Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 24 of 349
Found at i:6536572 original size:3 final size:3
Alignment explanation
Indices: 6536559--6536633 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
6536549 GAGAGTATAT
6536559 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
6536603 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
6536634 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:6536581 original size:12 final size:12
Alignment explanation
Indices: 6536557--6536633 Score: 68
Period size: 12 Copynumber: 6.1 Consensus size: 12
6536547 GAGAGAGTAT
6536557 ATATAATATAATA
1 ATATAA-ATAATA
6536570 ATATAAATAATA
1 ATATAAATAATA
6536582 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
6536597 ATA-ATAATAATA
1 ATATA-AATAATA
6536609 ATATAAATAATA
1 ATATAAATAATA
* *
6536621 GTAAAAATAATA
1 ATATAAATAATA
6536633 A
1 A
6536634 AATGGCTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
11 1 0.02
12 33 0.60
13 10 0.18
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:6536600 original size:21 final size:18
Alignment explanation
Indices: 6536559--6536620 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
6536549 GAGAGTATAT
*
6536559 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
6536576 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
6536597 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
6536615 ATAATA
1 ATAATA
6536621 GTAAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.13
18 12 0.31
19 5 0.13
20 5 0.13
21 12 0.31
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:6536629 original size:27 final size:26
Alignment explanation
Indices: 6536555--6536633 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
6536545 TGGAGAGAGT
* *
6536555 ATATATAATATAATAATATAAATAATA
1 ATATATAA-ATAATAGTAAAAATAATA
* *
6536582 ATATATACAT--GAG-AAATAATAATA
1 ATATATAAATAATAGTAAA-AATAATA
6536606 ATAATATAAATAATAGTAAAAATAATA
1 AT-ATATAAATAATAGTAAAAATAATA
6536633 A
1 A
6536634 AATGGCTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
23 2 0.05
24 10 0.24
25 7 0.17
26 2 0.05
27 17 0.41
28 3 0.07
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (26 bp):
ATATATAAATAATAGTAAAAATAATA
Found at i:6537203 original size:18 final size:18
Alignment explanation
Indices: 6537182--6537234 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
6537172 GTGGTGGAGT
6537182 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
6537200 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
6537212 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
6537230 AGGTG
1 AGGTG
6537235 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:6537223 original size:30 final size:30
Alignment explanation
Indices: 6537150--6537235 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
6537140 ATTTGATGGT
** * *
6537150 GTAGGTGCAAGTGAAAGACAATGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
6537180 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
6537210 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
6537236 CTAGGGTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.27, C:0.07, G:0.49, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:6537878 original size:87 final size:87
Alignment explanation
Indices: 6537776--6538308 Score: 604
Period size: 87 Copynumber: 6.2 Consensus size: 87
6537766 AGCTTGGTAT
* *
6537776 CCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTTAAG
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAG
*
6537841 ATTTGTAAATTTAGCCTGTTAC
66 ATCTGTAAATTTAGCCTGTTAC
* *** * *
6537863 CCTACTGTTTAGGGG-TTAAGGCTTGTC-ACATTCGATTTGTTTCCCTACTGCTTATGGGGTTTA
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGAC-TTCGATCTGTTTCCCTACTGCTTA-GGGGGTTA
*
6537926 AGATCTATAAATCTTCAGCCTGTTAC
64 AGATCTGTAAAT-TT-AGCCTGTTAC
*** * *
6537952 CCTACTGCTTAGGGGTTTAAGGCTTGTC-ACCTTTGATCTGTTTCCCTACTGTTTA--GGG-T--
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGA-CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
*
6538011 --T-TGTAAATTTAACCTGTTAC
65 GATCTGTAAATTTAGCCTGTTAC
** * * * *
6538031 CCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCCTACTTCTTAGGGGGTTAAG
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAG
*
6538096 ATCTGTAAATTCAGCCTGTTAC
66 ATCTGTAAATTTAGCCTGTTAC
*
6538118 CCTACTGCTTAGGGGTTTGAGGCCCATC-ACATTCGATCTGTTTCCCTACTGCTTAGGGGGTTTA
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGAC-TTCGATCTGTTTCCCTACTGCTTAGGGGG-TTA
6538182 AGATCTGTAAATCTTCAGCCTGTTAC
64 AGATCTGTAAAT-TT-AGCCTGTTAC
* * * *
6538208 CCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGTTTAGGGGGTTAAG
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAG
* ** *
6538273 ATCTGTAAATTCAAACTATTAC
66 ATCTGTAAATTTAGCCTGTTAC
*
6538295 CCTACTGTTTAGGG
1 CCTACTGCTTAGGG
6538309 AGATAAGATC
Statistics
Matches: 384, Mismatches: 42, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
79 58 0.15
80 2 0.01
81 9 0.02
82 2 0.01
85 1 0.00
86 35 0.09
87 120 0.31
88 18 0.05
89 40 0.10
90 97 0.25
91 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (87 bp):
CCTACTGCTTAGGGGTTTAAGGCCCATCGACTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAG
ATCTGTAAATTTAGCCTGTTAC
Found at i:6538001 original size:44 final size:44
Alignment explanation
Indices: 6537776--6538229 Score: 228
Period size: 44 Copynumber: 10.5 Consensus size: 44
6537766 AGCTTGGTAT
*** *** *
6537776 CCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTC
1 CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
** * *
6537820 CCTACTGCTTA-GGGTGTTAAGATTTGT-AAATTT-AGCCTGTTAC
1 CCTACTGCTTAGGGGT-TTAAGGCTTGTCAAATTTGA-TCTGTTTC
* * * *
6537863 CCTACTGTTTAGGGG-TTAAGGCTTGTCACATTCGATTTGTTTC
1 CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
* * * * *
6537906 CCTACTGCTTATGGGGTTTAA-GATCTAT-AAATCTTCAGCCTGTTAC
1 CCTACTGCTTA-GGGGTTTAAGGCT-TGTCAAAT-TTGA-TCTGTTTC
**
6537952 CCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTTGATCTGTTTC
1 CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
* * * *
6537996 CCTACTGTTTA-GGG--T-----TTGT-AAATTTAACCTGTTAC
1 CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
* *** *
6538031 CCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTC
1 CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
* * * * * *
6538075 CCTACTTCTTAGGGGGTTAA-GATCTGT-AAA-TTCAGCCTGTTAC
1 CCTACTGCTTAGGGGTTTAAGGCT-TGTCAAATTTGA-TCTGTTTC
* *** * *
6538118 CCTACTGCTTAGGGGTTTGAGGCCCATCACATTCGATCTGTTTC
1 CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
* * * *
6538162 CCTACTGCTTAGGGGGTTTAA-GATCTGT-AAATCTTCAGCCTGTTAC
1 CCTACTGCTTA-GGGGTTTAAGGCT-TGTCAAAT-TTGA-TCTGTTTC
*
6538208 CCTACTGCTTAGGGGGTTAAGG
1 CCTACTGCTTAGGGGTTTAAGG
6538230 TCCATCGCCT
Statistics
Matches: 295, Mismatches: 84, Indels: 60
0.67 0.19 0.14
Matches are distributed among these distances:
35 21 0.07
36 7 0.02
38 1 0.00
41 1 0.00
42 13 0.04
43 72 0.24
44 99 0.34
45 43 0.15
46 38 0.13
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (44 bp):
CCTACTGCTTAGGGGTTTAAGGCTTGTCAAATTTGATCTGTTTC
Found at i:6538255 original size:44 final size:44
Alignment explanation
Indices: 6538024--6538272 Score: 182
Period size: 44 Copynumber: 5.6 Consensus size: 44
6538014 TAAATTTAAC
* ** *
6538024 CTGTTACCCTACTGCTTAGGGGTTTAAGG-CTTATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTC-TATCACCTTCGAT
* * * * * ** *
6538068 CTATTTCCCTACTTCTTAGGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTATCACCTTCGA-T
* * * * *
6538111 CTGTTACCCTACTGCTTAGGGGTTTGAGGCCCATCACATTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTATCACCTTCGAT
* * * * * *
6538155 CTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAGGGGG-TTAAGGTCTAT-CACCTTCGA-T
* *
6538201 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTATCACCTTCGAT
* *
6538245 CTGTTTCCCTACTGTTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
6538273 ATCTGTAAAT
Statistics
Matches: 154, Mismatches: 43, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
42 1 0.01
43 27 0.18
44 82 0.53
45 18 0.12
46 26 0.17
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTATCACCTTCGAT
Found at i:6538255 original size:256 final size:255
Alignment explanation
Indices: 6537776--6538265 Score: 766
Period size: 256 Copynumber: 1.9 Consensus size: 255
6537766 AGCTTGGTAT
* *
6537776 CCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTTAAG
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAG
* * * *** *
6537841 ATTTGTAAATTTAGCCTGTTACCCTACTGTTTAGGGGTTAAGGCTTGTCACATTCGATTTGTTTC
66 ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCCCATCACATTCGATCTGTTTC
* *
6537906 CCTACTGCTTATGGGGTTTAAGATCTATAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTA
131 CCTACTGCTTAGGGGGTTTAAGATCTATAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
** *
6537971 AGGCTTGTCACCTTTGATCTGTTTCCCTACTGTTTAGGGTTTGTAAATTTAACCTGTTAC
196 AGGCTCATCACCTTCGATCTGTTTCCCTACTGTTTAGGGTTTGTAAATTTAACCTGTTAC
** * *
6538031 CCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTATTTCCCTACTTCTTAGGGGGTTAAG
1 CCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAG
*
6538096 ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTGAGGCCCATCACATTCGATCTGTTT
66 ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCCCATCACATTCGATCTGTTT
*
6538161 CCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
130 CCCTACTGCTTAGGGGGTTTAAGATCTATAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTT
*
6538226 AAGG-TCCATCGCCTTCGATCTGTTTCCCTACTGTTTAGGG
195 AAGGCT-CATCACCTTCGATCTGTTTCCCTACTGTTTAGGG
6538266 GGTTAAGATC
Statistics
Matches: 212, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
255 94 0.44
256 118 0.56
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (255 bp):
CCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAG
ATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCCCATCACATTCGATCTGTTTC
CCTACTGCTTAGGGGGTTTAAGATCTATAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
AGGCTCATCACCTTCGATCTGTTTCCCTACTGTTTAGGGTTTGTAAATTTAACCTGTTAC
Found at i:6538306 original size:43 final size:43
Alignment explanation
Indices: 6538074--6538328 Score: 204
Period size: 43 Copynumber: 5.8 Consensus size: 43
6538064 TGATCTATTT
* *
6538074 CCCTACTTCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTA
* * ** ** * * * *
6538117 CCCTACTGCTTAGGGGTTTGAGGCCCATCACATTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAACCTGTTA
*
6538161 CCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CCCTACTGCTTAGGGGG-TTAAGATCTGTAAA--TTCAACCTGTTA
* ** *** * * *
6538207 CCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTGTTT
1 CCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAACCTGTTA
* * *
6538251 CCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAAACTATTA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTA
* * * *
6538294 CCCTACTGTTTAGGGAGATAAGATCTGCAAATTCA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCA
6538329 CTGATTCTAG
Statistics
Matches: 160, Mismatches: 47, Indels: 10
0.74 0.22 0.05
Matches are distributed among these distances:
43 61 0.38
44 60 0.38
45 14 0.09
46 25 0.16
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGTTA
Found at i:6548501 original size:3 final size:3
Alignment explanation
Indices: 6548493--6548692 Score: 55
Period size: 3 Copynumber: 64.3 Consensus size: 3
6548483 AATATGGGTG
6548493 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
* * * * * *
6548541 GTA GTCA GA-A ATA A-A A-A ATA ATA GA-A GTA ACA ATA ATG ATA GTA
1 ATA AT-A -ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
**
6548585 ATA AT- ATAA ATA A-A TATGGA GAGG ATA TATA -TA AT- ATA ATA ATA
1 ATA ATA AT-A ATA ATA -AT--A -ATA ATA -ATA ATA ATA ATA ATA ATA
6548629 AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA ATA ATA AT- ATAA
1 ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA ATA ATA AT-A
* *
6548674 ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
6548693 AATGGCTTAA
Statistics
Matches: 150, Mismatches: 22, Indels: 50
0.68 0.10 0.23
Matches are distributed among these distances:
2 18 0.12
3 101 0.67
4 27 0.18
5 2 0.01
6 2 0.01
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6548688 original size:27 final size:27
Alignment explanation
Indices: 6548615--6548692 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 27
6548605 GAGGATATAT
* *
6548615 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
6548641 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
6548665 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
6548692 A
1 A
6548693 AATGGCTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
23 2 0.05
24 10 0.25
25 11 0.28
26 4 0.10
27 10 0.25
28 3 0.08
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:6549241 original size:30 final size:30
Alignment explanation
Indices: 6549207--6549292 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
6549197 ATTTGATGGT
*
6549207 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
6549237 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
6549267 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
6549293 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:6549290 original size:18 final size:18
Alignment explanation
Indices: 6549239--6549291 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
6549229 GTGGTGGAGT
6549239 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
6549257 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
6549269 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
6549287 AGGTG
1 AGGTG
6549292 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:6552584 original size:25 final size:25
Alignment explanation
Indices: 6552534--6552585 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6552524 CCTTCGTCAA
* * *
6552534 TTAGGTATTCATTAAATTGTATTCT
1 TTAGGCATTCATTAAATTATAATCT
*
6552559 TTAGGCATTCATTAACTTATAATCT
1 TTAGGCATTCATTAAATTATAATCT
6552584 TT
1 TT
6552586 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:6556750 original size:15 final size:15
Alignment explanation
Indices: 6556727--6556768 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
6556717 GAAGCCCAGA
6556727 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* * *
6556742 ATAAAGAAATCTATG
1 ATAAGGAAATCCAAG
6556757 ATAAGGAAATCC
1 ATAAGGAAATCC
6556769 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:6583314 original size:21 final size:21
Alignment explanation
Indices: 6583290--6583332 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6583280 AATGCTCAAA
*
6583290 AAAAT-TTAAAATTCAACTTTT
1 AAAATGTTAAAACTCAA-TTTT
6583311 AAAATGTTAAAACTCAATTTT
1 AAAATGTTAAAACTCAATTTT
6583332 A
1 A
6583333 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:6585418 original size:25 final size:27
Alignment explanation
Indices: 6585390--6585447 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
6585380 GGTTTTAATT
6585390 TAAT-TACAA-AGTTTAAATCATATAA
1 TAATATACAATAGTTTAAATCATATAA
* *
6585415 TAATAATTCAATATTTTAAATCATATAA
1 TAAT-ATACAATAGTTTAAATCATATAA
6585443 TAATA
1 TAATA
6585448 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:6603390 original size:18 final size:17
Alignment explanation
Indices: 6603358--6603391 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6603348 AAATCCTTAC
6603358 ATAATATCTAAATACAA
1 ATAATATCTAAATACAA
*
6603375 ATAATTTCTCAAATACA
1 ATAATATCT-AAATACA
6603392 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:6619623 original size:18 final size:18
Alignment explanation
Indices: 6619600--6619692 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
6619590 CCCAACTACT
*
6619600 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
6619618 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
6619636 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* *
6619654 GTATACGTAAATAGTATC
1 GTATACGTGAATAGTACC
6619672 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
6619690 GTA
1 GTA
6619693 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:6628769 original size:16 final size:17
Alignment explanation
Indices: 6628744--6628776 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6628734 AATGTATTAC
*
6628744 ATATATAAAAA-TAATA
1 ATATAAAAAAATTAATA
6628760 ATATAAAAAAATTAATA
1 ATATAAAAAAATTAATA
6628777 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:6629271 original size:37 final size:37
Alignment explanation
Indices: 6629230--6629335 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
6629220 CTAGCTGCTT
6629230 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
*
6629267 ATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTC
1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
*
6629304 ATAATCTTCTTTGCTGAGG-TTTGTTGAGTTCT
1 ATAATCTTCTTTGCTG-GGTTTTGCTGAGTTCT
6629336 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:6629463 original size:42 final size:42
Alignment explanation
Indices: 6629416--6629500 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
6629406 TGCTGAGTTC
* *
6629416 TGCTGAGTTCCAAGTTCATTTCTAGCTATTCATAATCTTCTT
1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
*
6629458 TGCTGAGTTCTAAGTTCATTTCTAGCTACTCATAATCTACTT
1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT
6629500 T
1 T
6629501 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:6629481 original size:91 final size:89
Alignment explanation
Indices: 6629265--6629466 Score: 307
Period size: 91 Copynumber: 2.2 Consensus size: 89
6629255 GAGTTCTAAG
* *
6629265 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTCATAATCTTCTTTGCTGAGGTTTGTTG
1 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG
**
6629330 AGTTCTGAGTTCATTTCTAGCTAC
66 AGTTCCAAGTTCATTTCTAGCTAC
* *
6629354 TCATAAAATCTTCTTTACTGAGTTTTGCTGAGTTCTAAGCCATTATCTTCTTTGCTGA-GTTCTG
1 TCAT--AATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTT-TG
*
6629418 CTGAGTTCCAAGTTCATTTCTAGCTAT
63 CTGAGTTCCAAGTTCATTTCTAGCTAC
6629445 TCATAATCTTCTTTGCTGAGTT
1 TCATAATCTTCTTTGCTGAGTT
6629467 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:6636546 original size:51 final size:52
Alignment explanation
Indices: 6636481--6636579 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
6636471 ATGAGAAGAA
* * *
6636481 AGTTTAAAACAAATAATATGT-AAAATAATTTTAAGATAAATAATATAAATG
1 AGTTTAAAACAAATAATATGTAAAAAGAAATTTAAAATAAATAATATAAATG
** * *
6636532 AGTTTAAAGTAAATATTATGTAAAAAGAAATTTAAAATAAGTAATATA
1 AGTTTAAAACAAATAATATGTAAAAAGAAATTTAAAATAAATAATATA
6636580 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:6636677 original size:27 final size:25
Alignment explanation
Indices: 6636621--6636795 Score: 97
Period size: 26 Copynumber: 6.9 Consensus size: 25
6636611 TAAAAAATAG
* * *
6636621 ATAATACATATAAAAATTTGAAATTG
1 ATAATATATAAAAAAATTT-AAATTA
*
6636647 ATAATATATGAAAAAAATTTAAAGT-
1 ATAATATAT-AAAAAAATTTAAATTA
** *
6636672 -TAATA-ATAAAACGATTTAAAATGA
1 ATAATATATAAAAAAATTT-AAATTA
* *
6636696 ATAATACATAAAAACAAATTTAAAATAA
1 ATAATATAT-AAAA-AAATTT-AAATTA
* * *
6636724 ATAATATACAAAACAATTTAAAGTGA
1 ATAATATATAAAAAAATTTAAA-TTA
* * * *
6636750 ATAGTATATGAAATAATTTAAAATA
1 ATAATATATAAAAAAATTTAAATTA
* *
6636775 AT-ATATCTAAAACAATTTAAA
1 ATAATATATAAAAAAATTTAAA
6636796 ACAGTTTAAT
Statistics
Matches: 117, Mismatches: 24, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
22 8 0.07
23 5 0.04
24 20 0.17
25 11 0.09
26 39 0.33
27 17 0.15
28 17 0.15
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.31
Consensus pattern (25 bp):
ATAATATATAAAAAAATTTAAATTA
Found at i:6636721 original size:28 final size:26
Alignment explanation
Indices: 6636679--6636796 Score: 109
Period size: 26 Copynumber: 4.5 Consensus size: 26
6636669 AGTTAATAAT
*
6636679 AAAACGATTTAAAATGAATAATACATA-
1 AAAACAATTTAAAATGAATAAT--ATAC
*
6636706 AAAACAAATTTAAAATAAATAATATAC
1 AAAAC-AATTTAAAATGAATAATATAC
* * *
6636733 AAAACAATTTAAAGTGAATAGTATAT
1 AAAACAATTTAAAATGAATAATATAC
* *
6636759 GAAATAATTTAAAAT-AAT-ATAT-C
1 AAAACAATTTAAAATGAATAATATAC
6636782 TAAAACAATTTAAAA
1 -AAAACAATTTAAAA
6636797 CAGTTTAATA
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
24 15 0.20
25 3 0.04
26 32 0.43
27 10 0.13
28 15 0.20
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (26 bp):
AAAACAATTTAAAATGAATAATATAC
Found at i:6636751 original size:54 final size:50
Alignment explanation
Indices: 6636647--6636796 Score: 137
Period size: 50 Copynumber: 2.9 Consensus size: 50
6636637 TTTGAAATTG
* * *
6636647 ATAATATATGAAAAAAATTTAAAGTTAATA-A--TAAAACGATTTAAAATGA
1 ATAATACAT-AAAAAAATTTAAA-ATAATATATCTAAAACAATTTAAAATGA
*
6636696 ATAATACATAAAAACAAATTTAAAATAAATAATATAC-AAAACAATTTAAAGTGA
1 ATAATACAT-AAAA-AAATTTAAAAT-AAT-ATAT-CTAAAACAATTTAAAATGA
* * * *
6636750 ATAGTATATGAAATAATTTAAAATAATATATCTAAAACAATTTAAAA
1 ATAATACATAAAAAAATTTAAAATAATATATCTAAAACAATTTAAAA
6636797 CAGTTTAATA
Statistics
Matches: 83, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
49 14 0.17
50 29 0.35
51 4 0.05
52 11 0.13
53 3 0.04
54 22 0.27
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (50 bp):
ATAATACATAAAAAAATTTAAAATAATATATCTAAAACAATTTAAAATGA
Found at i:6664782 original size:3 final size:3
Alignment explanation
Indices: 6664774--6664813 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6664764 GATTTATCTC
6664774 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
6664814 CTTCTAACTA
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:6665436 original size:12 final size:12
Alignment explanation
Indices: 6665419--6665443 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6665409 AAAGAAACAA
6665419 AATTTCAGATTT
1 AATTTCAGATTT
6665431 AATTTCAGATTT
1 AATTTCAGATTT
6665443 A
1 A
6665444 TTACATGGCA
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTTCAGATTT
Found at i:6674703 original size:67 final size:67
Alignment explanation
Indices: 6674593--6674721 Score: 249
Period size: 67 Copynumber: 1.9 Consensus size: 67
6674583 AATCAATTAG
*
6674593 TACGTGACACACATAACATGTTCTTACCAAATGTTGTATAAATAAATTAAGATGAAATTGAACAG
1 TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAACAG
6674658 CA
66 CA
6674660 TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAA
1 TACGTGACACACATAACATGTTCTTACCAAATGTTGTACAAATAAATTAAGATGAAATTGAA
6674722 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:6677060 original size:12 final size:12
Alignment explanation
Indices: 6677043--6677067 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6677033 TATAAAGTTG
6677043 TTTATTTTTTCA
1 TTTATTTTTTCA
6677055 TTTATTTTTTCA
1 TTTATTTTTTCA
6677067 T
1 T
6677068 CTTTTTAGCT
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:6678160 original size:17 final size:17
Alignment explanation
Indices: 6678138--6678173 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6678128 ATAACATTAA
6678138 AATTATAATT-ATAGATT
1 AATTATAATTGATA-ATT
6678155 AATTATAATTGATAATT
1 AATTATAATTGATAATT
6678172 AA
1 AA
6678174 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:6679126 original size:24 final size:24
Alignment explanation
Indices: 6679076--6679128 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
6679066 AATCAAAGTC
* **
6679076 AAATATATTATGTTAATAAATGTT
1 AAATATATTATATTAATAAATCAT
* *
6679100 AAATATATTATATTCATAAGTCAT
1 AAATATATTATATTAATAAATCAT
6679124 AAATA
1 AAATA
6679129 CTAAATATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (24 bp):
AAATATATTATATTAATAAATCAT
Found at i:6686280 original size:17 final size:18
Alignment explanation
Indices: 6686253--6686295 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
6686243 TGATTTGGAT
6686253 TAATGATACATATAA-ATAA
1 TAAT-ATACATA-AAGATAA
6686272 T-ATATACATAAAGATAA
1 TAATATACATAAAGATAA
6686289 TAATATA
1 TAATATA
6686296 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:6686416 original size:16 final size:16
Alignment explanation
Indices: 6686395--6686425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6686385 TATATATACA
6686395 TACATAGAAAAATATT
1 TACATAGAAAAATATT
*
6686411 TACATAGAATAATAT
1 TACATAGAAAAATAT
6686426 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:6687856 original size:27 final size:27
Alignment explanation
Indices: 6687797--6687857 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
6687787 TTGAGTCCTG
* *
6687797 TTGGGTCTCGGGTTTGGGCTATTGGAA
1 TTGGGTCTAGGGTTTGGGCTATTGCAA
* *
6687824 TCGGGTCTAGGGTTTGGGTTTATT-CAA
1 TTGGGTCTAGGGTTTGGG-CTATTGCAA
6687851 TTGGGTC
1 TTGGGTC
6687858 ATGTTGGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.11, C:0.11, G:0.38, T:0.39
Consensus pattern (27 bp):
TTGGGTCTAGGGTTTGGGCTATTGCAA
Found at i:6698660 original size:58 final size:58
Alignment explanation
Indices: 6698570--6698700 Score: 199
Period size: 58 Copynumber: 2.3 Consensus size: 58
6698560 TTTGACGATA
* * * * *
6698570 AAAAGGATCTAGCCCGGACGGGTGATCCTGATATAAGCCTTCCTGAATAATATGTATG
1 AAAAGGATCTAGCCCAGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
6698628 AAAAGGATCTAGCCCAGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
1 AAAAGGATCTAGCCCAGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
* *
6698686 AAATGGATTTAGCCC
1 AAAAGGATCTAGCCC
6698701 GGAAAAGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (58 bp):
AAAAGGATCTAGCCCAGAAGGGTGATCCTGATATAAGCCCTCCCGAAGAATATGTATG
Found at i:6702309 original size:50 final size:50
Alignment explanation
Indices: 6702228--6702475 Score: 255
Period size: 50 Copynumber: 4.9 Consensus size: 50
6702218 TAAAATGGTT
* * *
6702228 TTAGGTTACGTGTGTAGTACTAAGTGCAGGCTACAACGTGTACCAAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * * *
6702278 TTAGGTCACATGTGTAATACTAGGTGTAGGCTACTATGCGTACCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
6702328 CTTCGATCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTATTC-GATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG
* * * *
6702379 TTAGGTCACGTATGTAGTACTAAGTACAGGCTACTACATATACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * *
6702429 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
6702476 GAGCTTCGGT
Statistics
Matches: 157, Mismatches: 38, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
49 1 0.01
50 117 0.75
51 38 0.24
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:6707355 original size:26 final size:24
Alignment explanation
Indices: 6707316--6707363 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
6707306 GGGTTTGATA
6707316 TTTTTTTTAATTTGATATTTAATT
1 TTTTTTTTAATTTGATATTTAATT
6707340 TTTTTATTTCAATTTGATATTTAA
1 TTTTT-TTT-AATTTGATATTTAA
6707364 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:6707361 original size:21 final size:23
Alignment explanation
Indices: 6707309--6707361 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
6707299 TGTAATTGGG
*
6707309 TTTGATATTTTTTTTAATTTGATA
1 TTTGATA-TTTTTTTAATTTCATA
6707333 TTT-A-ATTTTTTT-ATTTCA-A
1 TTTGATATTTTTTTAATTTCATA
6707352 TTTGATATTT
1 TTTGATATTT
6707362 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:6707366 original size:13 final size:13
Alignment explanation
Indices: 6707324--6707367 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
6707314 TATTTTTTTT
6707324 AATTTGATATTTA
1 AATTTGATATTTA
* ** *
6707337 ATTTTTTTATTTC
1 AATTTGATATTTA
6707350 AATTTGATATTTA
1 AATTTGATATTTA
6707363 AATTT
1 AATTT
6707368 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:6707757 original size:27 final size:28
Alignment explanation
Indices: 6707709--6707769 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
6707699 TAAGTTTAAG
* * *
6707709 TATCAAATTGAACATAAAAAAATT-AGC
1 TATCAAATTGAAAAAAAAAAAATTCAGA
6707736 TATCAAATT-AAAAAAAATAAAATTCAGA
1 TATCAAATTGAAAAAAAA-AAAATTCAGA
6707764 TATCAA
1 TATCAA
6707770 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:6710131 original size:27 final size:27
Alignment explanation
Indices: 6710101--6710174 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 27
6710091 ATTTTGTTTA
6710101 AAAAATAATTAAAAATTATAA-AAATTC
1 AAAAA-AATTAAAAATTATAAGAAATTC
*
6710128 -AAAAAATATAAAAA-TATAAGGAATTTC
1 AAAAAAAT-TAAAAATTATAA-GAAATTC
*
6710155 AAAAAAAATT-ATAATTATAA
1 -AAAAAAATTAAAAATTATAA
6710175 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:6710137 original size:17 final size:16
Alignment explanation
Indices: 6710107--6710142 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
6710097 TTTAAAAAAT
*
6710107 AATTAAAAATTATAAA
1 AATTAAAAAATATAAA
6710123 AATTCAAAAAATATAAA
1 AATT-AAAAAATATAAA
6710140 AAT
1 AAT
6710143 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:6710442 original size:44 final size:41
Alignment explanation
Indices: 6710357--6710469 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 41
6710347 ATAATTAAAA
* * *
6710357 ATTAA-TTATAATTTTTTAATGTGTAATTATTACAACTTCT
1 ATTAACTTATAATTTTTTAATATATAATTATTACAACATCT
**
6710397 ATTAACTTATAATTAGTTTTAAATATATAATTATTGTAACATCT
1 ATTAACTTATAATT--TTTT-AATATATAATTATTACAACATCT
*
6710441 ATTTACTT-TAA-TTTTTAACTA-ATAATTAT
1 ATTAACTTATAATTTTTTAA-TATATAATTAT
6710470 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:6713469 original size:14 final size:14
Alignment explanation
Indices: 6713431--6713477 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 14
6713421 TAAAAGCAAT
* *
6713431 ATTTAATCTTTGAA
1 ATTTAATTTTTTAA
6713445 ATTGGTAATTTTTTAA
1 ATT--TAATTTTTTAA
6713461 ATTTAA-TTTTTAA
1 ATTTAATTTTTTAA
6713474 ATTT
1 ATTT
6713478 TTTTAGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
16 12 0.41
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTAATTTTTTAA
Found at i:6713778 original size:27 final size:27
Alignment explanation
Indices: 6713726--6713778 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
6713716 AGAAGCTACC
* * *
6713726 AAATTTCAGGATTAATGTGGACAAAAT
1 AAATTTCAGGATTAAAGTGAAAAAAAT
6713753 AAATTT-AGGGATTAAAGTGAAAAAAA
1 AAATTTCA-GGATTAAAGTGAAAAAAA
6713779 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:0.04, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATTTCAGGATTAAAGTGAAAAAAAT
Found at i:6714140 original size:4 final size:4
Alignment explanation
Indices: 6714131--6714156 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6714121 TAATTCATTT
6714131 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
6714157 AAGAGCTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:6717751 original size:21 final size:23
Alignment explanation
Indices: 6717727--6717774 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
6717717 ATTTCTTTTT
*
6717727 TTTTATA-TATT-ATATTATTAG
1 TTTTATACTATTGATAGTATTAG
*
6717748 TTTT-TACTATTGTTAGTATTAG
1 TTTTATACTATTGATAGTATTAG
6717770 TTTTA
1 TTTTA
6717775 GCTTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 8 0.36
22 12 0.55
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTATACTATTGATAGTATTAG
Found at i:6718009 original size:3 final size:3
Alignment explanation
Indices: 6717989--6718041 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
6717979 TGCTTTTACC
* *
6717989 ATT ACT ATT ATT ACT ATT ATT A-T ATCT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
6718034 ATT ATT AT
1 ATT ATT AT
6718042 ATTTTAATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:6718062 original size:16 final size:16
Alignment explanation
Indices: 6718006--6718067 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 16
6717996 TTATTACTAT
*
6718006 TATTATATCTATTATTA
1 TATTTTATCTA-TATTA
6718023 TTATTATTAT-TATTATTA
1 -TATT-TTATCTA-TATTA
6718041 TATTTTAATCTATATT-
1 TATTTT-ATCTATATTA
6718057 TATTTTATCTA
1 TATTTTATCTA
6718068 GTTCTACTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 5 0.12
16 8 0.20
17 10 0.25
18 14 0.35
19 3 0.08
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTATCTATATTA
Found at i:6718227 original size:3 final size:3
Alignment explanation
Indices: 6718219--6718256 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6718209 TTTTATTAAC
6718219 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6718257 CACCGTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6718377 original size:24 final size:23
Alignment explanation
Indices: 6718350--6718410 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
6718340 TTTATTATCA
*
6718350 TATTATTGTTATTTTTTACCATAT
1 TATTATTGTTATTCTTTA-CATAT
* *
6718374 TATTATT-TCCTATCCTTTATATAT
1 TATTATTGT--TATTCTTTACATAT
6718398 TATTATTGTTATT
1 TATTATTGTTATT
6718411 AACATACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
23 4 0.13
24 18 0.60
25 8 0.27
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (23 bp):
TATTATTGTTATTCTTTACATAT
Found at i:6718527 original size:3 final size:3
Alignment explanation
Indices: 6718519--6718573 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
6718509 TATTAATTTT
* * * *
6718519 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
6718563 TTA TTA TTA TT
1 TTA TTA TTA TT
6718574 GTCTTTTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
2 3 0.07
3 37 0.88
4 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:6723617 original size:39 final size:39
Alignment explanation
Indices: 6723555--6723633 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
6723545 TGTAGAAGGA
* *
6723555 TATGAGTTTGAGTGTGCTGAAACGCATTATTCTTCTATT
1 TATGAGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
*
6723594 TATGGGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
1 TATGAGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
6723633 T
1 T
6723634 TTTTCCAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (39 bp):
TATGAGTTTGAGTGTGCTAAAACGCATTATCCTTCTATT
Found at i:6726996 original size:24 final size:24
Alignment explanation
Indices: 6726969--6727087 Score: 184
Period size: 24 Copynumber: 5.0 Consensus size: 24
6726959 TACTGCTGGA
6726969 ATGCCTCCCAACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
6726993 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
*
6727017 ATGCCTCCCCACAACATGGGAGGG
1 ATGCCTCCCAACAACATGGGAGGG
* *
6727041 ATGCCACCCAACAACATGGGAAGG
1 ATGCCTCCCAACAACATGGGAGGG
* *
6727065 ATGCCACCCAACAATATGGGAGG
1 ATGCCTCCCAACAACATGGGAGG
6727088 AATGACACCG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 89 1.00
ACGTcount: A:0.30, C:0.30, G:0.28, T:0.12
Consensus pattern (24 bp):
ATGCCTCCCAACAACATGGGAGGG
Found at i:6727193 original size:48 final size:51
Alignment explanation
Indices: 6727122--6727280 Score: 155
Period size: 60 Copynumber: 2.9 Consensus size: 51
6727112 CGGTAAGATG
* *
6727122 CCTGGAAATGCTCCA-AACTTCCAAACTGG-CC-CC-AACTATGGAAACGCT
1 CCTGGAAATGC-GCAGAACTTCCAACCTGGTCCGCCTAACTATGGAAACGCT
6727170 CCTGGAAATGCGCAGAACTTCCAACCCGGTCCTGGTCCTGGTCCTAACTATGGAAACGCT
1 CCTGGAAATGCGCAGAACTTCCAA------CCTGGTCC--G-CCTAACTATGGAAACGCT
6727230 CCTGGAAATGCGCAGAACTTCCAACCTGGTCCTGGTCCTAACTATGGAAAC
1 CCTGGAAATGCGCAGAACTTCCAACCTGGTCC--G-CCTAACTATGGAAAC
6727281 ACACCTTACG
Statistics
Matches: 96, Mismatches: 2, Indels: 20
0.81 0.02 0.17
Matches are distributed among these distances:
47 2 0.02
48 20 0.21
54 31 0.32
55 2 0.02
59 2 0.02
60 39 0.41
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (51 bp):
CCTGGAAATGCGCAGAACTTCCAACCTGGTCCGCCTAACTATGGAAACGCT
Found at i:6727228 original size:60 final size:60
Alignment explanation
Indices: 6727155--6727268 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 60
6727145 AACTGGCCCC
6727155 AACTATGGAAACGCTCCTGGAAATGCGCAGAACTTCCAACCCGGTCCTGGTCCTGGTCCT
1 AACTATGGAAACGCTCCTGGAAATGCGCAGAACTTCCAACCCGGTCCTGGTCCTGGTCCT
*
6727215 AACTATGGAAACGCTCCTGGAAATGCGCAGAACTTCCAACCTGGTCCTGGTCCT
1 AACTATGGAAACGCTCCTGGAAATGCGCAGAACTTCCAACCCGGTCCTGGTCCT
6727269 AACTATGGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.22
Consensus pattern (60 bp):
AACTATGGAAACGCTCCTGGAAATGCGCAGAACTTCCAACCCGGTCCTGGTCCTGGTCCT
Found at i:6728327 original size:6 final size:6
Alignment explanation
Indices: 6728316--6728344 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6728306 TGTGCAGTCA
6728316 AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
1 AAGAAC AAGAAC AAGAAC AAGAAC AAGAA
6728345 GAACAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAC
Found at i:6735062 original size:29 final size:29
Alignment explanation
Indices: 6735020--6735078 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
6735010 AAAAAAAGAT
6735020 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
* *
6735049 AGAGAGATATAAGAGTTTGTTGGGATAGA
1 AGAGAGATAAAAGAGTTTGTTGGGAGAGA
6735078 A
1 A
6735079 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:6738468 original size:30 final size:31
Alignment explanation
Indices: 6738432--6738498 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
6738422 GGTTTCATTT
* *
6738432 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
6738462 CAGTCACTAACGTTATAAAAAAGTTACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
6738493 CAGTCA
1 CAGTCA
6738499 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:6742599 original size:38 final size:38
Alignment explanation
Indices: 6742548--6742670 Score: 192
Period size: 38 Copynumber: 3.2 Consensus size: 38
6742538 TTGAAATACG
*
6742548 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
6742586 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
6742624 ATATCTGGGTTAAATCCCGCAAGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
6742662 ATATTCGGG
1 ATATCCGGG
6742671 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:6742760 original size:45 final size:45
Alignment explanation
Indices: 6742664--6742791 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 45
6742654 CTGGTATTAT
* * * * *
6742664 ATTCGGGCCTTT-GAGCCTAACAGACTATTATGACAGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGA-ACATG
*
6742709 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGTCGGTGAA-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGAACATG
* *
6742753 ATATCGGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 AT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGAA
6742792 TGAATAAAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 11 0.15
43 16 0.22
44 4 0.05
45 20 0.27
46 22 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (45 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGACGGTGAACATG
Found at i:6746405 original size:14 final size:15
Alignment explanation
Indices: 6746386--6746416 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6746376 TAGGCAAATA
6746386 AGAC-TTTTTTTTAC
1 AGACTTTTTTTTTAC
6746400 AGACTTTTTTTTTAC
1 AGACTTTTTTTTTAC
6746415 AG
1 AG
6746417 TCTTCTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.55
Consensus pattern (15 bp):
AGACTTTTTTTTTAC
Found at i:6746650 original size:30 final size:31
Alignment explanation
Indices: 6746585--6746653 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
6746575 ACTGTTAATC
* *
6746585 AGTGACTGTTTTGTCATTTTTTTATAACGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
* *
6746616 AGTGATTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
6746645 GAGTGACTG
1 -AGTGACTG
6746654 AAATAAAAAT
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:6749350 original size:159 final size:159
Alignment explanation
Indices: 6749061--6749723 Score: 1088
Period size: 159 Copynumber: 4.2 Consensus size: 159
6749051 AGTATCCGTG
* * *
6749061 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
6749126 GATCTGCTTGACTCTGACCTGGTACATTCG-ATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTG
66 GATCTGTTTGACTCTGACCTGCTACATTCGAAT-GAAATTGCCCAGTATGCTGAGAGTTCGAGTG
6749190 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
130 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
*
6749220 ATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* *
6749285 GATCTGTTTGACTCTGACGTGCTACATTCGAATGAAATTGCCCAGTATGGTGAGAGTTCGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
6749350 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
*
6749379 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * * *
6749444 GATCTG--T---T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
6749503 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
* *
6749532 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACAGAATTTGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAATTCGTTA
* * ** *
6749597 GATCTGTTTGACTCTGACCTACTACATTCGATTGAAATTGCCCAGTATGCTGAGAGTTTAACTGA
66 GATCTGTTTGACTCTGACCTGCTACATTCGAATGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
6749662 TGAATCAGAGTCTGGTTCTGACGTGTTTC
131 TGAATCAGAGTCTGGTTCTGACGTGTTTC
6749691 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
6749724 TTCCCAAAAG
Statistics
Matches: 475, Mismatches: 22, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
153 144 0.30
154 1 0.00
155 1 0.00
157 1 0.00
158 1 0.00
159 325 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:6749635 original size:312 final size:315
Alignment explanation
Indices: 6749061--6749723 Score: 1125
Period size: 312 Copynumber: 2.1 Consensus size: 315
6749051 AGTATCCGTG
* *
6749061 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATACACCAAGCTGTCACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
*
6749126 GATCTGCTTGACTCTGACCTGGTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
66 GATCTGC-T-A-TCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
6749191 TGAATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCAC
128 TGAATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCAC
* * *
6749256 CAAGCTGTCACTCGGCACTGAATTCGTTAGATCTGTTTGACTCTGACGTGCTACATTCGAATGAA
193 CAAGCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAA
* * *
6749321 ATTGCCCAGTATGGTGAGAGTTCGAGTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
258 ATTGCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
6749379 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
* * * *
6749444 GATCTG-T-T-TGACCTGCTACATTCGATTGAAATTTCCCAGTATGGTGAGAGTTTGAGTGATGA
66 GATCTGCTATCTGACCTGCTACATTCGATCGAAATTGCCCAGTATGCTGAGAGTTCGAGTGATGA
*
6749506 ATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAA
131 ATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAA
* *
6749571 GCTGTCACTCGGCACAGAATTTGTTAGATCTGTTTGACTCTGACCTACTACATTCGATTGAAATT
196 GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAAATT
*
6749636 GCCCAGTATGCTGAGAGTTTAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
261 GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
6749691 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATG
6749724 TTCCCAAAAG
Statistics
Matches: 328, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
312 257 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
ATCAGAGTCTGGTTCTGACGTGTTTCATTCAATTGAGGTTGACTTGTTGGTTGAGGATGCACCAA
GCTGTCACTCGGCACAGAATTCGTTAGATCTGTTTGACTCTGACCTACTACATTCGAATGAAATT
GCCCAGTATGCTGAGAGTTCAACTGATGAATCAGAGTCTGGTTCTGACGTGTTTC
Found at i:6756367 original size:8 final size:8
Alignment explanation
Indices: 6756354--6756412 Score: 54
Period size: 8 Copynumber: 7.9 Consensus size: 8
6756344 TATATTTAGT
6756354 TATATATC
1 TATATATC
6756362 TATATATC
1 TATATATC
*
6756370 T-TAT-TA
1 TATATATC
6756376 TATATATC
1 TATATATC
*
6756384 CATATATC
1 TATATATC
*
6756392 T-TA-ATA
1 TATATATC
*
6756398 TATATATA
1 TATATATC
6756406 TATATAT
1 TATATAT
6756413 GTGCATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
6 5 0.12
7 10 0.24
8 27 0.64
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATATC
Found at i:6756382 original size:22 final size:22
Alignment explanation
Indices: 6756354--6756412 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
6756344 TATATTTAGT
*
6756354 TATATATCTATATATCTTATTA
1 TATATATCTATATATCTTAATA
*
6756376 TATATATCCATATATCTTAATA
1 TATATATCTATATATCTTAATA
*
6756398 TATATATATATATAT
1 TATATATCTATATAT
6756413 GTGCATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATATCTATATATCTTAATA
Found at i:6757194 original size:109 final size:109
Alignment explanation
Indices: 6756997--6757198 Score: 352
Period size: 109 Copynumber: 1.9 Consensus size: 109
6756987 AAATATTTCC
6756997 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
*
6757062 CTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAA
66 CTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAA
*
6757106 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
* *
6757171 CTCGTTTAACCAAATTG-TCAAATATCCT
66 CTCGTTCAACCAAATAGCT-AAATATCCT
6757199 ATTGAATTTA
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 1 0.01
109 87 0.99
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (109 bp):
AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
CTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAACTTTTCAA
Found at i:6758662 original size:15 final size:16
Alignment explanation
Indices: 6758642--6758674 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6758632 GACTATTAGT
*
6758642 TTTTTCTATTAA-TCA
1 TTTTTCTAATAATTCA
6758657 TTTTTCTAATAATTCA
1 TTTTTCTAATAATTCA
6758673 TT
1 TT
6758675 GATTTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTCTAATAATTCA
Found at i:6760970 original size:61 final size:61
Alignment explanation
Indices: 6760903--6761026 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
6760893 GAAGAGTCAC
6760903 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
1 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
6760964 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
1 ACGCTCGTGTTTTCAACCCGTGTAACTCTCTGTTTATAATTTCATCACCCTTGTCAGTAGT
6761025 AC
1 AC
6761027 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:6761672 original size:42 final size:42
Alignment explanation
Indices: 6761623--6761736 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
6761613 CTTCGTTTTC
* * *
6761623 TCGATGCCATAGTTCAACTATGGTCCTACACATCTTCACATAA
1 TCGATGCCATAGTTCAGCTATGGTCTTACACATATTCACAT-A
** *
6761666 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTTCAGCTATGGTCTTACACATATTCACATA
6761707 TCGATGCCATA-TTCCAGCTATGGTCTTACA
1 TCGATGCCATAGTT-CAGCTATGGTCTTACA
6761737 TGAATCACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 58 0.95
43 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGTTCAGCTATGGTCTTACACATATTCACATA
Found at i:6761810 original size:47 final size:48
Alignment explanation
Indices: 6761708--6761830 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 48
6761698 ATTCATATAT
* * * *
6761708 CGATGCCATATTCCAGCTATGGTC-T-TACATGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCACAC
* * * *
6761754 TGACGCCATATCCCAGATATGGTCTTATACA-GTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCACAC
6761801 CGATGCCATATCCCAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
6761831 GGAAATCACT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 20 0.31
47 41 0.63
48 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (48 bp):
CGATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCACAC
Found at i:6761933 original size:45 final size:45
Alignment explanation
Indices: 6761869--6761955 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
6761859 GCCGAAGCTA
*
6761869 CCACTATTCACTGATCAGGTAGCCGGTGCTACCACTTTTCACGCT
1 CCACTATTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACGCT
*
6761914 CCACTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCAC
1 CCACTATTCACTGATCAGGTAGCCGGAGCTACCACTTTTCAC
6761956 TGTTCAGGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (45 bp):
CCACTATTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACGCT
Found at i:6761952 original size:31 final size:31
Alignment explanation
Indices: 6761914--6762018 Score: 165
Period size: 31 Copynumber: 3.4 Consensus size: 31
6761904 TTTTCACGCT
* *
6761914 CCACTTTTCACTGATCAGGTAGCCGGAGCTA
1 CCACTTTTCACTGATCAGGTAGCAGAAGCTA
* *
6761945 CCACTTTTCACTGTTCAGGTAGCATAAGCTA
1 CCACTTTTCACTGATCAGGTAGCAGAAGCTA
*
6761976 CCACTTTTCACTGATCAGGTAGCTGAAGCTA
1 CCACTTTTCACTGATCAGGTAGCAGAAGCTA
6762007 CCACTTTTCACT
1 CCACTTTTCACT
6762019 TGTGATTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (31 bp):
CCACTTTTCACTGATCAGGTAGCAGAAGCTA
Found at i:6762100 original size:50 final size:51
Alignment explanation
Indices: 6761994--6762122 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 51
6761984 CACTGATCAG
* * * *
6761994 GTAGCTGAAGCTACCACTTTTCACTTGTGATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
6762045 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
6762095 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
6762123 TGCAATGGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 43 0.61
51 27 0.39
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:6765803 original size:13 final size:13
Alignment explanation
Indices: 6765782--6765852 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
6765772 AAATTTTTTC
6765782 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
6765795 AAAGTACTTCTCA
1 AAAGCACTTCTCA
*
6765808 AAAGCACTTCTCC
1 AAAGCACTTCTCA
* * *
6765821 ACAGCACTTTTTA
1 AAAGCACTTCTCA
* *
6765834 AAAGTACTTTTCA
1 AAAGCACTTCTCA
6765847 AAAGCA
1 AAAGCA
6765853 ATGAAGAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.28
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:6767569 original size:109 final size:109
Alignment explanation
Indices: 6767433--6767632 Score: 348
Period size: 109 Copynumber: 1.8 Consensus size: 109
6767423 TAAATTCAAT
*
6767433 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
6767498 TTTCCAAACGCAAAACATTGCCTTATCTTTGAAAAGTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATCTTTGAAAAGTTTTTAAA
* *
6767542 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
6767606 ATTTCCAAACGCAAAATATTGCCTTAT
65 ATTTCCAAACGCAAAACATTGCCTTAT
6767633 TTGGAAATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
108 1 0.01
109 85 0.99
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (109 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATCTTTGAAAAGTTTTTAAA
Found at i:6768230 original size:8 final size:8
Alignment explanation
Indices: 6768219--6768273 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
6768209 ATATATGCAC
*
6768219 ATATATAT
1 ATATATAG
6768227 ATATATTAAG
1 ATATA-T-AG
*
6768237 ATATATGG
1 ATATATAG
*
6768245 ATATATAT
1 ATATATAG
6768253 A-ATA-AG
1 ATATATAG
6768259 ATATATAG
1 ATATATAG
6768267 ATATATA
1 ATATATA
6768274 ACTAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.16
8 22 0.58
9 2 0.05
10 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (8 bp):
ATATATAG
Found at i:6768251 original size:22 final size:22
Alignment explanation
Indices: 6768223--6768273 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
6768213 ATGCACATAT
* *
6768223 ATATATATATTAAGATATATGG
1 ATATATATAATAAGATATATAG
6768245 ATATATATAATAAGATATATAG
1 ATATATATAATAAGATATATAG
6768267 ATATATA
1 ATATATA
6768274 ACTAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (22 bp):
ATATATATAATAAGATATATAG
Found at i:6770075 original size:44 final size:42
Alignment explanation
Indices: 6769909--6770077 Score: 131
Period size: 44 Copynumber: 3.8 Consensus size: 42
6769899 GATCTGCCCT
* * * * * *
6769909 ACTGTAACTTCAGAGAGATAAGATCAATCATTTTAACCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT--TTCACTTCAATCCGCTCC
* * *
6769953 ACTACAACTTCAGGGAGATAAGATCTACTACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TTC-ACTTCAATCCGCTCC
* * * * *
6769997 TCTGCAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-TC-ACTTCAATCCGCTCC
*
6770041 ACTGCAACCTCAGGGAGATAAGATTTGCACCTTCAAT
1 ACTGCAACTTCAGGGAGATAAGATTT-CA-CTTCAAT
6770078 TTACCCCACT
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.03
44 96 0.97
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
ACTGCAACTTCAGGGAGATAAGATTTCACTTCAATCCGCTCC
Found at i:6770401 original size:125 final size:125
Alignment explanation
Indices: 6770195--6770428 Score: 360
Period size: 125 Copynumber: 1.9 Consensus size: 125
6770185 CGTCATTGTA
* * *
6770195 GCTTTAATCTTTTTAACTGCAATATCGGAGAAACAAGATTCGCCAATTTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTATTCC
* *
6770260 ACTGCATCGCTTGGGGCGTAAGATTCGTTATTGTAGCTTTAATCAAGATTCATCGATGTG
66 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTCAATCAAGATTCATCGATGTG
* * * * * *
6770320 GCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTGTTCC
1 GCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTATTCC
*
6770385 ACTGCATCGCTTGGGGCGTAAGATTCGCTGTTGTAGCTTCAATC
66 ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTCAATC
6770429 TTCTTAATTG
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 97 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (125 bp):
GCTTTAATCTTTTTAACTGCAATATAGGAGAAACAAGATTCACCAATGTGGCTTTAATCTATTCC
ACTGCATCGCTTGGGGCGTAAGATTCGCTATTGTAGCTTCAATCAAGATTCATCGATGTG
Found at i:6770626 original size:45 final size:45
Alignment explanation
Indices: 6770570--6770688 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 45
6770560 CTTCGTTGTT
*
6770570 AGTACAAGAAGGCAAGATCTGCTATCTTCATTCTACTCCGCTGTC-
1 AGTACAAGAAGGCAAGATCTGCTGTCTTCA-TCTACTCCGCTGTCA
* * * * *
6770615 AGTACAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCA
1 AGTACAAGAAGGCAAGATCTGCTGTCTTC-ATCTACTCCGCTGTCA
*
6770660 AG-GCAAGAAGGCAAGATCTGCTGTCTTCA
1 AGTACAAGAAGGCAAGATCTGCTGTCTTCA
6770689 ACCATCTCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
44 33 0.54
45 28 0.46
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (45 bp):
AGTACAAGAAGGCAAGATCTGCTGTCTTCATCTACTCCGCTGTCA
Found at i:6770658 original size:44 final size:45
Alignment explanation
Indices: 6770544--6770675 Score: 135
Period size: 45 Copynumber: 3.0 Consensus size: 45
6770534 TTGAAAACTA
* * * *
6770544 TGGTTTCTTCGATCTGCTTCGTTGTTAGTACAAGAAGGCAAGATC
1 TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGC
* * * *
6770589 TGCTATCTTC-ATTCTACTCCGCTGTCAGTACAGGAAGGCAAG-GC
1 TGGTATCTTCGA-TCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGC
* *
6770633 TGGTGTCTTCGATCTGCTTCGCTGTCAAG-GCAAGAAGGCAAGA
1 TGGTATCTTCGATCTGCTTCGCTGTC-AGTACAAGAAGGCAAGA
6770676 TCTGCTGTCT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
44 33 0.48
45 36 0.52
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (45 bp):
TGGTATCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGAGC
Found at i:6770748 original size:88 final size:88
Alignment explanation
Indices: 6770635--6770817 Score: 271
Period size: 88 Copynumber: 2.1 Consensus size: 88
6770625 GGCAAGGCTG
* *
6770635 GTGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTCAACCATCTCCA-
1 GTGTCTTCGATCTGCTTCGCCGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCAT
6770699 CTACAACCGAGAGAGGCAAAGTTT
66 C-ACAACCGAGAGAGGCAAAGTTT
* * **
6770723 GTGTCTTCGA-CTTGCTTCGCCGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA
1 GTGTCTTCGATC-TGCTTCGCCGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCA
*
6770787 TCACAACCGAGAGAGGCAAGGTTT
65 TCACAACCGAGAGAGGCAAAGTTT
6770811 GTGTCTT
1 GTGTCTT
6770818 TGACCATCTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
87 1 0.01
88 84 0.98
89 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (88 bp):
GTGTCTTCGATCTGCTTCGCCGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCAT
CACAACCGAGAGAGGCAAAGTTT
Found at i:6770837 original size:131 final size:131
Alignment explanation
Indices: 6770689--6770953 Score: 449
Period size: 131 Copynumber: 2.0 Consensus size: 131
6770679 GCTGTCTTCA
* *
6770689 ACCATCTCCACTACAACCGAGAGAGGCAAAGTTTGTGTCTTCGACTTGCTTCGCCGTCAATGCAG
1 ACCATCTCCACTACAACCGAGAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAACGCAG
* *
6770754 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTT
66 GAAGGCAAGATCTTTTGTCTTCAAACAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTT
6770819 G
131 G
* * *
6770820 ACCATCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACGCAG
1 ACCATCTCCACTACAACCGAGAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAACGCAG
* *
6770885 GAAGGCAAGATCTTTTGTTTTCAAACAGCTCCATCACAACCGACAGATGCAAGGTTTGTGTCTTT
66 GAAGGCAAGATCTTTTGTCTTCAAACAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTT
6770950 G
131 G
6770951 ACC
1 ACC
6770954 TGCTTCGCTG
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (131 bp):
ACCATCTCCACTACAACCGAGAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAACGCAG
GAAGGCAAGATCTTTTGTCTTCAAACAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTT
G
Found at i:6770861 original size:43 final size:43
Alignment explanation
Indices: 6770681--6770865 Score: 166
Period size: 43 Copynumber: 4.3 Consensus size: 43
6770671 CAAGATCTGC
* *
6770681 TGTCTTCAACCATCTCCACTACAACCGAGAGAGGCAAAGTTTG
1 TGTCTTCGACCATCTCCACTACAACCGAGAGAGGCAAGGTTTG
* * * *
6770724 TGTCTTCGA-CTTGCTTCGC-CGT-CAA-TGCAG-GAAGGCAAGATCTTT
1 TGTCTTCGACCAT-C-TC-CAC-TACAACCG-AGAG-AGGCAAGGT-TTG
* *
6770769 TGTCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTG
1 TGTCTTCGACCATCTCCACT-ACAACCGAGAGAGGCAAGGTTTG
*
6770812 TGTCTTTGACCATCTCCACTACAACCGAGAGAGGCAAGGTTTG
1 TGTCTTCGACCATCTCCACTACAACCGAGAGAGGCAAGGTTTG
*
6770855 TGTCTTTGACC
1 TGTCTTCGACC
6770866 TGCTTCGCTG
Statistics
Matches: 113, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
42 3 0.03
43 63 0.56
44 31 0.27
45 15 0.13
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
TGTCTTCGACCATCTCCACTACAACCGAGAGAGGCAAGGTTTG
Found at i:6770937 original size:88 final size:88
Alignment explanation
Indices: 6770832--6771247 Score: 615
Period size: 88 Copynumber: 4.8 Consensus size: 88
6770822 CATCTCCACT
*
6770832 ACAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACGCAGGAAGGCAAGATC
1 ACAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
* *
6770897 TTTTGTTTTCAAACAGCTCCATC
66 TTTTGTCTTCAACCAGCTCCATC
* * **
6770920 ACAACCGACAGATGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACCCAGGAAGGCAAGATC
1 ACAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
*
6770985 TATTGTCTTCAACCAGCTCCATC
66 TTTTGTCTTCAACCAGCTCCATC
* * *
6771008 ACAACCGACAGAGGCAAGGTTTG-GT-TTTCGATCTGCTTCGCTGTCAATGCAGGAAGGTAAGAT
1 ACAACCGAGAGAGGCAAGGTTTGTGTCTTT-GACCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
6771071 CTTTTGTCTTCAACCAGCTCCATC
65 CTTTTGTCTTCAACCAGCTCCATC
* * *
6771095 ACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGTAAGATC
1 ACAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
6771160 TTTTGTCTTCAACCAGCTCCATC
66 TTTTGTCTTCAACCAGCTCCATC
* * * * *
6771183 ACAACCGAGAGAGGCAAGGTTT-TGT-TTTCAATCTGCTTCACTGTTAATGCAGAAAGGCAAGAT
1 ACAACCGAGAGAGGCAAGGTTTGTGTCTTT-GACCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
6771246 CT
65 CT
6771248 GCTATCTTCA
Statistics
Matches: 300, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
86 5 0.02
87 109 0.36
88 184 0.61
89 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (88 bp):
ACAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATC
TTTTGTCTTCAACCAGCTCCATC
Found at i:6771003 original size:219 final size:219
Alignment explanation
Indices: 6770624--6771030 Score: 609
Period size: 219 Copynumber: 1.9 Consensus size: 219
6770614 CAGTACAGGA
* *
6770624 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAAGGCAAGAAGGCAAGATCTGCTGTCTTCA
1 AGGCAAGGCTGGTGTCTTCGACCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTGCTGTCTTCA
* * * * **
6770689 ACCATCTCCACTACAACCGAGAGAGGCAAAGTTTGTGTCTTCGACTTGCTTCGCCGTCAATGCAG
66 AACAGCTCCACTACAACCGACAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAACCCAG
* *
6770754 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTGTCTTT
131 GAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTT
6770819 GACCATCTCCACTACAACCGAGAG
196 GACCATCTCCACTACAACCGAGAG
* * * * ** *
6770843 AGGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTTTTGTTTTCA
1 AGGCAAGGCTGGTGTCTTCGACCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTGCTGTCTTCA
* * * *
6770908 AACAGCTCCA-TCACAACCGACAGATGCAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAACCCA
66 AACAGCTCCACT-ACAACCGACAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAACCCA
6770972 GGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGACAGAGGCAAGGTTTG
130 GGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGACAGAGGCAAGGTTTG
6771031 GTTTTCGATC
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
218 1 0.01
219 165 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (219 bp):
AGGCAAGGCTGGTGTCTTCGACCTGCTTCGCTGTCAACGCAAGAAGGCAAGATCTGCTGTCTTCA
AACAGCTCCACTACAACCGACAGAGGCAAAGTTTGTGTCTTCGACCTGCTTCGCCGTCAACCCAG
GAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTT
GACCATCTCCACTACAACCGAGAG
Found at i:6771091 original size:175 final size:175
Alignment explanation
Indices: 6770832--6771247 Score: 636
Period size: 175 Copynumber: 2.4 Consensus size: 175
6770822 CATCTCCACT
* *
6770832 ACAACCGAGAGAGGCAAGGTTTGTGTCTTT-GACCTGCTTCGCTGTCAACGCAGGAAGGCAAGAT
1 ACAACCGAGAGAGGCAAGGTTTG-GT-TTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
* * *
6770896 CTTTTGTTTTCAAACAGCTCCATCACAACCGACAGATGCAAGGTTTGTGTCTTTGACCTGCTTCG
64 CTTTTGTCTTCAAACAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCG
6770961 CTGTCAACCCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATC
129 CTGTCAACCCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATC
* *
6771008 ACAACCGACAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGTAAGATCT
1 ACAACCGAGAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
* * *
6771073 TTTGTCTTCAACCAGCTCCATCACAATCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCT
66 TTTGTCTTCAAACAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCT
** * *
6771138 GTCAATGCAGGAAGGTAAGATCTTTTGTCTTCAACCAGCTCCATC
131 GTCAACCCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATC
* * * * *
6771183 ACAACCGAGAGAGGCAAGGTTTTGTTTTCAATCTGCTTCACTGTTAATGCAGAAAGGCAAGATCT
1 ACAACCGAGAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
6771248 GCTATCTTCA
Statistics
Matches: 218, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
174 3 0.01
175 193 0.89
176 22 0.10
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (175 bp):
ACAACCGAGAGAGGCAAGGTTTGGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
TTTGTCTTCAAACAGCTCCATCACAACCGACAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCT
GTCAACCCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATC
Found at i:6772507 original size:14 final size:14
Alignment explanation
Indices: 6772483--6772542 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
6772473 TCCCCTTAGA
6772483 CTTTCCATTTTT-ACT
1 CTTT-CATTTTTCA-T
6772498 CTTTCATTTTTCAT
1 CTTTCATTTTTCAT
* *
6772512 TTTTCATTTTCCAT
1 CTTTCATTTTTCAT
*
6772526 -TTTCATTCTTCAT
1 CTTTCATTTTTCAT
6772539 CTTT
1 CTTT
6772543 TTTCTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
13 11 0.28
14 23 0.59
15 5 0.13
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTTCATTTTTCAT
Found at i:6772511 original size:7 final size:7
Alignment explanation
Indices: 6772499--6772543 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
6772489 ATTTTTACTC
6772499 TTTCATT
1 TTTCATT
6772506 TTTCATT
1 TTTCATT
6772513 TTTCATT
1 TTTCATT
*
6772520 TTCCA-T
1 TTTCATT
6772526 TTTCATT
1 TTTCATT
*
6772533 CTTCATCT
1 TTTCAT-T
6772541 TTT
1 TTT
6772544 TTCTTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:6772886 original size:6 final size:6
Alignment explanation
Indices: 6772875--6772915 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
6772865 TTGACCCCTC
* *
6772875 CTTTTT CTTTTT CTTTTT CTCTCT -TTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
6772916 TCTATTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 3 0.10
6 27 0.90
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:6772904 original size:23 final size:22
Alignment explanation
Indices: 6772876--6772923 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 22
6772866 TGACCCCTCC
*
6772876 TTTTTCTTTTTCTTTTTCTCTCT
1 TTTTTCTTTTTCTTTTT-TCTAT
6772899 TTTTTCTTTTTCTTTTTTCTAT
1 TTTTTCTTTTTCTTTTTTCTAT
6772921 TTT
1 TTT
6772924 GACTTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTCTTTTTCTTTTTTCTAT
Found at i:6772935 original size:21 final size:21
Alignment explanation
Indices: 6772911--6772965 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
6772901 TTTCTTTTTC
6772911 TTTTTTCTATTTTGA-CTTTGA
1 TTTTTT-TATTTTGATCTTTGA
*
6772932 TTTTTTTATTTTTGATTTTTGA
1 TTTTTTTA-TTTTGATCTTTGA
6772954 TTTTTTTATTTT
1 TTTTTTTATTTT
6772966 TTTCTAGTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
22 13 0.42
ACGTcount: A:0.13, C:0.04, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTTTTATTTTGATCTTTGA
Found at i:6772936 original size:22 final size:22
Alignment explanation
Indices: 6772911--6772966 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
6772901 TTTCTTTTTC
6772911 TTTTTTCTA-TTTTGA-CTTTGA
1 TTTTTT-TATTTTTGATCTTTGA
*
6772932 TTTTTTTATTTTTGATTTTTGA
1 TTTTTTTATTTTTGATCTTTGA
6772954 TTTTTTTATTTTT
1 TTTTTTTATTTTT
6772967 TTCTAGTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 2 0.06
21 12 0.38
22 18 0.56
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTTTTGATCTTTGA
Found at i:6772964 original size:15 final size:14
Alignment explanation
Indices: 6772927--6772968 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
6772917 CTATTTTGAC
6772927 TTTGATTTTTTTATT
1 TTTGATTTTTTT-TT
6772942 TTTGATTTTTGATTTT
1 TTTGATTTTT--TTTT
6772958 TTT-ATTTTTTT
1 TTTGATTTTTTT
6772969 CTAGTCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.08
15 16 0.64
16 5 0.20
17 2 0.08
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (14 bp):
TTTGATTTTTTTTT
Found at i:6778887 original size:109 final size:109
Alignment explanation
Indices: 6778751--6778950 Score: 348
Period size: 109 Copynumber: 1.8 Consensus size: 109
6778741 TAAATTCAAT
*
6778751 AGGATATTTGACAATTTGGTTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
6778816 TTTCCAAACGCAAAACATTGCCTTATCTTTGAAAAGTTTTTAAA
66 TTTCCAAACGCAAAACATTGCCTTATCTTTGAAAAGTTTTTAAA
* *
6778860 AGGATATTT-AGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTGA-CAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
6778924 ATTTCCAAACGCAAAATATTGCCTTAT
65 ATTTCCAAACGCAAAACATTGCCTTAT
6778951 TTGGAAATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
108 1 0.01
109 85 0.99
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (109 bp):
AGGATATTTGACAATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATCTTTGAAAAGTTTTTAAA
Found at i:6779549 original size:8 final size:8
Alignment explanation
Indices: 6779538--6779591 Score: 58
Period size: 8 Copynumber: 6.9 Consensus size: 8
6779528 ATATATGCAC
*
6779538 ATATATAT
1 ATATATAG
6779546 ATATATAAG
1 ATATAT-AG
*
6779555 ATATATGG
1 ATATATAG
*
6779563 ATATATAT
1 ATATATAG
6779571 A-ATA-AG
1 ATATATAG
6779577 ATATATAG
1 ATATATAG
6779585 ATATATA
1 ATATATA
6779592 ACTAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 2 0.05
7 6 0.16
8 23 0.61
9 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (8 bp):
ATATATAG
Found at i:6779578 original size:22 final size:23
Alignment explanation
Indices: 6779540--6779591 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
6779530 ATATGCACAT
*
6779540 ATATATATATATAAGATATATGG
1 ATATATATATATAAGATATATAG
6779563 ATATATATA-ATAAGATATATAG
1 ATATATATATATAAGATATATAG
6779585 ATATATA
1 ATATATA
6779592 ACTAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (23 bp):
ATATATATATATAAGATATATAG
Found at i:6787367 original size:21 final size:21
Alignment explanation
Indices: 6787331--6787372 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6787321 TAAAATTTTC
* *
6787331 TCGAATCGAGTGAAATAGAAT
1 TCGAATCGAATCAAATAGAAT
*
6787352 TCGAATCGAATCAAATCGAAT
1 TCGAATCGAATCAAATAGAAT
6787373 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (21 bp):
TCGAATCGAATCAAATAGAAT
Found at i:6787753 original size:17 final size:17
Alignment explanation
Indices: 6787711--6787757 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6787701 AATTCAATTT
*
6787711 TAATATAAAT-ATTTAA
1 TAATATAAATAATTCAA
6787727 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
6787745 TAATATAAATAAT
1 TAATATAAATAAT
6787758 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:6788081 original size:14 final size:14
Alignment explanation
Indices: 6788062--6788109 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
6788052 TTTTAAGGGT
6788062 TTTTGAGAGTAAAA
1 TTTTGAGAGTAAAA
*
6788076 TTTTGAG-GAAAAA
1 TTTTGAGAGTAAAA
**
6788089 TGAATGAGAGTAAAA
1 T-TTTGAGAGTAAAA
6788104 TTTTGA
1 TTTTGA
6788110 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:6788097 original size:28 final size:28
Alignment explanation
Indices: 6788065--6788121 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
6788055 TAAGGGTTTT
6788065 TGAGAGTAAAATTTTGAGGAAAAATGAA
1 TGAGAGTAAAATTTTGAGGAAAAATGAA
* *
6788093 TGAGAGTAAAATTTTGATGAGAAATGAA
1 TGAGAGTAAAATTTTGAGGAAAAATGAA
6788121 T
1 T
6788122 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:6792676 original size:24 final size:24
Alignment explanation
Indices: 6792631--6792707 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
6792621 ACCACTCAAC
*
6792631 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
* * *
6792655 CCGCCATAACCAGCTGATCCTGGT
1 CCACCATAACCAGTTGAACCTGGT
*
6792679 CCACCATAGCCAGTTGAACCTGGT
1 CCACCATAACCAGTTGAACCTGGT
6792703 CCACC
1 CCACC
6792708 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:6799176 original size:3 final size:3
Alignment explanation
Indices: 6799162--6799202 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6799152 ATTTATTAAG
*
6799162 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6799203 GTTTTCAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6799693 original size:10 final size:10
Alignment explanation
Indices: 6799664--6799711 Score: 69
Period size: 11 Copynumber: 4.6 Consensus size: 10
6799654 ATAAGGTATA
6799664 AAAGAAAAACG
1 AAAGAAAAA-G
6799675 AAAGAAAAACG
1 AAAGAAAAA-G
*
6799686 AAAGAAAAAA
1 AAAGAAAAAG
6799696 AAAGAAAAAG
1 AAAGAAAAAG
6799706 AAAGAA
1 AAAGAA
6799712 CAGCAGAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
10 15 0.43
11 20 0.57
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:6801384 original size:12 final size:12
Alignment explanation
Indices: 6801361--6801391 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
6801351 TAAGAGAAAG
6801361 TGAAATTATGAAT
1 TGAAA-TATGAAT
6801374 TGAAATATGAAT
1 TGAAATATGAAT
6801386 TGAAAT
1 TGAAAT
6801392 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:6801415 original size:26 final size:25
Alignment explanation
Indices: 6801358--6801422 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
6801348 AAGTAAGAGA
* * *
6801358 AAGTGAAATTATGAATTGAAATATG
1 AAGTGAAATTAGGAATCGAAATAAG
* *
6801383 AATTGAAATTGAGGTATCGAAATAAG
1 AAGTGAAATT-AGGAATCGAAATAAG
*
6801409 AAGTGAAAATAGGA
1 AAGTGAAATTAGGA
6801423 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:6804323 original size:46 final size:46
Alignment explanation
Indices: 6804263--6804536 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
6804253 TTTGACATGA
* * * * *
6804263 TGCCATAGTGTCTTTCAACAATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
6804309 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
6804355 CGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
6804401 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
6804447 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATACCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
6804493 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
6804537 AGAGCACACT
Statistics
Matches: 208, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 204 0.98
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:6804462 original size:25 final size:24
Alignment explanation
Indices: 6804434--6804513 Score: 62
Period size: 25 Copynumber: 3.4 Consensus size: 24
6804424 GTCTTACACA
6804434 TTTCATACCAGGCTGCCATGATATC
1 TTTCA-ACCAGGCTGCCATGATATC
* *
6804459 TTTCAACCATGG-T--C-TTACA-C
1 TTTCAACCA-GGCTGCCATGATATC
*
6804479 ATTTCATACCAGGCTGCCATGGTATC
1 -TTTCA-ACCAGGCTGCCATGATATC
6804505 TTTCAACCA
1 TTTCAACCA
6804514 TGGTCTTACA
Statistics
Matches: 42, Mismatches: 5, Indels: 17
0.66 0.08 0.27
Matches are distributed among these distances:
20 1 0.02
21 10 0.24
22 6 0.14
24 10 0.24
25 14 0.33
26 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (24 bp):
TTTCAACCAGGCTGCCATGATATC
Found at i:6806685 original size:11 final size:11
Alignment explanation
Indices: 6806669--6806696 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6806659 ACTAAATAAT
6806669 TAATAATAAAA
1 TAATAATAAAA
6806680 TAATAATAAAA
1 TAATAATAAAA
6806691 TAATAA
1 TAATAA
6806697 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:6806723 original size:20 final size:21
Alignment explanation
Indices: 6806670--6806745 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
6806660 CTAAATAATT
*
6806670 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
6806689 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
6806710 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
6806731 TAATCATAAAATATC
1 -AATAATAAAATATC
6806746 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:6809199 original size:15 final size:14
Alignment explanation
Indices: 6809142--6809202 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
6809132 TATATGCTTG
6809142 TAATTAAAATATAAT
1 TAATTAAAAT-TAAT
* * *
6809157 TAATCATAATTATT
1 TAATTAAAATTAAT
* *
6809171 TATTTAAACTTTAAT
1 TAATTAAA-ATTAAT
6809186 TAATTAAAAGTTAAT
1 TAATTAAAA-TTAAT
6809201 TA
1 TA
6809203 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:6814769 original size:3 final size:3
Alignment explanation
Indices: 6814755--6814870 Score: 108
Period size: 3 Copynumber: 39.0 Consensus size: 3
6814745 AAAATGATAG
* * * *
6814755 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
* * * * * * *
6814802 AAA TAA AAA TAA AAA TAA TAA AAA TAG TAC TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
6814850 TAG TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
6814871 GACCGTAATA
Statistics
Matches: 89, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
2 2 0.02
3 87 0.98
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:6814935 original size:20 final size:20
Alignment explanation
Indices: 6814893--6814961 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
6814883 AAGAAAAAGA
* * *
6814893 AATAATAACATGTAAATAGT
1 AATAATAATATGTTAATAAT
*
6814913 AATAATAATATATTAATAAT
1 AATAATAATATGTTAATAAT
*
6814933 AATAGT-ATATGTTAATAAT
1 AATAATAATATGTTAATAAT
* *
6814952 GACAATAATA
1 AATAATAATA
6814962 GAAAATAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 15 0.38
20 24 0.62
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (20 bp):
AATAATAATATGTTAATAAT
Found at i:6815064 original size:13 final size:13
Alignment explanation
Indices: 6815043--6815099 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
6815033 TAGTAATAAT
*
6815043 ATAATAATAGAAA
1 ATAACAATAGAAA
6815056 ATAACAATA-AAA
1 ATAACAATAGAAA
*
6815068 ATAACTAATTTGAAA
1 ATAAC-AA-TAGAAA
6815083 ATAA-AATAGCAAA
1 ATAACAATAG-AAA
6815096 ATAA
1 ATAA
6815100 TGAAAAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 10 0.27
13 19 0.51
14 1 0.03
15 7 0.19
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (13 bp):
ATAACAATAGAAA
Done.