Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 29 of 352
Found at i:9394886 original size:7 final size:7
Alignment explanation
Indices: 9394874--9394979 Score: 60
Period size: 7 Copynumber: 14.9 Consensus size: 7
9394864 TATATAATTA
9394874 ATTTATT
1 ATTTATT
9394881 ATTTATT
1 ATTTATT
*
9394888 ATGTATT
1 ATTTATT
9394895 ATTT-TT
1 ATTTATT
**
9394901 CATAAATT
1 -ATTTATT
9394909 A-TTATT
1 ATTTATT
9394915 A-TT-TT
1 ATTTATT
*
9394920 ACATTATT
1 A-TTTATT
*
9394928 ATTTA-C
1 ATTTATT
9394934 ATATTATT
1 AT-TTATT
9394942 ATATTATAT
1 AT-TTAT-T
9394951 ATTTATT
1 ATTTATT
9394958 AATTATATT
1 -ATT-TATT
*
9394967 ATATATT
1 ATTTATT
9394974 ATTTAT
1 ATTTAT
9394980 ATATATACCT
Statistics
Matches: 78, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
5 3 0.04
6 10 0.13
7 37 0.47
8 21 0.27
9 7 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (7 bp):
ATTTATT
Found at i:9394889 original size:3 final size:3
Alignment explanation
Indices: 9394876--9395071 Score: 57
Period size: 3 Copynumber: 61.0 Consensus size: 3
9394866 TATAATTAAT
* * *
9394876 TTA TTA TTTA TTA TGTA TTA TTT TTCA TAAA TTA TTA TTA TT- TTA -CA
1 TTA TTA -TTA TTA T-TA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA
*
9394923 TTA TTA TTTA CATA TTA TTA -TA TTA TATA TTTA TTAA TTA -TA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA T-TA -TTA TT-A TTA TTA TTA
* * *
9394968 TATA TTA TTTA TATA TATA CCT- TTA -TA TTA TACA TTA TAA TTA -TA
1 T-TA TTA -TTA T-TA T-TA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* *
9395013 TTA TATA TTA TTA TGTCA TTT TTA TTA TTA TCCA TT- TTA TCTA TATA
1 TTA T-TA TTA TTA T-T-A TTA TTA TTA TTA T-TA TTA TTA T-TA T-TA
*
9395060 TTA TTA TCA TTA
1 TTA TTA TTA TTA
9395072 AAGGTTTTAA
Statistics
Matches: 145, Mismatches: 22, Indels: 52
0.66 0.10 0.24
Matches are distributed among these distances:
2 14 0.10
3 79 0.54
4 49 0.34
5 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:9394950 original size:13 final size:13
Alignment explanation
Indices: 9394908--9395023 Score: 70
Period size: 13 Copynumber: 9.1 Consensus size: 13
9394898 TTTCATAAAT
*
9394908 TATTATTATTTTA
1 TATTATTATATTA
*
9394921 CATTATTAT-TTACA
1 TATTATTATATT--A
9394935 TATTATTATATTA
1 TATTATTATATTA
9394948 TA-TATT-TATTA
1 TATTATTATATTA
9394959 -ATTA-TAT-TATA
1 TATTATTATAT-TA
9394970 TATTATTTATATATA
1 TATTA-TTATAT-TA
*
9394985 TACCT-TTATATTA
1 TA-TTATTATATTA
*
9394998 TA-CATTATAATTA
1 TATTATTAT-ATTA
9395011 TATTA-TATATTA
1 TATTATTATATTA
9395023 T
1 T
9395024 TATGTCATTT
Statistics
Matches: 84, Mismatches: 5, Indels: 29
0.71 0.04 0.25
Matches are distributed among these distances:
10 3 0.04
11 10 0.12
12 19 0.23
13 24 0.29
14 19 0.23
15 8 0.10
16 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:9394956 original size:27 final size:28
Alignment explanation
Indices: 9394908--9394979 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 28
9394898 TTTCATAAAT
* * *
9394908 TATTATTATTTTACATTATTATTTA-CA
1 TATTATTATATTATATTATTATTAATCA
*
9394935 TATTATTATATTATA-TATTTATTAATTA
1 TATTATTATATTATATTA-TTATTAATCA
9394963 TATTA-TATATTAT-TTAT
1 TATTATTATATTATATTAT
9394980 ATATATACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 3 0.08
27 29 0.76
28 6 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (28 bp):
TATTATTATATTATATTATTATTAATCA
Found at i:9394964 original size:20 final size:19
Alignment explanation
Indices: 9394935--9395023 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 19
9394925 ATTATTTACA
9394935 TATTATTATATTATATATT
1 TATTATTATATTATATATT
9394954 TATTAATTATATTATATA-T
1 TATT-ATTATATTATATATT
9394973 TA-T-TTATA-TATATACCTT
1 TATTATTATATTATATA--TT
9394991 TA-TATTATACATTATA-ATT
1 TATTATTAT--ATTATATATT
9395010 ATATTA-TATATTAT
1 -TATTATTATATTAT
9395024 TATGTCATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 21
0.74 0.00 0.26
Matches are distributed among these distances:
15 6 0.10
16 5 0.08
18 10 0.17
19 13 0.22
20 18 0.30
21 4 0.07
22 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATTATATTATATATT
Found at i:9395360 original size:15 final size:14
Alignment explanation
Indices: 9395316--9395362 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
9395306 TCTTTTATAT
9395316 TTTTTTATGTAATTA
1 TTTTTTAT-TAATTA
9395331 TTATTCTTA-TAATTA
1 TT-TT-TTATTAATTA
9395346 TTTTTTATTATATTA
1 TTTTTTATTA-ATTA
9395361 TT
1 TT
9395363 AAATATCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 4 0.14
15 16 0.57
16 2 0.07
17 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTTTTATTAATTA
Found at i:9404210 original size:13 final size:13
Alignment explanation
Indices: 9404194--9404221 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9404184 ATTCGAGTTT
9404194 ATAATTCATATTA
1 ATAATTCATATTA
9404207 ATAATTCATATTA
1 ATAATTCATATTA
9404220 AT
1 AT
9404222 TATGAACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATTCATATTA
Found at i:9412291 original size:5 final size:5
Alignment explanation
Indices: 9412281--9412360 Score: 160
Period size: 5 Copynumber: 16.0 Consensus size: 5
9412271 AATAATTAAG
9412281 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
9412331 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
9412361 ATAAAAGAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 75 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:9415175 original size:17 final size:19
Alignment explanation
Indices: 9415133--9415176 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9415123 ACGAAATTTT
*
9415133 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
9415152 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
9415170 AA-TATTA
1 AATTATTA
9415177 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:9417189 original size:8 final size:8
Alignment explanation
Indices: 9417176--9417205 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
9417166 CTAGATCGGC
9417176 AAAAGCCG
1 AAAAGCCG
9417184 AAAAGCCG
1 AAAAGCCG
9417192 AAAAGCCG
1 AAAAGCCG
9417200 AAAAGC
1 AAAAGC
9417206 TGGCATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9417860 original size:20 final size:19
Alignment explanation
Indices: 9417807--9417862 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
9417797 ATCATATGAG
*
9417807 ACTGTTTTATTATGGG-CCA
1 ACTG-TTTAATATGGGCCCA
*
9417826 ACTGTATTAAAATGGGCCCA
1 ACTGT-TTAATATGGGCCCA
9417846 ACTGTTTCAATATGGGC
1 ACTGTTT-AATATGGGC
9417863 AAGGCCTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 16 0.52
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (19 bp):
ACTGTTTAATATGGGCCCA
Found at i:9420641 original size:26 final size:26
Alignment explanation
Indices: 9420612--9420719 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
9420602 TGATACAAAT
9420612 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
9420638 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9420664 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
9420690 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9420716 TGAT
1 TGAT
9420720 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9422341 original size:27 final size:27
Alignment explanation
Indices: 9422300--9422411 Score: 147
Period size: 27 Copynumber: 4.1 Consensus size: 27
9422290 GAGGAAGCAT
9422300 TCTGGTGGCTATGCCACA-ATTATCTGA
1 TCTGGTGGCTATGCCACATA-TATCTGA
* * *
9422327 TCTGGTAGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACATATATCTGA
*
9422354 TCTAGTGGCTATGCCACA-ATTATCTGA
1 TCTGGTGGCTATGCCACATA-TATCTGA
*
9422381 TCTGGTGGCTCTGCCACATATATCTGA
1 TCTGGTGGCTATGCCACATATATCTGA
9422408 TCTG
1 TCTG
9422412 ATAGGCAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.01
27 70 0.96
28 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACATATATCTGA
Found at i:9422386 original size:54 final size:54
Alignment explanation
Indices: 9422299--9422406 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
9422289 GGAGGAAGCA
*
9422299 TTCTGGTGGCTATGCCACAATTATCTGATCTGGTAGCTCTGCCACATATATCTG
1 TTCTAGTGGCTATGCCACAATTATCTGATCTGGTAGCTCTGCCACATATATCTG
*
9422353 TTCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TTCTAGTGGCTATGCCACAATTATCTGATCTGGTAGCTCTGCCACATATATCTG
9422407 ATCTGATAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (54 bp):
TTCTAGTGGCTATGCCACAATTATCTGATCTGGTAGCTCTGCCACATATATCTG
Found at i:9423275 original size:26 final size:26
Alignment explanation
Indices: 9423246--9423353 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
9423236 TGGTACAAAT
*
9423246 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
9423272 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
9423298 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
9423324 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
9423350 TGAT
1 TGAT
9423354 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:9425011 original size:54 final size:53
Alignment explanation
Indices: 9424929--9425069 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
9424919 AGGAAGCGTC
9424929 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
9424983 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
9425037 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
9425070 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:9425080 original size:27 final size:27
Alignment explanation
Indices: 9424929--9425087 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
9424919 AGGAAGCGTC
*
9424929 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
9424956 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
9424983 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
9425010 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
9425037 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
9425064 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
9425088 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:9429239 original size:5 final size:5
Alignment explanation
Indices: 9429229--9429292 Score: 85
Period size: 5 Copynumber: 12.6 Consensus size: 5
9429219 AATAATTAAG
* *
9429229 TATAT TATAT TATAT TATAT TCT-T ATATTCT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT TATAT TATAT
9429280 TATAT TATAT TAT
1 TATAT TATAT TAT
9429293 TATATATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.02
5 48 0.91
6 3 0.06
7 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:9429295 original size:8 final size:8
Alignment explanation
Indices: 9429231--9429297 Score: 57
Period size: 8 Copynumber: 8.0 Consensus size: 8
9429221 TAATTAAGTA
9429231 TATTATATT
1 TATTATA-T
9429240 ATATTATAT
1 -TATTATAT
*
9429249 TCTTATAT
1 TATTATAT
*
9429257 TCTTATAT
1 TATTATAT
9429265 TA-TAT-T
1 TATTATAT
9429271 ATATTATATT
1 -TATTATA-T
9429281 ATATTATAT
1 -TATTATAT
9429290 TATTATAT
1 TATTATAT
9429298 ATAAAAGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
6 1 0.02
7 5 0.10
8 27 0.53
9 2 0.04
10 16 0.31
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:9433226 original size:24 final size:22
Alignment explanation
Indices: 9433186--9433232 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
9433176 ATAATAACTA
* *
9433186 TATAATATCTATTTTACATTTG
1 TATAATATATATTTTACACTTG
9433208 TATACATATATATTATTACACTTG
1 TATA-ATATATATT-TTACACTTG
9433232 T
1 T
9433233 CTTCTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (22 bp):
TATAATATATATTTTACACTTG
Found at i:9433297 original size:21 final size:21
Alignment explanation
Indices: 9433257--9433298 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
9433247 TATTTATTAT
*
9433257 ATAAATATCTTTTACTTAATA
1 ATAAATATATTTTACTTAATA
9433278 ATAATATATATTTTAC-TAATA
1 ATAA-ATATATTTTACTTAATA
9433299 TACTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAATATATTTTACTTAATA
Found at i:9437235 original size:48 final size:48
Alignment explanation
Indices: 9437163--9437387 Score: 227
Period size: 48 Copynumber: 4.7 Consensus size: 48
9437153 TATGTAAACC
* *
9437163 AGTGTAAGACCAAGTCTGGGACATGGCATCAGCCTCAATATGTGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCAATATGTGAGCT
* * * * * * *
9437211 AGTGTAAGATCATGTTTGGAACATGGCATCGGCATTATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCAATATGTGAGCT
* * * *
9437259 AGTATAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCAATATGTGAGCT
* * * ** *** * *
9437307 AGTGTAAGACCATGTTTGGAACATGACATCGGTTTTGTTACGAGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCAATATGTGAGCT
9437355 AGTGTAAGACCATGTCTAGG-ACATGGCATCAGC
1 AGTGTAAGACCATGTCT-GGAACATGGCATCAGC
9437388 ATCTTACTCT
Statistics
Matches: 140, Mismatches: 36, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
48 138 0.99
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCAATATGTGAGCT
Found at i:9437321 original size:96 final size:96
Alignment explanation
Indices: 9437167--9437387 Score: 343
Period size: 96 Copynumber: 2.3 Consensus size: 96
9437157 TAAACCAGTG
* * *
9437167 TAAGACCAAGTCTGGGACATGGCATCAGCCTCAATATGTGAGCTAGTGTAAGATCATGTTTGGAA
1 TAAGACCATGTCTGGGACATGGCATCAGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
* *
9437232 CATGGCATCGGCATTATTATGAGAGCTAGTA
66 CATGACATCGGCATTATTACGAGAGCTAGTA
*
9437263 TAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
1 TAAGACCATGTCTGGGACATGGCATCAGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
** * *
9437328 CATGACATCGGTTTTGTTACGAGAGCTAGTG
66 CATGACATCGGCATTATTACGAGAGCTAGTA
*
9437359 TAAGACCATGTCTAGGACATGGCATCAGC
1 TAAGACCATGTCTGGGACATGGCATCAGC
9437388 ATCTTACTCT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 113 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCAGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTGGAA
CATGACATCGGCATTATTACGAGAGCTAGTA
Found at i:9438565 original size:21 final size:20
Alignment explanation
Indices: 9438541--9438581 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
9438531 ATGTTAAGAG
*
9438541 GACACATGGGCGTGTCGCCCT
1 GACACACGGGCGTGT-GCCCT
9438562 GACACACGGGCGTGTGCCCT
1 GACACACGGGCGTGTGCCCT
9438582 TGGTTGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.15, C:0.34, G:0.34, T:0.17
Consensus pattern (20 bp):
GACACACGGGCGTGTGCCCT
Found at i:9441481 original size:31 final size:30
Alignment explanation
Indices: 9441441--9441499 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
9441431 CTTCTAAATT
*
9441441 TATTTGTACA-AATGTATATTTTTTTTAATC
1 TATTTGTACATAAT-TATAGTTTTTTTAATC
*
9441471 TATTGTGTACATAATTATGGTTTTTTTAA
1 TATT-TGTACATAATTATAGTTTTTTTAA
9441500 AATCTGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 18 0.72
32 3 0.12
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (30 bp):
TATTTGTACATAATTATAGTTTTTTTAATC
Found at i:9442710 original size:131 final size:130
Alignment explanation
Indices: 9442391--9442859 Score: 426
Period size: 131 Copynumber: 3.6 Consensus size: 130
9442381 GGTAATTTGT
* * * * * *
9442391 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTTCGTTTGCTCAAAGTAATCGAAGGTCCCTTT
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTC
* * * * *
9442456 AAAATTTCACTTATGCCTTTT-AAAATCCCTT-AAACGAAGGTGATGTGCGATATTTGACAATTC
66 AAAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGTGATCT-CGATGTTTGACAATTC
9442519 G
130 G
* * * *
9442520 CGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTTGTCTGCTT-AAAATAATCAAATATCCCT
1 -GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTG-TTCAAAATAATCGAAGATCCCT
** * * *
9442584 TCAAAATTTCACTCACATCTTTTAAAAATCCTTTAAAACGAAGGTAATACTCAAGGTTTGACAAT
64 TCAAAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGTGAT-CTCGATGTTTGACAAT
9442649 TCG
128 TCG
* * *** ** * * *
9442652 GGAATCATGCCCTATCGTGCTGGGTTATGATTTCTCGTTTGTTCAAAGCAATCGAATATTCCTTT
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTC
* * * * * *
9442717 AGATTTTCACTCATGT-TTATTAAAAA-CCTTTCAAAACGAAAGCGATGTTCGATGTTTGGCAAT
66 AAAATTTCACTCATGTCTT-TTAAAAATCCTTT-AAAACGAAGGTGAT-CTCGATGTTTGACAAT
*
9442780 TTG
128 TCG
* * * ** * **
9442783 AGAATCGTGCCCTATCGTGCTGCGTTGCGCTTTTTTATTTGTTCAAAATAATCGAAGATCCCTTC
1 GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTC
*
9442848 AGAATTTCACTC
66 AAAATTTCACTC
9442860 GTATTTTCTA
Statistics
Matches: 272, Mismatches: 60, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
130 79 0.29
131 166 0.61
132 26 0.10
133 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (130 bp):
GGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTC
AAAATTTCACTCATGTCTTTTAAAAATCCTTTAAAACGAAGGTGATCTCGATGTTTGACAATTCG
Found at i:9445774 original size:50 final size:50
Alignment explanation
Indices: 9445699--9445800 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
9445689 AAGGCCTTAT
*
9445699 AAATATTTCGAGAGGAAATGTGACACAAAAGAGGCACGTGGTCAAGTGGC
1 AAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGGC
9445749 AAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGGC
1 AAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGGC
9445799 AA
1 AA
9445801 GGAGGCGTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.17
Consensus pattern (50 bp):
AAATATTTCGAGAGGAAAGGTGACACAAAAGAGGCACGTGGTCAAGTGGC
Found at i:9453133 original size:21 final size:21
Alignment explanation
Indices: 9453107--9453151 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
9453097 TCATTCATAC
9453107 TAAGGTTAATTAGGGGTCTTT
1 TAAGGTTAATTAGGGGTCTTT
9453128 TAAGGTTAATTAGGGGTCTTT
1 TAAGGTTAATTAGGGGTCTTT
9453149 TAA
1 TAA
9453152 TGTCAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (21 bp):
TAAGGTTAATTAGGGGTCTTT
Found at i:9454870 original size:77 final size:74
Alignment explanation
Indices: 9454737--9455002 Score: 270
Period size: 77 Copynumber: 3.5 Consensus size: 74
9454727 AAAAATATTC
* * *
9454737 TCTATCGTATTTTACATCAA-GAATATACTTATTTACAATCTGTGAAAAAATTTTAAAAAAATAT
1 TCTATCGTATTTTATATCAATAAATATACTTATTTACAATCTATGAAAAAA--TTAAAAAAATAT
9454801 TTGTATTGTAT
64 TTGTATTGTAT
* * *
9454812 TCTATTGTATTTTATATCAATAATATATACTTATTTACAATCTATGAACGAAAATTAAAAACATT
1 TCTATCGTATTTTATATCAATAA-ATATACTTATTTACAATCTATGAA--AAAATTAAAAAAATA
9454877 TTTGTATTGTAT
63 TTTGTATTGTAT
** * * * * * *
9454889 TCTATCGTATACCT-TCTCAATAAA-ATATTTATTTACAATCTACGAAAAAATGAAAAAATTGTT
1 TCTATCGTAT-TTTATATCAATAAATATACTTATTTACAATCTATGAAAAAATTAAAAAAATATT
* *
9454952 TATATAGTAT
65 TGTATTGTAT
* *
9454962 TCTA-CTGTATTTTATATTAAGAACATATACTTATTTACAAT
1 TCTATC-GTATTTTATATCAATAA-ATATACTTATTTACAAT
9455003 TTACCAAAAA
Statistics
Matches: 158, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
72 2 0.01
73 35 0.22
74 1 0.01
75 52 0.33
76 2 0.01
77 61 0.39
78 1 0.01
79 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (74 bp):
TCTATCGTATTTTATATCAATAAATATACTTATTTACAATCTATGAAAAAATTAAAAAAATATTT
GTATTGTAT
Found at i:9456779 original size:85 final size:85
Alignment explanation
Indices: 9456665--9456823 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
9456655 TCACCATAGA
* *** ** * *
9456665 TAAGATAATGTAAGAAATCATGTCAGAATTCAATTTTGGATGATTTTGTGACATACTTGCAATAA
1 TAAGATAATGTAAGAAATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
9456730 CACAAGTATTTAAAAATAAG
66 CACAAGTATTTAAAAATAAG
* *
9456750 TAAGATAATGTCAGAGATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
1 TAAGATAATGTAAGAAATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
*
9456815 CATAAGTAT
66 CACAAGTAT
9456824 GTGGAGTGTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (85 bp):
TAAGATAATGTAAGAAATCAAGTCAGAATTCAATTTCAAATGATCCTATGACATACTTGCAACAA
CACAAGTATTTAAAAATAAG
Found at i:9457622 original size:49 final size:48
Alignment explanation
Indices: 9457541--9457661 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 48
9457531 GTGGCATGAA
* * * *
9457541 ACTTGAACCCATGACCGCATAATCCTCGTCAACT-GAGGCCTCAAGTTAT
1 ACTTGAACCCGTGACCGTATAA-CCTCGTCAACTAAAAGCC-CAAGTTAT
* * *
9457590 ACTTGAACTCGTGACCGTATAACCATCTTCAACTAAAAGCCCTAGTTAT
1 ACTTGAACCCGTGACCGTATAACC-TCGTCAACTAAAAGCCCAAGTTAT
*
9457639 ACTTCAACCCGTGACCGTATAAC
1 ACTTGAACCCGTGACCGTATAAC
9457662 TATCGTAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 55 0.90
50 4 0.07
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (48 bp):
ACTTGAACCCGTGACCGTATAACCTCGTCAACTAAAAGCCCAAGTTAT
Found at i:9474423 original size:28 final size:29
Alignment explanation
Indices: 9474382--9474437 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
9474372 CCAGGTTTTT
*
9474382 GGACACAGGTGTGTCT-AGGCCGTGTGAG
1 GGACACAGGCGTGTCTCAGGCCGTGTGAG
* * *
9474410 GGACACGGGCGTGTGTCCGGCCGTGTGA
1 GGACACAGGCGTGTCTCAGGCCGTGTGA
9474438 AAACCTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.20
Consensus pattern (29 bp):
GGACACAGGCGTGTCTCAGGCCGTGTGAG
Found at i:9476252 original size:21 final size:21
Alignment explanation
Indices: 9476208--9476278 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
9476198 GTGTTTCACT
* *
9476208 TTCTGTTTAGCTCTTACAGAGC
1 TTCTGTTCAGCTCTTA-TGAGC
9476230 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
9476251 TTCTGTTCAACTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
9476272 TTCTGTT
1 TTCTGTT
9476279 TTTCAACTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 31 0.67
22 15 0.33
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:9476295 original size:22 final size:24
Alignment explanation
Indices: 9476235--9476300 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 24
9476225 AGAGCTTCTG
*
9476235 TTCAGCTCTTATGAGCTTCTG---
1 TTCAACTCTTATGAGCTTCTGTTT
9476256 TTCAACTCTTATGAGCTTCTGTTT
1 TTCAACTCTTATGAGCTTCTGTTT
9476280 TTCAACT-TT-TGAGCTTCTGTT
1 TTCAACTCTTATGAGCTTCTGTT
9476301 GGCGTATTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 20 0.49
22 12 0.29
23 2 0.05
24 7 0.17
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (24 bp):
TTCAACTCTTATGAGCTTCTGTTT
Found at i:9477068 original size:26 final size:25
Alignment explanation
Indices: 9477017--9477068 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
9477007 GCCTTGTTAT
*
9477017 GGCTGGTTGATGTGCAATTTGTTGA
1 GGCTGGTTGATGTGCAATTTGGTGA
*
9477042 GGCTAGGTTGGTGT-CAATTTAGGTGA
1 GGCT-GGTTGATGTGCAATTT-GGTGA
9477068 G
1 G
9477069 AAATATGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.17, C:0.08, G:0.38, T:0.37
Consensus pattern (25 bp):
GGCTGGTTGATGTGCAATTTGGTGA
Found at i:9481963 original size:21 final size:20
Alignment explanation
Indices: 9481939--9481977 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9481929 CATTTTTTTT
9481939 TATAATTTAACAAATTTTAAA
1 TATAATTTAA-AAATTTTAAA
* *
9481960 TATATTTTAAATATTTTA
1 TATAATTTAAAAATTTTA
9481978 GAAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTTAAAAATTTTAAA
Found at i:9483004 original size:14 final size:14
Alignment explanation
Indices: 9482985--9483023 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
9482975 ACTTCCATTT
9482985 GAAAATAATTTTCA
1 GAAAATAATTTTCA
*
9482999 GAAAATAATTTTTA
1 GAAAATAATTTTCA
*
9483013 AAAAATAATTT
1 GAAAATAATTT
9483024 ATTTTCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (14 bp):
GAAAATAATTTTCA
Found at i:9483472 original size:15 final size:16
Alignment explanation
Indices: 9483451--9483498 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
9483441 TATACTACAA
9483451 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
9483467 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
9483484 AAATATTTATTATTA
1 -AATATTTATTATTA
9483499 GAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 6 0.23
18 1 0.04
19 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:9483505 original size:34 final size:34
Alignment explanation
Indices: 9483450--9483518 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 34
9483440 TTATACTACA
*
9483450 AAATATTTATTATTAATATATTTATA-ATTGTAAT
1 AAATATTTATTATTAATATATTAATATATTG-AAT
9483484 AAATATTTATTATTAGA-ATATTAATATATTGAAT
1 AAATATTTATTATTA-ATATATTAATATATTGAAT
9483518 A
1 A
9483519 TTTTCAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (34 bp):
AAATATTTATTATTAATATATTAATATATTGAAT
Found at i:9484379 original size:15 final size:15
Alignment explanation
Indices: 9484359--9484410 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9484349 ACTACAAAAC
9484359 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9484374 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9484393 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
9484408 ATT
1 ATT
9484411 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9484474 original size:16 final size:16
Alignment explanation
Indices: 9484443--9484479 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9484433 ATCTGAATCA
9484443 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9484459 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9484475 TATTA
1 TATTA
9484480 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9484531 original size:22 final size:22
Alignment explanation
Indices: 9484491--9484546 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
9484481 AATAAAATTG
*
9484491 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
9484511 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
9484533 TATTAATAATTTAT
1 AAATAATAAATTAT
9484547 TATATGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:9485514 original size:19 final size:19
Alignment explanation
Indices: 9485492--9485543 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
9485482 ATAATTTATT
9485492 TATAAAAATTTAATTTTAA
1 TATAAAAATTTAATTTTAA
* *
9485511 TATATAAA-TCATATTTTAA
1 TATAAAAATTTA-ATTTTAA
* *
9485530 TATTAAAATATAAT
1 TATAAAAATTTAAT
9485544 CATTACGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
18 2 0.08
19 22 0.88
20 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TATAAAAATTTAATTTTAA
Found at i:9485528 original size:25 final size:24
Alignment explanation
Indices: 9485500--9485546 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
9485490 TTTATAAAAA
* *
9485500 TTTAATTTTAATATATAAATCATAT
1 TTTAATATTAAAATAT-AATCATAT
9485525 TTTAATATTAAAATATAATCAT
1 TTTAATATTAAAATATAATCAT
9485547 TACGAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAATATTAAAATATAATCATAT
Found at i:9485888 original size:20 final size:21
Alignment explanation
Indices: 9485865--9485905 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
9485855 TTTATTTCAA
9485865 ATATATAAAAT-TTTATATTT
1 ATATATAAAATATTTATATTT
*
9485885 ATATTTAAAATATTTATATTT
1 ATATATAAAATATTTATATTT
9485906 TATCATATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATAAAATATTTATATTT
Found at i:9493570 original size:55 final size:55
Alignment explanation
Indices: 9493486--9493597 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
9493476 ACCTCTTAGC
*
9493486 TGTAATTACAAAATATCATATGGCACCCTAAATCTTCACAGCGAACTCAATTACA
1 TGTAATTACAAAATATCATATGGCACCCTAAATCTTCACAGCAAACTCAATTACA
9493541 TGTAATTACAAAATATCATATGGCACCCTAAATCTTCACAGCAAACTCAATTACA
1 TGTAATTACAAAATATCATATGGCACCCTAAATCTTCACAGCAAACTCAATTACA
9493596 TG
1 TG
9493598 AAGGCTCCGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (55 bp):
TGTAATTACAAAATATCATATGGCACCCTAAATCTTCACAGCAAACTCAATTACA
Found at i:9499537 original size:15 final size:15
Alignment explanation
Indices: 9499507--9499535 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9499497 ACTATTAGTA
9499507 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
9499522 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
9499536 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:9502458 original size:18 final size:19
Alignment explanation
Indices: 9502421--9502457 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9502411 TTTAAAAATA
9502421 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
9502439 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
9502458 AAAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:9502467 original size:19 final size:19
Alignment explanation
Indices: 9502424--9502468 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
9502414 AAAAATATAT
*
9502424 AAAT-TTTAGAATTTTTAT
1 AAATATTTAGAATTTTTAA
9502442 AAATATTTAGAA-TTTTAA
1 AAATATTTAGAATTTTTAA
9502460 AAATTATTT
1 AAA-TATTT
9502469 TGAAAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AAATATTTAGAATTTTTAA
Found at i:9509577 original size:49 final size:49
Alignment explanation
Indices: 9509517--9509613 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
9509507 ACTAAGCAAC
* *
9509517 GTTTTCTAATAAATTTTGTTGCTTTTGATGTGGGGTTCCAATTTGGATT
1 GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGATT
9509566 GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGAT
1 GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGAT
9509614 AACAGCTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.20, C:0.08, G:0.23, T:0.49
Consensus pattern (49 bp):
GTTTTCCAATAAATTTTGTTGCTTTTGATGTGGGGTTCAAATTTGGATT
Found at i:9513425 original size:16 final size:16
Alignment explanation
Indices: 9513404--9513436 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9513394 AGTTGATGAG
9513404 TCTTAT-TTTATTAATT
1 TCTTATATTT-TTAATT
9513420 TCTTATATTTTTAATT
1 TCTTATATTTTTAATT
9513436 T
1 T
9513437 TTTTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTATATTTTTAATT
Found at i:9519065 original size:47 final size:46
Alignment explanation
Indices: 9519003--9519202 Score: 154
Period size: 47 Copynumber: 4.4 Consensus size: 46
9518993 ATATACATAC
*
9519003 ATATAT-ATATTAAAATATAAACATAATAATAGTATTACAAAGTAT
1 ATATATAATATTAAAATATAAACATAATAATAATATTACAAAGTAT
* * *
9519048 ATATATAATATTAAAAATATATACATAATATATACATATTAGAGA-TA-
1 ATATATAATATT-AAAATATAAACATAATA-ATA-ATATTACAAAGTAT
* *
9519095 ATA-ATAATATTAAAA-AT-AAC-TATTAATAATACTACATAAGTAT
1 ATATATAATATTAAAATATAAACATAATAATAATATTACA-AAGTAT
* *
9519138 ACACATATCTATATTAAAA-AT-AA-ATACATAATAATATTA-AAAGTAT
1 --ATATAT-AATATTAAAATATAAACATA-ATAATAATATTACAAAGTAT
* *
9519184 ATACATAATA-TATAATATA
1 ATATATAATATTAAAATATA
9519203 GTTATTAAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
40 6 0.05
41 4 0.03
42 10 0.08
43 7 0.06
44 6 0.05
45 12 0.10
46 21 0.17
47 35 0.28
48 15 0.12
49 7 0.06
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (46 bp):
ATATATAATATTAAAATATAAACATAATAATAATATTACAAAGTAT
Found at i:9519113 original size:18 final size:20
Alignment explanation
Indices: 9519072--9519113 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
9519062 AAATATATAC
* *
9519072 ATAATATATACATATTAGAG
1 ATAATATATACATATTAAAA
9519092 ATAATA-ATA-ATATTAAAA
1 ATAATATATACATATTAAAA
9519110 ATAA
1 ATAA
9519114 CTATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:9519241 original size:25 final size:27
Alignment explanation
Indices: 9519198--9519254 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
9519188 ATAATATATA
*
9519198 ATATAGTTATTAAAAAATACATACAAT
1 ATATAGTTATTAAAAAATACACACAAT
* *
9519225 ATATAG-TATT-AAGAATATACACAAT
1 ATATAGTTATTAAAAAATACACACAAT
9519250 ATATA
1 ATATA
9519255 TGGTACTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 17 0.63
26 4 0.15
27 6 0.22
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (27 bp):
ATATAGTTATTAAAAAATACACACAAT
Found at i:9519255 original size:27 final size:27
Alignment explanation
Indices: 9519193--9519269 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
9519183 TATACATAAT
* *
9519193 ATATAATATAGTTATTAAAAAATACATAC
1 ATAT-ATATAG-TATTAAAATATACACAC
9519222 A-ATATATAGTATTAAGAATATACACA-
1 ATATATATAGTATTAA-AATATACACAC
* *
9519248 ATATATATGGTACTAAAATATA
1 ATATATATAGTATTAAAATATA
9519270 GTATTAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 13 0.31
27 26 0.62
28 2 0.05
29 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (27 bp):
ATATATATAGTATTAAAATATACACAC
Found at i:9519476 original size:21 final size:22
Alignment explanation
Indices: 9519446--9519486 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9519436 ATATACACGT
*
9519446 AAACACATATATATA-TATTGA
1 AAACACATATACATAGTATTGA
*
9519467 AAACATATATACATAGTATT
1 AAACACATATACATAGTATT
9519487 AGTATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (22 bp):
AAACACATATACATAGTATTGA
Found at i:9519499 original size:23 final size:22
Alignment explanation
Indices: 9519473--9519517 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9519463 TTGAAAACAT
* *
9519473 ATATACATAGTATTAGTATTTAA
1 ATATACATAATA-TAATATTTAA
*
9519496 ATATATATAATATAATATTTAA
1 ATATACATAATATAATATTTAA
9519518 GAAAAACTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATACATAATATAATATTTAA
Found at i:9519739 original size:19 final size:19
Alignment explanation
Indices: 9519717--9519754 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9519707 ATAATAATGC
9519717 TAATAAATAAT-AAATATAA
1 TAAT-AATAATAAAATATAA
*
9519736 TAATAGTAATAAAATATAA
1 TAATAATAATAAAATATAA
9519755 AAGTATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
TAATAATAATAAAATATAA
Found at i:9521635 original size:14 final size:14
Alignment explanation
Indices: 9521612--9521646 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9521602 TGAGTTGATT
9521612 TTTG-AAAACAAAA
1 TTTGAAAAACAAAA
*
9521625 TTTGAAAAACAAAT
1 TTTGAAAAACAAAA
9521639 TTTGAAAA
1 TTTGAAAA
9521647 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAAAA
Found at i:9521644 original size:88 final size:86
Alignment explanation
Indices: 9521492--9521720 Score: 275
Period size: 88 Copynumber: 2.6 Consensus size: 86
9521482 GTGATCCTGA
* * * *
9521492 GCTCAACTCACTTCTCGCAATATGAGTTGACTCTTTAAAAACAAACATT-AAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAA-ATTGAAAAACAGAAATTGA
* *
9521556 AAATAGCTCAGCACA-TGAGCCAAT
64 AAATACCTC-G-ACAGTGACCCAAT
*
9521580 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTTGAAAAACA-AATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAA-TTGAAAAACAGAA-ATTGA
*
9521644 AAATACCTCGACATGTGACCCGAT
64 AAATACCTCGACA-GTGACCCAAT
*
9521668 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACA-AAATTGAAA
9521721 TTACCTCAGC
Statistics
Matches: 125, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
86 4 0.03
87 17 0.14
88 90 0.72
89 11 0.09
90 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (86 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAAAACAGAAATTGAAA
ATACCTCGACAGTGACCCAAT
Found at i:9521777 original size:75 final size:73
Alignment explanation
Indices: 9521668--9521863 Score: 295
Period size: 75 Copynumber: 2.7 Consensus size: 73
9521658 GTGACCCGAT
* * *
9521668 GCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACCTCAACG
9521732 TGTCTTGAG
65 TGTCTTGAG
* * *
9521741 GCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAAC
9521806 GTGTCTTGAG
64 GTGTCTTGAG
*
9521816 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
9521864 AAAAACATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
73 35 0.32
74 12 0.11
75 64 0.58
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGT
GTCTTGAG
Found at i:9524763 original size:50 final size:50
Alignment explanation
Indices: 9524639--9524887 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
9524629 GATAATAACA
* * ** * *
9524639 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
9524690 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
9524740 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
9524790 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
9524845 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
9524888 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:9524817 original size:100 final size:104
Alignment explanation
Indices: 9524638--9524887 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
9524628 TGATAATAAC
**
9524638 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
9524703 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
9524740 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
9524803 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
9524845 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
9524888 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:9525003 original size:13 final size:13
Alignment explanation
Indices: 9524982--9525013 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9524972 GCTTGGATCA
*
9524982 TCATCAAATAAAT
1 TCATAAAATAAAT
9524995 TCATAAAATAAAT
1 TCATAAAATAAAT
9525008 TCATAA
1 TCATAA
9525014 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9525259 original size:30 final size:30
Alignment explanation
Indices: 9525224--9525281 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9525214 CCTCGACTCT
*
9525224 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
9525254 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
9525282 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:9530159 original size:37 final size:37
Alignment explanation
Indices: 9530106--9530208 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
9530096 CGAATAGTCC
* *
9530106 CCACACGTAGTTATCGGGTCTTACCCGGGCAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
9530143 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
9530180 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
9530209 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:9530412 original size:50 final size:50
Alignment explanation
Indices: 9530358--9530459 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
9530348 CATCTCCTAC
9530358 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
9530408 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
9530458 AT
1 AT
9530460 GCTTTACCAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (50 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:9530464 original size:31 final size:31
Alignment explanation
Indices: 9530429--9530490 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
9530419 TAGCCATTCG
*
9530429 GCTTTACCACATATACATATCTCATATATAT
1 GCTTTACCACATATACATATCTCATACATAT
9530460 GCTTTACCACATATACATATCTCATACATAT
1 GCTTTACCACATATACATATCTCATACATAT
9530491 TTCACATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (31 bp):
GCTTTACCACATATACATATCTCATACATAT
Found at i:9530490 original size:48 final size:46
Alignment explanation
Indices: 9530460--9530733 Score: 201
Period size: 48 Copynumber: 5.4 Consensus size: 46
9530450 TCATATATAT
*
9530460 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
*
9530508 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
* * *
9530556 ACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
* * * * *
9530604 GCTTTAGCCATTCGACTTTACCACATATACATATCTCATAT-ATATT-TCACATTAGCCATTCG
1 GCTTTA-CCA--C-A-TATA-CATATCT-CATA---CATATCACATTAGC-CATT----A---G
*
9530666 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATA--TCACATTAGCCATTAG
9530714 GCTTTACCACATATACATAT
1 GCTTTACCACATATACATAT
9530734 ATATTTATCT
Statistics
Matches: 188, Mismatches: 16, Indels: 44
0.76 0.06 0.18
Matches are distributed among these distances:
48 120 0.64
49 3 0.02
51 1 0.01
52 5 0.03
53 3 0.02
54 7 0.04
55 24 0.13
56 7 0.04
57 3 0.02
58 4 0.02
59 1 0.01
61 3 0.02
62 7 0.04
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (46 bp):
GCTTTACCACATATACATATCTCATACATATCACATTAGCCATTAG
Found at i:9530510 original size:129 final size:127
Alignment explanation
Indices: 9530349--9530586 Score: 413
Period size: 127 Copynumber: 1.9 Consensus size: 127
9530339 ATATACACAC
* *
9530349 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTT
*
9530414 CACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATGCTTTACCACATATACAT
64 CACACTAGCCATTCGACTTTACCACATATACATATCTCATATATATGCTTTACCACATATACAT
*
9530478 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
9530543 CATTAGCCATTCGACTTTACCACATATACATATCTCATATATAT
66 CACTAGCCATTCGACTTTACCACATATACATATCTCATATATAT
9530587 TTCACATTAG
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
127 53 0.51
129 51 0.49
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (127 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGACTTTACCACATATACATATCTCATATATATGCTTTACCACATATACAT
Found at i:9530519 original size:79 final size:80
Alignment explanation
Indices: 9530379--9530538 Score: 277
Period size: 79 Copynumber: 2.0 Consensus size: 80
9530369 TAGCCATTCG
*
9530379 GCTTTACCACATATACATATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 GCTTTACCACATATACATATCTCA-ATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
*
9530444 CATATCTCATATATAT
65 CATATCTCATACATAT
*
9530460 GCTTTACCACATATACATATCTC-ATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GCTTTACCACATATACATATCTCAATACATATTTCACACTAGCCATTCGGCTTTACCACATATAC
9530524 ATATCTCATACATAT
66 ATATCTCATACATAT
9530539 TTCACATTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 53 0.70
81 23 0.30
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (80 bp):
GCTTTACCACATATACATATCTCAATACATATTTCACACTAGCCATTCGGCTTTACCACATATAC
ATATCTCATACATAT
Found at i:9530612 original size:14 final size:14
Alignment explanation
Indices: 9530593--9530623 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9530583 ATATTTCACA
*
9530593 TTAGCCATTCGGCT
1 TTAGCCATTCGACT
9530607 TTAGCCATTCGACT
1 TTAGCCATTCGACT
9530621 TTA
1 TTA
9530624 CCACATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (14 bp):
TTAGCCATTCGACT
Found at i:9530615 original size:62 final size:62
Alignment explanation
Indices: 9530545--9530671 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
9530535 ATATTTCACA
9530545 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
1 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
9530607 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
1 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
9530669 TTA
1 TTA
9530672 CCACATATAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (62 bp):
TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
Found at i:9530617 original size:110 final size:110
Alignment explanation
Indices: 9530497--9530719 Score: 410
Period size: 110 Copynumber: 2.0 Consensus size: 110
9530487 ATATTTCACA
*
9530497 TTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
1 TTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
*
9530562 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCT
66 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
* *
9530607 TTAGCCATTCGACTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
1 TTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
9530672 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
66 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
9530717 TTA
1 TTA
9530720 CCACATATAC
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (110 bp):
TTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGACTTTA
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCT
Found at i:9539886 original size:47 final size:47
Alignment explanation
Indices: 9539820--9540025 Score: 157
Period size: 46 Copynumber: 4.4 Consensus size: 47
9539810 ACCTATATAC
* *
9539820 ATACATATATATATTAAAATATAAACATAATAATAGTATTACAAAGTAT
1 ATACATA-ATAT-TAAAAATATAAACATAATAATAATATTACAAAGTAT
* * * *
9539869 ATATATAATATTAAAAATATATACATAATATATACATATTAGAGA-TA-
1 ATACATAATATTAAAAATATAAACATAATA-ATA-ATATTACAAAGTAT
* * *
9539916 ATA-ATAATATT-AAAA-A-CAAC-TATTAATAATACTACATAAGTAT
1 ATACATAATATTAAAAATATAAACATAATAATAATATTACA-AAGTAT
*
9539959 ACACATATATATT-AAAA-AT-AA-ATACATAATAATATTA-AAAGTAT
1 ATACATA-ATATTAAAAATATAAACATA-ATAATAATATTACAAAGTAT
9540003 ATACATAATATATATAAAATATA
1 ATACATAATAT-TA-AAAATATA
9540026 GTTGTCGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 31
0.73 0.09 0.18
Matches are distributed among these distances:
40 6 0.05
41 4 0.03
42 6 0.05
43 8 0.06
44 17 0.13
45 19 0.15
46 22 0.17
47 22 0.17
48 9 0.07
49 13 0.10
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (47 bp):
ATACATAATATTAAAAATATAAACATAATAATAATATTACAAAGTAT
Found at i:9539983 original size:23 final size:22
Alignment explanation
Indices: 9539961--9540021 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
9539951 ATAAGTATAC
9539961 ACAT-ATATATTAAAAATAAAT
1 ACATAATATATTAAAAATAAAT
* *
9539982 ACATAATAATATTAAAAGTATAT
1 ACATAAT-ATATTAAAAATAAAT
9540005 ACATAATATATATAAAA
1 ACATAATATAT-TAAAA
9540022 TATAGTTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 4 0.11
22 6 0.17
23 25 0.71
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
ACATAATATATTAAAAATAAAT
Found at i:9540011 original size:91 final size:89
Alignment explanation
Indices: 9539850--9540021 Score: 197
Period size: 91 Copynumber: 1.9 Consensus size: 89
9539840 ATAAACATAA
* * * * * **
9539850 TAATAGTATTACAAAGTATATATATAATATTAAAAATATATACATAATATATACATATTAGAGAT
1 TAATAATACTACAAAGTATACACATAATATTAAAAATAAATACATAATATATACATAAAAGAGAT
9539915 AATAATA-ATATTAAAAACAACTAT
66 AATAATATATA-TAAAAACAACTAT
*
9539939 TAATAATACTACATAAGTATACACATATATATTAAAAATAAATACATAATA-ATA-TTAAAAGTA
1 TAATAATACTACA-AAGTATACACATA-ATATTAAAAATAAATACATAATATATACATAAAAG-A
*
9540002 TATACATAATATATATAAAA
63 GATA-ATAATATATATAAAA
9540022 TATAGTTGTC
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
89 15 0.22
90 18 0.26
91 33 0.48
92 3 0.04
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (89 bp):
TAATAATACTACAAAGTATACACATAATATTAAAAATAAATACATAATATATACATAAAAGAGAT
AATAATATATATAAAAACAACTAT
Found at i:9541406 original size:14 final size:14
Alignment explanation
Indices: 9541387--9541416 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9541377 AACACGACAC
9541387 AAAAATAATGGACT
1 AAAAATAATGGACT
*
9541401 AAAAATGATGGACT
1 AAAAATAATGGACT
9541415 AA
1 AA
9541417 CAATCAAGTA
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:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
AAAAATAATGGACT
Found at i:9542028 original size:32 final size:32
Alignment explanation
Indices: 9541983--9542054 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
9541973 AGGTAATAAA
*
9541983 TAAAATAT-TTTAAAGT-AAATA-AATAAAGTT
1 TAAAATATATTTAAAATAAAATATAA-AAAGTT
*
9542013 TAAGAATATATTTAAAATAAAATATAAATAGTT
1 TAA-AATATATTTAAAATAAAATATAAAAAGTT
9542046 TAAAATATA
1 TAAAATATA
9542055 ATTCATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
30 3 0.08
31 5 0.14
32 13 0.36
33 13 0.36
34 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (32 bp):
TAAAATATATTTAAAATAAAATATAAAAAGTT
Found at i:9543729 original size:25 final size:25
Alignment explanation
Indices: 9543680--9543749 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 25
9543670 GGCCCACTAC
9543680 AATAGTTATTAAAAA-ATACATACAATA
1 AATAG-TATTAAAAATATAC--ACAATA
* *
9543707 TATAGTATTAAGAATATACACAATA
1 AATAGTATTAAAAATATACACAATA
*
9543732 AATGGTATTAAAAATATA
1 AATAGTATTAAAAATATA
9543750 GTATTAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 21 0.57
26 8 0.22
27 8 0.22
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (25 bp):
AATAGTATTAAAAATATACACAATA
Found at i:9543975 original size:23 final size:22
Alignment explanation
Indices: 9543949--9543993 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9543939 TTGAAAACAT
* *
9543949 ATATACATAGTATTAGTATTTAA
1 ATATACATAATA-TAATATTTAA
*
9543972 ATATATATAATATAATATTTAA
1 ATATACATAATATAATATTTAA
9543994 GAAAAACTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATACATAATATAATATTTAA
Found at i:9544214 original size:15 final size:15
Alignment explanation
Indices: 9544196--9544235 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
9544186 TAATGCTAAT
9544196 AAATAATA-AATATAA
1 AAATAATAGAA-ATAA
9544211 AAATAATAGAAATAA
1 AAATAATAGAAATAA
9544226 AATATAATAG
1 AA-ATAATAG
9544236 TATACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAATAATAGAAATAA
Found at i:9544854 original size:9 final size:9
Alignment explanation
Indices: 9544840--9544881 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
9544830 AATAAAGTTA
9544840 TTTTTTTAT
1 TTTTTTTAT
9544849 TTTTTTTA-
1 TTTTTTTAT
*
9544857 -TTTTGTAT
1 TTTTTTTAT
9544865 TTTTTTTAT
1 TTTTTTTAT
*
9544874 GTTTTTTA
1 TTTTTTTA
9544882 ATACTCGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 6 0.21
9 22 0.79
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:9544865 original size:16 final size:16
Alignment explanation
Indices: 9544841--9544873 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9544831 ATAAAGTTAT
*
9544841 TTTTTTATTTTTTTTA
1 TTTTGTATTTTTTTTA
9544857 TTTTGTATTTTTTTTA
1 TTTTGTATTTTTTTTA
9544873 T
1 T
9544874 GTTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTGTATTTTTTTTA
Found at i:9553649 original size:46 final size:46
Alignment explanation
Indices: 9553582--9553753 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
9553572 AACCCGCCCC
** * *
9553582 TAAGTGAACTCAAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
9553628 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCA
* * * * *
9553676 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
9553721 TAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
9553754 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 56 0.55
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
Found at i:9553773 original size:46 final size:46
Alignment explanation
Indices: 9553580--9553773 Score: 148
Period size: 46 Copynumber: 4.2 Consensus size: 46
9553570 GTAACCCGCC
** * ** * *
9553580 CCTAAGTGAACTCAAACTCAACTCAACGAGCTCGGGCGTTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
9553625 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * * ***
9553675 -TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTC-ACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
*
9553718 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
9553766 CCT-AGTGA
1 CCTAAGTGA
9553774 CATGTCACTT
Statistics
Matches: 115, Mismatches: 22, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
43 4 0.03
45 5 0.04
46 65 0.57
47 30 0.26
48 8 0.07
50 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:9559961 original size:45 final size:43
Alignment explanation
Indices: 9559910--9560156 Score: 154
Period size: 45 Copynumber: 5.6 Consensus size: 43
9559900 ATCCTGTTTC
9559910 CCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTT
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGAC-ACGAATCTTG-CTT
* * ** * * * * *
9559955 CCTGAAGTTGCAATGAAGCAGATTTAAGTCACTAACCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGAATCTTGCTT
* * * * * **** * *
9559998 CCTAAAGTTGTAGTGGAGTAGGTTAAA-ATTTTAGATCTCGTTT
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGA-ATCTTGCTT
9560041 CCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTT
1 -CCTGAAGTTGCAGTGGAGCAGATCAAAGAC-ACGAATCTTG-CTT
* ** * * * *
9560087 CCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAATCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGAATCTTGCTT
* * * *
9560130 CCTAAAGTTGTAGTGGAGTAGGTCAAA
1 CCTGAAGTTGCAGTGGAGCAGATCAAA
9560157 ATTTTAGATA
Statistics
Matches: 148, Mismatches: 49, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
42 2 0.01
43 49 0.33
44 37 0.25
45 57 0.39
46 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGAGCAGATCAAAGACACGAATCTTGCTT
Found at i:9560059 original size:44 final size:44
Alignment explanation
Indices: 9559996--9560196 Score: 124
Period size: 44 Copynumber: 4.6 Consensus size: 44
9559986 CTAACCTAGC
* * * * * *
9559996 TCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGATCTCGTT
1 TCCCTGAAGTTGCAGTGGAGCAGATCAAAATTCTAGATCTCGTT
* * *
9560040 TCCCTGAAGTTGCAGTGGAGCAGATCAAAGA--CGACGAATCTTGACT
1 TCCCTGAAGTTGCAGTGGAGCAGATCAAA-ATTCTA-G-ATCTCG-TT
* ** * * * *
9560086 T-CCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTA-ATCTAG-C
1 TCCCTGAAGTTGCAGTGGAGCAGATCAAAAT-TCTAGATCTCGTT
* * * * * *
9560128 TCCCTAAAGTTGTAGTGGAGTAGGTCAAAATTTTAGATATCGTT
1 TCCCTGAAGTTGCAGTGGAGCAGATCAAAATTCTAGATCTCGTT
9560172 TCCCTGAAGTTGCAGTGGAGCAGAT
1 TCCCTGAAGTTGCAGTGGAGCAGAT
9560197 TTAAGCCATC
Statistics
Matches: 114, Mismatches: 33, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
42 3 0.03
43 26 0.23
44 51 0.45
45 30 0.26
46 2 0.02
47 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGATCAAAATTCTAGATCTCGTT
Found at i:9560111 original size:132 final size:132
Alignment explanation
Indices: 9559905--9560196 Score: 539
Period size: 132 Copynumber: 2.2 Consensus size: 132
9559895 CACAGATCCT
9559905 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
1 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
* *
9559970 AAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTAAAATTTTAGATC
66 AAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTCAAAATTTTAGATA
9560035 TC
131 TC
* *
9560037 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGACTTCCTGAAGTTGCAGTG
1 GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
*
9560102 AAGCAGATTTAAGTCACTAATCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTCAAAATTTTAGATA
66 AAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTCAAAATTTTAGATA
9560167 TC
131 TC
9560169 GTTTCCCTGAAGTTGCAGTGGAGCAGAT
1 GTTTCCCTGAAGTTGCAGTGGAGCAGAT
9560197 TTAAGCCATC
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 155 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
GTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACAACGAATCTTGACTTCCTGAAGTTGCAATG
AAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTCAAAATTTTAGATA
TC
Found at i:9560197 original size:87 final size:87
Alignment explanation
Indices: 9560087--9560283 Score: 272
Period size: 87 Copynumber: 2.3 Consensus size: 87
9560077 ATCTTGACTT
* * *
9560087 CCTGAAGTTGCAGTGAAGCAGATTTAAGTCA-CTAATCTAGCTCCCTAAAGTTGTAGTGGAGTAG
1 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATC-AACCTAGCTCCCTAAAGTTGTAGTGGAGTAG
9560151 G-TCAAAATTTTAGATATCGTTTC
65 GCT-AAAATTTTAGATATCGTTTC
*
9560174 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * * *
9560239 CTGAAATTTTAGGTCTGGTTTC
66 CTAAAATTTTAGATATCGTTTC
* *
9560261 CCTAAAGTTGTAGTGGAGCAGAT
1 CCTGAAGTTGCAGTGGAGCAGAT
9560284 CAAAGACGAC
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
87 96 0.98
88 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (87 bp):
CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
CTAAAATTTTAGATATCGTTTC
Found at i:9560310 original size:132 final size:132
Alignment explanation
Indices: 9560174--9560415 Score: 371
Period size: 132 Copynumber: 1.8 Consensus size: 132
9560164 ATATCGTTTC
* * *
9560174 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCA-TCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAG
1 CCTGAAGTTGCAATGAAGCAGATTTAAGCCACT-AACCTAGCTCCCTAAAGTTGTAGTGGAGTAG
* * * *
9560238 G-CTGAAATTTTAGGTCTGGTTTCCCTAAAGTTGTAGTGGAGCAGATCAAAGACGACGAATCTTG
65 GTC-AAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTG
9560302 ACTT
129 ACTT
9560306 CCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* *
9560371 TCAAAATTTTAGATCTCGTTTTCCTGAAGTTGCAGTGGAGCAGAT
66 TCAAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGAT
9560416 TTAAGCCATC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
132 97 0.98
133 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
CCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
TCAAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGAC
TT
Found at i:9560348 original size:219 final size:219
Alignment explanation
Indices: 9559955--9560462 Score: 847
Period size: 219 Copynumber: 2.3 Consensus size: 219
9559945 ATCTTGACTT
* * *
9559955 CCTGAAGTTGCAATGAAGCAGATTTAAGTCA-CTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAG
1 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATC-AACCTAGCTCCCTAAAGTTGTAGTGGAGTAG
* * *
9560019 GTTAAAATTTTAGATCTCGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGA
65 GCTGAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGA
* * *
9560084 CTTCCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAATCTAGCTCCCTAAAGTTGTAGTGGAGT
130 CTTCCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGT
9560149 AGGTCAAAATTTTAGATATCGTTTC
195 AGGTCAAAATTTTAGATATCGTTTC
*
9560174 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCACCCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
* * *
9560239 CTGAAATTTTAGGTCTGGTTTCCCTAAAGTTGTAGTGGAGCAGATCAAAGACGACGAATCTTGAC
66 CTGAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGAC
9560304 TTCCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTA
131 TTCCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTA
* *
9560369 GGTCAAAATTTTAGATCTCGTTTT
196 GGTCAAAATTTTAGATATCGTTTC
* *
9560393 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCAGCCTAGCTCCCTAAAATTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
9560458 CTGAA
66 CTGAA
9560463 GAATGCAAGA
Statistics
Matches: 271, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
219 270 1.00
220 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (219 bp):
CCTGAAGTTGCAGTGGAGCAGATTTAAGCCATCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
CTGAAATTTTAGATCTCGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGACGACGAATCTTGAC
TTCCTGAAGTTGCAATGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTA
GGTCAAAATTTTAGATATCGTTTC
Found at i:9560361 original size:88 final size:86
Alignment explanation
Indices: 9560259--9560453 Score: 232
Period size: 87 Copynumber: 2.2 Consensus size: 86
9560249 AGGTCTGGTT
*
9560259 TCCCTAAAGTTGTAGTGGAGCAGATCAAAGA-CGACGAATCTTGACTTCCTGAAGTTGCAATGAA
1 TCCCTAAAGTTGTAGTGGAGCAGATCAAA-ATCGA-G-ATCTCGACTTCCTGAAGTTGCAATGAA
9560323 GCAGATTTAAGCCA-CTAACCTAGC
63 GCAGATTTAAGCCATC-AACCTAGC
* * ** ** * *
9560347 TCCCTAAAGTTGTAGTGGAGTAGGTCAAAATTTTAGATCTCGTTTTCCTGAAGTTGCAGTGGAGC
1 TCCCTAAAGTTGTAGTGGAGCAGATCAAAA-TCGAGATCTCGACTTCCTGAAGTTGCAATGAAGC
*
9560412 AGATTTAAGCCATCAGCCTAGC
65 AGATTTAAGCCATCAACCTAGC
*
9560434 TCCCTAAAATTGTAGTGGAG
1 TCCCTAAAGTTGTAGTGGAG
9560454 TAGGCTGAAG
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
87 63 0.68
88 29 0.31
89 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (86 bp):
TCCCTAAAGTTGTAGTGGAGCAGATCAAAATCGAGATCTCGACTTCCTGAAGTTGCAATGAAGCA
GATTTAAGCCATCAACCTAGC
Found at i:9563576 original size:130 final size:130
Alignment explanation
Indices: 9563327--9563699 Score: 478
Period size: 130 Copynumber: 2.9 Consensus size: 130
9563317 AAAATTCTTC
* * * * *
9563327 AAAACAAAGACGAAATTTGATGTTCGGCAATTCGCGGAATTGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * *
9563392 TTTCGCATTTGCTCAAAATAATTGAATTTCCCTTTGAAATTCCATTCATATCTTTTAAAACCCCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTATCTTTTAAAACCCCT
*
9563457 TAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * *
9563522 TTTCGCATTTGCTCAAAATAATCGAATATCACTTTAAAATTTCACTCGTGTCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTATCTTTTAAAACCCCT
* * * * * * * *
9563587 AAAACGAAGGTGATATCTGGTATTTGGCAATTCGTGGGATCGTGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
9563652 TTTCTCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCG
66 TTTCGC-ATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCG
9563700 GCTCTTCTAA
Statistics
Matches: 212, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
130 211 1.00
131 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
AAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCGAATATCCCTTTAAAATTTCACTCGTATCTTTTAAAACCCCT
Found at i:9577566 original size:18 final size:19
Alignment explanation
Indices: 9577523--9577567 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
9577513 ACACTCTCTG
*
9577523 TTTAAAAAAATATATTAAT
1 TTTAAAAAAATATATAAAT
9577542 TTT-AAAAAATA-A-AAAT
1 TTTAAAAAAATATATAAAT
9577558 TGTTAAAAAA
1 T-TTAAAAAA
9577568 TTATGATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 4 0.17
17 3 0.13
18 13 0.57
19 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTAAAAAAATATATAAAT
Found at i:9577690 original size:27 final size:28
Alignment explanation
Indices: 9577622--9577690 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
9577612 TGGAGGGCAC
*
9577622 GCCAGAGGCGGCA-CAGGTGAAGCCTGT
1 GCCAGAGGCGGCACCAGGTGAAGCCTAT
* *
9577649 GGCAGAGGCGACACCA-GTGAAGCCTAT
1 GCCAGAGGCGGCACCAGGTGAAGCCTAT
*
9577676 GCCATAGGCGGCACC
1 GCCAGAGGCGGCACC
9577691 CACTTCCCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.25, C:0.29, G:0.36, T:0.10
Consensus pattern (28 bp):
GCCAGAGGCGGCACCAGGTGAAGCCTAT
Found at i:9578208 original size:16 final size:17
Alignment explanation
Indices: 9578187--9578224 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
9578177 ATTGAGAAAA
9578187 TTTTTTGGTATTTTATT
1 TTTTTTGGTATTTTATT
9578204 TTTTTTGGTATTTTATT
1 TTTTTTGGTATTTTATT
9578221 TTTT
1 TTTT
9578225 ATAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (17 bp):
TTTTTTGGTATTTTATT
Found at i:9578232 original size:17 final size:17
Alignment explanation
Indices: 9578195--9578235 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9578185 AATTTTTTGG
* **
9578195 TATTTTATTTTTTTTGG
1 TATTTTATTTTTTATAA
9578212 TATTTTATTTTTTATAA
1 TATTTTATTTTTTATAA
9578229 TATTTTA
1 TATTTTA
9578236 ATAAAAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (17 bp):
TATTTTATTTTTTATAA
Found at i:9581570 original size:25 final size:23
Alignment explanation
Indices: 9581524--9581595 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
9581514 GTAAGCATGT
9581524 ATGTACATAT-TA-AATATAAAA
1 ATGTACATATATATAATATAAAA
* *
9581545 ACGTGTACATATATATATTATGAAA
1 A--TGTACATATATATAATATAAAA
*
9581570 ATGTATATATATATAGATATAAAA
1 ATGTACATATATATA-ATATAAAA
9581594 AT
1 AT
9581596 AAAGCTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 1 0.02
23 22 0.54
24 10 0.24
25 8 0.20
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.36
Consensus pattern (23 bp):
ATGTACATATATATAATATAAAA
Found at i:9581671 original size:3 final size:3
Alignment explanation
Indices: 9581633--9581738 Score: 80
Period size: 3 Copynumber: 35.7 Consensus size: 3
9581623 ATGTATTAGT
* *
9581633 ATA ATA GTA ATAA ATA A-A AGA A-A ATA A-A ACTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA
* **
9581678 ATA GTA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA
9581723 ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA AT
9581739 GAGCAAATAA
Statistics
Matches: 84, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
2 12 0.14
3 61 0.73
4 8 0.10
5 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9583431 original size:85 final size:85
Alignment explanation
Indices: 9583241--9583438 Score: 315
Period size: 85 Copynumber: 2.3 Consensus size: 85
9583231 CTTCAGTCTA
* * * * *
9583241 CTCCACTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAAAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAAAGAGATA
9583306 AGATCCTTCATTTTAATCCG
66 AGATCCTTCATTTTAATCCG
* *
9583326 CTTCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAAAGAGATA
*
9583391 AGATCCTTCGTTTTAATCCG
66 AGATCCTTCATTTTAATCCG
*
9583411 CTCCACTGTAATATCAGGGAGATAGGAT
1 CTCCACTGTAATCTCAGGGAGATAGGAT
9583439 TACTATCTTC
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 103 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (85 bp):
CTCCACTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAAAGAGATA
AGATCCTTCATTTTAATCCG
Found at i:9583478 original size:129 final size:129
Alignment explanation
Indices: 9583331--9583614 Score: 559
Period size: 129 Copynumber: 2.2 Consensus size: 129
9583321 ATCCGCTTCA
*
9583331 CTGTAATCTCAGGGAGATAGGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
9583396 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
9583460 CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
9583525 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
9583589 CTGTAATCTCAGGGAGATAAGATCTG
1 CTGTAATCTCAGGGAGATAAGATCTG
9583615 CCATCTTCAA
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 154 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
CTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
Found at i:9583587 original size:44 final size:42
Alignment explanation
Indices: 9583163--9583778 Score: 236
Period size: 44 Copynumber: 14.4 Consensus size: 42
9583153 TTGCAGCAAC
* * * *
9583163 TTCAGGGAGATAGGATTAT-TGGCTTCAATCTGCTCCGCTATAA
1 TTCAGGGAGATAAGATTCTAT--CTTCAATCTGCTCCACTGTAA
* *
9583206 TCTCAGGGAGATAAGA-TCTGAAATTCTTCAGTCTACTCCACTGTAA
1 T-TCAGGGAGATAAGATTCT---A-TCTTCAATCTGCTCCACTGTAA
* * * * * **
9583252 TCTCAGGGAAATAAGA-CCTGA-C-ACGATCTACTCTGCTGTAA
1 T-TCAGGGAGATAAGATTCT-ATCTTCAATCTGCTCCACTGTAA
** * * * *
9583293 CTTCAAAGAGATAAGATCCT-TCATTTTAATCCGCTTCACTGTAA
1 -TTCAGGGAGATAAGATTCTATC--TTCAATCTGCTCCACTGTAA
* ** * * *
9583337 TCTCAGGGAGATAGGA-TCTGA--AACGATCTACTCTACTGTAA
1 T-TCAGGGAGATAAGATTCT-ATCTTCAATCTGCTCCACTGTAA
* * * *
9583378 CTTCAGAGAGATAAGATCCT-TCGTTTTAATCCGCTCCACTGTAA
1 -TTCAGGGAGATAAGATTCTATC--TTCAATCTGCTCCACTGTAA
* *
9583422 TATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAA
1 T-TCAGGGAGATAAGATT-CTATCTTCAATCTGCTCCACTGTAA
** * * *
9583466 TCTCAGGGAGATAAGA-TCTGA--AACGATCTACTCTACTGTAA
1 T-TCAGGGAGATAAGATTCT-ATCTTCAATCTGCTCCACTGTAA
* * * *
9583507 CTTCAGAGAGATAAGATCCT-TCGTTTTAATCCGCTCCACTGTAA
1 -TTCAGGGAGATAAGATTCTATC--TTCAATCTGCTCCACTGTAA
* *
9583551 TATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAA
1 T-TCAGGGAGATAAGATT-CTATCTTCAATCTGCTCCACTGTAA
* *
9583595 TCTCAGGGAGATAAGATCTGCCATCTTCAATGTGCTCCAC--T--
1 T-TCAGGGAGATAAGAT-T-CTATCTTCAATCTGCTCCACTGTAA
** * * *
9583636 TT--GGGAGATAAGA-TCTGA--AACGATCTACTCTACTGTAA
1 TTCAGGGAGATAAGATTCT-ATCTTCAATCTGCTCCACTGTAA
* * * **
9583674 CTTCAGAGAGATAAGATCCTTTAT-TTTAATCCACTCCACTGTAA
1 -TTCAGGGAGATAAGAT--TCTATCTTCAATCTGCTCCACTGTAA
* *
9583718 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAA
1 T-TCAGGGAGATAAGATT-CTATCTTCAATCTGCTCCACTGTAA
9583762 TTTCAGGGAGATAAGAT
1 -TTCAGGGAGATAAGAT
9583779 CTGAAATTCT
Statistics
Matches: 417, Mismatches: 105, Indels: 101
0.67 0.17 0.16
Matches are distributed among these distances:
34 9 0.02
35 1 0.00
36 3 0.01
38 11 0.03
39 2 0.00
40 1 0.00
41 88 0.21
42 14 0.03
43 15 0.04
44 211 0.51
45 23 0.06
46 38 0.09
48 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCAGGGAGATAAGATTCTATCTTCAATCTGCTCCACTGTAA
Found at i:9583662 original size:167 final size:167
Alignment explanation
Indices: 9583471--9583781 Score: 559
Period size: 167 Copynumber: 1.9 Consensus size: 167
9583461 TGTAATCTCA
*
9583471 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCGTTTTAA
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
* * *
9583536 TCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTCAG
66 TCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
9583601 GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
131 GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
*
9583638 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA
1 GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
* *
9583703 TCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATTTCAG
66 TCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
9583768 GGAGATAAGATCTG
131 GGAGATAAGATCTG
9583782 AAATTCTTTG
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
167 137 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (167 bp):
GGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAA
TCCACTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAG
GGAGATAAGATCTGCCATCTTCAATGTGCTCCACTTT
Found at i:9596592 original size:3 final size:3
Alignment explanation
Indices: 9596553--9596662 Score: 86
Period size: 3 Copynumber: 36.7 Consensus size: 3
9596543 ATGTATTAGT
* * *
9596553 ATA ATA GTA ATAA ATA AAA AGA A-A ATA A-A ACTA ATA ATA ATTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA
* **
9596599 ATA GTA ATA ATA ATA ATA ACC ATA ATA ATA ATA AGCTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA
9596645 AT- ATA ATA AT- ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
9596663 GAGCAAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.11
3 66 0.76
4 8 0.09
5 3 0.03
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9602852 original size:13 final size:14
Alignment explanation
Indices: 9602829--9602857 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9602819 GCGGCTCTGC
9602829 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTT
9602843 TTTTTC-TTTTCTT
1 TTTTTCTTTTTCTT
9602856 TT
1 TT
9602858 GTTCATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:9603557 original size:23 final size:24
Alignment explanation
Indices: 9603513--9603557 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
9603503 AAAAATTTAT
* *
9603513 ATTGATTTTACAAAATATTTGAAA
1 ATTGATTTTACAAAAAAGTTGAAA
*
9603537 ATTG-TTTTATAAAAAAGTTGA
1 ATTGATTTTACAAAAAAGTTGA
9603558 TTTCGCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.42
Consensus pattern (24 bp):
ATTGATTTTACAAAAAAGTTGAAA
Found at i:9605655 original size:38 final size:38
Alignment explanation
Indices: 9605598--9605776 Score: 236
Period size: 38 Copynumber: 4.7 Consensus size: 38
9605588 GCACATATAT
* * * *
9605598 TGCCATGGCCCCGCCATGGTCTTTACACTTT-ATCATAA
1 TGCCATAGCCCAGCTATGGTC-TTACACTTTAATCACAA
*
9605636 TGCCATAGCTCAGCTATGGTCTTTACACTTT-ATCACAA
1 TGCCATAGCCCAGCTATGGTC-TTACACTTTAATCACAA
* * *
9605674 TGACATAGCCCAGCTATGGTCTTACACTTTAATTACGA
1 TGCCATAGCCCAGCTATGGTCTTACACTTTAATCACAA
* *
9605712 TGCCATAGCCCAGCTATGGTCTTACACTTTAATTACGA
1 TGCCATAGCCCAGCTATGGTCTTACACTTTAATCACAA
9605750 TGCCATAGCCCAGCTATGGTCTTACAC
1 TGCCATAGCCCAGCTATGGTCTTACAC
9605777 GTACACACAT
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
37 9 0.07
38 121 0.93
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (38 bp):
TGCCATAGCCCAGCTATGGTCTTACACTTTAATCACAA
Found at i:9609016 original size:23 final size:24
Alignment explanation
Indices: 9608988--9609032 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
9608978 ACAAAACAAG
* *
9608988 ATAATATAAAAATTC-ACTCCATT
1 ATAATAAAAAAAATCGACTCCATT
9609011 ATAATAAAAAAAATCGACTCCA
1 ATAATAAAAAAAATCGACTCCA
9609033 CCAAATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAATAAAAAAAATCGACTCCATT
Found at i:9612238 original size:30 final size:28
Alignment explanation
Indices: 9612184--9612256 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
9612174 CATGTTTATA
9612184 ATTTTAATAAGTTTTCTATATTTTT-ATAT
1 ATTTTAATAA-TTTTCTATATTTTTCA-AT
*
9612213 CATTTTAATAATTTTCTAATTTTTTTCAAT
1 -ATTTTAATAATTTTCT-ATATTTTTCAAT
*
9612243 ATTTTAGTAATTTT
1 ATTTTAATAATTTT
9612257 AGGCTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 19 0.49
30 19 0.49
31 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTTTAATAATTTTCTATATTTTTCAAT
Found at i:9612256 original size:29 final size:29
Alignment explanation
Indices: 9612153--9612236 Score: 90
Period size: 28 Copynumber: 3.0 Consensus size: 29
9612143 TAATATATTA
*
9612153 ATAT-ATTTT-ATAATATTT-TATCATGTTT
1 ATATCATTTTAATAAT-TTTCTAT-ATTTTT
9612181 ATA--ATTTTAATAAGTTTTCTATATTTTT
1 ATATCATTTTAATAA-TTTTCTATATTTTT
9612209 ATATCATTTTAATAATTTTCTA-ATTTTT
1 ATATCATTTTAATAATTTTCTATATTTTT
9612237 TTCAATATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
27 5 0.10
28 24 0.48
29 11 0.22
30 10 0.20
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATCATTTTAATAATTTTCTATATTTTT
Found at i:9615885 original size:6 final size:6
Alignment explanation
Indices: 9615874--9615914 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
9615864 TATAATCCCA
*
9615874 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAA TATAA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TATAA
9615915 GGACGAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TATAAT
Found at i:9622300 original size:20 final size:20
Alignment explanation
Indices: 9622272--9622315 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9622262 TTTATTTTGG
*
9622272 ATATTATTGATGAA-TATTTT
1 ATATAATTGAT-AATTATTTT
9622292 ATATAATTGATAATTATTTT
1 ATATAATTGATAATTATTTT
9622312 ATAT
1 ATAT
9622316 TTAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
ATATAATTGATAATTATTTT
Found at i:9623689 original size:3 final size:3
Alignment explanation
Indices: 9623681--9623714 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9623671 TATCACATTA
9623681 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
9623715 TTAATTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:9625442 original size:61 final size:60
Alignment explanation
Indices: 9625376--9625540 Score: 167
Period size: 61 Copynumber: 2.7 Consensus size: 60
9625366 TTGTTATTAA
* *
9625376 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAATAATAACAAATAACTTAATCAT
1 ATTTTAATAAAATTATTATTAAATATAA-TTAATAAAAATAATAACAAATAACTTAATAAC
* * * * * *
9625437 ATTTTAA-AACAATTATTATTAAATAAAATT-AT--ATATAATTATATATAATTTAATAAC
1 ATTTTAATAA-AATTATTATTAAATATAATTAATAAAAATAATAACAAATAACTTAATAAC
* *
9625494 ATTATTAATATAATTATTATTAAAATATGAATTAATAAAAATCATAA
1 ATT-TTAATAAAATTATTATT-AAATAT-AATTAATAAAAATAATAA
9625541 TATATAACAT
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
57 21 0.25
58 14 0.17
59 8 0.10
60 8 0.10
61 26 0.31
63 6 0.07
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (60 bp):
ATTTTAATAAAATTATTATTAAATATAATTAATAAAAATAATAACAAATAACTTAATAAC
Found at i:9629640 original size:46 final size:46
Alignment explanation
Indices: 9629583--9629749 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
9629573 ACACACCGTA
9629583 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
9629629 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
9629682 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
9629728 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
9629750 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:9630881 original size:23 final size:22
Alignment explanation
Indices: 9630814--9630899 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
9630804 CCTGATCAGT
*
9630814 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
9630835 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
9630855 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
9630878 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
9630900 TCAGTATAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
20 10 0.18
21 26 0.46
22 1 0.02
23 19 0.34
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:9630896 original size:44 final size:41
Alignment explanation
Indices: 9630814--9630900 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
9630804 CCTGATCAGT
* * *
9630814 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
*
9630855 ATACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
9630899 AT
1 AT
9630901 CAGTATAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 12 0.31
42 7 0.18
43 2 0.05
44 18 0.46
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ATACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:9631133 original size:27 final size:29
Alignment explanation
Indices: 9631103--9631213 Score: 176
Period size: 29 Copynumber: 4.0 Consensus size: 29
9631093 AACACACCAG
* *
9631103 TATAATCC-TCCAAAACACACCAG-TTCA
1 TATAATCCATCCAAAACACACCAGAATAA
9631130 TATAATCC-TCC-AAACACACCAGAATAA
1 TATAATCCATCCAAAACACACCAGAATAA
9631157 TATAATCCATCCAAAACACACCAGAATAA
1 TATAATCCATCCAAAACACACCAGAATAA
9631186 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCCATCCAAAACACACCAGAATA
9631214 GCACAAAGTG
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
26 11 0.14
27 21 0.27
28 3 0.04
29 44 0.56
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.19
Consensus pattern (29 bp):
TATAATCCATCCAAAACACACCAGAATAA
Found at i:9631213 original size:58 final size:54
Alignment explanation
Indices: 9631103--9631213 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 54
9631093 AACACACCAG
* *
9631103 TATAATCCTCCAAAACACACCAGTTCATATAATCCTCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGATAATATAATCCTCCAAACACACCAGAATAA
9631157 TATAATCCATCCAAAACACACCAGAATAATATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAG-ATAATATAATCC-TCC-AAACACACCAGAATA
9631214 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
54 8 0.16
55 15 0.29
56 10 0.20
57 3 0.06
58 15 0.29
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.19
Consensus pattern (54 bp):
TATAATCCTCCAAAACACACCAGATAATATAATCCTCCAAACACACCAGAATAA
Done.