Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 116 of 295
Found at i:34875922 original size:16 final size:16
Alignment explanation
Indices: 34875901--34875932 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34875891 GGTGTAATTA
34875901 TAACAGGCCTTGAGCC
1 TAACAGGCCTTGAGCC
*
34875917 TAACAGGCTTTGAGCC
1 TAACAGGCCTTGAGCC
34875933 GATGTAACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (16 bp):
TAACAGGCCTTGAGCC
Found at i:34876242 original size:18 final size:19
Alignment explanation
Indices: 34876205--34876242 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
34876195 CGTTTGATTT
*
34876205 AATTTTGTAGGTCCATTGG
1 AATTTTGTACGTCCATTGG
*
34876224 AATTTTG-ACGTCGATTGG
1 AATTTTGTACGTCCATTGG
34876242 A
1 A
34876243 TCTGCTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (19 bp):
AATTTTGTACGTCCATTGG
Found at i:34877332 original size:20 final size:20
Alignment explanation
Indices: 34877307--34877355 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
34877297 CTTCCCTTAA
* *
34877307 ATTATTTTATTTATAATATT
1 ATTATTTTACTTATAAAATT
34877327 ATTATTTTACTTATAAAATT
1 ATTATTTTACTTATAAAATT
34877347 ATTATTTTA
1 ATTATTTTA
34877356 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTTACTTATAAAATT
Found at i:34877365 original size:20 final size:19
Alignment explanation
Indices: 34877307--34877366 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
34877297 CTTCCCTTAA
* *
34877307 ATTATTTTATTTATAATATT
1 ATTATTTTAATAATAA-ATT
* *
34877327 ATTATTTTACTTATAAAATT
1 ATTATTTTAATAAT-AAATT
34877347 ATTATTTTAATAAATAAATT
1 ATTATTTTAAT-AATAAATT
34877367 TCATGTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTATTTTAATAATAAATT
Found at i:34877474 original size:20 final size:19
Alignment explanation
Indices: 34877462--34877502 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
34877452 TTTTTGATGT
34877462 TTTTTTCATTTTTTTAAAG
1 TTTTTTCATTTTTTTAAAG
*
34877481 TTTTTTGATTTTTTTAAA-
1 TTTTTTCATTTTTTTAAAG
34877499 TTTT
1 TTTT
34877503 AAGAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTTCATTTTTTTAAAG
Found at i:34886139 original size:17 final size:16
Alignment explanation
Indices: 34886119--34886154 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
34886109 TTTCGAGCCA
*
34886119 TAAATTTTTTTACAAAT
1 TAAAATTTTTTAC-AAT
34886136 TAAAATTTTTTACAAT
1 TAAAATTTTTTACAAT
34886152 TAA
1 TAA
34886155 TCATAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAAATTTTTTACAAT
Found at i:34887273 original size:42 final size:42
Alignment explanation
Indices: 34887114--34887274 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
34887104 GTACCAATGT
* * * *
34887114 CATATCCCATATATGGTCTTACATGTAATCTCGTATCGTTGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
* *
34887156 CAATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGA-TATGGTCTTACACGTAATCTCATATCGATGC
* * * * *
34887199 CATATGCTAGATATGGTCTTGCACGTAGTCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
*
34887241 CATATCCCAGATATGGTATTACATC-TAATCTCAT
1 CATATCCCAGATATGGTCTTACA-CGTAATCTCAT
34887275 TAGCCCTAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
42 61 0.62
43 37 0.38
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
Found at i:34893331 original size:24 final size:23
Alignment explanation
Indices: 34893240--34893321 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 23
34893230 ATTATTAAAA
*
34893240 ATAATTTAATAATA-AATAATAA
1 ATAATTTAATAATATAATAATAT
* * *
34893262 ATAATTTAATCATAT-TTTA-AT
1 ATAATTTAATAATATAATAATAT
* *
34893283 ATAATTTAATAAAAATAAAAATAT
1 ATAATTTAAT-AATATAATAATAT
34893307 ATAATTTAATAATAT
1 ATAATTTAATAATAT
34893322 TTTTAATATA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
21 11 0.24
22 18 0.39
23 5 0.11
24 12 0.26
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAATTTAATAATATAATAATAT
Found at i:34893390 original size:17 final size:17
Alignment explanation
Indices: 34893368--34893421 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
34893358 AATATTTAAA
34893368 ATATTTTGTATTAAATT
1 ATATTTTGTATTAAATT
*
34893385 ATATTTTGAAATT-AA--
1 ATATTTTG-TATTAAATT
* *
34893400 ATAGTTTATATTAAATT
1 ATATTTTGTATTAAATT
34893417 ATATT
1 ATATT
34893422 AAAATATTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.11
15 8 0.29
17 14 0.50
18 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
ATATTTTGTATTAAATT
Found at i:34893442 original size:34 final size:33
Alignment explanation
Indices: 34893334--34893442 Score: 114
Period size: 32 Copynumber: 3.2 Consensus size: 33
34893324 TTAATATAAT
* *
34893334 TATTTTCATAGTAAATTATTTTAAAATATTTAAAA
1 TATTTT-ATATTAAATTATATTAAAATATTT-AAA
* **
34893369 TATTTTGTATTAAATTATATTTTGAA-A-TTAAA
1 TATTTTATATTAAATTATA-TTAAAATATTTAAA
*
34893401 TAGTTTATATTAAATTATATTAAAATATTTCAAA
1 TATTTTATATTAAATTATATTAAAATATTT-AAA
34893435 TATTTTAT
1 TATTTTAT
34893443 TTTTATATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
31 4 0.07
32 21 0.35
33 4 0.07
34 21 0.35
35 10 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (33 bp):
TATTTTATATTAAATTATATTAAAATATTTAAA
Found at i:34901507 original size:21 final size:20
Alignment explanation
Indices: 34901474--34901512 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34901464 TTTGAAGCAC
34901474 ATTTATTCACAAAATTTCAGA
1 ATTTATTCAC-AAATTTCAGA
34901495 ATTT-TTCATCAAATTTCA
1 ATTTATTCA-CAAATTTCA
34901513 CAAATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTATTCACAAATTTCAGA
Found at i:34912476 original size:30 final size:28
Alignment explanation
Indices: 34912437--34912498 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
34912427 ATGGATTTAA
34912437 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
34912467 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
34912495 ATTA
1 ATTA
34912499 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:34913851 original size:39 final size:39
Alignment explanation
Indices: 34913806--34913945 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
34913796 AAACTATTGC
*
34913806 ACTGAATAATTGATAGTTACTGAATAACTAAATTCCTGT
1 ACTGAATAATTGATAGTTACTGAATAACTAAATTACTGT
* * * *
34913845 ATTGAATAATTGATAGTTATTGAATAACTAAACTACTGC
1 ACTGAATAATTGATAGTTACTGAATAACTAAATTACTGT
* * * *
34913884 ACTGCACATTTGATAGTTACTGAATGACTAAATTACTGT
1 ACTGAATAATTGATAGTTACTGAATAACTAAATTACTGT
*
34913923 ACTGAATAATTGATTGTTACTGA
1 ACTGAATAATTGATAGTTACTGA
34913946 TTAAATATGA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (39 bp):
ACTGAATAATTGATAGTTACTGAATAACTAAATTACTGT
Found at i:34913885 original size:78 final size:78
Alignment explanation
Indices: 34913795--34913941 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 78
34913785 TTAATAGGGG
* * * *
34913795 TAAACTATTGCACTGAATAATTGATAGTTACTGAATAACTAAATTCCTGTATTGAATAATTGATA
1 TAAACTACTGCACTGAACAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
34913860 GTTATTGAATAAC
66 GTTATTGAATAAC
* * * *
34913873 TAAACTACTGCACTGCACATTTGATAGTTACTGAATGACTAAATTACTGTACTGAATAATTGATT
1 TAAACTACTGCACTGAACAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
34913938 GTTA
66 GTTA
34913942 CTGATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (78 bp):
TAAACTACTGCACTGAACAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
GTTATTGAATAAC
Found at i:34920182 original size:13 final size:13
Alignment explanation
Indices: 34920164--34920192 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34920154 GGTTGTTTAT
34920164 TAAACTAATTAAC
1 TAAACTAATTAAC
34920177 TAAACTAATTAAC
1 TAAACTAATTAAC
34920190 TAA
1 TAA
34920193 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:34926304 original size:38 final size:38
Alignment explanation
Indices: 34926281--34926451 Score: 256
Period size: 38 Copynumber: 4.5 Consensus size: 38
34926271 GCAGGCTATA
34926281 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
34926319 CGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
34926357 TGCTGGTAA-TATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
34926395 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
34926433 TGCTGGTATTATATTCGGG
1 TGCTGGAATTATATCCGGG
34926452 CCTTTGAGCC
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
37 1 0.01
38 121 0.98
39 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:34926495 original size:45 final size:45
Alignment explanation
Indices: 34926444--34926569 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 45
34926434 GCTGGTATTA
* *
34926444 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* ** *
34926489 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCTAGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
34926534 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCG
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCG
34926570 ATGAAATGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 4 0.06
45 67 0.94
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:34927539 original size:6 final size:6
Alignment explanation
Indices: 34927530--34927556 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34927520 AATAAAATTG
34927530 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
34927557 AGATGGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:34933006 original size:13 final size:13
Alignment explanation
Indices: 34932988--34933016 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
34932978 GGTTTTTTAT
34932988 TAAACTAATTAAC
1 TAAACTAATTAAC
34933001 TAAACTAATTAAC
1 TAAACTAATTAAC
34933014 TAA
1 TAA
34933017 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:34933575 original size:15 final size:15
Alignment explanation
Indices: 34933553--34933591 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
34933543 AATATTATTA
34933553 AATT-ATTTTTAATT
1 AATTAATTTTTAATT
*
34933567 AATTAATTTCTAATT
1 AATTAATTTTTAATT
*
34933582 AAATAATTTT
1 AATTAATTTT
34933592 CTGAACTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTAATTTTTAATT
Found at i:34952270 original size:23 final size:24
Alignment explanation
Indices: 34952223--34952270 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34952213 AGCAAAATCC
* *
34952223 TATCCATCTAGCCTCTACACACCA
1 TATCCATCCAACCTCTACACACCA
*
34952247 TATCCATCCAACC-CTACACTCCA
1 TATCCATCCAACCTCTACACACCA
34952270 T
1 T
34952271 GTAGGGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.29, C:0.44, G:0.02, T:0.25
Consensus pattern (24 bp):
TATCCATCCAACCTCTACACACCA
Found at i:34961032 original size:39 final size:39
Alignment explanation
Indices: 34960988--34961210 Score: 331
Period size: 39 Copynumber: 5.7 Consensus size: 39
34960978 GACTTTATAA
** * *
34960988 TGGTGTTATATCTAGGCTAAGTCCTGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
34961027 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
34961066 TGGTGTTATATCCGAGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
34961105 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
34961144 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
34961183 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
34961211 CATGCTTTGT
Statistics
Matches: 173, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 151 0.87
40 22 0.13
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:34975866 original size:2 final size:2
Alignment explanation
Indices: 34975861--34975891 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
34975851 TCTCTCTCTC
*
34975861 TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34975892 TTTAAATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:34975905 original size:18 final size:18
Alignment explanation
Indices: 34975862--34975898 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34975852 CTCTCTCTCT
*
34975862 ATATATATATATTTATAT
1 ATATATATATATTTATAA
34975880 ATATATATATATTT-TAA
1 ATATATATATATTTATAA
34975897 AT
1 AT
34975899 GTCATATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATATATATTTATAA
Found at i:34980935 original size:35 final size:35
Alignment explanation
Indices: 34980889--34980960 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
34980879 ATTCTAGTTA
34980889 GTCACATCTAAGTCTCTATCTTCTAGGAGTCATCC
1 GTCACATCTAAGTCTCTATCTTCTAGGAGTCATCC
34980924 GTCACATCTAAGTCTCTATCTTCTAGGAGTCATCC
1 GTCACATCTAAGTCTCTATCTTCTAGGAGTCATCC
34980959 GT
1 GT
34980961 TCCAATGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (35 bp):
GTCACATCTAAGTCTCTATCTTCTAGGAGTCATCC
Found at i:34981836 original size:41 final size:41
Alignment explanation
Indices: 34981791--34981869 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
34981781 TGTAATACAA
34981791 AAAAGACAACTTATATTAGTAGACAAACCTAAACATATCCT
1 AAAAGACAACTTATATTAGTAGACAAACCTAAACATATCCT
**
34981832 AAAAGACAACTTATATTAGTAGATGAACCTAAACATAT
1 AAAAGACAACTTATATTAGTAGACAAACCTAAACATAT
34981870 ACTTAGTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.25
Consensus pattern (41 bp):
AAAAGACAACTTATATTAGTAGACAAACCTAAACATATCCT
Found at i:34983978 original size:25 final size:26
Alignment explanation
Indices: 34983941--34983993 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
34983931 TCAAACATGC
34983941 ATTTAGGTCAATTTAACC-CTAGGGGT
1 ATTTAGGTCAATTT-ACCACTAGGGGT
*
34983967 ATTTTGGT-AATTTACCTACTAGGGGT
1 ATTTAGGTCAATTTACC-ACTAGGGGT
34983993 A
1 A
34983994 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTACCACTAGGGGT
Found at i:34995692 original size:93 final size:93
Alignment explanation
Indices: 34995544--34995715 Score: 215
Period size: 93 Copynumber: 1.8 Consensus size: 93
34995534 AGTGAGAGCC
* * * * *
34995544 AGTGTAAGACCTGTCTGGGATATGACATTGGACTCAAGATATGCAAGCTAGTGTAAGACCTATCT
1 AGTGTAAGACCTGTCTGGGACATGACATTCGACACAAGATATGCAAGCCAATGTAAGACCTATCT
34995609 AGGACATGGCATCGGCTTGAGGTTTGTT
66 AGGACATGGCATCGGCTTGAGGTTTGTT
* *
34995637 AGTGTAAGACCTGTCTGGGACATGGCA-TCGACAC-AGATAAGTG-AGAGCCAATGTAAGACCTG
1 AGTGTAAGACCTGTCTGGGACATGACATTCGACACAAGAT-A-TGCA-AGCCAATGTAAGACCTA
* *
34995699 TTTGGGACATGGCATCG
63 TCTAGGACATGGCATCG
34995716 ACTTAGATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
91 4 0.06
92 7 0.10
93 56 0.84
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACCTGTCTGGGACATGACATTCGACACAAGATATGCAAGCCAATGTAAGACCTATCT
AGGACATGGCATCGGCTTGAGGTTTGTT
Found at i:34995705 original size:49 final size:47
Alignment explanation
Indices: 34995639--34995763 Score: 169
Period size: 49 Copynumber: 2.6 Consensus size: 47
34995629 GGTTTGTTAG
*
34995639 TGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAGTGAGAGCCAA
1 TGTAAGACCTGTTTGGGACATGGCATCGACACAGAT-A-TGAGAGCCAA
** *
34995688 TGTAAGACCTGTTTGGGACATGGCATCGACTTAGATATGAGAGCCAG
1 TGTAAGACCTGTTTGGGACATGGCATCGACACAGATATGAGAGCCAA
* *
34995735 TGTAAGACTATGTTTGGAACATGGCATCG
1 TGTAAGAC-CTGTTTGGGACATGGCATCG
34995764 GCATCGTACC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
47 17 0.25
48 19 0.28
49 33 0.48
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TGTAAGACCTGTTTGGGACATGGCATCGACACAGATATGAGAGCCAA
Found at i:34996937 original size:28 final size:28
Alignment explanation
Indices: 34996869--34996937 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
34996859 GCACGGGCTG
*
34996869 AGACACGAG-CATGTCGTGGCCGTGTGAG
1 AGACAC-AGCCATGTCGTGGCCGTGTGAA
* * * *
34996897 GGACTCGGGCATGTCGTGGCCGTGTGAA
1 AGACACAGCCATGTCGTGGCCGTGTGAA
*
34996925 AGCCACAGCCATG
1 AGACACAGCCATG
34996938 GACATGGGCG
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.17
Consensus pattern (28 bp):
AGACACAGCCATGTCGTGGCCGTGTGAA
Found at i:34997502 original size:25 final size:25
Alignment explanation
Indices: 34997468--34997515 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
34997458 TTAATTATGG
34997468 ATTAGTGCTTGATTATGGAAGATGA
1 ATTAGTGCTTGATTATGGAAGATGA
34997493 ATTAGTGCTTGATTATGGAAGAT
1 ATTAGTGCTTGATTATGGAAGAT
34997516 TCCACTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (25 bp):
ATTAGTGCTTGATTATGGAAGATGA
Found at i:34999935 original size:27 final size:27
Alignment explanation
Indices: 34999882--35000007 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 27
34999872 GAATCAATCA
* * * **
34999882 CCTTTGTGACATACTTTGTATATATCG
1 CCTTTGTGGCGTACTCTGTATGGATCG
* * *
34999909 TCTTTGTAGCGTACTCTGCATGGATCG
1 CCTTTGTGGCGTACTCTGTATGGATCG
* *
34999936 CCTTTATGGCGTACTCTGTATGGATCA
1 CCTTTGTGGCGTACTCTGTATGGATCG
* *
34999963 CCTTTGTGGCATACTCTATATGGATCG
1 CCTTTGTGGCGTACTCTGTATGGATCG
**
34999990 ATTTTGTGGCGTACTCTG
1 CCTTTGTGGCGTACTCTG
35000008 ATTAGATAGT
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (27 bp):
CCTTTGTGGCGTACTCTGTATGGATCG
Found at i:35000021 original size:27 final size:27
Alignment explanation
Indices: 34999965--35000021 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
34999955 ATGGATCACC
* *
34999965 TTTGTGGCATACTCTATATGGATCGAT
1 TTTGTGGCATACTCTATATAGATAGAT
* *
34999992 TTTGTGGCGTACTCTGAT-TAGATAGTT
1 TTTGTGGCATACTCT-ATATAGATAGAT
35000019 TTT
1 TTT
35000022 TAGTGTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.19, C:0.12, G:0.23, T:0.46
Consensus pattern (27 bp):
TTTGTGGCATACTCTATATAGATAGAT
Found at i:35005612 original size:56 final size:56
Alignment explanation
Indices: 35005526--35005645 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
35005516 ACAAGGGATG
35005526 ATGGGCAAAACATATCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATATCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
35005582 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATATCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35005638 ATGGGCAA
1 ATGGGCAA
35005646 TGAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATATCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35006984 original size:80 final size:80
Alignment explanation
Indices: 35006771--35006995 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
35006761 TCGAATGATG
* * * * *
35006771 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
35006834 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
35006851 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
*
35006913 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
35006930 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
35006995 G
66 G
35006996 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 61 0.48
80 59 0.46
81 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:35007002 original size:40 final size:40
Alignment explanation
Indices: 35006771--35006995 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
35006761 TCGAATGATG
* * * *
35006771 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35006811 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35006851 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
*
35006890 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35006930 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35006971 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35006996 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 3 0.02
39 31 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35007017 original size:119 final size:119
Alignment explanation
Indices: 35006771--35007028 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 119
35006761 TCGAATGATG
* *
35006771 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
35006836 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGATACGAGTTACTAAA
* * * **
35006890 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
35006953 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGA-ACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCA-TTGATACGAGTTA-CTAAA
* *
35007010 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35007029 TACGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 28 0.24
121 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGATACGAGTTACTAAA
Found at i:35012905 original size:56 final size:56
Alignment explanation
Indices: 35012819--35012938 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35012809 ACAAGGGATG
35012819 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35012875 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35012931 ATGGGCAA
1 ATGGGCAA
35012939 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35014337 original size:80 final size:79
Alignment explanation
Indices: 35014067--35014363 Score: 336
Period size: 80 Copynumber: 3.7 Consensus size: 79
35014057 CGAATGATGT
* * * * * ** *
35014067 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CTGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* *
35014130 TGTGCGAGATACTAATT
64 TGTGCGAGTTACTAA-A
35014147 CCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
35014210 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* *
35014225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
35014290 GTGCGAGTTACTATAA
65 GTGCGAGTTACTA-AA
* * * * *
35014306 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
35014364 TATGTGATTT
Statistics
Matches: 190, Mismatches: 19, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 77 0.41
80 107 0.56
81 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:35014337 original size:120 final size:118
Alignment explanation
Indices: 35014121--35014363 Score: 330
Period size: 120 Copynumber: 2.0 Consensus size: 118
35014111 ACTAAGATCT
*
35014121 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAAT
* ** *
35014186 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCC
66 CCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATCCC
* *
35014240 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAT
1 GAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTA-
* * *
35014304 AA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCC
63 AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCC
35014359 GAAGG
1 GAAGG
35014364 TATGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
119 49 0.45
120 56 0.51
121 5 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (118 bp):
GAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGATGCGAGTTACTAAAT
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCC
Found at i:35014344 original size:40 final size:40
Alignment explanation
Indices: 35014066--35014330 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
35014056 TCGAATGATG
* * * * *
35014066 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
35014106 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35014146 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
35014185 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
35014225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
35014265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
35014306 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
35014331 AACGAGTAGC
Statistics
Matches: 203, Mismatches: 15, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.01
39 30 0.15
40 157 0.77
41 13 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35018566 original size:17 final size:20
Alignment explanation
Indices: 35018529--35018570 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
35018519 TGATTAGCAA
35018529 GGAAAGAAAGAAGGAAAAAG
1 GGAAAGAAAGAAGGAAAAAG
35018549 GGAAAGAAA-AA-G-AAAAG
1 GGAAAGAAAGAAGGAAAAAG
35018566 GGAAA
1 GGAAA
35018571 ATTAGGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
18 1 0.05
19 2 0.09
20 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GGAAAGAAAGAAGGAAAAAG
Found at i:35019414 original size:6 final size:6
Alignment explanation
Indices: 35019405--35019430 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35019395 CCTGACTATG
35019405 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
35019431 CCTACAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:35026410 original size:18 final size:18
Alignment explanation
Indices: 35026374--35026525 Score: 193
Period size: 18 Copynumber: 8.5 Consensus size: 18
35026364 AATCATATCT
*
35026374 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
35026393 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
**
35026411 TCTAAGATTG-TGTCATA
1 TCTAAGATTGCAATCATA
35026428 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
35026446 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
35026463 ACTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
35026481 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
* *
35026498 TCTAAGATTCCATATCACA
1 TCTAAGATTGCA-ATCATA
35026517 TCTAAGATT
1 TCTAAGATT
35026526 ACATATCATT
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
17 45 0.39
18 46 0.40
19 25 0.22
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:35026433 original size:35 final size:35
Alignment explanation
Indices: 35026374--35026525 Score: 241
Period size: 35 Copynumber: 4.3 Consensus size: 35
35026364 AATCATATCT
35026374 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
35026411 TCTAAGATTGTGTCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
35026446 TCTAAGATTGTATCATAACTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
35026481 TCTAAGATTGTATCATATCTAAGATTCCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
35026517 TCTAAGATT
1 TCTAAGATT
35026526 ACATATCATT
Statistics
Matches: 108, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
35 84 0.78
36 14 0.13
37 10 0.09
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:35033196 original size:31 final size:31
Alignment explanation
Indices: 35033158--35033217 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
35033148 AAGTTTAAGT
35033158 TAGTGGAAAGTAAGAGAGGCCAATGATCCAA
1 TAGTGGAAAGTAAGAGAGGCCAATGATCCAA
35033189 TAGTGGAAAGTAAGAGAGGCCAATGATCC
1 TAGTGGAAAGTAAGAGAGGCCAATGATCC
35033218 GACTTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (31 bp):
TAGTGGAAAGTAAGAGAGGCCAATGATCCAA
Found at i:35035089 original size:42 final size:42
Alignment explanation
Indices: 35035030--35035118 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
35035020 AGGCGAGTCT
*
35035030 CTGTTCGCTTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
1 CTGTTCGCCTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
*
35035072 CTGTTCGCCTCAACCGTAGACTCATAAGTTTTGAATTTACAA
1 CTGTTCGCCTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
*
35035114 ATGTT
1 CTGTT
35035119 GTCAACGTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (42 bp):
CTGTTCGCCTCAACCGTAGACTCAGAAGTTTTGAATTTACAA
Found at i:35049787 original size:42 final size:42
Alignment explanation
Indices: 35049740--35049824 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
35049730 GTTAGACAAA
35049740 TGCAAATTTAATTACGTCAAGGCCTTTCGATCTTTACGCTTC
1 TGCAAATTTAATTACGTCAAGGCCTTTCGATCTTTACGCTTC
35049782 TGCAAATTTAATTACGTCAAGGCCTTTCGATCTTTACGCTTC
1 TGCAAATTTAATTACGTCAAGGCCTTTCGATCTTTACGCTTC
35049824 T
1 T
35049825 TCTCTTCATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (42 bp):
TGCAAATTTAATTACGTCAAGGCCTTTCGATCTTTACGCTTC
Found at i:35053911 original size:11 final size:11
Alignment explanation
Indices: 35053892--35053921 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35053882 CCTTTATGGA
*
35053892 ATAAATATCAC
1 ATAATTATCAC
35053903 ATAATTATCAC
1 ATAATTATCAC
35053914 ATAATTAT
1 ATAATTAT
35053922 TGCAATCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATTATCAC
Found at i:35058407 original size:31 final size:31
Alignment explanation
Indices: 35058372--35058446 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
35058362 ATTTATTTAA
*
35058372 ATGTATATGATTGAATCAAAATTAAAGTTTT
1 ATGTATATGATTGAATCAAAATTAAAATTTT
* * *
35058403 ATGTATACGTTTGAATCACAATTAAAATTTT
1 ATGTATATGATTGAATCAAAATTAAAATTTT
* *
35058434 ATGTGTATAATTG
1 ATGTATATGATTG
35058447 CACCAAATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (31 bp):
ATGTATATGATTGAATCAAAATTAAAATTTT
Found at i:35059137 original size:20 final size:20
Alignment explanation
Indices: 35059114--35059153 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35059104 AAATTTAACT
35059114 AATTAAAAAAAATAAAAGTA
1 AATTAAAAAAAATAAAAGTA
***
35059134 AATTCTTAAAAATAAAAGTA
1 AATTAAAAAAAATAAAAGTA
35059154 TAATAACTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (20 bp):
AATTAAAAAAAATAAAAGTA
Found at i:35065119 original size:64 final size:65
Alignment explanation
Indices: 35065040--35065176 Score: 163
Period size: 65 Copynumber: 2.1 Consensus size: 65
35065030 ATAGAACTGG
* *
35065040 TGAAAATGGAAAAATGGGAAAT-ATTAGGAAATGATTATGG-TTCTCTCT-AAAATGAAAATTAA
1 TGAAAATGGAAAAAT-GG-AATCATTAGGAAATGAATATGGTTTCTCTCTCAAAATGAAAATGAA
35065102 AA
64 AA
* * * * * *
35065104 TGAAAATGGAGAAATGGAATCATTTGGAAATGAATGTGGTTTTTTTTTCAAAATGAAAATGAAAA
1 TGAAAATGGAAAAATGGAATCATTAGGAAATGAATATGGTTTCTCTCTCAAAATGAAAATGAAAA
35065169 TGAAAATG
1 TGAAAATG
35065177 ACCTAGAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
62 3 0.05
63 17 0.27
64 19 0.31
65 23 0.37
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (65 bp):
TGAAAATGGAAAAATGGAATCATTAGGAAATGAATATGGTTTCTCTCTCAAAATGAAAATGAAAA
Found at i:35065164 original size:6 final size:6
Alignment explanation
Indices: 35065153--35065177 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35065143 TTTTTTTTTC
35065153 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
35065178 CCTAGAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:35065188 original size:17 final size:18
Alignment explanation
Indices: 35065166--35065207 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
35065156 ATGAAAATGA
35065166 AAATGAAAA-TGACCTAG
1 AAATGAAAACTGACCTAG
35065183 AAATGAAAACTGACCTAG
1 AAATGAAAACTGACCTAG
35065201 AAATGAA
1 AAATGAA
35065208 TCTATGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.17
Consensus pattern (18 bp):
AAATGAAAACTGACCTAG
Found at i:35068751 original size:17 final size:18
Alignment explanation
Indices: 35068714--35068748 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35068704 TAAAATTTAA
*
35068714 ATAAAATTTTTAATTTTT
1 ATAAAATTTTCAATTTTT
35068732 ATAAAATTTTCAATTTT
1 ATAAAATTTTCAATTTT
35068749 ATATTATTTT
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAAAATTTTCAATTTTT
Found at i:35069220 original size:21 final size:21
Alignment explanation
Indices: 35069196--35069237 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
35069186 GAACATCACC
35069196 CTGTTCAAAAATGTAAACACA
1 CTGTTCAAAAATGTAAACACA
35069217 CTGTTCAAAAATGTAAACACA
1 CTGTTCAAAAATGTAAACACA
35069238 GAAATGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.24
Consensus pattern (21 bp):
CTGTTCAAAAATGTAAACACA
Found at i:35073058 original size:16 final size:17
Alignment explanation
Indices: 35073012--35073059 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
35073002 AAATTAACCA
35073012 AAACCCCTAGCCCAACT
1 AAACCCCTAGCCCAACT
*
35073029 AAACCCCTAACCCAACT
1 AAACCCCTAGCCCAACT
35073046 AAA-CCCTAGCCCAA
1 AAACCCCTAGCCCAA
35073060 AACAAATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.40, C:0.46, G:0.04, T:0.10
Consensus pattern (17 bp):
AAACCCCTAGCCCAACT
Found at i:35073456 original size:16 final size:16
Alignment explanation
Indices: 35073435--35073465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35073425 CCCGAATTTG
*
35073435 TTTCTTTTTTCTTTTA
1 TTTCTTCTTTCTTTTA
35073451 TTTCTTCTTTCTTTT
1 TTTCTTCTTTCTTTT
35073466 CTATTCAAAT
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:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTCTTTCTTTTA
Found at i:35074323 original size:3 final size:3
Alignment explanation
Indices: 35074305--35074542 Score: 96
Period size: 3 Copynumber: 81.3 Consensus size: 3
35074295 TTTAACACCA
* * * *
35074305 TAT TAT ATAC TAT TAT TAT T-G TAT CTAT TTT TAT TAC TAT T-T TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * * *
35074350 CTAT TCT TTT TA- TAT TAG TAT TAT CAT CAT TAT TAT CAT TAT TA-
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
35074394 TAT TAT TAT TAT TA- TAT TA- TAT GTAG TAT TAT CT-T TAA TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT
* *
35074437 TAT T-T CTAT TAT TA- TATT TAT TAT TAT CTAT TAC T-T TAT TTT TAT
1 TAT TAT -TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * *
35074482 TTT TAT T-T TAA TAC TAT TA- TAT TA- TAT TCACCT T-T TA- TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-A--T TAT TAT TAT TAT
35074525 TAT TAT TAT TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
35074543 TTCATTACCA
Statistics
Matches: 175, Mismatches: 32, Indels: 56
0.67 0.12 0.21
Matches are distributed among these distances:
2 30 0.17
3 125 0.71
4 18 0.10
6 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:35074365 original size:26 final size:28
Alignment explanation
Indices: 35074307--35074408 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 28
35074297 TAACACCATA
*
35074307 TTATA-TACTATTATTATTGTATCTATT
1 TTATATTACTATTATTATTATATCTATT
35074334 TT-TATTACTATT-TTATCTAT-TCT-TT
1 TTATATTACTATTATTAT-TATATCTATT
*
35074359 TTATATTAGTATTATCATCATTATTATC-ATT
1 TTATATTACTATTAT--T-ATTA-TATCTATT
*
35074390 ATTATATTATTATTATTAT
1 -TTATATTACTATTATTAT
35074409 ATTATATGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
25 4 0.07
26 18 0.30
27 12 0.20
29 5 0.08
30 4 0.07
31 4 0.07
32 14 0.23
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATATTACTATTATTATTATATCTATT
Found at i:35074423 original size:26 final size:25
Alignment explanation
Indices: 35074359--35074460 Score: 81
Period size: 26 Copynumber: 4.2 Consensus size: 25
35074349 TCTATTCTTT
* *
35074359 TTATATTAGTATTATCATCATTATTA
1 TTATATTAGTATTATTATTATTA-TA
*
35074385 TCATTATTA-TATTATTATTATTATA
1 TTA-TATTAGTATTATTATTATTATA
35074410 TTATATGTAGTATTATCT-TTA--ATA
1 TTATAT-TAGTATTAT-TATTATTATA
**
35074434 TTATATTTCTATTATTA-TATT-TA
1 TTATATTAGTATTATTATTATTATA
35074457 TTAT
1 TTAT
35074461 TATCTATTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
22 3 0.05
23 13 0.21
24 12 0.19
25 6 0.10
26 23 0.37
27 6 0.10
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (25 bp):
TTATATTAGTATTATTATTATTATA
Found at i:35074435 original size:38 final size:40
Alignment explanation
Indices: 35074380--35074488 Score: 104
Period size: 38 Copynumber: 2.8 Consensus size: 40
35074370 TTATCATCAT
35074380 TATTATC-ATTATTATATTATTATTATTA-TATTATATGTAG
1 TATTATCTATTA--ATATTATTATTATTATTATTATATGTAG
* *
35074420 TATTATCT-TTAATATTA-TATT-TCTATTATTATATTTAT
1 TATTATCTATTAATATTATTATTAT-TATTATTATATGTAG
* * *
35074458 TATTATCTATTACT-TTATTTTTATTTTTATT
1 TATTATCTATTAATATTATTATTATTATTATT
35074489 TTAATACTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
36 1 0.02
37 6 0.10
38 27 0.47
39 13 0.22
40 11 0.19
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (40 bp):
TATTATCTATTAATATTATTATTATTATTATTATATGTAG
Found at i:35074461 original size:26 final size:29
Alignment explanation
Indices: 35074387--35074463 Score: 51
Period size: 32 Copynumber: 2.7 Consensus size: 29
35074377 CATTATTATC
35074387 ATTATTATA-TTATTA-T-TATTATAT-T
1 ATTATTATATTTATTATTATATTATATCT
35074412 A-TATGTAGTA-TTATCT-TTAATATTATATTTCT
1 ATTAT-TA-TATTTAT-TATT-ATATTATA--TCT
35074444 ATTATTATATTTATTATTAT
1 ATTATTATATTTATTATTAT
35074464 CTATTACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 18
0.69 0.00 0.31
Matches are distributed among these distances:
24 3 0.08
25 3 0.08
26 6 0.15
27 2 0.05
29 7 0.17
31 6 0.15
32 10 0.25
33 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
ATTATTATATTTATTATTATATTATATCT
Found at i:35075048 original size:11 final size:11
Alignment explanation
Indices: 35075028--35075056 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
35075018 TAATATCTAT
35075028 TATATA-TATG
1 TATATATTATG
35075038 TATATATTATG
1 TATATATTATG
35075049 TATATATT
1 TATATATT
35075057 TTAACATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:35075130 original size:23 final size:24
Alignment explanation
Indices: 35075082--35075134 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
35075072 ATATATTTTT
35075082 ACTATCTTATGTATATACTTCAAAC
1 ACTATCTTATGTATATA-TTCAAAC
*
35075107 ACTATC-TATAGTATAT-TTCTAAC
1 ACTATCTTAT-GTATATATTCAAAC
35075130 ACTAT
1 ACTAT
35075135 TACTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.42
24 3 0.12
25 12 0.46
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.42
Consensus pattern (24 bp):
ACTATCTTATGTATATATTCAAAC
Found at i:35076615 original size:16 final size:16
Alignment explanation
Indices: 35076596--35076630 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
35076586 AAAATATGAT
35076596 GAAAAGAAAAGGGGAA
1 GAAAAGAAAAGGGGAA
*
35076612 GAAAAGAAAGGGGGAA
1 GAAAAGAAAAGGGGAA
35076628 GAA
1 GAA
35076631 TAAAAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAGGGGAA
Found at i:35077826 original size:22 final size:22
Alignment explanation
Indices: 35077799--35077843 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
35077789 ATTCATGAAT
*
35077799 TACATTAATATTCTTTTTATAA
1 TACATTAATATTCTTTGTATAA
35077821 TACATTAATATTCTTTGTATAA
1 TACATTAATATTCTTTGTATAA
35077843 T
1 T
35077844 GTCTTTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (22 bp):
TACATTAATATTCTTTGTATAA
Found at i:35082861 original size:20 final size:20
Alignment explanation
Indices: 35082836--35082875 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35082826 TAAATTAACT
35082836 GGTCATGGTGAATCTGTTGA
1 GGTCATGGTGAATCTGTTGA
35082856 GGTCATGGTGAATCTGTTGA
1 GGTCATGGTGAATCTGTTGA
35082876 ATGTGGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.35, T:0.35
Consensus pattern (20 bp):
GGTCATGGTGAATCTGTTGA
Found at i:35086662 original size:16 final size:16
Alignment explanation
Indices: 35086641--35086675 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35086631 AATGACTAAA
35086641 AAATATTATTATTTTT
1 AAATATTATTATTTTT
35086657 AAATATTATTATTTTT
1 AAATATTATTATTTTT
35086673 AAA
1 AAA
35086676 AATCTAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTATTATTTTT
Found at i:35090746 original size:79 final size:80
Alignment explanation
Indices: 35090611--35090788 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 80
35090601 TTGAATGATG
* *
35090611 TCCGGGCT-AGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
35090675 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
35090689 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35090751 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
35090769 ACCGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
35090789 TGTTTGAACG
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 65 0.77
80 18 0.21
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:35090801 original size:40 final size:40
Alignment explanation
Indices: 35090611--35090788 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
35090601 TTGAATGATG
* * * *
35090611 TCCGGGCT-AGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35090650 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35090690 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35090729 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35090770 -CCGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
35090789 TGTTTGAACG
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
39 42 0.35
40 67 0.56
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35090816 original size:79 final size:79
Alignment explanation
Indices: 35090663--35090817 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
35090653 GGACTAAGAT
* * **
35090663 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
35090728 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * **
35090742 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGTGTTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
35090805 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
35090818 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:35108979 original size:46 final size:46
Alignment explanation
Indices: 35108929--35109104 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
35108919 TGGTTGAGCA
*
35108929 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35108975 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35109020 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35109068 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35109105 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35109038 original size:93 final size:93
Alignment explanation
Indices: 35108926--35109097 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
35108916 GGATGGTTGA
* * *
35108926 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35108991 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35109019 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35109084 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35109098 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35116089 original size:46 final size:46
Alignment explanation
Indices: 35116039--35116214 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35116029 TGGTTGAGCA
35116039 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35116085 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35116130 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35116178 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35116215 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35116195 original size:93 final size:93
Alignment explanation
Indices: 35116036--35116207 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35116026 GGATGGTTGA
* *
35116036 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35116101 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35116129 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35116194 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35116208 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35130434 original size:39 final size:40
Alignment explanation
Indices: 35130230--35130452 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
35130220 TTGAATGCTG
* * * * * *
35130230 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
35130270 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
35130310 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
35130350 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
35130390 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
35130429 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35130453 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:35130472 original size:79 final size:80
Alignment explanation
Indices: 35130305--35130487 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
35130295 GTGCGAGATA
* * *
35130305 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
35130370 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
35130385 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
35130449 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
35130464 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
35130488 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:35138185 original size:40 final size:40
Alignment explanation
Indices: 35138155--35138324 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
35138145 GGACTAAGAT
* *
35138155 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
35138195 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
35138235 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * * *
35138275 CCGAAGACATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
35138314 CCGAAGGCATT
1 CCGAAGGCATT
35138325 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:35138239 original size:80 final size:79
Alignment explanation
Indices: 35138102--35138326 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
35138092 TTGAATGCTG
* * * * * * *
35138102 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
35138166 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
35138182 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
35138247 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * * *
35138262 TCCGGGTTATGTCCCGAAGACATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
35138327 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:35138344 original size:79 final size:80
Alignment explanation
Indices: 35138177--35138358 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 80
35138167 GTGCGAGATA
* * * *
35138177 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGACATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
35138242 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
35138257 TTAAATCCGGGTTATGTCCCGAAGACATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGACATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
35138321 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
35138336 CTATATCC-GGTTAAATCCCGAAG
1 CTAAATCCGGGTTAAGTCCCGAAG
35138359 GTACGTGATT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 13 0.15
79 46 0.54
80 26 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGACATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:35140080 original size:44 final size:45
Alignment explanation
Indices: 35140030--35140119 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
35140020 TAAAGCATCA
35140030 TAGG-AAAAAACAAATTCTTTCTCGAATTTAAATTGAGTCAACAT
1 TAGGAAAAAAACAAATTCTTTCTCGAATTTAAATTGAGTCAACAT
*
35140074 TAGGAAAAAAACAAATTCTTTCTCGAATTTATATTGAGTCAACAT
1 TAGGAAAAAAACAAATTCTTTCTCGAATTTAAATTGAGTCAACAT
35140119 T
1 T
35140120 TGGGCTTCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 4 0.09
45 40 0.91
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (45 bp):
TAGGAAAAAAACAAATTCTTTCTCGAATTTAAATTGAGTCAACAT
Found at i:35146031 original size:12 final size:12
Alignment explanation
Indices: 35145962--35146031 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
35145952 AAGTCTGTCT
*
35145962 GGAGAAGATTTA
1 GGAGATGATTTA
* **
35145974 GGAGGTGATAAA
1 GGAGATGATTTA
*
35145986 GGAGAGGATTTA
1 GGAGATGATTTA
*
35145998 GGAGCTGA-TTA
1 GGAGATGATTTA
*
35146009 GGGAGAGGATTTA
1 -GGAGATGATTTA
*
35146022 GGAGCTGATT
1 GGAGATGATT
35146032 AGGGTGAACT
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
11 3 0.07
12 36 0.86
13 3 0.07
ACGTcount: A:0.33, C:0.03, G:0.40, T:0.24
Consensus pattern (12 bp):
GGAGATGATTTA
Found at i:35146031 original size:24 final size:24
Alignment explanation
Indices: 35145962--35146035 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
35145952 AAGTCTGTCT
* * * *
35145962 GGAGAAGATTTAGGAGGTGATAAA
1 GGAGAGGATTTAGGAGCTGATTAG
35145986 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATTAG
35146010 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATTAG
35146034 GG
1 GG
35146036 TGAACTGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.32, C:0.03, G:0.42, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATTAG
Found at i:35147505 original size:27 final size:26
Alignment explanation
Indices: 35147465--35147570 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
35147455 AGGAAGCGTC
*
35147465 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35147492 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
35147519 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
35147547 CTAGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
35147571 TTCTAGCAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 51 0.75
28 15 0.22
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:35147569 original size:54 final size:54
Alignment explanation
Indices: 35147465--35147574 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
35147455 AGGAAGCGTC
* *
35147465 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
35147519 CTGGTGGTTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
35147573 CT
1 CT
35147575 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:35150334 original size:21 final size:21
Alignment explanation
Indices: 35150267--35150336 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
35150257 CTACACACAC
35150267 CAAAT-AGT-GGCACTGAAGTG
1 CAAATCAGTAGGCAC-GAAGTG
* *
35150287 CGAATCAGTAGGCACCATAGTG
1 CAAATCAGTAGGCACGA-AGTG
*
35150309 TAAATCAGTAGGCACGAAGTG
1 CAAATCAGTAGGCACGAAGTG
35150330 CAAATCA
1 CAAATCA
35150337 CATACGAGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
20 4 0.10
21 14 0.34
22 23 0.56
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
CAAATCAGTAGGCACGAAGTG
Found at i:35151002 original size:13 final size:13
Alignment explanation
Indices: 35150984--35151008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35150974 GCAGGGACAT
35150984 GCCCGTGTCCTCA
1 GCCCGTGTCCTCA
35150997 GCCCGTGTCCTC
1 GCCCGTGTCCTC
35151009 CACCCATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCTCA
Found at i:35154620 original size:47 final size:47
Alignment explanation
Indices: 35154556--35155013 Score: 790
Period size: 47 Copynumber: 9.7 Consensus size: 47
35154546 ATGATAGTAT
* * *
35154556 GGCCTAATAGCCAATGTGATGAATGTGAAAATGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
35154603 GGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGAGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35154650 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35154697 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35154744 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35154791 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35154838 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35154885 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35154932 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
35154981 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35155014 CCCGAAGGGC
Statistics
Matches: 394, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 349 0.89
49 41 0.10
50 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:35154857 original size:22 final size:23
Alignment explanation
Indices: 35154829--35154909 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
35154819 AAGTGTATAT
35154829 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
35154851 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
35154876 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
35154898 ATGTGATGAATG
1 ATGTGATGAATG
35154910 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:35157074 original size:43 final size:43
Alignment explanation
Indices: 35157026--35157214 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
35157016 TTGGTTTTCA
35157026 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35157069 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
35157112 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
* *
35157155 GCACTAAGTGTGAGGGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35157198 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
35157215 TTGAAATGCA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:35157230 original size:29 final size:29
Alignment explanation
Indices: 35157196--35157269 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
35157186 GTTGTGAGAT
* *
35157196 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35157225 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35157254 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35157270 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35157858 original size:40 final size:40
Alignment explanation
Indices: 35157584--35157844 Score: 278
Period size: 40 Copynumber: 6.5 Consensus size: 40
35157574 TCGAATGATG
* *
35157584 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
35157624 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
35157664 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35157704 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35157744 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * ** * * *
35157784 TCTGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35157824 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
35157845 TAATCATGCT
Statistics
Matches: 185, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 166 0.90
41 18 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:35161431 original size:47 final size:47
Alignment explanation
Indices: 35161368--35161875 Score: 856
Period size: 47 Copynumber: 10.7 Consensus size: 47
35161358 ATGATAGTAT
*
35161368 GGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35161415 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35161462 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35161509 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
35161557 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
35161604 TGCCTAATGGCCGATGTGATGTATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35161651 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35161698 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35161745 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
35161794 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
35161843 GGCCTAATGGCCGATGTGATGAATTTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35161876 CCCGAAGGGC
Statistics
Matches: 442, Mismatches: 13, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
46 11 0.02
47 293 0.66
48 33 0.07
49 101 0.23
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:35161481 original size:22 final size:23
Alignment explanation
Indices: 35161453--35161533 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
35161443 AAGTGTATAT
35161453 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
35161475 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
35161500 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
35161522 ATGTGATGAATG
1 ATGTGATGAATG
35161534 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:35161739 original size:25 final size:25
Alignment explanation
Indices: 35161664--35161742 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
35161654 CTAATGGCCG
35161664 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
*** ****
35161689 ATGTGAT-AATGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
35161711 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
35161736 ATGTGAT
1 ATGTGAT
35161743 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:35161782 original size:236 final size:238
Alignment explanation
Indices: 35161368--35161875 Score: 930
Period size: 236 Copynumber: 2.1 Consensus size: 238
35161358 ATGATAGTAT
*
35161368 GGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
35161433 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
35161498 ATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA-GGCCT
131 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
35161562 AATGGCCGATGTGATGAATGTGAAAGTGTATATATA-TGATAA
196 AATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAA
* *
35161604 TGCCTAATGGCCGATGTGATGTATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
35161669 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
35161734 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
131 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
*
35161799 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
196 AATGGCCGATGTGATGAATGTGAAAGTGTATATATA-GTGATAA
*
35161843 GGCCTAATGGCCGATGTGATGAATTTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35161876 CCCGAAGGGC
Statistics
Matches: 260, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
236 185 0.71
237 41 0.16
239 30 0.12
240 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (238 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAA
Found at i:35163936 original size:43 final size:43
Alignment explanation
Indices: 35163888--35164076 Score: 351
Period size: 43 Copynumber: 4.4 Consensus size: 43
35163878 TTGGTTTTCA
35163888 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35163931 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
35163974 GCACTAAGTGTGCGGGCAATAAGTGTTCACGTTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
* *
35164017 GCACTAAGTGTGAGGGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35164060 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
35164077 TTGAAATGCA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:35164092 original size:29 final size:29
Alignment explanation
Indices: 35164058--35164131 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
35164048 GTTGTGAGAT
* *
35164058 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35164087 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35164116 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35164132 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35164720 original size:40 final size:40
Alignment explanation
Indices: 35164446--35164706 Score: 278
Period size: 40 Copynumber: 6.5 Consensus size: 40
35164436 TCGAATGATG
* *
35164446 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
35164486 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
35164526 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35164566 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35164606 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * ** * * *
35164646 TCTGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35164686 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
35164707 TAATCATGCT
Statistics
Matches: 185, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 166 0.90
41 18 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:35168292 original size:47 final size:47
Alignment explanation
Indices: 35168229--35168737 Score: 856
Period size: 47 Copynumber: 10.7 Consensus size: 47
35168219 ATGATAGTAT
*
35168229 GGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35168276 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35168323 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
35168370 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
35168419 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
35168466 TGCCTAATGGCCGATGTGATGTATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
35168513 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35168560 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
35168607 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
35168656 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
35168705 GGCCTAATGGCCGATGTGATGAATTTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35168738 CCCGAAGGGC
Statistics
Matches: 442, Mismatches: 15, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
47 304 0.69
49 134 0.30
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:35168342 original size:22 final size:23
Alignment explanation
Indices: 35168314--35168394 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
35168304 AAGTGTATAT
35168314 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
35168336 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
35168361 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
35168383 ATGTGATGAATG
1 ATGTGATGAATG
35168395 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:35168601 original size:25 final size:25
Alignment explanation
Indices: 35168526--35168604 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
35168516 CTAATGGCCG
35168526 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
*** ****
35168551 ATGTGAT-AATGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
35168573 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
35168598 ATGTGAT
1 ATGTGAT
35168605 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:35168645 original size:237 final size:238
Alignment explanation
Indices: 35168229--35168737 Score: 939
Period size: 237 Copynumber: 2.1 Consensus size: 238
35168219 ATGATAGTAT
*
35168229 GGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
35168294 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
35168359 ATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
131 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
35168424 AATGGCCGATGTGATGAATGTGAAAGTGTATATATA-TGATAA
196 AATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAA
* *
35168466 TGCCTAATGGCCGATGTGATGTATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
35168531 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
35168596 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
131 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
*
35168661 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
196 AATGGCCGATGTGATGAATGTGAAAGTGTATATATA-GTGATAA
*
35168705 GGCCTAATGGCCGATGTGATGAATTTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
35168738 CCCGAAGGGC
Statistics
Matches: 261, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
237 227 0.87
239 30 0.11
240 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (238 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATAGTGATAA
Found at i:35177060 original size:26 final size:26
Alignment explanation
Indices: 35177029--35177136 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
35177019 TGAAATGCCC
*
35177029 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35177055 ATCATGGAAAATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
35177081 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
35177107 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35177133 ATCA
1 ATCA
35177137 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:35177716 original size:43 final size:43
Alignment explanation
Indices: 35177579--35177708 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 43
35177569 ATCCCGCTAT
* **
35177579 AGAACATGAACTTTAGCGGCGCTTTCCCCACAAACACTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
*
35177622 AGAACATGACCTTTAGCGGCGCTTTCCCCACAATCACCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
* * * *
35177665 AGAACATGACCTTTAGCAGCGCTTTTCCCAAAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
35177708 A
1 A
35177709 TATCATGAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.21
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
Found at i:35178373 original size:23 final size:23
Alignment explanation
Indices: 35178328--35179419 Score: 526
Period size: 23 Copynumber: 47.8 Consensus size: 23
35178318 ACATAAACTA
*
35178328 AATTT-CAGCAAC-TAAACAATTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
35178350 AATTTGCAGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35178373 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
35178396 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
35178419 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
35178442 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* *
35178465 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
*
35178487 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
35178510 AATTTGCAGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35178533 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
35178556 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
35178579 AATTTGCAGCATTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
35178602 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* *
35178625 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
*
35178647 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
35178670 AATTTGTAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35178693 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
35178716 AATTTACAACA-TTCAAACACTTC
1 AATTTGCAGCACTT-AAACACTTC
*
35178739 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35178762 AATTTACAGAACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
35178785 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
*
35178808 AATTAT--AGCGA-TAAAACA-TCTC
1 AATT-TGCAGC-ACTTAAACACT-TC
*
35178830 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* * *
35178853 AATTTGCTGTACTTAAACAATTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35178876 AATTTGCTGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35178899 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
35178922 AATTTGCAGCACTTTAGCACTTC
1 AATTTGCAGCACTTAAACACTTC
* * * *
35178945 AATTGGCAGTATTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** ** * * * *
35178968 AATTAACAATATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* *
35178991 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
*** *
35179013 AATTTATGGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*** * *
35179036 AATTTATGGCA-TTTAACACTTT
1 AATTTGCAGCACTTAAACACTTC
*
35179058 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
35179081 AATTTACTGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
35179104 AATTTGCTGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * *
35179127 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
* *
35179150 AA-TTACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
*
35179172 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
**
35179195 AATTTGCAATACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * * *
35179218 AATTTACTA-CATTTAAGCACTTT
1 AATTTGC-AGCACTTAAACACTTC
* *
35179241 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
35179264 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * *
35179287 AATTAACAACATTTATACACATT-
1 AATTTGCAGCACTTAAACAC-TTC
* * *
35179310 AA-TTACAGCAATAAAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
*
35179332 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* * *
35179355 AATTTTCAGTATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
35179378 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
35179401 AATTTACAGCATTTAAACA
1 AATTTGCAGCACTTAAACA
35179420 GCAACAACCA
Statistics
Matches: 827, Mismatches: 186, Indels: 113
0.73 0.17 0.10
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 120 0.15
23 692 0.84
24 11 0.01
25 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (23 bp):
AATTTGCAGCACTTAAACACTTC
Found at i:35178558 original size:91 final size:91
Alignment explanation
Indices: 35178394--35178559 Score: 219
Period size: 91 Copynumber: 1.8 Consensus size: 91
35178384 TTTAAACACT
* * * * *
35178394 TCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATA
1 TCAATTTCCAGCACTTAAACACTTCAATTTGCAGCACTTAAAAATCTCAATTAACAACATTTAAA
*
35178459 CTCCTCAATTACAGCGATAAAACATC
66 CACCTCAATTACAGCGATAAAACATC
* *
35178485 TCAATTTCCAGCAAC-TAAACACTTCAATTTGCAGTACTTAAAAA-CTTCAATTTACAACATTTA
1 TCAATTTCCAGC-ACTTAAACACTTCAATTTGCAGCACTTAAAAATC-TCAATTAACAACATTTA
*
35178548 AACACTTCAATT
64 AACACCTCAATT
35178560 TGCAGCACTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
90 1 0.02
91 61 0.95
92 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (91 bp):
TCAATTTCCAGCACTTAAACACTTCAATTTGCAGCACTTAAAAATCTCAATTAACAACATTTAAA
CACCTCAATTACAGCGATAAAACATC
Found at i:35178674 original size:183 final size:183
Alignment explanation
Indices: 35178500--35179130 Score: 924
Period size: 183 Copynumber: 3.5 Consensus size: 183
35178490 TTCCAGCAAC
*
35178500 TAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
*
35178565 CACTTTAACACTTCAATTTGCAGCATTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
66 CACTTTAACACTTCAATTTGCAGAATTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
*
35178630 CAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGTAGTACT
131 CAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACT
* * * * *
35178683 TAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
* *
35178748 CACTTTAACACTTCAATTTACAGAACTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
66 CACTTTAACACTTCAATTTGCAGAATTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
* *
35178813 TAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCTGTACT
131 CAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACT
* * *
35178866 TAAACAATTCAATTTGCTGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
* * * *
35178931 CACTTTAGCACTTCAATTGGCAGTATTTTAACATCTCAATTAACAATATTTATACTCCTCAATTA
66 CACTTTAACACTTCAATTTGCAGAATTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
*** ** *** *
35178996 CAGCGATAAAACATCTCAATTTATGGCATTTAAACACTTCAATTTATGGCA-T
131 CAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACT
* * * * ** *
35179048 TTAACACTTTAATTTGCAGCACTTTAACACTTCAATTTACTGCATTTAAACACTTCAATTTGCTG
1 TAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
35179113 CACTTTAACA-TCTCAATT
66 CACTTTAACACT-TCAATT
35179131 AACAACATTT
Statistics
Matches: 400, Mismatches: 47, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 1 0.00
182 71 0.18
183 328 0.82
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (183 bp):
TAAACACTTCAATTTGCAGCACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
CACTTTAACACTTCAATTTGCAGAATTTTAACATCTCAATTAACAACATTTATACTCCTCAATTA
CAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACT
Found at i:35178789 original size:160 final size:160
Alignment explanation
Indices: 35178328--35178765 Score: 774
Period size: 160 Copynumber: 2.7 Consensus size: 160
35178318 ACATAAACTA
*
35178328 AATTT-CAGCAACTAAACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
1 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
35178392 CTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
66 CTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
35178457 TACTCCTCAATTACAGCGATAAAACATCTC
131 TACTCCTCAATTACAGCGATAAAACATCTC
35178487 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
1 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
*
35178552 CTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCATTTTAACATCTCAATTAACAACATTTA
66 CTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
35178617 TACTCCTCAATTACAGCGATAAAACATCTC
131 TACTCCTCAATTACAGCGATAAAACATCTC
* *
35178647 AATTTCCAGCAACTAAACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAACA
1 AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
* * *
35178712 CTTCAATTTACAACA-TTCAAACACTTCAATTTGCAGCACTTTAACA-CTTCAATT
66 CTTCAATTTGCAGCACTT-TAACACTTCAATTTGCAGCACTTTAACATC-TCAATT
35178766 TACAGAACTT
Statistics
Matches: 268, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
159 8 0.03
160 260 0.97
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.33
Consensus pattern (160 bp):
AATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAAAACTTCAATTTACAACATTTAAACA
CTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTA
TACTCCTCAATTACAGCGATAAAACATCTC
Found at i:35179017 original size:160 final size:160
Alignment explanation
Indices: 35178866--35179419 Score: 754
Period size: 160 Copynumber: 3.5 Consensus size: 160
35178856 TTGCTGTACT
* * * *
35178866 TAAACAATTCAATTTGCTGTACTTAAAAACTTCAATTTACAACATTTAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAG
* * * * * *
35178931 CACTTT-AGCACTTCAATTGGCAGTATTTTAACATCTCAATTAACAATATTTATACTCCTCAATT
66 CA-TTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
*** **
35178995 ACAGCGATAAAACATCTCAATTTATGGCATT
130 ACAGCGATAAAACATCTCAATTTCCAGCAAC
*** * * * * * *
35179026 TAAACACTTCAATTTATGGCA-TTTAACACTTTAATTTGCAGCACTTT-AACACTTCAATTTACT
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACA-TTTAAACACTTCAATTTACA
*
35179089 GCATTTAAACACTTCAATTTGCTGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
65 GCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATT
35179154 ACAGCGATAAAACATCTCAATTTCCAGCAAC
130 ACAGCGATAAAACATCTCAATTTCCAGCAAC
* * * *
35179185 TAAACACTTCAATTTGCAATACTTAAACACTTCAATTTACTACATTTAAGCACTTTAATTTACAG
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAG
* *
35179250 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACATTAATTA
66 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
*
35179315 CAGCAATAAAACATCTCAATTTCCAGCAAC
131 CAGCGATAAAACATCTCAATTTCCAGCAAC
* * *
35179345 TAAACACTTCAATTTTCAGTATTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAG
35179410 CATTTAAACA
66 CATTTAAACA
35179420 GCAACAACCA
Statistics
Matches: 342, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
158 3 0.01
159 130 0.38
160 209 0.61
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (160 bp):
TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAG
CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
CAGCGATAAAACATCTCAATTTCCAGCAAC
Found at i:35180630 original size:10 final size:10
Alignment explanation
Indices: 35180615--35180648 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
35180605 TAATGTACAG
35180615 AACATTATTT
1 AACATTATTT
35180625 AACATTATTT
1 AACATTATTT
35180635 AACATTATTT
1 AACATTATTT
35180645 AACA
1 AACA
35180649 AAAGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (10 bp):
AACATTATTT
Found at i:35182109 original size:3 final size:3
Alignment explanation
Indices: 35182103--35182134 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35182093 TTTTTCTCTT
35182103 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35182135 TACTAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35182437 original size:16 final size:16
Alignment explanation
Indices: 35182397--35182445 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
35182387 ATTAATATCT
* * *
35182397 ATATATATACACATCA
1 ATATATATCCATATGA
35182413 ATATATATCCATATGA
1 ATATATATCCATATGA
35182429 ATATATATCCATATGA
1 ATATATATCCATATGA
35182445 A
1 A
35182446 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (16 bp):
ATATATATCCATATGA
Found at i:35183078 original size:40 final size:40
Alignment explanation
Indices: 35182945--35183076 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
35182935 AATGTTTTTT
* * *
35182945 GCGGCGTTTTTCAGAAAGCGCCACTAATGCTTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGC-TCGATCTATA
* * *
35182986 GCTGCATTTTTCAAAAAGCACCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
* * * * *
35183026 GTGGCGTTTTTTAAAAAGTGCCGCTAATACTCGATTTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
35183066 GCGGCGTTTTT
1 GCGGCGTTTTT
35183077 TATCCAAATA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 51 0.67
41 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:35191063 original size:24 final size:23
Alignment explanation
Indices: 35191036--35191099 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
35191026 ACATTGTTTG
35191036 TGAACATGTTCAATTATATATTCA
1 TGAACATGTTCAATTA-ATATTCA
* * *
35191060 TGAACATGTTCATTTAATGTTCG
1 TGAACATGTTCAATTAATATTCA
* *
35191083 TAAACATGTTCGATTAA
1 TGAACATGTTCAATTAA
35191100 GTTAAATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (23 bp):
TGAACATGTTCAATTAATATTCA
Found at i:35193112 original size:24 final size:26
Alignment explanation
Indices: 35193085--35193146 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
35193075 TATTTCATTA
35193085 TATCCTACTATTT-TTTTAGT-TTTT
1 TATCCTACTATTTATTTTAGTATTTT
* *
35193109 TATCCTACCATTTATTTTATTATTTT
1 TATCCTACTATTTATTTTAGTATTTT
**
35193135 TATTATACTATT
1 TATCCTACTATT
35193147 ATCCATTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 12 0.39
25 6 0.19
26 13 0.42
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.63
Consensus pattern (26 bp):
TATCCTACTATTTATTTTAGTATTTT
Found at i:35197898 original size:21 final size:21
Alignment explanation
Indices: 35197874--35197915 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35197864 GGATCAAATA
*
35197874 CTGGAGTCCCAGAAAAACATG
1 CTGGAGTCACAGAAAAACATG
*
35197895 CTGGAGTCACAGAACAACATG
1 CTGGAGTCACAGAAAAACATG
35197916 ATGAGCTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (21 bp):
CTGGAGTCACAGAAAAACATG
Found at i:35205700 original size:43 final size:44
Alignment explanation
Indices: 35205648--35206097 Score: 204
Period size: 43 Copynumber: 10.2 Consensus size: 44
35205638 CAATCATCAG
35205648 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATACCAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATACCAGA
* ** * *
35205691 TATTATCTTCACTGAGCAGGAGTAAAGCA-GATCAAATTTTA-GAGAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAA---TACCAG-A
* * * ** * *
35205737 TCTTATCTCCA-TGTA-CCGGCGATGGAGCAGATTCCAATCATCAG-
1 TCTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ACCAGA
*
35205781 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATACCAAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATACCAGA
* * ** *
35205824 TCTTATCTTCACTGAGCAGGAGTGAAGCA-GATCGACTTTTA-GAGAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTC-A--AATACCAG-A
* * * ** * *
35205870 TCTTATC-CCTA-TGTA-CCGGCAATGGAGCAGATTCCAATCATCAG-
1 TCTTATCTTC-ACTG-AGCAGG-AGTGGAGCAGGCTCAAAT-ACCAGA
*
35205914 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATACCAAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATACCAGA
* * ** *
35205957 TCTTATCTTCACTGAGCAGGAGTGAAGCA-GATCGACTTTTA-GAGAA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTC-A--AATACCAG-A
* * ** * *
35206003 TCTTATC-TCTAC-GTA-CCGGCGATGGAGCAGATTCCAATCATCAG-
1 TCTTATCTTC-ACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ACCAGA
*
35206047 CCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATACCAGA
1 TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATACCAGA
35206090 TCTTATCT
1 TCTTATCT
35206098 CCACGTATCG
Statistics
Matches: 294, Mismatches: 70, Indels: 86
0.65 0.16 0.19
Matches are distributed among these distances:
42 16 0.05
43 101 0.34
44 62 0.21
45 45 0.15
46 62 0.21
47 8 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATACCAGA
Found at i:35205864 original size:133 final size:133
Alignment explanation
Indices: 35205625--35206097 Score: 840
Period size: 133 Copynumber: 3.6 Consensus size: 133
35205615 CCAATGGACA
*
35205625 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAG
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
* * * *
35205690 ATATTATCTTCACTGAGCAGGAGTAAAGCAGATCAAATTTTAGAGAATCTTATCTCCATGTACCG
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCCATGTACCG
35205755 GCG
131 GCG
35205758 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
35205823 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATC-CCTATGTACC
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCC-ATGTACC
*
35205887 GGCA
130 GGCG
35205891 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
* *
35205956 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCTACGTACCG
66 ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCCATGTACCG
35206021 GCG
131 GCG
* *
35206024 ATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAG
1 ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
35206089 ATCTTATCT
66 ATCTTATCT
35206098 CCACGTATCG
Statistics
Matches: 327, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
132 2 0.01
133 324 0.99
134 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (133 bp):
ATGGAGCAGATTCCAATCATCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAA
ATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCGACTTTTAGAGAATCTTATCTCCATGTACCG
GCG
Done.