Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 285 of 343
Found at i:94386468 original size:46 final size:46
Alignment explanation
Indices: 94386408--94386756 Score: 426
Period size: 46 Copynumber: 8.0 Consensus size: 46
94386398 TTTGACGTGA
* * * * ** * *
94386408 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
94386454 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
94386500 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
**
94386545 TGCCATGGTATCTTTCAATAATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94386591 TGCCATGGTATCTTTCAACCATAGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94386629 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
94386675 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
94386713 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
94386757 AGAGCATACT
Statistics
Matches: 265, Mismatches: 21, Indels: 34
0.83 0.07 0.11
Matches are distributed among these distances:
38 64 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 43 0.16
46 140 0.53
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:94386637 original size:38 final size:38
Alignment explanation
Indices: 94386586--94386745 Score: 230
Period size: 38 Copynumber: 4.0 Consensus size: 38
94386576 CATTTCATAT
*
94386586 CAGGTTGCCATGGTATCTTTCAACCATAGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
94386624 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
94386669 TCAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
94386708 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
94386746 TTTCATATCA
Statistics
Matches: 111, Mismatches: 3, Indels: 16
0.85 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 32 0.29
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:94386681 original size:84 final size:84
Alignment explanation
Indices: 94386540--94386755 Score: 396
Period size: 84 Copynumber: 2.6 Consensus size: 84
94386530 ACATTCATAT
** *
94386540 CAGGTTGCCATGGTATCTTTCAATAATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
94386605 TCAACCATAGTCTTACACA
66 TCAACCATAGTCTTACACA
94386624 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
*
94386689 TCAACCATGGTCTTACACA
66 TCAACCATAGTCTTACACA
94386708 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
94386756 GAGAGCATAC
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 128 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
TCAACCATAGTCTTACACA
Found at i:94388966 original size:31 final size:32
Alignment explanation
Indices: 94388890--94388966 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
94388880 CTAATAAAAT
*
94388890 AATAATAAAATATCTTATTAAAGTATTAATAA
1 AATAATAAAATATCTAATTAAAGTATTAATAA
**
94388922 AATAAT-ATTTATCTAATTAAA-TAATT-ATAA
1 AATAATAAAATATCTAATTAAAGT-ATTAATAA
*
94388952 AATATTAAAATATCT
1 AATAATAAAATATCT
94388967 CTAGCATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 10 0.27
31 21 0.57
32 6 0.16
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (32 bp):
AATAATAAAATATCTAATTAAAGTATTAATAA
Found at i:94393965 original size:34 final size:33
Alignment explanation
Indices: 94393909--94393991 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 33
94393899 CCTCTCTCTG
* * * *
94393909 TTTCTTTTCTTTGTTTATTGATCGACTCTTCCATT
1 TTTCTTTTC-TTATTTATTGATCAACGCTT-CATC
*
94393944 TTTCTTTTCTTATTTATTGATCAACGCTTTATC
1 TTTCTTTTCTTATTTATTGATCAACGCTTCATC
*
94393977 TTTGTTTTCTTATTT
1 TTTCTTTTCTTATTT
94393992 GTGATGTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
33 16 0.38
34 17 0.40
35 9 0.21
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (33 bp):
TTTCTTTTCTTATTTATTGATCAACGCTTCATC
Found at i:94398723 original size:36 final size:36
Alignment explanation
Indices: 94398678--94398746 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
94398668 TTAGTTTGAG
*
94398678 TGCTCGAGTAATTTGGTTGAGGATTTAGAGTTCTTT
1 TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTCTTT
* * *
94398714 TGCTTGAGTAAGTTGGTTGAGGCTTTAGGGTTC
1 TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTC
94398747 CTTCAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (36 bp):
TGCTCGAGTAAGTTGGTTGAGGATTTAGAGTTCTTT
Found at i:94403198 original size:12 final size:12
Alignment explanation
Indices: 94403180--94403220 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
94403170 ACAAGAATTA
94403180 CAAAAAAAA-AT
1 CAAAAAAAATAT
*
94403191 CAAAAAAATTAT
1 CAAAAAAAATAT
*
94403203 -AAAAAAAATTT
1 CAAAAAAAATAT
94403214 CAAAAAA
1 CAAAAAA
94403221 TTTCAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (12 bp):
CAAAAAAAATAT
Found at i:94403200 original size:22 final size:22
Alignment explanation
Indices: 94403175--94403229 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
94403165 CTTCAACAAG
94403175 AATTACAAAAAAAA-ATCAAAAA
1 AATTACAAAAAAAATATC-AAAA
* *
94403197 AATTATAAAAAAAATTTCAAAA
1 AATTACAAAAAAAATATCAAAA
*
94403219 AATTTCAAAAA
1 AATTACAAAAA
94403230 TTCTAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AATTACAAAAAAAATATCAAAA
Found at i:94403231 original size:9 final size:10
Alignment explanation
Indices: 94403205--94403229 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
94403195 AAAATTATAA
94403205 AAAAAATTTC
1 AAAAAATTTC
94403215 AAAAAATTTC
1 AAAAAATTTC
94403225 AAAAA
1 AAAAA
94403230 TTCTAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:94406196 original size:13 final size:15
Alignment explanation
Indices: 94406166--94406198 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
94406156 GGTAGAGAAA
94406166 ATAAATATTTAGTAT
1 ATAAATATTTAGTAT
94406181 ATAAATA-TTA-TAT
1 ATAAATATTTAGTAT
94406194 ATAAA
1 ATAAA
94406199 GAAAAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 3 0.17
15 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATATTTAGTAT
Found at i:94406329 original size:13 final size:13
Alignment explanation
Indices: 94406311--94406335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94406301 TAATATATTT
94406311 ATTAATTAAAAAC
1 ATTAATTAAAAAC
94406324 ATTAATTAAAAA
1 ATTAATTAAAAA
94406336 AAACTTGAAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:94409027 original size:144 final size:144
Alignment explanation
Indices: 94408766--94409051 Score: 518
Period size: 144 Copynumber: 2.0 Consensus size: 144
94408756 AACTCTGACC
94408766 CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
1 CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
* *
94408831 GAAGACCACCCTTGTCACTAACCAGTGCTGCATGGCATATAACATCTCCCGTTGCTACATAAGCA
66 GAAGACCACCCTTGTCACTAACCAGTACTACATGGCATATAACATCTCCCGTTGCTACATAAGCA
*
94408896 TTATCACTTCCATA
131 TTATCACCTCCATA
*
94408910 CTTCCTCTTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
1 CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
* *
94408975 GAAGACCACCCTTGTTACTAACCAGTACTACATGGCATATAACATCTTCCGTTGCTACATAAGCA
66 GAAGACCACCCTTGTCACTAACCAGTACTACATGGCATATAACATCTCCCGTTGCTACATAAGCA
94409040 TTATCACCTCCA
131 TTATCACCTCCA
94409052 AACATAGACA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 136 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (144 bp):
CTTCCTATTTTAACGTCTTTCCACTATCATCCACGAACCATAATGCTCATCTTCCACTCATCGTT
GAAGACCACCCTTGTCACTAACCAGTACTACATGGCATATAACATCTCCCGTTGCTACATAAGCA
TTATCACCTCCATA
Found at i:94409104 original size:19 final size:19
Alignment explanation
Indices: 94409076--94409122 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
94409066 CTGACCAGGG
* *
94409076 CATAACTCTGAGTTATGGC
1 CATAAATCTGACTTATGGC
94409095 CATAAATCTGACTTATGGC
1 CATAAATCTGACTTATGGC
94409114 CATAAATCT
1 CATAAATCT
94409123 CGTACTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (19 bp):
CATAAATCTGACTTATGGC
Found at i:94412725 original size:15 final size:16
Alignment explanation
Indices: 94412705--94412739 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
94412695 TTGAGTTTTA
94412705 TATTTACTATTA-TAT
1 TATTTACTATTAGTAT
*
94412720 TATTTATTATTAGTAT
1 TATTTACTATTAGTAT
94412736 TATT
1 TATT
94412740 ATTTTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTTACTATTAGTAT
Found at i:94412729 original size:3 final size:3
Alignment explanation
Indices: 94412712--94412791 Score: 51
Period size: 3 Copynumber: 27.0 Consensus size: 3
94412702 TTATATTTAC
* * * *
94412712 TAT TA- TAT TATT TAT TAT TAG TAT TAT TAT T-T TCAT TAT AAC TGT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* *
94412757 CAT CAT TAT TAT TAT T-T TATT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
94412792 ACTATTATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
2 8 0.13
3 44 0.73
4 8 0.13
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:94412736 original size:9 final size:8
Alignment explanation
Indices: 94412712--94412800 Score: 51
Period size: 9 Copynumber: 10.9 Consensus size: 8
94412702 TTATATTTAC
94412712 TATTATAT
1 TATTATAT
94412720 TATT-TAT
1 TATTATAT
94412727 TATTAGTAT
1 TATTA-TAT
*
94412736 TATTATTT
1 TATTATAT
*
94412744 TCATTATAAC
1 T-ATTAT-AT
* *
94412754 TGTCATCAT
1 TATTAT-AT
94412763 TATTATTAT
1 TATTA-TAT
94412772 T-TTAT-T
1 TATTATAT
94412778 TATTATTAT
1 TATTA-TAT
*
94412787 T-TTATAC
1 TATTATAT
94412794 TATTATA
1 TATTATA
94412801 AGCATTATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
6 2 0.03
7 14 0.23
8 19 0.31
9 25 0.40
10 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:94412780 original size:15 final size:15
Alignment explanation
Indices: 94412762--94412791 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94412752 ACTGTCATCA
94412762 TTATTATTATTTTAT
1 TTATTATTATTTTAT
94412777 TTATTATTATTTTAT
1 TTATTATTATTTTAT
94412792 ACTATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTATTATTTTAT
Found at i:94412942 original size:21 final size:21
Alignment explanation
Indices: 94412913--94412970 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
94412903 AATGCATTAA
*
94412913 TATTATTATCTTTTA-TTTTGT
1 TATTATTAT-TATTATTTTTGT
*
94412934 TATTGTTATTATTATTTTTGT
1 TATTATTATTATTATTTTTGT
* *
94412955 TACTATAATTATTATT
1 TATTATTATTATTATT
94412971 ATCATACTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.67
Consensus pattern (21 bp):
TATTATTATTATTATTTTTGT
Found at i:94413256 original size:3 final size:3
Alignment explanation
Indices: 94413248--94413298 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
94413238 GACTTTGTCA
94413248 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94413296 TAT
1 TAT
94413299 CATCATTGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94415637 original size:19 final size:20
Alignment explanation
Indices: 94415596--94415640 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
94415586 CGTCTCTTTG
*
94415596 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCATGCATA
*
94415615 TGCATTGCATTTCAT-TATA
1 TGCATTGCATTTCATGCATA
94415634 TGCATTG
1 TGCATTG
94415641 AATATCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (20 bp):
TGCATTGCATTTCATGCATA
Found at i:94417436 original size:15 final size:15
Alignment explanation
Indices: 94417416--94417466 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
94417406 TCTAATAATT
94417416 AATAATTTTAATAGA
1 AATAATTTTAATAGA
94417431 AATAA-TTTAATA-A
1 AATAATTTTAATAGA
*
94417444 AATGATATTTTGGATAGA
1 AAT-A-ATTTT-AATAGA
94417462 AATAA
1 AATAA
94417467 AATGGGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
13 4 0.13
14 8 0.27
15 6 0.20
16 4 0.13
17 4 0.13
18 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AATAATTTTAATAGA
Found at i:94418329 original size:18 final size:18
Alignment explanation
Indices: 94418306--94418342 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
94418296 GGATTGATGG
94418306 GGTTCCTGAATCGGTGAA
1 GGTTCCTGAATCGGTGAA
94418324 GGTTCCTGAATCGGTGAA
1 GGTTCCTGAATCGGTGAA
94418342 G
1 G
94418343 AAGATGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (18 bp):
GGTTCCTGAATCGGTGAA
Found at i:94427084 original size:105 final size:105
Alignment explanation
Indices: 94426915--94427126 Score: 388
Period size: 105 Copynumber: 2.0 Consensus size: 105
94426905 CATAAATAAT
* *
94426915 GAAGCTTCTGACTGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAGTAGGT
1 GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAATAGGT
94426980 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
66 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
*
94427020 GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACATGAAAACAAAACAATAAAACACAGAATAGGT
1 GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAATAGGT
*
94427085 AGAGTTATCACAGATGCAAGCCTCTGATAAATTTGAAGGC
66 AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
94427125 GA
1 GA
94427127 TATACAGTAG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (105 bp):
GAAGCTTCTGAATGTAGCAAAAATGGAAGAAACACGAAAACAAAACAATAAAACACAGAATAGGT
AGAGTTATCACAGATGCAAGCCTCTGATAAATATGAAGGC
Found at i:94434808 original size:16 final size:17
Alignment explanation
Indices: 94434777--94434809 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94434767 TTTATAAGTA
94434777 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
94434794 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
94434810 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:94435155 original size:46 final size:46
Alignment explanation
Indices: 94435090--94435455 Score: 486
Period size: 46 Copynumber: 8.0 Consensus size: 46
94435080 TTATCTTTGA
* * * * *
94435090 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
94435136 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * *
94435182 CACGCTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
94435228 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
94435274 TACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
94435320 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * ** *
94435366 CACGTTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* **
94435412 CAGGTCT-CCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGT-TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
94435456 ATCAGAGAGC
Statistics
Matches: 288, Mismatches: 28, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 8 0.03
46 275 0.95
47 5 0.02
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:94435456 original size:92 final size:92
Alignment explanation
Indices: 94435095--94435459 Score: 536
Period size: 92 Copynumber: 4.0 Consensus size: 92
94435085 TTTGACATGA
* * *
94435095 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
94435160 CATGGTCTTATTCATTTCATTTCACGC
66 CATGGTCTTATTCATTTCATATCACGT
* *
94435187 TGCCATGGTATCTTTCAACTATGGTCTTATTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
94435252 CATGGTCTTATTCATTTCATGTTACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * *
94435279 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
94435344 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * * *
94435371 TGCCATGGTATCTTTCAACCATAGTCTTACACA-TTTCATATCAGGTCT-CCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGT-TGCCATGGTATCTTTCA
**
94435434 ACCATGGTCTTACACATTTCATATCA
64 ACCATGGTCTTATTCATTTCATATCA
94435460 GAGAGCACAC
Statistics
Matches: 251, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
91 3 0.01
92 247 0.98
93 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:94440249 original size:12 final size:12
Alignment explanation
Indices: 94440234--94440258 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94440224 AAATATAGGG
94440234 AAATATATATAT
1 AAATATATATAT
94440246 AAATATATATAT
1 AAATATATATAT
94440258 A
1 A
94440259 TAACCTCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATATATAT
Found at i:94441353 original size:22 final size:21
Alignment explanation
Indices: 94441321--94441395 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
94441311 ATATATCTAG
94441321 TAAA-ATATATGTGGTAAATTA
1 TAAATATATATGTGGTAAA-TA
94441342 TAAATATATA--TGGTAACATA
1 TAAATATATATGTGGTAA-ATA
* * *
94441362 -AATTATATTTTATGGTAAAATA
1 TAAATATA-TATGTGGT-AAATA
94441384 TAAATATATATG
1 TAAATATATATG
94441396 GTAATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
19 6 0.14
20 9 0.21
21 5 0.12
22 14 0.33
23 8 0.19
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (21 bp):
TAAATATATATGTGGTAAATA
Found at i:94441397 original size:20 final size:20
Alignment explanation
Indices: 94441323--94441405 Score: 87
Period size: 20 Copynumber: 4.0 Consensus size: 20
94441313 ATATCTAGTA
* *
94441323 AAATATATGTGGTAAATTAT
1 AAATATATATGGTAAAATAT
*
94441343 AAATATATATGGTAACATA-
1 AAATATATATGGTAAAATAT
*
94441362 AATTATATTTTATGGTAAAATAT
1 AA--ATA-TATATGGTAAAATAT
*
94441385 AAATATATATGGTAATATAT
1 AAATATATATGGTAAAATAT
94441405 A
1 A
94441406 TGTATGTGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.04
20 30 0.58
21 6 0.12
22 12 0.23
23 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (20 bp):
AAATATATATGGTAAAATAT
Found at i:94445632 original size:17 final size:18
Alignment explanation
Indices: 94445607--94445640 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94445597 TAGAATTGGG
*
94445607 TTGAGAAAATT-ATTTAA
1 TTGAAAAAATTAATTTAA
94445624 TTGAAAAAATTAATTTA
1 TTGAAAAAATTAATTTA
94445641 TCTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TTGAAAAAATTAATTTAA
Found at i:94450771 original size:64 final size:64
Alignment explanation
Indices: 94450686--94450874 Score: 281
Period size: 64 Copynumber: 3.0 Consensus size: 64
94450676 AGTAACTTCG
* * *
94450686 CATATACTCGTTGACAAGCTAATGTTCTTGAAGACAAAAGAAAGTGTAAGAGATGACCTATTAA
1 CATATACTTGTTGACAAGCTAATGTTCTTGAAGACAAAAGAAAGTGCAAGAGAGGACCTATTAA
* * * * *
94450750 CATATGCTTGTTGACAGGCTAATGTTATTGAAGACAAAAGAAAGTGCAAGAGAGGACTTATTCA
1 CATATACTTGTTGACAAGCTAATGTTCTTGAAGACAAAAGAAAGTGCAAGAGAGGACCTATTAA
*
94450814 CATATACTTGTTGACAAGCTAATG-TCATTGAAGAAAAAAGAAAGTGCAAGAGAGGACCTAT
1 CATATACTTGTTGACAAGCTAATGTTC-TTGAAGACAAAAGAAAGTGCAAGAGAGGACCTAT
94450875 GTATTAACCT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 1 0.01
64 110 0.99
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (64 bp):
CATATACTTGTTGACAAGCTAATGTTCTTGAAGACAAAAGAAAGTGCAAGAGAGGACCTATTAA
Found at i:94452143 original size:24 final size:25
Alignment explanation
Indices: 94452089--94452151 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
94452079 CAGACACACC
* * *
94452089 ACAGCTCGCATGAGTTTTCCATTAT
1 ACAGCTCACATGAGCTTCCCATTAT
*
94452114 ATAGCTCACATGAGCTTCCCATT-T
1 ACAGCTCACATGAGCTTCCCATTAT
*
94452138 ACAGCTCATATGAG
1 ACAGCTCACATGAG
94452152 TATACAAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (25 bp):
ACAGCTCACATGAGCTTCCCATTAT
Found at i:94456239 original size:26 final size:26
Alignment explanation
Indices: 94456202--94456336 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
94456192 TGATACAAAT
* * *
94456202 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94456228 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
94456254 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94456279 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94456305 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94456331 TGATAA
1 TGATAA
94456337 GAATATCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 24 0.23
26 79 0.77
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94456296 original size:51 final size:51
Alignment explanation
Indices: 94456202--94456336 Score: 234
Period size: 51 Copynumber: 2.6 Consensus size: 51
94456192 TGATACAAAT
*
94456202 TGATAATAGGTTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
94456254 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
*
94456305 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATG-TTCATGATAA
94456337 GAATATCATG
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
51 48 0.60
52 32 0.40
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:94457971 original size:27 final size:27
Alignment explanation
Indices: 94457930--94458069 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
94457920 GAGGAAGCGT
*
94457930 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
94457957 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94457984 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94458011 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
94458039 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
94458065 TCTGG
1 TCTGG
94458070 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94458015 original size:54 final size:55
Alignment explanation
Indices: 94457930--94458069 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
94457920 GAGGAAGCGT
* * * *
94457930 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCATAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
94457984 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
94458039 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
94458070 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 59 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:94462079 original size:26 final size:26
Alignment explanation
Indices: 94462042--94462175 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
94462032 TGATACAAAT
*
94462042 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94462068 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
94462093 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94462118 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
94462144 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94462170 TGATAA
1 TGATAA
94462176 GAATTCATGT
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
24 15 0.14
25 18 0.17
26 71 0.68
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94462118 original size:50 final size:52
Alignment explanation
Indices: 94462042--94462175 Score: 236
Period size: 50 Copynumber: 2.6 Consensus size: 52
94462032 TGATACAAAT
94462042 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
94462093 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
94462144 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
94462176 GAATTCATGT
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
50 39 0.49
51 18 0.22
52 23 0.29
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:94463800 original size:27 final size:27
Alignment explanation
Indices: 94463759--94463898 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 27
94463749 GAGGAAGCGT
* *
94463759 TCTGGTGGCTATGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
94463786 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
94463813 TCTGGTGGCTCTACCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94463840 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
94463868 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
94463894 TCTGG
1 TCTGG
94463899 CAGCCATGCT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.05
27 77 0.79
28 15 0.15
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94463844 original size:54 final size:55
Alignment explanation
Indices: 94463759--94463898 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 55
94463749 GAGGAAGCGT
* * * * *
94463759 TCTGGTGGCTATGCCACAAATATTTGATCTGGTGGCTCTGCCATAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
94463813 TCTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
94463868 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
94463899 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 57 0.77
55 17 0.23
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:94467897 original size:26 final size:26
Alignment explanation
Indices: 94467860--94467995 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
94467850 TGATACAAAT
* *
94467860 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94467886 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
94467912 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94467938 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94467964 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
94467990 TGATAA
1 TGATAA
94467996 GAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:94469622 original size:27 final size:27
Alignment explanation
Indices: 94469581--94469696 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
94469571 GAGGAAGCGT
* *
94469581 TCTGGTGGCTATGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
94469608 TCTGGTGGCTCTGCCATAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * * *
94469635 TCTGGTGGCTTTACCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
94469662 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
94469690 TCTGGTG
1 TCTGGTG
94469697 ACTCAGTCAC
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 67 0.91
28 7 0.09
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:94469710 original size:27 final size:26
Alignment explanation
Indices: 94469648--94469720 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 26
94469638 GGTGGCTTTA
* *
94469648 CCACATATATCTGTTCTGGTGGCTCTG
1 CCACAT-TATCTGTTCTGGTGACTCAG
94469675 CCACGATTATCTGTATCTGGTGACTCAG
1 CCAC-ATTATCTGT-TCTGGTGACTCAG
*
94469703 TCACATTATCTGTTCTGG
1 CCACATTATCTGTTCTGG
94469721 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.12
27 20 0.49
28 16 0.39
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
CCACATTATCTGTTCTGGTGACTCAG
Found at i:94469713 original size:54 final size:54
Alignment explanation
Indices: 94469594--94469720 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
94469584 GGTGGCTATG
* * * * * *
94469594 CCACAAATATTTGATCTGGTGGCTCTGCCATAAATATCTGATCTGGTGGCTTTA
1 CCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTTCA
* *
94469648 CCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGAC-TCA
1 CCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTTCA
*
94469702 GTCACAT-TATCTGTTCTGG
1 -CCACATATATCTGTTCTGG
94469721 CAGCCATGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 48 0.77
55 14 0.23
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (54 bp):
CCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTTCA
Found at i:94470921 original size:18 final size:18
Alignment explanation
Indices: 94470875--94470910 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94470865 AGGAAAAACA
94470875 ACCATATAAGCAACTAAT
1 ACCATATAAGCAACTAAT
94470893 ACCATATAAGCAACTAAT
1 ACCATATAAGCAACTAAT
94470911 GCTTAGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (18 bp):
ACCATATAAGCAACTAAT
Found at i:94478686 original size:7 final size:7
Alignment explanation
Indices: 94478674--94478723 Score: 73
Period size: 7 Copynumber: 7.0 Consensus size: 7
94478664 AATCTAAATC
94478674 AAACCCT
1 AAACCCT
94478681 AAACCCT
1 AAACCCT
*
94478688 AAACTCT
1 AAACCCT
94478695 AAACCCT
1 AAACCCT
*
94478702 AAAGCCT
1 AAACCCT
94478709 AAAACCCT
1 -AAACCCT
94478717 AAACCCT
1 AAACCCT
94478724 GAAGAATATC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:94478699 original size:21 final size:21
Alignment explanation
Indices: 94478667--94478723 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
94478657 GCCTAAGAAT
94478667 CTAAA-TC-AAACCCTAAACC
1 CTAAACTCTAAACCCTAAACC
*
94478686 CTAAACTCTAAACCCTAAAGC
1 CTAAACTCTAAACCCTAAACC
*
94478707 CTAAAACCCTAAACCCT
1 CT-AAACTCTAAACCCT
94478724 GAAGAATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 2 0.06
21 13 0.39
22 13 0.39
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.18
Consensus pattern (21 bp):
CTAAACTCTAAACCCTAAACC
Found at i:94479895 original size:31 final size:32
Alignment explanation
Indices: 94479854--94479919 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
94479844 TTTAAATTAA
*
94479854 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
94479885 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
94479919 T
1 T
94479920 ATTTAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:94482820 original size:61 final size:62
Alignment explanation
Indices: 94482687--94482821 Score: 143
Period size: 60 Copynumber: 2.2 Consensus size: 62
94482677 ACTGGGCGTA
* * * *
94482687 AGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATTTGGGCCAT
1 AGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGACCATATCAATATCAATCTAGGCCAT
* * * * *
94482749 AGCCC-CTTACAATATCAGAG-TATACTGGGCC-TAGACCATATCAGTGTCAATCTAGGCCGT
1 AGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGACCATATCAATATCAATCTAGGCCAT
94482809 AGCCCTATTACAA
1 AGCCCTATTACAA
94482822 GTCGAGATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
60 29 0.48
61 24 0.40
62 7 0.12
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (62 bp):
AGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGACCATATCAATATCAATCTAGGCCAT
Found at i:94482885 original size:19 final size:20
Alignment explanation
Indices: 94482842--94482887 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
94482832 GTTGGGTCTT
94482842 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
94482862 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
94482881 GCCCATA
1 GCCCATA
94482888 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:94484682 original size:104 final size:104
Alignment explanation
Indices: 94484564--94484772 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 104
94484554 CTTAAGCTCT
94484564 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
1 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
94484629 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
66 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
*
94484668 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACATGCTTACCTTGTGACTTGAAC
1 ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
94484733 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
66 TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
94484772 A
1 A
94484773 CCTAGGTGGC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.34, C:0.35, G:0.11, T:0.20
Consensus pattern (104 bp):
ATCACATGCCCGGCACATGCACACATAAAATAAAAGTAACAACACGCTTACCTTGTGACTTGAAC
TCTGGCTCCCCCTAAACATCCACACGTCACTCCCCAAAC
Found at i:94485182 original size:46 final size:46
Alignment explanation
Indices: 94485119--94485341 Score: 331
Period size: 46 Copynumber: 4.8 Consensus size: 46
94485109 GCTCTCTGAT
** *
94485119 ATGAAATGTCTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
94485165 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
94485211 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
94485257 ATGAAATGAGCAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
94485302 AAGAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCA
94485342 TCATGTCGAA
Statistics
Matches: 164, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 5 0.03
46 159 0.97
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:94485487 original size:26 final size:26
Alignment explanation
Indices: 94485430--94485524 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 26
94485420 TCAAATGATG
* *
94485430 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAATGGTTATACAA
94485456 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTGTATGAAATGGTTATACAA
** * *
94485480 TAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTGTAT-GAAATGGT-TATACAA
*
94485509 AATAGTTGTATGAAAT
1 AATGGTTGTATGAAAT
94485525 AATTAAAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (26 bp):
AATGGTTGTATGAAATGGTTATACAA
Found at i:94485525 original size:26 final size:24
Alignment explanation
Indices: 94485451--94485533 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 24
94485441 GAATTGGTTA
*
94485451 TACAAAATGGTTGTATGAAATGTT
1 TACAAAATGGTTGTATGAAATATT
**
94485475 TACAATAATTGGTCATATGGAAATATAT
1 TACAA-AA-TGGTTGTAT-GAAATAT-T
* *
94485503 GTACAAAATAGTTGTATGAAATAAT
1 -TACAAAATGGTTGTATGAAATATT
94485528 TA-AAAA
1 TACAAAA
94485534 GATAGATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.09
24 7 0.15
25 3 0.06
26 13 0.28
27 12 0.26
28 3 0.06
29 5 0.11
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.34
Consensus pattern (24 bp):
TACAAAATGGTTGTATGAAATATT
Found at i:94487718 original size:5 final size:5
Alignment explanation
Indices: 94487689--94487738 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
94487679 TATAAATTTA
* * *
94487689 ATTAT GTTAA ATTAT AATA- ATTAT ATTAT AATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
94487739 GAAATAAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:94489070 original size:21 final size:21
Alignment explanation
Indices: 94489044--94489150 Score: 110
Period size: 21 Copynumber: 5.1 Consensus size: 21
94489034 GGCTTTGCCG
94489044 ATCAGGCACTTTCTGTGTCGT
1 ATCAGGCACTTTCTGTGTCGT
*
94489065 ATCAGGCAC-CTCGTGTGTCGT
1 ATCAGGCACTTTC-TGTGTCGT
* * * *
94489086 TTCAAGCACTTTATGTGTCGC
1 ATCAGGCACTTTCTGTGTCGT
*
94489107 ATCAGGCAC-CTCGTGTGTCGT
1 ATCAGGCACTTTC-TGTGTCGT
* *
94489128 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTCTGTGTCGT
94489149 AT
1 AT
94489151 ATTGCTTTTG
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTCTGTGTCGT
Found at i:94489111 original size:42 final size:42
Alignment explanation
Indices: 94489049--94489147 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
94489039 TGCCGATCAG
* *
94489049 GCACTTTCTGTGTCGTATCAGGCACCTCGTGTGTCGTTTCAA
1 GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAA
*
94489091 GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAG
1 GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAA
94489133 GCACTTTATGTGTCG
1 GCACTTTATGTGTCG
94489148 TATATTGCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.35
Consensus pattern (42 bp):
GCACTTTATGTGTCGCATCAGGCACCTCGTGTGTCGTTTCAA
Found at i:94502648 original size:24 final size:24
Alignment explanation
Indices: 94502615--94502681 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
94502605 TACATCATAG
94502615 AATACGCCACAAAGGCAATTACAA
1 AATACGCCACAAAGGCAATTACAA
* * * *
94502639 AATACACCACAGAGGCATTTACAG
1 AATACGCCACAAAGGCAATTACAA
94502663 AATACGCCACAAAGGCAAT
1 AATACGCCACAAAGGCAAT
94502682 CATAGATAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.25, G:0.15, T:0.13
Consensus pattern (24 bp):
AATACGCCACAAAGGCAATTACAA
Found at i:94505599 original size:60 final size:60
Alignment explanation
Indices: 94505533--94505653 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
94505523 AAAACGCACT
94505533 TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
1 TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
*
94505593 TTGAATCACTCAATTTCGAGTCTGAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
1 TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
94505653 T
1 T
94505654 GAGCAGAATC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (60 bp):
TTGAATCACTCAATTTCGAGTCTAAAAGCTTAAGTTATGATCATTTTACTGAAGACTATG
Found at i:94509912 original size:21 final size:21
Alignment explanation
Indices: 94509865--94509912 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
94509855 TTTGGTTTTG
*
94509865 GATTTAGAGTTTGAGGTTTAA
1 GATTTAGAGTTTGAGGTTGAA
* *
94509886 GGTTTAGAGTTTGGGGTCTGAA
1 GATTTAGAGTTTGAGGT-TGAA
94509908 -ATTTA
1 GATTTA
94509913 ATATTTAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.42
Consensus pattern (21 bp):
GATTTAGAGTTTGAGGTTGAA
Found at i:94510723 original size:23 final size:23
Alignment explanation
Indices: 94510674--94510743 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
94510664 AAAATGTAAA
* *
94510674 AAAATTATATATAATAATTATAG
1 AAAATTAAAAATAATAATTATAG
* * *
94510697 AAAATTAAAAATAATATTTTTAT
1 AAAATTAAAAATAATAATTATAG
*
94510720 AAAATTTTAAAATATATAATTATA
1 AAAA-TTAAAAATA-ATAATTATA
94510744 AATTTTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 22 0.59
24 8 0.22
25 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
AAAATTAAAAATAATAATTATAG
Found at i:94510744 original size:23 final size:23
Alignment explanation
Indices: 94510682--94510750 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
94510672 AAAAAATTAT
* *
94510682 ATATAATAATTATAGAAAATTAAAA
1 ATAT-ATAATTATA-AAATTTTAAA
**
94510707 ATAATATTTTTATAAAATTTTAAA
1 AT-ATATAATTATAAAATTTTAAA
*
94510731 ATATATAATTATAAATTTTT
1 ATATATAATTATAAAATTTT
94510751 TTTATTTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 15 0.42
24 10 0.28
25 9 0.25
26 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
ATATATAATTATAAAATTTTAAA
Found at i:94511842 original size:52 final size:52
Alignment explanation
Indices: 94511764--94511866 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
94511754 TTTCTCATTG
94511764 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAAA
1 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAAA
*
94511816 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATGTGATGACTAA
1 ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAA
94511867 CCATTTACAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (52 bp):
ATGATAAACTTTGTTTCTGTAATGCCATACTGCTCATAATATGATGACTAAA
Found at i:94518350 original size:27 final size:27
Alignment explanation
Indices: 94518320--94518383 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
94518310 GGTACTGTAT
94518320 TGGTAGCTTTGCCACATATACT-ATCAC
1 TGGTAGCTTTGCCACATATACTAAT-AC
* *
94518347 TGGTGGCTTTGCCACATATATTAATAC
1 TGGTAGCTTTGCCACATATACTAATAC
*
94518374 TGGCAGCTTT
1 TGGTAGCTTT
94518384 ACTGTGTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
TGGTAGCTTTGCCACATATACTAATAC
Found at i:94520892 original size:73 final size:73
Alignment explanation
Indices: 94520805--94520944 Score: 262
Period size: 73 Copynumber: 1.9 Consensus size: 73
94520795 TCAGGGCATC
* *
94520805 GATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCTATTTCATTCCCAACCAAATTT
1 GATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAATTT
94520870 TGGGTATT
66 TGGGTATT
94520878 GATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAATTT
1 GATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAATTT
94520943 TG
66 TG
94520945 ATTCAAAAGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (73 bp):
GATACCTTAGTACCAAAATGATCAAAAACTTCCATTTAGTGCCCATTTCATGCCCAACCAAATTT
TGGGTATT
Found at i:94521784 original size:66 final size:65
Alignment explanation
Indices: 94521672--94521833 Score: 234
Period size: 66 Copynumber: 2.4 Consensus size: 65
94521662 CTTATCGATA
* * * * * *
94521672 TATTTGGCACCCAGTGTCTCATCAGATATATCGAAGTAATTTAATTGCACCCAACGCTGATTGAT
1 TATTTGGCACCCAGTG-CTCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGAT
94521737 G
65 G
*
94521738 TATTTGGCACCAAGTGCATCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGAT
1 TATTTGGCACCCAGTGC-TCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGAT
94521803 G
65 G
94521804 TATTTGGCACCCAGTGCCTCATCGGATAAA
1 TATTTGGCACCCAGTG-CTCATCGGATAAA
94521834 CTGAAATTAT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
65 1 0.01
66 84 0.98
67 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
TATTTGGCACCCAGTGCTCATCGGATAAATCGAAGTAAGTCAATTGCACCCAACACTCATTGATG
Found at i:94521850 original size:29 final size:29
Alignment explanation
Indices: 94521817--94521873 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
94521807 TTGGCACCCA
94521817 GTGCCTCATCGGA-TAAACTGAAATTATTG
1 GTGCCTCAT-GGATTAAACTGAAATTATTG
* *
94521846 GTGCCTCATTGATTAAACTGAAGTTATT
1 GTGCCTCATGGATTAAACTGAAATTATT
94521874 CAATTACACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (29 bp):
GTGCCTCATGGATTAAACTGAAATTATTG
Found at i:94524035 original size:13 final size:14
Alignment explanation
Indices: 94524019--94524060 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
94524009 TTTCAATTTT
94524019 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
94524032 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
94524047 ATTTTAAATAATAT
1 ATTTT-AATAATAT
94524061 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:94524045 original size:16 final size:16
Alignment explanation
Indices: 94524023--94524059 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
94524013 AATTTTATTT
94524023 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
94524040 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
94524055 TAATA
1 TAATA
94524060 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:94524112 original size:15 final size:15
Alignment explanation
Indices: 94524092--94524148 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
94524082 ATTCAACATT
94524092 AATATTTTAATAATA
1 AATATTTTAATAATA
*
94524107 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
94524126 AATATATTAATAATA
1 AATATTTTAATAATA
*
94524141 AATGTTTT
1 AATATTTT
94524149 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:94525744 original size:21 final size:21
Alignment explanation
Indices: 94525718--94525770 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
94525708 AACAGCGGTG
* *
94525718 GCGGTGAGATTGGTTACTGTA
1 GCGGTGAGATTGGATACTATA
94525739 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTGGATACTATA
94525760 GCGGTGAGATT
1 GCGGTGAGATT
94525771 AGAAACAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.09, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTATA
Found at i:94527819 original size:32 final size:32
Alignment explanation
Indices: 94527780--94527940 Score: 241
Period size: 32 Copynumber: 5.0 Consensus size: 32
94527770 CATAAAAAAT
* *
94527780 ATCATACATTAGGTTTACCTATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
94527812 ATCATACATTAGTTTTGCATATAAAAAAGTAT
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
94527844 ATCATACATTAGGTTCACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
94527876 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
94527908 ATCATACATTAGTTTTACATATAAAAAAAGTAG
1 ATCATACATTAGTTTTACATAT-AAAAAAGTAG
94527941 CATAGTTATA
Statistics
Matches: 114, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
32 105 0.92
33 9 0.08
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:94527851 original size:64 final size:64
Alignment explanation
Indices: 94527778--94527940 Score: 272
Period size: 64 Copynumber: 2.5 Consensus size: 64
94527768 AACATAAAAA
*
94527778 ATATCATACATTAGGTTTACCTATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
94527842 ATATCATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCATATGAAAAAGT
1 ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
* *
94527906 AGATCATACATTAGTTTTACATATAAAAAAAGTAG
1 ATATCATACATTAGGTTTACATAT-AAAAAAGTAG
94527941 CATAGTTATA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 82 0.89
65 10 0.11
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (64 bp):
ATATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGT
Found at i:94532711 original size:21 final size:21
Alignment explanation
Indices: 94532685--94532739 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
94532675 ACAGCGGTGG
*
94532685 CGGTGAAATTAGTTACTGTAA
1 CGGTGAAATTAGATACTGTAA
* *
94532706 CGGTGAGATTAGATACTGTAG
1 CGGTGAAATTAGATACTGTAA
* *
94532727 CAGTGAGATTAGA
1 CGGTGAAATTAGA
94532740 AACAATAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (21 bp):
CGGTGAAATTAGATACTGTAA
Found at i:94533042 original size:14 final size:14
Alignment explanation
Indices: 94533011--94533050 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
94533001 TAGAAAAATA
94533011 ATAAATA-TTTAAT
1 ATAAATATTTTAAT
*
94533024 A-AAATATTTTATT
1 ATAAATATTTTAAT
94533037 ATAAATATTTTAAT
1 ATAAATATTTTAAT
94533051 CAATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAAATATTTTAAT
Found at i:94534570 original size:21 final size:21
Alignment explanation
Indices: 94534553--94534606 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
94534543 AAGATTATTA
94534553 TTAAAAATAATTTAATTATAT
1 TTAAAAATAATTTAATTATAT
* * *
94534574 TTTAATATAATTTAATAATAT
1 TTAAAAATAATTTAATTATAT
* *
94534595 TTTAATATAATT
1 TTAAAAATAATT
94534607 ATTTTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAAAATAATTTAATTATAT
Found at i:94534601 original size:11 final size:11
Alignment explanation
Indices: 94534548--94534601 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
94534538 TTAATAAGAT
*
94534548 TATTATTAAAAA
1 TATT-TTAATAA
* *
94534560 TAATTTAATTA
1 TATTTTAATAA
94534571 TATTTTAAT-A
1 TATTTTAATAA
*
94534581 TAATTTAATAA
1 TATTTTAATAA
94534592 TATTTTAATA
1 TATTTTAATA
94534602 TAATTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
10 9 0.26
11 23 0.66
12 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:94537661 original size:31 final size:31
Alignment explanation
Indices: 94537594--94537662 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
94537584 AACCATGTGA
* *
94537594 CTAAAATGAGAATAGTTTTTAACAATAGTGC
1 CTAAAATGAAAATAATTTTTAACAATAGTGC
* * ** *
94537625 TTAAAATGAAAATAATTTTTGACTGTGGTGC
1 CTAAAATGAAAATAATTTTTAACAATAGTGC
94537656 CTAAAAT
1 CTAAAAT
94537663 AGAATTTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.35
Consensus pattern (31 bp):
CTAAAATGAAAATAATTTTTAACAATAGTGC
Found at i:94542843 original size:17 final size:17
Alignment explanation
Indices: 94542821--94542853 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
94542811 AAAACACATC
94542821 AATATGT-TATTATATAT
1 AATATGTGT-TTATATAT
94542838 AATATGTGTTTATATA
1 AATATGTGTTTATATA
94542854 AAACTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
AATATGTGTTTATATAT
Found at i:94550369 original size:21 final size:21
Alignment explanation
Indices: 94550345--94550384 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94550335 TCAATCCTCA
* *
94550345 ATTTCCAATTTTCTATTTTCT
1 ATTTCCAATCTTCAATTTTCT
*
94550366 ATTTTCAATCTTCAATTTT
1 ATTTCCAATCTTCAATTTT
94550385 TAATCCTCAA
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:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTCCAATCTTCAATTTTCT
Found at i:94555127 original size:3 final size:3
Alignment explanation
Indices: 94555119--94555148 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
94555109 TTTTGCCCTC
94555119 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
94555149 TCATTATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:94568191 original size:44 final size:44
Alignment explanation
Indices: 94568142--94568719 Score: 212
Period size: 44 Copynumber: 12.7 Consensus size: 44
94568132 CTTATCTCTT
*
94568142 TGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAAATCCTATATCCC
1 TGAAGTTGCAGTGGAG-TAGATTAAAGCTACAAATCCTATATCCC
* * * *
94568186 TGAAGTTGCAGTGGATTAGATTAAAGATACAATTCTTATA-CCTC
1 TGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCCTATATCC-C
** * * *
94568230 TGAAGTTGGGGTGG-GTTAGAATGAAGCTACAACAACAAATCT-TATCTCTC
1 TGAAGTTGCAGTGGAG-TAGATTAAAGCTACAA-ATC----CTATATC-C-C
* * * *
94568280 TGAAGTTGTAGTGGAGTAGACTGAAGCTACAAAT-CTCATCTCCC
1 TGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCCT-ATATCCC
* * * * * * *
94568324 TAAAGTTACAATGGAGTAGATTGAAA-CAACAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGTAGATT-AAAGCTACAAATCCTATATCCC
* * * *
94568368 TGAAGTTGTAGTGGAGTAAGA-CAAAGCTACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGT-AGATTAAAGCTACAAATCCTATATCCC
** * ** * * * * *
94568412 TGAAGTTATAGTGG-GTTTGATTGAATTTATTATAGTAAAACTTATCTCCT
1 TGAAGTTGCAGTGGAG-TAGATT-AA---A-GCTA-CAAATCCTATATCCC
* * * *
94568462 TCAAGTTGCAGTGGAGCGAGA-TGAAGTTACAAATCCTATATCCC
1 TGAAGTTGCAGTGGAG-TAGATTAAAGCTACAAATCCTATATCCC
* *
94568506 TGAAGTTGCAGTGGA-TCAGATTAAAGCTACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGT-AGATTAAAGCTACAAATCCTATATCCC
** * * * * * *
94568550 TGAAGTTGTGGTGCATTAGAATGAATCTACAA-CAACAAATCTTATCTCCT
1 TGAAGTTGCAGTG---GAGTA-G-AT-TA-AAGCTACAAATCCTATATCCC
* * * * * *
94568600 TAAAGTTGTAGTGAAGTAGATTGAATCTACAAAT-CTCATCTCCC
1 TGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCCT-ATATCCC
* * *
94568644 TAAAGTTGCAGTGGAGTAGATTGAAA-CTACAATTCCTATACCCC
1 TGAAGTTGCAGTGGAGTAGATT-AAAGCTACAAATCCTATATCCC
* * * *
94568688 TAAAGTTGTAGTGG-GTTAGAATAAGGCTACAA
1 TGAAGTTGCAGTGGAG-TAGATTAAAGCTACAA
94568720 CAACAAATCT
Statistics
Matches: 394, Mismatches: 98, Indels: 84
0.68 0.17 0.15
Matches are distributed among these distances:
43 20 0.05
44 253 0.64
45 18 0.05
46 5 0.01
47 5 0.01
48 4 0.01
49 8 0.02
50 75 0.19
51 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCCTATATCCC
Found at i:94568305 original size:50 final size:50
Alignment explanation
Indices: 94568214--94568311 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
94568204 GATTAAAGAT
* *
94568214 ACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACA
1 ACAAATCTTATACCTCTGAAGTTGGAGTGGGTTAGAATGAAGCTACAACA
* *
94568264 ACAAATCTTAT-CTCTCTGAAGTTGTAGTGGAG-TAGACTGAAGCTACAA
1 ACAAATCTTATAC-CTCTGAAGTTGGAGTGG-GTTAGAATGAAGCTACAA
94568312 ATCTCATCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 40 0.95
51 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (50 bp):
ACAAATCTTATACCTCTGAAGTTGGAGTGGGTTAGAATGAAGCTACAACA
Found at i:94568324 original size:138 final size:138
Alignment explanation
Indices: 94568127--94568375 Score: 326
Period size: 138 Copynumber: 1.8 Consensus size: 138
94568117 TTTATTATAG
* *
94568127 CAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTGAAGT
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTAAAGT
* * * * *
94568192 TGCAGTGGATTAGATT-AAAGATACAATTCTTAT-ACCTCTGAAGTTGGGGTGGGTTAGAATGAA
66 TACAATGGAGTAGATTGAAACA-ACAAATCTTATCACCT-TGAAGTTGGGGTGGGTTAGAATGAA
94568255 GCTACAACAA
129 GCTACAACAA
* * * *
94568265 CAAATCTTATCTCTCTGAAGTTGTAGTGGAG-TAGACTGAAGCTACAAAT-CTCATCTCCCTAAA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAAATCCT-ATATCCCTAAA
*
94568328 GTTACAATGGAGTAGATTGAAACAACAAATCTTATCTCCTTGAAGTTG
64 GTTACAATGGAGTAGATTGAAACAACAAATCTTATCACCTTGAAGTTG
94568376 TAGTGGAGTA
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
137 5 0.05
138 83 0.87
139 7 0.07
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (138 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTAAAGT
TACAATGGAGTAGATTGAAACAACAAATCTTATCACCTTGAAGTTGGGGTGGGTTAGAATGAAGC
TACAACAA
Found at i:94568459 original size:138 final size:138
Alignment explanation
Indices: 94568308--94568747 Score: 449
Period size: 138 Copynumber: 3.2 Consensus size: 138
94568298 GACTGAAGCT
* * * * * * *
94568308 ACAAATCTCATCTCCCTAAAGTTACAATGGAGTAGATTGAAACAACAAATCTTATCTCCTTGAAG
1 ACAAAACTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAACTACAAATCTTATCTCCCTGAAG
* * * *
94568373 TTGTAGTGGAGTAAGA-CAAAGCTACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAA
66 TTGCAGTGGAGT-AGATCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGAA
* ** *
94568437 TTTATTATA
130 TCTACAACA
** * * ** * *
94568446 GTAAAACTTATCTCCTTCAAGTTGCAGTGGAGCGAGA-TGAAGTTACAAATCCTATATCCCTGAA
1 ACAAAACTTATCTCCTTAAAGTTGCAGTGGAG-TAGATTGAAACTACAAATCTTATCTCCCTGAA
* * **
94568510 GTTGCAGTGGA-TCAGATTAAAGCTACAATTCCTATACCCCTGAAGTTGTGGTGCATTAGAATGA
65 GTTGCAGTGGAGT-AGATCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGA
94568574 ATCTACAACA
129 ATCTACAACA
* * * * * *
94568584 ACAAATCTTATCTCCTTAAAGTTGTAGTGAAGTAGATTGAATCTACAAATCTCATCTCCCTAAAG
1 ACAAAACTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAACTACAAATCTTATCTCCCTGAAG
* *
94568649 TTGCAGTGGAGTAGATTGAAA-CTACAATTCCTATACCCCTAAAGTTGTAGTGGGTTAGAAT-AA
66 TTGCAGTGGAGTAGA-TCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGAA
*
94568712 GGCTACAACA
130 -TCTACAACA
* * *
94568722 ACAAATCTTATCTCTTTGAAGTTGCA
1 ACAAAACTTATCTCCTTAAAGTTGCA
94568748 ATAGAGCAAG
Statistics
Matches: 246, Mismatches: 50, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
137 9 0.04
138 229 0.93
139 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (138 bp):
ACAAAACTTATCTCCTTAAAGTTGCAGTGGAGTAGATTGAAACTACAAATCTTATCTCCCTGAAG
TTGCAGTGGAGTAGATCAAAGCTACAATTCCTATACCCCTGAAGTTGTAGTGGGTTAGAATGAAT
CTACAACA
Found at i:94568556 original size:182 final size:182
Alignment explanation
Indices: 94568142--94568558 Score: 409
Period size: 182 Copynumber: 2.3 Consensus size: 182
94568132 CTTATCTCTT
* * * *
94568142 TGAAGTTGCAGTGGAGCAAGA-TAAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATTAGA
1 TGAAGTTGCAGTGGATC-AGATTAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGATAAGA
* * * * * *
94568206 TTAAAGATACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACAACAAATC
65 TCAAAGATACAATTCCTATACCCCTGAAGTTAGAGTGGGTTAGAATGAAGCTACAACAACAAAAC
* * * *
94568271 TTATCTCTCTGAAGTTGTAGTGGAGTAGACTGAAGCTACAAATCTCATCTCCC
130 TTATCTCTCTCAAGTTGCAGTGGAGGAGACTGAAGCTACAAATCTCATATCCC
* * * * * *
94568324 TAAAGTTACAATGGAGT-AGATTGAAA-CAACAAATCTTAT-CTCCTTGAAGTTGTAGTGGAGTA
1 TGAAGTTGCAGTGGA-TCAGATT-AAAGCTACAAATCCTATAC-CCCTGAAGTTGTAGTGGA-TA
* * * * ** ** * **
94568386 AGA-CAAAGCTACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAATTTATTATAGTAA
62 AGATCAAAGATACAATTCCTATACCCCTGAAGTTAGAGTGGGTTAGAATGAAGCTACAACAACAA
*
94568450 AACTTATCTC-CTTCAAGTTGCAGTGGAGCGAGA-TGAAGTTACAAATC-CTATATCCC
127 AACTTATCTCTC-TCAAGTTGCAGTGGAG-GAGACTGAAGCTACAAATCTC-ATATCCC
*
94568506 TGAAGTTGCAGTGGATCAGATTAAAGCTACAATTCCTATACCCCTGAAGTTGT
1 TGAAGTTGCAGTGGATCAGATTAAAGCTACAAATCCTATACCCCTGAAGTTGT
94568559 GGTGCATTAG
Statistics
Matches: 185, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
181 9 0.05
182 165 0.89
183 11 0.06
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (182 bp):
TGAAGTTGCAGTGGATCAGATTAAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGATAAGAT
CAAAGATACAATTCCTATACCCCTGAAGTTAGAGTGGGTTAGAATGAAGCTACAACAACAAAACT
TATCTCTCTCAAGTTGCAGTGGAGGAGACTGAAGCTACAAATCTCATATCCC
Found at i:94568719 original size:320 final size:320
Alignment explanation
Indices: 94568076--94568701 Score: 959
Period size: 320 Copynumber: 2.0 Consensus size: 320
94568066 CAGTGACACC
* *
94568076 ACAATTCCTATACCCCTAAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAATCTTATCTCT
1 ACAATTCCTATACCCCTAAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
* *
94568141 TTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATTAGA
66 TTCAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
* * **
94568206 TTAAAGATACAATTCTTATACCTCTGAAGTTGGGGTGGGTTAGAATGAAGCTACAACAACAAATC
131 TTAAAGATACAATTCCTATACCCCTGAAGTTGGGGTGCATTAGAATGAAGCTACAACAACAAATC
* *
94568271 TTATCTCTCTGAAGTTGTAGTGGAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
196 TTATCTCTCTAAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
* * *
94568336 GGAGTAGATTGAAACAACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGACAAAGCT
261 GGAGTAGATTGAAACAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTAAGACAAAGCT
* * * *
94568396 ACAATTCCTATACCCCTGAAGTTATAGTGGGTTTGATTGAATTTATTATAGTAAAACTTATCTCC
1 ACAATTCCTATACCCCTAAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
* * *
94568461 TTCAAGTTGCAGTGGAGCGAGATGAAGTTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
66 TTCAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
* * *
94568526 TTAAAGCTACAATTCCTATACCCCTGAAGTTGTGGTGCATTAGAATGAATCTACAACAACAAATC
131 TTAAAGATACAATTCCTATACCCCTGAAGTTGGGGTGCATTAGAATGAAGCTACAACAACAAATC
* * * *
94568591 TTATCTC-CTTAAAGTTGTAGTGAAGTAGATTGAATCTACAAATCTCATCTCCCTAAAGTTGCAG
196 TTATCTCTC-TAAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAA
* *
94568655 TGGAGTAGATTGAAACTACAATTCCTATAC-CCCTAAAGTTGTAGTGG
260 TGGAGTAGATTGAAACAACAAATCCTAT-CTCCCTAAAGTTGTAGTGG
94568702 GTTAGAATAA
Statistics
Matches: 275, Mismatches: 29, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
319 1 0.00
320 273 0.99
321 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (320 bp):
ACAATTCCTATACCCCTAAAGTTACAGTGGGTTAGATTGAATTTATTATAGCAAAACTTATCTCC
TTCAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAGA
TTAAAGATACAATTCCTATACCCCTGAAGTTGGGGTGCATTAGAATGAAGCTACAACAACAAATC
TTATCTCTCTAAAGTTGTAGTGAAGTAGACTGAAGCTACAAATCTCATCTCCCTAAAGTTACAAT
GGAGTAGATTGAAACAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTAAGACAAAGCT
Found at i:94571716 original size:16 final size:17
Alignment explanation
Indices: 94571697--94571730 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94571687 ATAAAATCAA
94571697 TTAA-AAATTAATATTT
1 TTAATAAATTAATATTT
*
94571713 TTAATAATTTAATATTT
1 TTAATAAATTAATATTT
94571730 T
1 T
94571731 ACACATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATAAATTAATATTT
Found at i:94579801 original size:40 final size:40
Alignment explanation
Indices: 94579697--94579791 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
94579687 TATCATAGAT
* * *
94579697 GGTACCATTAGGAGTTGTACCATGGATGCTACCATGGAAG
1 GGTACCATTAGGAGTTGTAACATGGACGATACCATGGAAG
* * * * *
94579737 GGTACCATTAAGAATTGTAACATGGGCGATACCGTGGAGG
1 GGTACCATTAGGAGTTGTAACATGGACGATACCATGGAAG
94579777 GGTACCATTAGGAGT
1 GGTACCATTAGGAGT
94579792 CATATCATGG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (40 bp):
GGTACCATTAGGAGTTGTAACATGGACGATACCATGGAAG
Found at i:94580442 original size:67 final size:62
Alignment explanation
Indices: 94580336--94580465 Score: 163
Period size: 67 Copynumber: 2.0 Consensus size: 62
94580326 AATATTAAAT
* *
94580336 TAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTTATTAAAATAATA
1 TAATATAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAA-C-TACTAAAATAATA
* *
94580400 TAATATAATGTTTATCTACAAGATAAACATTTA-ATTTAATTTAATATTAAACTACTAAAATAAT
1 TAATATAATATTTA--T-CAAGATAAACA-TTAGATTAAATTTAATATTAAACTACTAAAATAAT
94580464 A
62 A
94580465 T
1 T
94580466 TATTTTTGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
64 13 0.22
65 13 0.22
66 2 0.03
67 27 0.47
68 3 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (62 bp):
TAATATAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAACTACTAAAATAATA
Found at i:94584130 original size:42 final size:46
Alignment explanation
Indices: 94584065--94584167 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 46
94584055 ACTAATTATG
* *
94584065 GGCACTTGGTGTGC-AGAATCGAGATA-ATTT-C-AGATATATATT
1 GGCACTTAGTGTGCGAGAACCGAGATAGATTTACTAGATATATATT
* *
94584107 GGCACTTAGTGTGCGAG-ACCGAGATAGTTTTAGCTATATATATATT
1 GGCACTTAGTGTGCGAGAACCGAGATAGATTTA-CTAGATATATATT
94584153 GGCACTTAGTGTGCG
1 GGCACTTAGTGTGCG
94584168 TGATTGAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
42 21 0.40
43 5 0.10
45 1 0.02
46 25 0.48
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (46 bp):
GGCACTTAGTGTGCGAGAACCGAGATAGATTTACTAGATATATATT
Found at i:94584190 original size:46 final size:49
Alignment explanation
Indices: 94584098--94584233 Score: 145
Period size: 52 Copynumber: 2.8 Consensus size: 49
94584088 ATAATTTCAG
* ***
94584098 ATATATATTGGCACTTAGTGTGCGAGACCGAGATAG-TTTTAGC-T-AT
1 ATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCTCCGAGCATAAT
* *
94584144 ATATATATTGGCACTTAGTGTGCGTGATTGAGATAGCTCCGA-CTATATAAAT
1 ATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCTCCGAGC---AT-AAT
*
94584196 ATATATATTGGCACTTAGTGTGCGAGATCGATATAGCT
1 ATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCT
94584234 TCGGTTGTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
46 34 0.46
47 2 0.03
50 1 0.01
52 37 0.50
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (49 bp):
ATATATATTGGCACTTAGTGTGCGAGATCGAGATAGCTCCGAGCATAAT
Found at i:94584446 original size:24 final size:24
Alignment explanation
Indices: 94584419--94584467 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
94584409 CTTGTGAATG
94584419 AAATTGTAATAAGATGATGATTCC
1 AAATTGTAATAAGATGATGATTCC
*
94584443 AAATTGTAATAGGATGATGATTCC
1 AAATTGTAATAAGATGATGATTCC
94584467 A
1 A
94584468 TATATGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
AAATTGTAATAAGATGATGATTCC
Found at i:94586132 original size:40 final size:39
Alignment explanation
Indices: 94586088--94586176 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 39
94586078 AGTTGTGTCG
94586088 TGGATGGTACTATAAAAGGGTACCATTAGGAGACATACCA
1 TGGATGGTAC-ATAAAAGGGTACCATTAGGAGACATACCA
* ** * *
94586128 TGGATGGTACGTGGAGGGGTACCATTAGGAGCCATACCA
1 TGGATGGTACATAAAAGGGTACCATTAGGAGACATACCA
*
94586167 AGGATAGGTA
1 TGGAT-GGTA
94586177 TTGTAACGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 28 0.67
40 14 0.33
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (39 bp):
TGGATGGTACATAAAAGGGTACCATTAGGAGACATACCA
Found at i:94587760 original size:19 final size:19
Alignment explanation
Indices: 94587735--94587825 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
94587725 ATAATCTTCA
94587735 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
94587754 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
94587773 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
94587790 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
94587808 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
94587826 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:94587775 original size:14 final size:15
Alignment explanation
Indices: 94587756--94587811 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
94587746 TCTTAGATGT
94587756 GATATG-CAATCTTA
1 GATATGACAATCTTA
94587770 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
94587787 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
94587805 GATATGA
1 GATATGA
94587812 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:94587805 original size:35 final size:37
Alignment explanation
Indices: 94587743--94587832 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
94587733 CAATGATATG
*
94587743 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
94587779 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
94587816 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
94587833 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 18 0.36
37 13 0.26
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:94589099 original size:25 final size:26
Alignment explanation
Indices: 94589071--94589218 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
94589061 CCTCTTTAAT
* *
94589071 AACTAGGGCA-AAGCCCTTTTCTGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
***
94589096 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
94589121 AACTGGGACATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* *
94589147 AACTAGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
94589172 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
94589198 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
94589219 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
25 53 0.49
26 55 0.51
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:94589139 original size:51 final size:50
Alignment explanation
Indices: 94589065--94589218 Score: 222
Period size: 51 Copynumber: 3.0 Consensus size: 50
94589055 GCCTAGCCTC
*
94589065 TTTAAT-AACTAGGGCA-AAGCCCTTTTCTGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACT-GGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
*
94589114 TTTAATAAACTGGGACATAAGCCCTTTTCGGTAAACTAGGGCAAAGCCCTT
1 TTTAATAAACTGGG-CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
**
94589165 TTCGATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
1 TTTAATAAACT-GGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTT
94589217 TT
1 TT
94589219 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
49 9 0.09
50 6 0.06
51 67 0.71
52 13 0.14
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (50 bp):
TTTAATAAACTGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
Found at i:94589290 original size:20 final size:20
Alignment explanation
Indices: 94589267--94589341 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
94589257 TTTAGAATTC
*
94589267 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
94589287 ATCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
94589307 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
94589327 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
94589342 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:94589296 original size:11 final size:11
Alignment explanation
Indices: 94589282--94589334 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
94589272 GTGCATTTCA
94589282 TACATATCATG
1 TACATATCATG
94589293 TACATATCA--
1 TACATATCATG
94589302 TACATATCATG
1 TACATATCATG
* *
94589313 TGCATATCATA
1 TACATATCATG
94589324 T-CA-ATCATG
1 TACATATCATG
94589333 TA
1 TA
94589335 TATCATATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 15 0.42
10 2 0.06
11 19 0.53
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:94589339 original size:9 final size:10
Alignment explanation
Indices: 94589284--94589340 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
94589274 GCATTTCATA
94589284 CATATCATGT
1 CATATCATGT
*
94589294 ACATATCAT-A
1 -CATATCATGT
94589304 CATATCATGT
1 CATATCATGT
*
94589314 GCATATCATAT
1 -CATATCATGT
94589325 CA-ATCATGT
1 CATATCATGT
94589334 -ATATCAT
1 CATATCAT
94589341 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:94593422 original size:26 final size:26
Alignment explanation
Indices: 94593393--94593567 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
94593383 GAGGAAGTGC
**
94593393 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
94593419 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * ***
94593445 GAAAGGGCTTATGCCCAAGTTTGTTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
94593471 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
94593497 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
94593523 AAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
94593548 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
94593568 ATTAAAGAGG
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
25 30 0.23
26 100 0.77
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:94593472 original size:52 final size:52
Alignment explanation
Indices: 94593393--94593567 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
94593383 GAGGAAGTGC
94593393 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* * *
94593445 GAAAGGGCTTATGCCCAAGTTTGTTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
94593497 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
94593548 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
94593568 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 10 0.09
51 23 0.20
52 82 0.71
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:94593777 original size:42 final size:42
Alignment explanation
Indices: 94593712--94593803 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
94593702 TAGTCTCCCC
* * ** *
94593712 AAATGGGCTTGCATAGATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
94593754 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
94593796 AAATGGGC
1 AAATGGGC
94593804 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:94596264 original size:54 final size:54
Alignment explanation
Indices: 94596152--94596296 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
94596142 TTACCAAAGT
* *
94596152 ACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTT
1 ACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTC
* *
94596206 ACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTC
1 ACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTC
* * ***
94596260 ACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
1 ACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
94596297 AGTAAAATTA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
ACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTC
Found at i:94596281 original size:27 final size:27
Alignment explanation
Indices: 94596151--94596296 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
94596141 ATTACCAAAG
* *
94596151 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
**
94596178 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
*
94596205 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
94596232 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * ***
94596259 CACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACTATTT
94596286 TACCCTCGATT
1 TACCCTCGATT
94596297 AGTAAAATTA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:94596290 original size:81 final size:81
Alignment explanation
Indices: 94596106--94596318 Score: 221
Period size: 81 Copynumber: 2.6 Consensus size: 81
94596096 AATACTTTAG
* * * * *
94596106 TTTACCAAATTACTGAAATGCCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATT
1 TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATT
*
94596171 ACCATTTTACCCTCGA
66 ACCATTTCACCCTCGA
* * *** * * *** *
94596187 TTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATT
**
94596252 ACTGTTTCACCCTCGA
66 ACCATTTCACCCTCGA
* *
94596268 TTTACAAAATTACTAAAATACCCTCGA-TTAGTAAAATTACCAAAATACCCT
1 TTTACAAAATTACTGAAATACCCTCGATTTA-TAAAATTACCAAAGTACCCT
94596319 AGTTTGTAAA
Statistics
Matches: 101, Mismatches: 30, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
80 3 0.03
81 98 0.97
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCGATTTATAAAATTACCAAAGTACCCTCGATTTACAGAATT
ACCATTTCACCCTCGA
Found at i:94596439 original size:81 final size:81
Alignment explanation
Indices: 94596273--94596561 Score: 334
Period size: 81 Copynumber: 3.6 Consensus size: 81
94596263 CTCGATTTAC
** ** * *
94596273 AAAATTACTAAAATACCCTCGATTAGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACTAA
1 AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* *
94596337 AATACCCCTGGTTTGT
66 AATACCACTAGTTTGT
94596353 AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
94596418 AATACCACTAGTTTGT
66 AATACCACTAGTTTGT
* * *
94596434 GAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTACA
1 AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTA-AAA-TTACC
* *
94596497 AAAATACC-CTTGACTTTCT
64 AAAATACCAC-T-AGTTTGT
* ** * * *
94596516 AAAAATTACTGAAATACCCTTGGTTTGTAAATTTACTAAAACACCC
1 -AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCC
94596562 TTGTAGGATG
Statistics
Matches: 183, Mismatches: 20, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
79 2 0.01
80 44 0.24
81 94 0.51
82 5 0.03
83 38 0.21
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCACTAGTTTGT
Found at i:94596563 original size:27 final size:27
Alignment explanation
Indices: 94596273--94596564 Score: 273
Period size: 27 Copynumber: 10.8 Consensus size: 27
94596263 CTCGATTTAC
* * * *
94596273 AAAATTACTAAAATACCCTCGATTAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
94596300 AAAATTACCAAAATACCC-TAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
94596326 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* **
94596353 AAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
94596380 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
94596407 AAAATTACCAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTGGTTTGT
* * **
94596434 GAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
94596461 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * *
94596488 AAAGTTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTG-GTTTGT
**
94596516 AAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCAAAATACCCTTGGTTTGT
* * *
94596544 AAATTTACTAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
94596565 TAGGATGAAA
Statistics
Matches: 222, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.10
27 174 0.78
28 8 0.04
29 18 0.08
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:94596625 original size:27 final size:27
Alignment explanation
Indices: 94596595--94596686 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
94596585 ACCCCTATTA
* *
94596595 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
94596622 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
94596649 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
94596676 GGTAAAATGAC
1 GGTAAAATGAC
94596687 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:94597496 original size:26 final size:26
Alignment explanation
Indices: 94597467--94597641 Score: 237
Period size: 26 Copynumber: 6.8 Consensus size: 26
94597457 GAGGAGGTGC
**
94597467 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
94597493 AAAAGGGCTTATGCACTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
94597519 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
94597545 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
94597571 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
94597597 AAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
94597622 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
94597642 ATTAAAGAGG
Statistics
Matches: 132, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 30 0.23
26 102 0.77
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:94597545 original size:52 final size:52
Alignment explanation
Indices: 94597467--94597641 Score: 291
Period size: 52 Copynumber: 3.4 Consensus size: 52
94597457 GAGGAGGTGC
* *
94597467 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCACTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
94597519 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
94597571 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
94597622 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
94597642 ATTAAAGAGG
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
50 9 0.08
51 24 0.21
52 84 0.72
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:94597845 original size:42 final size:42
Alignment explanation
Indices: 94597786--94597877 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
94597776 TAGTCTCCCC
** * *
94597786 AAATGGGCTTGCATACAT-TCATTGGTATTTCATGTGGTATTG
1 AAATGGGCTTGCATACATCT-ATTGACATTACATGTGATATTG
94597828 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
94597870 AAATGGGC
1 AAATGGGC
94597878 CTAAGGGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
Found at i:94597938 original size:31 final size:31
Alignment explanation
Indices: 94597901--94597979 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
94597891 CGTTTACAGT
* *
94597901 AAAGGCTTTGGCCTAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
94597932 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
94597963 AAAGGCTTCGGCCCAAT
1 AAAGGCTTCGGCCCAAT
94597980 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:94602216 original size:25 final size:26
Alignment explanation
Indices: 94602188--94602335 Score: 203
Period size: 26 Copynumber: 5.8 Consensus size: 26
94602178 CCTCTTTAAT
*
94602188 AACTGGGGCA-AAGCCCTTTTCTGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
***
94602213 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* *
94602238 AACTGAGACATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
94602264 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
94602289 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
94602315 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
94602336 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
25 53 0.50
26 54 0.50
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:94602256 original size:51 final size:51
Alignment explanation
Indices: 94602182--94602335 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
94602172 GCCTAGCCTC
*
94602182 TTTAAT-AACTGGGGCA-AAGCCCTTTTCTGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
* *
94602231 TTTAATAAACTGAGACATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
*
94602282 TTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
1 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTT
94602334 TT
1 TT
94602336 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 6 0.06
50 8 0.08
51 72 0.75
52 10 0.10
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (51 bp):
TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTT
Found at i:94602410 original size:20 final size:20
Alignment explanation
Indices: 94602385--94602441 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
94602375 TTATGAATTC
*
94602385 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
94602404 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
94602425 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
94602442 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:94603661 original size:22 final size:22
Alignment explanation
Indices: 94603629--94603672 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94603619 GCTGGAAAAG
*
94603629 AAAAGAGAGAAAATGGCTACACC
1 AAAAGAGAGAAAACGGC-ACACC
94603652 AAAAG-GAGAAAACGGCACACC
1 AAAAGAGAGAAAACGGCACACC
94603673 CTAGACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.52, C:0.20, G:0.23, T:0.05
Consensus pattern (22 bp):
AAAAGAGAGAAAACGGCACACC
Found at i:94609630 original size:8 final size:7
Alignment explanation
Indices: 94609616--94609655 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
94609606 GCAAAAAAAT
94609616 AAAAGAA
1 AAAAGAA
94609623 AAAGAGAA
1 AAA-AGAA
94609631 AAAA-ATA
1 AAAAGA-A
94609638 AAAAGAA
1 AAAAGAA
94609645 AAAAGAA
1 AAAAGAA
94609652 AAAA
1 AAAA
94609656 TGGAGAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 21 0.70
8 8 0.27
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (7 bp):
AAAAGAA
Done.