Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 26 of 316
Found at i:7303771 original size:43 final size:42
Alignment explanation
Indices: 7303709--7304178 Score: 199
Period size: 43 Copynumber: 10.9 Consensus size: 42
7303699 CGTCTTCGAT
*
7303709 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* * * * *
7303752 CTGTTACCCTACTGTTTAGGGGTTAAG-GCTTGTCACA-TTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTAAGATC-TGT-AAATTTAG-C
* * *
7303795 TTGTTTCCCTACTGCTTATGGGGTTTAAGATCTATAAATCTTCAGC
1 CTGTTACCCTACTGCTTA-GGGG-TTAAGATCTGTAAAT-TT-AGC
* *
7303841 CTGTTACCCTACTGTTTA-GGG-T----T-TGTAAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
* * ** * *
7303876 CTATTACCCTACTGCTTAGGGGTTTAAG-GCT-TATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTA-AAT-TTAG-C
* * * *
7303920 CTATTTCCCTACTTCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** ** ** * *
7303963 CTGTTACCCTACTGCTTAGGGGTTTGAGGCCCATCGCA-TTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGT-AAATTTAG-C
*
7304007 CTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGC
1 CTGTTACCCTACTGCTTA-GGGG-TTAAGATCTGTAAAT-TT-AGC
* * ** **** * *
7304053 CTGTTACCCTATTGCTTAGGGGGTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAG-C
* * * *
7304097 CTGTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* * * *
7304140 CTATTACCCTACTGTTTAGGGAGATAAGATCTGCAAATT
1 CTGTTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATT
7304179 CACTGATTCT
Statistics
Matches: 309, Mismatches: 87, Indels: 62
0.67 0.19 0.14
Matches are distributed among these distances:
35 18 0.06
36 5 0.02
37 6 0.02
38 2 0.01
41 3 0.01
42 22 0.07
43 93 0.30
44 82 0.27
45 33 0.11
46 43 0.14
47 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
Found at i:7303771 original size:87 final size:89
Alignment explanation
Indices: 7303672--7303861 Score: 255
Period size: 86 Copynumber: 2.2 Consensus size: 89
7303662 AGCTTGGTAT
* *
7303672 CCTACTGCTTAGGGGTTTAAGGCCCATCGTC-TTCGATCTGTTTCCCTACTGCTTA--GGGTGTT
1 CCTACTGTTTAGGGG-TTAAGGCCCATC-ACATTCGATCTGTTTCCCTACTGCTTATGGGGT-TT
*
7303734 AAGATCTGTAAAT-TT-AGCCTGTTAC
63 AAGATCTATAAATCTTCAGCCTGTTAC
*** *
7303759 CCTACTGTTTAGGGGTTAAGGCTTGTCACATTCGATTTGTTTCCCTACTGCTTATGGGGTTTAAG
1 CCTACTGTTTAGGGGTTAAGGCCCATCACATTCGATCTGTTTCCCTACTGCTTATGGGGTTTAAG
7303824 ATCTATAAATCTTCAGCCTGTTAC
66 ATCTATAAATCTTCAGCCTGTTAC
7303848 CCTACTGTTTAGGG
1 CCTACTGTTTAGGG
7303862 TTTGTAAATT
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
85 1 0.01
86 32 0.35
87 28 0.31
88 6 0.07
89 24 0.26
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (89 bp):
CCTACTGTTTAGGGGTTAAGGCCCATCACATTCGATCTGTTTCCCTACTGCTTATGGGGTTTAAG
ATCTATAAATCTTCAGCCTGTTAC
Found at i:7303898 original size:124 final size:123
Alignment explanation
Indices: 7303740--7303988 Score: 333
Period size: 124 Copynumber: 2.0 Consensus size: 123
7303730 TGTTAAGATC
* * * * * *
7303740 TGTAAATTTAGCCTGTTACCCTACTGTTTAGGGG-TTAAGGCTTGTC-ACATTCGATTTGTTTCC
1 TGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGCTTATCGAC-TTCGATCTATTTCC
* *
7303803 CTACTGCTTATGGGGTTTAAGATCTATAAATCTTCAGCCTGTTACCCTACTGTTTA-GGGTT
65 CTACTGCTTA-GGGGGTTAAGATCTATAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGTT
* *
7303864 TGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCC
1 TGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGCTTATCGACTTCGATCTATTTCCC
* *
7303929 TACTTCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTT
66 TACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTT
7303987 TG
1 TG
7303989 AGGCCCATCG
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
122 23 0.21
123 7 0.06
124 48 0.44
125 31 0.28
126 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (123 bp):
TGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGCTTATCGACTTCGATCTATTTCCC
TACTGCTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTT
Found at i:7304074 original size:90 final size:86
Alignment explanation
Indices: 7303864--7304160 Score: 396
Period size: 87 Copynumber: 3.4 Consensus size: 86
7303854 GTTTAGGGTT
* * * ** * *
7303864 TGTAAATTTAACCTATTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCG-CTTCGATCTGTTTCCC
*
7303929 TACTTCTTAGGGGGTTAAGATC
65 TACTGCTTAGGGGGTTAAGATC
*
7303951 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTGAGGCCCATCGCATTCGATCTGTTTCCC
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGC-TTCGATCTGTTTCCC
7304016 TACTGCTTAGGGGGTTTAAGATC
65 TACTGCTTAGGGGG-TTAAGATC
* * *
7304039 TGTAAATCTTCAGCCTGTTACCCTATTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTGTTTC
1 TGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCG-CTTCGATCTGTTTC
*
7304104 CCTACTGTTTAGGGGGTTAAGATC
63 CCTACTGCTTAGGGGGTTAAGATC
* * *
7304128 TGTAAATTCAACCTATTACCCTACTGTTTAGGG
1 TGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
7304161 AGATAAGATC
Statistics
Matches: 187, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
86 1 0.01
87 91 0.49
88 14 0.07
89 14 0.07
90 66 0.35
91 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (86 bp):
TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCTTCGATCTGTTTCCCT
ACTGCTTAGGGGGTTAAGATC
Found at i:7304107 original size:44 final size:44
Alignment explanation
Indices: 7303879--7304124 Score: 158
Period size: 44 Copynumber: 5.6 Consensus size: 44
7303869 ATTTAACCTA
* * * * *
7303879 TTACCCTACTGCTTAGGGGTTTAAGG-CTTATCGTCTTTGATCTA
1 TTACCCTACTGCTTAGGGGGTTAAGGTC-CATCGCCTTCGATCTG
* * * ** *** *
7303923 TTTCCCTACTTCTTAGGGGGTTAAGATCTGT-AAATTC-AGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGA-TCTG
* * * *
7303966 TTACCCTACTGCTTAGGGGTTTGAGGCCCATCGCATTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTG
* * ** *** *
7304010 TTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTC-AGCCTG
1 TTACCCTACTGCTTAGGGGG-TTAAGGTCCAT-CGCCTTCGA-TCTG
*
7304056 TTACCCTATTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTG
* *
7304100 TTTCCCTACTGTTTAGGGGGTTAAG
1 TTACCCTACTGCTTAGGGGGTTAAG
7304125 ATCTGTAAAT
Statistics
Matches: 148, Mismatches: 46, Indels: 16
0.70 0.22 0.08
Matches are distributed among these distances:
42 1 0.01
43 27 0.18
44 78 0.53
45 18 0.12
46 24 0.16
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (44 bp):
TTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTG
Found at i:7308973 original size:22 final size:22
Alignment explanation
Indices: 7308942--7308984 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7308932 CTCTCCTTCT
*
7308942 TTCTTACTTTTTTTCAAGTTCC
1 TTCTTACTTTGTTTCAAGTTCC
* *
7308964 TTCTTTCTTTGTTTCATGTTC
1 TTCTTACTTTGTTTCAAGTTC
7308985 GGCTTAAACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.21, G:0.07, T:0.63
Consensus pattern (22 bp):
TTCTTACTTTGTTTCAAGTTCC
Found at i:7314357 original size:3 final size:3
Alignment explanation
Indices: 7314349--7314396 Score: 53
Period size: 3 Copynumber: 15.0 Consensus size: 3
7314339 AATAGGGGTG
7314349 ATA ATA ATA ATA ATA ATA CA-A ATA ATA ATA CATA TATA TATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA ATA ATA
7314397 GTAGTCAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
2 1 0.02
3 29 0.71
4 11 0.27
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7314484 original size:3 final size:3
Alignment explanation
Indices: 7314471--7314545 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
7314461 GAGGATATAT
7314471 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
7314515 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
7314546 AATGGCTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 7 0.12
3 40 0.69
4 9 0.16
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7314495 original size:12 final size:12
Alignment explanation
Indices: 7314471--7314545 Score: 75
Period size: 12 Copynumber: 6.3 Consensus size: 12
7314461 GAGGATATAT
7314471 ATAATAT-AATA
1 ATAATATAAATA
7314482 ATAATATAAATA
1 ATAATATAAATA
*
7314494 ATAATATATACATG
1 ATAATATA-A-ATA
*
7314508 AGAA-AT-AATA
1 ATAATATAAATA
7314518 ATAATATAAATA
1 ATAATATAAATA
* *
7314530 ATAGTAAAAATA
1 ATAATATAAATA
7314542 ATAA
1 ATAA
7314546 AATGGCTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
10 5 0.10
11 10 0.19
12 29 0.56
13 3 0.06
14 5 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:7314497 original size:18 final size:18
Alignment explanation
Indices: 7314467--7314546 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
7314457 TGGAGAGGAT
7314467 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
7314485 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
* *
7314504 CAT-GAGA-AATAATAATA
1 -ATATAAATAATAATAATA
* *
7314521 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
7314539 ATAATAAA
1 AT-ATAAA
7314547 ATGGCTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.04
17 8 0.16
18 28 0.56
19 10 0.20
20 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:7315093 original size:30 final size:30
Alignment explanation
Indices: 7315059--7315144 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
7315049 ATTTGATGGT
*
7315059 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
7315089 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
7315119 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
7315145 CTAGGGTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.24, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:7315142 original size:18 final size:18
Alignment explanation
Indices: 7315091--7315143 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
7315081 GTGGTGGAGT
7315091 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
7315109 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
7315121 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
7315139 AGGTG
1 AGGTG
7315144 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:7318438 original size:25 final size:25
Alignment explanation
Indices: 7318388--7318439 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7318378 CCTTCGTCAA
* * *
7318388 TTAGGTATTCATTAAATTGTATTCT
1 TTAGGCATTCATTAAATTATAATCT
*
7318413 TTAGGCATTCATTAACTTATAATCT
1 TTAGGCATTCATTAAATTATAATCT
7318438 TT
1 TT
7318440 TTTTGTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (25 bp):
TTAGGCATTCATTAAATTATAATCT
Found at i:7322605 original size:15 final size:15
Alignment explanation
Indices: 7322582--7322623 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
7322572 GAAGCCCAGA
7322582 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* * *
7322597 ATAAAGAAATCTATG
1 ATAAGGAAATCCAAG
7322612 ATAAGGAAATCC
1 ATAAGGAAATCC
7322624 CATTTACAGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:7332212 original size:3 final size:3
Alignment explanation
Indices: 7332188--7332235 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
7332178 AAGAAATTGC
* * * *
7332188 TAA TGA TAA T-A TAA TAA CAA TAA TAA TAA CAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7332235 T
1 T
7332236 GAATTTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:7332221 original size:15 final size:15
Alignment explanation
Indices: 7332193--7332231 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
7332183 ATTGCTAATG
*
7332193 ATAAT-ATAATAACA
1 ATAATAATAACAACA
7332207 ATAATAATAACAACA
1 ATAATAATAACAACA
7332222 ATAATAATAA
1 ATAATAATAA
7332232 TAATGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAATAATAACAACA
Found at i:7349221 original size:21 final size:21
Alignment explanation
Indices: 7349197--7349239 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
7349187 AATGCTCAAA
*
7349197 AAAAT-TTAAAATTCAACTTTT
1 AAAATGTTAAAACTCAA-TTTT
7349218 AAAATGTTAAAACTCAATTTT
1 AAAATGTTAAAACTCAATTTT
7349239 A
1 A
7349240 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATGTTAAAACTCAATTTT
Found at i:7351314 original size:25 final size:27
Alignment explanation
Indices: 7351286--7351343 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
7351276 GGTTTTAATT
7351286 TAAT-TACAA-AGTTTAAATCATATAA
1 TAATATACAATAGTTTAAATCATATAA
* *
7351311 TAATAATTCAATATTTTAAATCATATAA
1 TAAT-ATACAATAGTTTAAATCATATAA
7351339 TAATA
1 TAATA
7351344 ATTTTTTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (27 bp):
TAATATACAATAGTTTAAATCATATAA
Found at i:7364206 original size:31 final size:30
Alignment explanation
Indices: 7364171--7364259 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 30
7364161 GTGATCACTT
7364171 CGTAACAAAATAATAATATAAGTGACTAAAA
1 CGTAACAAAATAA-AATATAAGTGACTAAAA
** *
7364202 CGTAAC-ATTTCAAATATAAGTGACTAAAA
1 CGTAACAAAATAAAATATAAGTGACTAAAA
*
7364231 TGTAACATGAAATAAACA-A-AAGTGACTAA
1 CGTAACA--AAATAAA-ATATAAGTGACTAA
7364260 TTTTTGTAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
29 22 0.47
30 3 0.06
31 16 0.34
32 5 0.11
33 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.24
Consensus pattern (30 bp):
CGTAACAAAATAAAATATAAGTGACTAAAA
Found at i:7369237 original size:18 final size:17
Alignment explanation
Indices: 7369205--7369238 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7369195 AAATCCTTAC
7369205 ATAATATCTAAATACAA
1 ATAATATCTAAATACAA
*
7369222 ATAATTTCTCAAATACA
1 ATAATATCT-AAATACA
7369239 TCATAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATATCTAAATACAA
Found at i:7374959 original size:5 final size:5
Alignment explanation
Indices: 7374951--7374976 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7374941 TAACAAAAGA
7374951 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
7374977 TATAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:7385482 original size:18 final size:18
Alignment explanation
Indices: 7385459--7385551 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
7385449 CCCAACTACT
*
7385459 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
7385477 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
* *
7385495 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* **
7385513 GTATACGTAAATAGTGTC
1 GTATACGTGAATAGTACC
7385531 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
7385549 GTA
1 GTA
7385552 AATGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:7385511 original size:36 final size:36
Alignment explanation
Indices: 7385457--7385551 Score: 138
Period size: 36 Copynumber: 2.6 Consensus size: 36
7385447 ATCCCAACTA
* *
7385457 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTAAATAGTG
* *
7385493 CTGTATACGTAAATAGTACTGTATACGTAAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTAAATAGTG
7385529 -TCGTATACGTGAATAGTACCGTA
1 CT-GTATACGTGAATAGTACCGTA
7385552 AATGGTCGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 1 0.02
36 51 0.98
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTAAATAGTG
Found at i:7394637 original size:16 final size:17
Alignment explanation
Indices: 7394612--7394644 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7394602 AATGTATTAC
*
7394612 ATATATAAAAA-TAATA
1 ATATAAAAAAATTAATA
7394628 ATATAAAAAAATTAATA
1 ATATAAAAAAATTAATA
7394645 CAAGTGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATAAAAAAATTAATA
Found at i:7395138 original size:37 final size:37
Alignment explanation
Indices: 7395097--7395202 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
7395087 CTAGCTGCTT
7395097 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
*
7395134 ATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTC
1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
*
7395171 ATAATCTTCTTTGCTGAGG-TTTGTTGAGTTCT
1 ATAATCTTCTTTGCTG-GGTTTTGCTGAGTTCT
7395203 GAGTTCATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 64 0.98
38 1 0.02
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (37 bp):
ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
Found at i:7395330 original size:42 final size:42
Alignment explanation
Indices: 7395283--7395367 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
7395273 TGCTGAGTTC
* *
7395283 TGCTGAGTTCCAAGTTCATTTCTAGCTATTCATAATCTTCTT
1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
*
7395325 TGCTGAGTTCTAAGTTCATTTCTAGCTACTCATAATCTACTT
1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
7395367 T
1 T
7395368 CAACTATGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (42 bp):
TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
Found at i:7395348 original size:91 final size:89
Alignment explanation
Indices: 7395132--7395333 Score: 307
Period size: 91 Copynumber: 2.2 Consensus size: 89
7395122 GAGTTCTAAG
* *
7395132 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTCATAATCTTCTTTGCTGAGGTTTGTTG
1 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG
**
7395197 AGTTCTGAGTTCATTTCTAGCTAC
66 AGTTCCAAGTTCATTTCTAGCTAC
* *
7395221 TCATAAAATCTTCTTTACTGAGTTTTGCTGAGTTCTAAGCCATTATCTTCTTTGCTGA-GTTCTG
1 TCAT--AATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTT-TG
*
7395285 CTGAGTTCCAAGTTCATTTCTAGCTAT
63 CTGAGTTCCAAGTTCATTTCTAGCTAC
7395312 TCATAATCTTCTTTGCTGAGTT
1 TCATAATCTTCTTTGCTGAGTT
7395334 CTAAGTTCAT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
89 21 0.21
90 3 0.03
91 78 0.76
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (89 bp):
TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG
AGTTCCAAGTTCATTTCTAGCTAC
Found at i:7401154 original size:16 final size:16
Alignment explanation
Indices: 7401133--7401200 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
7401123 TTTGGTTCGC
7401133 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7401149 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7401165 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7401181 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
7401197 TGTA
1 TGTA
7401201 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7401240 original size:45 final size:41
Alignment explanation
Indices: 7401181--7401290 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
7401171 GGATTAGAGG
*
7401181 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
7401223 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
7401266 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
7401291 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:7401453 original size:16 final size:16
Alignment explanation
Indices: 7401416--7401457 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7401406 TTAATCATAT
*
7401416 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
7401432 TT-AAATATATTATAA
1 TTAAAATATATTATAA
7401447 TTAAAATATAT
1 TTAAAATATAT
7401458 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:7401464 original size:14 final size:15
Alignment explanation
Indices: 7401425--7401466 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7401415 TTTAAACATA
*
7401425 ATTATTATTAAATAT
1 ATTATAATTAAATAT
7401440 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
7401454 A-TATAATTTAATA
1 ATTATAATTAAATA
7401467 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:7406501 original size:51 final size:52
Alignment explanation
Indices: 7406436--7406534 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
7406426 ATGAGAAGAA
* * *
7406436 AGTTTAAAACAAATAATATGT-AAAATAATTTTAAGATAAATAATATAAATG
1 AGTTTAAAACAAATAATATGTAAAAAGAAATTTAAAATAAATAATATAAATG
** * *
7406487 AGTTTAAAGTAAATATTATGTAAAAAGAAATTTAAAATAAGTAATATA
1 AGTTTAAAACAAATAATATGTAAAAAGAAATTTAAAATAAATAATATA
7406535 CAAAACATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 18 0.45
52 22 0.55
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (52 bp):
AGTTTAAAACAAATAATATGTAAAAAGAAATTTAAAATAAATAATATAAATG
Found at i:7406632 original size:27 final size:25
Alignment explanation
Indices: 7406576--7406750 Score: 90
Period size: 26 Copynumber: 6.9 Consensus size: 25
7406566 TAAAAAATAG
* * *
7406576 ATAATACATATAAAAATTTGAAATTG
1 ATAATATATAAAAAAATTT-AAATTA
*
7406602 ATAATATATGAAAAAAATTTAAAGT-
1 ATAATATAT-AAAAAAATTTAAATTA
** *
7406627 -TAATA-ATAAAACGATTTAAAATGA
1 ATAATATATAAAAAAATTT-AAATTA
* *
7406651 ATAATACATAAAAACAAATTTAAAATAA
1 ATAATATAT-AAAA-AAATTT-AAATTA
* *
7406679 ATAATATACAAAACAATTTAAAGTGT-
1 ATAATATATAAAAAAATTTAAA-T-TA
* * * *
7406705 ATAGTATATGAAATAATTTAAAATA
1 ATAATATATAAAAAAATTTAAATTA
* *
7406730 AT-ATATCTAAAACAATTTAAA
1 ATAATATATAAAAAAATTTAAA
7406751 ACAGTTTAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
22 8 0.07
23 5 0.04
24 21 0.18
25 10 0.09
26 38 0.33
27 17 0.15
28 17 0.15
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (25 bp):
ATAATATATAAAAAAATTTAAATTA
Found at i:7406676 original size:28 final size:26
Alignment explanation
Indices: 7406634--7406751 Score: 91
Period size: 26 Copynumber: 4.5 Consensus size: 26
7406624 AGTTAATAAT
* *
7406634 AAAACGATTTAAAATGAATAATACATA-
1 AAAACAATTTAAAATAAATAAT--ATAC
7406661 AAAACAAATTTAAAATAAATAATATAC
1 AAAAC-AATTTAAAATAAATAATATAC
* ** * *
7406688 AAAACAATTTAAAGTGTATAGTATAT
1 AAAACAATTTAAAATAAATAATATAC
* *
7406714 GAAATAATTTAAAAT-AAT-ATAT-C
1 AAAACAATTTAAAATAAATAATATAC
7406737 TAAAACAATTTAAAA
1 -AAAACAATTTAAAA
7406752 CAGTTTAATA
Statistics
Matches: 73, Mismatches: 15, Indels: 9
0.75 0.15 0.09
Matches are distributed among these distances:
24 15 0.21
25 2 0.03
26 31 0.42
27 10 0.14
28 15 0.21
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAACAATTTAAAATAAATAATATAC
Found at i:7406781 original size:52 final size:49
Alignment explanation
Indices: 7406666--7406782 Score: 123
Period size: 51 Copynumber: 2.3 Consensus size: 49
7406656 ACATAAAAAC
** *
7406666 AAATTTAAAATAAATAATATACAAAACAATTTAAAGTGTATAGTATATG
1 AAATTTAAAATAAATAATATACAAAACAATTTAAACAGTATAATATATG
*
7406715 AAATAATTTAAAAT-AAT-ATAT-CTAAAACAATTTAAAACAGTTTAATATATG
1 --A-AATTTAAAATAAATAATATAC-AAAACAATTT-AAACAGTATAATATATG
*
7406766 AAATTTAAGATAAATAA
1 AAATTTAAAATAAATAA
7406783 AGTAGTTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
48 9 0.16
49 5 0.09
50 15 0.27
51 17 0.30
52 10 0.18
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (49 bp):
AAATTTAAAATAAATAATATACAAAACAATTTAAACAGTATAATATATG
Found at i:7412286 original size:3 final size:3
Alignment explanation
Indices: 7412278--7412317 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7412268 ATTTTTTATC
7412278 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7412318 CGAAATGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7423543 original size:12 final size:12
Alignment explanation
Indices: 7423512--7423536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7423502 ATAAAGTCGT
7423512 TTTATTTTTTCA
1 TTTATTTTTTCA
7423524 TTTATTTTTTCA
1 TTTATTTTTTCA
7423536 T
1 T
7423537 CTTTTTTAGC
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTTTCA
Found at i:7429250 original size:3 final size:3
Alignment explanation
Indices: 7429242--7429290 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
7429232 GATTTATCTC
7429242 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7429290 T
1 T
7429291 CTTCTAACTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7439186 original size:67 final size:67
Alignment explanation
Indices: 7439076--7439204 Score: 249
Period size: 67 Copynumber: 1.9 Consensus size: 67
7439066 AATCAATTAG
*
7439076 TACGTGACACACATAACATGTTCTTACCAAATGTTGTATAAATAAATTAAGATGAAATTGAACAG
1 TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAACAG
7439141 CA
66 CA
7439143 TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAA
1 TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAA
7439205 GATACCATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (67 bp):
TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAACAG
CA
Found at i:7442650 original size:17 final size:17
Alignment explanation
Indices: 7442628--7442663 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7442618 ATAACATTAA
7442628 AATTATAATT-ATAGATT
1 AATTATAATTGATA-ATT
7442645 AATTATAATTGATAATT
1 AATTATAATTGATAATT
7442662 AA
1 AA
7442664 GTGAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTATAATTGATAATT
Found at i:7443582 original size:24 final size:24
Alignment explanation
Indices: 7443555--7443600 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7443545 AACCTAATTC
7443555 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
7443579 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
7443601 ATTCGTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:7450768 original size:17 final size:18
Alignment explanation
Indices: 7450741--7450783 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
7450731 TGATTTGGAT
7450741 TAATGATACATATAA-ATAA
1 TAAT-ATACATA-AAGATAA
7450760 T-ATATACATAAAGATAA
1 TAATATACATAAAGATAA
7450777 TAATATA
1 TAATATA
7450784 TGAAAGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 7 0.32
19 1 0.05
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (18 bp):
TAATATACATAAAGATAA
Found at i:7450904 original size:16 final size:16
Alignment explanation
Indices: 7450883--7450913 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7450873 TATATATACA
7450883 TACATAGAAAAATATT
1 TACATAGAAAAATATT
*
7450899 TACATAGAATAATAT
1 TACATAGAAAAATAT
7450914 GAAATCAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
TACATAGAAAAATATT
Found at i:7451957 original size:22 final size:22
Alignment explanation
Indices: 7451927--7451970 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7451917 AAACTAAAAA
*
7451927 TCACCTTTTAGGATTTGTTTTT
1 TCACCTTTTAGGATTTGCTTTT
* *
7451949 TCACTTTTTCGGATTTGCTTTT
1 TCACCTTTTAGGATTTGCTTTT
7451971 GAAATGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.59
Consensus pattern (22 bp):
TCACCTTTTAGGATTTGCTTTT
Found at i:7463153 original size:58 final size:58
Alignment explanation
Indices: 7463063--7463206 Score: 216
Period size: 58 Copynumber: 2.5 Consensus size: 58
7463053 TTTGACGATA
* * * *
7463063 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCTTCCTGAATAATATGTATG
1 AAAAGGATCTAGCCCGGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
*
7463121 AAAAGGATCTAGCCCAGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
1 AAAAGGATCTAGCCCGGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
* * *
7463179 AAATGGATTTAGCCCGGAAGGGTAATCC
1 AAAAGGATCTAGCCCGGAAGGGTGATCC
7463207 AAAGTAAATG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 77 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (58 bp):
AAAAGGATCTAGCCCGGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
Found at i:7466801 original size:50 final size:50
Alignment explanation
Indices: 7466720--7466956 Score: 287
Period size: 50 Copynumber: 4.7 Consensus size: 50
7466710 TAAAATGGTT
* *
7466720 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * *
7466770 TTAGGTCACATGTGTAGTACTAGGTGTAGGCTACTATGCGTACCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
7466820 CTTCGATCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTATTC-GATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG
* *
7466871 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTATACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
*
7466921 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
7466957 TGCATACCAG
Statistics
Matches: 156, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 1 0.01
50 115 0.74
51 39 0.25
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:7466860 original size:101 final size:100
Alignment explanation
Indices: 7466720--7466956 Score: 278
Period size: 101 Copynumber: 2.4 Consensus size: 100
7466710 TAAAATGGTT
* * *
7466720 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTA-CCAAATTGTTAGGTCACATGTG
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCC-AATGGTTAGGTCACATGTG
* ** * * *
7466784 TAGTACTAGGTGTAGGCTACTATGCGTACCCGATAG
65 TAGTACTAAGTACAGGCTACTACGCATACCAGATAG
* * * * * *
7466820 CTTCGATCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTATTCGATGGTTAGGTCACGTGTG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCAATGGTTAGGTCACATGTG
* *
7466885 TAGTACTAAGTACAGGCTACTACGTATACCAGATTG
65 TAGTACTAAGTACAGGCTACTACGCATACCAGATAG
* *
7466921 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTA
7466957 TGCATACCAG
Statistics
Matches: 113, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
100 31 0.27
101 81 0.72
102 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCAATGGTTAGGTCACATGTGT
AGTACTAAGTACAGGCTACTACGCATACCAGATAG
Found at i:7466964 original size:50 final size:50
Alignment explanation
Indices: 7466674--7466967 Score: 261
Period size: 50 Copynumber: 5.8 Consensus size: 50
7466664 GTTGTGAGAA
* * * * *
7466674 CACATGTGTAGTACTATGTGCAGGCTACTATGC-TTCTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATAC-CAGAT--TGTTAGGT
* * * ** *
7466726 CACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGTTAGGT
* * * * * * *
7466776 CACATGTGTAGTACTAGGTGTAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTG-TTAGGT
* * * * * *
7466827 CACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTAT-TC-GATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA--TGCATACCAGATTGTTAGGT
* * * *
7466877 CACGTGTGTAGTACTAAGTACAGGCTACTACGTATACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGTTAGGT
7466927 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGA
7466968 GAGCTTCGGT
Statistics
Matches: 198, Mismatches: 38, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
48 4 0.02
49 1 0.01
50 120 0.61
51 35 0.18
52 33 0.17
53 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATTGTTAGGT
Found at i:7471848 original size:26 final size:24
Alignment explanation
Indices: 7471809--7471856 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
7471799 GGGTTTGATA
7471809 TTTTTTTTAATTTGATATTTAATT
1 TTTTTTTTAATTTGATATTTAATT
7471833 TTTTTATTTCAATTTGATATTTAA
1 TTTTT-TTT-AATTTGATATTTAA
7471857 ATTTAGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
26 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTTTTTAATTTGATATTTAATT
Found at i:7471854 original size:21 final size:23
Alignment explanation
Indices: 7471802--7471854 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
7471792 TGTAATTGGG
*
7471802 TTTGATATTTTTTTTAATTTGATA
1 TTTGATA-TTTTTTTAATTTCATA
7471826 TTT-A-ATTTTTTT-ATTTCA-A
1 TTTGATATTTTTTTAATTTCATA
7471845 TTTGATATTT
1 TTTGATATTT
7471855 AAATTTAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.15
20 6 0.23
21 11 0.42
22 1 0.04
23 1 0.04
24 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (23 bp):
TTTGATATTTTTTTAATTTCATA
Found at i:7471859 original size:13 final size:13
Alignment explanation
Indices: 7471817--7471860 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7471807 TATTTTTTTT
7471817 AATTTGATATTTA
1 AATTTGATATTTA
* ** *
7471830 ATTTTTTTATTTC
1 AATTTGATATTTA
7471843 AATTTGATATTTA
1 AATTTGATATTTA
7471856 AATTT
1 AATTT
7471861 AGCTTTTTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (13 bp):
AATTTGATATTTA
Found at i:7472251 original size:27 final size:28
Alignment explanation
Indices: 7472203--7472263 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
7472193 TAAGTTTAAG
* * *
7472203 TATCAAATTGAACATAAAAAAATT-AGC
1 TATCAAATTGAAAAAAAAAAAATTCAGA
7472230 TATCAAATT-AAAAAAAATAAAATTCAGA
1 TATCAAATTGAAAAAAAA-AAAATTCAGA
7472258 TATCAA
1 TATCAA
7472264 GTAAAAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.21
27 15 0.52
28 8 0.28
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (28 bp):
TATCAAATTGAAAAAAAAAAAATTCAGA
Found at i:7474626 original size:27 final size:27
Alignment explanation
Indices: 7474596--7474669 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 27
7474586 ATTTTGTTTA
7474596 AAAAATAATTAAAAATTATAA-AAATTC
1 AAAAA-AATTAAAAATTATAAGAAATTC
*
7474623 -AAAAAATATAAAAA-TATAAGGAATTTC
1 AAAAAAAT-TAAAAATTATAA-GAAATTC
*
7474650 AAAAAAAATT-ATAATTATAA
1 -AAAAAAATTAAAAATTATAA
7474670 TTACCACTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
25 8 0.21
26 10 0.26
27 8 0.21
28 6 0.15
29 7 0.18
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAAAAATTAAAAATTATAAGAAATTC
Found at i:7474632 original size:17 final size:16
Alignment explanation
Indices: 7474602--7474637 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
7474592 TTTAAAAAAT
*
7474602 AATTAAAAATTATAAA
1 AATTAAAAAATATAAA
7474618 AATTCAAAAAATATAAA
1 AATT-AAAAAATATAAA
7474635 AAT
1 AAT
7474638 ATAAGGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTAAAAAATATAAA
Found at i:7474937 original size:44 final size:41
Alignment explanation
Indices: 7474852--7474964 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 41
7474842 ATAATTAAAA
* * *
7474852 ATTAA-TTATAATTTTTTAATGTGTAATTATTACAACTTCT
1 ATTAACTTATAATTTTTTAATATATAATTATTACAACATCT
**
7474892 ATTAACTTATAATTAGTTTTAAATATATAATTATTGTAACATCT
1 ATTAACTTATAATT--TTTT-AATATATAATTATTACAACATCT
*
7474936 ATTTACTT-TAA-TTTTTAACTA-ATAATTAT
1 ATTAACTTATAATTTTTTAA-TATATAATTAT
7474965 AAATTAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
39 10 0.16
40 11 0.18
41 8 0.13
42 1 0.02
43 7 0.11
44 25 0.40
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (41 bp):
ATTAACTTATAATTTTTTAATATATAATTATTACAACATCT
Found at i:7478262 original size:27 final size:27
Alignment explanation
Indices: 7478210--7478262 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
7478200 AGAAGCTACC
* * *
7478210 AAATTTCAGGATTAATGTGGATAAAAT
1 AAATTTCAGGATTAAAGTGAAAAAAAT
7478237 AAATTT-AGGGATTAAAGTGAAAAAAA
1 AAATTTCA-GGATTAAAGTGAAAAAAA
7478263 ATTACCAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.51, C:0.02, G:0.19, T:0.28
Consensus pattern (27 bp):
AAATTTCAGGATTAAAGTGAAAAAAAT
Found at i:7482519 original size:3 final size:3
Alignment explanation
Indices: 7482499--7482545 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
7482489 TGCTATTACC
* *
7482499 ATT ACT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7482546 ATTTTAATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7482566 original size:16 final size:16
Alignment explanation
Indices: 7482522--7482571 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
7482512 CTATTATTAT
7482522 TATTATTATTATTAT-TA
1 TATTA-TATT-TTATCTA
7482539 TTATTATATTTTAATCTA
1 -TATTATATTTT-ATCTA
7482557 TATT-TATTTTATCTA
1 TATTATATTTTATCTA
7482572 GTTCTACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.17
16 8 0.27
17 10 0.33
18 7 0.23
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATATTTTATCTA
Found at i:7482862 original size:22 final size:23
Alignment explanation
Indices: 7482824--7482867 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7482814 ACCACCACTA
*
7482824 TTATTTTTATTATCATATTATTG
1 TTATTTTTATTACCATATTATTG
7482847 TTATTTTT-TTACCATATTATT
1 TTATTTTTATTACCATATTATT
7482868 ATTTCCTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (23 bp):
TTATTTTTATTACCATATTATTG
Found at i:7483017 original size:3 final size:3
Alignment explanation
Indices: 7483009--7483069 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
7482999 TATTAATTTT
* * * *
7483009 TTA TTA TTA CTA TTA TTA GTA TCA -TA GGTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
7483053 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
7483070 GTCTTTTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 3 0.06
3 43 0.90
4 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:7483135 original size:18 final size:18
Alignment explanation
Indices: 7483101--7483135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7483091 CCACTATTTT
*
7483101 TATTATCAATATTATTAA
1 TATTATCAATATCATTAA
*
7483119 TATTATCATTATCATTA
1 TATTATCAATATCATTA
7483136 TCATTGCCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATCAATATCATTAA
Found at i:7488117 original size:39 final size:39
Alignment explanation
Indices: 7488063--7488141 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
7488053 TGTAGGAGGA
* *
7488063 TATGGGTTTGAGTGTGCTGAAACGCATTATTCTTCTATT
1 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
7488102 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
1 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
7488141 T
1 T
7488142 TTTTCCAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.43
Consensus pattern (39 bp):
TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
Found at i:7491506 original size:24 final size:24
Alignment explanation
Indices: 7491479--7491597 Score: 166
Period size: 24 Copynumber: 5.0 Consensus size: 24
7491469 TACTGCTGGA
*
7491479 ATGCCTCCCAACAACAGGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
7491503 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
7491527 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
* *
7491551 ATGCCACCCAACAACATGGGAAGG
1 ATGCCTCCCAACAACATGGGAGGG
* * *
7491575 ATGCCACCCAATAATATGGGAGG
1 ATGCCTCCCAACAACATGGGAGG
7491598 AATGACACCG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 87 1.00
ACGTcount: A:0.30, C:0.29, G:0.29, T:0.12
Consensus pattern (24 bp):
ATGCCTCCCAACAACATGGGAGGG
Found at i:7492777 original size:6 final size:6
Alignment explanation
Indices: 7492766--7492800 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
7492756 TGTGCAGTCA
7492766 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
7492801 GAACAGAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:7499514 original size:29 final size:29
Alignment explanation
Indices: 7499472--7499530 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7499462 AAAAAAAGAT
7499472 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
* *
7499501 AGAGAGATATAAGAGTTTGTTGGGATAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
7499530 A
1 A
7499531 AAGGCTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.24
Consensus pattern (29 bp):
AGAGAGATAAAAGAGTTTGTTGGGAGAGA
Found at i:7502936 original size:30 final size:31
Alignment explanation
Indices: 7502900--7502966 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
7502890 GGTTTCATTT
* *
7502900 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
7502930 CAGTCACTAACGTTATAAAAAAGTTACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
7502961 CAGTCA
1 CAGTCA
7502967 TTGATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.50
31 13 0.41
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:7507063 original size:38 final size:38
Alignment explanation
Indices: 7507012--7507134 Score: 192
Period size: 38 Copynumber: 3.2 Consensus size: 38
7507002 TTGAAATACG
*
7507012 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
7507050 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
7507088 ATATCTGGGTTAAATCCCGCAAGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
7507126 ATATTCGGG
1 ATATCCGGG
7507135 CCTTTGAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:7511115 original size:30 final size:31
Alignment explanation
Indices: 7511050--7511118 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
7511040 ACTGTTAATC
* *
7511050 AGTGACTGTTTTGTCATTTTTTTATAACGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
* *
7511081 AGTGATTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
7511110 GAGTGACTG
1 -AGTGACTG
7511119 AAATAAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 13 0.41
31 14 0.44
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (31 bp):
AGTGACTGTTTTGTCATTTTTTCATAAAGTT
Found at i:7513815 original size:159 final size:159
Alignment explanation
Indices: 7513526--7514188 Score: 1070
Period size: 159 Copynumber: 4.2 Consensus size: 159
7513516 AGTATCCGTG
* * *
7513526 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
7513591 GATCTGCTTGACTCTGACCTGGTACATTCG-ATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTG
66 GATCTGTTTGACTCTGACCTGCTACATTCGAAT-GAAATTGCCCAGTATGCTGAGAGTTCGAGTG
7513655 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
130 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
* *
7513685 ATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACAAAGCTGTCACTCGGCACTGAATTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
7513750 GATCTGTTTGACTCTGACGTGCTACATTCGAATGAAATTGCCCAGTATGGTGAGAGTTCGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
7513815 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
*
7513844 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * * *
7513909 GATCTG--T---T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
*
7513968 TGAATCAGAGTCTGGTTCTGACGTCTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
* *
7513997 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACAGAATTTGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * ** *
7514062 GATCTGTTTGACTCTGACCTACTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTAACTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
7514127 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
7514156 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
7514189 TTCCCAAAAG
Statistics
Matches: 471, Mismatches: 26, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
153 143 0.30
154 1 0.00
155 1 0.00
157 1 0.00
158 1 0.00
159 322 0.68
160 2 0.00
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (159 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
TGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:7514100 original size:312 final size:315
Alignment explanation
Indices: 7513526--7514188 Score: 1107
Period size: 312 Copynumber: 2.1 Consensus size: 315
7513516 AGTATCCGTG
* *
7513526 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
*
7513591 GATCTGCTTGACTCTGACCTGGTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
66 GATCTGC-T-A-TCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
*
7513656 TGAATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCAC
128 TGAATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCAC
* * *
7513721 AAAGCTGTCACTCGGCACTGAATTCGTTAGATCTGTTTGACTCTGACGTGCTACATTCGAATGAA
193 AAAGCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAA
* * *
7513786 ATTGCCCAGTATGGTGAGAGTTCGAGTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
258 ATTGCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
7513844 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
* * * *
7513909 GATCTG-T-T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGATGA
66 GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
* *
7513971 ATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAA
131 ATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACAAA
* *
7514036 GCTGTCACTCGGCACAGAATTTGTTAGATCTGTTTGACTCTGACCTACTACATTCGATTGAAATT
196 GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAAATT
*
7514101 GCCCAGTATGCTGAGAGTTTAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
261 GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
7514156 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
7514189 TTCCCAAAAG
Statistics
Matches: 326, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
312 255 0.78
313 1 0.00
316 1 0.00
318 69 0.21
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (315 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
ATCAGAGTCTGGTTCTGACGTCTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACAAA
GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAAATT
GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:7528371 original size:61 final size:61
Alignment explanation
Indices: 7528304--7528427 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
7528294 GAAGAGTCAC
7528304 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
1 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
7528365 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
1 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
7528426 AC
1 AC
7528428 ACTTCATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.39
Consensus pattern (61 bp):
ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
Found at i:7529073 original size:42 final size:42
Alignment explanation
Indices: 7529024--7529150 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 42
7529014 CTTCGTTTTC
* * *
7529024 TCGATGCCATAGTTCAACTATGGTCCTACACATCTTCACATAA
1 TCGATGCCATAGTTCAGCTATGGTCTTACACATATTCACAT-A
** *
7529067 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTTCAGCTATGGTCTTACACATATTCACATA
7529108 TCGATGCCATA-TTCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGTT-CAGCTATGGTCTTACAC-ATATTCACATA
7529149 TC
1 TC
7529151 TCACTGATGC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 10 0.14
42 60 0.83
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGTTCAGCTATGGTCTTACACATATTCACATA
Found at i:7529180 original size:88 final size:89
Alignment explanation
Indices: 7529067--7529234 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
7529057 CTTCACATAA
* * * *
7529067 TGATGCCATAGCCCAGCTATGGTCTTACACA-TATTCATATAT-CGATGCCATATTCCAGCTATG
1 TGATGCCATAGCCCAGATATGGTCTTACACAGTA-GCATATATCCGATGCCATATCCCAGATATG
7529130 GTCTTACACGAATCACATATCTCAC
65 GTCTTACACGAATCACATATCTCAC
* *
7529155 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCCAGAT
1 TGATGCCATAGCCCAGATATGGTCTTACACAGTAGCATATAT----CCGATGCCATATCCCAGAT
*
7529220 ATGGTCTTATACGAA
62 ATGGTCTTACACGAA
7529235 AATCACTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 35 0.52
89 2 0.03
93 30 0.45
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (89 bp):
TGATGCCATAGCCCAGATATGGTCTTACACAGTAGCATATATCCGATGCCATATCCCAGATATGG
TCTTACACGAATCACATATCTCAC
Found at i:7529211 original size:47 final size:46
Alignment explanation
Indices: 7529109--7529234 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 46
7529099 ATTCATATAT
* * * * *
7529109 CGATGCCATATTCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
7529155 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
7529202 CGATGCCATATCCCAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
7529235 AATCACTTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 28 0.41
47 41 0.59
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:7529292 original size:31 final size:31
Alignment explanation
Indices: 7529257--7529436 Score: 270
Period size: 31 Copynumber: 5.8 Consensus size: 31
7529247 CTTGTCTCTT
*
7529257 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
7529288 GTAGCCGGTGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
7529319 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
7529350 GTAGCCGGAGCTACCACTTTTCACTGTTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
7529381 GTAGCATAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
7529412 GTAGCTGAATCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
7529437 TGTCATTGAT
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 137 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:7529480 original size:44 final size:45
Alignment explanation
Indices: 7529412--7529533 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 45
7529402 CACTGATCAG
* * * *
7529412 GTAGCTGAATCTACCACTTTTCACTTGTCA-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGATCAGATAAGT
*
7529456 GTAGCCGAAGCTATCACTTATCACTT-TCACTTTTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA----T--TTGATCAGATAAGT
7529506 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
7529534 TGCAATGGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
43 3 0.05
44 22 0.34
50 39 0.60
51 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (45 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGATCAGATAAGT
Found at i:7529502 original size:50 final size:50
Alignment explanation
Indices: 7529430--7529531 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
7529420 ATCTACCACT
7529430 TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
* * *
7529480 TTTCACTTTTCCTTGATTAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
7529530 TT
1 TT
7529532 GTTGCAATGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (50 bp):
TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
Found at i:7533209 original size:13 final size:13
Alignment explanation
Indices: 7533188--7533258 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
7533178 AAATTTTTTC
7533188 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
7533201 AAAGTACTTCTCA
1 AAAGCACTTCTCA
*
7533214 AAAGCACTTCTCC
1 AAAGCACTTCTCA
* * * *
7533227 ACAGCATTTTTTA
1 AAAGCACTTCTCA
* *
7533240 AAAGTACTTTTCA
1 AAAGCACTTCTCA
7533253 AAAGCA
1 AAAGCA
7533259 ATGAAGAATT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:7533242 original size:26 final size:26
Alignment explanation
Indices: 7533180--7533258 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
7533170 AAACACTTAA
* *
7533180 ATTTTTTCAAAGCACTTCTCAAAAGT
1 ATTTTTTAAAAGCACTTCTCAAAAGC
* * * * *
7533206 ACTTCTCAAAAGCACTTCTCCACAGC
1 ATTTTTTAAAAGCACTTCTCAAAAGC
* *
7533232 ATTTTTTAAAAGTACTTTTCAAAAGC
1 ATTTTTTAAAAGCACTTCTCAAAAGC
7533258 A
1 A
7533259 ATGAAGAATT
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATTTTTTAAAAGCACTTCTCAAAAGC
Found at i:7540288 original size:37 final size:37
Alignment explanation
Indices: 7540247--7540328 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
7540237 AAATATTTAT
* * *
7540247 TAATCAATGTTCAAACTTTGAACATGCTTTATTAAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
*
7540284 TAATCAATGCTAAAACTTTGAACATGCTTTAATGAAC
1 TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
7540321 TAATCAAT
1 TAATCAAT
7540329 ACTTAACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (37 bp):
TAATCAATGCTAAAACTTTGAACATGCTTTAATAAAC
Found at i:7543516 original size:121 final size:120
Alignment explanation
Indices: 7543377--7544123 Score: 1282
Period size: 121 Copynumber: 6.2 Consensus size: 120
7543367 TTTTCAAGTC
*
7543377 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
7543442 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAA-TTTTATTAAATTATATAGTTTAATTAAA
*
7543498 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
7543563 TAATATAAGAACATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
7543618 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
7543683 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAA-TTTTATTAAATTATATAGTTTAATTAAA
7543739 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* * * *
7543804 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
7543860 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* * * *
7543925 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
7543981 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
7544046 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAACATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
7544101 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
7544124 TAAATATGAT
Statistics
Matches: 614, Mismatches: 8, Indels: 9
0.97 0.01 0.01
Matches are distributed among these distances:
120 180 0.29
121 424 0.69
122 10 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAACATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:7543803 original size:241 final size:241
Alignment explanation
Indices: 7543377--7544123 Score: 1329
Period size: 241 Copynumber: 3.1 Consensus size: 241
7543367 TTTTCAAGTC
7543377 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
7543442 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATTTA
66 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATTTA
*
7543507 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAG
131 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
* * *
7543572 AACATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
196 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
7543618 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
7543683 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATTTA
66 TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATTTA
7543748 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
131 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
* *
7543813 AATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 AATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
7543860 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * ** *
7543925 TAATATAAGAATATT-ATCCAATTAAGAA-TTTCATTAAATTATATATTTTAATTAAAATATATT
66 TAATATAAGAACATTAAT--TATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATT
7543988 TAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATA
129 TAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATA
7544053 AGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
194 AGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
7544101 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
7544124 TAAATATGAT
Statistics
Matches: 487, Mismatches: 14, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
240 2 0.00
241 259 0.53
242 216 0.44
243 10 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (241 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAACATTAATTATTAAGAATTTTTTTTAAATTATATAGTTTAATTAAAATATATTTA
ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:7544100 original size:18 final size:17
Alignment explanation
Indices: 7544072--7544106 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7544062 ATTATTAAGA
*
7544072 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7544089 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7544107 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7544320 original size:44 final size:45
Alignment explanation
Indices: 7544271--7544361 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7544261 ACCTCTATTC
* * *
7544271 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
7544315 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
7544360 CA
1 CA
7544362 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:7544363 original size:16 final size:16
Alignment explanation
Indices: 7544342--7544410 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
7544332 GATTAGCTAT
7544342 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7544358 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
7544375 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
7544391 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
7544407 TACA
1 TACA
7544411 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7544384 original size:33 final size:32
Alignment explanation
Indices: 7544342--7544410 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
7544332 GATTAGCTAT
7544342 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
7544375 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
7544407 TACA
1 TACA
7544411 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:7544750 original size:4 final size:4
Alignment explanation
Indices: 7544741--7544778 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
7544731 TTTTAGAATC
7544741 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
7544779 AGATGAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:7549397 original size:17 final size:17
Alignment explanation
Indices: 7549355--7549401 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
7549345 AATTTAATTT
*
7549355 TAATATAAAT-ATTTAA
1 TAATATAAATAATTCAA
7549371 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
7549389 TAATATAAATAAT
1 TAATATAAATAAT
7549402 ATAAAATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 13 0.50
18 7 0.27
19 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:7549725 original size:14 final size:14
Alignment explanation
Indices: 7549706--7549753 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7549696 TTTTAAGGGT
7549706 TTTTGAGAGTAAAA
1 TTTTGAGAGTAAAA
*
7549720 TTTTGAG-GAAAAA
1 TTTTGAGAGTAAAA
**
7549733 TGAATGAGAGTAAAA
1 T-TTTGAGAGTAAAA
7549748 TTTTGA
1 TTTTGA
7549754 TGAGAAATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 6 0.23
14 14 0.54
15 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (14 bp):
TTTTGAGAGTAAAA
Found at i:7549741 original size:28 final size:28
Alignment explanation
Indices: 7549709--7549765 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
7549699 TAAGGGTTTT
7549709 TGAGAGTAAAATTTTGAGGAAAAATGAA
1 TGAGAGTAAAATTTTGAGGAAAAATGAA
* *
7549737 TGAGAGTAAAATTTTGATGAGAAATGAA
1 TGAGAGTAAAATTTTGAGGAAAAATGAA
7549765 T
1 T
7549766 TTTGAGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (28 bp):
TGAGAGTAAAATTTTGAGGAAAAATGAA
Found at i:7554320 original size:24 final size:24
Alignment explanation
Indices: 7554275--7554351 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
7554265 ACCACTCAAC
*
7554275 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* * *
7554299 CCGCCATAACCAGCTGATCCTGGT
1 CCACCATAACCAGTTGAACCTGGT
*
7554323 CCACCATAGCCAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
7554347 CCACC
1 CCACC
7554352 GTACCCACCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.19
Consensus pattern (24 bp):
CCACCATAACCAGTTGAACCTGGT
Found at i:7561321 original size:11 final size:11
Alignment explanation
Indices: 7561307--7561344 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7561297 ATAAGGTATA
7561307 AAAGAAAAACG
1 AAAGAAAAACG
**
7561318 AAAGAAAAAAA
1 AAAGAAAAACG
7561329 AAAG-AAAACG
1 AAAGAAAAACG
7561339 AAAGAA
1 AAAGAA
7561345 CAGCAGAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAACG
Found at i:7563008 original size:12 final size:12
Alignment explanation
Indices: 7562985--7563015 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
7562975 TAAGAGAAAG
7562985 TGAAATTATGAAT
1 TGAAA-TATGAAT
7562998 TGAAATATGAAT
1 TGAAATATGAAT
7563010 TGAAAT
1 TGAAAT
7563016 TGAGGTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:7563039 original size:26 final size:25
Alignment explanation
Indices: 7562982--7563046 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
7562972 AAGTAAGAGA
* * *
7562982 AAGTGAAATTATGAATTGAAATATG
1 AAGTGAAATTAGGAATCGAAATAAG
* *
7563007 AATTGAAATTGAGGTATCGAAATAAG
1 AAGTGAAATT-AGGAATCGAAATAAG
*
7563033 AAGTGAAAATAGGA
1 AAGTGAAATTAGGA
7563047 TGAATAGGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.26
Consensus pattern (25 bp):
AAGTGAAATTAGGAATCGAAATAAG
Found at i:7565944 original size:46 final size:46
Alignment explanation
Indices: 7565884--7566157 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
7565874 TTTGACATGA
* * * * *
7565884 TGCCATAGTGTCTTTCAACAATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
7565930 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7565976 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7566022 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7566068 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7566114 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7566158 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:7566083 original size:25 final size:24
Alignment explanation
Indices: 7566055--7566134 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
7566045 GTCTTACACA
7566055 TTTCATACCAGGCTGCCATGGTATC
1 TTTCA-ACCAGGCTGCCATGGTATC
*
7566080 TTTCAACCATGG-T--C-T--TACAC
1 TTTCAACCA-GGCTGCCATGGTA-TC
7566100 ATTTCATACCAGGCTGCCATGGTATC
1 -TTTCA-ACCAGGCTGCCATGGTATC
7566126 TTTCAACCA
1 TTTCAACCA
7566135 TGGTCTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 21
0.65 0.03 0.32
Matches are distributed among these distances:
19 2 0.05
20 1 0.02
21 8 0.19
22 6 0.14
24 10 0.23
25 13 0.30
26 1 0.02
27 2 0.05
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.33
Consensus pattern (24 bp):
TTTCAACCAGGCTGCCATGGTATC
Found at i:7568306 original size:11 final size:11
Alignment explanation
Indices: 7568290--7568317 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7568280 ACTAAATAAT
7568290 TAATAATAAAA
1 TAATAATAAAA
7568301 TAATAATAAAA
1 TAATAATAAAA
7568312 TAATAA
1 TAATAA
7568318 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:7568344 original size:20 final size:21
Alignment explanation
Indices: 7568291--7568366 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
7568281 CTAAATAATT
*
7568291 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
7568310 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
7568331 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
7568352 TAATCATAAAATATC
1 -AATAATAAAATATC
7568367 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:7570819 original size:15 final size:14
Alignment explanation
Indices: 7570762--7570822 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
7570752 TATATGCTTG
7570762 TAATTAAAATATAAT
1 TAATTAAAAT-TAAT
* * *
7570777 TAATCATAATTATT
1 TAATTAAAATTAAT
* *
7570791 TATTTAAACTTTAAT
1 TAATTAAA-ATTAAT
7570806 TAATTAAAAGTTAAT
1 TAATTAAAA-TTAAT
7570821 TA
1 TA
7570823 CAAATAACAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
14 8 0.24
15 26 0.76
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATTAAAATTAAT
Found at i:7576385 original size:3 final size:3
Alignment explanation
Indices: 7576371--7576498 Score: 132
Period size: 3 Copynumber: 43.0 Consensus size: 3
7576361 AAAATGATAG
* * * *
7576371 TAA TAG TAA TAA TAA TAA T-A TAA TAA TAA TAG TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
7576418 AAA TAA AAA TAA AAA TAA TAA AAA TAA TAC TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
7576466 TAA TAA TAA TAG TAA AAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7576499 GACCGTAATA
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
2 2 0.02
3 98 0.98
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7576546 original size:20 final size:20
Alignment explanation
Indices: 7576521--7576567 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
7576511 AAGAAAAAGA
* *
7576521 AATAATAACATGTAAATAGT
1 AATAATAACATATAAATAAT
* *
7576541 AATAATAATATATTAATAAT
1 AATAATAACATATAAATAAT
7576561 AATAATA
1 AATAATA
7576568 GTATATGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAATAACATATAAATAAT
Found at i:7576572 original size:20 final size:20
Alignment explanation
Indices: 7576377--7576592 Score: 77
Period size: 21 Copynumber: 10.7 Consensus size: 20
7576367 ATAGTAATAG
*
7576377 TAATAATAATAATATAATAA
1 TAATAATAATAATATATTAA
* * *
7576397 TAATAGTAGTAATAGTAATAA
1 TAATAATAATAATA-TATTAA
* * * *
7576418 AAATAAAAATAAAAATAATAA
1 TAATAATAAT-AATATATTAA
* * *
7576439 AAATAATACTAATAGTAATAA
1 TAATAATAATAATA-TATTAA
*
7576460 TAATAATAATAATAATAGTAA
1 TAATAATAATAAT-ATATTAA
* *
7576481 AAATAGTAATAATA-A-TAA
1 TAATAATAATAATATATTAA
* * *
7576499 GACCGTAATAA-AA-AGA--AA
1 TA--ATAATAATAATATATTAA
* * * *
7576517 -AAGAAATAATAACATGTAAA
1 TAA-TAATAATAATATATTAA
*
7576537 TAGTAATAATAATATATTAA
1 TAATAATAATAATATATTAA
*
7576557 TAATAATAATAGTATATGTTAA
1 TAATAATAATA--ATATATTAA
* *
7576579 TAATGACAATAATA
1 TAATAATAATAATA
7576593 GAAAATAAAA
Statistics
Matches: 150, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
16 5 0.03
17 3 0.02
18 8 0.05
19 4 0.03
20 49 0.33
21 60 0.40
22 21 0.14
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
TAATAATAATAATATATTAA
Found at i:7576589 original size:22 final size:22
Alignment explanation
Indices: 7576548--7576589 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7576538 AGTAATAATA
*
7576548 ATATATTAATAATAATAATAGT
1 ATATATTAATAATAACAATAGT
* *
7576570 ATATGTTAATAATGACAATA
1 ATATATTAATAATAACAATA
7576590 ATAGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (22 bp):
ATATATTAATAATAACAATAGT
Found at i:7578222 original size:15 final size:16
Alignment explanation
Indices: 7578202--7578249 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
7578192 TAAGTAAATG
7578202 ATATTA-AATTATAAT
1 ATATTATAATTATAAT
*
7578217 ATATTATATATTATTAT
1 ATATTATA-ATTATAAT
*
7578234 ATAATATAATTA-AAT
1 ATATTATAATTATAAT
7578249 A
1 A
7578250 AATGAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 5 0.18
17 14 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTATAATTATAAT
Found at i:7578684 original size:22 final size:22
Alignment explanation
Indices: 7578656--7578698 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7578646 GTTTTAAGTG
7578656 ATAAATTG-AAGAAAAATAAAGA
1 ATAAATTGTAA-AAAAATAAAGA
7578678 ATAAATTGTAAAAAAATAAAG
1 ATAAATTGTAAAAAAATAAAG
7578699 TTAGTATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAAATTGTAAAAAAATAAAGA
Found at i:7579041 original size:27 final size:27
Alignment explanation
Indices: 7579009--7579060 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7578999 GTATGTGTAT
*
7579009 GATTGAAA-AGTGTATTGAATTGGAATG
1 GATTGAAATAGTATATTG-ATTGGAATG
*
7579036 GATTGAAATTGTATATTGATTGGAA
1 GATTGAAATAGTATATTGATTGGAA
7579061 ATTGAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (27 bp):
GATTGAAATAGTATATTGATTGGAATG
Found at i:7582408 original size:16 final size:17
Alignment explanation
Indices: 7582378--7582410 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7582368 ATTTAAATGA
7582378 AACTGCATACATATTAC
1 AACTGCATACATATTAC
*
7582395 AACT-CATACGTATTAC
1 AACTGCATACATATTAC
7582411 CAAAAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AACTGCATACATATTAC
Found at i:7584680 original size:29 final size:29
Alignment explanation
Indices: 7584646--7584711 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
7584636 ATAGAAGTTT
* *
7584646 AATTAAATTAATCACTCTATTATTAAATA
1 AATTAAATTAATCACTATATTATTAAAAA
* * * *
7584675 AATTAATTTAGTTATTATATTATTAAAAA
1 AATTAAATTAATCACTATATTATTAAAAA
7584704 AATTAAAT
1 AATTAAAT
7584712 AAGATTAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
AATTAAATTAATCACTATATTATTAAAAA
Found at i:7587712 original size:15 final size:16
Alignment explanation
Indices: 7587692--7587723 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7587682 TACTAGATAG
7587692 ATATGAAATAA-TATA
1 ATATGAAATAAGTATA
7587707 ATATGAAATAAGTATA
1 ATATGAAATAAGTATA
7587723 A
1 A
7587724 AGTTTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (16 bp):
ATATGAAATAAGTATA
Found at i:7590739 original size:12 final size:12
Alignment explanation
Indices: 7590722--7590765 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
7590712 TGTCACGTAT
*
7590722 TTTTCTTTATTA
1 TTTTCTTTATAA
7590734 TTTTCTTTATAA
1 TTTTCTTTATAA
* *
7590746 ATTT-TTAATAA
1 TTTTCTTTATAA
7590757 TTTTCTTTA
1 TTTTCTTTA
7590766 ACATTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTCTTTATAA
Found at i:7593141 original size:21 final size:22
Alignment explanation
Indices: 7593102--7593142 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7593092 TCAATTTTTT
*
7593102 CATTTTTAATTATTGATTTAAG
1 CATTTTAAATTATTGATTTAAG
*
7593124 CATTTTAAATT-TTTATTTA
1 CATTTTAAATTATTGATTTA
7593143 TTTATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CATTTTAAATTATTGATTTAAG
Found at i:7595436 original size:13 final size:14
Alignment explanation
Indices: 7595415--7595443 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7595405 ATTGATTAAA
7595415 AATTAAAATTAACT
1 AATTAAAATTAACT
7595429 AATT-AAATTAACT
1 AATTAAAATTAACT
7595442 AA
1 AA
7595444 AAAAAGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAAATTAACT
Found at i:7607296 original size:22 final size:23
Alignment explanation
Indices: 7607270--7607317 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
7607260 TTTAAAAGAG
*
7607270 TAATCCTATTAATATTAAAT-AT
1 TAATCCTATAAATATTAAATAAT
*
7607292 TAATCTTATAAATATTAAATAAT
1 TAATCCTATAAATATTAAATAAT
7607315 TAA
1 TAA
7607318 AATTTACGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TAATCCTATAAATATTAAATAAT
Found at i:7610926 original size:23 final size:21
Alignment explanation
Indices: 7610879--7610926 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
7610869 GCCACTTGCC
7610879 TGTAAAAAGAAGGAAAAGACA
1 TGTAAAAAGAAGGAAAAGACA
7610900 -GTAAATAAGAGAGGAAAA-AGCA
1 TGTAAA-AAGA-AGGAAAAGA-CA
7610922 TGTAA
1 TGTAA
7610927 CAAGGCTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.22
21 5 0.22
22 9 0.39
23 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.25, T:0.12
Consensus pattern (21 bp):
TGTAAAAAGAAGGAAAAGACA
Found at i:7612081 original size:22 final size:22
Alignment explanation
Indices: 7612055--7612117 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
7612045 ATTTTTTAAG
*
7612055 TATTATATACATATATATTT-TA
1 TATTATGTA-ATATATATTTATA
*
7612077 TATTATGT-ATATATTTTTAATA
1 TATTATGTAATATATATTT-ATA
7612099 TATTATGTATATATATATT
1 TATTATGTA-ATATATATT
7612118 ATGTACATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.26
22 17 0.50
24 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTATGTAATATATATTTATA
Found at i:7612089 original size:11 final size:11
Alignment explanation
Indices: 7612075--7612112 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7612065 ATATATATTT
7612075 TATATTATGTA
1 TATATTATGTA
*
7612086 TATATT-TTTAA
1 TATATTATGT-A
7612097 TATATTATGTA
1 TATATTATGTA
7612108 TATAT
1 TATAT
7612113 ATATTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.09
11 19 0.83
12 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
TATATTATGTA
Found at i:7612116 original size:37 final size:38
Alignment explanation
Indices: 7612075--7612146 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
7612065 ATATATATTT
* * *
7612075 TATATTATGTATATATTTTTAATA-TATTATGTATATA
1 TATATTATGTACATACTTTTAATATTATCATGTATATA
7612112 TATATTATGTACATACTTTTAATATTATCATGTAT
1 TATATTATGTACATACTTTTAATATTATCATGTAT
7612147 TCATTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 22 0.71
38 9 0.29
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (38 bp):
TATATTATGTACATACTTTTAATATTATCATGTATATA
Found at i:7612495 original size:20 final size:20
Alignment explanation
Indices: 7612459--7612502 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7612449 CCTAGCATAT
*
7612459 ATACTATGTATACATTCTTA
1 ATACTATGCATACATTCTTA
*
7612479 ATACTATAGCATA-ATTCTTT
1 ATACTAT-GCATACATTCTTA
7612499 ATAC
1 ATAC
7612503 CGTATTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (20 bp):
ATACTATGCATACATTCTTA
Found at i:7612641 original size:19 final size:17
Alignment explanation
Indices: 7612588--7612641 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 17
7612578 ATTATACATG
7612588 TATATATATATACTTTTT
1 TATATATATATA-TTTTT
7612606 TATATATAGTATCATTTTT
1 TATATATA-TAT-ATTTTT
7612625 TATATATCATTATATTT
1 TATATAT-A-TATATTT
7612642 ATCATCATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.25
19 19 0.59
20 5 0.16
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATATATATATTTTT
Found at i:7612711 original size:15 final size:14
Alignment explanation
Indices: 7612682--7612715 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
7612672 GCTTATTATT
7612682 TTATTTTAACATTA
1 TTATTTTAACATTA
*
7612696 TTATTTATATCATTA
1 TTATTT-TAACATTA
7612711 TTATT
1 TTATT
7612716 ATTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTTAACATTA
Done.