Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 251 of 345
Found at i:85384657 original size:93 final size:90
Alignment explanation
Indices: 85384465--85384657 Score: 244
Period size: 93 Copynumber: 2.1 Consensus size: 90
85384455 TGTTATCATG
*
85384465 TAAGACCATATCCGGGATATGGCGTTGATATGAGATCCCATGTAAGACCATGTTTGGGACATGGC
1 TAAGACCATAGCCGGGATATGGCGTTGATATGAGATCCCATGTAAGACCATGTTTGGGACATGGC
** *
85384530 ATTGGCATTGATATGAGACATCATA
66 ATTGGCATCAATATGAGACACCATA
* * * * *
85384555 TAAGACCATAGCTGGGCTATCGGCTTTGATATGTGCGATCCCATGTAAGACCATGTTTGGGGCAT
1 TAAGACCATAGCCGGGATAT-GGCGTTGATA--TGAGATCCCATGTAAGACCATGTTTGGGACAT
* *
85384620 GGCATTGGCATCAATATGTGGTC-CCATA
63 GGCATTGGCATCAATATG-AGACACCATA
85384648 TAAGACCATA
1 TAAGACCATA
85384658 CATGGGATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
90 17 0.19
91 9 0.10
93 60 0.68
94 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (90 bp):
TAAGACCATAGCCGGGATATGGCGTTGATATGAGATCCCATGTAAGACCATGTTTGGGACATGGC
ATTGGCATCAATATGAGACACCATA
Found at i:85392745 original size:75 final size:74
Alignment explanation
Indices: 85392580--85392745 Score: 181
Period size: 74 Copynumber: 2.2 Consensus size: 74
85392570 GTGCCCAGTA
* *
85392580 CTAGTCGAATTAACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGGATAGACTAACAAATTTG
1 CTAGTCGAATTAACCGACAATAATAAATATGAGCCCAGCTCTAGTTGGATAGACCAACAAATTTG
**
85392645 CACCCAGTG
66 CACCCAGCC
* * * * * ****
85392654 CTAGTCGGATTAACCGACGATAACT-ATTATGATCCCAGCTCTAGTTGGATGGACCAATGGTGTT
1 CTAGTCGAATTAACCGACAATAA-TAAATATGAGCCCAGCTCTAGTTGGATAGACCAA-CAAATT
*
85392718 TGCGCCCAGCC
64 TGCACCCAGCC
85392729 CTAGTCGAATTAACCGA
1 CTAGTCGAATTAACCGA
85392746 TGGTTGTGTG
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
74 48 0.64
75 27 0.36
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (74 bp):
CTAGTCGAATTAACCGACAATAATAAATATGAGCCCAGCTCTAGTTGGATAGACCAACAAATTTG
CACCCAGCC
Found at i:85395680 original size:31 final size:31
Alignment explanation
Indices: 85395645--85395793 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
85395635 CTTGTCACTT
* *
85395645 GTAGCCGAAGGTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
85395676 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
85395707 GTAGCCGGAGCAACCACTTTTCACCGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
85395738 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
85395769 GTAGCCGAAGCTGCCATTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
85395794 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:85395873 original size:50 final size:50
Alignment explanation
Indices: 85395769--85395945 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
85395759 CACTGATCAG
** * * *
85395769 GTAGCCGAAGCTGCCATTTTTCACTTGTCATTTGTCCTTGATCAGATAACT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
85395820 GTAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGT
* *
85395870 GTAGCTGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
85395920 GTAGCTGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
85395946 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 3 0.03
50 88 0.76
51 25 0.22
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:85405523 original size:40 final size:40
Alignment explanation
Indices: 85405475--85405680 Score: 328
Period size: 40 Copynumber: 5.2 Consensus size: 40
85405465 GGACTAAGAT
85405475 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
85405515 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
85405555 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
85405595 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
* * *
85405635 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGTTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
85405674 CCGAAGG
1 CCGAAGG
85405681 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.09
40 144 0.90
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:85417312 original size:48 final size:48
Alignment explanation
Indices: 85417241--85417479 Score: 334
Period size: 48 Copynumber: 4.9 Consensus size: 48
85417231 ATGACAGTGC
*
85417241 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* * *
85417289 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGTATTGGTATCGAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* * *
85417337 ATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* *
85417385 ATGTGATCATCCCATGCAAGACCATGTTTGGGACATGGCATTGGCATCGAT
1 ATGTG---ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
* * * *
85417436 ATGTGATCCCATATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
85417480 GTGATTTTGT
Statistics
Matches: 169, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
48 123 0.73
51 46 0.27
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT
Found at i:85417453 original size:99 final size:96
Alignment explanation
Indices: 85417241--85417479 Score: 343
Period size: 99 Copynumber: 2.5 Consensus size: 96
85417231 ATGACAGTGC
* *
85417241 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATGTGATCCCATGTAAG
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTGATCCCATGCAAG
* *
85417306 ACCATGTCTAGGACATGGTATTGGTATCGAT
66 ACCATGTCTAGGACATGGCATTGGCATCGAT
* *
85417337 ATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCAATATGTGATCATCCCATGC
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTG---ATCCCATGC
* *
85417402 AAGACCATGTTTGGGACATGGCATTGGCATCGAT
63 AAGACCATGTCTAGGACATGGCATTGGCATCGAT
* * * *
85417436 ATGTGATCCCATATAAGACCATATCTGGGATATGGCATCGGCAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
85417480 GTGATTTTGT
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
96 50 0.40
99 76 0.60
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (96 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTGATCCCATGCAAG
ACCATGTCTAGGACATGGCATTGGCATCGAT
Found at i:85421916 original size:48 final size:48
Alignment explanation
Indices: 85421860--85422139 Score: 382
Period size: 48 Copynumber: 5.8 Consensus size: 48
85421850 CAGTACATGT
*
85421860 GATCCCATGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
*
85421908 GATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-A
* * *
85421957 -ATCTCATGTAGGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** * *
85422004 GATCTTATGTAAGACTATGCCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* *
85422052 GATCCCATGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * * *
85422100 GATCCCGTATAAAACCATATCTGAGATATGGCATCGGCAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
85422140 GTGATTTCGT
Statistics
Matches: 205, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
48 204 1.00
49 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:85426202 original size:25 final size:24
Alignment explanation
Indices: 85426115--85426178 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
85426105 AAGGCTATGC
** *
85426115 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACGT
85426139 GGCACTATGTGTGCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACGT
85426163 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
85426179 ATAAGTAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACGT
Found at i:85428982 original size:27 final size:26
Alignment explanation
Indices: 85428938--85428988 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
85428928 CTCGCTGCAA
*
85428938 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
85428965 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
85428989 GGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:85433216 original size:26 final size:27
Alignment explanation
Indices: 85433177--85433437 Score: 214
Period size: 27 Copynumber: 9.9 Consensus size: 27
85433167 CAAAATTGAT
* * *
85433177 AAATGACTATTTTTCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* *
85433204 AAATGATTGTTTTTCCCTTATATGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
*
85433231 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* *
85433258 AAATGATTGTTTTG-CCTAAT-TGATA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* * * **
85433283 AAATGACTGTTTTTCCTCTAAT-TTATA
1 AAATGATTGTTTTGCC-CTTATGTGGTA
* * ** *
85433310 AAATGATTATTTTTCCCCAAAT-TGAT-
1 AAATGATT-GTTTTGCCCTTATGTGGTA
* * **
85433336 AAATGATT-TTTTCCCCTAAT-TTATA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* *
85433361 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
85433388 AAATGATTGTTTTG-CCTTATGTGGTA
1 AAATGATTGTTTTGCCCTTATGTGGTA
* *
85433414 AAATGATTATTTTGCCCCTATGTG
1 AAATGATTGTTTTGCCCTTATGTG
85433438 ATATATGGTT
Statistics
Matches: 199, Mismatches: 28, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
24 14 0.07
25 23 0.12
26 49 0.25
27 107 0.54
28 6 0.03
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTTATGTGGTA
Found at i:85433418 original size:78 final size:78
Alignment explanation
Indices: 85433177--85433433 Score: 243
Period size: 78 Copynumber: 3.2 Consensus size: 78
85433167 CAAAATTGAT
* * * * * *
85433177 AAATGACTATTTTTCCCTTATGTGGTAAAATGATTGTTTTTCCCTTATATGGTAAAATGACTGTT
1 AAATGATTATTTTCCCCTAAT-TGATAAAATGACTGTTTTTCCCTTAT-TGGTAAAATGATTGTT
85433242 TTGCCCTTATGTGGTA
64 TTG-CCTTATGTGGTA
* * * ** *
85433258 AAATGATTGTTTT-GCCTAATTGATAAAATGACTGTTTTTCCTCTAATTTATAAAATGATTATTT
1 AAATGATTATTTTCCCCTAATTGATAAAATGACTGTTTTTCC-CTTATTGGTAAAATGATT-GTT
* ** *
85433322 TTCCCCAAAT-TGAT-
64 TT-GCCTTATGTGGTA
* * *
85433336 AAATGATT-TTTTCCCCTAATTTATAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTT
1 AAATGATTATTTTCCCCTAATTGATAAAATGACTGTTTTTCCCTTAT-TGGTAAAATGATTGTTT
85433400 TGCCTTATGTGGTA
65 TGCCTTATGTGGTA
85433414 AAATGATTATTTTGCCCCTA
1 AAATGATTATTTT-CCCCTA
85433434 TGTGATATAT
Statistics
Matches: 140, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
76 4 0.03
77 15 0.11
78 51 0.36
79 36 0.26
80 23 0.16
81 11 0.08
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (78 bp):
AAATGATTATTTTCCCCTAATTGATAAAATGACTGTTTTTCCCTTATTGGTAAAATGATTGTTTT
GCCTTATGTGGTA
Found at i:85436740 original size:28 final size:28
Alignment explanation
Indices: 85436700--85436753 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
85436690 AAATGAGCAA
85436700 GTGGTAATAATGAGATTTAATACAATAT
1 GTGGTAATAATGAGATTTAATACAATAT
*
85436728 GTGGTAATAATGAGATTTAATGCAAT
1 GTGGTAATAATGAGATTTAATACAAT
85436754 TTGTATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (28 bp):
GTGGTAATAATGAGATTTAATACAATAT
Found at i:85436763 original size:28 final size:28
Alignment explanation
Indices: 85436703--85436765 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
85436693 TGAGCAAGTG
*
85436703 GTAATAATGAGATTTAATACAATATGTG
1 GTAATAATGAGATTTAATACAATATGTA
* *
85436731 GTAATAATGAGATTTAATGCAATTTGTA
1 GTAATAATGAGATTTAATACAATATGTA
*
85436759 TTAATAA
1 GTAATAA
85436766 CATTTTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (28 bp):
GTAATAATGAGATTTAATACAATATGTA
Found at i:85452675 original size:40 final size:40
Alignment explanation
Indices: 85452581--85452805 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
85452571 TATTCGAATG
*
85452581 ATATCCGGGCTAAG-TCTCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTA-GTGACT
* ** * * *
85452622 ATAACTAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * * *
85452662 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * * *
85452702 ATATCCAGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
85452742 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTGGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
85452782 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
85452806 CTTGTGCAAG
Statistics
Matches: 149, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 120 0.81
41 26 0.17
42 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:85452761 original size:80 final size:81
Alignment explanation
Indices: 85452581--85452841 Score: 235
Period size: 80 Copynumber: 3.3 Consensus size: 81
85452571 TATTCGAATG
* * * * * *
85452581 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAGGTGACTATAACTAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAAACCCGAAGGC
*
85452646 ATTCGTGCGAGTTGCT
66 ATTCGTGCGAGTCGCT
* * * * *
85452662 ATATCCGGGCTAAGACCCGAAGGAATTTGTGCTA-GCGATTATATCCAGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAAACCCGAAGGC
* *
85452726 ATTTGTGCTAG-CGACT
66 ATTCGTGCGAGTCG-CT
* * * * * * * *
85452742 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-GGTGACCACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAAACCCGAAGGC
* * * *
85452806 CTT-GTGCAAGTAGTT
66 ATTCGTGCGAGTCGCT
*
85452821 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
85452842 ATTTCTTGAG
Statistics
Matches: 149, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 91 0.61
81 30 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAAACCCGAAGGC
ATTCGTGCGAGTCGCT
Found at i:85455003 original size:29 final size:28
Alignment explanation
Indices: 85454968--85455045 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
85454958 TCATGAGATT
85454968 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
85454998 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
85455025 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
85455046 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:85463256 original size:28 final size:28
Alignment explanation
Indices: 85463181--85463256 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
85463171 CATGAGATTG
*
85463181 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAA-TGTACA
*
85463210 GCACTAAGTGTGCGAGTTTTAA-GTACA
1 GCACTAAGTGTGCGAGTTTAAATGTACA
* *
85463237 TGCCCTAAGTGTGCGCGTTT
1 -GCACTAAGTGTGCGAGTTT
85463257 GATTATTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 5 0.12
28 17 0.40
29 20 0.48
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:85469817 original size:12 final size:12
Alignment explanation
Indices: 85469800--85469827 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85469790 AGTTAGTCTA
85469800 TGTTATTTAACT
1 TGTTATTTAACT
85469812 TGTTATTTAACT
1 TGTTATTTAACT
85469824 TGTT
1 TGTT
85469828 CTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.61
Consensus pattern (12 bp):
TGTTATTTAACT
Found at i:85472503 original size:3 final size:3
Alignment explanation
Indices: 85472491--85472533 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
85472481 ACCCTTGCTC
85472491 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
85472534 GTTCTTTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:85474181 original size:6 final size:6
Alignment explanation
Indices: 85474172--85474229 Score: 71
Period size: 6 Copynumber: 9.5 Consensus size: 6
85474162 TTTTATTTTC
* * *
85474172 TTTTAT TTTTAT TTTTAT TGTTAGT TTTTAT TTTTAT TTTTCT GTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
*
85474221 TTGTAT TTT
1 TTTTAT TTT
85474230 CCTAGACTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:85474201 original size:19 final size:18
Alignment explanation
Indices: 85474160--85474211 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
85474150 GAGTCCATTT
*
85474160 GTTTTTA-TTTTCTTTTA
1 GTTTTTATTTTTATTTTA
85474177 -TTTTTATTTTTATTGTTA
1 GTTTTTATTTTTATT-TTA
85474195 GTTTTTATTTTTATTTT
1 GTTTTTATTTTTATTTT
85474212 TCTGTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 5 0.16
19 14 0.45
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (18 bp):
GTTTTTATTTTTATTTTA
Found at i:85480706 original size:116 final size:116
Alignment explanation
Indices: 85480502--85480733 Score: 455
Period size: 116 Copynumber: 2.0 Consensus size: 116
85480492 AGGTGGAATA
*
85480502 ACTCCACTTAACTGGGAAATATACAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
1 ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
85480567 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
66 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
85480618 ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
1 ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
85480683 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
66 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
85480734 CTTCTTTCCA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (116 bp):
ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
Found at i:85490737 original size:17 final size:18
Alignment explanation
Indices: 85490703--85490748 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
85490693 CCGTTATGTC
85490703 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
85490718 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
85490735 CGCGACCGCGACCG
1 CGCGACCGCGACCG
85490749 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:85497210 original size:30 final size:30
Alignment explanation
Indices: 85497165--85497256 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
85497155 TACTTAATTA
* * *
85497165 AAAAAATCTTAATTTAATCACTGAATTATTT
1 AAAAAAT-TTTATTTAATTACTGAATTATTC
* **
85497196 AAAAAATTTTATTTAAATTACTAAACAATTC
1 AAAAAATTTTATTT-AATTACTGAATTATTC
* *
85497227 AAAAAAATTTATATAAATTACTGAATTATT
1 AAAAAATTTTAT-TTAATTACTGAATTATT
85497257 AAGTTTTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
30 6 0.12
31 41 0.85
32 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (30 bp):
AAAAAATTTTATTTAATTACTGAATTATTC
Found at i:85498042 original size:20 final size:21
Alignment explanation
Indices: 85498009--85498047 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
85497999 TATAGTGTTT
*
85498009 TTTTTATTTCTTTTCTTAATA
1 TTTTTATTTATTTTCTTAATA
*
85498030 TTTTTA-TTATTTTTTTAA
1 TTTTTATTTATTTTCTTAA
85498048 GGATTAGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATTTATTTTCTTAATA
Found at i:85498043 original size:21 final size:20
Alignment explanation
Indices: 85498009--85498047 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
85497999 TATAGTGTTT
85498009 TTTTTATTTCTTTTCTTAATA
1 TTTTTATTTCTTTT-TTAATA
85498030 TTTTTATTAT-TTTTTTAA
1 TTTTTATT-TCTTTTTTAA
85498048 GGATTAGCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 12 0.71
22 1 0.06
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATTTCTTTTTTAATA
Found at i:85507802 original size:13 final size:14
Alignment explanation
Indices: 85507784--85507816 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
85507774 AAGTTTTGTC
85507784 CTATTACTTT-TTT
1 CTATTACTTTGTTT
85507797 CTATTACTTTGTTT
1 CTATTACTTTGTTT
85507811 -TATTAC
1 CTATTAC
85507817 GTCATATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.64
Consensus pattern (14 bp):
CTATTACTTTGTTT
Found at i:85507839 original size:4 final size:4
Alignment explanation
Indices: 85507830--85507927 Score: 58
Period size: 4 Copynumber: 23.5 Consensus size: 4
85507820 ATATTTGTCC
* *
85507830 TTAT TTATT TTAT TTAT TT-T ATTACT TTTT TTAT TTACT TTTT TTA-
1 TTAT TTA-T TTAT TTAT TTAT -TTA-T TTAT TTAT TTA-T TTAT TTAT
** * *
85507876 AGATT TTAT TTGT TCTTAT -TAT TTAT TTAT TTAT TTAT TTAT TTAT TGAT
1 TTA-T TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
85507926 TT
1 TT
85507928 TAAAAAACTT
Statistics
Matches: 72, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
3 5 0.07
4 54 0.75
5 10 0.14
6 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:85507863 original size:12 final size:13
Alignment explanation
Indices: 85507833--85507875 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
85507823 TTTGTCCTTA
85507833 TTTATTTTA-TTTAT
1 TTTA-TTTACTTT-T
85507847 TTTA-TTACTTTT
1 TTTATTTACTTTT
85507859 TTTATTTACTTTT
1 TTTATTTACTTTT
85507872 TTTA
1 TTTA
85507876 AGATTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 15 0.56
14 4 0.15
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTACTTTT
Found at i:85507863 original size:21 final size:20
Alignment explanation
Indices: 85507830--85507911 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
85507820 ATATTTGTCC
85507830 TTATTTATTTTATTTATTTTA
1 TTATTT-TTTTATTTATTTTA
*
85507851 TTACTTTTTTTATTTACTTTTT
1 TTA-TTTTTTTATTTA-TTTTA
*** *
85507873 TTAAGATTTTATTTGTTCTTA
1 TTATTTTTTTATTTATT-TTA
*
85507894 TTATTTATTTATTTATTT
1 TTATTTTTTTATTTATTT
85507912 ATTTATTTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
20 3 0.06
21 34 0.72
22 10 0.21
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (20 bp):
TTATTTTTTTATTTATTTTA
Found at i:85507950 original size:23 final size:23
Alignment explanation
Indices: 85507924--85507996 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
85507914 TTATTTATTG
*
85507924 ATTTTAAAAAACTTAAAATATAT
1 ATTTTAAAAAATTTAAAATATAT
* * * *
85507947 ATTTGAAATATTTTATAATATAT
1 ATTTTAAAAAATTTAAAATATAT
* * *
85507970 TTTTTTAAAAATTTTAAATATAT
1 ATTTTAAAAAATTTAAAATATAT
85507993 ATTT
1 ATTT
85507997 GAAATTATTT
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
ATTTTAAAAAATTTAAAATATAT
Found at i:85507990 original size:33 final size:33
Alignment explanation
Indices: 85507947--85508040 Score: 85
Period size: 33 Copynumber: 2.9 Consensus size: 33
85507937 TAAAATATAT
*
85507947 ATTTGAAATATTTTATAATATATTTTTTTAAAA
1 ATTTTAAATATTTTATAATATATTTTTTTAAAA
85507980 ATTTTAAATATATATT-TGAA-ATTATTTTTTT--AA
1 ATTTTAAATAT-T-TTAT-AATA-TATTTTTTTAAAA
*
85508013 ATTTTACATA--TTA-AATATATTTTTTTAA
1 ATTTTAAATATTTTATAATATATTTTTTTAA
85508041 TAATATAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
28 11 0.22
29 3 0.06
33 21 0.41
34 3 0.06
35 13 0.25
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (33 bp):
ATTTTAAATATTTTATAATATATTTTTTTAAAA
Found at i:85508006 original size:23 final size:22
Alignment explanation
Indices: 85507939--85508007 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
85507929 AAAAAACTTA
85507939 AAATATATATTTGAAATATTTT
1 AAATATATATTTGAAATATTTT
* * *
85507961 ATAATATATTTTTTTAAAAATTTT
1 A-AATATA-TATTTGAAATATTTT
85507985 AAATATATATTTGAAATTATTTT
1 AAATATATATTTGAAA-TATTTT
85508008 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 8 0.21
23 17 0.45
24 13 0.34
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
AAATATATATTTGAAATATTTT
Found at i:85508163 original size:21 final size:21
Alignment explanation
Indices: 85508123--85508186 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
85508113 TATATTTTAA
*
85508123 GTTTTAAATATTTTTTAATTT
1 GTTTTAAATATTTTTAAATTT
85508144 GTTTTATAATA-TTTTAAATTAT
1 GTTTTA-AATATTTTTAAATT-T
*
85508166 AATTTTTAAATTATTTTTAAA
1 --GTTTTAAA-TATTTTTAAA
85508187 GATATTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 14 0.40
22 5 0.14
23 2 0.06
24 7 0.20
25 7 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (21 bp):
GTTTTAAATATTTTTAAATTT
Found at i:85508172 original size:14 final size:15
Alignment explanation
Indices: 85508147--85508179 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
85508137 TTAATTTGTT
85508147 TTATAATATTTTAAA
1 TTATAATATTTTAAA
85508162 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
85508176 TTAT
1 TTAT
85508180 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:85509194 original size:42 final size:41
Alignment explanation
Indices: 85509133--85509213 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
85509123 TTAAGTTTTC
*
85509133 TAAAATTTTAAATATATTAAAAAATGTTAAGTATAATTAATTT
1 TAAAAGTTTAAATATATT-AAAAATGTTAA-TATAATTAATTT
* *
85509176 TAAAAGTTT-AATATATTAAAAATTTTAATATACTTAAT
1 TAAAAGTTTAAATATATTAAAAATGTTAATATAATTAAT
85509214 ATATATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 9 0.26
41 10 0.29
42 8 0.23
43 8 0.23
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (41 bp):
TAAAAGTTTAAATATATTAAAAATGTTAATATAATTAATTT
Found at i:85509202 original size:17 final size:18
Alignment explanation
Indices: 85509177--85509212 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
85509167 AATTAATTTT
85509177 AAAAGTTTAATATA-TTA
1 AAAAGTTTAATATACTTA
*
85509194 AAAATTTTAATATACTTA
1 AAAAGTTTAATATACTTA
85509212 A
1 A
85509213 TATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
AAAAGTTTAATATACTTA
Found at i:85509366 original size:71 final size:71
Alignment explanation
Indices: 85509275--85509419 Score: 229
Period size: 73 Copynumber: 2.0 Consensus size: 71
85509265 TTTAAAAAAC
*
85509275 TTAAAAAAATAAACATATT-AAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTTAA
1 TTAAAAAAATAAACATATTAAAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAA
85509339 TATATT
66 TATATT
* * *
85509345 TTAAAAAAATTAAATATATTAAAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTC
1 TTAAAAAAA-TAAACATATT-AAAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTC
85509410 AATATATT
64 AATATATT
85509418 TT
1 TT
85509420 TCTATAAGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
70 9 0.13
71 9 0.13
73 50 0.74
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (71 bp):
TTAAAAAAATAAACATATTAAAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAA
TATATT
Found at i:85509442 original size:73 final size:73
Alignment explanation
Indices: 85509294--85509442 Score: 190
Period size: 73 Copynumber: 2.0 Consensus size: 73
85509284 TAAACATATT
* *
85509294 AAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTTAATATATTTTAAAAAAATTAAA
1 AAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAATATATTTTAAAAAAAGTAAA
* * **
85509359 TATATTAA
66 GAGAAAAA
* * *** *
85509367 AAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATATATTTTTCTATAAGTAAA
1 AAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAATATATTTTAAAAAAAGTAAA
85509432 GAGAAAAA
66 GAGAAAAA
85509440 AAA
1 AAA
85509443 TTTTAATATA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (73 bp):
AAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAATATATTTTAAAAAAAGTAAA
GAGAAAAA
Found at i:85509613 original size:20 final size:20
Alignment explanation
Indices: 85509590--85509631 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
85509580 GAACATATTA
85509590 AAAAAATTTTAAGTATAACC
1 AAAAAATTTTAAGTATAACC
85509610 AAAAAATTTTAAGTATAACC
1 AAAAAATTTTAAGTATAACC
85509630 AA
1 AA
85509632 TTTTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAATTTTAAGTATAACC
Found at i:85509635 original size:16 final size:17
Alignment explanation
Indices: 85509593--85509637 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
85509583 CATATTAAAA
85509593 AAATTTTAAGTATAACC
1 AAATTTTAAGTATAACC
85509610 AAAAAATTTTAAGTATAACC
1 ---AAATTTTAAGTATAACC
85509630 -AATTTTAA
1 AAATTTTAA
85509638 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
20 17 0.68
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (17 bp):
AAATTTTAAGTATAACC
Found at i:85511014 original size:21 final size:20
Alignment explanation
Indices: 85510972--85511014 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
85510962 GATTTTTTTT
*
85510972 TAATTTTAGTCTTCAATATA
1 TAATTTTAGTCTTAAATATA
85510992 TAATTTTACGT-TTAAATTATA
1 TAATTTTA-GTCTTAAA-TATA
85511013 TA
1 TA
85511015 GATAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (20 bp):
TAATTTTAGTCTTAAATATA
Found at i:85513184 original size:24 final size:24
Alignment explanation
Indices: 85513152--85513198 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
85513142 GCCATTTCTC
85513152 TTTATATCACTATGTATGTCGTTG
1 TTTATATCACTATGTATGTCGTTG
85513176 TTTATATCACTATGTATGTCGTT
1 TTTATATCACTATGTATGTCGTT
85513199 ACCGCTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (24 bp):
TTTATATCACTATGTATGTCGTTG
Found at i:85513300 original size:33 final size:33
Alignment explanation
Indices: 85513261--85513352 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
85513251 GAGGTGTACA
85513261 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
* *
85513294 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACCT
**
85513327 AACCTTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTACACACAAAGT
85513353 GTACATAACC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 13 0.25
33 37 0.73
34 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:85513362 original size:32 final size:33
Alignment explanation
Indices: 85513263--85513376 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
85513253 GGTGTACATT
* **
85513263 CCTTTCCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* * *
85513296 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
*
85513329 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* *
85513361 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTGGTAC
85513377 CATTTGGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 29 0.42
33 39 0.57
34 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACATAA
Found at i:85515261 original size:30 final size:30
Alignment explanation
Indices: 85515225--85515327 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
85515215 AGTCGTAGAG
*
85515225 AAGTTCATATCACTCTGACATTGGCGGTTC
1 AAGTTCATATCACTCCGACATTGGCGGTTC
* **
85515255 AAGTTCATATCA-TCCGGACATGGGTAGTTC
1 AAGTTCATATCACTCC-GACATTGGCGGTTC
*
85515285 GAGTTCATATCAC-CCGA-ATATAGGCGGTTC
1 AAGTTCATATCACTCCGACAT-T-GGCGGTTC
* *
85515315 GAGTTCATTTCAC
1 AAGTTCATATCAC
85515328 CCAAAGCAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.03
29 4 0.07
30 54 0.90
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (30 bp):
AAGTTCATATCACTCCGACATTGGCGGTTC
Found at i:85516637 original size:21 final size:22
Alignment explanation
Indices: 85516604--85516644 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
85516594 CTCCACCAAA
*
85516604 TAAAATATTAATTTTTAAAATT
1 TAAAATATTAATTTTAAAAATT
85516626 TAAAAT-TTAATTTTAAAAA
1 TAAAATATTAATTTTAAAAA
85516645 ACGTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAATATTAATTTTAAAAATT
Found at i:85516707 original size:12 final size:13
Alignment explanation
Indices: 85516653--85516707 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
85516643 AAACGTTTGA
85516653 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
85516667 A-ATTTTAAAATT
1 ATATTTTAAAATT
85516679 AATAGTTTATAAAAATT
1 -ATA-TTT-T-AAAATT
85516696 ATA-TTTAAAATT
1 ATATTTTAAAATT
85516708 TAAGAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 4 0.11
15 3 0.08
16 4 0.11
17 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:85516850 original size:13 final size:13
Alignment explanation
Indices: 85516832--85516857 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85516822 AAAATATTTA
85516832 ACATTTAAAATAT
1 ACATTTAAAATAT
85516845 ACATTTAAAATAT
1 ACATTTAAAATAT
85516858 TATAAAACTA
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:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:85516932 original size:22 final size:21
Alignment explanation
Indices: 85516918--85516986 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
85516908 TTTTATATTA
85516918 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
85516939 TT-AAAAA-A-A--T--AATT
1 TTAAAAAATATATTTAAAATT
* *
85516953 TCAAAAATATATATTTAAAATT
1 T-TAAAAAATATATTTAAAATT
85516975 TTAAAAAATATA
1 TTAAAAAATATA
85516987 ATATAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
14 5 0.14
16 5 0.14
17 1 0.03
18 2 0.06
19 1 0.03
20 6 0.17
21 11 0.31
22 5 0.14
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:85516970 original size:36 final size:36
Alignment explanation
Indices: 85516920--85516988 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
85516910 TTATATTATT
85516920 AAAAAATATATTTAAAATTTTAAAAAA-ATAATTTC
1 AAAAAATATATTTAAAATTTTAAAAAATATAATTTC
85516955 AAAAATATATATTTAAAATTTTAAAAAATATAAT
1 AAAAA-ATATATTTAAAATTTTAAAAAATATAAT
85516989 ATAAAACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 5 0.16
36 22 0.69
37 5 0.16
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (36 bp):
AAAAAATATATTTAAAATTTTAAAAAATATAATTTC
Found at i:85516999 original size:24 final size:23
Alignment explanation
Indices: 85516955--85516999 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
85516945 AAATAATTTC
*
85516955 AAAAATATATATTTAAAATTTTA
1 AAAAATATATATTAAAAATTTTA
85516978 AAAAATATA-ATATAAAACATTT
1 AAAAATATATAT-TAAAA-ATTT
85517000 CAAATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 13 0.68
24 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATATATATTAAAAATTTTA
Found at i:85518001 original size:27 final size:26
Alignment explanation
Indices: 85517971--85518030 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
85517961 TAGTTAATAC
* *
85517971 TTAAAATCTTTTAATAGGTTCAAAATT
1 TTAAAATATTTTAATAGATT-AAAATT
* * *
85517998 TTAATATATTTTAATATATTTAAATT
1 TTAAAATATTTTAATAGATTAAAATT
85518024 TTAAAAT
1 TTAAAAT
85518031 TGTTTATACT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAAATATTTTAATAGATTAAAATT
Found at i:85518153 original size:22 final size:22
Alignment explanation
Indices: 85518128--85518200 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
85518118 TTCTCTTTTC
85518128 ATATTAAAAAAATATATTAAAT
1 ATATTAAAAAAATATATTAAAT
85518150 ATATT---AAAAT-T-TTAAAAT
1 ATATTAAAAAAATATATT-AAAT
* *
85518168 ATATTTTAAAAAACTATATTGAAT
1 ATA--TTAAAAAAATATATTAAAT
85518192 ATATTAAAA
1 ATATTAAAA
85518201 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
17 2 0.05
18 8 0.20
19 5 0.12
20 2 0.05
22 11 0.27
23 4 0.10
24 7 0.17
25 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (22 bp):
ATATTAAAAAAATATATTAAAT
Found at i:85518158 original size:20 final size:20
Alignment explanation
Indices: 85518135--85518200 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 20
85518125 TTCATATTAA
85518135 AAAAATATATTAAATATATT
1 AAAAATATATTAAATATATT
85518155 -AAAAT-T-TTAAAATATATTTT
1 AAAAATATATT-AAATATA--TT
*
85518175 AAAAAACTATATTGAATATATT
1 -AAAAA-TATATTAAATATATT
85518197 AAAA
1 AAAA
85518201 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
17 2 0.05
18 8 0.22
19 5 0.14
20 2 0.05
21 4 0.11
22 6 0.16
23 1 0.03
24 7 0.19
25 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATATATTAAATATATT
Found at i:85518266 original size:70 final size:71
Alignment explanation
Indices: 85518171--85518310 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 71
85518161 TTAAAATATA
* ** *
85518171 TTTTAAAAAACTATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATAT
1 TTTTAAAAAACTATATTAAATATATTAAAATTTTAAAATTAATTATACTTAACATTTTTTAATAT
85518236 ATTTAT
66 ATTTAT
* *
85518242 TTTTTAAAAA-TATATTAAATATATTAAAGTTTTAAAATTAATTATACTTAACATTTTTTAATAT
1 TTTTAAAAAACTATATTAAATATATTAAAATTTTAAAATTAATTATACTTAACATTTTTTAATAT
85518306 ATTTA
66 ATTTA
85518311 AAATTTTAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 54 0.86
71 9 0.14
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (71 bp):
TTTTAAAAAACTATATTAAATATATTAAAATTTTAAAATTAATTATACTTAACATTTTTTAATAT
ATTTAT
Found at i:85518311 original size:19 final size:18
Alignment explanation
Indices: 85518279--85518360 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 18
85518269 AGTTTTAAAA
*
85518279 TTAATTATACTTAACATTTT
1 TTAA-TATATTTAA-ATTTT
*
85518299 TTAATATATTTAAA-ATT
1 TTAATATATTTAAATTTT
85518316 TTAATATATTT-AATTTT
1 TTAATATATTTAAATTTT
* *
85518333 TTAA-AGTTTTTAAAATTT
1 TTAATA-TATTTAAATTTT
*
85518351 TAAATATATT
1 TTAATATATT
85518361 AAGAAATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.06
17 23 0.45
18 12 0.24
19 9 0.18
20 4 0.08
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (18 bp):
TTAATATATTTAAATTTT
Found at i:85518319 original size:17 final size:17
Alignment explanation
Indices: 85518297--85518370 Score: 78
Period size: 17 Copynumber: 4.2 Consensus size: 17
85518287 ACTTAACATT
85518297 TTTTAATATATTTAAAA
1 TTTTAATATATTTAAAA
**
85518314 TTTTAATATATTTAATT
1 TTTTAATATATTTAAAA
*
85518331 TTTTAA-AGTTTTTAAAA
1 TTTTAATA-TATTTAAAA
*
85518348 TTTTAAATATATTAAGAAA
1 TTTT-AATATATTTA-AAA
85518367 TTTT
1 TTTT
85518371 TTTTGTCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
16 1 0.02
17 31 0.67
18 6 0.13
19 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTAATATATTTAAAA
Found at i:85518345 original size:34 final size:34
Alignment explanation
Indices: 85518250--85518362 Score: 117
Period size: 34 Copynumber: 3.3 Consensus size: 34
85518240 ATTTTTTAAA
* *
85518250 AATATATTAAATATATTAAAG-TTTTAAAA--TT
1 AATATATTAAATTTTTTAAAGTTTTTAAAATTTT
*
85518281 AATTATACTTAACATTTTTTAATA-TATTTAAAATTTT
1 AA-TATA-TTAA-ATTTTTTAA-AGTTTTTAAAATTTT
*
85518318 AATATATTTAATTTTTTAAAGTTTTTAAAATTTT
1 AATATATTAAATTTTTTAAAGTTTTTAAAATTTT
85518352 AAATATATTAA
1 -AATATATTAA
85518363 GAAATTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
31 2 0.03
32 4 0.06
33 5 0.07
34 28 0.42
35 20 0.30
36 4 0.06
37 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (34 bp):
AATATATTAAATTTTTTAAAGTTTTTAAAATTTT
Found at i:85518417 original size:255 final size:248
Alignment explanation
Indices: 85517940--85518426 Score: 599
Period size: 255 Copynumber: 1.9 Consensus size: 248
85517930 ACCTATTAAA
* *
85517940 AATATATTAAAATTTTAAAATTAGTTAATACTTAAAATCTTTTAATAGGTTCAAAATTTTAATAT
1 AATATATTAAAATTTTAAAATTAGTTAATACTTAAAATCTTTTAATAGATTCAAAATTTTAAAAT
* **
85518005 ATTTTAATATATTTAAATTTTAAAATTGTTTATACTCAACATTTTCTTTAACATATTTAAATTTT
66 ATTTAAATATATTTAAATTTTAAAATTAATTATACTCAACATTTTCTTTAACATATTTAAATTTT
* *
85518070 AAAATTTTTTAAGTTTTTTAGAATTTTAAATATAGTAAAAAATCTTTTTTCTCTTTTCATATTAA
131 AAAATTTTTTAAGTTTTTTAAAATTTTAAATATAGTAAAAAATCTTTTTTCTCTTTACATATTAA
85518135 AAAAATATATTAAATATATTAAAATTTTAAAATATATTTTAAAAAACTATATTG
196 AAAAATATATTAAATATATTAAAATTTT-AAATATATTTTAAAAAACTATATTG
* * * * * **
85518189 AATATATTAAAATTTTAAAATTGGTT-ATACTTAATATTTTTTAATATATT-TATTTTTTAAAAA
1 AATATATTAAAATTTTAAAATTAGTTAATACTTAAAATCTTTTAATAGATTCAAAATTTT-AAAA
* *
85518252 TATATTAAATATA-TTAAAGTTTTAAAATTAATTATACTTAACA-TTT-TTTAATATATTTAAAA
65 TAT-TTAAATATATTTAAA-TTTTAAAATTAATTATACTCAACATTTTCTTTAACATATTT-AAA
* * * *
85518314 TTTTAATATATTTAATTTTTTAAAG-TTTTTAAAATTTTAAATATATTAAGAAATTTTTTTTGTC
127 -TTT--TA-A---AATTTTTT-AAGTTTTTTAAAATTTTAAATATAGTAAAAAATCTTTTTTCTC
* * * *
85518378 TTTACCTATTAAAAATATATATTAAGTATATTAAAATTTTTAATATATT
184 TTTACATATTAAAAAAATATATTAAATATATTAAAATTTTAAATATATT
85518427 AAAATTTTAA
Statistics
Matches: 202, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
247 16 0.08
248 37 0.18
249 57 0.28
251 2 0.01
252 1 0.00
254 8 0.04
255 78 0.39
256 3 0.01
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (248 bp):
AATATATTAAAATTTTAAAATTAGTTAATACTTAAAATCTTTTAATAGATTCAAAATTTTAAAAT
ATTTAAATATATTTAAATTTTAAAATTAATTATACTCAACATTTTCTTTAACATATTTAAATTTT
AAAATTTTTTAAGTTTTTTAAAATTTTAAATATAGTAAAAAATCTTTTTTCTCTTTACATATTAA
AAAAATATATTAAATATATTAAAATTTTAAATATATTTTAAAAAACTATATTG
Found at i:85518436 original size:16 final size:18
Alignment explanation
Indices: 85518399--85518434 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
85518389 AAAATATATA
85518399 TTAAGTATATTAAAATTT
1 TTAAGTATATTAAAATTT
85518417 TTAA-TATATTAAAATTT
1 TTAAGTATATTAAAATTT
85518434 T
1 T
85518435 AAAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAAGTATATTAAAATTT
Found at i:85518464 original size:42 final size:41
Alignment explanation
Indices: 85518398--85518481 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 41
85518388 AAAAATATAT
85518398 ATTAAGTATATTAAAATTTTTAATATA-TTAAAATTTTAAA
1 ATTAAGTATATTAAAATTTTTAATATATTTAAAATTTTAAA
* *
85518438 ATTAATTATACTTAATATTTTTTAATATATTTAAAATTTTAAA
1 ATTAAGTATA-TTAA-AATTTTTAATATATTTAAAATTTTAAA
85518481 A
1 A
85518482 AACTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 9 0.23
41 4 0.10
42 12 0.31
43 14 0.36
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (41 bp):
ATTAAGTATATTAAAATTTTTAATATATTTAAAATTTTAAA
Found at i:85518471 original size:19 final size:20
Alignment explanation
Indices: 85518399--85518477 Score: 60
Period size: 19 Copynumber: 4.0 Consensus size: 20
85518389 AAAATATATA
*
85518399 TTAAGTATA-TTAAAA-TTT
1 TTAATTATACTTAAAATTTT
85518417 TTAA-TATA-TTAAAATTTT
1 TTAATTATACTTAAAATTTT
*
85518435 AAAATTAATTATACTTAATATTTT
1 ----TTAATTATACTTAAAATTTT
*
85518459 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
85518478 AAAAAACTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
17 10 0.20
18 7 0.14
19 13 0.25
20 4 0.08
22 4 0.08
23 4 0.08
24 9 0.18
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:85525531 original size:20 final size:20
Alignment explanation
Indices: 85525494--85525532 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85525484 ACAAAAAACA
* **
85525494 TATAATTATTCATTTAATAG
1 TATAACTATTCAAATAATAG
85525514 TATAACTATTCAAATAATA
1 TATAACTATTCAAATAATA
85525533 TTTTTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (20 bp):
TATAACTATTCAAATAATAG
Found at i:85527502 original size:11 final size:11
Alignment explanation
Indices: 85527486--85527510 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85527476 AATATTTTCT
85527486 AATAAATTAAA
1 AATAAATTAAA
85527497 AATAAATTAAA
1 AATAAATTAAA
85527508 AAT
1 AAT
85527511 CTTTATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAATTAAA
Found at i:85529782 original size:3 final size:3
Alignment explanation
Indices: 85529769--85529798 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
85529759 TTGTATTTAC
85529769 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT
85529799 TTACATTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:85530793 original size:20 final size:20
Alignment explanation
Indices: 85530770--85530808 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85530760 GGAAAATATT
85530770 TTATA-AAATTGAAATTACAC
1 TTATATAAATT-AAATTACAC
*
85530790 TTATATATATTAAATTACA
1 TTATATAAATTAAATTACA
85530809 ATTTCACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
TTATATAAATTAAATTACAC
Found at i:85531757 original size:7 final size:8
Alignment explanation
Indices: 85531741--85531765 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
85531731 TTCAAGGGCT
85531741 AAAATAAA
1 AAAATAAA
85531749 AAAATAAA
1 AAAATAAA
85531757 AAAATAAA
1 AAAATAAA
85531765 A
1 A
85531766 TATATGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:85533329 original size:20 final size:19
Alignment explanation
Indices: 85533299--85533342 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
85533289 AATTGAGTTG
*
85533299 TTTTTTATTTTTATTTTAA
1 TTTTTTATTTTTAATTTAA
*
85533318 TATTTTTGTTTTTAATTTAA
1 T-TTTTTATTTTTAATTTAA
85533338 TTTTT
1 TTTTT
85533343 AAATTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTAATTTAA
Found at i:85537177 original size:37 final size:37
Alignment explanation
Indices: 85537127--85537205 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
85537117 TTATTACAAA
* *
85537127 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
85537164 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
85537201 GTCTT
1 GTCTT
85537206 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:85537402 original size:47 final size:47
Alignment explanation
Indices: 85537324--85537800 Score: 792
Period size: 47 Copynumber: 10.1 Consensus size: 47
85537314 CCCTTCGGGA
* * * * * * *
85537324 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
85537371 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85537418 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85537465 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85537512 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85537559 CTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85537606 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85537653 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85537700 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85537747 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85537794 CTTATCA
1 CTTATCA
85537801 TCATTTCATA
Statistics
Matches: 403, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 403 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85540273 original size:3 final size:3
Alignment explanation
Indices: 85540265--85540293 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
85540255 GATTTAGTCC
85540265 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
85540294 CCTATTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:85551097 original size:3 final size:3
Alignment explanation
Indices: 85551089--85551114 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85551079 GATTTAGTCC
85551089 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
85551115 CCTATTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:85551745 original size:26 final size:23
Alignment explanation
Indices: 85551697--85551748 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 23
85551687 AAAACATACT
85551697 TATACATTTTGTTAATTTATATA
1 TATACATTTTGTTAATTTATATA
*
85551720 TATACATATTTAGTTTATGTTATATA
1 TATACAT-TTT-GTTAAT-TTATATA
85551746 TAT
1 TAT
85551749 CTTTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 7 0.28
24 3 0.12
25 5 0.20
26 10 0.40
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
TATACATTTTGTTAATTTATATA
Found at i:85559424 original size:37 final size:35
Alignment explanation
Indices: 85559381--85559468 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 35
85559371 ATGCTGTCCG
*
85559381 GGCTAAGTCCCGAAGG-CTTTGTTAGTGA-ATATATCC
1 GGCTAAGT-CCGAAGGCCTTTG-T-GCGAGATATATCC
85559417 GGACTAAGATCCGAAGGCCTTTGTGCGAGATATATCC
1 GG-CTAAG-TCCGAAGGCCTTTGTGCGAGATATATCC
*
85559454 GGTTAAGTCCGAAGG
1 GGCTAAGTCCGAAGG
85559469 ATTCGTGCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
35 8 0.17
36 9 0.20
37 23 0.50
38 6 0.13
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (35 bp):
GGCTAAGTCCGAAGGCCTTTGTGCGAGATATATCC
Found at i:85559490 original size:25 final size:26
Alignment explanation
Indices: 85559456--85559504 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
85559446 ATATATCCGG
85559456 TTAAGTCCGAAGG-ATTCGTGCGATA
1 TTAAGTCCGAAGGCATTCGTGCGATA
85559481 TTAAGTCCGAAGGCATTCGTGCGA
1 TTAAGTCCGAAGGCATTCGTGCGA
85559505 GTTGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (26 bp):
TTAAGTCCGAAGGCATTCGTGCGATA
Found at i:85559552 original size:39 final size:40
Alignment explanation
Indices: 85559481--85559695 Score: 355
Period size: 40 Copynumber: 5.5 Consensus size: 40
85559471 TCGTGCGATA
85559481 TTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
85559520 TTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAATCCGGG
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
85559559 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
85559599 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
* ** *
85559639 TTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGG
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
* *
85559678 CTATGTCCCGAAGGCATT
1 TTAAGTCCCGAAGGCATT
85559696 TGAACGAGGA
Statistics
Matches: 168, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
39 78 0.46
40 90 0.54
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGG
Found at i:85559618 original size:79 final size:80
Alignment explanation
Indices: 85559481--85559695 Score: 355
Period size: 79 Copynumber: 2.7 Consensus size: 80
85559471 TCGTGCGATA
85559481 TTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
85559545 GTT-TTAAATCCGGG
66 GTTGTTAAATCCGGG
85559559 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
85559624 GTTGTTAAATCCGGG
66 GTTGTTAAATCCGGG
* ** * * *
85559639 TTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
85559696 TGAACGAGGA
Statistics
Matches: 129, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
78 6 0.05
79 94 0.73
80 29 0.22
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
GTTGTTAAATCCGGG
Found at i:85559715 original size:79 final size:80
Alignment explanation
Indices: 85559481--85559730 Score: 337
Period size: 79 Copynumber: 3.2 Consensus size: 80
85559471 TCGTGCGATA
85559481 TTAAGT-CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
*
85559545 -GTTTTAAATCCGGG
66 GGTGTTAAATCCGGG
85559559 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
*
85559624 GTTGTTAAATCCGGG
66 GGTGTTAAATCCGGG
* ** * * * * **
85559639 TTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
* * *
85559703 GGAGCTATATCC-GG
66 GGTGTTAAATCCGGG
*
85559717 TTAAATCCCGAAGG
1 TTAAGTCCCGAAGG
85559731 TACGTGATTT
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
78 21 0.14
79 103 0.67
80 30 0.19
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
TTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
GGTGTTAAATCCGGG
Found at i:85567504 original size:40 final size:40
Alignment explanation
Indices: 85567449--85567664 Score: 371
Period size: 40 Copynumber: 5.4 Consensus size: 40
85567439 CGAGTTAAAG
85567449 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
85567489 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
85567529 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
85567569 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
* ** * *
85567609 TAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
*
85567648 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
85567665 TGAACGAGGA
Statistics
Matches: 170, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 33 0.19
40 137 0.81
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
Found at i:85576964 original size:20 final size:20
Alignment explanation
Indices: 85576914--85576965 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
85576904 TACAGGGATC
*
85576914 ACACGCCCGTGTGGCCCAAGG
1 ACACGCCCGTGTGACCCAA-G
*
85576935 ACATGCCCGTGTGACCCTAA-
1 ACACGCCCGTGTGACCC-AAG
85576955 ACACGCCCGTG
1 ACACGCCCGTG
85576966 CTTCAGGCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.37
21 15 0.56
22 2 0.07
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.13
Consensus pattern (20 bp):
ACACGCCCGTGTGACCCAAG
Found at i:85577312 original size:21 final size:21
Alignment explanation
Indices: 85577287--85577326 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
85577277 TGTTCAACCA
85577287 ATTCAAAACACAT-TCAAATTC
1 ATTCAAAACA-ATGTCAAATTC
85577308 ATTCAAAACAATGTCAAAT
1 ATTCAAAACAATGTCAAAT
85577327 AAACAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTCAAAACAATGTCAAATTC
Found at i:85577429 original size:17 final size:18
Alignment explanation
Indices: 85577404--85577437 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85577394 AATAATTTCA
85577404 TTCAAACCAA-ATCAACT
1 TTCAAACCAATATCAACT
*
85577421 TTCATACCAATATCAAC
1 TTCAAACCAATATCAAC
85577438 CCAAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (18 bp):
TTCAAACCAATATCAACT
Found at i:85579155 original size:8 final size:8
Alignment explanation
Indices: 85579142--85579167 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
85579132 TTAATGTATA
85579142 ATAATAAT
1 ATAATAAT
85579150 ATAATAAT
1 ATAATAAT
85579158 ATAATAAT
1 ATAATAAT
85579166 AT
1 AT
85579168 TTTATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATAAT
Found at i:85580284 original size:72 final size:72
Alignment explanation
Indices: 85580163--85580310 Score: 287
Period size: 72 Copynumber: 2.1 Consensus size: 72
85580153 TTCTGCTTAG
*
85580163 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGTATGATTATCTATACATTATC
1 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
85580228 CTAGGAC
66 CTAGGAC
85580235 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
1 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
85580300 CTAGGAC
66 CTAGGAC
85580307 ATTG
1 ATTG
85580311 TCAGTGAAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.48
Consensus pattern (72 bp):
ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
CTAGGAC
Found at i:85585304 original size:14 final size:14
Alignment explanation
Indices: 85585285--85585311 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85585275 CTTTAGACTC
85585285 AACATTATTAGAAT
1 AACATTATTAGAAT
85585299 AACATTATTAGAA
1 AACATTATTAGAA
85585312 ATGAATATGA
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:0.07, G:0.07, T:0.33
Consensus pattern (14 bp):
AACATTATTAGAAT
Found at i:85587481 original size:47 final size:46
Alignment explanation
Indices: 85587341--85587649 Score: 179
Period size: 47 Copynumber: 6.6 Consensus size: 46
85587331 TGTGTGCCAA
* * * *
85587341 TGTAAGACATGTCTGGGACATGCATCAGC-CACATTATGAGT-GCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTC-GATAATGA-TAGCTAG
* * * * * * *
85587387 TATAAGACCATGTGTGGAACATGGCATCGGCACAGA-GACGAGT-GCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTC-GATAATGA-TAGCTAG
* * *
85587435 TGTAAGACATGTCTCGGACATGCATCGGTCTCGACAATGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CTCGATAATGATAGCTAG
* * * *
85587482 TGTAAGACGTGTCTGGGACACGCATCCGCTAAGAGT--TG-T-GCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCT-CGA-TAATGATAGCTAG
* * * *
85587526 TGTAAGACATGTCTGGGACATGCATCAGCACGTATATACGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTCG-ATA-ATGATAGCTAG
* *
85587574 TATAAGACCATGTCT--GACATGGCATCGGCCTCGATGATGATAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGATAATGATAGCTAG
*
85587621 TGTAAGACTATGTTTGGGACATGACATCG
1 TGTAAGAC-ATGTCTGGGACATG-CATCG
85587650 ATAACTTATC
Statistics
Matches: 206, Mismatches: 36, Indels: 39
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 1 0.00
46 22 0.11
47 84 0.41
48 43 0.21
49 23 0.11
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTCGATAATGATAGCTAG
Found at i:85589458 original size:26 final size:27
Alignment explanation
Indices: 85589400--85589460 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
85589390 AGTACCGAGA
85589400 GAAAGAGTAACTTGGGAATTTTTCCAT
1 GAAAGAGTAACTTGGGAATTTTTCCAT
85589427 GAAAGAGTAACTTGGGAATTTTTCCAT
1 GAAAGAGTAACTTGGGAATTTTTCCAT
85589454 G-AAGAGT
1 GAAAGAGT
85589461 TCAGAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (27 bp):
GAAAGAGTAACTTGGGAATTTTTCCAT
Found at i:85594905 original size:47 final size:46
Alignment explanation
Indices: 85594834--85595056 Score: 143
Period size: 47 Copynumber: 4.8 Consensus size: 46
85594824 GATTTCTTGT
* * ** **
85594834 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTATGGGACATGCATCAG-CACAGAGACAA
* *
85594880 GTGCCAGTATAAGACCATGTATGGGACATGGCATCAGCATAGAGACAA
1 GTGCCAGTGTAAGA-CATGTATGGGACAT-GCATCAGCACAGAGACAA
* * ** *
85594928 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGC-C-TCGACGAT
1 GTGCCAGTGTAAGACATGTATGGGACATGCATCAGCACAGAGAC-AA
* * * * * **
85594973 GATAGCCAGTGTAAAACGTGTCTGGGACACGCATCGGCTA-AGAG--TT
1 G-T-GCCAGTGTAAGACATGTATGGGACATGCATCAGC-ACAGAGACAA
* *
85595019 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAC
1 GTGCCAGTGTAAGACATGTATGGGACATGCATCAGCAC
85595057 GTATATACGA
Statistics
Matches: 140, Mismatches: 27, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 32 0.23
45 3 0.02
46 22 0.16
47 59 0.42
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTATGGGACATGCATCAGCACAGAGACAA
Found at i:85595000 original size:94 final size:91
Alignment explanation
Indices: 85594834--85595054 Score: 248
Period size: 94 Copynumber: 2.4 Consensus size: 91
85594824 GATTTCTTGT
** *
85594834 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCCAGTATAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACACGATGAGTGCCAGTATAAGAACATG
*
85594899 TATGGGACATGGCATCAGCATAGAGACAA
66 TATGGGACA-CGCATCAGC-TA-AGACAA
* * * * * *
85594928 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAA-AACG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ACGATGAGT-GCCAGTATAAGAACA
* * ***
85594991 TGTCTGGGACACGCATCGGCTAAGAGTT
64 TGTATGGGACACGCATCAGCTAAGACAA
85595019 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
85595055 ACGTATATAC
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
91 36 0.34
92 2 0.02
93 7 0.07
94 48 0.45
95 14 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACACGATGAGTGCCAGTATAAGAACATG
TATGGGACACGCATCAGCTAAGACAA
Found at i:85595101 original size:141 final size:140
Alignment explanation
Indices: 85594880--85595143 Score: 336
Period size: 141 Copynumber: 1.9 Consensus size: 140
85594870 CACATTATGA
* *
85594880 GTGCCAGTATAAGACCATGTATGGGACATGGCATCAGCATAGAGACAAGTGCCAGTGTAAGACAT
1 GTGCCAGTATAAGACCATGTATGGGACATGGCATCAGCATAGAGACAAGAGCCAGTATAAGACAT
* * *
85594945 GTTTGGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAAAC-GTGTCTGGGACACGCATCG
66 GTCTAGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAAACTATGTCTGGGACACGCATCG
85595009 GCTAAGAGTT
131 GCTAAGAGTT
* * * * * * *
85595019 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATATACGAGAGCTAGTATAAGAC
1 GTGCCAGTATAAGACCATGTATGGGACATGGCATCAGCA--TAGAGACAAGAGCCAGTATAAGA-
* * *
85595082 CATGTCTAGGACATGGCATCGGCCTCGATGATGATAGCTAGTGTAAGACTATGTCTGGGACA
63 CATGTCTAGGACAT-GCATCGGCCTCGACGATGATAGCCAGTGTAAAACTATGTCTGGGACA
85595144 TAACATCAGC
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
137 9 0.09
138 13 0.12
139 29 0.28
140 12 0.11
141 31 0.30
142 11 0.10
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (140 bp):
GTGCCAGTATAAGACCATGTATGGGACATGGCATCAGCATAGAGACAAGAGCCAGTATAAGACAT
GTCTAGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAAACTATGTCTGGGACACGCATCG
GCTAAGAGTT
Found at i:85599590 original size:20 final size:20
Alignment explanation
Indices: 85599548--85599589 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
85599538 CGAAAAATAA
85599548 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
85599568 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
85599587 TTT
1 TTT
85599590 TTGGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:85601334 original size:22 final size:22
Alignment explanation
Indices: 85601293--85601338 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
85601283 GATCACATGG
*
85601293 CCTGGCCCAGAACTCCACACGC
1 CCTGGCCAAGAACTCCACACGC
* *
85601315 CCTGGCCAAGAATTCTACACGC
1 CCTGGCCAAGAACTCCACACGC
85601337 CC
1 CC
85601339 GTGTGGGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.46, G:0.17, T:0.13
Consensus pattern (22 bp):
CCTGGCCAAGAACTCCACACGC
Found at i:85612087 original size:17 final size:17
Alignment explanation
Indices: 85612067--85612100 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85612057 ATTTATATTT
85612067 GCCTAAAATTTTTGTTA
1 GCCTAAAATTTTTGTTA
*
85612084 GCCTTAAATTTTTGTTA
1 GCCTAAAATTTTTGTTA
85612101 AGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (17 bp):
GCCTAAAATTTTTGTTA
Found at i:85612770 original size:15 final size:15
Alignment explanation
Indices: 85612745--85612779 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
85612735 ATTAAATAGG
85612745 AAAGA-AAAGAAAGA
1 AAAGAGAAAGAAAGA
85612759 AAAGAGAAAGAAAGA
1 AAAGAGAAAGAAAGA
85612774 AAAGAG
1 AAAGAG
85612780 GAGAAAGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAGAAAGA
Found at i:85614448 original size:24 final size:26
Alignment explanation
Indices: 85614421--85614472 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
85614411 ATTATAAATG
85614421 GAGT-TATAAGTATAATG-TTG-GTTT
1 GAGTATATAAGTAT-ATGTTTGTGTTT
85614445 GAGTATATAAGTATATGTTTGTGTTT
1 GAGTATATAAGTATATGTTTGTGTTT
85614471 GA
1 GA
85614473 AGCCATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.28
25 12 0.48
26 6 0.24
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (26 bp):
GAGTATATAAGTATATGTTTGTGTTT
Found at i:85623127 original size:62 final size:62
Alignment explanation
Indices: 85623048--85623181 Score: 259
Period size: 62 Copynumber: 2.2 Consensus size: 62
85623038 TGGACCTCCT
85623048 CACACGGGCGGACCACATGGCCGTGTCAATTTGGCAGGCTCAAGCACGGCCTGAAGTAATAG
1 CACACGGGCGGACCACATGGCCGTGTCAATTTGGCAGGCTCAAGCACGGCCTGAAGTAATAG
*
85623110 CACACGGGCGGACCACATGGCCGTGTCAATTTGGCAGGCTCAAGCACGGCCTGAAGTGATAG
1 CACACGGGCGGACCACATGGCCGTGTCAATTTGGCAGGCTCAAGCACGGCCTGAAGTAATAG
85623172 CACACGGGCG
1 CACACGGGCG
85623182 TGTCCCTACC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.25, C:0.28, G:0.32, T:0.15
Consensus pattern (62 bp):
CACACGGGCGGACCACATGGCCGTGTCAATTTGGCAGGCTCAAGCACGGCCTGAAGTAATAG
Found at i:85625525 original size:21 final size:21
Alignment explanation
Indices: 85625500--85625544 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
85625490 ACTTCTTCGA
85625500 ATTTGTTTACCTATTATTATT
1 ATTTGTTTACCTATTATTATT
*
85625521 ATTTGTTTATCTATTATTATT
1 ATTTGTTTACCTATTATTATT
85625542 ATT
1 ATT
85625545 ATTATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.64
Consensus pattern (21 bp):
ATTTGTTTACCTATTATTATT
Found at i:85625559 original size:24 final size:26
Alignment explanation
Indices: 85625511--85625560 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
85625501 TTTGTTTACC
85625511 TATTATTATTATTTGTTTATCTATTAT
1 TATTATTATTATTTGTTTA-CTATTAT
85625538 TATTATTATTATTT-TTTA-TATTA
1 TATTATTATTATTTGTTTACTATTA
85625561 GAGGCTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TATTATTATTATTTGTTTACTATTAT
Found at i:85634076 original size:20 final size:20
Alignment explanation
Indices: 85634053--85634128 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
85634043 AATCCATTCA
* *
85634053 TATAACTAGTAGTTCATCCG
1 TATAACCAGTAATTCATCCG
85634073 TATAACCAGTAATTCATCAC-
1 TATAACCAGTAATTCATC-CG
* * *
85634093 TAT-ATCAGTAATTTATCTG
1 TATAACCAGTAATTCATCCG
85634112 TATCAA-CAGTAATTCAT
1 TAT-AACCAGTAATTCAT
85634129 TCATTTCAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 15 0.33
20 29 0.63
21 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
TATAACCAGTAATTCATCCG
Found at i:85634103 original size:19 final size:20
Alignment explanation
Indices: 85634079--85634148 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
85634069 TCCGTATAAC
*
85634079 CAGTAATTCATCACTAT-AT
1 CAGTAATTCATCACTATCAA
* **
85634098 CAGTAATTTATCTGTATCAA
1 CAGTAATTCATCACTATCAA
*
85634118 CAGTAATTCATTCA-TTTCAA
1 CAGTAATTCA-TCACTATCAA
85634138 CAGTAATTCAT
1 CAGTAATTCAT
85634149 ATAATCAGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 15 0.36
20 25 0.60
21 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.39
Consensus pattern (20 bp):
CAGTAATTCATCACTATCAA
Found at i:85634377 original size:45 final size:46
Alignment explanation
Indices: 85634328--85634416 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
85634318 AATCTCAAAC
* *
85634328 GGTAAACTCTATTGAGCTG-AACAGTAAGCTCATACGAGCTGAATT
1 GGTAAACTCCAATGAGCTGAAACAGTAAGCTCATACGAGCTGAATT
* *
85634373 GGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTACGAGCTGA
1 GGTAAACTCCAATGAGCTG-AAACAGTAAGCTCATACGAGCTGA
85634417 TATATCGGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 16 0.42
47 22 0.58
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (46 bp):
GGTAAACTCCAATGAGCTGAAACAGTAAGCTCATACGAGCTGAATT
Found at i:85634411 original size:47 final size:48
Alignment explanation
Indices: 85634340--85634431 Score: 136
Period size: 47 Copynumber: 1.9 Consensus size: 48
85634330 TAAACTCTAT
85634340 TGAGCTGAACAGTAAGCTCATACGAGCTGA-AT-T-GGTAAGCTCCAA
1 TGAGCTGAACAGTAAGCTCATACGAGCTGATATATCGGTAAGCTCCAA
*
85634385 TGAGCTGAAAACAGTAAGCTCTTACGAGCTGATATATCGGTAAGCTC
1 TGAGCTG--AACAGTAAGCTCATACGAGCTGATATATCGGTAAGCTC
85634432 ATACGAGCTG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
45 7 0.17
47 22 0.54
48 2 0.05
49 1 0.02
50 9 0.22
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (48 bp):
TGAGCTGAACAGTAAGCTCATACGAGCTGATATATCGGTAAGCTCCAA
Found at i:85634430 original size:26 final size:25
Alignment explanation
Indices: 85634351--85634441 Score: 100
Period size: 26 Copynumber: 3.7 Consensus size: 25
85634341 GAGCTGAACA
85634351 GTAAGCTCATACGAGCTGAAT-T-G
1 GTAAGCTCATACGAGCTGAATATCG
* * *
85634374 GTAAGCTCCA-ATGAGCTGAA-AACA
1 GTAAGCT-CATACGAGCTGAATATCG
*
85634398 GTAAGCTCTTACGAGCTGATATATCG
1 GTAAGCTCATACGAGCTGA-ATATCG
85634424 GTAAGCTCATACGAGCTG
1 GTAAGCTCATACGAGCTG
85634442 TGGTGAGTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 17 0.31
24 17 0.31
25 1 0.02
26 19 0.35
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGAATATCG
Found at i:85639412 original size:12 final size:12
Alignment explanation
Indices: 85639395--85639423 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
85639385 CTATACATCT
85639395 GTGTGCCAGCCC
1 GTGTGCCAGCCC
85639407 GTGTGCCAGCCC
1 GTGTGCCAGCCC
85639419 GTGTG
1 GTGTG
85639424 TGACTCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.34, G:0.38, T:0.21
Consensus pattern (12 bp):
GTGTGCCAGCCC
Found at i:85639424 original size:14 final size:13
Alignment explanation
Indices: 85639393--85639425 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
85639383 GACTATACAT
85639393 CTGTGTGCCAGCC
1 CTGTGTGCCAGCC
85639406 C-GTGTGCCAGCC
1 CTGTGTGCCAGCC
85639418 CGTGTGTG
1 C-TGTGTG
85639426 ACTCACATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.67
13 1 0.06
14 5 0.28
ACGTcount: A:0.06, C:0.33, G:0.36, T:0.24
Consensus pattern (13 bp):
CTGTGTGCCAGCC
Found at i:85640742 original size:20 final size:20
Alignment explanation
Indices: 85640715--85640822 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
85640705 CGAATAAACT
* *
85640715 GTAATTCATTTATATAACTA
1 GTAATTCATTCATATAACCA
* *
85640735 GTAGTTCATTCGTATAACCA
1 GTAATTCATTCATATAACCA
*
85640755 GTAATTCA-TCAGTAT-ATCA
1 GTAATTCATTCA-TATAACCA
* * *
85640774 GTAATTTATCCGTATCAA-CA
1 GTAATTCATTCATAT-AACCA
*
85640794 GTAATTCATTCATTTCAA-CA
1 GTAATTCATTCATAT-AACCA
85640814 GTAATTCAT
1 GTAATTCAT
85640823 ATAATCGGTA
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
19 15 0.21
20 54 0.77
21 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
GTAATTCATTCATATAACCA
Found at i:85640777 original size:19 final size:20
Alignment explanation
Indices: 85640753--85640822 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
85640743 TTCGTATAAC
*
85640753 CAGTAATTCATCAGTAT-AT
1 CAGTAATTCATCAGTATCAA
* *
85640772 CAGTAATTTATCCGTATCAA
1 CAGTAATTCATCAGTATCAA
*
85640792 CAGTAATTCATTCA-TTTCAA
1 CAGTAATTCA-TCAGTATCAA
85640812 CAGTAATTCAT
1 CAGTAATTCAT
85640823 ATAATCGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.37
20 25 0.58
21 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
CAGTAATTCATCAGTATCAA
Found at i:85641010 original size:23 final size:22
Alignment explanation
Indices: 85640974--85641080 Score: 92
Period size: 23 Copynumber: 4.7 Consensus size: 22
85640964 CCTGAGCTGA
* *
85640974 TAAACAGTAAGCTCTATTGAGC
1 TAAATAGTAAGCTCTATCGAGC
*
85640996 TCAAATTGTAAGCTCTATCGAGC
1 T-AAATAGTAAGCTCTATCGAGC
*
85641019 TAAACAGTAAGCTC-ATACGAGC
1 TAAATAGTAAGCTCTAT-CGAGC
* *
85641041 TAAATCGGTAAGCTCCAAT-GAGC
1 TAAAT-AGTAAGCT-CTATCGAGC
85641064 TAAAAATAGTAAGCTCT
1 T--AAATAGTAAGCTCT
85641081 TACGAGTTGA
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.03
22 21 0.30
23 32 0.46
24 8 0.12
25 6 0.09
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
TAAATAGTAAGCTCTATCGAGC
Found at i:85641031 original size:22 final size:22
Alignment explanation
Indices: 85640974--85641055 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
85640964 CCTGAGCTGA
*
85640974 TAAACAGTAAGCTCTATTGAGC
1 TAAACAGTAAGCTCTATCGAGC
**
85640996 TCAAATTGTAAGCTCTATCGAGC
1 T-AAACAGTAAGCTCTATCGAGC
85641019 TAAACAGTAAGCTC-ATACGAGC
1 TAAACAGTAAGCTCTAT-CGAGC
*
85641041 TAAATCGGTAAGCTC
1 TAAA-CAGTAAGCTC
85641056 CAATGAGCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.04
22 21 0.41
23 28 0.55
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (22 bp):
TAAACAGTAAGCTCTATCGAGC
Found at i:85641041 original size:45 final size:44
Alignment explanation
Indices: 85640974--85641105 Score: 115
Period size: 45 Copynumber: 2.8 Consensus size: 44
85640964 CCTGAGCTGA
* * *
85640974 TAAACAGTAAGCTCTATTGAGCTCAAAT-TGTAAGCT-CTATCGAGC
1 TAAACAGTAAGCTCTA-CGAGCT-AAATCGGTAAGCTCCAAT-GAGC
85641019 TAAACAGTAAGCTCATACGAGCTAAATCGGTAAGCTCCAATGAGC
1 TAAACAGTAAGCTC-TACGAGCTAAATCGGTAAGCTCCAATGAGC
* *
85641064 TAAAAATAGTAAGCTCTTACGAGTTGATATATCGGTAAGCTC
1 T--AAACAGTAAGCTC-TACGAGCT-A-A-ATCGGTAAGCTC
85641106 ATACGAGTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
44 4 0.05
45 31 0.42
46 5 0.07
47 19 0.26
48 1 0.01
49 1 0.01
50 12 0.16
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (44 bp):
TAAACAGTAAGCTCTACGAGCTAAATCGGTAAGCTCCAATGAGC
Found at i:85645987 original size:79 final size:82
Alignment explanation
Indices: 85645876--85646060 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
85645866 GCTACTCATT
* * *
85645876 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
85645939 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
85645956 CAAATGCCTTCGGG-CTTAACCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
85646019 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
85646036 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85646061 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:85646060 original size:40 final size:40
Alignment explanation
Indices: 85645876--85646060 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
85645866 GCTACTCATT
* *
85645876 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
85645916 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
85645956 CAAATGCCTTCGGG-CTTAACCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
85645995 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
85646036 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85646061 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 77 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:85654389 original size:26 final size:25
Alignment explanation
Indices: 85654258--85654515 Score: 96
Period size: 25 Copynumber: 10.3 Consensus size: 25
85654248 CAACTTAAGG
* * *
85654258 TAAATAATATAAAAAACAGTTTCAAA
1 TAAATAATATATAAAATAATTT-AAA
* *
85654284 TAATTAATATATAAAA-AACTTAAAA
1 TAAATAATATATAAAATAA-TTTAAA
*
85654309 TAAATAATA-ATAAAATAGCA-TGAAA
1 TAAATAATATATAAAATA--ATTTAAA
*
85654334 TAAACAA-ATATAAGAAT--TTTAAGA
1 TAAATAATATATAA-AATAATTTAA-A
*
85654358 TGAATAATATATAAAATAATTTAAA
1 TAAATAATATATAAAATAATTTAAA
* * *
85654383 TTAAATATTACACGTGAAAAT--TTAAAA
1 -TAAATAATATA--T-AAAATAATTTAAA
* * *
85654410 TAGATAATATGA-AAAATAGTTAAAA
1 TAAATAATAT-ATAAAATAATTTAAA
*
85654435 TAAATAATTTATAAAA-AATATCTAAGA
1 TAAATAATATATAAAATAAT-T-TAA-A
* * *
85654462 TAAATGAT-T-TATAA-AAGTT-AA
1 TAAATAATATATAAAATAATTTAAA
*
85654483 TAAACAATATATGAAAAT-ATTTAAAA
1 TAAATAATATAT-AAAATAATTT-AAA
85654509 TAAATAA
1 TAAATAA
85654516 AATAAGTAAG
Statistics
Matches: 175, Mismatches: 29, Indels: 56
0.67 0.11 0.22
Matches are distributed among these distances:
21 7 0.04
22 2 0.01
23 10 0.06
24 26 0.15
25 59 0.34
26 50 0.29
27 15 0.09
28 1 0.01
29 5 0.03
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (25 bp):
TAAATAATATATAAAATAATTTAAA
Found at i:85654452 original size:27 final size:26
Alignment explanation
Indices: 85654399--85654477 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 26
85654389 ATTACACGTG
* *
85654399 AAAAT-TTAAAATAGATAA--TATGA
1 AAAATATTAAAATAAATAATTTATAA
85654422 AAAATAGTTAAAATAAATAATTTATAA
1 AAAATA-TTAAAATAAATAATTTATAA
* *
85654449 AAAATATCTAAGATAAATGATTTATAA
1 AAAATAT-TAAAATAAATAATTTATAA
85654476 AA
1 AA
85654478 GTTAATAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.11
25 12 0.26
26 1 0.02
27 29 0.62
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (26 bp):
AAAATATTAAAATAAATAATTTATAA
Found at i:85655426 original size:23 final size:22
Alignment explanation
Indices: 85655400--85655447 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
85655390 ATAGATTTGT
*
85655400 AGAAAATGAAACAAAAAGAAACA
1 AGAAAATGAAA-AAAAAGAAAAA
*
85655423 AGAAAATGAAAAGAAAGAAAAA
1 AGAAAATGAAAAAAAAGAAAAA
85655445 AGA
1 AGA
85655448 TTAAAGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (22 bp):
AGAAAATGAAAAAAAAGAAAAA
Found at i:85663997 original size:46 final size:46
Alignment explanation
Indices: 85663947--85664122 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
85663937 TGGTTGAGCA
85663947 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85663993 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
85664038 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85664086 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85664123 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:85664103 original size:93 final size:93
Alignment explanation
Indices: 85663944--85664115 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85663934 GGATGGTTGA
* *
85663944 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85664009 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
85664037 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85664102 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
85664116 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:85666011 original size:16 final size:17
Alignment explanation
Indices: 85665990--85666021 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
85665980 TTTAATATTG
85665990 ATTGATT-AATGTATGA
1 ATTGATTAAATGTATGA
85666006 ATTGATTAAATGTATG
1 ATTGATTAAATGTATG
85666022 TGAAAAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (17 bp):
ATTGATTAAATGTATGA
Done.