Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 93 of 163
Found at i:29903120 original size:90 final size:90
Alignment explanation
Indices: 29902979--29903150 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
29902969 CTGTATTATC
* *
29902979 AACTTTTATTTGCATCGAATAGTGGTTTATCCACTCCATATTAGCAACTTTTATCTACACCAAGT
1 AACTTTTATCTACATCGAATAGTGGTTTATCCACTCCATATTAGCAACTTTTATCTACACCAAGT
*
29903044 AGCGGTTTATCCACACCATATTTGT
66 AGCGGTCTATCCACACCATATTTGT
* * * *
29903069 AACTTTTATCTACATC-AAGTAGTGGTTTATCCACAT-CGTATTAGTAGCTTTTATCTACATCAA
1 AACTTTTATCTACATCGAA-TAGTGGTTTATCCAC-TCCATATTAGCAACTTTTATCTACACCAA
* *
29903132 TTAGTGGTCTATCCACACC
64 GTAGCGGTCTATCCACACC
29903151 GTACTAGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
89 2 0.03
90 68 0.96
91 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (90 bp):
AACTTTTATCTACATCGAATAGTGGTTTATCCACTCCATATTAGCAACTTTTATCTACACCAAGT
AGCGGTCTATCCACACCATATTTGT
Found at i:29909162 original size:27 final size:27
Alignment explanation
Indices: 29909118--29909209 Score: 107
Period size: 26 Copynumber: 3.4 Consensus size: 27
29909108 GTGTTTAGGA
29909118 TTAGGGTTTTTG-AAAAAAAATAGGGT
1 TTAGGGTTTTTGAAAAAAAAATAGGGT
* *
29909144 TTAGGGTTTTTGAAAAAAAATTAAGGT
1 TTAGGGTTTTTGAAAAAAAAATAGGGT
* * *
29909171 TTAGGG-TTTTAAAAAAATAAATTTGAGT
1 TTAGGGTTTTTGAAAAAA-AAA-TAGGGT
29909199 TTAGGGTTTTT
1 TTAGGGTTTTT
29909210 AATTGGTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
26 22 0.40
27 20 0.36
28 9 0.16
29 4 0.07
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (27 bp):
TTAGGGTTTTTGAAAAAAAAATAGGGT
Found at i:29909187 original size:28 final size:27
Alignment explanation
Indices: 29909118--29909208 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
29909108 GTGTTTAGGA
** *
29909118 TTAGGGTTTTTGAAAAAAAA-TAGGGT
1 TTAGGGTTTTAAAAAAAAAATTAAGGT
**
29909144 TTAGGGTTTTTGAAAAAAAATTAAGGT
1 TTAGGGTTTTAAAAAAAAAATTAAGGT
*
29909171 TTAGGGTTTTAAAAAAATAAATT-TGAGT
1 TTAGGGTTTTAAAAAAA-AAATTAAG-GT
29909199 TTAGGGTTTT
1 TTAGGGTTTT
29909209 TAATTGGTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 20 0.34
27 21 0.36
28 17 0.29
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (27 bp):
TTAGGGTTTTAAAAAAAAAATTAAGGT
Found at i:29909238 original size:36 final size:37
Alignment explanation
Indices: 29909198--29909300 Score: 111
Period size: 36 Copynumber: 2.8 Consensus size: 37
29909188 TAAATTTGAG
29909198 TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTA-GGA
1 TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGGGA
**** * * * * *
29909234 TTTAGGGTTTTTAAAAAATAAAT-TTGGGATTAGGGT
1 TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGGGA
29909270 TTTAGGGTTTTTAATTGGTAAGTGATGTGTT
1 TTTAGGGTTTTTAATTGGTAAGTGATGTGTT
29909301 CTAAAAAATT
Statistics
Matches: 48, Mismatches: 17, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
35 6 0.12
36 38 0.79
37 4 0.08
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (37 bp):
TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGGGA
Found at i:29909241 original size:64 final size:68
Alignment explanation
Indices: 29909170--29909300 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 68
29909160 AAAATTAAGG
29909170 TTTAGGGTTTTAAAAAAATAAATTT-G-A-G-TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTA
1 TTTAGGGTTTTAAAAAAATAAATTTGGTAGGTTTTAGGGTTTTTAATTGGTAAGTGATGTGTTTA
29909231 GGA
66 GGA
*
29909234 TTTAGGGTTTTTAAAAAATAAATTTGGGATTAGGGTTTTAGGGTTTTTAATTGGTAAGTGATGTG
1 TTTAGGGTTTTAAAAAAATAAATTT-GG--TA-GGTTTTAGGGTTTTTAATTGGTAAGTGATGTG
29909299 TT
62 TT
29909301 CTAAAAAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
64 24 0.41
66 1 0.02
69 1 0.02
71 1 0.02
72 31 0.53
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (68 bp):
TTTAGGGTTTTAAAAAAATAAATTTGGTAGGTTTTAGGGTTTTTAATTGGTAAGTGATGTGTTTA
GGA
Found at i:29910443 original size:3 final size:3
Alignment explanation
Indices: 29910366--29910424 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
29910356 AAATGGAAAT
*
29910366 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
29910414 ATA ATA ATA AT
1 ATA ATA ATA AT
29910425 GGTAACATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:29911958 original size:44 final size:43
Alignment explanation
Indices: 29911910--29912660 Score: 357
Period size: 44 Copynumber: 17.3 Consensus size: 43
29911900 TTTTAACTTA
* *
29911910 CTCCACTGTAACTTCAGGGAGATAAGACTTGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTG
* ** *
29911954 CTCCACTGCAACTTCAGGGAGATAAGGTTTGATAT-TTTGATCCG
1 CTCCACTGCAACTTCAGGGAGATAA-GATTG-TATCTTCAATCTG
* * * *
29911998 CTTCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTG-TATCTTCAATCTG
* * *
29912042 CTCCACTGCAACTTCAGGGAGATAAGATTGGA--TGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
* * * * *
29912083 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTGTT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGT-ATCTTCAATCTG
* * *
29912127 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTC-GTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-GTATC-TTCAATCTG
* * * *
29912171 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTGTT-AATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TGT-ATCTTCAATCTG
* * * *
29912215 CTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
** * * ** * *
29912258 CTCTGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTTAATCGG
1 CTCCACTGCAACT-TCAGGGAGATAAGAT-TGTATCTTCAATCTG
* * * * * * *
29912302 CTCCACTGTAACCTCAGGGAGATAAGACCTG-A--TGCGATTTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTG
** * * * * *
29912343 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TGTATCTTCAATCTG
* * * * *
29912387 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
** * * ** *
29912430 CTCTGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTTAATCTG
1 CTCCACTGCAACT-TCAGGGAGATAAGAT-TGTATCTTCAATCTG
* * * * *** *
29912474 CTCCACTGTAACCTCAGGGAGATAATATATGAAATTCTTTGGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-TA-TCTTCAATCTG
* * * * * * *
29912520 CTCCGCTGTAACCTCAGGGAGATAAGACCTG-A--TGCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTG
** * * * * *
29912561 CTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT--TGTATCTTCAATCTG
* * * *
29912605 CTCCACTGTAACTTCAGGGAGATAGGATTAT-TGACTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGTAT--CTTCAATCTG
29912649 CTCCACTGCAAC
1 CTCCACTGCAAC
29912661 CGATGAAGGC
Statistics
Matches: 535, Mismatches: 136, Indels: 72
0.72 0.18 0.10
Matches are distributed among these distances:
41 90 0.17
42 14 0.03
43 68 0.13
44 322 0.60
45 7 0.01
46 34 0.06
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTG
Found at i:29912035 original size:88 final size:87
Alignment explanation
Indices: 29911913--29912498 Score: 392
Period size: 87 Copynumber: 6.8 Consensus size: 87
29911903 TAACTTACTC
* * *
29911913 CACTGTAACTTCAGGGAGATAAGA-CT-TGTATCTTCAA-CCTGCTCCACTGCAACTTCAGGGAG
1 CACTGCAACTTCAGAGAGATAAGATCTGTG-GTCTT-AATCC-GCTCCACTGCAACTTCAGGGAG
* *
29911975 ATAAGGTTTGATATTTTGATCCGCTT
63 ATAAGGATTG-TATTTTGATCTGCTT
* * *
29912001 CACTGCAACTTCAG-GAAGATAGGAT-TGAT-TTCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 CACTGCAACTTCAGAG-AGATAAGATCTG-TGGTCTT-AATCCGCTCCACTGCAACTTCAGGGAG
* **
29912063 ATAA-GATTGGA-TGCGATCTGC-T
63 ATAAGGATTGTATTTTGATCTGCTT
*
29912085 CTACTGCAACTTCAGAGAGATAAGATCTGTGGTGTTAATCCGCTCCACTGCAACTTCAGGGAGAT
1 C-ACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCCACTGCAACTTCAGGGAGAT
* *
29912150 -AGGATTGGTTTCTTTCG-TCTGCTC
65 AAGGATT-GTAT-TTT-GATCTGCTT
*
29912174 CACTGCAACTTCAGAGAGATAAGATCTGTGGTGTTAATCCGCTCCACTGCAACTTCAGGGAGAT-
1 CACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCCACTGCAACTTCAGGGAGATA
* * *
29912238 AGGATAGTGTCTTCGATCTGC-T
66 AGGATTGTAT-TTTGATCTGCTT
* * * * * * *
29912260 CTGCTGTAA-TCTCAGGGAGATAAGATCTCTGG-CTTTAATCGGCTCCACTGTAACCTCAGGGAG
1 C-ACTGCAACT-TCAGAGAGATAAGATCTGTGGTC-TTAATCCGCTCCACTGCAACTTCAGGGAG
* ** * *
29912323 ATAA-GACCTG-A-TGCGATTTAC-T
63 ATAAGGA-TTGTATTTTGATCTGCTT
* * ** * *
29912345 CTGCTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAGGGAGA
1 C-ACTGCAACTTCAGAGAGATAAGAT-CTGTGGTCTTAATCCGCTCCACTGCAACTTCAGGGAGA
* * *
29912409 T-AGGATAGTGTCTTCGATCTGC-T
64 TAAGGATTGTAT-TTTGATCTGCTT
* * * * * * *
29912432 CTGCTGTAA-TCTCAGGGAGATAAGATCTCTGG-CTTTAATCTGCTCCACTGTAACCTCAGGGAG
1 C-ACTGCAACT-TCAGAGAGATAAGATCTGTGGTC-TTAATCCGCTCCACTGCAACTTCAGGGAG
29912495 ATAA
63 ATAA
29912499 TATATGAAAT
Statistics
Matches: 412, Mismatches: 54, Indels: 64
0.78 0.10 0.12
Matches are distributed among these distances:
84 5 0.01
85 124 0.30
86 17 0.04
87 131 0.32
88 131 0.32
89 3 0.01
90 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
CACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCCACTGCAACTTCAGGGAGATA
AGGATTGTATTTTGATCTGCTT
Found at i:29912319 original size:87 final size:86
Alignment explanation
Indices: 29912036--29912497 Score: 497
Period size: 87 Copynumber: 5.3 Consensus size: 86
29912026 TGATTTCTTC
* * ** * * *
29912036 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT--TGGATGCGATCTGCTCTACTGCAACTTCA
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAACTTCA
*
29912099 GAGAGATAAGATCTGTGGTGTT
66 GAGAGATAAGATCTCTGGT-TT
* * ** *
29912121 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCG-TCTGCTCCACTGCAACTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TAGTGTC-TTCGATCTGCTCTGCTGTAACTT
*
29912185 CAGAGAGATAAGATCTGTGGTGTT
64 CAGAGAGATAAGATCTCTGGT-TT
29912209 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAA-TCTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAACT-TC
*
29912273 AGGGAGATAAGATCTCTGGCTTT
65 AGAGAGATAAGATCTCTGG-TTT
* * * * ** * * * *
29912296 AATCGGCTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATTTACTCTGCTGTAACTTCA
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAACTTCA
* **
29912359 GAGAGATAAGATCCTTTATTTT
66 GAGAGATAAGAT-CTCTGGTTT
*
29912381 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAA-TCTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAACT-TC
*
29912445 AGGGAGATAAGATCTCTGGCTTT
65 AGAGAGATAAGATCTCTGG-TTT
* * *
29912468 AATCTGCTCCACTGTAACCTCAGGGAGATA
1 AATCCGCTCCACTGCAACTTCAGGGAGATA
29912498 ATATATGAAA
Statistics
Matches: 321, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
85 95 0.30
86 18 0.06
87 129 0.40
88 76 0.24
89 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (86 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAACTTCA
GAGAGATAAGATCTCTGGTTT
Found at i:29912402 original size:172 final size:172
Alignment explanation
Indices: 29912036--29912498 Score: 578
Period size: 172 Copynumber: 2.7 Consensus size: 172
29912026 TGATTTCTTC
* * ** * * *
29912036 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT--TGGATGCGATCTGCTCTACTGCAA-CTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATC-TC
* * * * * * * * *
29912098 AGAGAGATAAGATCTGTGG-TGTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTT
65 AGGGAGATAAGATCTCTGGCT-TTAATCGGCTCCACTGTAACCTCAGGGAGATAAGACCT-GATG
** * ** * *
29912161 CTTTCGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTGTT
128 CGAT--T-TACTCTGCTGTAACTTCAGAGAGATAAGATCTGTGATGTT
29912209 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCA
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCA
29912274 GGGAGATAAGATCTCTGGCTTTAATCGGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
66 GGGAGATAAGATCTCTGGCTTTAATCGGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
* *
29912339 TTTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTATTTT
131 TTTACTCTGCTGTAACTTCAGAGAGATAAGAT-CTGTGATGTT
*
29912381 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCA
1 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCA
*
29912446 GGGAGATAAGATCTCTGGCTTTAATCTGCTCCACTGTAACCTCAGGGAGATAA
66 GGGAGATAAGATCTCTGGCTTTAATCGGCTCCACTGTAACCTCAGGGAGATAA
29912499 TATATGAAAT
Statistics
Matches: 257, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
172 146 0.57
173 35 0.14
175 73 0.28
176 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (172 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCA
GGGAGATAAGATCTCTGGCTTTAATCGGCTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGA
TTTACTCTGCTGTAACTTCAGAGAGATAAGATCTGTGATGTT
Found at i:29912801 original size:87 final size:87
Alignment explanation
Indices: 29912648--29913423 Score: 1153
Period size: 87 Copynumber: 9.0 Consensus size: 87
29912638 ACTTCAATTT
* * **
29912648 GCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGTTAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
29912713 CAAGATCTGCGATCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
* * ** *
29912735 GCTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTTTATCTGCTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
29912800 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
* * * *
29912822 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTACGATCTGCTTCACTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
29912887 CAAGCTCTGCTATCTTCAACTA
66 CAAGATCTGCTATCTTCAACCA
*
29912909 GCTCCACTGCAACCGATGGAGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
29912974 CAAGATCTACTTTCTTCAACCA
66 CAAGATCTGCTATCTTCAACCA
** *
29912996 GCTCCACTGCAACCGATGGAGGCAAGATTTTGTTTTCGATCTGCTTCGCTATTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
29913061 CAAGCTCTGCTATCTTCAACTA
66 CAAGATCTGCTATCTTCAACCA
*
29913083 GCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
29913148 CAAGATCTGCTTTCTTCAACCA
66 CAAGATCTGCTATCTTCAACCA
* *
29913170 GCTCCACTGCAACCGATAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
29913235 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
* ** *
29913257 GCTCCACTGCAACCAATGGAGGCAAGATTTTG-CTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
29913321 CAAGATCTGCT-TCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
* * **
29913342 GCTCTACTGCAACCAATAAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
29913407 TAATATCTGCT-TCTTCA
66 CAAGATCTGCTATCTTCA
29913424 CTGATCTGTT
Statistics
Matches: 625, Mismatches: 63, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
85 37 0.06
86 86 0.14
87 502 0.80
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (87 bp):
GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTATCTTCAACCA
Found at i:29912890 original size:43 final size:43
Alignment explanation
Indices: 29912841--29912977 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
29912831 CAACCAATGG
29912841 AGGCAAGGCTTTGTCTACGATCTGCTTCACTGTTAACGCAGGA
1 AGGCAAGGCTTTGTCTACGATCTGCTTCACTGTTAACGCAGGA
* * * * *
29912884 AGGCAA-GCTCTG-CTATCTTCAACTAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAGGCTTTGTCTA-C--GATCT-GCTTCACTGTTAACGC-A-GGA
* * * *
29912928 AGGCAAGGATTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTCTACGATCTGCTTCACTGTTAACGCAGGA
29912971 AGGCAAG
1 AGGCAAG
29912978 ATCTACTTTC
Statistics
Matches: 69, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
41 3 0.04
42 15 0.22
43 21 0.30
44 14 0.20
45 15 0.22
46 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (43 bp):
AGGCAAGGCTTTGTCTACGATCTGCTTCACTGTTAACGCAGGA
Found at i:29914691 original size:21 final size:22
Alignment explanation
Indices: 29914666--29914718 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
29914656 TTTTTTTTAC
29914666 TTTTTTCATTTTTCATTTTTCA-
1 TTTT-TCATTTTTCATTTTTCAT
29914688 TTTTTCATTTTTCATTTTTTCAT
1 TTTTTCATTTTTCA-TTTTTCAT
29914711 TTTTTCAT
1 TTTTTCAT
29914719 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.34
22 11 0.38
23 8 0.28
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTCATTTTTCATTTTTCAT
Found at i:29914718 original size:8 final size:7
Alignment explanation
Indices: 29914667--29914714 Score: 87
Period size: 7 Copynumber: 6.7 Consensus size: 7
29914657 TTTTTTTACT
29914667 TTTTTCA
1 TTTTTCA
29914674 TTTTTCA
1 TTTTTCA
29914681 TTTTTCA
1 TTTTTCA
29914688 TTTTTCA
1 TTTTTCA
29914695 TTTTTCA
1 TTTTTCA
29914702 TTTTTTCA
1 -TTTTTCA
29914710 TTTTT
1 TTTTT
29914715 TCATCTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTCA
Found at i:29920528 original size:3 final size:3
Alignment explanation
Indices: 29920454--29920509 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
29920444 NNNNNNNNNT
29920454 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
29920502 ATA ATA AT
1 ATA ATA AT
29920510 GGTAACATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:29925216 original size:126 final size:126
Alignment explanation
Indices: 29924948--29925416 Score: 586
Period size: 126 Copynumber: 3.7 Consensus size: 126
29924938 GATGGTTTTA
* * *
29924948 AAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTC
1 AAAAGAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTC
* * * *
29925013 CCAGCTGG-CGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGATGTTTCT
66 CCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCT
* * * ** * * *
29925073 -GAGGAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAAAATCT
1 AAAAG-AATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCT
* * * *
29925137 CCCAGTTGGATGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAGAAGATGTTTCT
65 CCCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCT
* * * * *
29925199 AAAAGAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTGAAATAAA-CT
1 AAAAGAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACT-AAAAAAAGCT
* * *
29925263 CCTAGCTGGAAGCTCTTTTTGTATAGTAGTTTCT-AAAAAATTAATTTTGAGAAGATGTTTCC
65 CCCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAA-TAATTTTGAGAAGATGTTTCT
* * * * *
29925325 AAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTTAGCAAAAGTACTGAGAAAAGCTC
1 AAAAGAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTC
*
29925390 CCAACTGGAAGCTCTTTTTGTACAGTA
66 CCAGCTGGAAGCTCTTTTTGTACAGTA
29925417 CATCCTACTT
Statistics
Matches: 288, Mismatches: 50, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
124 1 0.00
125 68 0.24
126 211 0.73
127 8 0.03
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (126 bp):
AAAAGAATAGGTTGAAAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTC
CCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCT
Found at i:29925406 original size:252 final size:251
Alignment explanation
Indices: 29924948--29925416 Score: 681
Period size: 252 Copynumber: 1.9 Consensus size: 251
29924938 GATGGTTTTA
* * *
29924948 AAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTC
1 AAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTGAAAAAAGCTC
* ** **
29925013 CCAGCTGGCGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGATGTTTCTGAGGA
66 CCAGCTGGAGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGATGTTTCCAAAAA
* **
29925078 AATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAAAATCTCCCAGT
131 AATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAAAAGCTCCCAAC
*
29925143 TGGATGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAGAAGATGTTTCT
196 TGGAAGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAGAAGATGTTTCT
*
29925199 AAAAGAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTGAAATAAA-CT
1 AAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTGAAA-AAAGCT
* * * * *
29925263 CCTAGCTGGAAGCTCTTTTTGTATAGTAGTTTCTA-AAAAATTAATTTTGAGAAGATGTTTCCAA
65 CCCAGCTGG-AGCTCTTTTTGTACAATAGTTTC-AGAAAAAATAACTTTGAGAAGATGTTTCCAA
* ** * * *
29925327 AAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTTAGCAAAAGTACTGAGAAAAGCTCCC
128 AAAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAAAAGCTCCC
29925392 AACTGGAAGCTCTTTTTGTACAGTA
193 AACTGGAAGCTCTTTTTGTACAGTA
29925417 CATCCTACTT
Statistics
Matches: 191, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
251 64 0.34
252 126 0.66
253 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (251 bp):
AAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTGAAAAAAGCTC
CCAGCTGGAGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGATGTTTCCAAAAA
AATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAAAAGCTCCCAAC
TGGAAGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAGAAGATGTTTCT
Found at i:29929797 original size:105 final size:104
Alignment explanation
Indices: 29929621--29929816 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 104
29929611 AATTTTTAAA
* * * **
29929621 TGTAAGACCATAGTTGGGCTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACGCCTTGA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACAATAACTGGGTTATGA-GCCTCAA
* *
29929686 ACGTAAGACTATGGTTGGACCATGGCCGTATAGATACATG
65 ACGTAAGACCATGGTAGGACCATGGCCGTATAGATACATG
* *
29929726 TGTAAGACCATAGCTGGGCTGTGGCATTCTAATGATAAGACAATAACTGGGTTATG-GCACTACA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACAATAACTGGGTTATGAGC-CT-CA
* *
29929790 AATGTAAGACCATGGTAGGGCCATGGC
64 AACGTAAGACCATGGTAGGACCATGGC
29929817 AATGCATGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 2 0.03
104 2 0.03
105 74 0.95
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (104 bp):
TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACAATAACTGGGTTATGAGCCTCAAA
CGTAAGACCATGGTAGGACCATGGCCGTATAGATACATG
Found at i:29937597 original size:361 final size:362
Alignment explanation
Indices: 29936933--29937655 Score: 1439
Period size: 361 Copynumber: 2.0 Consensus size: 362
29936923 TACATGTGTA
29936933 AGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGAACTACAAATGT
1 AGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGAACTACAAATGT
29936998 AAGACCATGCCAGGGCCATGGGAATGCATGTGTAAGACCATAGTTGCACTATGCCACAAAAAGAA
66 AAGACCATGCCAGGGCCATGGGAATGCATGTGTAAGACCATAGTTGCACTATGCCACAAAAAGAA
29937063 CGATGTACTCATGTCCGTAAACCGTTCTTCAATTCTGTAAGAAATGGTAAGAGACTTATGTGGTT
131 CGATGTACTCATGTCCGTAAACCGTTCTTCAATTCTGTAAGAAATGGTAAGAGACTTATGTGGTT
29937128 GAATTGAAAAATTTATAGATTATTATTCATATTTATCTGAAGGAAATGTGTTTATTGATTATATT
196 GAATTGAAAAATTTATAGATTATTATTCATATTTATCTGAAGGAAATGTGTTTATTGATTATATT
29937193 GTATTTGACAGGGAAAAATGTATGATTTATTTACAATTTAATTTAATTTATTATATTAAGTTCTG
261 GTATTTGACAGGGAAAAATGTATGATTTATTTACAATTTAATTTAATTTATTATATTAAGTTCTG
29937258 TAAGATCAATGTTTAACTTATTGAAC-TACTAAGCTT
326 TAAGATCAATGTTTAACTTATTGAACTTACTAAGCTT
29937294 AGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGAACTACAAATGT
1 AGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGAACTACAAATGT
29937359 AAGACCATGCCAGGGCCATGGGAATGCATGTGTAAGACCATAGTTGCACTATGCCACAAAAAGAA
66 AAGACCATGCCAGGGCCATGGGAATGCATGTGTAAGACCATAGTTGCACTATGCCACAAAAAGAA
29937424 CGATGTACTCATGTCCGTAAACCGTTCTTCAATTCTGTAAGAAATGGTAAGAGACTTATGTGGTT
131 CGATGTACTCATGTCCGTAAACCGTTCTTCAATTCTGTAAGAAATGGTAAGAGACTTATGTGGTT
29937489 GAATTGAAAAATTTATAGATTATTATTCATATTTATCTGAAGGAAATGTGTTTATTGATTATATT
196 GAATTGAAAAATTTATAGATTATTATTCATATTTATCTGAAGGAAATGTGTTTATTGATTATATT
29937554 GTATTTGACAGGGAAAAATGTATGATTTATTTACAATTTAATTTAATTTATTATATTAAGTTCTG
261 GTATTTGACAGGGAAAAATGTATGATTTATTTACAATTTAATTTAATTTATTATATTAAGTTCTG
29937619 TAAGATCAATGTTTAACTTATTGAACTTACTAAGCTT
326 TAAGATCAATGTTTAACTTATTGAACTTACTAAGCTT
29937656 CATTAAGCTT
Statistics
Matches: 361, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
361 351 0.97
362 10 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (362 bp):
AGACCATAGCTGGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGAACTACAAATGT
AAGACCATGCCAGGGCCATGGGAATGCATGTGTAAGACCATAGTTGCACTATGCCACAAAAAGAA
CGATGTACTCATGTCCGTAAACCGTTCTTCAATTCTGTAAGAAATGGTAAGAGACTTATGTGGTT
GAATTGAAAAATTTATAGATTATTATTCATATTTATCTGAAGGAAATGTGTTTATTGATTATATT
GTATTTGACAGGGAAAAATGTATGATTTATTTACAATTTAATTTAATTTATTATATTAAGTTCTG
TAAGATCAATGTTTAACTTATTGAACTTACTAAGCTT
Found at i:29939760 original size:29 final size:30
Alignment explanation
Indices: 29939705--29939773 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
29939695 CATGTGTCTT
*
29939705 GGCCTTGTGAGTCACACAGCCTGGCCACAC
1 GGCCATGTGAGTCACACAGCCTGGCCACAC
* *
29939735 GGCCATGTGAGTTACAC-GGCTGGCCACAC
1 GGCCATGTGAGTCACACAGCCTGGCCACAC
29939764 GGCCATGTGA
1 GGCCATGTGA
29939774 CCCCTGCAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.17
Consensus pattern (30 bp):
GGCCATGTGAGTCACACAGCCTGGCCACAC
Found at i:29942029 original size:33 final size:32
Alignment explanation
Indices: 29941948--29942029 Score: 74
Period size: 33 Copynumber: 2.5 Consensus size: 32
29941938 ATGGCAATGT
** * *
29941948 TTAAATGTAAGACCATAGTTGGGCTATGGCAT
1 TTAAATGTAAGACCATAACTGGGCTATGACAC
* * * *
29941980 TTTAATGAAAATACCATAACTGGGTTATGACACC
1 TTAAATG-TAAGACCATAACTGGGCTATGACA-C
29942014 TTAAATGTAAGACCAT
1 TTAAATGTAAGACCAT
29942030 GGTTGGACCA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
32 6 0.16
33 25 0.68
34 6 0.16
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (32 bp):
TTAAATGTAAGACCATAACTGGGCTATGACAC
Found at i:29942130 original size:33 final size:32
Alignment explanation
Indices: 29942058--29942134 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
29942048 TAGATACATG
** * **
29942058 TGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
*
29942090 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACAAA
29942124 TGTAAGACCAT
1 TGTAAGACCAT
29942135 GGTACGGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:29942147 original size:105 final size:99
Alignment explanation
Indices: 29941953--29942182 Score: 275
Period size: 105 Copynumber: 2.3 Consensus size: 99
29941943 AATGTTTAAA
* * *
29941953 TGTAAGACCATAGTTGGGCTATGGCATTTTAATGAAAATACCATAACTGGGTTATGACACCTTAA
1 TGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
* *
29942018 ATGTAAGACCATGGTTGGACCATGGTAGTATAGATACATG
66 ATGTAAGACCATGGTCGGACCATGGCA--AT-G---CATG
* * *
29942058 TGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACCT-CA
*
29942122 AATGTAAGACCATGGTACGG-TCATGGCAATGCATG
65 AATGTAAGACCATGGT-CGGACCATGGCAATGCATG
* *
29942157 TGTAAGACCATAGTTGGACTTTGGCA
1 TGTAAGACCATAGTTGGGCTATGGCA
29942183 CAAAAAGAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
99 28 0.25
102 1 0.01
103 2 0.02
104 2 0.02
105 77 0.69
106 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (99 bp):
TGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
ATGTAAGACCATGGTCGGACCATGGCAATGCATG
Found at i:29943543 original size:10 final size:10
Alignment explanation
Indices: 29943530--29943554 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29943520 CATAAATGAA
29943530 AAAAAATATT
1 AAAAAATATT
29943540 AAAAAATATT
1 AAAAAATATT
29943550 AAAAA
1 AAAAA
29943555 TTTAAAATTA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATATT
Found at i:29943932 original size:19 final size:19
Alignment explanation
Indices: 29943908--29943951 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
29943898 CTTTTGTCAT
29943908 GTCAGCAAAGCGCTTCCAC
1 GTCAGCAAAGCGCTTCCAC
**
29943927 GTCAGCGCAGCGCTTCCAC
1 GTCAGCAAAGCGCTTCCAC
29943946 GTCAGC
1 GTCAGC
29943952 GCGCTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.25, T:0.16
Consensus pattern (19 bp):
GTCAGCAAAGCGCTTCCAC
Found at i:29943952 original size:19 final size:19
Alignment explanation
Indices: 29943916--29943953 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29943906 ATGTCAGCAA
29943916 AGCGCTTCCACGTCAGCGC
1 AGCGCTTCCACGTCAGCGC
29943935 AGCGCTTCCACGTCAGCGC
1 AGCGCTTCCACGTCAGCGC
29943954 GCTTTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (19 bp):
AGCGCTTCCACGTCAGCGC
Found at i:29944795 original size:30 final size:31
Alignment explanation
Indices: 29944738--29944797 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
29944728 ACTCGTGTTT
*
29944738 AAAAAATTTTAAATAAATTATTATATATTTG
1 AAAAAATTATAAATAAATTATTATATATTTG
* *
29944769 AAAATATTATAAATAACTTA-TATATATTT
1 AAAAAATTATAAATAAATTATTATATATTT
29944798 ATAATCAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
AAAAAATTATAAATAAATTATTATATATTTG
Found at i:29948888 original size:91 final size:91
Alignment explanation
Indices: 29948730--29948961 Score: 315
Period size: 91 Copynumber: 2.5 Consensus size: 91
29948720 CTTGAGGCTG
* * * ** *
29948730 CAAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTACCCTTTTCTTTGCACTCATT
1 CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTCTTTGCACTCAAT
* *
29948794 TGGGTACTTGAACTTTCAAAATGCAT
66 TGGGTACTTGAAATTTCAAAATACAT
* *
29948820 CAAAAAGACCCTCAAACCTTTTCAAAAAAACCAATTAAGCCCCTGCTTTTTTTTTTGCACTCAAT
1 CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTCTTTGCACTCAAT
29948885 TGGGTACTTGAAATTTCAAAATACAT
66 TGGGTACTTGAAATTTCAAAATACAT
***
29948911 CAAAAAGACCCTCAAA-CTTAAAAAAAAAAGAGCAATTAAGCCCCTGCTTTT
1 CAAAAAGACCCTCAAACCTT-TTCAAAAAA-AGCAATTAAGCCCCTGCTTTT
29948962 ATTAAATTTT
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
90 10 0.08
91 95 0.76
92 20 0.16
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (91 bp):
CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTCTTTGCACTCAAT
TGGGTACTTGAAATTTCAAAATACAT
Found at i:29948997 original size:18 final size:17
Alignment explanation
Indices: 29948958--29949015 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
29948948 AAGCCCCTGC
* *
29948958 TTTTATTAAATTTTATAT
1 TTTTATT-AATTTAATAA
29948976 TTTTATTAATTTAATAAA
1 TTTTATTAATTTAAT-AA
* *
29948994 TTTTCTAAAATTTAATAA
1 TTTTAT-TAATTTAATAA
29949012 TTTT
1 TTTT
29949016 TTTATATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.21
18 19 0.56
19 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTATTAATTTAATAA
Found at i:29949148 original size:89 final size:90
Alignment explanation
Indices: 29949048--29949212 Score: 228
Period size: 91 Copynumber: 1.8 Consensus size: 90
29949038 ATAAGTGCAA
* *
29949048 GGGCTTAATTGCTTTTTTGAAAAATTTTGA-GGAT-CTTTTTGATGCGTTTTGAAAGTTCAAGTA
1 GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGATCCTTTTT-ATGCATTTTGAAAGTTCAAG-A
29949111 GCT-AATTGAGTAGGGGAAAAAAACAG
64 GCTCAATTGAGTAGGGGAAAAAAACAG
* * * *
29949137 GGGCTTAATTGCTTTTTTTAACAAGTTTGAGGGGGTCCTTTTTATGCATTTTGAAAGTTCAAGGG
1 GGGCTTAATTGCTTTTTTGAAAAAGTTTGA-GGGATCCTTTTTATGCATTTTGAAAGTTCAAGAG
29949202 CTCAATTGAGT
65 CTCAATTGAGT
29949213 GCAAAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
89 27 0.41
90 3 0.05
91 30 0.45
92 6 0.09
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (90 bp):
GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGATCCTTTTTATGCATTTTGAAAGTTCAAGAGC
TCAATTGAGTAGGGGAAAAAAACAG
Found at i:29949235 original size:91 final size:87
Alignment explanation
Indices: 29949047--29949237 Score: 199
Period size: 91 Copynumber: 2.1 Consensus size: 87
29949037 AATAAGTGCA
* *
29949047 AGGGCTTAATTGCTTTTTTGAAAAATTTTGAGGATCTTTTTGATGCGTTTTGAAAGTTCAAGTAG
1 AGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGTAG
**
29949112 CTAATTGAGTAGGGGAAAAAAAC
66 CTAATTGAGTA-GCAAAAAAAAC
* * *
29949135 AGGGGCTTAATTGCTTTTTTTAACAAGTTTGAGGGGGTCCTTTTT-ATGCATTTTGAAAGTTCAA
1 A-GGGCTTAATTGCTTTTTTGAAAAAGTTTGA--GGAT-CTTTTTGATGCATTTTGAAAGTTCAA
* *
29949199 G-GGCTCAATTGAGT-GCAAAAATAAAGG
62 GTAGCT-AATTGAGTAGCAAAAA-AAA-C
29949226 AGGGACTTAATT
1 AGGG-CTTAATT
29949238 ATTATTATTA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
88 1 0.01
89 32 0.37
90 9 0.10
91 38 0.44
92 6 0.07
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (87 bp):
AGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGTAG
CTAATTGAGTAGCAAAAAAAAC
Found at i:29949243 original size:3 final size:3
Alignment explanation
Indices: 29949235--29949259 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29949225 GAGGGACTTA
29949235 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
29949260 GTTTGAGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:29950964 original size:15 final size:15
Alignment explanation
Indices: 29950946--29950979 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29950936 AATTAAATGC
29950946 TGAAAAAATAAGTAT
1 TGAAAAAATAAGTAT
**
29950961 TGAAAATTTAAGTAT
1 TGAAAAAATAAGTAT
29950976 TGAA
1 TGAA
29950980 CTTAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (15 bp):
TGAAAAAATAAGTAT
Found at i:29952318 original size:11 final size:11
Alignment explanation
Indices: 29952296--29952373 Score: 86
Period size: 11 Copynumber: 6.9 Consensus size: 11
29952286 TTCCACTTTT
*
29952296 TCAATTCACTC
1 TCAATTCTCTC
29952307 TCAACTCTCTCTC
1 TCAA-T-TCTCTC
29952320 TCAATTCAT-TC
1 TCAATTC-TCTC
29952331 TCAATTCTCTC
1 TCAATTCTCTC
29952342 TCAATTCTCTC
1 TCAATTCTCTC
* *
29952353 TTAATTCTCAC
1 TCAATTCTCTC
*
29952364 TTAATTCTCT
1 TCAATTCTCT
29952374 TAGCTCAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.02
11 46 0.78
12 3 0.05
13 9 0.15
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.45
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:29952421 original size:25 final size:24
Alignment explanation
Indices: 29952386--29952441 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
29952376 GCTCAGTCTC
29952386 ATTTTTTATTAAATTCGTATTAAG
1 ATTTTTTATTAAATTCGTATTAAG
* * *
29952410 GTTTTTTAATTAAATTTGTATTACG
1 ATTTTTT-ATTAAATTCGTATTAAG
29952435 ATTTTTT
1 ATTTTTT
29952442 TCATATTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.59
Consensus pattern (24 bp):
ATTTTTTATTAAATTCGTATTAAG
Found at i:29953700 original size:21 final size:23
Alignment explanation
Indices: 29953675--29953716 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
29953665 AAGTATACAT
29953675 ATTTTTT-AAA-ATTTATTTTCA
1 ATTTTTTGAAATATTTATTTTCA
29953696 ATTTTTTGAAATATTTATTTT
1 ATTTTTTGAAATATTTATTTT
29953717 AACGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTTGAAATATTTATTTTCA
Found at i:29953724 original size:23 final size:22
Alignment explanation
Indices: 29953676--29953725 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
29953666 AGTATACATA
* *
29953676 TTTTTTAAAATTTATTTTCAAT
1 TTTTTGAAAATTTATTTTCAAG
29953698 TTTTTGAAATATTTATTTT-AACG
1 TTTTTGAAA-ATTTATTTTCAA-G
29953721 TTTTT
1 TTTTT
29953726 AGTATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (22 bp):
TTTTTGAAAATTTATTTTCAAG
Found at i:29953767 original size:11 final size:11
Alignment explanation
Indices: 29953751--29953781 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29953741 TATATATATT
29953751 TAAAAATTATA
1 TAAAAATTATA
*
29953762 TAAAAATAATA
1 TAAAAATTATA
29953773 TAAAAATTA
1 TAAAAATTA
29953782 ATATGGGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:29953778 original size:12 final size:11
Alignment explanation
Indices: 29953751--29953785 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
29953741 TATATATATT
*
29953751 TAAAAATTATA
1 TAAAAATAATA
29953762 TAAAAATAATA
1 TAAAAATAATA
29953773 TAAAAATTAATA
1 TAAAAA-TAATA
29953785 T
1 T
29953786 GGGTGGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:29959661 original size:51 final size:52
Alignment explanation
Indices: 29959582--29959693 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 52
29959572 TATAGTGATT
* *
29959582 CAGGTGTG-TTCTGGGGGGGACGTGTAGCCTACGGGCTTGGCACTTAGTGCC
1 CAGGTGTGTTTCTGGGAGGGACGTGTAGCCTACGGGATTGGCACTTAGTGCC
* * *
29959633 CAGGTGTGTTTCT-GGAGGGATGTTTAGCCTATGGGATTGGCACTTAGTGCC
1 CAGGTGTGTTTCTGGGAGGGACGTGTAGCCTACGGGATTGGCACTTAGTGCC
29959684 CAGGTGTGTT
1 CAGGTGTGTT
29959694 CTTGGATGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 51 0.93
52 4 0.07
ACGTcount: A:0.13, C:0.18, G:0.38, T:0.30
Consensus pattern (52 bp):
CAGGTGTGTTTCTGGGAGGGACGTGTAGCCTACGGGATTGGCACTTAGTGCC
Found at i:29961999 original size:464 final size:464
Alignment explanation
Indices: 29961130--29962059 Score: 1833
Period size: 464 Copynumber: 2.0 Consensus size: 464
29961120 ACTTTTGATG
29961130 TAATTTATGCAATTTGATCACACGATAATAGTGAGTTATACAACTTGGACACACTGTCATGTGAT
1 TAATTTATGCAATTTGATCACACGATAATAGTGAGTTATACAACTTGGACACACTGTCATGTGAT
29961195 CCCTATTTTGCATGATTACTTATATCTTTTGAAAATGTTACAATTTGATCATTATTTGTGTTCAG
66 CCCTATTTTGCATGATTACTTATATCTTTTGAAAATGTTACAATTTGATCATTATTTGTGTTCAG
29961260 GATAACTTAAGAGCTTTCGTAAGCTCAAATAAGATTCAAATTTAATTGTATATCATAATATTTGA
131 GATAACTTAAGAGCTTTCGTAAGCTCAAATAAGATTCAAATTTAATTGTATATCATAATATTTGA
29961325 ATTTTTATGATATGATTGATTATTTAAAGGATTTATTTATGATTTAATTGATCCAAAAGTTTGGA
196 ATTTTTATGATATGATTGATTATTTAAAGGATTTATTTATGATTTAATTGATCCAAAAGTTTGGA
29961390 AATGTTGCAAATTAGTCCTAGTTAAATTCTAGGTTGACATTGGAGCATACGTAAGCTCGAATAAG
261 AATGTTGCAAATTAGTCCTAGTTAAATTCTAGGTTGACATTGGAGCATACGTAAGCTCGAATAAG
29961455 GCTTGAGAAAAGTTATAATTGGTGATTATGCATTGGATTGACTATCATTGTGTGACTCATGTTTA
326 GCTTGAGAAAAGTTATAATTGGTGATTATGCATTGGATTGACTATCATTGTGTGACTCATGTTTA
29961520 ATTTGAATATTAATTTTGTATTTATGAAGTAATTCCATGTTTATTTGATATAAACAATATGGATT
391 ATTTGAATATTAATTTTGTATTTATGAAGTAATTCCATGTTTATTTGATATAAACAATATGGATT
29961585 GAATGCGTT
456 GAATGCGTT
29961594 TAATTTATGCAATTTGATCACACGATAATAGTGAGTTATACAACTTGGACACACTGTCATGTGAT
1 TAATTTATGCAATTTGATCACACGATAATAGTGAGTTATACAACTTGGACACACTGTCATGTGAT
29961659 CCCTATTTTGCATGATTACTTATATCTTTTGAAAATGTTACAATTTGATCATTATTTGTGTTCAG
66 CCCTATTTTGCATGATTACTTATATCTTTTGAAAATGTTACAATTTGATCATTATTTGTGTTCAG
*
29961724 GCTAACTTAAGAGCTTTCGTAAGCTCAAATAAGATTCAAATTTAATTGTATATCATAATATTTGA
131 GATAACTTAAGAGCTTTCGTAAGCTCAAATAAGATTCAAATTTAATTGTATATCATAATATTTGA
29961789 ATTTTTATGATATGATTGATTATTTAAAGGATTTATTTATGATTTAATTGATCCAAAAGTTTGGA
196 ATTTTTATGATATGATTGATTATTTAAAGGATTTATTTATGATTTAATTGATCCAAAAGTTTGGA
29961854 AATGTTGCAAATTAGTCCTAGTTAAATTCTAGGTTGACATTGGAGCATACGTAAGCTCGAATAAG
261 AATGTTGCAAATTAGTCCTAGTTAAATTCTAGGTTGACATTGGAGCATACGTAAGCTCGAATAAG
29961919 GCTTGAGAAAAGTTATAATTGGTGATTATGCATTGGATTGACTATCATTGTGTGACTCATGTTTA
326 GCTTGAGAAAAGTTATAATTGGTGATTATGCATTGGATTGACTATCATTGTGTGACTCATGTTTA
* *
29961984 ATTTGAATGTTAATTTTGTATTTATGAAGTAATTCCATGTTTATTTGATATAAACAATGTGGATT
391 ATTTGAATATTAATTTTGTATTTATGAAGTAATTCCATGTTTATTTGATATAAACAATATGGATT
29962049 GAATGCGTT
456 GAATGCGTT
29962058 TA
1 TA
29962060 GTTCCGACAT
Statistics
Matches: 463, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
464 463 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (464 bp):
TAATTTATGCAATTTGATCACACGATAATAGTGAGTTATACAACTTGGACACACTGTCATGTGAT
CCCTATTTTGCATGATTACTTATATCTTTTGAAAATGTTACAATTTGATCATTATTTGTGTTCAG
GATAACTTAAGAGCTTTCGTAAGCTCAAATAAGATTCAAATTTAATTGTATATCATAATATTTGA
ATTTTTATGATATGATTGATTATTTAAAGGATTTATTTATGATTTAATTGATCCAAAAGTTTGGA
AATGTTGCAAATTAGTCCTAGTTAAATTCTAGGTTGACATTGGAGCATACGTAAGCTCGAATAAG
GCTTGAGAAAAGTTATAATTGGTGATTATGCATTGGATTGACTATCATTGTGTGACTCATGTTTA
ATTTGAATATTAATTTTGTATTTATGAAGTAATTCCATGTTTATTTGATATAAACAATATGGATT
GAATGCGTT
Found at i:29965991 original size:17 final size:17
Alignment explanation
Indices: 29965936--29965991 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
29965926 TTCCTGATTG
* *
29965936 GTTTATTAATTTTAGTC
1 GTTTATTTATTTTAGTT
*
29965953 GTTTGTTTATTTTTA-TT
1 GTTTATTTA-TTTTAGTT
29965970 GTTTATTTATTTTAGTT
1 GTTTATTTATTTTAGTT
*
29965987 ATTTA
1 GTTTA
29965992 AATCTCTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 5 0.16
17 22 0.69
18 5 0.16
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.68
Consensus pattern (17 bp):
GTTTATTTATTTTAGTT
Found at i:29970907 original size:129 final size:129
Alignment explanation
Indices: 29970735--29971112 Score: 469
Period size: 129 Copynumber: 2.9 Consensus size: 129
29970725 AATCTGACGT
* * * * * *
29970735 GATCTGCTCTACTGCAACTTCAGAGAGATGAGATTTGCGGTTTTAGTCCACTCCATTGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
* *
29970800 AAGAAGATAGGATTGGTTACTTCTATCTGCT-CTACTGCAACTTCAAGGAGATAAGACTGGATGC
66 AAGAAGATAGGATTAGTTACTTCTATCTGCTCCT-CTGCAACTTCAAGGAGATAAGACTAGATGC
* *
29970864 GATCTACTCTACTGCAACTTCAGATAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
** * *
29970929 -AGAGAGATAGGATTAGTTTTTTCTGTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTAGATGC
66 AAGA-AGATAGGATTAGTTACTTCTATCTGCTCCTCTGCAACTTCAAGGAGATAAGACTAGATGC
* * *
29970993 GATCCGCCCT-CTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTC
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
* * * * * * *
29971057 AGGGAGATAGGATTA-TTGGCTT-TAACCTGCTCCACTGCAACTTTAGGGAGATAAGA
66 AAGAAGATAGGATTAGTT-ACTTCT-ATCTGCTCCTCTGCAACTTCAAGGAGATAAGA
29971113 TTCGCCACCT
Statistics
Matches: 217, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
127 3 0.01
128 96 0.44
129 116 0.53
130 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (129 bp):
GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAACTTC
AAGAAGATAGGATTAGTTACTTCTATCTGCTCCTCTGCAACTTCAAGGAGATAAGACTAGATGC
Found at i:29971042 original size:84 final size:85
Alignment explanation
Indices: 29970909--29971065 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 85
29970899 TGTGGTTTTA
* * ** *
29970909 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAGTTTTTTCTGTCTGCTCCTCTGCAACTTCA
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGTTTTCAATCTGCTCCACTGCAACTTCA
29970974 GGGAGATAAGACTAGATGCG
66 GGGAGATAAGACTAGATGCG
*
29970994 ATCCGC-CCTCTGCAACTTCAGAGAGATAAGATCT-GTGGTTTT-AATCTGCTCCACTGCAACTT
1 ATCCGCTCCACTGCAACTTCAGAGAGATAAGAT-TAGT-GTTTTCAATCTGCTCCACTGCAACTT
29971056 CAGGGAGATA
64 CAGGGAGATA
29971066 GGATTATTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
84 53 0.83
85 11 0.17
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (85 bp):
ATCCGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGTTTTCAATCTGCTCCACTGCAACTTCA
GGGAGATAAGACTAGATGCG
Found at i:29971081 original size:44 final size:44
Alignment explanation
Indices: 29970736--29971114 Score: 230
Period size: 44 Copynumber: 8.8 Consensus size: 44
29970726 ATCTGACGTG
* * * *
29970736 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATTTGCGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGGTTTTA
* ** * * * ** *
29970780 GTCCACTCCATTGCAACTTCA-AGAAGATAGGATTGGTTACTTCT-
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTAG-TGGTTTTA
* * * ***
29970824 ATCTGCTCTACTGCAACTTCA-AGGAGATAAG---ACTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTAGTGGTTTTA
* * *
29970865 ATCTACTCTACTGCAACTTCAGATAGATAAGATCT-GTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TAGTGGTTTTA
* * * *
29970909 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAGT-TTTTTCT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGGTTTT-A
* * * *
29970953 GTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTAGATGCG-----
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAG-TG-GTTTTA
* *
29970994 ATCCGC-CCTCTGCAACTTCAGAGAGATAAGATCT-GTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TAGTGGTTTTA
* * * *
29971037 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGGTTTTA
* * *
29971081 ACCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATT
29971115 CGCCACCTTC
Statistics
Matches: 254, Mismatches: 59, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 27 0.11
41 32 0.13
42 1 0.00
43 13 0.05
44 173 0.68
45 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTAGTGGTTTTA
Found at i:29971143 original size:45 final size:44
Alignment explanation
Indices: 29971083--29971189 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 44
29971073 TGGCTTTAAC
* *
29971083 CTGCTCCACTGCAACTTTAGG-GAGATAAGA-TTCGCCACCTTCAGT
1 CTGCCCCACTGCAACTTTAGGAG-GATAAGACTT-GCCACATT-AGT
* **
29971128 CTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTCATTAGT
1 CTGCCCCACTGCAACTTTAGGAGGATAAGACTTGCCACATTAGT
*
29971172 CTGCCCCACTACAACTTT
1 CTGCCCCACTGCAACTTT
29971190 GATCTACTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
44 19 0.36
45 31 0.58
46 3 0.06
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (44 bp):
CTGCCCCACTGCAACTTTAGGAGGATAAGACTTGCCACATTAGT
Found at i:29971447 original size:132 final size:132
Alignment explanation
Indices: 29971207--29971500 Score: 453
Period size: 132 Copynumber: 2.2 Consensus size: 132
29971197 TTCGCTACCT
* * *
29971207 AGGGAGATAAGATCTGTACTCTTCAATCTATTCCACTGCTACCGAGGGAGATAGAATTACTAGCT
1 AGGGAGATAAGAACTGTAATCTTCAATCTATTCCACTACTACCGAGGGAGATAGAATTACTAGCT
* **
29971272 TCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCTGCCATCCTTGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCCTTGATCTGCTCCACTACTGC
29971337 TC
131 TC
* * * *
29971339 AGGGAGATAAGACCTGTAATCTTCAATCTATTCCACTATTGCCGAGGGAGATAGAATTACTGGCT
1 AGGGAGATAAGAACTGTAATCTTCAATCTATTCCACTACTACCGAGGGAGATAGAATTACTAGCT
* * *
29971404 TTAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCCTTGATCTGCTCCACTACTGC
*
29971469 TT
131 TC
*
29971471 AGGGAGATAAGAACTGTAATCTTCGATCTA
1 AGGGAGATAAGAACTGTAATCTTCAATCTA
29971501 CTTCACGCTA
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 147 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGAACTGTAATCTTCAATCTATTCCACTACTACCGAGGGAGATAGAATTACTAGCT
TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCCTTGATCTGCTCCACTACTGC
TC
Found at i:29971640 original size:89 final size:89
Alignment explanation
Indices: 29971517--29972077 Score: 736
Period size: 89 Copynumber: 6.3 Consensus size: 89
29971507 GCTAATACAT
*
29971517 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
29971582 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
29971606 GTAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
29971671 CGATCTACTTCGTCGCCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
29971695 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* ** * * * *
29971760 CGATTTGTTTCG-GATCTGCTAT-C
66 CGATCTACTTCGCCACCAG-TATGG
*** * ** * * * *
29971783 TTCGATCTACTTCACGC-CTCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT-
1 GAAGA-CAAGATC-TGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
29971846 TTCTGATCTACTTCGCCACCAGTATGG
64 TTC-GATCTACTTCGCCACCAGTATGG
* * * * *
29971873 GAAGATAAGATCTGCTATCTTTGATCTAATTCATGCCAGTACATGAAGACAAGATTTGTTTTCTT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
29971938 CGATCTACTTCACCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
29971962 GAAGACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT-TT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
29972026 CTGATCTACTTCGCCACCAGTATGG
66 C-GATCTACTTCGCCACCAGTATGG
*
29972051 GAAGACAAGATCTGTTATCTTTGATCT
1 GAAGACAAGATCTGCTATCTTTGATCT
29972078 GCTTTCTTCG
Statistics
Matches: 401, Mismatches: 62, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
88 12 0.03
89 379 0.95
90 10 0.02
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (89 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:29972106 original size:59 final size:59
Alignment explanation
Indices: 29972014--29972136 Score: 230
Period size: 59 Copynumber: 2.1 Consensus size: 59
29972004 ATAAAGACAA
29972014 GATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
1 GATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
29972073 GATCTGCTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
1 GATCTGCTTT-TTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
29972132 GATCT
1 GATCT
29972137 ACTTCACGCC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 60 0.95
60 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (59 bp):
GATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
Found at i:29972224 original size:89 final size:89
Alignment explanation
Indices: 29972073--29972567 Score: 742
Period size: 89 Copynumber: 5.6 Consensus size: 89
29972063 TGTTATCTTT
* * *
29972073 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
1 GATCTGTTTTCTTCGATTTATTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
29972138 CTTCACGCCAGTACATGAAGACAA
66 CTTCACGCCAGTACATGAAGACAA
* *
29972162 GATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
1 GATCTGTTTTCTTCGATTTATTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
29972227 CTTCACGCCAGTACATGAAGACAA
66 CTTCACGCCAGTACATGAAGACAA
* * * *
29972251 GATCTGCTTTCTTCGATCTACTTT-GCCACCAGTATGGGAAGATAAGATCTGCTATCTTTGATCT
1 GATCTGTTTTCTTCGATTTA-TTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCT
* *
29972315 AATTCACGCCGGTACATGAAGACAA
65 ACTTCACGCCAGTACATGAAGACAA
* * * * *
29972340 GATTTTTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGTTATCTTTGATCTA
1 GATCTGTTTTCTTCGATTTATTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
* *
29972405 CTTCATGCTAGTACATGAAGACAA
66 CTTCACGCCAGTACATGAAGACAA
* *
29972429 GATCTGTTTTCTTCGATTTTTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTG
1 GATCTGTTTTCTTCGATTTATTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
29972494 CTTCACGCCAGTACATGAAGACAA
66 CTTCACGCCAGTACATGAAGACAA
* * * *
29972518 GATCTGCTTTT-TCCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 GATCTG-TTTTCTTCGATTTATTTCGCCACCAGTATGGGAAGACAAGATCT
29972568 ACCACTACTC
Statistics
Matches: 365, Mismatches: 38, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
88 2 0.01
89 356 0.98
90 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (89 bp):
GATCTGTTTTCTTCGATTTATTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
CTTCACGCCAGTACATGAAGACAA
Found at i:29972251 original size:237 final size:237
Alignment explanation
Indices: 29971836--29972314 Score: 791
Period size: 237 Copynumber: 2.0 Consensus size: 237
29971826 ATAAAGACAA
*
29971836 GATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTATCTTTGATCTA
1 GATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
* * *
29971901 ATTCATGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAG
66 ATTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCACCACCAGTATGGGAAG
29971966 ACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT-TTCTGA
131 ACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTC-GA
*
29972030 TCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
195 TCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTT
*
29972073 GATCTGCTTTCTTC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCT
1 GATCTGCTTT-TTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCT
* * ** *
29972137 ACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAA
65 AATTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCACCACCAGTATGGGAA
* *
29972202 GACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGA
130 GACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGA
* *
29972267 TCTACTTTGCCACCAGTATGGGAAGATAAGATCTGCTATCTTT
195 TCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTT
29972310 GATCT
1 GATCT
29972315 AATTCACGCC
Statistics
Matches: 225, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
237 219 0.97
238 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (237 bp):
GATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTA
ATTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATCTACTTCACCACCAGTATGGGAAG
ACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTTCTTCGAT
CTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTT
Found at i:29972517 original size:504 final size:504
Alignment explanation
Indices: 29971569--29972567 Score: 1497
Period size: 504 Copynumber: 2.0 Consensus size: 504
29971559 ATGAAGACAA
*
29971569 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGTAGACAAGATCTGTTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
* * *
29971634 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGTCGCCAGTATGGGAAG
66 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAG
*
29971699 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
131 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGAT
** * * * *** * * * *
29971764 TTGTTTCGGATCTGCTATCTTCGATCTACTTCACGCCTCTTTGACCTACTTCACGCCAGTACATA
196 TACTTTCGCACCAGCTATCGAAGATCAACATCACGCATCTTTGACCTAATTCACGCCAGTACATA
* *
29971829 AAGACAAGATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCTATCTT
261 AAGACAAGATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGCTATCTT
*
29971894 TGATCTAATTCATGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCACCACCAGTA
326 TGATCTAATTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGTA
29971959 TGGGAAGACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT
391 TGGGAAGACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT
**
29972024 TTCTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
456 TTCCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
29972073 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
* * **
29972138 CTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAG
* *
29972203 ACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGAT
131 ACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGAT
* * * * *
29972268 CTACTTT-GCCACCAG-TATGGGAAGAT-AAGATC-TGCTATCTTTGATCTAATTCACGCCGGTA
196 -TACTTTCG-CACCAGCTAT-CGAAGATCAACATCACGC-ATCTTTGACCTAATTCACGCCAGTA
* * *
29972329 CATGAAGACAAGAT-T-TTTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGT
257 CATAAAGACAAGATCTGCTTTTTC-T-GATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGC
* * * ** *
29972392 TATCTTTGATCTACTTCATGCTAGTACATGAAGACAAGATCTGTTTTCTTCGATTTTTTTCGCCA
320 TATCTTTGATCTAATTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCA
* * *
29972457 CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTGCTTCACGCCAGTACATGAAGACAAGATC
385 CCAGTATGGGAAGACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATC
29972522 TGCTTTTTCCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
450 TGCTTTTTCCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
29972568 ACCACTACTC
Statistics
Matches: 444, Mismatches: 45, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
502 6 0.01
503 4 0.01
504 424 0.95
505 10 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (504 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTA
CTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCAGTATGGGAAG
ACAAGATCTGCTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGAT
TACTTTCGCACCAGCTATCGAAGATCAACATCACGCATCTTTGACCTAATTCACGCCAGTACATA
AAGACAAGATCTGCTTTTTCTGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGCTATCTT
TGATCTAATTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGTA
TGGGAAGACAAGATCTGTTATCTTTGACCTACTTCACGCCAGTACATAAAGACAAGATCTGCTTT
TTCCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
Found at i:29972555 original size:267 final size:267
Alignment explanation
Indices: 29972080--29972567 Score: 879
Period size: 267 Copynumber: 1.8 Consensus size: 267
29972070 TTTGATCTGC
*
29972080 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACG
1 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGTTATCTTTGATCTACTTCACG
29972145 CCAGTACATGAAGACAAGATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAAGACAAGAT
66 CCAGTACATGAAGACAAGATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAAGACAAGAT
* *
29972210 CTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTT
131 CTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTC
*
29972275 GCCACCAGTATGGGAAGATAAGATCTGCTATCTTTGATCTAATTCACGCCGGTACATGAAGACAA
196 GCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCACGCCGGTACATGAAGACAA
29972340 GATTTTT
261 GATTTTT
*
29972347 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGTTATCTTTGATCTACTTCATG
1 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGTTATCTTTGATCTACTTCACG
* * *
29972412 CTAGTACATGAAGACAAGATCTGTTTTCTTCGATTTTTTTCGCCACCAGTATGGGAAGACAAGAT
66 CCAGTACATGAAGACAAGATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAAGACAAGAT
*
29972477 CTGTTATCTTTGATCTGCTTCACGCCAGTACATGAAGACAAGATCTGCTTT-TTCCAATCTACTT
131 CTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT-CAATCTACTT
29972541 CGCCACCAGTATGGGAAGACAAGATCT
195 CGCCACCAGTATGGGAAGACAAGATCT
29972568 ACCACTACTC
Statistics
Matches: 211, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
266 2 0.01
267 209 0.99
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (267 bp):
TTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTGTTATCTTTGATCTACTTCACG
CCAGTACATGAAGACAAGATCTGTTTTCTTCAATTTGTTTCGCCACCAGTATGGGAAGACAAGAT
CTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTC
GCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCACGCCGGTACATGAAGACAA
GATTTTT
Found at i:29973863 original size:21 final size:21
Alignment explanation
Indices: 29973839--29973887 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
29973829 TTAGCCTCTC
*
29973839 CATTTTTACTTTTTCAT-TTTT
1 CATTTTT-CATTTTCATCTTTT
29973860 CATTTTTCATTTTCATCTTTT
1 CATTTTTCATTTTCATCTTTT
29973881 CATTTTT
1 CATTTTT
29973888 TCACATCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATCTTTT
Found at i:29973890 original size:8 final size:7
Alignment explanation
Indices: 29973839--29973887 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
29973829 TTAGCCTCTC
29973839 CATTTTT
1 CATTTTT
29973846 -ACTTTTT
1 CA-TTTTT
29973853 CATTTTT
1 CATTTTT
29973860 CATTTTT
1 CATTTTT
29973867 CA-TTTT
1 CATTTTT
29973873 CATCTTTT
1 CAT-TTTT
29973881 CATTTTT
1 CATTTTT
29973888 TCACATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 23 0.61
8 8 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:29976822 original size:13 final size:13
Alignment explanation
Indices: 29976804--29976829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29976794 GTTCAATTTT
29976804 TTTACTAGAAAAC
1 TTTACTAGAAAAC
29976817 TTTACTAGAAAAC
1 TTTACTAGAAAAC
29976830 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:29978402 original size:485 final size:486
Alignment explanation
Indices: 29977493--29978463 Score: 1935
Period size: 485 Copynumber: 2.0 Consensus size: 486
29977483 TCACGAACAG
29977493 GACCAGTAAGTTAGGACCCAACATTTTTGAACTCCCAAGAATAAGCTTTTATTTAAAATTTGCCA
1 GACCAGTAAGTTAGGACCCAACATTTTTGAACTCCCAAGAATAAGCTTTTATTTAAAATTTGCCA
29977558 ATTTAATGCAAAATGAATACTTAGCATTCTAAATGCATCGAAGAATAATCGCAATCTAGTAAGTT
66 ATTTAATGCAAAATGAATACTTAGCATTCTAAATGCATCGAAGAATAATCGCAATCTAGTAAGTT
29977623 AGGACACGGTCTTTCTCGAGAATCATGAACGCCAAATACTTTGAAAATTTATAAAATATGATGAT
131 AGGACACGGTCTTTCTCGAGAATCATGAACGCCAAATACTTTGAAAATTTATAAAATATGATGAT
29977688 TTTGACAAAACCAAAATATATTTCCCGAAAGGTATGTTAAAGTTAATGTATAGTGTGAAACAAAA
196 TTTGACAAAACCAAAATATATTTCCCGAAAGGTATGTTAAAGTTAATGTATAGTGTGAAACAAAA
29977753 CTTTAATTTAAGACCAATATGAATAAATATTTACAAATATATATATAAGTACAATATACAAGTAA
261 CTTTAATTTAAGACCAATATGAATAAATATTTACAAATATATATATAAGTACAATATACAAGTAA
29977818 ATTTGTAAATATGTGTACGCATATATTTAACACACATATACAAAGATACATATAAAAAGACGAAA
326 ATTTGTAAATATGTGTACGCATATATTTAACACACATATACAAAGATACATATAAAAAGACGAAA
29977883 TGGAATATGTCAATCAAAATCTAATAAAATTGCATGTAAGTATTTGAAAATCATAAAAATAGAAT
391 TGGAATATGTCAATCAAAATCTAATAAAATTGCATGTAAGTATTTGAAAATCATAAAAATAGAAT
29977948 AAATATAAAAGCATGTACCAA-ATATATTTA
456 AAATATAAAAGCATGTACCAATATATATTTA
29977978 GACCAGTAAGTTAGGACCCAACATTTTTGAACTCCCAAGAATAAGCTTTTATTTAAAATTTGCCA
1 GACCAGTAAGTTAGGACCCAACATTTTTGAACTCCCAAGAATAAGCTTTTATTTAAAATTTGCCA
29978043 ATTTAATGCAAAATGAATACTTAGCATTCTAAATGCATCGAAGAATAATCGCAATCTAGTAAGTT
66 ATTTAATGCAAAATGAATACTTAGCATTCTAAATGCATCGAAGAATAATCGCAATCTAGTAAGTT
29978108 AGGACACGGTCTTTCTCGAGAATCATGAACGCCAAATACTTTGAAAATTTATAAAATATGATGAT
131 AGGACACGGTCTTTCTCGAGAATCATGAACGCCAAATACTTTGAAAATTTATAAAATATGATGAT
29978173 TTTGACAAAACCAAAATATATTTCCCGAAAGGTATGTTAAAGTTAATGTATAGTGTGAAACAAAA
196 TTTGACAAAACCAAAATATATTTCCCGAAAGGTATGTTAAAGTTAATGTATAGTGTGAAACAAAA
29978238 CTTTAATTTAAGACCAATATGAATAAATATTTACAAATATATATATAAGTACAATATACAAGTAA
261 CTTTAATTTAAGACCAATATGAATAAATATTTACAAATATATATATAAGTACAATATACAAGTAA
29978303 ATTTGTAAATATGTGTACGCATATATTTAACACACATATACAAAGATACATATAAAAAGACGAAA
326 ATTTGTAAATATGTGTACGCATATATTTAACACACATATACAAAGATACATATAAAAAGACGAAA
29978368 TGGAATATGTCAATCAAAATCTAATAAAATTGCATGTAAGTATTTGAAAATCATAAAAATAGAAT
391 TGGAATATGTCAATCAAAATCTAATAAAATTGCATGTAAGTATTTGAAAATCATAAAAATAGAAT
29978433 AAATATAAAAGCATGTACCAATATATATTTA
456 AAATATAAAAGCATGTACCAATATATATTTA
29978464 CAAAATAAAA
Statistics
Matches: 485, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
485 476 0.98
486 9 0.02
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (486 bp):
GACCAGTAAGTTAGGACCCAACATTTTTGAACTCCCAAGAATAAGCTTTTATTTAAAATTTGCCA
ATTTAATGCAAAATGAATACTTAGCATTCTAAATGCATCGAAGAATAATCGCAATCTAGTAAGTT
AGGACACGGTCTTTCTCGAGAATCATGAACGCCAAATACTTTGAAAATTTATAAAATATGATGAT
TTTGACAAAACCAAAATATATTTCCCGAAAGGTATGTTAAAGTTAATGTATAGTGTGAAACAAAA
CTTTAATTTAAGACCAATATGAATAAATATTTACAAATATATATATAAGTACAATATACAAGTAA
ATTTGTAAATATGTGTACGCATATATTTAACACACATATACAAAGATACATATAAAAAGACGAAA
TGGAATATGTCAATCAAAATCTAATAAAATTGCATGTAAGTATTTGAAAATCATAAAAATAGAAT
AAATATAAAAGCATGTACCAATATATATTTA
Found at i:29978472 original size:31 final size:30
Alignment explanation
Indices: 29978445--29978504 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
29978435 ATATAAAAGC
29978445 ATGTACCA-ATATATATTTAC-AAAATAAAA
1 ATGTA-CATATATATATTTACAAAAATAAAA
* *
29978474 ATGTATATGTATATATTTACAAAAATAAAA
1 ATGTACATATATATATTTACAAAAATAAAA
29978504 A
1 A
29978505 AGTGTGTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 16 0.59
30 10 0.37
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (30 bp):
ATGTACATATATATATTTACAAAAATAAAA
Found at i:29980162 original size:96 final size:97
Alignment explanation
Indices: 29980057--29980253 Score: 387
Period size: 96 Copynumber: 2.0 Consensus size: 97
29980047 AATTAGTCTC
29980057 AAAATAATGTCAAAAAATTCAAAATAATATTATTTTTAAAACTCAAATGCTTATAACAATTCTAA
1 AAAATAATGTCAAAAAATTCAAAATAATATTATTTTTAAAACTCAAATGCTTATAACAATTCTAA
29980122 AATTTATATTTTCCACTAAAT-TAAATATTAT
66 AATTTATATTTTCCACTAAATATAAATATTAT
29980153 AAAATAATGTCAAAAAATTCAAAATAATATTATTTTTAAAACTCAAATGCTTATAACAATTCTAA
1 AAAATAATGTCAAAAAATTCAAAATAATATTATTTTTAAAACTCAAATGCTTATAACAATTCTAA
29980218 AATTTATATTTTCCACTAAATATAAATATTAT
66 AATTTATATTTTCCACTAAATATAAATATTAT
29980250 AAAA
1 AAAA
29980254 AATTTCTAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 86 0.86
97 14 0.14
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (97 bp):
AAAATAATGTCAAAAAATTCAAAATAATATTATTTTTAAAACTCAAATGCTTATAACAATTCTAA
AATTTATATTTTCCACTAAATATAAATATTAT
Found at i:29980367 original size:23 final size:23
Alignment explanation
Indices: 29980334--29980411 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
29980324 CTCTAAACTC
* *
29980334 CAAAAATCCTTACAAACCTTAAA
1 CAAAAACCCTTAAAAACCTTAAA
*
29980357 CAAAAACCCTTAAAAATCCCTAAA
1 CAAAAACCCTTAAAAA-CCTTAAA
*** *
29980381 CCTTAACCC-TAAAAAACTTAAA
1 CAAAAACCCTTAAAAACCTTAAA
29980403 -AAAAACCCT
1 CAAAAACCCT
29980412 AAATGAACCG
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 20 0.48
24 12 0.29
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (23 bp):
CAAAAACCCTTAAAAACCTTAAA
Found at i:29980767 original size:16 final size:16
Alignment explanation
Indices: 29980742--29980772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29980732 TACGTCTTTA
29980742 ATTTTCATAACTCAAC
1 ATTTTCATAACTCAAC
*
29980758 ATTTTTATAACTCAA
1 ATTTTCATAACTCAA
29980773 AAATGCCTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTTCATAACTCAAC
Found at i:29988176 original size:20 final size:20
Alignment explanation
Indices: 29988151--29988192 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
29988141 ATGGCATGGA
29988151 CTAAGTGAGGAAGATGATGT
1 CTAAGTGAGGAAGATGATGT
29988171 CTAAGTGAGGAAGATGATGT
1 CTAAGTGAGGAAGATGATGT
29988191 CT
1 CT
29988193 TCATATTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (20 bp):
CTAAGTGAGGAAGATGATGT
Found at i:29989787 original size:25 final size:25
Alignment explanation
Indices: 29989753--29989888 Score: 75
Period size: 25 Copynumber: 5.4 Consensus size: 25
29989743 TGGGCCTTGG
*
29989753 GCCTTTGTGGCAAGTTATCTGAAAA
1 GCCTATGTGGCAAGTTATCTGAAAA
* **
29989778 GCCTATGTGGCGTA-TTA-CTTGGGGAA
1 GCCTATGTGGC-AAGTTATC-T-GAAAA
* *
29989804 -CCTTTGTGGCAAGTTATCTAAAAA
1 GCCTATGTGGCAAGTTATCTGAAAA
* ***
29989828 GTCTATGTGGCATA-TTA-CTTGGGGA
1 GCCTATGTGGCA-AGTTATC-TGAAAA
* * *
29989853 GCCTTTGTGGTAAGTTATTTGAAAA
1 GCCTATGTGGCAAGTTATCTGAAAA
29989878 GCCTATGTGGC
1 GCCTATGTGGC
29989889 GTATTATTTG
Statistics
Matches: 77, Mismatches: 24, Indels: 20
0.64 0.20 0.17
Matches are distributed among these distances:
24 6 0.08
25 65 0.84
26 6 0.08
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (25 bp):
GCCTATGTGGCAAGTTATCTGAAAA
Found at i:29989929 original size:50 final size:50
Alignment explanation
Indices: 29989753--29989917 Score: 249
Period size: 50 Copynumber: 3.3 Consensus size: 50
29989743 TGGGCCTTGG
29989753 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
1 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
* * * *
29989803 ACCTTTGTGGCAAGTTATCTAAAAAGTCTATGTGGCATATTACTTGGGGA
1 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
* * * *
29989853 GCCTTTGTGGTAAGTTATTTGAAAAGCCTATGTGGCGTATTATTTGGCGA
1 GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
*
29989903 GCCCTTGTGGCAAGT
1 GCCTTTGTGGCAAGT
29989918 CATTTAGAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 101 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (50 bp):
GCCTTTGTGGCAAGTTATCTGAAAAGCCTATGTGGCGTATTACTTGGGGA
Found at i:29993566 original size:42 final size:42
Alignment explanation
Indices: 29993518--29993615 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
29993508 GTGTTCCCAC
*
29993518 CCGTGTAACTCACTGAGTAGCCTCACATG-CTCGTGTGCTAAG
1 CCGTGTAACTCACTGAGTAGCCACACATGCCT-GTGTGCTAAG
* * * * *
29993560 CTGTGTAACTCTCTGAGTTGCCACACATGCCTGTGTGTTAGG
1 CCGTGTAACTCACTGAGTAGCCACACATGCCTGTGTGCTAAG
29993602 CCGTGTAACTCACT
1 CCGTGTAACTCACT
29993616 AACTTAAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 45 0.96
43 2 0.04
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (42 bp):
CCGTGTAACTCACTGAGTAGCCACACATGCCTGTGTGCTAAG
Found at i:29997211 original size:18 final size:18
Alignment explanation
Indices: 29997188--29997222 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29997178 TAACACCCCT
29997188 AACCCGTCTCTGATATCG
1 AACCCGTCTCTGATATCG
*
29997206 AACCCGTCTCTGTTATC
1 AACCCGTCTCTGATATC
29997223 AGACTAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (18 bp):
AACCCGTCTCTGATATCG
Found at i:30006633 original size:27 final size:27
Alignment explanation
Indices: 30006348--30006623 Score: 421
Period size: 27 Copynumber: 10.2 Consensus size: 27
30006338 AGCGGTCAAT
* *
30006348 AAATGACCGAAATATCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
30006375 AAATGATCAAAATA-CCCTATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
30006401 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
30006428 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * * *
30006455 AAATGACCGAAATATCCCTATAAGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
30006482 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
30006509 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
30006536 AAATGATCAAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
30006563 AAATGATCGAAATACCCTCCATAGGGTA
1 AAATGATCGAAATACCC-CCATAGGGTA
30006591 AAATGA-CTGAAATACCCCCATAGGGTA
1 AAATGATC-GAAATACCCCCATAGGGTA
30006618 AAATGA
1 AAATGA
30006624 CTGTTATACC
Statistics
Matches: 229, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
26 24 0.10
27 180 0.79
28 25 0.11
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:30007012 original size:28 final size:28
Alignment explanation
Indices: 30006971--30007052 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
30006961 CACTTTACTG
*
30006971 TTATTGTATTGGGCTAAGGCCCACACTA
1 TTATTGTATCGGGCTAAGGCCCACACTA
* * *
30006999 TTATTGTATGGGGCTAAGGCTCACACTG
1 TTATTGTATCGGGCTAAGGCCCACACTA
* * *
30007027 TTACTGTATCAGGCT-AGTCCCACACT
1 TTATTGTATCGGGCTAAGGCCCACACT
30007053 GTACTGATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
27 9 0.20
28 37 0.80
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (28 bp):
TTATTGTATCGGGCTAAGGCCCACACTA
Found at i:30040783 original size:19 final size:20
Alignment explanation
Indices: 30040739--30040807 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
30040729 GGGTAACTGA
* *
30040739 CACATAAAGTGCATA-CTAG
1 CACACAAAGTGCATATCTGG
**
30040758 CGTACAAAGTGCAT-TCTGG
1 CACACAAAGTGCATATCTGG
* *
30040777 CACACAAAGCGCATATTTGG
1 CACACAAAGTGCATATCTGG
30040797 CACACAAAGTG
1 CACACAAAGTG
30040808 TATTGCATGC
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 25 0.64
20 14 0.36
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
CACACAAAGTGCATATCTGG
Found at i:30040799 original size:20 final size:19
Alignment explanation
Indices: 30040761--30040805 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
30040751 ATACTAGCGT
*
30040761 ACAAAGTGCATTCTGGCAC
1 ACAAAGCGCATTCTGGCAC
*
30040780 ACAAAGCGCATATTTGGCAC
1 ACAAAGCGCAT-TCTGGCAC
30040800 ACAAAG
1 ACAAAG
30040806 TGTATTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (19 bp):
ACAAAGCGCATTCTGGCAC
Found at i:30043020 original size:297 final size:291
Alignment explanation
Indices: 30042642--30043213 Score: 761
Period size: 297 Copynumber: 1.9 Consensus size: 291
30042632 AATTAATTGA
* * * *
30042642 GATAATAAATTGTGCATATTAAAAAATGTATAAAGGAAATTAAAATAAATCTTTGGTTGAATTGT
1 GATAATAAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAATAAATCTTTAGTTGAATGGC
* *
30042707 AAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAGTCTCACCATATACATATTTTTCTTG
66 AAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAATCCCACCATATACATATTTTTCTTG
* *
30042772 GTTTTATGTTAAAATGAAAAGACTAAAATACCATCGAATAATAGGAATTATTTTTAATTATGAAA
131 GTTTT-TGTTAAAATGAAAAGACTAAAATACCATCGAATAAT--GAATT-GTTTTAATTACGAAA
* ** * *
30042837 GTAAATTTCCGTAATTTTCTAACTGAGTTGGTATC-CGATTAACCCTTCACACCAACTCAGTTAG
192 GGAAATTTCCGTAATTTTCTAACCAAGTTGATA-CACGATTAACCCGTCACACCAACTCAGTTAG
*
30042901 GGGTTTTATTAATAGTATAAATATATATAAGTGGTGTG
256 GGG-TTTATT-ACAGTATAAATATATATAAGTGGTGTG
* *
30042939 GATAATAAATTGTGCATATTAAAAAATGTATAAAAGACATTAAAATAAAAT-TTTAGTTGAGTGG
1 GATAATAAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAAT-AAATCTTTAGTTGAATGG
* * * * ** *
30043003 CAAATTTAAGGTTTTACTATTCTAATTGGTGTGGGTTCAAATCCCATCATATACATATTTTTCTT
65 CAAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAATCCCACCATATACATATTTTTCTT
* * * * *
30043068 GGTTTTTGTTAAAATGAAAAGACTAAAATACCCTTGAATAATGACTTGTTTTAGTTACGGAAGGA
130 GGTTTTTGTTAAAATGAAAAGACTAAAATACCATCGAATAATGAATTGTTTTAATTACGAAAGGA
* * * * *
30043133 CATTTCTGTAATTTTCTAACCAAGTTGATACATGATTAACCCGTGACACCAACTCAGTTTGGGGT
195 AATTTCCGTAATTTTCTAACCAAGTTGATACACGATTAACCCGTCACACCAACTCAGTTAGGGGT
30043198 TTATTACAGTATAAAT
260 TTATTACAGTATAAAT
30043214 GATAAACTTT
Statistics
Matches: 240, Mismatches: 33, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
291 10 0.04
292 7 0.03
293 66 0.28
294 4 0.02
296 34 0.14
297 115 0.48
298 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (291 bp):
GATAATAAATTGTGCATATTAAAAAATGTATAAAAGAAATTAAAATAAATCTTTAGTTGAATGGC
AAATTTAAGATTTTACTACTCCAATTGATGCAGGTTCAAATCCCACCATATACATATTTTTCTTG
GTTTTTGTTAAAATGAAAAGACTAAAATACCATCGAATAATGAATTGTTTTAATTACGAAAGGAA
ATTTCCGTAATTTTCTAACCAAGTTGATACACGATTAACCCGTCACACCAACTCAGTTAGGGGTT
TATTACAGTATAAATATATATAAGTGGTGTG
Found at i:30045982 original size:24 final size:24
Alignment explanation
Indices: 30045925--30045985 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
30045915 AAAGAGCCTA
* * *
30045925 TAACAAGTAGCTCCGAAGAGCAAT
1 TAACGAGTAGCTCCAAAAAGCAAT
30045949 TAACGAGTAGCTCCAAAAAGCAAT
1 TAACGAGTAGCTCCAAAAAGCAAT
* *
30045973 TAATGGGTAGCTC
1 TAACGAGTAGCTC
30045986 TGAAGAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (24 bp):
TAACGAGTAGCTCCAAAAAGCAAT
Found at i:30048595 original size:26 final size:26
Alignment explanation
Indices: 30048537--30048611 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
30048527 ACCAATATTG
* * *
30048537 CAGCAAAGTTGCCAGTAATAGTGACG
1 CAGCAAAGTTGCCAGTAACAGTAACA
* *
30048563 CAACAAAGTTGCCAGTAGCAGTAACA
1 CAGCAAAGTTGCCAGTAACAGTAACA
* *
30048589 CAGCAAAGCTGCCAATAACAGTA
1 CAGCAAAGTTGCCAGTAACAGTA
30048612 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
CAGCAAAGTTGCCAGTAACAGTAACA
Found at i:30048805 original size:27 final size:27
Alignment explanation
Indices: 30048775--30049256 Score: 540
Period size: 27 Copynumber: 17.9 Consensus size: 27
30048765 TCAACTCTTA
**
30048775 AGGGTATAACAGTCATTTTACCCTAT-G
1 AGGGTATTTCAGTCATTTTACCCT-TCG
* *
30048802 AGGGTATTTCGGTCATTTTACCCTT-T
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
30048828 AGGGGTATTTCGGTCATTTTACCCCTCG
1 A-GGGTATTTCAGTCATTTTACCCTTCG
**
30048856 AGGGTATTTTGGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
30048883 ATGGTATTTC-GATCATTTTACCCATCG
1 AGGGTATTTCAG-TCATTTTACCCTTCG
*
30048910 AGGGTATTTTAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * *
30048937 GGGGTATTTC-GATCATTTTATCCTTTG
1 AGGGTATTTCAG-TCATTTTACCCTTCG
* *
30048964 AGGGTATTTCGGTCATTTTACCCTTCA
1 AGGGTATTTCAGTCATTTTACCCTTCG
*
30048991 AGGGTATTTTAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * *
30049018 AGGGTATTTCGGTTATTTTACCCTTCA
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * * * *
30049045 AGGATATTTTAATCATTTTAGCCTTCA
1 AGGGTATTTCAGTCATTTTACCCTTCG
30049072 AGGGTATTTCAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * * ** *
30049099 GGGGTATTTCAATTATTTTACTGTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
30049126 AGCGTATTTCGGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
30049153 AGGGTATTTCAGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* * * * *
30049180 GGGGTATTTCAATTATTTTACCGTTTG
1 AGGGTATTTCAGTCATTTTACCCTTCG
* *
30049207 AGCGTATTTCGGTCATTTTACCCTTCG
1 AGGGTATTTCAGTCATTTTACCCTTCG
30049234 AGGGTATTTCAGTCATTTTACCC
1 AGGGTATTTCAGTCATTTTACCC
30049257 ATGAATCGTA
Statistics
Matches: 379, Mismatches: 70, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.01
27 372 0.98
28 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTTCG
Found at i:30056585 original size:26 final size:26
Alignment explanation
Indices: 30056518--30056586 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 26
30056508 TAGAAAGCAC
* *
30056518 CAAATAGCCATATAACGGGAAGTTCA
1 CAAAGAGCCATATAACGGGAAGCTCA
** *
30056544 -AGCGAG-CA-CTAACGGGAAGCTCA
1 CAAAGAGCCATATAACGGGAAGCTCA
30056567 CAAAGAGCCATATAACGGGA
1 CAAAGAGCCATATAACGGGA
30056587 CGCTTATAAG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
23 13 0.41
24 6 0.19
25 5 0.16
26 8 0.25
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.13
Consensus pattern (26 bp):
CAAAGAGCCATATAACGGGAAGCTCA
Found at i:30061610 original size:37 final size:38
Alignment explanation
Indices: 30061559--30061643 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 38
30061549 AATAAACTCT
* *
30061559 TAATCCTAGCCCTAGATTTAAA-CCTAAAGATATCTCA
1 TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
* *
30061596 TAATCCTAGTCCTAGATTTAAATCCTAAAGGTAACTAA
1 TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
30061634 TAATCCTAGC
1 TAATCCTAGC
30061644 TATCTATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 21 0.50
38 21 0.50
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (38 bp):
TAATCCTAGCCCTAGATTTAAATCCTAAAGATAACTAA
Found at i:30065353 original size:19 final size:18
Alignment explanation
Indices: 30065319--30065377 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
30065309 TTTAGGAAAC
*
30065319 TTTATAAATGTTTTGAAT
1 TTTATAAATATTTTGAAT
30065337 TTTATAAATAATTTTGAAAT
1 TTTATAAAT-ATTTTG-AAT
* *
30065357 TTGA-AAATTATCTTGAAT
1 TTTATAAA-TATTTTGAAT
30065375 TTT
1 TTT
30065378 TTTTGTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.41
19 13 0.38
20 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (18 bp):
TTTATAAATATTTTGAAT
Found at i:30070478 original size:30 final size:30
Alignment explanation
Indices: 30070439--30070503 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
30070429 AAGTATTGGG
*
30070439 GAAGTTTAAGCAATTTTACCTTTTCCTAAT
1 GAAGCTTAAGCAATTTTACCTTTTCCTAAT
30070469 GAAGCTTAAGCAATTTTACCTTTTCCTAAT
1 GAAGCTTAAGCAATTTTACCTTTTCCTAAT
30070499 GAAGC
1 GAAGC
30070504 CAAATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (30 bp):
GAAGCTTAAGCAATTTTACCTTTTCCTAAT
Found at i:30070646 original size:14 final size:15
Alignment explanation
Indices: 30070629--30070663 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30070619 TTTTTCATTT
30070629 TTTTTATTT-TTAAG
1 TTTTTATTTATTAAG
*
30070643 TTTTTATTTATTTAG
1 TTTTTATTTATTAAG
30070658 TTTTTA
1 TTTTTA
30070664 AGTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTTATTTATTAAG
Found at i:30070646 original size:23 final size:23
Alignment explanation
Indices: 30070620--30070667 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30070610 GATTTGTCCT
*
30070620 TTTTCATTTTTTTTA-TTTTTAAG
1 TTTTCA-TTTATTTAGTTTTTAAG
*
30070643 TTTTTATTTATTTAGTTTTTAAG
1 TTTTCATTTATTTAGTTTTTAAG
30070666 TT
1 TT
30070668 ATTTTTGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTCATTTATTTAGTTTTTAAG
Found at i:30071465 original size:17 final size:18
Alignment explanation
Indices: 30071443--30071476 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30071433 TTAAATGTTT
30071443 ATTTTAAATAT-TTTTTA
1 ATTTTAAATATATTTTTA
30071460 ATTTTAAATATATTTTT
1 ATTTTAAATATATTTTT
30071477 TTAAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTAAATATATTTTTA
Found at i:30071482 original size:31 final size:31
Alignment explanation
Indices: 30071430--30071533 Score: 86
Period size: 32 Copynumber: 3.3 Consensus size: 31
30071420 TTTTTATAAT
*
30071430 ATTTTAAATGTTTATTTTAAA-TATTTTTTA
1 ATTTTAAATATTTATTTTAAATTATTTTTTA
* *
30071460 ATTTTAAATATATTTTTTTAAATTATTTTTAAA
1 ATTTTAAATAT-TTATTTTAAATTATTTTT-TA
* * **
30071493 ATATTCAAACATTT-TTTTAAAATTATATTTAAA
1 AT-TTTAAATATTTATTTT-AAATTAT-TTTTTA
30071526 ATTTTAAA
1 ATTTTAAA
30071534 AATTAATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.16
31 9 0.15
32 16 0.26
33 16 0.26
34 10 0.16
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (31 bp):
ATTTTAAATATTTATTTTAAATTATTTTTTA
Found at i:30071488 original size:12 final size:14
Alignment explanation
Indices: 30071461--30071489 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30071451 TATTTTTTAA
30071461 TTTTAAATATATTT
1 TTTTAAATATATTT
30071475 TTTTAAAT-TATTT
1 TTTTAAATATATTT
30071488 TT
1 TT
30071490 AAAATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTAAATATATTT
Found at i:30075732 original size:18 final size:19
Alignment explanation
Indices: 30075709--30075745 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
30075699 NCAAATAATT
*
30075709 TTAAAAATATATT-TAAAA
1 TTAAAAAAATATTATAAAA
30075727 TTAAAAAAATATTATAAAA
1 TTAAAAAAATATTATAAAA
30075746 AGTTTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAAAAAATATTATAAAA
Found at i:30075855 original size:23 final size:23
Alignment explanation
Indices: 30075813--30075870 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 23
30075803 AAATAAGGAC
*
30075813 AAATAAAAATACTTAAAAAGTAAAT
1 AAATAAAAATA-TTAAAAAG-AAAA
30075838 AAATAAAAAT-TTAAAAAGAAAA
1 AAATAAAAATATTAAAAAGAAAA
30075860 AAATGAAAAAT
1 AAAT-AAAAAT
30075871 GACAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 7 0.23
23 14 0.45
25 10 0.32
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (23 bp):
AAATAAAAATATTAAAAAGAAAA
Found at i:30076827 original size:14 final size:15
Alignment explanation
Indices: 30076791--30076833 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
30076781 TATATAAAAA
*
30076791 ATAATAAATTTTAAT
1 ATAATAAATTTTATT
30076806 A-AATAAATTTTATT
1 ATAATAAATTTTATT
30076820 ATAA-AAATGTTTAT
1 ATAATAAAT-TTTAT
30076834 GCATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
ATAATAAATTTTATT
Found at i:30078689 original size:10 final size:10
Alignment explanation
Indices: 30078674--30078702 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
30078664 GAATGAACGA
30078674 AAAGAAAAAG
1 AAAGAAAAAG
30078684 AAAGAAAAAG
1 AAAGAAAAAG
30078694 AAAGAAAAA
1 AAAGAAAAA
30078703 AAATCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:30078711 original size:20 final size:20
Alignment explanation
Indices: 30078674--30078711 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30078664 GAATGAACGA
*
30078674 AAAGAAAAAGAAAGAAAAAG
1 AAAGAAAAAGAAACAAAAAG
30078694 AAAGAAAAA-AAATCAAAA
1 AAAGAAAAAGAAA-CAAAA
30078712 TCAATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGAAACAAAAAG
Found at i:30078832 original size:15 final size:14
Alignment explanation
Indices: 30078807--30078838 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
30078797 TTGTTTTTAG
30078807 TAAAAAAATAATAA
1 TAAAAAAATAATAA
30078821 TAAAAGAAATAATAA
1 TAAAA-AAATAATAA
30078836 TAA
1 TAA
30078839 TATCCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:30089410 original size:53 final size:54
Alignment explanation
Indices: 30089353--30089464 Score: 138
Period size: 53 Copynumber: 2.1 Consensus size: 54
30089343 CCCTAAAACA
* * **
30089353 TTTTTCTTTTACTTTTCC-CCAAAACTTTTACTTCCTCCAAACCTTTAAAAC-TT
1 TTTTTCCTTT-CTTTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
* * *
30089406 TTTTTCCTTTGTTTTCCTCCAAAACTTTTATTTCCCCCAAATCTCAAAAACATT
1 TTTTTCCTTTCTTTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
30089460 TTTTT
1 TTTTT
30089465 TTCGAATTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 6 0.12
53 37 0.74
54 7 0.14
ACGTcount: A:0.24, C:0.27, G:0.01, T:0.48
Consensus pattern (54 bp):
TTTTTCCTTTCTTTTCCTCCAAAACTTTTACTTCCCCCAAACCTCAAAAACATT
Found at i:30090664 original size:12 final size:12
Alignment explanation
Indices: 30090647--30090680 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
30090637 TCATTAATCG
*
30090647 ATAAACGAGTCA
1 ATAAACGAGCCA
30090659 ATAAACGAGCCA
1 ATAAACGAGCCA
30090671 ATAAACGAGC
1 ATAAACGAGC
30090681 TTTTAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.12
Consensus pattern (12 bp):
ATAAACGAGCCA
Found at i:30095366 original size:73 final size:72
Alignment explanation
Indices: 30095234--30095405 Score: 272
Period size: 73 Copynumber: 2.4 Consensus size: 72
30095224 AAAATAAGCA
** * *
30095234 TTAGCGGCGTTTTCCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTTT
30095299 CGAGGAT
66 CGAGGAT
*
30095306 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTT
* *
30095371 TTGGGGAT
65 TCGAGGAT
30095379 TTAGCGGCGTTTTTAAGAAAGCGCCGC
1 TTAGCGGCGTTTTTAAGAAAGCGCCGC
30095406 TAATGCTCAG
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 25 0.27
73 67 0.73
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (72 bp):
TTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTTT
CGAGGAT
Found at i:30095451 original size:114 final size:115
Alignment explanation
Indices: 30095305--30095520 Score: 301
Period size: 118 Copynumber: 1.9 Consensus size: 115
30095295 CTTTCGAGGA
* * **
30095305 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACATAAGCACAACAAAACCGTTTTCTGAG-
* *
30095369 TTTT-GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
65 TTTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
* *
30095419 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAAAAACATAAGCCCAACAAAACCGTTTTGTG
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC---AAAAAAAACATAAGCACAACAAAACCGTTTTCTG
*
30095484 AGTTTTCGGGGATTTAGCAGCATTTTTAGGAAAGCGC
63 AGTTTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGC
30095521 AGCAAAAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
114 28 0.32
117 4 0.05
118 56 0.64
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (115 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACATAAGCACAACAAAACCGTTTTCTGAGT
TTTCGGGGATTTAGCAGCATTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:30095553 original size:191 final size:192
Alignment explanation
Indices: 30095234--30095645 Score: 604
Period size: 191 Copynumber: 2.2 Consensus size: 192
30095224 AAAATAAGCA
* * * ***
30095234 TTAGCGGCGTTTTCCAGAAAGCGCCGC-----AAAAAACCTAAGCCCAACGACGTCGTTTTCTGA
1 TTAGCGGCGTTTTTCAGAAAGCGCCGCAAAAAAAAAAACATAAGCCCAACAAAACCGTTTTCTGA
* * *
30095294 GCTTTCGAGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCACAACGACGCCG
66 GCTTTCGAGGATTTAGCAGCATTTTTGAGAAAGCGCAGCAAAAAAACCTAAGCACAACGACGCCG
* * **
30095359 TTTTCTGAGCTTT-TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
131 TTTTCTGAGCTTTCGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCT
* *
30095420 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAAAAACATAAGCCCAACAAAACCGTTTTGTGA
1 TTAGCGGCGTTTTTCAGAAAGCGCCGCAAAAAAAAAAACATAAGCCCAACAAAACCGTTTTCTGA
* *
30095485 GTTTTCGGGGATTTAGCAGCATTTTT-AGGAAAGCGCAGCAAAAAAACCTAAGCACAACGACGCC
66 GCTTTCGAGGATTTAGCAGCATTTTTGA-GAAAGCGCAGCAAAAAAACCTAAGCACAACGACGCC
30095549 GTTTTCTGAGCTTTCGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCT
130 GTTTTCTGAGCTTTCGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCT
*
30095612 TTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAAA
1 TTAGCGGCGTTTTTCAGAAAGCGCCGCAAAAAAA
30095646 CTAAGCCCAA
Statistics
Matches: 201, Mismatches: 18, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
186 25 0.12
190 1 0.00
191 98 0.49
192 77 0.38
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (192 bp):
TTAGCGGCGTTTTTCAGAAAGCGCCGCAAAAAAAAAAACATAAGCCCAACAAAACCGTTTTCTGA
GCTTTCGAGGATTTAGCAGCATTTTTGAGAAAGCGCAGCAAAAAAACCTAAGCACAACGACGCCG
TTTTCTGAGCTTTCGGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCT
Found at i:30095591 original size:74 final size:74
Alignment explanation
Indices: 30095419--30095594 Score: 201
Period size: 73 Copynumber: 2.3 Consensus size: 74
30095409 TGCTCAGGGC
* * * *
30095419 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAAAAACATAAGCCCAACAAAACCGTTTTGTG
1 TTTAGCGGCGTTTTTAAGAAAGCGCAGC---AAAAAAAACATAAGCACAACAAAACCGTTTTCTG
*
30095484 AGTTTTCGGGGA
63 AGCTTTCGGGGA
* * * * * **
30095496 TTTAGCAGCATTTTTAGGAAAGCGCAGC-AAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTAAGAAAGCGCAGCAAAAAAAACATAAGCACAACAAAACCGTTTTCTGAGC
30095560 TTTCGGGGGA
66 TTTC-GGGGA
30095570 TTTAGCGGCGTTTTTAAGAAAGCGC
1 TTTAGCGGCGTTTTTAAGAAAGCGC
30095595 CACTAACACT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
73 33 0.40
74 27 0.33
77 23 0.28
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (74 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCAGCAAAAAAAACATAAGCACAACAAAACCGTTTTCTGAGC
TTTCGGGGA
Found at i:30095730 original size:112 final size:113
Alignment explanation
Indices: 30095506--30095803 Score: 463
Period size: 112 Copynumber: 2.6 Consensus size: 113
30095496 TTTAGCAGCA
* * *
30095506 TTTTTAGGAAAGCGCAGCAAAAAAACCTAAGCACAACGACGCCGTTTTCTGAGCTTTCGGGGGAT
1 TTTTTA-GAAAGCGCCGCAAAAAAA-CTAAGCCCAACGACGTCGTTTTCTGAGCTTTC-GGGGAT
30095571 TTAGCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCTTTAGCGGCGT
63 TTAGCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCTTTAGCGGCGT
* *
30095622 TTTTTAGAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTTGTTTTTTGAGCTTTCGGGGATTT-
1 TTTTTAGAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTA
* ** *
30095686 GCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGTGT
66 GCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCTTTAGCGGCGT
* *
30095734 TTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTA
1 TTTTTAGAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTA
30095799 GCGGC
66 GCGGC
30095804 CAAAAATTTG
Statistics
Matches: 168, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
112 104 0.62
113 13 0.08
114 28 0.17
115 17 0.10
116 6 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (113 bp):
TTTTTAGAAAGCGCCGCAAAAAAACTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTA
GCGGCGTTTTTAAGAAAGCGCCACTAACACTCAGGGCTTTAGCGGCGT
Found at i:30095871 original size:41 final size:41
Alignment explanation
Indices: 30095812--30095890 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
30095802 GCCAAAAATT
*
30095812 TGGGGGCTTTGGCTGCGTTTTTGAAAAAGCGCTGCTAATGC
1 TGGGGGCTTTGGCTGCGTTTTTGAAAAAGCGCCGCTAATGC
*
30095853 TGGGGGCTTTGG-TGGCGTTTTTGGAAAAGCGCCGCTAA
1 TGGGGGCTTTGGCT-GCGTTTTTGAAAAAGCGCCGCTAA
30095891 AAATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.16, C:0.16, G:0.37, T:0.30
Consensus pattern (41 bp):
TGGGGGCTTTGGCTGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:30096175 original size:14 final size:14
Alignment explanation
Indices: 30096141--30096186 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
30096131 ATTTTAAGAT
* *
30096141 TTAGGGAGTATGGGT
1 TTAGGGATTAT-GGA
30096156 TTAGGGATTATGGA
1 TTAGGGATTATGGA
30096170 TTAGGGATTATGGA
1 TTAGGGATTATGGA
30096184 TTA
1 TTA
30096187 AGGGTTGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:30096221 original size:15 final size:15
Alignment explanation
Indices: 30096201--30096231 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30096191 TTGAGATTTA
30096201 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
30096216 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
30096231 A
1 A
30096232 CGTGCTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:30096465 original size:14 final size:15
Alignment explanation
Indices: 30096430--30096470 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
30096420 TATTTTAAGG
*
30096430 TTTAGGGAGTATAGA
1 TTTAGGGATTATAGA
30096445 TTTAGGGATTATAGA
1 TTTAGGGATTATAGA
30096460 -TTAGGGATTAT
1 TTTAGGGATTAT
30096471 GGTTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
TTTAGGGATTATAGA
Found at i:30096657 original size:290 final size:285
Alignment explanation
Indices: 30096038--30096640 Score: 773
Period size: 290 Copynumber: 2.0 Consensus size: 285
30096028 ATTATTTAAA
* *
30096038 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTT
1 ATAATTGTAAAAGAGATAATAATAAA--T-TTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
* * *
30096103 AAGATTTAAGACCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATGGGTTTAGGGATTATG
63 AAGATTTAAGACCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATAGATTTAGGGATTATA
* *
30096168 GATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGAGGTTTAGGGGTTAGAC
128 GATTAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGAGGGTTAGAGGTTAGAC
* *
30096233 GTGCTAAGGGTTAAAAGTTAGGGATTCAAGGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATT
193 GTGCTAAGGGTTAAAAGTTAAGGATTCAAGGGTCGAGTTAGGGTTTTGGGTTTA-A-TAATTAAT
30096298 TTTTTAATTTATATTTTAAATAGTTCTTAT
256 TTTTTAATTTATATTTTAAATAGTTCTTAT
30096328 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAA--T-TTTAGGGTTTTTAGTTTAGGGTATATGATTAATTT
* *
30096393 AAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTAGGGAGTATAGATTTAGGGATTATA
63 AAGATTTAAGACCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATAGATTTAGGGATTATA
*
30096458 GATTAGGGATTATGGTTTAATTAAGGGTTGGTCGTGATTTAAGGTTTAGGGGTTAG-GGGTTAGA
128 GATTAGGGATTATGG----ATTAAGGG-T--T-GAGATTTAAGGTTTAGGGGTTAGAGGGTTAGA
* ** * * * ** *
30096522 TGTTAGTGGTTAAGAGTTAGGGATTTAGGGTTTAAGGTTTCAAGGGTCGAGTTAGGGTTTTGGGT
185 GGTTAGACG-T--G-CTAAGGG-TTAAAAG-TTAAGGATTCAAGGGTCGAGTTAGGGTTTTGGGT
30096587 TT-A-AATTAATTTTTT-ATTTATATTTTAAATATGTTCTTAT
244 TTAATAATTAATTTTTTAATTTATATTTTAAATA-GTTCTTAT
*
30096627 GTAATTGTAAAAGA
1 ATAATTGTAAAAGA
30096641 TGTATAATTT
Statistics
Matches: 276, Mismatches: 22, Indels: 21
0.87 0.07 0.07
Matches are distributed among these distances:
290 138 0.50
294 8 0.03
295 1 0.00
297 13 0.05
298 39 0.14
299 32 0.12
300 1 0.00
301 6 0.02
302 4 0.01
303 34 0.12
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.41
Consensus pattern (285 bp):
ATAATTGTAAAAGAGATAATAATAAATTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAG
ATTTAAGACCGGTTTAGGAGTTCATATTTTAAGATTTAGGGAGTATAGATTTAGGGATTATAGAT
TAGGGATTATGGATTAAGGGTTGAGATTTAAGGTTTAGGGGTTAGAGGGTTAGAGGTTAGACGTG
CTAAGGGTTAAAAGTTAAGGATTCAAGGGTCGAGTTAGGGTTTTGGGTTTAATAATTAATTTTTT
AATTTATATTTTAAATAGTTCTTAT
Found at i:30096933 original size:47 final size:49
Alignment explanation
Indices: 30096876--30096974 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 49
30096866 AAAAAAAATA
*
30096876 AAAACACTAAAATTTATAA-TTTTATCTA-AAAT-TTATAAATATTAGTT
1 AAAACACTAAAATTTATAAGTTTTAT-TACAAATATTATAAATATTACTT
*
30096923 AAAACACTAAAATTTATAAGTTTTATTACTATATATTATAAATATTACTT
1 AAAACACTAAAATTTATAAGTTTTATTAC-AAATATTATAAATATTACTT
30096973 AA
1 AA
30096975 CAAAACTATG
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
47 21 0.46
48 6 0.13
49 3 0.07
50 16 0.35
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.42
Consensus pattern (49 bp):
AAAACACTAAAATTTATAAGTTTTATTACAAATATTATAAATATTACTT
Found at i:30097647 original size:157 final size:157
Alignment explanation
Indices: 30097373--30097679 Score: 614
Period size: 157 Copynumber: 2.0 Consensus size: 157
30097363 TAAATACAAT
30097373 TAATAAATAAGTTAAAAAAATTAATATATAAAATTTGATAATTTATGAGAGGACCAAATTAACAA
1 TAATAAATAAGTTAAAAAAATTAATATATAAAATTTGATAATTTATGAGAGGACCAAATTAACAA
30097438 ATGGAATTAAATTAAAAAAATAAAAAAGAAATAAAAACACTAAAATTTATAATTTTTACTACTAT
66 ATGGAATTAAATTAAAAAAATAAAAAAGAAATAAAAACACTAAAATTTATAATTTTTACTACTAT
30097503 ATATTATAAATATTACTTAAAGGAAAC
131 ATATTATAAATATTACTTAAAGGAAAC
30097530 TAATAAATAAGTTAAAAAAATTAATATATAAAATTTGATAATTTATGAGAGGACCAAATTAACAA
1 TAATAAATAAGTTAAAAAAATTAATATATAAAATTTGATAATTTATGAGAGGACCAAATTAACAA
30097595 ATGGAATTAAATTAAAAAAATAAAAAAGAAATAAAAACACTAAAATTTATAATTTTTACTACTAT
66 ATGGAATTAAATTAAAAAAATAAAAAAGAAATAAAAACACTAAAATTTATAATTTTTACTACTAT
30097660 ATATTATAAATATTACTTAA
131 ATATTATAAATATTACTTAA
30097680 CAAAACTATG
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 150 1.00
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.32
Consensus pattern (157 bp):
TAATAAATAAGTTAAAAAAATTAATATATAAAATTTGATAATTTATGAGAGGACCAAATTAACAA
ATGGAATTAAATTAAAAAAATAAAAAAGAAATAAAAACACTAAAATTTATAATTTTTACTACTAT
ATATTATAAATATTACTTAAAGGAAAC
Found at i:30098310 original size:11 final size:11
Alignment explanation
Indices: 30098296--30098321 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30098286 TATTTTTTTA
30098296 TTTTAAAATAC
1 TTTTAAAATAC
30098307 TTTTAAAATAC
1 TTTTAAAATAC
30098318 TTTT
1 TTTT
30098322 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:30098322 original size:38 final size:37
Alignment explanation
Indices: 30098275--30098397 Score: 118
Period size: 38 Copynumber: 3.4 Consensus size: 37
30098265 GCCCGAATAT
* *
30098275 AATAATTTTTTTATTTTTTTATTTTAAAATACTTTTAA
1 AATACTTTTTTAATTTTTTTATTTTAAAATA-TTTTAA
* *
30098313 AATACTTTTTTTAA-ATTTTTA-ATT----T-TTTTAA
1 AATAC-TTTTTTAATTTTTTTATTTTAAAATATTTTAA
30098344 AATAC-TTTTTAATTTTTTTAATTTTAAAATATTTTTAA
1 AATACTTTTTTAATTTTTTT-ATTTTAAAATA-TTTTAA
30098382 AATACTTTTTTAATTT
1 AATACTTTTTTAATTT
30098398 ATGGTTTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
29 7 0.10
30 5 0.07
31 12 0.18
32 2 0.03
33 1 0.01
36 1 0.01
37 2 0.03
38 21 0.31
39 17 0.25
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (37 bp):
AATACTTTTTTAATTTTTTTATTTTAAAATATTTTAA
Found at i:30098340 original size:9 final size:9
Alignment explanation
Indices: 30098318--30098368 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
30098308 TTTAAAATAC
30098318 TTTTTTTAA
1 TTTTTTTAA
*
30098327 -ATTTTTAA
1 TTTTTTTAA
30098335 TTTTTTTAAAA
1 TTTTTTT--AA
*
30098346 TACTTTTTAA
1 T-TTTTTTAA
30098356 TTTTTTTAA
1 TTTTTTTAA
30098365 TTTT
1 TTTT
30098369 AAAATATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 7 0.21
9 16 0.47
10 3 0.09
11 3 0.09
12 5 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:30098362 original size:30 final size:30
Alignment explanation
Indices: 30098307--30098368 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
30098297 TTTAAAATAC
30098307 TTTTAAAATACTTTTTTTAAATTTTTAATTT
1 TTTTAAAATAC-TTTTTTAAATTTTTAATTT
*
30098338 TTTTAAAATAC-TTTTTAATTTTTTTAATTT
1 TTTTAAAATACTTTTTTAA-ATTTTTAATTT
30098368 T
1 T
30098369 AAAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 7 0.24
30 11 0.38
31 11 0.38
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (30 bp):
TTTTAAAATACTTTTTTAAATTTTTAATTT
Found at i:30098702 original size:16 final size:16
Alignment explanation
Indices: 30098683--30098721 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
30098673 GCACTCGTGG
*
30098683 ACCGTCACAGGCCTCT
1 ACCGTCACACGCCTCT
*
30098699 ACCGTCACACTCCTCT
1 ACCGTCACACGCCTCT
30098715 ACCGTCA
1 ACCGTCA
30098722 GAGAAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.46, G:0.13, T:0.21
Consensus pattern (16 bp):
ACCGTCACACGCCTCT
Found at i:30099778 original size:204 final size:204
Alignment explanation
Indices: 30099428--30099839 Score: 808
Period size: 204 Copynumber: 2.0 Consensus size: 204
30099418 GTTACGTTCT
30099428 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
1 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
30099493 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTTTTGCTTGCTTGGGTTGGAGCTAGTT
66 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTTTTGCTTGCTTGGGTTGGAGCTAGTT
30099558 TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
131 TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
30099623 ACTTTGATG
196 ACTTTGATG
30099632 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
1 GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
30099697 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTCTTTGCTTGC-TGGGTTGGAGCTAGT
66 TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTT-TTTGCTTGCTTGGGTTGGAGCTAGT
30099761 TTCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCT
130 TTCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCT
30099826 TACTTTGATG
195 TACTTTGATG
30099836 GAAT
1 GAAT
30099840 GAACGGAATT
Statistics
Matches: 207, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
204 198 0.96
205 9 0.04
ACGTcount: A:0.17, C:0.13, G:0.24, T:0.45
Consensus pattern (204 bp):
GAATTATGCTTTGGTTCTGAAATCTAGATCTGGTTTTTTTGTTTTCCTATGCTTCTTTTATGTAC
TATTGGATAAGAAAGTTGGGTCTTTGTCTGCGTTGCTTTTTTGCTTGCTTGGGTTGGAGCTAGTT
TCATTGCTGCAGAACTTGGCTATTCTTTGGCGTGGAAGGTAAATTTTATTGCTGTGATTAGCCTT
ACTTTGATG
Found at i:30099906 original size:14 final size:14
Alignment explanation
Indices: 30099887--30099916 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30099877 TAAAAGGTTT
30099887 TTTAGTTAATCATC
1 TTTAGTTAATCATC
*
30099901 TTTAGTTAGTCATC
1 TTTAGTTAATCATC
30099915 TT
1 TT
30099917 GCTGTCCGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:30100163 original size:22 final size:22
Alignment explanation
Indices: 30100132--30100174 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30100122 ATTTGATCAA
30100132 TTGTTGTAGCCAATGCAAATTG
1 TTGTTGTAGCCAATGCAAATTG
*
30100154 TTGTTTTAGCCAATGCAAATT
1 TTGTTGTAGCCAATGCAAATT
30100175 TTATTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (22 bp):
TTGTTGTAGCCAATGCAAATTG
Found at i:30101319 original size:12 final size:12
Alignment explanation
Indices: 30101304--30101337 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30101294 TAACCTACAT
30101304 AACTTACATAGA
1 AACTTACATAGA
*
30101316 AACTTATATAGA
1 AACTTACATAGA
*
30101328 AACTTGCATA
1 AACTTACATA
30101338 ACTTACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:30101346 original size:9 final size:9
Alignment explanation
Indices: 30101328--30101532 Score: 98
Period size: 9 Copynumber: 23.7 Consensus size: 9
30101318 CTTATATAGA
*
30101328 AACTTGCAT
1 AACTTACAT
30101337 AACTTACAT
1 AACTTACAT
*
30101346 AA-TAACAT
1 AACTTACAT
*
30101354 AAAAACTTAGAT
1 ---AACTTACAT
30101366 AA--TACAT
1 AACTTACAT
*
30101373 AACCTACAT
1 AACTTACAT
30101382 AACTTACAT
1 AACTTACAT
30101391 AACTTACAT
1 AACTTACAT
30101400 AA--TACCACT
1 AACTTA-CA-T
* * *
30101409 TACATAAAT
1 AACTTACAT
30101418 AAC-TAGCAT
1 AACTTA-CAT
30101427 AA--TACAT
1 AACTTACAT
* *
30101434 AGCCTACAT
1 AACTTACAT
*
30101443 AACTTACTT
1 AACTTACAT
30101452 AACTTACAT
1 AACTTACAT
*
30101461 AA--TACAC
1 AACTTACAT
*
30101468 CACTTACAT
1 AACTTACAT
*
30101477 AACTTAAAT
1 AACTTACAT
30101486 AACTTACAT
1 AACTTACAT
*
30101495 AA--TACTT
1 AACTTACAT
30101502 AACTTTA-AT
1 AAC-TTACAT
* *
30101511 -A-GTACAC
1 AACTTACAT
30101518 AACTTACAT
1 AACTTACAT
30101527 AACTTA
1 AACTTA
30101533 ATTACATTAT
Statistics
Matches: 148, Mismatches: 27, Indels: 42
0.68 0.12 0.19
Matches are distributed among these distances:
6 2 0.01
7 24 0.16
8 13 0.09
9 98 0.66
10 3 0.02
11 4 0.03
12 4 0.03
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:30101362 original size:20 final size:19
Alignment explanation
Indices: 30101337--30101374 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
30101327 AAACTTGCAT
30101337 AACTTACATAATAACATAAA
1 AACTTACATAAT-ACATAAA
*
30101357 AACTTAGATAATACATAA
1 AACTTACATAATACATAA
30101375 CCTACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (19 bp):
AACTTACATAATACATAAA
Found at i:30101392 original size:25 final size:25
Alignment explanation
Indices: 30101357--30101532 Score: 90
Period size: 25 Copynumber: 7.2 Consensus size: 25
30101347 ATAACATAAA
* *
30101357 AACTTAGATAATACATAACCTACAT
1 AACTTACATAATACATAACTTACAT
30101382 AACTTACATAACTTACATAA--TAC--
1 AACTTACATAA--TACATAACTTACAT
*
30101405 CACTTACAT-A-A-ATAAC-TAGCAT
1 AACTTACATAATACATAACTTA-CAT
* *
30101427 AA--TACATAGCCTACATAACTTACTT
1 AACTTACATA--ATACATAACTTACAT
**
30101452 AACTTACATAATACACCACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
30101477 AACTTAAATAACTTACATAA--TACTT
1 AACTTACATAA--TACATAACTTACAT
* *
30101502 AACTTTA-ATAGTACACAACTTACAT
1 AAC-TTACATAATACATAACTTACAT
30101527 AACTTA
1 AACTTA
30101533 ATTACATTAT
Statistics
Matches: 116, Mismatches: 16, Indels: 39
0.68 0.09 0.23
Matches are distributed among these distances:
18 4 0.03
19 3 0.03
20 6 0.05
22 2 0.02
23 14 0.12
24 4 0.03
25 60 0.52
26 5 0.04
27 18 0.16
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:30101402 original size:34 final size:34
Alignment explanation
Indices: 30101357--30101504 Score: 141
Period size: 34 Copynumber: 4.6 Consensus size: 34
30101347 ATAACATAAA
*
30101357 AACTTAGATAATACATAACCTACATAACTTACAT
1 AACTTACATAATACATAACCTACATAACTTACAT
* *
30101391 AACTTACATAATAC--CACTTACAT-A---A-AT
1 AACTTACATAATACATAACCTACATAACTTACAT
* *
30101418 AAC-TAGCATAATACATAGCCTACATAACTTACTT
1 AACTTA-CATAATACATAACCTACATAACTTACAT
** * *
30101452 AACTTACATAATACACCACTTACATAACTTAAAT
1 AACTTACATAATACATAACCTACATAACTTACAT
*
30101486 AACTTACATAATACTTAAC
1 AACTTACATAATACATAAC
30101505 TTTAATAGTA
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.02
27 13 0.15
28 1 0.01
29 6 0.07
30 1 0.01
31 1 0.01
32 7 0.08
33 1 0.01
34 55 0.62
35 2 0.02
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (34 bp):
AACTTACATAATACATAACCTACATAACTTACAT
Found at i:30101434 original size:61 final size:61
Alignment explanation
Indices: 30101350--30101478 Score: 199
Period size: 61 Copynumber: 2.1 Consensus size: 61
30101340 TTACATAATA
30101350 ACATAAAAACTTAGATAATACATAACCTACATAACTTACATAACTTACATAAT-ACCACTT
1 ACATAAAAACTTAGATAATACATAACCTACATAACTTACATAACTTACATAATAACCACTT
* *
30101410 ACATAAATAAC-TAGCATAATACATAGCCTACATAACTTACTTAACTTACATAATACACCACTT
1 ACATAAA-AACTTAG-ATAATACATAACCTACATAACTTACATAACTTACATAATA-ACCACTT
30101473 ACATAA
1 ACATAA
30101479 CTTAAATAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
60 10 0.16
61 40 0.63
63 13 0.21
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.28
Consensus pattern (61 bp):
ACATAAAAACTTAGATAATACATAACCTACATAACTTACATAACTTACATAATAACCACTT
Found at i:30101494 original size:61 final size:60
Alignment explanation
Indices: 30101367--30101496 Score: 165
Period size: 61 Copynumber: 2.1 Consensus size: 60
30101357 AACTTAGATA
* *
30101367 ATACATAACCTACATAACTTACATAACTTACATAATACCACTTACATAAATAACTAGCAT
1 ATACATAACCTACATAACTTACATAACTTACATAATACCACTTACATAAATAAATAACAT
* * *
30101427 AATACATAGCCTACATAACTTACTTAACTTACATAATACACCACTTACATAACTTAAATAAC-T
1 -ATACATAACCTACATAACTTACATAACTTACATAAT--ACCACTTACATAA-ATAAATAACAT
30101490 -TACATAA
1 ATACATAA
30101497 TACTTAACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
61 40 0.67
63 14 0.23
64 6 0.10
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (60 bp):
ATACATAACCTACATAACTTACATAACTTACATAATACCACTTACATAAATAAATAACAT
Found at i:30103730 original size:66 final size:65
Alignment explanation
Indices: 30103636--30103806 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 65
30103626 GAGCAAATTA
* * * * *
30103636 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
30103700 G
65 G
* *
30103701 CTACAACTAAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
30103766 G
65 G
* * * * *
30103767 CAGCAGCTTAAAGCAGATGCGGTAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
30103807 CGGCAGTGAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 84 0.93
67 4 0.04
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:30103818 original size:21 final size:21
Alignment explanation
Indices: 30103797--30103889 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
30103787 GGTAGCAAGA
** * *
30103797 GAAGCAGAGGCGGCAGTGAGA
1 GAAGCAGAGGCTACAGCGAGG
* *
30103818 GAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
* * *
30103839 GAAACAGAGGCTAAAGTGAGG
1 GAAGCAGAGGCTACAGCGAGG
*
30103860 GAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
30103881 GAAGCAGAG
1 GAAGCAGAG
30103890 CAGCGTCAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Done.