Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 96 of 211
Found at i:30137389 original size:29 final size:29
Alignment explanation
Indices: 30137324--30137592 Score: 214
Period size: 29 Copynumber: 9.3 Consensus size: 29
30137314 GTGTGCTAAA
* *
30137324 CGATGGTCGTAACCATCCATTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
30137353 CGATCGTCG-CA--ATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
30137379 CGATGGTCGTCACCAT-CCTTTTCCATATT
1 CGATGGTCGTCACCATCCCTTTT-CATATT
** *
30137408 CGATGGTCGAAACCATCCCTTTCCATTAAGTT
1 CGATGGTCGTCACCATCCCTTTTCA-T-A-TT
** *
30137440 -G-TGGTCGGAACCATCCCTTTTCATTAAGT
1 CGATGGTCGTCACCATCCCTTTTCA-T-ATT
* * *
30137469 -GGTAGTCGTCACCATCTCTTTTCATAGTT
1 CGATGGTCGTCACCATCCCTTTTCATA-TT
* **** *
30137498 -GATAGTTAAAACTATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
* *
30137526 CAATGGTCGTCACCATCTCTTTTCATAATT
1 CGATGGTCGTCACCATCCCTTTTCAT-ATT
30137556 -GATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGTCACCATCCCTTTTCATATT
*
30137584 CGATAGTCG
1 CGATGGTCG
30137593 AAACTATCCA
Statistics
Matches: 194, Mismatches: 33, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.11
27 2 0.01
28 13 0.07
29 102 0.53
30 51 0.26
31 2 0.01
32 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (29 bp):
CGATGGTCGTCACCATCCCTTTTCATATT
Found at i:30137483 original size:30 final size:30
Alignment explanation
Indices: 30137413--30137493 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
30137403 ATATTCGATG
* * * *
30137413 GTCGAAACCATCCCTTTCCATTAAGTTGTG
1 GTCGGAACCATCCCTTTTCATTAAGTGGTA
30137443 GTCGGAACCATCCCTTTTCATTAAGTGGTA
1 GTCGGAACCATCCCTTTTCATTAAGTGGTA
** *
30137473 GTCGTCACCATCTCTTTTCAT
1 GTCGGAACCATCCCTTTTCAT
30137494 AGTTGATAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (30 bp):
GTCGGAACCATCCCTTTTCATTAAGTGGTA
Found at i:30144479 original size:24 final size:24
Alignment explanation
Indices: 30144432--30144481 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
30144422 AATTTGAGTA
* * * *
30144432 GGTGCTTCAGTAGTAGGTTGAGTG
1 GGTGCTTCAGCAATAGCTTCAGTG
30144456 GGTGCTTCAGCAATAGCTTCAGTG
1 GGTGCTTCAGCAATAGCTTCAGTG
30144480 GG
1 GG
30144482 CTCTTTGGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.38, T:0.30
Consensus pattern (24 bp):
GGTGCTTCAGCAATAGCTTCAGTG
Found at i:30151804 original size:27 final size:26
Alignment explanation
Indices: 30151789--30151856 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
30151779 ATTAAGTCCG
30151789 CACACTCAGTGCTATATAATCAACTCA
1 CACACTCAGTGCTATAT-ATCAACTCA
* *
30151816 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTCAGTGCTATAT-ATC-AACTCA
*
30151844 CACACTTAGTGCT
1 CACACTCAGTGCT
30151857 GTACAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (26 bp):
CACACTCAGTGCTATATATCAACTCA
Found at i:30151850 original size:28 final size:28
Alignment explanation
Indices: 30151787--30151884 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
30151777 ATATTAAGTC
*
30151787 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30151814 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30151842 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30151871 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30151885 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30162628 original size:40 final size:40
Alignment explanation
Indices: 30162573--30162804 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
30162563 ATTTGAATGA
*
30162573 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
30162613 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
30162653 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
30162693 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * *
30162734 -ATCCGGGCTAAGACACGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
30162774 G-GCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
30162805 TGTGGTAATA
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 173 0.97
41 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:30162816 original size:80 final size:80
Alignment explanation
Indices: 30162574--30162832 Score: 310
Period size: 80 Copynumber: 3.2 Consensus size: 80
30162564 TTTGAATGAG
*
30162574 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
* *
30162639 TGTGCTAGTGAT-TT
66 TGTGCTAGTGGTAAT
30162653 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCAT
1 -ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCAT
* *
30162718 TTGTGCGAGTTG-ATAT
65 TTGTGCTAGTGGTA-AT
* * * * * * * * *
30162734 ATCCGGGCTAAGACACGAAGGCATTCGTGCGAGTTGCTATG-GCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTTGATCCGGGCTAAGACCCGAAGGCAT
*
30162798 TTGTGCTTGTGGTAAT
65 TTGTGCTAGTGGTAAT
* *
30162814 ATCC-GGCTAAATTCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
30162833 AAACTTGGGT
Statistics
Matches: 154, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
79 11 0.07
80 136 0.88
81 7 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
TGTGCTAGTGGTAAT
Found at i:30164969 original size:40 final size:40
Alignment explanation
Indices: 30164739--30164970 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
30164729 TATTACCACA
* * * * * *
30164739 AGCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* * * *
30164779 CGCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATC-ACT
* *
30164819 CGCACAAATGCCTTCGGGTCTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
*
30164859 AGCACAAATGCCTTCGGGACTTAGCCCAGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
30164899 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
30164939 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
1 AGCACAAATGCCTTCGGGACTTAGCCCGGATC
30164971 TCATTCAAAT
Statistics
Matches: 178, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 174 0.98
41 4 0.02
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGACTTAGCCCGGATCAAATCACT
Found at i:30168068 original size:25 final size:25
Alignment explanation
Indices: 30168040--30168102 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
30168030 ATTATATATA
*
30168040 AAATATATATTTTTTATTTTTAATC
1 AAATATATATATTTTATTTTTAATC
*
30168065 AAATAAATATATTTTATTTTTAATC
1 AAATATATATATTTTATTTTTAATC
30168090 AAATATATATATT
1 AAATATATATATT
30168103 ATATATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATATATATATTTTATTTTTAATC
Found at i:30173427 original size:42 final size:42
Alignment explanation
Indices: 30173366--30173461 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
30173356 TCAAACGCCG
* *
30173366 GTGTGTTAGGCCGTATAACTCTCGAAATAGCCCTACAAGCCT
1 GTGTGTCAGGCCGTATAACTCTCGAAATAGCCATACAAGCCT
*
30173408 GTGTGTCAGGCCGTGTAACTCTCGAAATAGCCATACAAGCCT
1 GTGTGTCAGGCCGTATAACTCTCGAAATAGCCATACAAGCCT
30173450 GTGTGTCAGGCC
1 GTGTGTCAGGCC
30173462 CTGTGTTAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (42 bp):
GTGTGTCAGGCCGTATAACTCTCGAAATAGCCATACAAGCCT
Found at i:30184190 original size:24 final size:25
Alignment explanation
Indices: 30184158--30184214 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
30184148 CGGAAGAGCA
30184158 TCCCGTTAT-TAGCTATTGTGAGTT
1 TCCCGTTATATAGCTATTGTGAGTT
* * *
30184182 TCCCGTTATATGGTTCTTGTGAGTT
1 TCCCGTTATATAGCTATTGTGAGTT
30184207 TCCCGTTA
1 TCCCGTTA
30184215 AAGCACTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (25 bp):
TCCCGTTATATAGCTATTGTGAGTT
Found at i:30188336 original size:39 final size:39
Alignment explanation
Indices: 30188289--30188426 Score: 159
Period size: 39 Copynumber: 3.4 Consensus size: 39
30188279 TGACTACTGT
*
30188289 TACTGTTACTATTACCGATTCGGCACTCTGTGTGTCGAATA
1 TACTGTTACTATTACCGATTCGGCACTTTGTGTGTCG-A-A
* *
30188330 TTGTTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 ----TACTGTTACTATTACCGATTCGGCACTTTGTGTGTCGAA
* * *
30188373 TACTATTACTGTTACCGATTTGGCACTTTGTGTGTCGAA
1 TACTGTTACTATTACCGATTCGGCACTTTGTGTGTCGAA
*
30188412 TACTGTTACCATTAC
1 TACTGTTACTATTAC
30188427 TGTTACAGAT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 48 0.57
43 1 0.01
44 1 0.01
45 34 0.40
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (39 bp):
TACTGTTACTATTACCGATTCGGCACTTTGTGTGTCGAA
Found at i:30188350 original size:45 final size:45
Alignment explanation
Indices: 30188286--30188479 Score: 229
Period size: 45 Copynumber: 4.4 Consensus size: 45
30188276 TGCTGACTAC
* *
30188286 TGTTACTGTTACTATTACCGATTCGGCACTCTGTGTGTCGAATAT
1 TGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAT
*
30188331 TGTTACTGTTACTGTTACCGATTCGACACTTTGTGTGTCG-A-A-
1 TGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAT
* * *
30188373 ---TACTATTACTGTTACCGATTTGGCACTTTGTGTGTCGAATAC
1 TGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAT
** * ** *
30188415 TGTTACCATTACTGTTACAGATTCATCACTTTGTGTGTTGAATAT
1 TGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAT
*
30188460 TGTTACTGTTACTGCTACCG
1 TGTTACTGTTACTGTTACCG
30188480 TTACTGATTA
Statistics
Matches: 126, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.27
40 1 0.01
41 1 0.01
43 1 0.01
44 1 0.01
45 88 0.70
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TGTTACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATAT
Found at i:30188430 original size:84 final size:84
Alignment explanation
Indices: 30188289--30188471 Score: 260
Period size: 84 Copynumber: 2.2 Consensus size: 84
30188279 TGACTACTGT
* * ** *
30188289 TACTGTTACTATTACCGATTCGGCACTCTGTGTGTCGAATATTGTTACTGTTACTGTTACCGATT
1 TACTGTTACTGTTACCGATTCGGCACTCTGTGTGTCGAATACTGTTACCATTACTGTTACAGATT
30188354 CGA-CACTTTGTGTGTCGAA
66 C-ATCACTTTGTGTGTCGAA
* * *
30188373 TACTATTACTGTTACCGATTTGGCACTTTGTGTGTCGAATACTGTTACCATTACTGTTACAGATT
1 TACTGTTACTGTTACCGATTCGGCACTCTGTGTGTCGAATACTGTTACCATTACTGTTACAGATT
*
30188438 CATCACTTTGTGTGTTGAA
66 CATCACTTTGTGTGTCGAA
*
30188457 TATTGTTACTGTTAC
1 TACTGTTACTGTTAC
30188472 TGCTACCGTT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 86 0.99
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (84 bp):
TACTGTTACTGTTACCGATTCGGCACTCTGTGTGTCGAATACTGTTACCATTACTGTTACAGATT
CATCACTTTGTGTGTCGAA
Found at i:30195613 original size:24 final size:25
Alignment explanation
Indices: 30195586--30195642 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
30195576 TGAAAGAGAG
30195586 TCCCGTTAT-TAGATCTTGTGAGCT
1 TCCCGTTATATAGATCTTGTGAGCT
* *
30195610 TCCCGTTATATGGTTCTTGTGAGCT
1 TCCCGTTATATAGATCTTGTGAGCT
*
30195635 TCCTGTTA
1 TCCCGTTA
30195643 AAACTCTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (25 bp):
TCCCGTTATATAGATCTTGTGAGCT
Found at i:30196463 original size:38 final size:38
Alignment explanation
Indices: 30196411--30196483 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
30196401 TACATCTCAT
*
30196411 TATCCCTCAGACTTCTCGGTATATAAAGCAAACTACAC
1 TATCCCTCAAACTTCTCGGTATATAAAGCAAACTACAC
30196449 TATCCCTCAAACTTCTCGGTATATAAAGCAAACTA
1 TATCCCTCAAACTTCTCGGTATATAAAGCAAACTA
30196484 ACTTTTGGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.27, G:0.10, T:0.27
Consensus pattern (38 bp):
TATCCCTCAAACTTCTCGGTATATAAAGCAAACTACAC
Found at i:30200027 original size:21 final size:21
Alignment explanation
Indices: 30200003--30200053 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
30199993 GTGTCTCCGC
*
30200003 CACACGGTCGTGTGC-CTCTTT
1 CACACGGTCGTG-CCACTCTTT
*
30200024 CACATAGG-CGTGCCACTCTTT
1 CACA-CGGTCGTGCCACTCTTT
30200045 CACACGGTC
1 CACACGGTC
30200054 ATGTAGACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.16, C:0.35, G:0.22, T:0.27
Consensus pattern (21 bp):
CACACGGTCGTGCCACTCTTT
Found at i:30204202 original size:17 final size:17
Alignment explanation
Indices: 30204180--30204238 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 17
30204170 ACTGATAAAA
30204180 AATATTTATATTATTAT
1 AATATTTATATTATTAT
*
30204197 AATATTCATATTTGTATTAT
1 AATATT--TATAT-TATTAT
*
30204217 AA-CTTT-TATTATTA-
1 AATATTTATATTATTAT
30204231 AATATTTA
1 AATATTTA
30204239 CAAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
14 2 0.06
15 8 0.24
16 2 0.06
17 7 0.21
19 6 0.18
20 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (17 bp):
AATATTTATATTATTAT
Found at i:30204270 original size:14 final size:14
Alignment explanation
Indices: 30204247--30204280 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30204237 TACAAAAAAT
* *
30204247 AATATATTTATTAA
1 AATATTTTTAATAA
30204261 AATATTTTTAATAA
1 AATATTTTTAATAA
30204275 AATATT
1 AATATT
30204281 ATGAATACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTTTTAATAA
Found at i:30209902 original size:33 final size:33
Alignment explanation
Indices: 30209857--30209923 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30209847 TATCAAGATT
*
30209857 TGTTTGGTTAGTGAATAGAGTTTTGGTCTACCA
1 TGTTTGGATAGTGAATAGAGTTTTGGTCTACCA
30209890 TGTTTGGATAGTGAATAGAGTTTTGGTCTACCA
1 TGTTTGGATAGTGAATAGAGTTTTGGTCTACCA
30209923 T
1 T
30209924 TTATATGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (33 bp):
TGTTTGGATAGTGAATAGAGTTTTGGTCTACCA
Found at i:30210648 original size:14 final size:14
Alignment explanation
Indices: 30210631--30210661 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30210621 AGTAAAATAT
*
30210631 TTTCTGGAAAATGA
1 TTTCTAGAAAATGA
30210645 TTTCTAGAAAATGA
1 TTTCTAGAAAATGA
30210659 TTT
1 TTT
30210662 ACTTTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTAGAAAATGA
Found at i:30211090 original size:22 final size:21
Alignment explanation
Indices: 30211059--30211104 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
30211049 TACACCAAAA
*
30211059 TAGGCTTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACG-TTTTT
* *
30211081 TAGGCCTTTAGTGGCGTTTTT
1 TAGGCCTTTAGCGACGTTTTT
30211102 TAG
1 TAG
30211105 CGCCGCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (21 bp):
TAGGCCTTTAGCGACGTTTTT
Found at i:30211317 original size:43 final size:43
Alignment explanation
Indices: 30211242--30211428 Score: 225
Period size: 43 Copynumber: 4.4 Consensus size: 43
30211232 TAAAGACATT
* *
30211242 GACCTTTAGCGGCGC-TTTCCCAAAAACGCCACTATATCTCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCACTATAGCTCAA
* *
30211284 GACCTTTAACGGCACTTTTCCCACAAACGCCACTATAGCTCAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCACTATAGCTCAA
* * * * *
30211327 GACATTTAGCGGCGCTTCTCTCACAAACGCCGCTATAGCTCAC
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCACTATAGCTCAA
* * * *
30211370 GACCTTTAGCGGTGCTTTT-CCACAAACGCCGCTATAACTCGA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCACTATAGCTCAA
* *
30211412 TACCTTTAGCGGTGCTT
1 GACCTTTAGCGGCGCTT
30211429 CTCACAAAAA
Statistics
Matches: 125, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 48 0.38
43 77 0.62
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.26
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCACTATAGCTCAA
Found at i:30211340 original size:85 final size:85
Alignment explanation
Indices: 30211246--30211441 Score: 241
Period size: 85 Copynumber: 2.3 Consensus size: 85
30211236 GACATTGACC
* *
30211246 TTTAGCGGCGCTT-TCCCAAAAACGCCACTATATCTCAAGACCTTTAACGGCACTTTTCCCACAA
1 TTTAGCGGCGCTTCTCACAAAAACGCCACTATAGCTCAAGACCTTTAACGGCACTTTT-CCACAA
*
30211310 ACGCCACTATAGCTCAAGACA
65 ACGCCACTATAACTCAAGACA
* * * * * **
30211331 TTTAGCGGCGCTTCTCTCACAAACGCCGCTATAGCTCACGACCTTTAGCGGTGCTTTTCCACAAA
1 TTTAGCGGCGCTTCTCACAAAAACGCCACTATAGCTCAAGACCTTTAACGGCACTTTTCCACAAA
* * * *
30211396 CGCCGCTATAACTCGATACC
66 CGCCACTATAACTCAAGACA
*
30211416 TTTAGCGGTGCTTCTCACAAAAACGC
1 TTTAGCGGCGCTTCTCACAAAAACGC
30211442 TGCTAAAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 58 0.62
86 36 0.38
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (85 bp):
TTTAGCGGCGCTTCTCACAAAAACGCCACTATAGCTCAAGACCTTTAACGGCACTTTTCCACAAA
CGCCACTATAACTCAAGACA
Found at i:30215879 original size:19 final size:20
Alignment explanation
Indices: 30215851--30215893 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
30215841 AAATTATAAA
*
30215851 TTTTAGTTTTTTTATTTCAT
1 TTTTAGTTTTTGTATTTCAT
*
30215871 TTTTA-TTTTTGTATTTTAT
1 TTTTAGTTTTTGTATTTCAT
30215890 TTTT
1 TTTT
30215894 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTAGTTTTTGTATTTCAT
Found at i:30216319 original size:14 final size:15
Alignment explanation
Indices: 30216298--30216335 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
30216288 TCCCAACCCT
*
30216298 TAAA-CCATAATTCC
1 TAAATCCATAATCCC
30216312 T-AATCCATAATCCC
1 TAAATCCATAATCCC
30216326 TAAATCCATA
1 TAAATCCATA
30216336 TATAATCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:30216517 original size:24 final size:24
Alignment explanation
Indices: 30216490--30216545 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
30216480 TATATGAAAT
*
30216490 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAAAA
*
30216514 TATTTAAAATATAAATTAAAAAAA
1 TATTTAATATATAAATTAAAAAAA
*
30216538 TAATTAAT
1 TATTTAAT
30216546 CTAAACCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAAAA
Found at i:30216637 original size:21 final size:23
Alignment explanation
Indices: 30216603--30216644 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
30216593 CTCTAACTCT
30216603 TAACCTCTGAACCCCTAAACCCA
1 TAACCTCTGAACCCCTAAACCCA
30216626 TAACC-CT-AACCCCTAAACC
1 TAACCTCTGAACCCCTAAACC
30216645 TTAAATCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 2 0.11
23 5 0.26
ACGTcount: A:0.36, C:0.45, G:0.02, T:0.17
Consensus pattern (23 bp):
TAACCTCTGAACCCCTAAACCCA
Found at i:30216657 original size:21 final size:22
Alignment explanation
Indices: 30216612--30216713 Score: 70
Period size: 21 Copynumber: 4.8 Consensus size: 22
30216602 TTAACCTCTG
*
30216612 AACCCCTAAACC-CATAA-CCCT
1 AACCCCTAAACCTTA-AATCCCT
30216633 AACCCCTAAACCTTAAATCCC-
1 AACCCCTAAACCTTAAATCCCT
* *
30216654 AACCCTTAAACCAT-AATCCCT
1 AACCCCTAAACCTTAAATCCCT
** * * * *
30216675 AATTCATAATCCCTAAATCCAT
1 AACCCCTAAACCTTAAATCCCT
30216697 -ACTCCCTAAACCTTAAA
1 AAC-CCCTAAACCTTAAA
30216714 ATAGTAACTC
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
20 6 0.10
21 36 0.58
22 20 0.32
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (22 bp):
AACCCCTAAACCTTAAATCCCT
Found at i:30216702 original size:15 final size:15
Alignment explanation
Indices: 30216660--30216706 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
30216650 TCCCAACCCT
30216660 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
30216674 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
30216688 TAAATCCATACTCCC
1 TAAATCCATAATCCC
30216703 TAAA
1 TAAA
30216707 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:30216942 original size:23 final size:25
Alignment explanation
Indices: 30216915--30216969 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
30216905 TAAATAATAG
**
30216915 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACATGTTAT
*
30216938 TATTTCAAATTATTTCCACATGTTAT
1 TATTT-TAATTATTTCCACATGTTAT
30216964 TATTTT
1 TATTTT
30216970 TTTCTGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.60
Consensus pattern (25 bp):
TATTTTAATTATTTCCACATGTTAT
Found at i:30217114 original size:41 final size:41
Alignment explanation
Indices: 30217054--30217334 Score: 312
Period size: 41 Copynumber: 6.9 Consensus size: 41
30217044 TAAAATGTTT
* *
30217054 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCTAACA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
* ** * **
30217095 TTAGCGGTGCTTTCCCAAAAACGCCGCTAGAGCCCTAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
* *
30217136 TTAGCGGCG-TTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
** *
30217176 TTAATGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
** * *
30217217 TTAGTAGTGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
* * * * * ** *
30217258 TTAGTGGTGTTTTTTCAGAAATGCCGCTAAAGCATCGAGTA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
* *
30217299 TTAGCTGCGTTTTTTCAAAAACGCCGCTAAAGCCCC
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCC
30217335 AAATTTGTTA
Statistics
Matches: 204, Mismatches: 35, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
40 32 0.16
41 172 0.84
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCA
Found at i:30217312 original size:122 final size:122
Alignment explanation
Indices: 30217054--30217331 Score: 326
Period size: 122 Copynumber: 2.3 Consensus size: 122
30217044 TAAAATGTTT
* * * *
30217054 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCTAACATTAGCGGTGCTTTCCCAAAAACGC
1 TTAGCTGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAACATTAGCAGTGCTTTCCCAAAAACGC
* * *
30217119 CGCTAGAGCCCTAAGCATTAGCGGCGTTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
66 CGCTAAAGCCCTAAGCATTAGCGGCGTTTTTCAAAAACGCCGCTAAAGCACCCAGCA
* * * **
30217176 TTA-ATGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTAGTAGTGCTTTTTCAAAAACG
1 TTAGCT-GCGCTTTTTCAAAAACGCCGCTAAAGCACCGAACATTAGCAGTGCTTTCCCAAAAACG
* * * * * * * *
30217240 CCGCTAAAGCACC-GAGCATTAGTGGTGTTTTTTCAGAAATGCCGCTAAAGCATCGAGTA
65 CCGCTAAAGC-CCTAAGCATTAGCGGCG-TTTTTCAAAAACGCCGCTAAAGCACCCAGCA
*
30217299 TTAGCTGCGTTTTTTCAAAAACGCCGCTAAAGC
1 TTAGCTGCGCTTTTTCAAAAACGCCGCTAAAGC
30217332 CCCAAATTTG
Statistics
Matches: 130, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
122 74 0.57
123 55 0.42
124 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (122 bp):
TTAGCTGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAACATTAGCAGTGCTTTCCCAAAAACGC
CGCTAAAGCCCTAAGCATTAGCGGCGTTTTTCAAAAACGCCGCTAAAGCACCCAGCA
Found at i:30218543 original size:32 final size:32
Alignment explanation
Indices: 30218497--30218557 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
30218487 TATCAATCAT
30218497 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
30218529 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
30218558 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:30218564 original size:27 final size:30
Alignment explanation
Indices: 30218497--30218570 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
30218487 TATCAATCAT
*
30218497 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
30218529 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
30218557 -TCAATATCTAACAA
1 TTCAATATCTAACAA
30218571 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 2 0.05
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:30218581 original size:27 final size:27
Alignment explanation
Indices: 30218498--30218584 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 27
30218488 ATCAATCATT
* *
30218498 TCAATATCCAACAAGCTTAAAACATAATAAA
1 TCAATATCTAACAAGATTAAAAC---AT-AA
*
30218529 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
30218557 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
30218584 T
1 T
30218585 AATTTCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 23 0.45
28 2 0.04
29 2 0.04
32 22 0.43
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:30221075 original size:48 final size:48
Alignment explanation
Indices: 30221004--30221099 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
30220994 TTAGCCTTAG
30221004 TCTGGTTATCATTCCTATCGAGAATCATGAGATATGAACCCACGCTAA
1 TCTGGTTATCATTCCTATCGAGAATCATGAGATATGAACCCACGCTAA
30221052 TCTGGTTATCATTCCTATCGAGAATCATGAGATATGAACCCACGCTAA
1 TCTGGTTATCATTCCTATCGAGAATCATGAGATATGAACCCACGCTAA
30221100 AACCTTTCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (48 bp):
TCTGGTTATCATTCCTATCGAGAATCATGAGATATGAACCCACGCTAA
Found at i:30222448 original size:17 final size:17
Alignment explanation
Indices: 30222415--30222448 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30222405 ATATGATTTA
*
30222415 TAAAATTTTAAAAATAT
1 TAAAATTTCAAAAATAT
*
30222432 TAAAATTTCAAATATAT
1 TAAAATTTCAAAAATAT
30222449 ATTTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATTTCAAAAATAT
Found at i:30222506 original size:9 final size:9
Alignment explanation
Indices: 30222444--30222537 Score: 59
Period size: 10 Copynumber: 10.1 Consensus size: 9
30222434 AAATTTCAAA
30222444 TATATATTTT
1 TATA-ATTTT
*
30222454 TAAAATTTT
1 TATAATTTT
*
30222463 TAGTAAATTT
1 TA-TAATTTT
*
30222473 TA-ACTTTT
1 TATAATTTT
30222481 TAT-ATTGTT
1 TATAATT-TT
*
30222490 TTTGAATTTT
1 TAT-AATTTT
30222500 TATAATTTT
1 TATAATTTT
*
30222509 TCT-ATTTT
1 TATAATTTT
30222517 TAATAATTTT
1 T-ATAATTTT
*
30222527 TGTAAATTTT
1 TAT-AATTTT
30222537 T
1 T
30222538 TAAGGGTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
8 14 0.22
9 21 0.32
10 27 0.42
11 3 0.05
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (9 bp):
TATAATTTT
Found at i:30222509 original size:18 final size:18
Alignment explanation
Indices: 30222494--30222537 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30222484 ATTGTTTTTG
30222494 AATTTTTATAATTTTTCT
1 AATTTTTATAATTTTTCT
*
30222512 -ATTTTTAATAATTTTTGT
1 AATTTTT-ATAATTTTTCT
30222530 AAATTTTT
1 -AATTTTT
30222538 TAAGGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.27
18 10 0.45
20 6 0.27
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
AATTTTTATAATTTTTCT
Found at i:30223196 original size:24 final size:23
Alignment explanation
Indices: 30223149--30223197 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
30223139 TTTTTAGTTC
* *
30223149 AATTTAAATATGAAGTTTAGATA
1 AATTTAAATATCAAGTTTAAATA
*
30223172 AATTTAAATATTCAATTTTAAATA
1 AATTTAAATA-TCAAGTTTAAATA
30223196 AA
1 AA
30223198 AATTATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (23 bp):
AATTTAAATATCAAGTTTAAATA
Found at i:30225322 original size:21 final size:21
Alignment explanation
Indices: 30225289--30225328 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30225279 GGGGAAAGTG
*
30225289 GGAAGAAGTAAAAGTTTTGAA
1 GGAAGAAGTAAAAGGTTTGAA
30225310 GGAA-AAGTAAAAAGGTTTG
1 GGAAGAAGT-AAAAGGTTTG
30225329 GGAGTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GGAAGAAGTAAAAGGTTTGAA
Found at i:30225380 original size:9 final size:9
Alignment explanation
Indices: 30225366--30225393 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30225356 TATCGTTTGA
30225366 TATTCGAAT
1 TATTCGAAT
30225375 TATTCGAAT
1 TATTCGAAT
30225384 TATTCGAAT
1 TATTCGAAT
30225393 T
1 T
30225394 CAAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:30225463 original size:9 final size:9
Alignment explanation
Indices: 30225446--30225476 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30225436 TCGAGTTGAT
30225446 TCGAATAAC
1 TCGAATAAC
*
30225455 TCGATTAAC
1 TCGAATAAC
30225464 TCGAATAAC
1 TCGAATAAC
30225473 TCGA
1 TCGA
30225477 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30228931 original size:21 final size:21
Alignment explanation
Indices: 30228898--30228937 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30228888 GGGGAAAGTG
*
30228898 GGAAGAAGTAAAAGTTTTGAA
1 GGAAGAAGTAAAAGGTTTGAA
30228919 GGAA-AAGTAAAAAGGTTTG
1 GGAAGAAGT-AAAAGGTTTG
30228938 GGAGTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GGAAGAAGTAAAAGGTTTGAA
Found at i:30231960 original size:43 final size:43
Alignment explanation
Indices: 30231909--30232033 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
30231899 TGTAATCTCG
*
30231909 TATCGATGCCAATAG-CCCAGCCATGATCTTACACGAAATCACA
1 TATCGATGCCAAT-GTCCCAGACATGATCTTACACGAAATCACA
* * * *
30231952 TATTGATGCCAATGTCCCAGACATGGTCTTACACGAAGTCTCA
1 TATCGATGCCAATGTCCCAGACATGATCTTACACGAAATCACA
* * * * *
30231995 TATCGATGCC-ATATCTCAGATATGGTCTTACACGTAATC
1 TATCGATGCCAATGTCCCAGACATGATCTTACACGAAATC
30232034 TCGATAACCA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 25 0.36
43 45 0.64
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
TATCGATGCCAATGTCCCAGACATGATCTTACACGAAATCACA
Found at i:30241558 original size:56 final size:56
Alignment explanation
Indices: 30241498--30241682 Score: 142
Period size: 56 Copynumber: 3.1 Consensus size: 56
30241488 TTTTATAGAT
30241498 AAATAAAGCAGTAATAAAAAACAATTGAAATAGGGAAGTAATAAAAATATTTTGAA
1 AAATAAAGCAGTAATAAAAAACAATTGAAATAGGGAAGTAATAAAAATATTTTGAA
* * * *
30241554 AAATAATATTAACTATTAATACAATAAATCAATATATGATAAATAGTGAAG--ATCTAAAAT-TT
1 AAAT-A-A--AGC-AGTAATA-AA-AAA-C-A-AT-TG--AAATAGGGAAGTAAT-AAAAATATT
*
30241616 TATAGAT
52 T-T-GAA
* *
30241623 AAATAAAGCAGTAATAAAAAATAATTGAAATAGGAAAGTAATAAAAATATTTTGAA
1 AAATAAAGCAGTAATAAAAAACAATTGAAATAGGGAAGTAATAAAAATATTTTGAA
30241679 AAAT
1 AAAT
30241683 GATATTAACT
Statistics
Matches: 98, Mismatches: 12, Indels: 38
0.66 0.08 0.26
Matches are distributed among these distances:
56 19 0.19
57 7 0.07
58 8 0.08
59 2 0.02
60 3 0.03
61 6 0.06
62 5 0.05
63 5 0.05
64 7 0.07
65 3 0.03
66 2 0.02
67 8 0.08
68 7 0.07
69 16 0.16
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (56 bp):
AAATAAAGCAGTAATAAAAAACAATTGAAATAGGGAAGTAATAAAAATATTTTGAA
Found at i:30241655 original size:125 final size:121
Alignment explanation
Indices: 30241460--30241780 Score: 464
Period size: 125 Copynumber: 2.6 Consensus size: 121
30241450 AAATCATTAT
* * * *
30241460 ATATATGATCAATAGTAAAGATCTTAAATTTTATAGATAAATAAAGCAGTAATAAAAAACAATTG
1 ATATATGATAAATAGTGAAGATCTAAAATTTTATAGATAAATAAAGCAGTAATAAAAAATAATTG
*
30241525 AAATAGGGAAGTAATAAAAATATTTTGAAAAATAATATTAACTATTAATACAATAAATCA
66 AAATAGGAAAGTAATAAAAATATTTTGAAAAATAATATTAACTATTAATACAAT--A--A
30241585 ATATATGATAAATAGTGAAGATCTAAAATTTTATAGATAAATAAAGCAGTAATAAAAAATAATTG
1 ATATATGATAAATAGTGAAGATCTAAAATTTTATAGATAAATAAAGCAGTAATAAAAAATAATTG
* *
30241650 AAATAGGAAAGTAATAAAAATATTTTGAAAAATGATATTAACTATTAATAGAATAA
66 AAATAGGAAAGTAATAAAAATATTTTGAAAAATAATATTAACTATTAATACAATAA
* * * * * **
30241706 ATATATGATAAATAGTGAAGATATTAAAA-TTTATAAATAAACAAAGAAATAATAAAAGTTAATT
1 ATATATGATAAATAGTGAAGAT-CTAAAATTTTATAGATAAATAAAGCAGTAATAAAAAATAATT
30241770 GAAATAGGAAA
65 GAAATAGGAAA
30241781 ATATAGCCCT
Statistics
Matches: 181, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
121 63 0.35
122 5 0.03
123 1 0.01
125 112 0.62
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.30
Consensus pattern (121 bp):
ATATATGATAAATAGTGAAGATCTAAAATTTTATAGATAAATAAAGCAGTAATAAAAAATAATTG
AAATAGGAAAGTAATAAAAATATTTTGAAAAATAATATTAACTATTAATACAATAA
Found at i:30244065 original size:26 final size:24
Alignment explanation
Indices: 30244020--30244088 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
30244010 CAATTTATAA
*
30244020 TAAAATATTAATAAAATATCTTAT
1 TAAAATATTAATAAAATATCTAAT
* *
30244044 TAAAATTTTATTAAAATTTATCTAAT
1 TAAAATATTAATAAAA--TATCTAAT
30244070 T-AAATAATT-ATAAAATATC
1 TAAAAT-ATTAATAAAATATC
30244089 ATCAAATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 4 0.11
24 14 0.38
25 9 0.24
26 10 0.27
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAATATTAATAAAATATCTAAT
Found at i:30245280 original size:17 final size:17
Alignment explanation
Indices: 30245258--30245293 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30245248 TCATAATATT
* *
30245258 ATTATAAACTATCAAAA
1 ATTATAAAATACCAAAA
30245275 ATTATAAAATACCAAAA
1 ATTATAAAATACCAAAA
30245292 AT
1 AT
30245294 ATGGGAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTATAAAATACCAAAA
Found at i:30247189 original size:23 final size:22
Alignment explanation
Indices: 30247150--30247193 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
30247140 TTTTGATTTC
*
30247150 AATTAACATTATAAATTAAAAA
1 AATTAACAATATAAATTAAAAA
*
30247172 AATTAAACAATATCAATTAAAA
1 AATT-AACAATATAAATTAAAA
30247194 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTAACAATATAAATTAAAAA
Found at i:30247882 original size:21 final size:22
Alignment explanation
Indices: 30247834--30247885 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
30247824 TGCAACTTGA
30247834 TTTTTT-TCCAACGTTAACATT
1 TTTTTTCTCCAACGTTAACATT
30247855 TTCTTTTCTCCAACGGTT-AC-TT
1 TT-TTTTCTCCAAC-GTTAACATT
30247877 TTTTTTCTC
1 TTTTTTCTC
30247886 TCTAGTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.32
22 8 0.29
23 8 0.29
24 3 0.11
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTTTTCTCCAACGTTAACATT
Found at i:30247887 original size:23 final size:23
Alignment explanation
Indices: 30247835--30247885 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
30247825 GCAACTTGAT
*
30247835 TTTTTTCCAACGTTAACATTTTC
1 TTTTCTCCAACGTTAACATTTTC
30247858 TTTTCTCCAACGGTT-AC-TTTT-
1 TTTTCTCCAAC-GTTAACATTTTC
30247879 TTTTCTC
1 TTTTCTC
30247886 TCTAGTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 4 0.15
23 12 0.46
24 3 0.12
ACGTcount: A:0.16, C:0.24, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTCTCCAACGTTAACATTTTC
Found at i:30247982 original size:33 final size:33
Alignment explanation
Indices: 30247945--30248009 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
30247935 TTTTTTCCAT
*
30247945 TCAATCCTATTCTCTCAATTCTTTTAATCTCAG
1 TCAATCCTATTCTCTCAATTATTTTAATCTCAG
*
30247978 TCAATCCTATTCTCTCAATTATTTTATTCTCA
1 TCAATCCTATTCTCTCAATTATTTTAATCTCA
30248010 ATATTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.02, T:0.48
Consensus pattern (33 bp):
TCAATCCTATTCTCTCAATTATTTTAATCTCAG
Found at i:30248048 original size:23 final size:24
Alignment explanation
Indices: 30248005--30248049 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
30247995 ATTATTTTAT
*
30248005 TCTCAATATTTTTCATTCAATTCA
1 TCTCAATATTCTTCATTCAATTCA
*
30248029 TCTCAA-ATTCTTCTTTCAATT
1 TCTCAATATTCTTCATTCAATT
30248050 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (24 bp):
TCTCAATATTCTTCATTCAATTCA
Found at i:30250150 original size:6 final size:6
Alignment explanation
Indices: 30250141--30250175 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30250131 AAGATCAAGA
* *
30250141 TGGAGG TGGAGG TGGAGA TGGAGA TGGAGG TGGAG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAG
30250176 ATAAAGGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.60, T:0.17
Consensus pattern (6 bp):
TGGAGG
Found at i:30250156 original size:12 final size:12
Alignment explanation
Indices: 30250138--30250177 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
30250128 ATGAAGATCA
30250138 AGATGGAGGTGG
1 AGATGGAGGTGG
* *
30250150 AGGTGGAGATGG
1 AGATGGAGGTGG
30250162 AGATGGAGGTGG
1 AGATGGAGGTGG
30250174 AGAT
1 AGAT
30250178 AAAGGGCTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.55, T:0.17
Consensus pattern (12 bp):
AGATGGAGGTGG
Found at i:30250159 original size:18 final size:18
Alignment explanation
Indices: 30250138--30250177 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
30250128 ATGAAGATCA
*
30250138 AGATGGAGGTGGAGGTGG
1 AGATGGAGATGGAGGTGG
30250156 AGATGGAGATGGAGGTGG
1 AGATGGAGATGGAGGTGG
30250174 AGAT
1 AGAT
30250178 AAAGGGCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.55, T:0.17
Consensus pattern (18 bp):
AGATGGAGATGGAGGTGG
Found at i:30250261 original size:13 final size:13
Alignment explanation
Indices: 30250196--30250261 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
30250186 AGTTTGGCAA
30250196 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
**
30250209 TG-TTACGGAAAAG
1 TGCTT-TTGAAAAG
***
30250222 TGCTGCGGAAAAG
1 TGCTTTTGAAAAG
30250235 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
30250248 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
30250261 T
1 T
30250262 TTGGTTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 4 0.09
13 36 0.84
14 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:30250392 original size:19 final size:20
Alignment explanation
Indices: 30250365--30250402 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
30250355 TATGCATTTA
30250365 AATAATATT-TAAATTAGTT
1 AATAATATTATAAATTAGTT
* *
30250384 AATATTATTATAATTTAGT
1 AATAATATTATAAATTAGT
30250403 AAGAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AATAATATTATAAATTAGTT
Found at i:30251152 original size:75 final size:74
Alignment explanation
Indices: 30250997--30251274 Score: 389
Period size: 75 Copynumber: 3.7 Consensus size: 74
30250987 ATTGCATTCA
* * *
30250997 ATTTTTACATCCATAATATATTTATTTACAATTTA-CAAAAAAAT-AAAAAATTATTTGTATTAT
1 ATTTTTACATCAATAATATACTTATTTACAATTTACCAAAAAAATAAAAAAATTATTTGTATGA-
*
30251060 ATTCTATGGT
65 ATTCTATTGT
* *
30251070 ATTTTTACATAAATAATATACTTATTTACAATTTATCAAAAAAATTAAAAAAATTATTTGTATGA
1 ATTTTTACATCAATAATATACTTATTTACAATTTACCAAAAAAA-TAAAAAAATTATTTGTATGA
30251135 ATTCTATTGT
65 ATTCTATTGT
* * * *
30251145 ATTTTTACATCAATAATATACTTGTTTACAATTTACCAAAAAAATGAAAAAATTGTTTGTATGTA
1 ATTTTTACATCAATAATATACTTATTTACAATTTACCAAAAAAATAAAAAAATTATTTGTATGAA
*
30251210 TTCTACTGT
66 TTCTATTGT
*
30251219 ATGTTTTACATCAATAATATACTTATTTACAATTTACCTAAAAAAATGACAAAAAT
1 AT-TTTTACATCAATAATATACTTATTTACAATTTACC-AAAAAAAT-AAAAAAAT
30251275 GAATTCTATT
Statistics
Matches: 184, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
73 32 0.17
74 36 0.20
75 85 0.46
76 25 0.14
77 6 0.03
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (74 bp):
ATTTTTACATCAATAATATACTTATTTACAATTTACCAAAAAAATAAAAAAATTATTTGTATGAA
TTCTATTGT
Found at i:30254258 original size:40 final size:40
Alignment explanation
Indices: 30254221--30254393 Score: 294
Period size: 40 Copynumber: 4.3 Consensus size: 40
30254211 GCTACTCGTT
* *
30254221 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
30254261 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
30254301 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
30254341 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30254381 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30254394 ATCTTAGTCC
Statistics
Matches: 127, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 125 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30254430 original size:80 final size:80
Alignment explanation
Indices: 30254221--30254439 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 80
30254211 GCTACTCGTT
* * * * * *
30254221 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCAG
30254286 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* * * *
30254301 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCAG
30254366 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
** * * *
30254381 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAA-GCCTTCAGGACTTA
1 CAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA
30254440 GCCCGGACAT
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
79 3 0.02
80 111 0.91
81 8 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCAG
ATTTAGTAACTCGCA
Found at i:30254430 original size:120 final size:120
Alignment explanation
Indices: 30254221--30254446 Score: 287
Period size: 120 Copynumber: 1.9 Consensus size: 120
30254211 GCTACTCGTT
* * *
30254221 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* * * *
30254286 ATTTAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* **
30254341 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
30254404 AGATATGGTCACTTAGCA-CAAAGCCTTCAGGACTTAGCCCGGA
64 AGATATAGTAAC-TAGCACCAAAGCCTTCAGGACTTAACCCGGA
30254447 CATCATTCGA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
119 3 0.03
120 80 0.89
121 7 0.08
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCACCAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30256819 original size:50 final size:50
Alignment explanation
Indices: 30256709--30257005 Score: 258
Period size: 50 Copynumber: 5.8 Consensus size: 50
30256699 ATTTGGGTAA
*
30256709 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* ** *
30256765 AGAGGTCCCATGTAAGACCATGTCTGGGGCATGGTGTTGGCATCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
30256815 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * *
30256865 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
** * * * * * *
30256915 AGAACTCCCATGTAAGACCATATCTGGGATATGGAATTGGTA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGACG
* ** *
30256964 AAACATCCCATGTAAGGCCATGTCTGGGACATGG-ATTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
30257006 TGTTATTATC
Statistics
Matches: 202, Mismatches: 37, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
48 2 0.01
49 37 0.18
50 119 0.59
52 1 0.00
53 4 0.02
55 1 0.00
56 38 0.19
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:30264396 original size:50 final size:50
Alignment explanation
Indices: 30264286--30264525 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
30264276 ATTTGGGTAA
* *
30264286 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-C--G
* *
30264342 AGAGGTCCCATGTAATACCATGTCTGGGGCATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
* * * *
30264392 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGACACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
* * * *
30264442 AGAGGT-CCACCGTAAGACCATGTCTAGGG-CATGGC-ATGGACACCGATATG
1 AGAGGTCCCA-TGTAAGACCATGTCT-GGGACATGGCGTTGG-CACCGAGACG
* * * *
30264492 GGCA-CTCCCATGTAAGACCATATCTGGGATATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
30264526 AATTGGTAGT
Statistics
Matches: 157, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 7 0.04
50 98 0.62
51 7 0.04
52 1 0.01
53 4 0.03
55 2 0.01
56 38 0.24
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
Found at i:30264504 original size:100 final size:103
Alignment explanation
Indices: 30264286--30264530 Score: 259
Period size: 100 Copynumber: 2.4 Consensus size: 103
30264276 ATTTGGGTAA
* *
30264286 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGACA-CCTTGAGA--ATGAGAGGTCCC
* * * *
30264351 ATGTAATACCATGTCTGGGGCATGGCGTTGGCACCGAGACG
63 ACGTAAGACCATGTCTAGGGCATGGCGATGGCACCGAGACG
* * *
30264392 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGACA-C-TGAG-ATGAGAGGT-CCACC
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCTTGAGAATGAGAGGTCCCA-C
* *
30264453 GTAAGACCATGTCTAGGGCATGGC-ATGGACACCGATATG
65 GTAAGACCATGTCTAGGGCATGGCGATGG-CACCGAGACG
* * * *
30264492 GGCA-CTCCCATGTAAGACCATATCTGGGATATGGAATTG
1 AG-AGCTCCCATGTAAGACCATGTCTGGGACATGGCATTG
30264531 GTAGTACATG
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
99 6 0.05
100 69 0.58
101 1 0.01
103 4 0.03
104 1 0.01
106 38 0.32
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (103 bp):
AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCTTGAGAATGAGAGGTCCCACG
TAAGACCATGTCTAGGGCATGGCGATGGCACCGAGACG
Found at i:30265582 original size:11 final size:11
Alignment explanation
Indices: 30265576--30265617 Score: 66
Period size: 11 Copynumber: 3.6 Consensus size: 11
30265566 AAAAAAATAT
30265576 AAAAAAATTCAAA
1 AAAAAAATTC--A
30265589 AAAAAAATTCA
1 AAAAAAATTCA
30265600 AAAAAAATTCA
1 AAAAAAATTCA
30265611 AAAAAAA
1 AAAAAAA
30265618 GTTTGTATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 19 0.66
13 10 0.34
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:30265592 original size:13 final size:13
Alignment explanation
Indices: 30265576--30265617 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
30265566 AAAAAAATAT
30265576 AAAAAAATTCAAA
1 AAAAAAATTCAAA
30265589 AAAAAAATTC--A
1 AAAAAAATTCAAA
30265600 AAAAAAATTCAAA
1 AAAAAAATTCAAA
30265613 AAAAA
1 AAAAA
30265618 GTTTGTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
13 16 0.59
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:30265734 original size:31 final size:31
Alignment explanation
Indices: 30265662--30265737 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 31
30265652 AGTATTGAAG
* **
30265662 AAAAAAAAATAAGAGAAAAAAAATTCGGAATT
1 AAAAAAAAA-AAGAGAAAAAAAAATCAAAATT
*
30265694 AAAAAAAAAAAGA-AGAAAAAAATCAAAATT
1 AAAAAAAAAAAGAGAAAAAAAAATCAAAATT
30265724 AAAAAAAAAAAGAG
1 AAAAAAAAAAAGAG
30265738 TGATTGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 26 0.67
31 4 0.10
32 9 0.23
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (31 bp):
AAAAAAAAAAAGAGAAAAAAAAATCAAAATT
Found at i:30266650 original size:21 final size:21
Alignment explanation
Indices: 30266626--30266665 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30266616 TGAGAGAAGA
* *
30266626 AAAAAGAAATGAGAGAAAAAG
1 AAAAAGAAATAAAAGAAAAAG
30266647 AAAAAGAAATAAAAGAAAA
1 AAAAAGAAATAAAAGAAAA
30266666 GATGAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (21 bp):
AAAAAGAAATAAAAGAAAAAG
Found at i:30266689 original size:17 final size:16
Alignment explanation
Indices: 30266669--30266718 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
30266659 AAGAAAAGAT
*
30266669 GAAAATGAGATTCAAAA
1 GAAAA-GAGATTGAAAA
*
30266686 GAAAAGAGAGTGAAAA
1 GAAAAGAGATTGAAAA
30266702 GCAAAAGAGATTGAAAA
1 G-AAAAGAGATTGAAAA
30266719 AGAAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.60, C:0.04, G:0.24, T:0.12
Consensus pattern (16 bp):
GAAAAGAGATTGAAAA
Found at i:30271316 original size:193 final size:194
Alignment explanation
Indices: 30270159--30277870 Score: 13137
Period size: 194 Copynumber: 40.0 Consensus size: 194
30270149 GATCGTATCA
*
30270159 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCACAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30270224 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTTTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30270289 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30270353 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30270418 GTAACTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTACTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30270483 GGTCATAAGACAAGTTTGAGTCTTGGGGCACTGAAACCATGTTATATGCACAAGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30270547 ATCAAAGAAGCTTAATTCATTTTACAAATAGTGACTCCACTATAGCGAACCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30270612 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30270676 GGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * *
30270741 ATCAAAAAAGCTTAATTCATTTTACAAACAGTAACTCCACTATAGCGAGCCCGACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* * *
30270806 GTAACTTGACTTGTTTACACCCCTAGAACG-CTGCCTAAGGAAATTATTAGGAACTTATTTTTGA
66 GTAACTTGACTTGTTTACACCCCTAGAA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGA
* *
30270870 AGGTCATAAGACAAGTTTGAGTCTTCGGGCATTGAAACCATGTTATATGCACAAGTATCATCACC
130 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30270935 ATCAAAGAAGCTTAATTAATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30271000 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* * *
30271064 GGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCACGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * * *
30271129 ATCAAAAAAGCTTAGTTCGTTTTACAAACAGTAACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30271194 GTAACTTGACTTGTTTACA-CCCTAGAAGACTGCCTAAGAAAATTTTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* * *
30271258 GGTCATAAGACAAGTTGGAGTCTTGGGGCATTGAAACCATGTTAAATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30271322 ATCAAAGAAGCTTAATTCATTTTATAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30271387 GTAACTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTACTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30271452 GGTCATAAGACAAGTTTGAGTC-TGGGGCATGGAAACCATGTTATATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * *
30271515 ATCAAAGAAGCTTAACTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCATAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
** * *
30271580 GTTTCTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTTTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30271645 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTAAATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30271709 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* * **
30271774 GGAACTTGACTTGTTTACACCCCTAGAAGTCAACCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30271839 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30271903 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30271968 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30272032 GGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30272097 ATCTAAA-AAGCTTAATTCGTTTTACAAACAGTAACTCCACTATAGCGAGCCCAACTAGCTCACA
1 ATC-AAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACA
*
30272161 TGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTTTTAGCAACTTATTATTGA
65 TGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGA
*
30272226 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCACCACC
130 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30272291 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAAC-AGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30272355 GTAACTTGACTTGTTTACA-CCCTAGAAGGCTGCCTAAGAAAATTAATAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30272418 GGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACAAGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30272483 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30272548 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30272612 GGGTCATAAGACAAGTTTCAGTCTT-GGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30272676 ATCAAA-AAGCTTAATTCATTTTACAAACAGT-ACTCCACTATAGCGAGCCC--GTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30272737 GTAACTTGACTTGTTTACACCCCTAGAAG-CTGCCTAAG-AAATTATTAGCAACTTATTATTTG-
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTA-TTGA
30272799 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
130 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30272864 ATCAAAGAAGCTTAATTAATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30272929 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30272993 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30273057 ATCAAA-AAGCTTAATTCATTTTACAAATAGTAACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30273121 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTTTTAACAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30273186 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTA-ATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30273249 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30273314 GTAACTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTACTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30273379 GGTCATAAGACAAGTTTGAGTCTTGGGGCATGGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30273443 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30273508 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTTTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30273573 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTAAATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30273637 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30273702 GTAACTTGACTTGTTTACA-CCCTAGAAGACTGGCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* * *
30273765 GGGTCATAAGACAAGTTTCAGTCTTGGAGTATTGAAACCATGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * * *
30273830 ATCAAAGAAGCTTAATTCCTTTT-CTAACAGTTACTCCACTAAAGCGATG-CCAACTAGCTCACA
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGA-GCCCAACTAGCTCACA
* * *
30273893 TGGAACTTGACTAGTTTACACCACTAGAAG--TGAACCTAAGAAAATTATT--CAACTTATTATT
65 TGTAACTTGACTTGTTTACACCCCTAGAAGACTG--CCTAAGAAAATTATTAGCAACTTATTATT
30273954 GAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCA
128 GAAGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCA
30274019 CC
193 CC
30274021 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30274086 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTTTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30274151 GGTCATAAGACAAGTTTGAGTCTTGGAGCATTGAAACCATGTTATATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30274215 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30274280 GTAACTTGACTT-TTTACACCCCTAGAAGGCTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30274344 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30274408 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30274473 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30274538 GGTCATAAGACAAGTTTGAGTCTT-GGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * *
30274601 ATCAAAAAAGCTTAATTCATTTTACAAACAGTTACTCCACTATAGCGAGGCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30274666 GTAACTTGACTTGTTTACA-CCCTAGAAG-CTGCCTAAG-AAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30274728 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30274792 ATCAAAGAAGCTTAATTCATTTTACAAATAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30274857 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30274921 GGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * *
30274986 ATCAAAAAAGCTTAATTCGTTTTACAAACAGTAACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30275051 GTAACTTGACTTGTTTACACCCTTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30275116 GGTCATAAGACAAGTTCGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30275180 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30275245 GTAACTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTACTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30275310 GGTCATAAGACAAGTTTGAGTC-TGGGGCATGGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * *
30275373 ATCAAAGAAGCTTAACTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACAAGCTCATAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
** * * * *
30275438 GTTTCTTAACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTTTTAGCAACTTATTCTTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* * *
30275503 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTGAAATGCACATGTATCACCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30275567 ATCAAAGAAGCTTAATTCATTTTACAAACAGTTACTCCACTATAGCGA-CGCCAACTAGCTCACA
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGC-CCAACTAGCTCACA
* **
30275631 TG------GA---GTTTACACCCCTAGAAGTCAACCTAAGAAAATTATTAGCAACTTATTATTGA
65 TGTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGA
*
30275687 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACAAGTATCATCACC
130 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30275752 ATC--A-AAGCTTAATTC-TTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30275813 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATT-AA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30275877 GGGTCATAAGACAAGTTTCAGTCTTGGAGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 -GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30275942 ATCAAAAAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30276007 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTTTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30276072 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30276136 ATCAAAAAAGCTTAATTCATTTTACAAATAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30276201 GTAACTTGACTTGTTTACACCCCTAGAACG-CTGCCTAAGAAAATTATTAGCAACTTATTATTGA
66 GTAACTTGACTTGTTTACACCCCTAGAA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGA
*
30276265 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACAAGTATCATCACC
130 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30276330 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30276395 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30276460 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
30276524 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAG-CCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* *
30276588 GTAACTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTCTTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
30276653 GGTCAT-----AAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30276712 ATCAAAGAACCTTAATTCATTTTACAAACAGTGACT-CACTATAGCGAGCCCAACCAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30276776 GTAACTTGACTTGTTTACACGCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* * *
30276841 TGTTATAAGACAAGTTTGAGTCTTGGGGCATTAAAACCATGTTATATGCACA--T-T-ATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30276901 ATC-AA-AAGCTTAATTCATTTTACAAACTGTGAGT-CACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* * * *
30276963 GTAACTTGACTTCTTTACACCCTTAGAAGACTGCCAAAGAAAATTATTAGCAGCTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
* *
30277028 GGTCATAAGAGAAGTTTGA-TCTTGGGGAATTGAAACCATGTTATATGCACATGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30277091 ATCAAAGAAGCTTAACTCATTTTACAAACAGTTACTCCACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
*
30277156 GTAACTTGACTTGTTTACACCCCTAGAAGGCTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30277221 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACAAGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* * * *
30277285 ATCAAAGAAGCTTAATTCATTTTAAAAACAATGACTCCACTATAGCAAGCCCAACTAGCTGACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
30277350 GTAACTTGACTTGTTTACACCCCTAGAAG---GCCTAAGAAAATTATTAGCAACTTATTATTGAA
66 GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
*
30277412 GGT-ATAAGACAAGTTTGAGTCTT-GGGCATTGAAACCATGTTATATGCACAAGTATCATCACC
131 GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
* *
30277474 ATCAAAGAAGCTTAATTCATTTTACGAACAGTGACTCCACTATGGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* * * *
30277539 GCT-ATTTGACTTGTTTACACCCGTTGAAGAGTGCCTAAGAAAATTATTAGCAACTTATTATT-A
66 G-TAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGA
*
30277602 AGGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCACCAC
130 A-GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCAC
30277667 C
194 C
* * * *
30277668 ATCAAAAAAGCTTCATTCATTTTACAAACAGTAACTCTACTATAGCGAGCCCAACTAGCTCACAT
1 ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
* * * *
30277733 GTAACTTGACTTGCTTACACCCTTAGAACG-CTGCTTAAGGAAATTATTAGCAACTTATTATTGA
66 GTAACTTGACTTGTTTACACCCCTAGAA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGA
* * * *
30277797 AGGTCATAGGACAAGTTTGAGTCTTAGGGCATTGAAACCATGTTACATGCACATGTATCATCAAC
130 AGGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
*
30277862 ATAAAAGAA
1 ATCAAAGAA
30277871 ACCTCGGGCA
Statistics
Matches: 7114, Mismatches: 313, Indels: 182
0.93 0.04 0.02
Matches are distributed among these distances:
181 44 0.01
182 12 0.00
183 1 0.00
185 111 0.02
186 30 0.00
187 186 0.03
188 229 0.03
189 197 0.03
190 210 0.03
191 288 0.04
192 569 0.08
193 1668 0.23
194 3553 0.50
195 16 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (194 bp):
ATCAAAGAAGCTTAATTCATTTTACAAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACAT
GTAACTTGACTTGTTTACACCCCTAGAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA
GGTCATAAGACAAGTTTGAGTCTTGGGGCATTGAAACCATGTTATATGCACATGTATCATCACC
Found at i:30280541 original size:40 final size:39
Alignment explanation
Indices: 30280497--30280680 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
30280487 GCTACTCGTT
*
30280497 CAAATGCCTTCGGGACATAGCCCGGTCATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGT-ATAGTAACTCGCA
* *
30280537 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* ** * *
30280577 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * * *
30280616 CAAATGCCTTC-GGATTTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCA
*
30280657 CAAA-GCCTTCAGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
30280681 ACATCATTCG
Statistics
Matches: 115, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 28 0.24
40 73 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:30282626 original size:194 final size:194
Alignment explanation
Indices: 30282319--30284911 Score: 4285
Period size: 194 Copynumber: 13.4 Consensus size: 194
30282309 GTCACACTTA
* *
30282319 GGGCATTGAAACCATGTTATATCCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACG
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* *
30282384 AACAGTGACTCCACTATACCGAGCCCAACTAGCTCACATGTCACTTGACTTGTTTACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
* * *
30282449 AAGACTACCTAAGAAAATTACTAGCAACTTATTATT-AAGGGTCATAAGACAAGTTTCAGTCTTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAA-GGTCATAAGACAAGTTTGAGTCTTG
* *
30282513 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAAAACCTTAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* * *
30282578 AACAGTAACTCCACTATAGCGATCCCAACTAGCTCACATGTAACTTGACTTGTTTCCACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
* *
30282643 AACG-CTGCCTAAGGAAATTATTAGCAACTTATTATTGAAGGTCATAGGACAAGTTTGAGTCTTG
131 AA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
* * *
30282707 GGGTATTGAAACCATGTTACATGCACATGTATCATCAACATCAAAGAAGCTTAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* *
30282772 AACTGTGACTCCACTATAACGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
*
30282837 AACG-CTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTC
131 AA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
*
30282901 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAACCTTAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* *
30282966 AACAGTGACTCCACTATAGCGAGCCTAACTAGCTCACATGTAACTTGACTTGTTGACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
30283031 AACG-CTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
131 AA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
*
30283095 GGGCATTGAAACCATGTTATATGCACATGTATGATCACCATCAAAGAAGCTTAATTCATTTTAC-
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
30283159 AA-AGTGACT-CACTATAGCGAGCCCAACTAGC-CGACATGTAACTTGACTTGTTTACACCCCTA
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTC-ACATGTAACTTGACTTGTTTACACCCCTA
* * *
30283221 GAACACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTCAGACTTG
130 GAAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
*
30283286 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAACCTTAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* * *
30283351 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATATAGCTTGACTTGTTTACACCTCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
** *
30283416 AAGGTTGCGTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
* * *
30283480 GGGTATTGAAACCATGTTATATGCACCA-GTATTATCACCATCAAAGAAGCTTAATTTATTTTAC
1 GGGCATTGAAACCATGTTATATGCA-CATGTATCATCACCATCAAAGAAGCTTAATTCATTTTAC
* * *
30283544 AAACAGTGA-TTCACTACAGCGAGCCCAACTAGCTCTCATGTAACTTGACTTGTTTACACCCCTA
65 AAACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTA
*
30283608 -AACCACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTT
130 GAA-GACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTT
*
30283672 C
194 G
* * * * *
30283673 GGCCATTTAAACCATGTTATATGCACATGTACCATCACTATCAAAGAAGCTTAATTAATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
30283738 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
* *
30283803 AAGACTGCCTAAGAAAATTATTAGCAACTTAGTATTAAAGGTCATAAGACAAGTTTGAGTCTTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
*
30283867 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAACCTTAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* *
30283932 AACAGTAACTCCACTATAGCGAGACCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
* * * * *
30283997 AAGGCTGCCTAAGGAAATTATTAGCAACCTATTATTGAAGGTCATAGGACAAGTTTGAGTATTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
* *
30284061 CGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTGAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* *
30284126 AACCGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACGCCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
* * *
30284191 AAGTCAT-CCTAAAAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTAAGTCTTG
131 AAGAC-TGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
* * *
30284255 GGGCATTGAAACCATGATATATGCACAAGTATCATCACCATCAAAGAAGCTTAATTCATTCTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* *
30284320 AACAGTGACTCCACTATAGCAAGCCCAACTAGCTCACATGTAACCTGACTTGTTTACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
*
30284385 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGAAAAGTTTGAGTCTTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
*
30284449 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTCTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
* * *
30284514 AACAGTGACTCTACTATAGCGAGCCCAACTAGCTCACATGTAATTTGACTTGTTTACACCGCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
*
30284579 AATACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
30284643 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
1 GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
*
30284708 AACAGTGACTCCACTATAACGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
66 AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
* *
30284773 AAGGCTGCCTAAGAAAATTATTAGCAACATATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
131 AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
* *
30284837 GGTCATTGAAACCATGTTATAAT-CACATGAATCATCACCATCAAAGAAGCTTAATTCATTTTAC
1 GGGCATTGAAACCATGTTAT-ATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTAC
*
30284901 AAGCAGTGACT
65 AAACAGTGACT
30284912 AGGAAAGATA
Statistics
Matches: 2238, Mismatches: 145, Indels: 32
0.93 0.06 0.01
Matches are distributed among these distances:
190 1 0.00
191 172 0.08
192 13 0.01
193 179 0.08
194 1862 0.83
195 11 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (194 bp):
GGGCATTGAAACCATGTTATATGCACATGTATCATCACCATCAAAGAAGCTTAATTCATTTTACA
AACAGTGACTCCACTATAGCGAGCCCAACTAGCTCACATGTAACTTGACTTGTTTACACCCCTAG
AAGACTGCCTAAGAAAATTATTAGCAACTTATTATTGAAGGTCATAAGACAAGTTTGAGTCTTG
Found at i:30286800 original size:427 final size:426
Alignment explanation
Indices: 30285976--30286831 Score: 1595
Period size: 427 Copynumber: 2.0 Consensus size: 426
30285966 ACTCGCTTCT
* *
30285976 AAAGCAGCTAAAGTTGACGATGAAATTAAGCTTAAACCTTATACATCAGTTCCTCAATTTTCTGT
1 AAAGCAGCTAAAGTTAACGATAAAATTAAGCTTAAACCTTATACATCAGTTCCTCAATTTTCTGT
* *
30286041 GAAGTCAGACAAAATTTGCTGAATTAGAGAAACATAAGTCTACATTGTAAACATGCAAGAAGAAC
66 GAAGTCAGACAAAATCTGCTAAATTAGAGAAACATAAGTCTACATTGTAAACATGCAAGAAGAAC
30286106 TTGCAATAACCTTATGCCAATTGCCAACCAATTGGTCATGAAAACTCTAATAGGAACATTTGAGG
131 TTGCAATAACCTTATGCCAATTGCCAACCAATTGGTCATGAAAACTCTAATAGGAACATTTGAGG
*
30286171 TTATTAGTTAGTATCAATGACTAATGTACTTTTAGAGGTCTAGGACGTAGCAAGTAAACAGACAA
196 TTATGAGTTAGTATCAATGACTAATGTACTTTTAGAGGTCTAGGACGTAGCAAGTAAACAGACAA
30286236 GCAGAAGAAGAAGAATATATATACAATATATATACTGAAAAGACTGAAGGCTTTCAGCATTTAAT
261 GCAGAAGAAGAAGAATATATATACAATATATATACTGAAAAGACTGAAGGCTTTCAGCATTTAAT
30286301 TGTTGAAAAAGAAACCAGAAACAGGTACAGTGGAGATTAACATACAACTGTTCTGAGGGTTTGTG
326 TGTTGAAAAAGAAACCAGAAACAGGTACAGTGGAGATTAACATACAACTGTTCTGAGGGTTTGTG
30286366 CCCTTTACATTGGAGAGGACTCCAAGAAGGGTACTA
391 CCCTTTACATTGGAGAGGACTCCAAGAAGGGTACTA
*
30286402 AAAGCAGCTAAAGTTTAACGATAAAATTAAGCTTAAAGCTTATACATCAGTTCCTCAATTTTCTG
1 AAAGCAGCTAAAG-TTAACGATAAAATTAAGCTTAAACCTTATACATCAGTTCCTCAATTTTCTG
* *
30286467 TGAAGTCAGACAAAATCTGCTAAATTAGAGAAACATAAGTCTACGTTGTAAACATGTAAGAAGAA
65 TGAAGTCAGACAAAATCTGCTAAATTAGAGAAACATAAGTCTACATTGTAAACATGCAAGAAGAA
30286532 CTTGCAATAACCTTATGCCAATTGCCAACCAATTGGTCATGAAAACTCTAATAGGAACATTTGAG
130 CTTGCAATAACCTTATGCCAATTGCCAACCAATTGGTCATGAAAACTCTAATAGGAACATTTGAG
30286597 GTTATGAGTTAGTATCAATGACTAATGTACTTTTAGAGGTCTAGGACGTAGCAAGTAAACAGACA
195 GTTATGAGTTAGTATCAATGACTAATGTACTTTTAGAGGTCTAGGACGTAGCAAGTAAACAGACA
*
30286662 AGCAGAAGAAGAAGAATATATATACAATATATATAGTGAAAAGACTGAAGGCTTTCAGCATTTAA
260 AGCAGAAGAAGAAGAATATATATACAATATATATACTGAAAAGACTGAAGGCTTTCAGCATTTAA
*
30286727 TTGTTGAAAAAGAAACCAGAAACAGGTACAGTTGAGATTAACATACAACTGTTCTGAGGGTTTGT
325 TTGTTGAAAAAGAAACCAGAAACAGGTACAGTGGAGATTAACATACAACTGTTCTGAGGGTTTGT
* *
30286792 GTCCTTTACGTTGGAGAGGACTCCAAGAAGGGTACTA
390 GCCCTTTACATTGGAGAGGACTCCAAGAAGGGTACTA
30286829 AAA
1 AAA
30286832 ACTCCAGGAG
Statistics
Matches: 417, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
426 13 0.03
427 404 0.97
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (426 bp):
AAAGCAGCTAAAGTTAACGATAAAATTAAGCTTAAACCTTATACATCAGTTCCTCAATTTTCTGT
GAAGTCAGACAAAATCTGCTAAATTAGAGAAACATAAGTCTACATTGTAAACATGCAAGAAGAAC
TTGCAATAACCTTATGCCAATTGCCAACCAATTGGTCATGAAAACTCTAATAGGAACATTTGAGG
TTATGAGTTAGTATCAATGACTAATGTACTTTTAGAGGTCTAGGACGTAGCAAGTAAACAGACAA
GCAGAAGAAGAAGAATATATATACAATATATATACTGAAAAGACTGAAGGCTTTCAGCATTTAAT
TGTTGAAAAAGAAACCAGAAACAGGTACAGTGGAGATTAACATACAACTGTTCTGAGGGTTTGTG
CCCTTTACATTGGAGAGGACTCCAAGAAGGGTACTA
Found at i:30290902 original size:12 final size:12
Alignment explanation
Indices: 30290887--30290916 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30290877 TGATAATTGA
30290887 TGTGATTATGAT
1 TGTGATTATGAT
30290899 TGTGATTATGAT
1 TGTGATTATGAT
*
30290911 TATGAT
1 TGTGAT
30290917 AAATGTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
TGTGATTATGAT
Found at i:30291238 original size:21 final size:22
Alignment explanation
Indices: 30291196--30291244 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
30291186 AAGGTAGAAG
*
30291196 TTATGTGGCAGTTTATCTGCAA
1 TTATGTGGCAGTTTATCAGCAA
*
30291218 TTATGTGGCTG-TTATCAGCAA
1 TTATGTGGCAGTTTATCAGCAA
*
30291239 ATATGT
1 TTATGT
30291245 AGTGGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (22 bp):
TTATGTGGCAGTTTATCAGCAA
Found at i:30292726 original size:15 final size:14
Alignment explanation
Indices: 30292676--30292716 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 14
30292666 TGACTAGCAG
30292676 TAGGGATTTTGAGACT
1 TAGGGATTTT-AGA-T
30292692 TAGGAGATTTTAGAT
1 TAGG-GATTTTAGAT
30292707 TAGGGATTTT
1 TAGGGATTTT
30292717 CAATTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 7 0.29
17 6 0.25
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.41
Consensus pattern (14 bp):
TAGGGATTTTAGAT
Found at i:30294892 original size:11 final size:12
Alignment explanation
Indices: 30294876--30294918 Score: 54
Period size: 11 Copynumber: 3.6 Consensus size: 12
30294866 ACGGTATTGT
30294876 AAAAAAA-TCGA
1 AAAAAAATTCGA
30294887 AAAAAAATTTCGAA
1 AAAAAAA-TTCG-A
30294901 AAAAAAATTC-A
1 AAAAAAATTCGA
30294912 AAAAAAA
1 AAAAAAA
30294919 AAGTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 15 0.52
13 6 0.21
14 8 0.28
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAAAAATTCGA
Found at i:30294920 original size:13 final size:13
Alignment explanation
Indices: 30294876--30294919 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
30294866 ACGGTATTGT
30294876 AAAAAAA-TCGAA
1 AAAAAAATTCGAA
*
30294888 AAAAAATTTCGAA
1 AAAAAAATTCGAA
30294901 AAAAAAATTC-AA
1 AAAAAAATTCGAA
30294913 AAAAAAA
1 AAAAAAA
30294920 AGTTTGTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 15 0.52
13 14 0.48
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCGAA
Found at i:30294920 original size:14 final size:13
Alignment explanation
Indices: 30294876--30294920 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
30294866 ACGGTATTGT
*
30294876 AAAAAAA-TCGAA
1 AAAAAAATTCAAA
* *
30294888 AAAAAATTTCGAA
1 AAAAAAATTCAAA
30294901 AAAAAAATTCAAA
1 AAAAAAATTCAAA
30294914 AAAAAAA
1 AAAAAAA
30294921 GTTTGTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 6 0.21
13 23 0.79
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:30294978 original size:12 final size:12
Alignment explanation
Indices: 30294961--30295013 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 12
30294951 ATTTAGTATT
30294961 GAAGAAAAAAAA
1 GAAGAAAAAAAA
30294973 GAAGAAAAAAATTCA
1 GAAGAAAAAAA---A
*
30294988 GAATTAAAAAAAAA
1 GAA--GAAAAAAAA
30295002 GAAGAAAAAAAA
1 GAAGAAAAAAAA
30295014 TCAAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 19 0.56
14 4 0.12
15 4 0.12
17 7 0.21
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.08
Consensus pattern (12 bp):
GAAGAAAAAAAA
Found at i:30295006 original size:29 final size:30
Alignment explanation
Indices: 30294965--30295031 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 30
30294955 AGTATTGAAG
* *
30294965 AAAAAAAAGAAGAAAAAAATTCAGAATT-A
1 AAAAAAAAGAAGAAAAAAAATCAAAATTGA
30294994 AAAAAAAAGAAGAAAAAAAATCAAAATTGA
1 AAAAAAAAGAAGAAAAAAAATCAAAATTGA
30295024 AAAAAAAA
1 AAAAAAAA
30295032 AGAGTGATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (30 bp):
AAAAAAAAGAAGAAAAAAAATCAAAATTGA
Found at i:30295948 original size:15 final size:16
Alignment explanation
Indices: 30295928--30295959 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
30295918 AGAAAATGAA
30295928 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
30295943 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
30295959 A
1 A
30295960 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:30298458 original size:50 final size:49
Alignment explanation
Indices: 30298329--30298472 Score: 128
Period size: 50 Copynumber: 2.8 Consensus size: 49
30298319 TACCCACGAT
*
30298329 GAACAAACATTTGCTTCATGACTAAGGATGCATCTATGGATGGCAAGGGGG
1 GAACAAACATTTGCTTCATGACTAA--ATGCATCTATGGATGGAAAGGGGG
* ** * * * * *
30298380 GAAGAATGTGACTT-ATTAATGGCCAAATGCATCTATGGATGGAAAGGGGG
1 GAACAA--ACATTTGCTTCATGACTAAATGCATCTATGGATGGAAAGGGGG
*
30298430 GAACAAACATTTGCTTCATGACTTAAATGTCATTCAATGGATG
1 GAACAAACATTTGCTTCATGAC-TAAATG-CA-TCTATGGATG
30298473 AACATATATC
Statistics
Matches: 69, Mismatches: 18, Indels: 11
0.70 0.18 0.11
Matches are distributed among these distances:
48 3 0.04
49 6 0.09
50 33 0.48
51 7 0.10
52 17 0.25
53 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (49 bp):
GAACAAACATTTGCTTCATGACTAAATGCATCTATGGATGGAAAGGGGG
Found at i:30305879 original size:27 final size:27
Alignment explanation
Indices: 30305849--30306026 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
30305839 ATATTAAGTC
* *
30305849 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
30305876 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
30305904 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
30305931 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
30305958 AGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
30305985 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
30306012 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30306027 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30305988 original size:54 final size:54
Alignment explanation
Indices: 30305849--30306026 Score: 223
Period size: 54 Copynumber: 3.3 Consensus size: 54
30305839 ATATTAAGTC
* * * *
30305849 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * *
30305904 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * ** *
30305958 AGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
30306012 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30306027 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 58 0.55
55 46 0.44
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:30310831 original size:25 final size:25
Alignment explanation
Indices: 30310797--30310850 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
30310787 AACCAAACCG
30310797 AGCCTTTGTGGCAAGTAATTTGTAA
1 AGCCTTTGTGGCAAGTAATTTGTAA
*
30310822 AGCCTTTGTGGCAAGTTATTTGTAA
1 AGCCTTTGTGGCAAGTAATTTGTAA
30310847 AGCC
1 AGCC
30310851 ATTCTGGCGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (25 bp):
AGCCTTTGTGGCAAGTAATTTGTAA
Found at i:30310858 original size:25 final size:25
Alignment explanation
Indices: 30310805--30310872 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
30310795 CGAGCCTTTG
* * *
30310805 TGGCAAGTAATTTGTAAAGCCTTTG
1 TGGCAAGTTATTTGTAAAGCCATTC
30310830 TGGCAAGTTATTTGTAAAGCCATTC
1 TGGCAAGTTATTTGTAAAGCCATTC
** *
30310855 TGGCGTGTTATCTGTAAA
1 TGGCAAGTTATTTGTAAA
30310873 ACCTTTGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (25 bp):
TGGCAAGTTATTTGTAAAGCCATTC
Found at i:30315310 original size:26 final size:25
Alignment explanation
Indices: 30315271--30315319 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
30315261 TTTAAGAACT
*
30315271 TTTATAAAAGTTATATATATTTTTAA
1 TTTATAAAAGTTAT-TACATTTTTAA
30315297 TTTATTAAAA-TTATTACATTTTT
1 TTTA-TAAAAGTTATTACATTTTT
30315320 CTAGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 8 0.38
27 5 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTATAAAAGTTATTACATTTTTAA
Found at i:30321766 original size:28 final size:28
Alignment explanation
Indices: 30321706--30321760 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
30321696 AATATAATAT
*
30321706 AATTA-TAAAATAATTAAATTTTACTTA
1 AATTATTAAAATAATTAAATTTTAATTA
*
30321733 AATTATTAAAAT-ATTTAATTTTAATTA
1 AATTATTAAAATAATTAAATTTTAATTA
30321760 A
1 A
30321761 TTTTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTATTAAAATAATTAAATTTTAATTA
Found at i:30348385 original size:6 final size:6
Alignment explanation
Indices: 30348364--30348430 Score: 91
Period size: 6 Copynumber: 11.2 Consensus size: 6
30348354 GTCGAAACCA
* *
30348364 TTCC-T TTCCTT GTCCTT TTCCTT TTCCTTT TTCCTT TTCCTT TTTCTT
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCC-TT TTCCTT TTCCTT TTCCTT
*
30348412 TTTCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT T
30348431 ACATAGATGT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
5 4 0.07
6 46 0.82
7 6 0.11
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (6 bp):
TTCCTT
Found at i:30350516 original size:15 final size:16
Alignment explanation
Indices: 30350484--30350527 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
30350474 TAATTATACA
*
30350484 TAATAAAA-ATAAATT
1 TAATAAAATTTAAATT
30350499 TAATAAAATTTAAA-T
1 TAATAAAATTTAAATT
*
30350514 TAATAGAATTTAAA
1 TAATAAAATTTAAA
30350528 ATTGAAGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAATAAAATTTAAATT
Found at i:30355918 original size:158 final size:158
Alignment explanation
Indices: 30355612--30355933 Score: 423
Period size: 158 Copynumber: 2.0 Consensus size: 158
30355602 ACATATGTCT
* * * * * *
30355612 AACATCTGATAGTGTCTTGATTGTCTCGTCATGCATCCTGATCTGAACAGTAACAACACCGGTTA
1 AACATCTGACAGTGTCTTGATTGTCCCATCATGCATCCTAATCTGAACAGTAACAACAACAGTTA
**
30355677 CTTTACTAGGTAAGTCATTCTTTAGGCACACAAATCCACCTTCAACTTAATTGTATGTAGAGAAC
66 CTTTACTAGGTAAGTCATTCCCTAGGCACACAAATCCACCTTCAACTTAATTGTATGTAGAGAAC
* *
30355742 TAGTCCCTATTGGAACACATGTGGAACG
131 CAGACCCTATTGGAACACATGTGGAACG
* * *
30355770 AACATCTGACAGTGTCTTGATTGTCCCATCATGCATCCTAATTTGAATAGTACCAACAACAGTTA
1 AACATCTGACAGTGTCTTGATTGTCCCATCATGCATCCTAATCTGAACAGTAACAACAACAGTTA
* * *
30355835 CTTTACTGGGTAAGTCATTCCCTAGGCATACAACTCCACCTTCAA-TTGAATTGTATGT-GAAGA
66 CTTTACTAGGTAAGTCATTCCCTAGGCACACAAATCCACCTTCAACTT-AATTGTATGTAG-AGA
* * *
30355898 ACCAGACCCTGTTGGGACACACATATGGAAAG
129 ACCAGACCCTATT-GGA-ACACATGTGGAACG
30355930 AACA
1 AACA
30355934 CCCCAAATCC
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
157 3 0.02
158 119 0.84
159 3 0.02
160 16 0.11
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (158 bp):
AACATCTGACAGTGTCTTGATTGTCCCATCATGCATCCTAATCTGAACAGTAACAACAACAGTTA
CTTTACTAGGTAAGTCATTCCCTAGGCACACAAATCCACCTTCAACTTAATTGTATGTAGAGAAC
CAGACCCTATTGGAACACATGTGGAACG
Found at i:30357179 original size:44 final size:44
Alignment explanation
Indices: 30357110--30357200 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
30357100 GTAGGTCAAA
* *
30357110 TAATATTCAAATAACCTACACTAATCAAAGTTGAAGTGTGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTGAAGTGGGAAAC
* * *
30357154 TAATATTAAAATAACTTACATTAATCAAAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTGAAGTGGGAAAC
30357198 TAA
1 TAA
30357201 AACTAGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTGAAGTGGGAAAC
Found at i:30358398 original size:138 final size:138
Alignment explanation
Indices: 30358197--30358462 Score: 433
Period size: 138 Copynumber: 1.9 Consensus size: 138
30358187 GTTATATTTT
* * * *
30358197 CAAAAGAATATTAATTGACATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATA
1 CAAAAGAATATTAATTGACATGCCTTTAATATTTTGACAGAAATTAATTAATATAACTATTTATA
* *
30358262 TTAATAAATTCAGTAAAATATATACAATTAATATTGTGTATGAATTAAATTCATATATTAATTAT
66 TTAATAAATTCAGTAAAATATACACAATTAATATTGTGTATGAATCAAATTCATATATTAATTAT
30358327 ATTCTTTC
131 ATTCTTTC
** *
30358335 CAAAAGAATATTAATTTCCATGCCTTTAATATTTTGACAGAAATTAATTAATATAATTATTTATA
1 CAAAAGAATATTAATTGACATGCCTTTAATATTTTGACAGAAATTAATTAATATAACTATTTATA
* *
30358400 TTAATAAATTCGGTAAAATATACACAATTAATATTTTGTATGAATCAAATTCATATATTAATT
66 TTAATAAATTCAGTAAAATATACACAATTAATATTGTGTATGAATCAAATTCATATATTAATT
30358463 TTTTCTATGT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 117 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (138 bp):
CAAAAGAATATTAATTGACATGCCTTTAATATTTTGACAGAAATTAATTAATATAACTATTTATA
TTAATAAATTCAGTAAAATATACACAATTAATATTGTGTATGAATCAAATTCATATATTAATTAT
ATTCTTTC
Found at i:30360185 original size:102 final size:101
Alignment explanation
Indices: 30360004--30360350 Score: 354
Period size: 102 Copynumber: 3.4 Consensus size: 101
30359994 AAGGATATCG
* *
30360004 TTGAACACGTGTGTAGTAC--TGTGCAAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATG
1 TTGAGCACGTGTGTAGTACTATGTG-AAA-GCTACTACGTGTATCGGTAAACT-ATGGTCACATG
30360066 TGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTT
63 TGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAG-T
* *
30360106 TTGAGCACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGT
1 TTGAGCACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCGGTAAACTATGGTCACATGTGT
*
30360171 GGTACTAAGTGAAGGCTACTATG-GATACCG-GAAAGCT
66 AGTACTAAGTGAAGGCTACTATGTG-TACCGAG-AAG-T
* * * * * *
30360208 TTG-GTCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGT
1 TTGAG-CACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCGGT-AAACTATGGTCACATGT
* * * * *
30360270 GTAGTACTATGTGAAGGCTACTACGTGAACTGTA-AA-A
64 GTAGTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGT
* * * *
30360307 CTGATCACGTGTCTAGTACTATGTGAAGGCTACTACGTGTATCG
1 TTGAGCACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCG
30360351 AATGATAAAA
Statistics
Matches: 208, Mismatches: 25, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
99 34 0.16
100 2 0.01
101 42 0.20
102 122 0.59
103 4 0.02
104 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (101 bp):
TTGAGCACGTGTGTAGTACTATGTGAAAGCTACTACGTGTATCGGTAAACTATGGTCACATGTGT
AGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGT
Found at i:30360331 original size:49 final size:50
Alignment explanation
Indices: 30360004--30360345 Score: 289
Period size: 51 Copynumber: 6.8 Consensus size: 50
30359994 AAGGATATCG
* * ** * *
30360004 TTGAACACGTGTGTAGTACTGTGCAAAGGCTACTACGTGTATCGATAAATA-
1 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AC
* * * * * * **
30360055 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGTT
1 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AA-AC
* * * * *
30360106 TTGAGCACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGT-AAAC
1 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCGTAAAAC
* * * * * * * *
30360156 TATGGTTACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGAAAGC
1 T-TGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGA-ACCGTAAAAC
* * *
30360207 TTTGGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAAC
1 -TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC
*
30360258 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAAC
1 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC
*
30360308 -TGATCACGTGTCTAGTACTATGTGAAGGCTACTACGTG
1 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
30360346 TATCGAATGA
Statistics
Matches: 230, Mismatches: 52, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
49 39 0.17
50 52 0.23
51 134 0.58
52 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC
Found at i:30367682 original size:51 final size:50
Alignment explanation
Indices: 30367618--30367956 Score: 269
Period size: 51 Copynumber: 6.7 Consensus size: 50
30367608 TATCGATGAA
* ** *
30367618 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAATATTGGT
* * * * *
30367669 CACATGTGTAGTACTAAGTGAAGGCAACTATGTGTACCG-AGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTA-AA-TATTG-GT
* * * *
30367720 CACCTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCAGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAA-TATTGGT
* * * * * * * **
30367771 TACATTTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGAAAGCTTCGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TACCGTAAATATT-GGT
* * *
30367822 CACGTATGTAGTACTATGTGAAGGCTACTATGTG-AGCCGTAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAATA-TTGGT
* * * *
30367872 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAATATTGGT
*
30367921 CACGTGTCTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
30367957 TCGAATGATA
Statistics
Matches: 231, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
49 39 0.17
50 52 0.23
51 132 0.57
52 7 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAATATTGGT
Found at i:30367832 original size:102 final size:102
Alignment explanation
Indices: 30367618--30367957 Score: 297
Period size: 102 Copynumber: 3.4 Consensus size: 102
30367608 TATCGATGAA
*
30367618 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATAGATAAATAATGGTCACATGTGTAGTAC
* *
30367683 TAAGTGAAGGCAACTATGTGTACCGAGAAGTTTTGAG
66 TAAGTGAAGGCAACTATGTGTACCGAGAAGCTTCGAG
* * * * *
30367720 CACCTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCAG-TAAACT-ATGGTTACATTTGTGGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAT-AGATAAA-TAATGGTCACATGTGTAGT
*
30367783 ACTAAGTGAAGGCTACTATG-GATACCG-GAAAGCTTCG-G
64 ACTAAGTGAAGGCAACTATGTG-TACCGAG-AAGCTTCGAG
* * * ** * * *
30367821 TCACGTATGTAGTACTATGTGAAGGCTACTATGTG-AGCCG-TAAA-ACTTGATCACGTGTGTAG
1 -CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TAGATAAATA-ATGGTCACATGTGTAG
* * * * * * *
30367883 TACTATGTGAAGGCTACTACGTGAACTGTA-AAAC-T-GAT
63 TACTAAGTGAAGGCAACTATGTGTACCG-AGAAGCTTCGAG
* *
30367921 CACGTGTCTAGTACTATGTGAAGGCTACTACGTGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAT
30367958 CGAATGATAA
Statistics
Matches: 193, Mismatches: 32, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
99 32 0.17
100 2 0.01
101 44 0.23
102 113 0.59
103 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATAGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCAACTATGTGTACCGAGAAGCTTCGAG
Found at i:30371048 original size:29 final size:30
Alignment explanation
Indices: 30370984--30371048 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
30370974 TTCTCTTTTT
*
30370984 TTTTCTTCTCTTATTATTTTTTAAAAATAGG
1 TTTT-TTCTCTTATTATCTTTTAAAAATAGG
* * *
30371015 -ATTTTCTTTTATTATCTTTT-AGAATAGG
1 TTTTTTCTCTTATTATCTTTTAAAAATAGG
30371043 TTTTTT
1 TTTTTT
30371049 TAAAATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 7 0.25
29 19 0.68
30 2 0.07
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (30 bp):
TTTTTTCTCTTATTATCTTTTAAAAATAGG
Found at i:30372401 original size:10 final size:10
Alignment explanation
Indices: 30372386--30372410 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30372376 AAATTGTCAT
30372386 TTTTTTTTCC
1 TTTTTTTTCC
30372396 TTTTTTTTCC
1 TTTTTTTTCC
30372406 TTTTT
1 TTTTT
30372411 CGTCTCTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTCC
Found at i:30388422 original size:33 final size:33
Alignment explanation
Indices: 30388374--30388491 Score: 155
Period size: 33 Copynumber: 3.6 Consensus size: 33
30388364 TACTATCTTT
* * *
30388374 TTGGTGTGCTAGTTGGATTAGCTTTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
30388407 TTAGTGTGATGGTTGGTTTAGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
**
30388440 TTGGTGTGATGGTCAGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
30388473 TTGGTGTGATGGATGGATT
1 TTGGTGTGATGGTTGGATT
30388492 GACTCGAGTG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.41
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:30390955 original size:44 final size:42
Alignment explanation
Indices: 30390892--30390989 Score: 133
Period size: 44 Copynumber: 2.3 Consensus size: 42
30390882 GGTTGCTTCC
* * *
30390892 ACGTAACTTCTTTTTTTGTCATTTCTTGGTAGTGATTTTTTCCT
1 ACGTAGCTTCCTTTTTTGTCATTTCCTGGTAGTGATTTTTT--T
* *
30390936 ACGTAGTTTCCTTTTTTGTCGTTTCCTGGTAGTGATTTTTTT
1 ACGTAGCTTCCTTTTTTGTCATTTCCTGGTAGTGATTTTTTT
30390978 ACGTAGCTTCCT
1 ACGTAGCTTCCT
30390990 CTATTTTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 12 0.25
44 36 0.75
ACGTcount: A:0.12, C:0.17, G:0.16, T:0.54
Consensus pattern (42 bp):
ACGTAGCTTCCTTTTTTGTCATTTCCTGGTAGTGATTTTTTT
Found at i:30394005 original size:76 final size:76
Alignment explanation
Indices: 30393910--30394212 Score: 333
Period size: 76 Copynumber: 4.0 Consensus size: 76
30393900 CAAATTTTTG
* * *
30393910 CGCCCAGCGCTAGTTGGAT-AACTCGACAATATTAAAGATGTGCCCAGCAGTAGTCAGATAAACC
1 CGCCCAACGCTAGTCGGATAAAC-CGACAATATTAAAGATGTGCCCAGCACTAGTCAGATAAACC
30393974 GACAACGATTTA
65 GACAACGATTTA
* * *
30393986 TGCCCAACGCTAGTCGGATAAACCAACAATATTAAAGATGTACCCAGCACTAGTCAGATAAACCG
1 CGCCCAACGCTAGTCGGATAAACCGACAATATTAAAGATGTGCCCAGCACTAGTCAGATAAACCG
*
30394051 ACAATGATTTA
66 ACAACGATTTA
* * ** **
30394062 CGTCC-ACTGCTAGTTGGATAAACCGA-TTTATTAAAGATGTGCCCAGCACTAGTTGGATAAACC
1 CGCCCAAC-GCTAGTCGGATAAACCGACAATATTAAAGATGTGCCCAGCACTAGTCAGATAAACC
* *
30394125 AACAACGATTTG
65 GACAACGATTTA
* * * * * * ** *
30394137 CACCCAGCGCTAGTCAGATAAACTGACGATATTACAAAATGTGCCCAGCACTAGTTGGATAAATC
1 CGCCCAACGCTAGTCGGATAAACCGACAATATTA-AAGATGTGCCCAGCACTAGTCAGATAAACC
*
30394202 GATAACGATTT
65 GACAACGATTT
30394213 GATACAAAAT
Statistics
Matches: 191, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
75 61 0.32
76 90 0.47
77 40 0.21
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
CGCCCAACGCTAGTCGGATAAACCGACAATATTAAAGATGTGCCCAGCACTAGTCAGATAAACCG
ACAACGATTTA
Found at i:30394055 original size:40 final size:39
Alignment explanation
Indices: 30393933--30394055 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 39
30393923 TTGGATAACT
*
30393933 CGACAATATTAAAGATGTGCCCAGCAGTAGTCAGATAAAC
1 CGACAATATTAAAGATGT-CCCAGCACTAGTCAGATAAAC
* * * * *
30393973 CGACAACGATT---TATG-CCCAACGCTAGTCGGATAAAC
1 CGACAA-TATTAAAGATGTCCCAGCACTAGTCAGATAAAC
*
30394009 CAACAATATTAAAGATGTACCCAGCACTAGTCAGATAAAC
1 CGACAATATTAAAGATGT-CCCAGCACTAGTCAGATAAAC
30394049 CGACAAT
1 CGACAAT
30394056 GATTTACGTC
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
35 3 0.05
36 22 0.34
38 6 0.09
40 30 0.47
41 3 0.05
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.20
Consensus pattern (39 bp):
CGACAATATTAAAGATGTCCCAGCACTAGTCAGATAAAC
Found at i:30401122 original size:21 final size:21
Alignment explanation
Indices: 30401098--30401140 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30401088 TATAGTTATA
30401098 CATACATACAATTCAATTCGG
1 CATACATACAATTCAATTCGG
30401119 CATACATACAATTCAATTCGG
1 CATACATACAATTCAATTCGG
30401140 C
1 C
30401141 TATGTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (21 bp):
CATACATACAATTCAATTCGG
Found at i:30403495 original size:20 final size:20
Alignment explanation
Indices: 30403472--30403510 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30403462 TTAGTATTGT
30403472 TTTTAAGACAT-TTTTATTTA
1 TTTTAAGA-ATATTTTATTTA
*
30403492 TTTTAGGAATATTTTATTT
1 TTTTAAGAATATTTTATTT
30403511 TATACACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTAAGAATATTTTATTTA
Found at i:30407729 original size:16 final size:16
Alignment explanation
Indices: 30407696--30407734 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
30407686 TGAAATTTGG
*
30407696 TTTATTTAATTTTGTT
1 TTTATTTAATTATGTT
30407712 TTTATTTAATTAAT-TT
1 TTTATTTAATT-ATGTT
30407728 TTTATTT
1 TTTATTT
30407735 TTTGTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTAATTATGTT
Found at i:30408365 original size:12 final size:12
Alignment explanation
Indices: 30408348--30408372 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30408338 ATATATAAAA
30408348 TTGAATTAATCT
1 TTGAATTAATCT
30408360 TTGAATTAATCT
1 TTGAATTAATCT
30408372 T
1 T
30408373 CTCACCATGA
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTGAATTAATCT
Found at i:30409653 original size:20 final size:20
Alignment explanation
Indices: 30409628--30409672 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30409618 TGACACACCA
*
30409628 TTGACC-ACTATTGATTAATG
1 TTGACCAAC-ATTGATCAATG
*
30409648 TTGACCAACATTGATCACTG
1 TTGACCAACATTGATCAATG
30409668 TTGAC
1 TTGAC
30409673 TATCCACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGACCAACATTGATCAATG
Found at i:30409837 original size:31 final size:31
Alignment explanation
Indices: 30409794--30409852 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
30409784 AAAAGATTTA
30409794 AAATTTATAAAATTCTAAAAT-ATATAAATAT
1 AAATTTATAAAATTC-AAAATAATATAAATAT
30409825 AAATTTCA-AAAATTCAAAATAATATAAA
1 AAATTT-ATAAAATTCAAAATAATATAAA
30409853 AAATTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 20 0.77
32 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
AAATTTATAAAATTCAAAATAATATAAATAT
Found at i:30409873 original size:10 final size:10
Alignment explanation
Indices: 30409840--30409881 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
30409830 TCAAAAATTC
*
30409840 AAAATAATAT
1 AAAAAAATAT
*
30409850 AAAAAATTGA-
1 AAAAAAAT-AT
30409860 AAAAAAATAT
1 AAAAAAATAT
30409870 AAAAAAATAT
1 AAAAAAATAT
30409880 AA
1 AA
30409882 TTTAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.93
11 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:30409873 original size:18 final size:19
Alignment explanation
Indices: 30409832--30409874 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
30409822 TATAAATTTC
*
30409832 AAAAATTCAAAATAATATA
1 AAAAATTCAAAATAAAATA
*
30409851 AAAAATTGAAAA-AAAATA
1 AAAAATTCAAAATAAAATA
30409869 TAAAAA
1 -AAAAA
30409875 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAATTCAAAATAAAATA
Found at i:30410085 original size:16 final size:17
Alignment explanation
Indices: 30410064--30410096 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30410054 AAGTTCTCTT
30410064 TTTAAAT-TTTTTAAAA
1 TTTAAATATTTTTAAAA
30410080 TTTAAATACTTTTTAAA
1 TTTAAATA-TTTTTAAA
30410097 TTTTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATATTTTTAAAA
Found at i:30410903 original size:11 final size:11
Alignment explanation
Indices: 30410872--30410928 Score: 78
Period size: 11 Copynumber: 5.1 Consensus size: 11
30410862 CAGAAAATTT
*
30410872 AATTTCTCTCC
1 AATTTCTCTCA
30410883 AATATTCTCTCA
1 AAT-TTCTCTCA
30410895 AATTTCTCTCA
1 AATTTCTCTCA
*
30410906 AATTCCTCTCA
1 AATTTCTCTCA
*
30410917 AATTCCTCTCA
1 AATTTCTCTCA
30410928 A
1 A
30410929 GAAAGCTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
11 33 0.77
12 10 0.23
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTTCTCTCA
Found at i:30411150 original size:21 final size:20
Alignment explanation
Indices: 30411126--30411191 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
30411116 GATTTTTTGA
30411126 TTTATGTAATTTTAAATAATT
1 TTTAT-TAATTTTAAATAATT
*
30411147 TTTATT--TTATTAGA-AATT
1 TTTATTAATT-TTAAATAATT
30411165 TCTTA-TAATTTTTAAATAATT
1 T-TTATTAA-TTTTAAATAATT
30411186 TTTATT
1 TTTATT
30411192 TTATTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTATTAATTTTAAATAATT
Found at i:30411705 original size:7 final size:7
Alignment explanation
Indices: 30411689--30411720 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
30411679 CCATTGTAAT
*
30411689 ATATTAA
1 ATATTCA
30411696 ATATTCA
1 ATATTCA
30411703 ATATTCA
1 ATATTCA
30411710 ATATTCA
1 ATATTCA
30411717 ATAT
1 ATAT
30411721 CTTGTAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTCA
Found at i:30415866 original size:7 final size:6
Alignment explanation
Indices: 30415849--30415900 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
30415839 TATTTTCCTG
* *
30415849 TAAAAA TAAAAA TGAAAA T-AAAA TAAAATA GTAAAAT TAAATAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA-A -TAAAAA TAAA-AA TAAAAA
30415899 TA
1 TA
30415901 GGAAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 23 0.59
7 6 0.15
8 5 0.13
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (6 bp):
TAAAAA
Done.