanation
Indices: 5213456--5213485 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5213446 ATGCAAACAC
5213456 AAAACAAACCAAA
1 AAAACAAACCAAA
*
5213469 AAAATAAACCAAA
1 AAAACAAACCAAA
5213482 AAAA
1 AAAA
5213486 ACCATAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAACAAACCAAA
Found at i:5214714 original size:28 final size:26
Alignment explanation
Indices: 5214682--5214746 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
5214672 TGTATTTACG
5214682 AATTATCCTCCCATTTTAACGTGATTTC
1 AATTATCCTCCC-TTTT-ACGTGATTTC
* * *
5214710 AATTAGACCCTCTCTTTTATGTGATTTC
1 AATT--ATCCTCCCTTTTACGTGATTTC
5214738 AATTATCCT
1 AATTATCCT
5214747 TTTTTTAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 4 0.13
28 17 0.55
29 4 0.13
30 6 0.19
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.45
Consensus pattern (26 bp):
AATTATCCTCCCTTTTACGTGATTTC
Found at i:5225076 original size:101 final size:98
Alignment explanation
Indices: 5224868--5225142 Score: 259
Period size: 101 Copynumber: 2.7 Consensus size: 98
5224858 ATTACCAAAG
* * *
5224868 TTTTTTTTTAAATGTGTTTTTATTAATTTAAATTTTTTAAAAAATAATATTTTATTTGGTAGAGC
1 TTTTTTTTTAAATGTGTTTTTTTTAATTT-AATTTTTTTAAAAATAATATTTTATTTAGTAGAGC
*
5224933 CATATAGAACGGCACCACCAATATATTGTGTATGT
65 CATATAGAACGGCACCACCAATATA-TCTGTATGT
* * * *
5224968 ATATTTTTTAAAATATGTTATTTTTTAATTTAATTTTTTTAAAAATAATATTTTATTTAGT-GGG
1 -TTTTTTTTTAAATGTGTT-TTTTTTAATTTAATTTTTTTAAAAATAATATTTTATTTAGTAGAG
* * * * *
5225032 ACCATATAGAATGGCGCCGCCAGTGTA-CTGTATGGT
64 -CCATATAGAACGGCACCACCAATATATCTGTAT-GT
* *** * * *
5225068 TTTTTTTTT-AATGTGTTGTTTTTTTAATCTAAAAATTTTAAAAATGATATTTTATTTTGGTGGA
1 TTTTTTTTTAAATGTG-T-TTTTTTTAATTTAATTTTTTTAAAAATAATATTTTA-TTTAGTAGA
*
5225132 GCCATAAAGAA
63 GCCATATAGAA
5225143 TGACTCTACC
Statistics
Matches: 143, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
98 5 0.03
99 43 0.30
100 19 0.13
101 66 0.46
102 10 0.07
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (98 bp):
TTTTTTTTTAAATGTGTTTTTTTTAATTTAATTTTTTTAAAAATAATATTTTATTTAGTAGAGCC
ATATAGAACGGCACCACCAATATATCTGTATGT
Found at i:5227830 original size:14 final size:14
Alignment explanation
Indices: 5227813--5227858 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
5227803 GAAAAGAGAG
5227813 AAAGGAGAAGAAAA
1 AAAGGAGAAGAAAA
*
5227827 AAAGAAGAAGAAGAA
1 AAAGGAGAAGAA-AA
5227842 AAAGGA-AA-AAAA
1 AAAGGAGAAGAAAA
5227854 AAAGG
1 AAAGG
5227859 TAATGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.24
13 2 0.07
14 13 0.45
15 7 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGGAGAAGAAAA
Found at i:5227830 original size:27 final size:27
Alignment explanation
Indices: 5227800--5227857 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
5227790 CGGAAGAGAG
*
5227800 AAAGAA-AAG-AGAGAAAGGAGAAGAAAA
1 AAAGAAGAAGAAGAAAAAGGA-AA-AAAA
5227827 AAAGAAGAAGAAGAAAAAGGAAAAAAA
1 AAAGAAGAAGAAGAAAAAGGAAAAAAA
5227854 AAAG
1 AAAG
5227858 GTAATGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 14 0.50
28 5 0.18
29 9 0.32
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (27 bp):
AAAGAAGAAGAAGAAAAAGGAAAAAAA
Found at i:5228088 original size:60 final size:60
Alignment explanation
Indices: 5228009--5228127 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
5227999 ATTTTTTTTA
* * * * * *
5228009 TAATTATTTTAAAATTAATTTGTTAGTACTTTAGGATTATGTTA-AAATTTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTGAAGATTAAGTTATAAA-TTGTTGTGTTTG
5228069 TAATTATTTTAAAATTAATTTATTAGTAATTGAAGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTGAAGATTAAGTTATAAATTGTTGTGTTT
5228128 AGTTTAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 49 0.94
61 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTGAAGATTAAGTTATAAATTGTTGTGTTTG
Found at i:5238307 original size:28 final size:29
Alignment explanation
Indices: 5238276--5238338 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
5238266 TTTAAACAAA
*
5238276 CCCTTAACCTAT-TTTTTAGT-AAAATAAG
1 CCCTTAACCTATATTTTTACTCAAAA-AAG
*
5238304 CCCTTAACTTATAATTTTTACTCAAAAAAG
1 CCCTTAACCTAT-ATTTTTACTCAAAAAAG
5238334 CCCTT
1 CCCTT
5238339 TATTTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 11 0.37
30 15 0.50
31 4 0.13
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (29 bp):
CCCTTAACCTATATTTTTACTCAAAAAAG
Found at i:5238689 original size:16 final size:16
Alignment explanation
Indices: 5238668--5238702 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
5238658 CCAGCAGCCA
*
5238668 TTCTAAATGGTATAAT
1 TTCTAAATAGTATAAT
5238684 TTCTAAATAGTATAAT
1 TTCTAAATAGTATAAT
5238700 TTC
1 TTC
5238703 ATAACAGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (16 bp):
TTCTAAATAGTATAAT
Found at i:5238765 original size:16 final size:16
Alignment explanation
Indices: 5238744--5238776 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5238734 CATTTTAATC
5238744 CTGCGCCGCAATTTGA
1 CTGCGCCGCAATTTGA
5238760 CTGCGCCGCAATTTGA
1 CTGCGCCGCAATTTGA
5238776 C
1 C
5238777 CTACAGCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.24
Consensus pattern (16 bp):
CTGCGCCGCAATTTGA
Found at i:5240685 original size:38 final size:38
Alignment explanation
Indices: 5240616--5240689 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
5240606 TTTTAAGCCT
* *
5240616 GAAAGACAAGGAGAAGAAACGTCATAGATTTTCAGACC
1 GAAAGACAAGGAGAAGAAACGCCATAAATTTTCAGACC
* *
5240654 GAAAGACATGGAGAAGAAATGCC-TAAAATTTTCAGA
1 GAAAGACAAGGAGAAGAAACGCCAT-AAATTTTCAGA
5240690 GTAAAAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 30 0.97
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.18
Consensus pattern (38 bp):
GAAAGACAAGGAGAAGAAACGCCATAAATTTTCAGACC
Found at i:5243932 original size:30 final size:30
Alignment explanation
Indices: 5243897--5243993 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
5243887 ATATTTTATC
5243897 AATTTAATCTTAAATCTAAAAAATTTAATA
1 AATTTAATCTTAAATCTAAAAAATTTAATA
* * * * *
5243927 AATTTAACCTTCAATATTTATAAAATTT-GTT
1 AATTTAATCTT-AA-ATCTAAAAAATTTAATA
* * * * *
5243958 ATTTTAATTTTAATTCTGAAAATTTTAATA
1 AATTTAATCTTAAATCTAAAAAATTTAATA
5243988 AATTTA
1 AATTTA
5243994 GCCCTCAACA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 8 0.17
30 18 0.38
31 11 0.23
32 11 0.23
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (30 bp):
AATTTAATCTTAAATCTAAAAAATTTAATA
Found at i:5243985 original size:61 final size:61
Alignment explanation
Indices: 5243899--5244015 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
5243889 ATTTTATCAA
* *
5243899 TTTAATCTTAAATCTAAAAAATTTAATAAATTTAACCTTCAATATTTATAAAATTTGTTAT
1 TTTAATCTTAAATCTAAAAAATTTAATAAATTTAACCCTCAACATTTATAAAATTTGTTAT
* * * * *
5243960 TTTAATTTTAATTCTGAAAATTTTAATAAATTTAGCCCTCAACATTTATAAAATTT
1 TTTAATCTTAAATCTAAAAAATTTAATAAATTTAACCCTCAACATTTATAAAATTT
5244016 TGTCAATTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (61 bp):
TTTAATCTTAAATCTAAAAAATTTAATAAATTTAACCCTCAACATTTATAAAATTTGTTAT
Found at i:5244829 original size:24 final size:24
Alignment explanation
Indices: 5244776--5244829 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
5244766 TTTTAATTAA
* *
5244776 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
*
5244800 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATAATTAAAATTTAT
5244824 ATTTTA
1 ATTTTA
5244830 TATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:5245028 original size:13 final size:13
Alignment explanation
Indices: 5245012--5245051 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
5245002 TTTAAACTAA
5245012 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
*
5245025 ACTTTT-ATATAAC
1 ACTTTTCA-AAAAC
5245038 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
5245051 A
1 A
5245052 TTACTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:5245030 original size:26 final size:26
Alignment explanation
Indices: 5245001--5245051 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
5244991 AACACTCAAA
5245001 TTTTAAACTAA-ACTTTTCAAAAACAC
1 TTTTAAA-TAACACTTTTCAAAAACAC
*
5245027 TTTTATATAACACTTTTCAAAAACA
1 TTTTAAATAACACTTTTCAAAAACA
5245052 TTACTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (26 bp):
TTTTAAATAACACTTTTCAAAAACAC
Found at i:5255390 original size:69 final size:69
Alignment explanation
Indices: 5255308--5255446 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
5255298 AGTTAGCTTC
5255308 ATACTCTCAGCAAACATTCAACTATCAGTTAAAATTAACCCAAATTTTTCTCTTGCAATTGCACT
1 ATACTCTCAGCAAACATTCAACTATCAGTTAAAATTAACCCAAATTTTTCTCTTGCAATTGCACT
5255373 CAAT
66 CAAT
5255377 ATACTCTCAGCAAACATTCAACTATCAGTTAAAATTAACCCAAATTTTTCTCTTGCAATTGCACT
1 ATACTCTCAGCAAACATTCAACTATCAGTTAAAATTAACCCAAATTTTTCTCTTGCAATTGCACT
5255442 CAAT
66 CAAT
5255446 A
1 A
5255447 CTTCTTCATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (69 bp):
ATACTCTCAGCAAACATTCAACTATCAGTTAAAATTAACCCAAATTTTTCTCTTGCAATTGCACT
CAAT
Found at i:5256962 original size:52 final size:52
Alignment explanation
Indices: 5256884--5256987 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
5256874 AACAGCTACA
* *
5256884 ACAAAATATTTTCAGAACTTATGTTATCCGTGGCTATCTAGAGCTCATTGGC
1 ACAAAATATTTTCAGAACTTATGTTATCCATGGCTATCCAGAGCTCATTGGC
*
5256936 ACAAAATATTTTCAGAACTTTTGTTATCCATGGCTATCCAGAGCTCATTGGC
1 ACAAAATATTTTCAGAACTTATGTTATCCATGGCTATCCAGAGCTCATTGGC
5256988 TATCTATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (52 bp):
ACAAAATATTTTCAGAACTTATGTTATCCATGGCTATCCAGAGCTCATTGGC
Found at i:5262988 original size:16 final size:15
Alignment explanation
Indices: 5262963--5263017 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
5262953 TTAAGATTTT
5262963 AAAATATAAAAAGTATA
1 AAAAT-TAAAAA-TATA
*
5262980 AAAATTAAAAATTATC
1 AAAATTAAAAA-TATA
5262996 AAAA-T-AAAATATA
1 AAAATTAAAAATATA
*
5263009 AAGATTAAA
1 AAAATTAAA
5263018 TATACAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 6 0.19
14 5 0.16
15 3 0.09
16 13 0.41
17 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (15 bp):
AAAATTAAAAATATA
Found at i:5265732 original size:23 final size:22
Alignment explanation
Indices: 5265668--5265748 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 22
5265658 TGAGCTGATA
5265668 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
5265690 AACAGTAAGCTCT-TTCGAGCTG
1 AACAGTAAGCTCTATT-GAGCTG
* * *
5265712 AATCGGTAAGATCTAATGAGCTG
1 AA-CAGTAAGCTCTATTGAGCTG
5265735 AAACAGTAAGCTCT
1 -AACAGTAAGCTCT
5265749 TACGAGTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
21 2 0.04
22 21 0.42
23 24 0.48
24 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:5269024 original size:10 final size:10
Alignment explanation
Indices: 5269005--5269054 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
5268995 TTAAATTCTA
5269005 AAAGATAAAT
1 AAAGATAAAT
5269015 ACAA-ATAAAT
1 A-AAGATAAAT
*
5269025 AAAGATAATT
1 AAAGATAAAT
5269035 AAAGATAAAT
1 AAAGATAAAT
5269045 GAAA-ATAAAT
1 -AAAGATAAAT
5269055 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5273551 original size:22 final size:20
Alignment explanation
Indices: 5273522--5273570 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
5273512 GGTTACTACC
* *
5273522 AACAAATTATATATTGTTAAA
1 AACAAATTA-AAAATGTTAAA
5273543 AACATAATTAAAAATGTTAAA
1 AACA-AATTAAAAATGTTAAA
5273564 AA-AAATT
1 AACAAATT
5273571 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 1 0.04
21 15 0.60
22 5 0.20
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
AACAAATTAAAAATGTTAAA
Found at i:5285867 original size:50 final size:51
Alignment explanation
Indices: 5285790--5285918 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
5285780 GACCATGGCA
5285790 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
5285841 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
5285891 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
5285919 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:5285932 original size:31 final size:31
Alignment explanation
Indices: 5285894--5286011 Score: 193
Period size: 31 Copynumber: 3.8 Consensus size: 31
5285884 ACAAATGACA
*
5285894 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
5285925 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
5285956 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
5285987 AGTGAAAAATGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
5286012 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
30 2 0.02
31 78 0.96
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:5286022 original size:7 final size:7
Alignment explanation
Indices: 5286010--5286038 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
5286000 AGCTTCGGCT
5286010 ACAAGTG
1 ACAAGTG
5286017 ACAAGTG
1 ACAAGTG
5286024 ACAAGTG
1 ACAAGTG
5286031 ACAAGTG
1 ACAAGTG
5286038 A
1 A
5286039 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:5286113 original size:47 final size:46
Alignment explanation
Indices: 5286044--5286207 Score: 167
Period size: 47 Copynumber: 3.6 Consensus size: 46
5286034 AGTGATTTCC
* *
5286044 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGAT-CT
* * *
5286091 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATCT
* * * *
5286137 GTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATAT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATCT
* * *
5286179 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATATCTGGGATATGGCATC
5286208 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
41 7 0.07
42 32 0.30
46 27 0.25
47 40 0.38
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (46 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATCT
Found at i:5286195 original size:42 final size:42
Alignment explanation
Indices: 5286094--5286251 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
5286084 TGCTACTGTA
* * * * *
5286094 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATC---GATATATG-AATATGTG
5286140 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
* *
5286182 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
* **
5286224 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
5286252 GAAAACGAAG
Statistics
Matches: 100, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 67 0.67
43 8 0.08
46 24 0.24
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTG
Found at i:5288155 original size:46 final size:46
Alignment explanation
Indices: 5288105--5288277 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
5288095 TTGGGCATCT
*
5288105 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
5288151 GAACTCGTTGAGTTGAG-CCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCGAA-T--G--TCC
* * * *
5288198 GAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
5288244 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5288278 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.55
47 24 0.23
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:5288257 original size:93 final size:93
Alignment explanation
Indices: 5288098--5288270 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
5288088 GGGATATTTG
* * * *
5288098 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
5288163 TTGAG-CCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCC-GAGTTCGTGAGATGTAACTA
* * *
5288191 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
5288256 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
5288271 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:5295078 original size:13 final size:13
Alignment explanation
Indices: 5295060--5295084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5295050 TAAAATAAAA
5295060 GAAATAAAGAAAT
1 GAAATAAAGAAAT
5295073 GAAATAAAGAAA
1 GAAATAAAGAAA
5295085 AAGGAAAGAA
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:5295155 original size:19 final size:19
Alignment explanation
Indices: 5295112--5295156 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
5295102 CACGGTTAGC
5295112 AGGG-AAAGAAAGAAGGAA
1 AGGGAAAAGAAAGAAGGAA
*
5295130 AGAGAAAAGAAA-AAGGAAA
1 AGGGAAAAGAAAGAAGG-AA
5295149 AGGGAAAA
1 AGGGAAAA
5295157 CTAGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AGGGAAAAGAAAGAAGGAA
Found at i:5295747 original size:3 final size:3
Alignment explanation
Indices: 5295741--5295796 Score: 80
Period size: 3 Copynumber: 18.7 Consensus size: 3
5295731 TTTGTTGAAT
5295741 TTA TTA TT- TATA TTA TTA TT- TGTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
5295786 TTA TTA TTA TT
1 TTA TTA TTA TT
5295797 TATGGTATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5296387 original size:18 final size:18
Alignment explanation
Indices: 5296330--5296389 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
5296320 GACTATCTGC
* *
5296330 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTAT
* *
5296348 TACAGAATAAAAGACTGA-
1 TACTGAATAAATGACT-AT
*
5296366 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
5296384 TACTGA
1 TACTGA
5296390 TTAACCGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:5298591 original size:7 final size:7
Alignment explanation
Indices: 5298579--5298609 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5298569 TCACCATTTT
5298579 ACCCTAA
1 ACCCTAA
5298586 ACCCTAA
1 ACCCTAA
*
5298593 ACCTTAA
1 ACCCTAA
5298600 ACCCTAA
1 ACCCTAA
5298607 ACC
1 ACC
5298610 TGCATTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:5299238 original size:24 final size:24
Alignment explanation
Indices: 5299211--5299256 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5299201 TCCCACAACC
*
5299211 TATGGGGACCATTACAAAAGAACA
1 TATGGGGACCACTACAAAAGAACA
*
5299235 TATGTGGACCACTACAAAAGAA
1 TATGGGGACCACTACAAAAGAA
5299257 GCACTCCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (24 bp):
TATGGGGACCACTACAAAAGAACA
Found at i:5308490 original size:2 final size:2
Alignment explanation
Indices: 5308483--5308509 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5308473 GAAGAAGAAG
5308483 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5308510 GCACACAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5310706 original size:43 final size:42
Alignment explanation
Indices: 5310611--5310709 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
5310601 TTTATTGAAA
* * *
5310611 AAAAACGCCGTTAGAGGTCAAAGGTTTTAGCGGCGTTTGTGG
1 AAAAACGCCGCTAGAGGTCAAAGGTTTTAGCAGCGTTTGTCG
* *
5310653 AAAAAGCGCCGCTAGAGGTC-AAGGCTTTTAGCAGCGCTTTTTCT
1 AAAAA-CGCCGCTAGAGGTCAAAGG-TTTTAGCAGCG-TTTGTCG
*
5310697 ACAAACGCCGCTA
1 AAAAACGCCGCTA
5310710 ATTTTGGCAG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 9 0.19
43 31 0.65
44 8 0.17
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAGAGGTCAAAGGTTTTAGCAGCGTTTGTCG
Found at i:5310807 original size:31 final size:31
Alignment explanation
Indices: 5310762--5310842 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
5310752 CTTCCTGCAT
* *
5310762 TAAAATCCAACCAAATATAACAAATATAATA
1 TAAAATCCAACCAAAAATAACAAATATAACA
* * * *
5310793 TAAAATGCAGCCAAAAATAGCAAATTTAACA
1 TAAAATCCAACCAAAAATAACAAATATAACA
*
5310824 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
5310843 CATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.19
Consensus pattern (31 bp):
TAAAATCCAACCAAAAATAACAAATATAACA
Found at i:5316704 original size:9 final size:9
Alignment explanation
Indices: 5316690--5316817 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
5316680 ATGTATTAGT
5316690 TAAGTTATG
1 TAAGTTATG
5316699 TAAGTTGTTATG
1 TAA---GTTATG
*
5316711 TACGTTATG
1 TAAGTTATG
*
5316720 TGAGTTATG
1 TAAGTTATG
*
5316729 TAAATTATG
1 TAAGTTATG
5316738 TAAGTTATG
1 TAAGTTATG
*
5316747 TGAGTTATG
1 TAAGTTATG
5316756 TAAGTTGTTATG
1 TAA---GTTATG
*
5316768 TAAATTATG
1 TAAGTTATG
*
5316777 TAAGTTATA
1 TAAGTTATG
*
5316786 TGAGTTATG
1 TAAGTTATG
5316795 TAAGTTATG
1 TAAGTTATG
* *
5316804 TAATTTATT
1 TAAGTTATG
5316813 TAAGT
1 TAAGT
5316818 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:5316817 original size:57 final size:57
Alignment explanation
Indices: 5316690--5316817 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
5316680 ATGTATTAGT
** * *
5316690 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
5316747 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
5316804 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
5316818 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:5320440 original size:11 final size:11
Alignment explanation
Indices: 5320426--5320475 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
5320416 AATATTTTAA
*
5320426 AAATTCTTGTC
1 AAATTCTTGAC
* *
5320437 AAATTATTTTGTC
1 AAA-T-TCTTGAC
5320450 AAATTCTTGAC
1 AAATTCTTGAC
5320461 AAATTCTTGAC
1 AAATTCTTGAC
5320472 AAAT
1 AAAT
5320476 ATACAAGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 23 0.68
12 2 0.06
13 9 0.26
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (11 bp):
AAATTCTTGAC
Found at i:5320875 original size:18 final size:19
Alignment explanation
Indices: 5320854--5320889 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5320844 TTTGAAATTC
5320854 TTCATCTCT-CAATTCTAT
1 TTCATCTCTGCAATTCTAT
*
5320872 TTCATCTTTGCAATTCTA
1 TTCATCTCTGCAATTCTA
5320890 CAGAAAGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.03, T:0.50
Consensus pattern (19 bp):
TTCATCTCTGCAATTCTAT
Found at i:5321524 original size:40 final size:41
Alignment explanation
Indices: 5321473--5321556 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
5321463 TTTAGTGGCG
**
5321473 TTTTACAAAAGCTTCACTAATTCTC-AGTTTTT-GCGGCGTT
1 TTTTACAAAAGCGCCACTAATTCTCTA-TTTTTAGCGGCGTT
* *
5321513 TTTTACGAAAGCGCCACTAATTCTCTATTTTTAGTGGCGTT
1 TTTTACAAAAGCGCCACTAATTCTCTATTTTTAGCGGCGTT
5321554 TTT
1 TTT
5321557 GTAAAATCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 27 0.71
41 11 0.29
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.44
Consensus pattern (41 bp):
TTTTACAAAAGCGCCACTAATTCTCTATTTTTAGCGGCGTT
Found at i:5321573 original size:40 final size:39
Alignment explanation
Indices: 5321473--5321573 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 39
5321463 TTTAGTGGCG
**
5321473 TTTTACAAAAGCTTCACTAATTCTCAGTTTTTGCGGCGTT
1 TTTTAC-AAAGCGCCACTAATTCTCAGTTTTTGCGGCGTT
*
5321513 TTTTACGAAAGCGCCACTAATTCTCTA-TTTTTAGTGGCGTT
1 TTTTAC-AAAGCGCCACTAATTCTC-AGTTTTT-GCGGCGTT
* *
5321554 TTTGTA-AAATCGCCGCTAAT
1 TTT-TACAAAGCGCCACTAAT
5321574 GCCTCTGCAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
40 39 0.75
41 11 0.21
42 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.41
Consensus pattern (39 bp):
TTTTACAAAGCGCCACTAATTCTCAGTTTTTGCGGCGTT
Found at i:5322719 original size:41 final size:40
Alignment explanation
Indices: 5322646--5322732 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 40
5322636 CCCGGCCCAT
*
5322646 ACCATTAACTTAATATATATACTATACCATTGAACTGGCCTAA
1 ACCATAAACTTAATATATATACTATACCATTGAAC---CCTAA
* *
5322689 ACCATAAACTTAA-A-ATATATTCTACCATTGAACCCTAA
1 ACCATAAACTTAATATATATACTATACCATTGAACCCTAA
5322727 ACCATA
1 ACCATA
5322733 GGCTTTAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 11 0.27
41 17 0.41
42 1 0.02
43 12 0.29
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (40 bp):
ACCATAAACTTAATATATATACTATACCATTGAACCCTAA
Found at i:5323304 original size:41 final size:41
Alignment explanation
Indices: 5323262--5323566 Score: 346
Period size: 41 Copynumber: 7.5 Consensus size: 41
5323252 TTTTGCCGCG
* *
5323262 TTTGGACCAAAAACGCCACTATTAATCAGTTTTTAGTGGCGT
1 TTTGG-CCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
** * *
5323304 TTTGGATAAAAACGCCACAATTGATCAGTTTTTAGTGGCGT
1 TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
* *** *
5323345 TTGGGATTAAAACGCCGCTATTGATCAGCTTTTAGTGGCG-
1 TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
** * *
5323385 TTTGGTGAAAAACGCCGCTACTGACCAGTTTTTAGTGGCGT
1 TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
* * *
5323426 TTTGGCCAAAAATGCAGCTATTGACCAGTTTTTAGTGGCGT
1 TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
* *
5323467 TTTGGCCAAAAACGCCGCCATTGACCAGTTTTTAGTGGCGT
1 TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
* * * *
5323508 TTTTGCCAAAAACGCCGCTATAGTTTAGTTTTTAGTGGCGT
1 TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
* *
5323549 TTCGG--ACAAACGCCGCTA
1 TTTGGCCAAAAACGCCGCTA
5323567 ATGTTTATTA
Statistics
Matches: 229, Mismatches: 33, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.05
40 33 0.14
41 179 0.78
42 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGT
Found at i:5323479 original size:122 final size:121
Alignment explanation
Indices: 5323269--5323558 Score: 341
Period size: 122 Copynumber: 2.4 Consensus size: 121
5323259 GCGTTTGGAC
* * * *
5323269 CAAAAACGCCACTATTAATCAGTTTTTAGTGGCGTTTTGGATAAAAACGCCACAATTGATCAGTT
1 CAAAAACGCCGCTA-TGATCAGTTTTTAGTGGCGTTTTGGACAAAAACGCCACAATTGACCAGTT
** * *
5323334 TTTAGTGGCGTTTGGGATTAAAACGCCGCTATTGATCAGCTTTTAGTGGCGTTTGGTG
65 TTTAGTGGCGTTTGGGACAAAAACGCCGCCATTGACCAGCTTTTAGTGGCGTTT-GTG
* * * *
5323392 -AAAAACGCCGCTACTGACCAGTTTTTAGTGGCGTTTTGGCCAAAAATG-CAGCTATTGACCAGT
1 CAAAAACGCCGCTA-TGATCAGTTTTTAGTGGCGTTTTGGACAAAAACGCCA-CAATTGACCAGT
* * * *
5323455 TTTTAGTGGCGTTTTGGCCAAAAACGCCGCCATTGACCAGTTTTTAGTGGCGTTTTTG
64 TTTTAGTGGCGTTTGGGACAAAAACGCCGCCATTGACCAGCTTTTAGTGGCGTTTGTG
* * *
5323513 CCAAAAACGCCGCTATAGTTTAGTTTTTAGTGGCGTTTCGGACAAA
1 -CAAAAACGCCGCTAT-GATCAGTTTTTAGTGGCGTTTTGGACAAA
5323559 CGCCGCTAAT
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
121 4 0.03
122 100 0.71
123 37 0.26
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (121 bp):
CAAAAACGCCGCTATGATCAGTTTTTAGTGGCGTTTTGGACAAAAACGCCACAATTGACCAGTTT
TTAGTGGCGTTTGGGACAAAAACGCCGCCATTGACCAGCTTTTAGTGGCGTTTGTG
Found at i:5324713 original size:33 final size:34
Alignment explanation
Indices: 5324652--5324717 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
5324642 AATTTAAGTG
5324652 TTTGTGTGCTTAATTTGCAAAAAAGGACCTAATT
1 TTTGTGTGCTTAATTTGCAAAAAAGGACCTAATT
5324686 TTTGTGTGCTTAATTTGC-AAAAAGGACCTAAT
1 TTTGTGTGCTTAATTTGCAAAAAAGGACCTAAT
5324718 CGCGAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTGTGTGCTTAATTTGCAAAAAAGGACCTAATT
Found at i:5327149 original size:55 final size:55
Alignment explanation
Indices: 5327086--5327198 Score: 226
Period size: 55 Copynumber: 2.1 Consensus size: 55
5327076 TCAGTGTATT
5327086 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
1 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
5327141 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
1 TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
5327196 TAT
1 TAT
5327199 CTATCCTTGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.37
Consensus pattern (55 bp):
TATGCTCGATCAACACTTTGGTGCGTATATTGGAGTGTTGGTGGATTGATCTGAC
Found at i:5334296 original size:27 final size:27
Alignment explanation
Indices: 5334266--5334319 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5334256 TCATACAACC
* *
5334266 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
5334293 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
5334320 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:5353626 original size:119 final size:120
Alignment explanation
Indices: 5353410--5353657 Score: 417
Period size: 119 Copynumber: 2.1 Consensus size: 120
5353400 TCACAAGCAC
* *
5353410 ATTAATAGAAAATTGTATAATTTATCCGGATAAAGTATATATTAATAGAAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCCGGATAAAGTATATATTAATAGAAAACTGTATAATTTAC
* *
5353475 CCGGGTAAAGTATGTATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
66 CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
5353530 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGTATTAATA-AAAACTGTATAATTTAC
1 ATTAACAGAAAACTGTATAATTTATCCGGATAAAGTATATATTAATAGAAAACTGTATAATTTAC
* *
5353594 CCGGGTAAAGTATGTATTAACAGAAAATTGTATAATTTACCCGGATGAAGTATGT
66 CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTACCCGGATAAAGTATGT
5353649 ATTAACAGA
1 ATTAACAGA
5353658 TATACTTAAG
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 77 0.64
120 43 0.36
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (120 bp):
ATTAACAGAAAACTGTATAATTTATCCGGATAAAGTATATATTAATAGAAAACTGTATAATTTAC
CCGGGTAAAGTATGTATTAACAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:5353657 original size:40 final size:40
Alignment explanation
Indices: 5353410--5353653 Score: 373
Period size: 40 Copynumber: 6.1 Consensus size: 40
5353400 TCACAAGCAC
* * *
5353410 ATTAATAGAAAATTGTATAATTTATCCGGATAAAGTATAT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
5353450 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
5353490 ATTAATAGAAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
5353530 ATTAACAGAAAACTGTATAATTTATCCGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
5353570 ATTAATA-AAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
5353609 ATTAACAGAAAATTGTATAATTTACCCGGATGAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
5353649 ATTAA
1 ATTAA
5353654 CAGATATACT
Statistics
Matches: 187, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 35 0.19
40 152 0.81
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (40 bp):
ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:5353684 original size:18 final size:18
Alignment explanation
Indices: 5353661--5353695 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5353651 TAACAGATAT
*
5353661 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
5353679 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
5353696 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:5354201 original size:17 final size:17
Alignment explanation
Indices: 5354179--5354211 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5354169 ATAATGAATG
5354179 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
5354196 TTATTAAATTATATTT
1 TTATTAAATTATATTT
5354212 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:5354475 original size:46 final size:44
Alignment explanation
Indices: 5354383--5354476 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
5354373 ATTACAACAT
5354383 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
***
5354427 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGTTCTATTC
5354473 CATT
1 CATT
5354477 ACAACTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.49
45 3 0.07
46 20 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:5354479 original size:16 final size:16
Alignment explanation
Indices: 5354458--5354512 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
5354448 TGAATTACTT
*
5354458 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
5354474 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
*
5354490 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
5354506 ATTACAG
1 ATTACAG
5354513 TAAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:5356731 original size:23 final size:23
Alignment explanation
Indices: 5356705--5356753 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
5356695 AATTAAAATA
*
5356705 AAATAATTAAGTA-ATAATTAATT
1 AAATAATTAAG-AGATAACTAATT
*
5356728 AAATTATTAAGAGATAACTAATT
1 AAATAATTAAGAGATAACTAATT
5356751 AAA
1 AAA
5356754 AAAAAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
AAATAATTAAGAGATAACTAATT
Found at i:5357538 original size:32 final size:32
Alignment explanation
Indices: 5357497--5357561 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
5357487 AACAAAGAGA
5357497 TAAATCAAGAAATTAAATTTTTTAAGAAGTTT
1 TAAATCAAGAAATTAAATTTTTTAAGAAGTTT
5357529 TAAATCAAGAAATTAAATTTTTTAAGAAGTTT
1 TAAATCAAGAAATTAAATTTTTTAAGAAGTTT
5357561 T
1 T
5357562 TACAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (32 bp):
TAAATCAAGAAATTAAATTTTTTAAGAAGTTT
Found at i:5360532 original size:17 final size:18
Alignment explanation
Indices: 5360506--5360544 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
5360496 GTATTATATA
*
5360506 ATAATGATAATAGTTA-T
1 ATAATAATAATAGTTAGT
5360523 ATAATAATAATAGTTAGT
1 ATAATAATAATAGTTAGT
5360541 ATAA
1 ATAA
5360545 AAGAAAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAGTTAGT
Found at i:5361782 original size:21 final size:21
Alignment explanation
Indices: 5361758--5361798 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5361748 TTTTTATTTA
* *
5361758 ATTAGTAAATAGATATTTATT
1 ATTAGTAAAAAAATATTTATT
*
5361779 ATTATTAAAAAAATATTTAT
1 ATTAGTAAAAAAATATTTAT
5361799 GAGATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTAGTAAAAAAATATTTATT
Found at i:5364164 original size:35 final size:35
Alignment explanation
Indices: 5364073--5364239 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
5364063 CATGGCAAAG
*
5364073 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
5364108 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
5364143 TGTGAAATGTAGGTATGGTATTATCAAATCTATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATC----C-ATACTGAGT
** * *
5364183 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
**
5364218 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
5364240 TCAATGAGGA
Statistics
Matches: 116, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
36 1 0.01
39 2 0.02
40 28 0.24
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:5364196 original size:75 final size:75
Alignment explanation
Indices: 5364073--5364243 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
5364063 CATGGCAAAG
** *
5364073 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
5364132 CCATACTGAGC
65 CCATACCGAGC
*
5364143 TGTGAAATGTAGGTATGGTATTATCAAATCTATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
5364208 CATACCGAGT
66 CATACCGAGC
**
5364218 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
5364244 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:5367891 original size:9 final size:9
Alignment explanation
Indices: 5367879--5367905 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5367869 TTTTATGATT
5367879 TTTGAAATG
1 TTTGAAATG
5367888 TTTGAAATG
1 TTTGAAATG
5367897 TTTGAAATG
1 TTTGAAATG
5367906 AATGATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
TTTGAAATG
Found at i:5373348 original size:12 final size:12
Alignment explanation
Indices: 5373331--5373366 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
5373321 AGCCCACCTG
5373331 TATTATTTTTTA
1 TATTATTTTTTA
*
5373343 TATTATTTATTA
1 TATTATTTTTTA
*
5373355 TATAATTTTTTA
1 TATTATTTTTTA
5373367 AAAAATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:5374857 original size:44 final size:44
Alignment explanation
Indices: 5374793--5375005 Score: 290
Period size: 44 Copynumber: 4.9 Consensus size: 44
5374783 ATAAATAGAG
* * * *
5374793 AGGATAGATACATAGAAAAAACTGAAGCAAGATAACTTTTAATC
1 AGGATAGACACATAGCAAAAACTGGAGCAAGATAGCTTTTAATC
*
5374837 AGGATAGACACA-AGGCAAAAACTGGAGCAAGATAGCTATTAATC
1 AGGATAGACACATA-GCAAAAACTGGAGCAAGATAGCTTTTAATC
* *
5374881 AGGATAGATACATAGCAAAAACTGGAGCAAGATTGCTTTTAATC
1 AGGATAGACACATAGCAAAAACTGGAGCAAGATAGCTTTTAATC
5374925 AGGATAGACACA-AGGC--AAACTGGAGCAAGATAGCTTTTAATC
1 AGGATAGACACATA-GCAAAAACTGGAGCAAGATAGCTTTTAATC
* * *
5374967 AGGATAGATACATAGCAAAAACTAGAGCAAGATTGCTTT
1 AGGATAGACACATAGCAAAAACTGGAGCAAGATAGCTTT
5375006 AAACCAAAGG
Statistics
Matches: 150, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
42 38 0.25
43 3 0.02
44 108 0.72
45 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (44 bp):
AGGATAGACACATAGCAAAAACTGGAGCAAGATAGCTTTTAATC
Found at i:5374985 original size:86 final size:87
Alignment explanation
Indices: 5374793--5375005 Score: 356
Period size: 86 Copynumber: 2.4 Consensus size: 87
5374783 ATAAATAGAG
* * **
5374793 AGGATAGATACATAGAAAAAACTGAAGCAAGATAACTTTTAATCAGGATAGACACAAGGCAAAAA
1 AGGATAGATACATAGCAAAAACTGGAGCAAGATTGCTTTTAATCAGGATAGACACAAGGC-AAAA
5374858 CTGGAGCAAGATAGCTATTAATC
65 CTGGAGCAAGATAGCTATTAATC
5374881 AGGATAGATACATAGCAAAAACTGGAGCAAGATTGCTTTTAATCAGGATAGACACAAGGC-AAAC
1 AGGATAGATACATAGCAAAAACTGGAGCAAGATTGCTTTTAATCAGGATAGACACAAGGCAAAAC
*
5374945 TGGAGCAAGATAGCTTTTAATC
66 TGGAGCAAGATAGCTATTAATC
*
5374967 AGGATAGATACATAGCAAAAACTAGAGCAAGATTGCTTT
1 AGGATAGATACATAGCAAAAACTGGAGCAAGATTGCTTT
5375006 AAACCAAAGG
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
86 63 0.53
88 56 0.47
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (87 bp):
AGGATAGATACATAGCAAAAACTGGAGCAAGATTGCTTTTAATCAGGATAGACACAAGGCAAAAC
TGGAGCAAGATAGCTATTAATC
Found at i:5379001 original size:54 final size:54
Alignment explanation
Indices: 5378931--5379105 Score: 185
Period size: 54 Copynumber: 3.5 Consensus size: 54
5378921 GATGGTCCTC
* *
5378931 AAGAGCTTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTCCTTG
1 AAGAGCTTTGTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
5378985 AAGAGCTTTGTGGTTTTAAGGGAAATTG------A----T--GGTCCTTTCTTG
1 AAGAGCTTTGTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
* * * * **
5379027 AAGAGATTTTTGGTTTTAAGGGAATTTGATAAAAAGTTTTGAGATTTTTTCTTG
1 AAGAGCTTTGTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
*
5379081 AAGAGTTTTGTGGTTTTAAGGGAAA
1 AAGAGCTTTGTGGTTTTAAGGGAAA
5379106 CTTATGGTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
42 36 0.37
44 1 0.01
48 2 0.02
52 1 0.01
54 58 0.59
ACGTcount: A:0.27, C:0.06, G:0.26, T:0.41
Consensus pattern (54 bp):
AAGAGCTTTGTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTG
Found at i:5379041 original size:42 final size:42
Alignment explanation
Indices: 5378969--5379169 Score: 154
Period size: 42 Copynumber: 4.5 Consensus size: 42
5378959 ATAAAAAGTT
*
5378969 TTGA-GGTCCTTCCTTGAAGAGCTTTGTGGTTTTAAGGGAAA
1 TTGATGGTCCTTCCTTGAAGAGATTTGTGGTTTTAAGGGAAA
* * *
5379010 TTGATGGTCCTTTCTTGAAGAGATTTTTGGTTTTAAGGGAAT
1 TTGATGGTCCTTCCTTGAAGAGATTTGTGGTTTTAAGGGAAA
** * *
5379052 TTGATAAAAAGTTTTGAGATTTTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
1 TTG------A----TG-G-TCCTTCCTTGAAGAGATTTGTGGTTTTAAGGGAAA
* * *
5379106 CTT-ATGGTCCTTTCTTGAAGAGCTTTTTGGTTTTAAGGGAAA
1 -TTGATGGTCCTTCCTTGAAGAGATTTGTGGTTTTAAGGGAAA
* *
5379148 TTGATGGTGCTTTCTTGAAGAG
1 TTGATGGTCCTTCCTTGAAGAG
5379170 CTCTTCTGTT
Statistics
Matches: 131, Mismatches: 14, Indels: 29
0.75 0.08 0.17
Matches are distributed among these distances:
41 6 0.05
42 85 0.65
43 1 0.01
44 2 0.02
48 2 0.02
52 2 0.02
53 1 0.01
54 30 0.23
55 2 0.02
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.42
Consensus pattern (42 bp):
TTGATGGTCCTTCCTTGAAGAGATTTGTGGTTTTAAGGGAAA
Found at i:5379081 original size:96 final size:95
Alignment explanation
Indices: 5378846--5379152 Score: 464
Period size: 96 Copynumber: 3.3 Consensus size: 95
5378836 TCAAGAAAGG
* *
5378846 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTGTTTTAGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGT-TTGTGGTTTT
5378911 AAGGGAAATTGATGGTCC--TC---AAGAGC
65 AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
*
5378937 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTCCTTGAAGAGCTTTGTGGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAG-TTTGTGGTTTT
*
5379002 AAGGGAAATTGATGGTCCTTTCTTGAAGAGA
65 AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
* * **
5379033 TTTTTGGTTTTAAGGGAATTTGATAAAAAGTTTTGAGATTTTTTCTTGAAGAGTTTTGTGGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAG-TTTGTGGTTTT
5379098 AAGGGAAACTT-ATGGTCCTTTCTTGAAGAGC
65 AAGGGAAA-TTGATGGTCCTTTCTTGAAGAGC
5379129 TTTTTGGTTTTAAGGGAAATTGAT
1 TTTTTGGTTTTAAGGGAAATTGAT
5379153 GGTGCTTTCT
Statistics
Matches: 197, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
91 78 0.40
92 1 0.01
93 2 0.01
96 114 0.58
97 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (95 bp):
TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTGTGGTTTTA
AGGGAAATTGATGGTCCTTTCTTGAAGAGC
Found at i:5379170 original size:42 final size:43
Alignment explanation
Indices: 5379074--5379171 Score: 157
Period size: 42 Copynumber: 2.3 Consensus size: 43
5379064 TTTGAGATTT
5379074 TTTCTTGAAGAG-TTTTGTGGTTTTAAGGGAAACTTATGGTCC
1 TTTCTTGAAGAGCTTTTGTGGTTTTAAGGGAAACTTATGGTCC
*
5379116 TTTCTTGAAGAGCTTTT-TGGTTTTAAGGGAAA-TTGATGGTGC
1 TTTCTTGAAGAGCTTTTGTGGTTTTAAGGGAAACTT-ATGGTCC
5379158 TTTCTTGAAGAGCT
1 TTTCTTGAAGAGCT
5379172 CTTCTGTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
41 2 0.04
42 47 0.89
43 4 0.08
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (43 bp):
TTTCTTGAAGAGCTTTTGTGGTTTTAAGGGAAACTTATGGTCC
Found at i:5380685 original size:24 final size:24
Alignment explanation
Indices: 5380635--5380704 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
5380625 TCTTTCTAGA
*
5380635 ATATTTAGTATTTA-TAGTATAAT
1 ATATTTAGCATTTATTAGTATAAT
*
5380658 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGTATAAT
*
5380682 ATATTTAACATTTATTAGTATAA
1 ATATTTAGCATTTATTAGTATAA
5380705 AATCTTTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 13 0.31
24 29 0.69
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGTATAAT
Found at i:5387870 original size:10 final size:10
Alignment explanation
Indices: 5387851--5387879 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
5387841 ATATTTTATT
5387851 ATTATTAAAA
1 ATTATTAAAA
5387861 ATT-TTAAAA
1 ATTATTAAAA
5387870 ATTATTAAAA
1 ATTATTAAAA
5387880 CAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:5390313 original size:24 final size:25
Alignment explanation
Indices: 5390272--5390328 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
5390262 TTTCTTTTCC
** * *
5390272 TTTTTTAGATTAGGTTTTCCTTTT-
1 TTTTTTAGAAAAGATTTTACTTTTG
5390296 TTTTTTAGAAAAGATTTTACTTTTG
1 TTTTTTAGAAAAGATTTTACTTTTG
5390321 TTGTTTTA
1 TT-TTTTA
5390329 TTTCTTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.74
25 2 0.07
26 5 0.19
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.63
Consensus pattern (25 bp):
TTTTTTAGAAAAGATTTTACTTTTG
Found at i:5404371 original size:5 final size:5
Alignment explanation
Indices: 5404361--5404388 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
5404351 TTGTGTGTTC
5404361 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5404389 TTACAGACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:5414397 original size:18 final size:17
Alignment explanation
Indices: 5414376--5414409 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
5414366 TAGAAGTTGT
5414376 AATAATTATAGATTTAAA
1 AATAATTATA-ATTTAAA
5414394 AATAATTATAATTTAA
1 AATAATTATAATTTAA
5414410 TAGAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:5421630 original size:71 final size:71
Alignment explanation
Indices: 5421527--5421660 Score: 225
Period size: 71 Copynumber: 1.9 Consensus size: 71
5421517 GTGGTAGATG
* *
5421527 GATGTGTTTTCATGTGTATAAGTATTTTCTACCTAC-GAGCTTTGTACTCATGTGCTTTGGTGTC
1 GATGTGTTTGCATGTGTATAAGTATTTTCTACCTACAG-GCTTTGCACTCATGTGCTTTGGTGTC
5421591 GTGGATA
65 GTGGATA
*
5421598 GATGTGTTTGCATGTGTATATGTATTTTCTACCTACAGGCTTTGCACTCATGTGCTTTGGTGT
1 GATGTGTTTGCATGTGTATAAGTATTTTCTACCTACAGGCTTTGCACTCATGTGCTTTGGTGT
5421661 GGTGTAGTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 58 0.98
72 1 0.02
ACGTcount: A:0.17, C:0.15, G:0.24, T:0.44
Consensus pattern (71 bp):
GATGTGTTTGCATGTGTATAAGTATTTTCTACCTACAGGCTTTGCACTCATGTGCTTTGGTGTCG
TGGATA
Done.