Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 95 of 161
Found at i:30054294 original size:21 final size:22
Alignment explanation
Indices: 30054251--30054299 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
30054241 GTGTGACCCC
*
30054251 TGTTTCCAAAATTTTTTAGTTT
1 TGTTTCCAAAATTTTCTAGTTT
*
30054273 TTTTTCCAAAATTTTCTA-TTT
1 TGTTTCCAAAATTTTCTAGTTT
30054294 TGTTTC
1 TGTTTC
30054300 AGAATGATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.61
Consensus pattern (22 bp):
TGTTTCCAAAATTTTCTAGTTT
Found at i:30059818 original size:90 final size:90
Alignment explanation
Indices: 30059665--30059844 Score: 351
Period size: 90 Copynumber: 2.0 Consensus size: 90
30059655 TAGACTGGCT
*
30059665 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGCGAGACTAAAGTTCTTGTCC
1 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
30059730 CGTGACAACACCCTATGATTAGAAC
66 CGTGACAACACCCTATGATTAGAAC
30059755 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
1 TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
30059820 CGTGACAACACCCTATGATTAGAAC
66 CGTGACAACACCCTATGATTAGAAC
30059845 AATTGAGATT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (90 bp):
TAAGCTGATTTGAATCCAATAAATTGCCTAAGGCTGCACAGATTGAGAGACTAAAGTTCTTGTCC
CGTGACAACACCCTATGATTAGAAC
Found at i:30060839 original size:15 final size:14
Alignment explanation
Indices: 30060799--30060858 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
30060789 TGTTCTTGCG
*
30060799 TTTTTTATTTACTT
1 TTTTTTATTTATTT
* *
30060813 TCTTCTATTTTATTT
1 TTTTTTA-TTTATTT
30060828 TTTTTATATTTATATT
1 TTTTT-TATTTAT-TT
*
30060844 TTTTTTGTTTATTT
1 TTTTTTATTTATTT
30060858 T
1 T
30060859 CTACAACTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
14 8 0.22
15 20 0.54
16 9 0.24
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTTATTTATTT
Found at i:30060845 original size:17 final size:16
Alignment explanation
Indices: 30060818--30060849 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30060808 TACTTTCTTC
30060818 TATTTTATTTTTTTTA
1 TATTTTATTTTTTTTA
30060834 TATTTATATTTTTTTT
1 TATTT-TATTTTTTTT
30060850 GTTTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTATTTTTTTTA
Found at i:30061919 original size:42 final size:43
Alignment explanation
Indices: 30061828--30061919 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 43
30061818 ATATATTTTG
* * * *
30061828 TATATATATTCTTTATATTTTATGATTCCTATATATGTACCTA
1 TATATATACTCTTTATATTTTATGATACCTATATACGTACATA
** *
30061871 TATATATACT-TTTATATTTTATGATAGTTATATACGTATATA
1 TATATATACTCTTTATATTTTATGATACCTATATACGTACATA
*
30061913 TGTATAT
1 TATATAT
30061920 GCTTACTTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.78
43 9 0.22
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.53
Consensus pattern (43 bp):
TATATATACTCTTTATATTTTATGATACCTATATACGTACATA
Found at i:30064059 original size:30 final size:30
Alignment explanation
Indices: 30063997--30064063 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
30063987 TTTCTTAAGC
* *
30063997 TTAATTTGTATCCTAATAAATCCTTTCATT
1 TTAATTTGTATCCTAATAAATCCTCTAATT
30064027 TTAATTTGTATCC-ACATAAAT-CTCTAATTT
1 TTAATTTGTATCCTA-ATAAATCCTCTAA-TT
30064057 TTAATTT
1 TTAATTT
30064064 ATACTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (30 bp):
TTAATTTGTATCCTAATAAATCCTCTAATT
Found at i:30065598 original size:64 final size:64
Alignment explanation
Indices: 30065518--30065637 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
30065508 CATTTATCTT
* * * *
30065518 TCTCTTTAAAGATGTAATTTAAGTTTTATTATAAAAAAGAAAAAGGAAAGGAAACACTTACCTC
1 TCTCCTTAAAGATGTAATATAAGCTTTATTATAAAAAAGAAAAAAGAAAGGAAACACTTACCTC
* *
30065582 TCTCCTTAAAGTTGTAATATAAGCTTTATTATTAAAAAGAAAAAAGAAAGGAAACA
1 TCTCCTTAAAGATGTAATATAAGCTTTATTATAAAAAAGAAAAAAGAAAGGAAACA
30065638 GAGGCCGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (64 bp):
TCTCCTTAAAGATGTAATATAAGCTTTATTATAAAAAAGAAAAAAGAAAGGAAACACTTACCTC
Found at i:30065952 original size:60 final size:62
Alignment explanation
Indices: 30065863--30065995 Score: 148
Period size: 62 Copynumber: 2.2 Consensus size: 62
30065853 ATTTTTTTTG
* * * * *
30065863 AAAATTTTAATTAAGCTCTCTAAAA-TTTTT-GAAAATTCTGATTGATCTCTTAAAAAATTA
1 AAAATTTTAATTAAGCTCCCTAAAATTTTTTAAAAAATTCTCATTAAACTCTTAAAAAATTA
* **
30065923 AAAATTTTAATT-AGAC-CCCTAAAGCTTTTTTAAAAAATTCTCATTAAACTCTTAAAATTTTA
1 AAAATTTTAATTAAG-CTCCCTAAA-ATTTTTTAAAAAATTCTCATTAAACTCTTAAAAAATTA
30065985 AAAATTTTAAT
1 AAAATTTTAAT
30065996 AAATCCGTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 8 0.13
60 13 0.21
61 5 0.08
62 35 0.57
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (62 bp):
AAAATTTTAATTAAGCTCCCTAAAATTTTTTAAAAAATTCTCATTAAACTCTTAAAAAATTA
Found at i:30085239 original size:9 final size:9
Alignment explanation
Indices: 30085225--30085283 Score: 75
Period size: 9 Copynumber: 6.6 Consensus size: 9
30085215 TTTGGTTAAA
30085225 AATTAACCG
1 AATTAACCG
*
30085234 AATTAACTG
1 AATTAACCG
30085243 AATT-ACCAG
1 AATTAACC-G
*
30085252 AATTAACCA
1 AATTAACCG
30085261 AATTAACCG
1 AATTAACCG
*
30085270 AATTACCCG
1 AATTAACCG
30085279 AATTA
1 AATTA
30085284 TATGTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 38 0.88
10 3 0.07
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:30085255 original size:27 final size:27
Alignment explanation
Indices: 30085225--30085283 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
30085215 TTTGGTTAAA
* *
30085225 AATTAACCGAATTAACTGAATTACCAG
1 AATTAACCAAATTAACCGAATTACCAG
*
30085252 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTACCAG
30085279 AATTA
1 AATTA
30085284 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.25
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTACCAG
Found at i:30085957 original size:16 final size:16
Alignment explanation
Indices: 30085935--30085974 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
30085925 CGTTTGGTTT
30085935 ACTGTAATGGAATA-A
1 ACTGTAATGGAATAGA
30085950 AGCTGTAATGGAATAGA
1 A-CTGTAATGGAATAGA
30085967 ACTGTAAT
1 ACTGTAAT
30085975 TAGTAATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 20 0.87
17 2 0.09
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:30088208 original size:17 final size:17
Alignment explanation
Indices: 30088186--30088221 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30088176 CGATTGCATG
30088186 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
30088203 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
30088220 TT
1 TT
30088222 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:30088612 original size:32 final size:34
Alignment explanation
Indices: 30088549--30088612 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
30088539 TCTAATAATT
* *
30088549 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
30088583 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
30088613 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:30088893 original size:19 final size:21
Alignment explanation
Indices: 30088869--30088938 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 21
30088859 CTTGTACTAC
*
30088869 AATTGTAT-TT-TGTGCTGGA
1 AATTGTATATTGTCTGCTGGA
30088888 AATTGTTATGATTGTCTGCTGGA
1 AATTG-TAT-ATTGTCTGCTGGA
*
30088911 AATTGTTTTGATTGTCTGCTGGA
1 AATTG-TAT-ATTGTCTGCTGGA
30088934 AATTG
1 AATTG
30088939 AATTTGTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.11
20 3 0.07
22 2 0.04
23 35 0.78
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (21 bp):
AATTGTATATTGTCTGCTGGA
Found at i:30088907 original size:23 final size:23
Alignment explanation
Indices: 30088881--30088938 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
30088871 TTGTATTTTG
30088881 TGCTGGAAATTGTTATGATTGTC
1 TGCTGGAAATTGTTATGATTGTC
*
30088904 TGCTGGAAATTGTTTTGATTGTC
1 TGCTGGAAATTGTTATGATTGTC
30088927 TGCTGGAAATTG
1 TGCTGGAAATTG
30088939 AATTTGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.43
Consensus pattern (23 bp):
TGCTGGAAATTGTTATGATTGTC
Found at i:30093160 original size:91 final size:91
Alignment explanation
Indices: 30093034--30093241 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
30093024 TTGATTTTAG
* *
30093034 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* * *
30093099 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
30093126 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
30093191 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
30093217 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30093242 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:30093210 original size:26 final size:28
Alignment explanation
Indices: 30093156--30093216 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
30093146 TATTATCAAG
* *
30093156 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
30093184 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
30093210 AATTATA
1 AATTATA
30093217 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:30093216 original size:44 final size:43
Alignment explanation
Indices: 30093074--30093216 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
30093064 GAATTTTATG
* * *
30093074 AAATTATATATCACTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
30093118 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
30093165 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
30093209 AAATTATA
1 AAATTATA
30093217 CAAATTCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.15
47 12 0.16
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:30093370 original size:66 final size:64
Alignment explanation
Indices: 30093295--30093505 Score: 219
Period size: 66 Copynumber: 3.4 Consensus size: 64
30093285 AAATATATTT
30093295 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
30093360 G
64 G
* * * **
30093361 AATATTAATTATTAAGAATTTTA-TTA-A--AT--TATA-TAT--TTTTATTAAATT-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
30093415 AATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTTTA-TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
30093480 G
64 G
*
30093481 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
30093506 AAATTATATA
Statistics
Matches: 115, Mismatches: 15, Indels: 31
0.71 0.09 0.19
Matches are distributed among these distances:
54 17 0.15
55 6 0.05
56 13 0.11
57 1 0.01
58 3 0.03
59 6 0.05
61 6 0.05
62 3 0.03
63 1 0.01
64 13 0.11
65 10 0.09
66 36 0.31
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:30093381 original size:120 final size:120
Alignment explanation
Indices: 30093257--30093554 Score: 501
Period size: 120 Copynumber: 2.5 Consensus size: 120
30093247 AATTATTTTA
* * *
30093257 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCA-T
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTAT-ATT
30093320 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
30093377 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
30093442 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
30093497 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
30093555 ATGATTAAAT
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
119 1 0.01
120 158 0.95
121 8 0.05
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:30093532 original size:16 final size:16
Alignment explanation
Indices: 30093511--30093552 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30093501 TTATTAAATT
*
30093511 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30093527 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30093542 AT-TATGTTTAA
1 ATATAT-TTTAA
30093553 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30093537 original size:15 final size:15
Alignment explanation
Indices: 30093502--30093543 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30093492 TTAAGAATTT
*
30093502 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30093516 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30093530 TATTTAATAATAAT
1 TATTTAATTATAAT
30093544 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30093683 original size:18 final size:17
Alignment explanation
Indices: 30093655--30093689 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30093645 ATTATTAAGA
*
30093655 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30093672 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30093690 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30093801 original size:157 final size:157
Alignment explanation
Indices: 30093486--30093802 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
30093476 ATAAGAATAT
*
30093486 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
30093551 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
30093616 TAATAATTTACCAAAACAAGTTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
30093643 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
30093708 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
30093773 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
30093800 TAA
1 TAA
30093803 GGTTATTCTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:30096190 original size:4 final size:4
Alignment explanation
Indices: 30096174--30096223 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
30096164 GCATTTGAGA
* * * *
30096174 TCAT TCAT CCAT TCAT TCAT TCAT CCA- TCAC TCAT TCAT TCAT TTAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
30096221 TCA
1 TCA
30096224 CACAACACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 2 0.05
4 36 0.95
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (4 bp):
TCAT
Found at i:30097824 original size:27 final size:27
Alignment explanation
Indices: 30097762--30097813 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
30097752 GAAAGTTAAT
*
30097762 AATAGCCTTTGTGGCAAACTCTGAAAG
1 AATAGCCTTTATGGCAAACTCTGAAAG
* *
30097789 AATAACCTTTATGGCTAACTCTGAA
1 AATAGCCTTTATGGCAAACTCTGAA
30097814 TGGATTGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
AATAGCCTTTATGGCAAACTCTGAAAG
Found at i:30101472 original size:21 final size:22
Alignment explanation
Indices: 30101431--30101477 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
30101421 GTGAATTAAT
* *
30101431 TTTGATTGCTCAAAATTATGTC
1 TTTGATTGCTCAAAATGATGTA
*
30101453 TTTGATT-CTGAAAATGATGTA
1 TTTGATTGCTCAAAATGATGTA
30101474 TTTG
1 TTTG
30101478 GTTTGTGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (22 bp):
TTTGATTGCTCAAAATGATGTA
Found at i:30112736 original size:12 final size:11
Alignment explanation
Indices: 30112708--30112751 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
30112698 AGATAAATGT
*
30112708 TATTTAATTAA
1 TATTTTATTAA
30112719 TATTTTATTAA
1 TATTTTATTAA
* *
30112730 TATTTTTAGTAT
1 TA-TTTTATTAA
30112742 TATTTTATTA
1 TATTTTATTA
30112752 TTTAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:30115774 original size:40 final size:40
Alignment explanation
Indices: 30115726--30115915 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
30115716 GCAAACACAT
* * *
30115726 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30115766 TTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAA
1 TTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCATAA
* *
30115808 ATGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
30115848 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
30115888 TTGCCTTCGGGTCATAACCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
30115916 TCCAATGTTC
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 98 0.73
42 36 0.27
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:30115846 original size:82 final size:80
Alignment explanation
Indices: 30115727--30115915 Score: 279
Period size: 82 Copynumber: 2.3 Consensus size: 80
30115717 CAAACACATT
* *
30115727 TGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGG--AT
30115792 ATATCAACTCGCACAAA
64 ATATCAACTCGCACAAA
* * *
30115809 TGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAATTGCCTTCGGGTTTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
* * *
30115874 ATCATCTCGCATAAT
66 ATCAACTCGCACAAA
*
30115889 TGCCTTCGGGTCATAACCCGGATATAT
1 TGCCTTCGGGTCTTAACCCGGATATAT
30115916 TCCAATGTTC
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 40 0.42
82 56 0.58
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (80 bp):
TGCCTTCGGGTCTTAACCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
ATCAACTCGCACAAA
Found at i:30120880 original size:29 final size:29
Alignment explanation
Indices: 30120830--30120892 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
30120820 GTGTGCTGCC
* *
30120830 CGTGTGTGACACACGGTCGTGTGACAGCT
1 CGTGTGTGACACACGCTCGTGTGAAAGCT
*
30120859 CGTGTGTGACTCACGACT-GTGTGAAAGCT
1 CGTGTGTGACACACG-CTCGTGTGAAAGCT
*
30120888 TGTGT
1 CGTGT
30120893 CCTAGGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29
Consensus pattern (29 bp):
CGTGTGTGACACACGCTCGTGTGAAAGCT
Found at i:30124194 original size:12 final size:12
Alignment explanation
Indices: 30124177--30124201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30124167 TAAGTGATTT
30124177 TTAATTTCATTC
1 TTAATTTCATTC
30124189 TTAATTTCATTC
1 TTAATTTCATTC
30124201 T
1 T
30124202 ATTTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATTTCATTC
Found at i:30124871 original size:29 final size:29
Alignment explanation
Indices: 30124839--30124934 Score: 129
Period size: 29 Copynumber: 3.3 Consensus size: 29
30124829 GATCATCAAC
* * * *
30124839 TATGAAATGGAATAGTTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
*
30124868 TATGAAAAGGGATAACTTCGACTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
* *
30124897 TATGAAAAGGGGTAGCTTCGACTGTCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
30124926 TATGAAAAG
1 TATGAAAAG
30124935 CGGCAGTGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTTCGACTATCGAT
Found at i:30124956 original size:29 final size:28
Alignment explanation
Indices: 30124924--30125009 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 28
30124914 TCGACTGTCG
30124924 ATTATGAAAAGCGGCA-GTGACAACCATCA
1 ATTATGAAAAG-GG-AGGTGACAACCATCA
30124953 ATTATGAAAAGGGATGGTGACAACCATCA
1 ATTATGAAAAGGGA-GGTGACAACCATCA
* *
30124982 ACTATGAAAAGGGATGGTGACGACCATC
1 ATTATGAAAAGGGA-GGTGACAACCATC
30125010 GTGACTCCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.02
28 2 0.04
29 50 0.94
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (28 bp):
ATTATGAAAAGGGAGGTGACAACCATCA
Found at i:30130553 original size:40 final size:40
Alignment explanation
Indices: 30130470--30130732 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30130460 TTGAATGCTG
* * * * * *
30130470 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30130510 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30130550 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30130590 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30130630 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30130670 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30130709 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30130733 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30130752 original size:79 final size:80
Alignment explanation
Indices: 30130509--30130767 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30130499 AAGTGAATAT
* * * * * *
30130509 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30130573 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30130589 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30130654 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30130669 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30130733 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30130748 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30130768 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30138505 original size:40 final size:40
Alignment explanation
Indices: 30138422--30138684 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30138412 TTGAATGCTG
* * * * * *
30138422 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30138462 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30138502 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30138542 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30138582 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30138622 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30138661 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30138685 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30138704 original size:79 final size:80
Alignment explanation
Indices: 30138461--30138719 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30138451 AAGTGAATAT
* * * * * *
30138461 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30138525 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30138541 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30138606 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30138621 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30138685 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30138700 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30138720 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30150961 original size:29 final size:29
Alignment explanation
Indices: 30150889--30151075 Score: 173
Period size: 29 Copynumber: 6.4 Consensus size: 29
30150879 AATCATCAAC
*
30150889 TATGAAAAGGGATAGTTTCGACTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
** * *
30150918 TATGAAAAGCAATGGCTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
* * * * *
30150947 TATGAAAAGGGAT-GGTGACGACCATCAAC
1 TATGAAAAGGGATAGCT-TCGACTATCGAT
* * *
30150976 TATGTAAAGGGAT-G-TTGACGACCATCGAA
1 TATGAAAAGGGATAGCTT--CGACTATCGAT
*
30151005 TATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
* * *
30151034 TATGAAAAGGGGTAGCTTTGACTATTGAT
1 TATGAAAAGGGATAGCTTCGACTATCGAT
30151063 TATGAAAAGGGAT
1 TATGAAAAGGGAT
30151076 GGTGACGACC
Statistics
Matches: 127, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.02
29 121 0.95
30 1 0.01
31 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (29 bp):
TATGAAAAGGGATAGCTTCGACTATCGAT
Found at i:30151028 original size:87 final size:87
Alignment explanation
Indices: 30150882--30151044 Score: 247
Period size: 87 Copynumber: 1.9 Consensus size: 87
30150872 TAACGATAAT
* * * *
30150882 CATCAACTATGAAAAGGGATAGTTTCGACTATCGATTATGAAAAGCAATGGCTTCGGCTATCGAT
1 CATCAACTATGAAAAGGGATAGTTACGACCATCGAATATGAAAAGCAATAGCTTCGGCTATCGAT
30150947 TATGAAAAGGGATGGTGACGAC
66 TATGAAAAGGGATGGTGACGAC
* **
30150969 CATCAACTATGTAAAGGGAT-GTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGA
1 CATCAACTATGAAAAGGGATAGTT-ACGACCATCGAATATGAAAAGCAATAGCTTCGGCTATCGA
30151033 TTATGAAAAGGG
65 TTATGAAAAGGG
30151045 GTAGCTTTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
86 3 0.04
87 65 0.96
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (87 bp):
CATCAACTATGAAAAGGGATAGTTACGACCATCGAATATGAAAAGCAATAGCTTCGGCTATCGAT
TATGAAAAGGGATGGTGACGAC
Found at i:30151072 original size:87 final size:87
Alignment explanation
Indices: 30150882--30151104 Score: 245
Period size: 87 Copynumber: 2.6 Consensus size: 87
30150872 TAACGATAAT
* * * ** *
30150882 CATCAACTATGAAAAGGGATAGTT-TCGACTATCGATTATGAAAAGCAATGGCTTCGGCTATCGA
1 CATCAACTATGAAAAGGGAT-GTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGA
*
30150946 TTATGAAAAGGGATGGTGACGAC
65 TTATGAAAAGGGATGCTGACGAC
*
30150969 CATCAACTATGTAAAGGGATGTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGAT
1 CATCAACTATGAAAAGGGATGTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGAT
* **
30151034 TATGAAAAGGGGTAGCT-TTGAC
66 TATGAAAAGGGAT-GCTGACGAC
* ** * * *
30151056 TATTGATTATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAAGGAT
1 CATCAACTATGAAAAGGGATGTTGACGACCATCGAA-TATGAAAAGGGAT
30151105 GGTGACGACC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
86 5 0.04
87 108 0.94
88 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (87 bp):
CATCAACTATGAAAAGGGATGTTGACGACCATCGAATATGAAAAGGGATAGCTTCGGCTATCGAT
TATGAAAAGGGATGCTGACGAC
Found at i:30151093 original size:116 final size:116
Alignment explanation
Indices: 30150889--30151114 Score: 344
Period size: 116 Copynumber: 1.9 Consensus size: 116
30150879 AATCATCAAC
* * *
30150889 TATGAAAAGGGATAGTTTCGACTATCGATTATGAAAAGCAATGGCTTCGGCTATCGATTATGAAA
1 TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGCAATAGCTTCGACTATCGATTATGAAA
* * *
30150954 AGGGATGGTGACGACCATCAACTATGTAAAGGGATGTTGACGACCATCGAA
66 AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
* *** * *
30151005 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGGTAGCTTTGACTATTGATTATGAAA
1 TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGCAATAGCTTCGACTATCGATTATGAAA
30151070 AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACC
66 AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACC
30151115 GTCGTGATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.25
Consensus pattern (116 bp):
TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGCAATAGCTTCGACTATCGATTATGAAA
AGGGATGGTGACGACCATCAACTATGAAAAAGGATGGTGACGACCATCGAA
Found at i:30151096 original size:58 final size:57
Alignment explanation
Indices: 30150939--30151105 Score: 167
Period size: 58 Copynumber: 2.9 Consensus size: 57
30150929 ATGGCTTCGG
*
30150939 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGTAAAGGGATGTTGACGA
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGTT-ACGA
* * * * * * * * * *
30150997 CCATCGAATATGAAAAGGGATAGCT-TCGGCTATCGATTATGAAAAGGGGTAGCTT-TGA
1 CTATCGATTATGAAAAGGGAT-GGTGACGACCATCAACTATGAAAAGGGAT-G-TTACGA
* *
30151055 CTATTGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGATG
1 CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATG
30151106 GTGACGACCG
Statistics
Matches: 83, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
57 3 0.04
58 75 0.90
59 3 0.04
60 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (57 bp):
CTATCGATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGTTACGA
Found at i:30153196 original size:25 final size:25
Alignment explanation
Indices: 30153162--30153211 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
30153152 AGTAAGCATA
30153162 TATACTTAGTAAGTTCATAAATCAT
1 TATACTTAGTAAGTTCATAAATCAT
*
30153187 TATACTTAGTAAGTTCGTAAATCAT
1 TATACTTAGTAAGTTCATAAATCAT
30153212 CAACAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (25 bp):
TATACTTAGTAAGTTCATAAATCAT
Found at i:30156017 original size:29 final size:29
Alignment explanation
Indices: 30155984--30156041 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
30155974 GATGTTCGAA
* *
30155984 ACCATCCCTTTTCATATTTGATGGTTGTC
1 ACCATCCCTTTTCATATTCGATGGGTGTC
*
30156013 ACCATCTCTTTTCATATTCGATGGGTGTC
1 ACCATCCCTTTTCATATTCGATGGGTGTC
30156042 GATACGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGGTGTC
Found at i:30157271 original size:20 final size:19
Alignment explanation
Indices: 30157227--30157275 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
30157217 TCATGGTCTT
*
30157227 TGCTT-CTTCTTTACTTAC
1 TGCTTACTTATTTACTTAC
*
30157245 TCTCTTACTTATTTACTTAC
1 T-GCTTACTTATTTACTTAC
30157265 ATGCTTACTTA
1 -TGCTTACTTA
30157276 AATAACTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 20 0.80
21 1 0.04
ACGTcount: A:0.18, C:0.24, G:0.04, T:0.53
Consensus pattern (19 bp):
TGCTTACTTATTTACTTAC
Found at i:30157668 original size:50 final size:52
Alignment explanation
Indices: 30157585--30157709 Score: 139
Period size: 56 Copynumber: 2.4 Consensus size: 52
30157575 AGCCCATCCT
* * * *
30157585 ATGTCCCAGAAATGGCCTT-TGGGGGACCTCTCAT-CT-TGATGCCAATGCC
1 ATGTCCCAGACATGGTCTTATGGGAGACCTCTCATACTATAATGCCAATGCC
* *
30157634 ATGTCCCAGACATGGTCTTATGTGAGACCTCTCATAGCCTCAATAATGCCAATTCC
1 ATGTCCCAGACATGGTCTTATGGGAGACCTCTCATA--CT--ATAATGCCAATGCC
30157690 ATGTCCCAGACATGGTCTTA
1 ATGTCCCAGACATGGTCTTA
30157710 CATGAGATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
49 17 0.27
50 13 0.21
53 2 0.03
56 31 0.49
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (52 bp):
ATGTCCCAGACATGGTCTTATGGGAGACCTCTCATACTATAATGCCAATGCC
Found at i:30164956 original size:20 final size:20
Alignment explanation
Indices: 30164921--30164969 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
30164911 ATCATGGTAT
*
30164921 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
30164940 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
30164960 TTGCTTACTT
1 TTGCTTACTT
30164970 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:30165313 original size:50 final size:50
Alignment explanation
Indices: 30165259--30165363 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
30165249 ACATGGAGGT
* * **
30165259 TCTCATATCGGTGCCCATGCCATGT-CTCAGACATGGTCTTGTGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCT-AGACATGGTCTTACGGGGGACC
* * *
30165309 TCTCATCTCGGTGCCAACGCTATGTCCTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
30165359 TCTCA
1 TCTCA
30165364 AAGCCTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.29
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCTAGACATGGTCTTACGGGGGACC
Found at i:30168697 original size:63 final size:63
Alignment explanation
Indices: 30168624--30168764 Score: 165
Period size: 63 Copynumber: 2.2 Consensus size: 63
30168614 CCTAAATCGC
* * * * * * *
30168624 AAACAATGAGTCATACGGCCTGGACACACGCCCGTGTCTCTGGCCCATGTGATCCTTAATGGT
1 AAACAGTGAGTCACACGACCTGGACACACGCCCATGTCTCTAGCCCATGTGATCCCTAAAGGT
* * * *
30168687 AAACAGTGAGTCACACGACCTGGACACATGCCTATGTCTCTAGCCCGTGTGGTCCCTAAAGGT
1 AAACAGTGAGTCACACGACCTGGACACACGCCCATGTCTCTAGCCCATGTGATCCCTAAAGGT
* *
30168750 AAATAGTAAGTCACA
1 AAACAGTGAGTCACA
30168765 TGGCCTAACA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (63 bp):
AAACAGTGAGTCACACGACCTGGACACACGCCCATGTCTCTAGCCCATGTGATCCCTAAAGGT
Found at i:30180548 original size:30 final size:30
Alignment explanation
Indices: 30180512--30180586 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
30180502 AGGTGAAGCT
30180512 ATCCCTTTTCATAATTTGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGCCACC
* *
30180542 ATCCCTTTTCAT-AGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGCCACC
* *
30180571 ATCCTTTTTCAAAATT
1 ATCCCTTTTCATAATT
30180587 GAGTGATCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGCCACC
Found at i:30180588 original size:29 final size:29
Alignment explanation
Indices: 30180512--30180597 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
30180502 AGGTGAAGCT
* *
30180512 ATCCCTTTTCATAATTTGATGGTCGCCACC
1 ATCCCTTTTCA-AAATTGATGGTCGTCACC
* *
30180542 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCAAAATTGATGGTCGTCACC
* *
30180571 ATCCTTTTTCAAAATTGAGTGATCGTC
1 ATCCCTTTTCAAAATTGA-TGGTCGTC
30180598 GATACGTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 30 0.62
30 18 0.38
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCAAAATTGATGGTCGTCACC
Found at i:30182012 original size:15 final size:15
Alignment explanation
Indices: 30181994--30182024 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30181984 TGGTTTAAAT
30181994 TTATATATTATCATC
1 TTATATATTATCATC
*
30182009 TTATATATTATTATC
1 TTATATATTATCATC
30182024 T
1 T
30182025 ATGTAAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:30182580 original size:23 final size:23
Alignment explanation
Indices: 30182554--30182614 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
30182544 AAATACTTAT
*
30182554 ATATATTCTTTATATTCTCAAAA
1 ATATATTCTTTATATTCACAAAA
* * *
30182577 ATAT-TTTTTTATACTTCACATAC
1 ATATATTCTTTATA-TTCACAAAA
30182600 ATATATTC-TTATATT
1 ATATATTCTTTATATT
30182615 ATTACAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.32
23 19 0.61
24 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATATTCTTTATATTCACAAAA
Found at i:30183327 original size:106 final size:106
Alignment explanation
Indices: 30183034--30183444 Score: 601
Period size: 107 Copynumber: 3.9 Consensus size: 106
30183024 AAGGTTTTTC
30183034 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
30183099 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTT
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTT
* * *
30183140 TAAAATAAGACAATATTTCACATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGA
1 T-AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGA
30183205 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTT
65 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTT
* * * * *
30183247 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTACCCTAACGTGTTAGGTTTCGAC
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* * *
30183312 TTCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAATTT
66 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTT
* * * * * * * * *
30183352 CGAAGTAAGGCAATATTT-GCGTTTGGAAATTTGGGAGAATGTGCCCTAACGTGCTGGGTCTCAA
1 -TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGA
*
30183416 TTTCTCGTTTGACCAAATAGCCAAATATC
65 TTTCTCGTTCGACCAAATAGCCAAATATC
30183445 TTCTTAACTT
Statistics
Matches: 275, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
105 72 0.26
106 100 0.36
107 103 0.37
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTCAACTTT
Found at i:30187952 original size:12 final size:12
Alignment explanation
Indices: 30187935--30187980 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
30187925 AAGGCAAGAA
30187935 CCCAACACAAGG
1 CCCAACACAAGG
30187947 CCCAACACAAGG
1 CCCAACACAAGG
30187959 CCCAACACAAGG
1 CCCAACACAAGG
*
30187971 CCTAACACAA
1 CCCAACACAA
30187981 AGAGACTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.43, C:0.41, G:0.13, T:0.02
Consensus pattern (12 bp):
CCCAACACAAGG
Found at i:30195329 original size:263 final size:263
Alignment explanation
Indices: 30194862--30195519 Score: 1093
Period size: 263 Copynumber: 2.5 Consensus size: 263
30194852 TGAAGTCATT
* * *
30194862 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTCGATCGAAGCTGCAGGCCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
*
30194927 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGAA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
* * *
30194992 GAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAGTAGGTCCTATCTTCCT
131 GAAAGCAGATCATGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATCTTCCT
* * * *
30195057 ATATTGGTAGGACCTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
196 ATATTGGTAGGAACTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCA
30195122 AAG
261 AAG
* *
30195125 AAAGCAGATCTTGTCTTCATGTATTGGGGTGAAGGAGATCGAAGATGCAGGTCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
*
30195190 ATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
*
30195255 GAAAGCAGATCATGTCTTCATGTATTGGCGTGAAGTAGATCGAGGATA-TCAGGTCCTATCTTCC
131 GAAAGCAGATCATGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGT-AGGTCCTATCTTCC
* *
30195319 TATATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
195 TATATTGGTAGGAACTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
30195384 AAAG
260 AAAG
* *
30195388 AAAGCAGATCTTGTCTTCATGTATTGCCGTGAACTAGATCGAAGATGCAGGTCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
* * * *
30195453 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTCTCTTCTCATACTAGTGGCAAAGTAGATCGAA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
30195518 GA
131 GA
30195520 CCACAGATCT
Statistics
Matches: 368, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
262 1 0.00
263 367 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (263 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
GAAAGCAGATCATGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATCTTCCT
ATATTGGTAGGAACTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCA
AAG
Found at i:30195530 original size:131 final size:131
Alignment explanation
Indices: 30194862--30195519 Score: 1073
Period size: 132 Copynumber: 5.0 Consensus size: 131
30194852 TGAAGTCATT
* * *
30194862 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTCGATCGAAGCTGCAGGCCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
*
30194927 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGGAGATCGAA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
30194992 G
131 G
* * *
30194993 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATTGAAGATAGTAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGGTCCTATCTTCCTA
** *
30195058 TATTGGTAGGACCTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
30195123 AG
130 AG
* *
30195125 AAAGCAGATCTTGTCTTCATGTATTGGGGTGAAGGAGATCGAAGATGCAGGTCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
*
30195190 ATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
30195255 G
131 G
* * *
30195256 AAAGCAGATCATGTCTTCATGTATTGGCGTGAAGTAGATCGAGGATATCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCAGGTCCTATCTTCCTA
* * *
30195321 TATTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAA
65 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
30195386 AG
130 AG
* *
30195388 AAAGCAGATCTTGTCTTCATGTATTGCCGTGAACTAGATCGAAGATGCAGGTCCTATCTTCCTAT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
* * * *
30195453 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTCTCTTCTCATACTAGTGGCAAAGTAGATCGAA
66 ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
30195518 G
131 G
30195519 A
1 A
30195520 CCACAGATCT
Statistics
Matches: 487, Mismatches: 38, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
131 242 0.50
132 245 0.50
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (131 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGGTCCTATCTTCCTAT
ATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
G
Found at i:30197548 original size:39 final size:39
Alignment explanation
Indices: 30197505--30197652 Score: 287
Period size: 39 Copynumber: 3.8 Consensus size: 39
30197495 CTTATATATA
30197505 TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
1 TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
30197544 TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
1 TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
30197583 TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
1 TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
30197622 TCGTCATTTCATTTTGCCTATTATAATTATT
1 TCGTCATTTCATTTTGCCTATTAT-ATTATT
30197653 TATTCGTTAT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
39 102 0.94
40 6 0.06
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.54
Consensus pattern (39 bp):
TCGTCATTTCATTTTGCCTATTATATTATTGTTACCTTG
Found at i:30197896 original size:106 final size:107
Alignment explanation
Indices: 30197711--30198119 Score: 646
Period size: 106 Copynumber: 3.9 Consensus size: 107
30197701 AGGTTTTTCT
*
30197711 AAATAAGGCAATATTTCACGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
30197776 TCTCGTTTGACCAAACAG-CAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAACAGCCAAATATCCTTTTTAAACTTTTA
30197817 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
30197882 TCTCGTTTGACCAAACAG-CAAATATCCTTTTTAAACTTTTA
66 TCTCGTTTGACCAAACAGCCAAATATCCTTTTTAAACTTTTA
*
30197923 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
* * **
30197988 TCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAGTTTCG
66 TCTCGTTTGACCAAACAGCCAAATATCCTTTTTAAACTTTTA
* * * * * * * * *
30198029 AAGTAAGGCAATATTT-GCGTTTGGAAATTTGAGAGAATGTGCCCTAACATGCTGGGTCTCAATT
1 AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
*
30198093 TCTCGTTTGACCAAATAGCCAAATATC
66 TCTCGTTTGACCAAACAGCCAAATATC
30198120 TTCTTAACTT
Statistics
Matches: 286, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
105 66 0.23
106 211 0.74
107 9 0.03
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (107 bp):
AAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATT
TCTCGTTTGACCAAACAGCCAAATATCCTTTTTAAACTTTTA
Found at i:30206171 original size:40 final size:40
Alignment explanation
Indices: 30206096--30206171 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
30206086 GTTTGGACAA
* *
30206096 AAAATGCTGCTAAAAATTGAGCATTAGTGGCGCTTTATGG
1 AAAATGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATGG
* * *
30206136 AAAATGCCGCTAAAGATTGAGCATTTGCGGTGCTTT
1 AAAATGCCGCTAAAAATTGAGCATTAGCGGCGCTTT
30206172 TCAGAACACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (40 bp):
AAAATGCCGCTAAAAATTGAGCATTAGCGGCGCTTTATGG
Found at i:30206351 original size:28 final size:28
Alignment explanation
Indices: 30206305--30206362 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
30206295 CGCTAATGCT
* *
30206305 CGGTGCTTTAGCAGTGTTTTTGAAAAAG
1 CGGTGCTTTAACAGCGTTTTTGAAAAAG
* *
30206333 CGGTGCTTTAACGGCGTTTTTGGAAAAG
1 CGGTGCTTTAACAGCGTTTTTGAAAAAG
30206361 CG
1 CG
30206363 CCGCTAATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (28 bp):
CGGTGCTTTAACAGCGTTTTTGAAAAAG
Found at i:30206394 original size:41 final size:40
Alignment explanation
Indices: 30206336--30206522 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 40
30206326 GAAAAAGCGG
*
30206336 TGCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGA
1 TGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGA
*
30206377 TGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTC-A
1 TGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGA
* *
30206417 GTGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGG
1 -TGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGA
* *
30206459 TGCTTTAGCGGCGTTTTT-ACAGAAGTGCCGCTAATGCTCGG
1 TGCTTTAGCGGCGTTTTTGA-A-AAGCGCCGCTAATGCTCGA
30206500 TGCTTTAGCGGCGTTTTTGAAAA
1 TGCTTTAGCGGCGTTTTTGAAAA
30206523 TGCACCGCAA
Statistics
Matches: 136, Mismatches: 5, Indels: 11
0.89 0.03 0.07
Matches are distributed among these distances:
40 7 0.05
41 128 0.94
42 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (40 bp):
TGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGA
Found at i:30206476 original size:82 final size:81
Alignment explanation
Indices: 30206335--30206522 Score: 288
Period size: 82 Copynumber: 2.3 Consensus size: 81
30206325 TGAAAAAGCG
*
30206335 GTGCTTTAACGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTTGA-AG
1 GTGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTT-ACAG
30206399 AAGCGCCGCTAATGCTCA
64 AAGCGCCGCTAATGCTCA
* * *
30206417 GTGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCGGTGCTTTAGCGGCGTTTTTACAGA
1 GTGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTTACAGA
* *
30206482 AGTGCCGCTAATGCTCG
65 AGCGCCGCTAATGCTCA
30206499 GTGCTTTAGCGGCGTTTTTGAAAA
1 GTGCTTTAGCGGCGTTTTTGAAAA
30206523 TGCACCGCAA
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
81 6 0.06
82 91 0.94
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (81 bp):
GTGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGATGCTTTAGCGGCATTTTTACAGAA
GCGCCGCTAATGCTCA
Found at i:30206925 original size:21 final size:22
Alignment explanation
Indices: 30206901--30206956 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
30206891 TAGGGATTAT
*
30206901 GGTTTATGATTTAAGGGCT-GG
1 GGTTTATGATTTAAAGGCTAGG
* * *
30206922 GGTTTAAGGTTTAAAGGTTAGG
1 GGTTTATGATTTAAAGGCTAGG
*
30206944 GGTTTCTGATTTA
1 GGTTTATGATTTA
30206957 TGGTTGAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.21, C:0.04, G:0.34, T:0.41
Consensus pattern (22 bp):
GGTTTATGATTTAAAGGCTAGG
Found at i:30207147 original size:22 final size:22
Alignment explanation
Indices: 30207122--30207164 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30207112 GAGTTACTAT
*
30207122 CTTAAGGTTTATGGATTATGGG
1 CTTAAGGATTATGGATTATGGG
* *
30207144 CTTAGGGATTATGGTTTATGG
1 CTTAAGGATTATGGATTATGG
30207165 TTTAAGGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.33, T:0.42
Consensus pattern (22 bp):
CTTAAGGATTATGGATTATGGG
Found at i:30207187 original size:16 final size:16
Alignment explanation
Indices: 30207166--30207196 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30207156 GGTTTATGGT
30207166 TTAAGGGTTAGGGGTA
1 TTAAGGGTTAGGGGTA
30207182 TTAAGGGTTAGGGGT
1 TTAAGGGTTAGGGGT
30207197 TTATGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (16 bp):
TTAAGGGTTAGGGGTA
Found at i:30207213 original size:7 final size:7
Alignment explanation
Indices: 30207145--30207235 Score: 60
Period size: 7 Copynumber: 12.6 Consensus size: 7
30207135 GATTATGGGC
*
30207145 TTAGGGA
1 TTAGGGT
*
30207152 TTATGGT
1 TTAGGGT
*
30207159 TTATGGT
1 TTAGGGT
30207166 TTAAGGG-
1 TT-AGGGT
30207173 TTAGGGGT
1 TTA-GGGT
30207181 ATTAAGGG-
1 -TT-AGGGT
30207189 TTAGGGGT
1 TTA-GGGT
* *
30207197 TTATGAT
1 TTAGGGT
30207204 TTAGGGT
1 TTAGGGT
*
30207211 TTAGGGA
1 TTAGGGT
*
30207218 TAAGGGT
1 TTAGGGT
30207225 TTAGGGT
1 TTAGGGT
30207232 TTAG
1 TTAG
30207236 ATTAATTAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
6 2 0.03
7 52 0.79
8 6 0.09
9 5 0.08
10 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (7 bp):
TTAGGGT
Found at i:30207256 original size:242 final size:248
Alignment explanation
Indices: 30206749--30207322 Score: 824
Period size: 242 Copynumber: 2.3 Consensus size: 248
30206739 CATTATTGAT
*
30206749 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGCAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
* *
30206814 AATATTGAATTAATTATCATATAGTTTAGGGTTTAAGGTTTAGGAGTTACTTTCTTAAGGTTTAT
66 AATATTAAATTAATTATCATATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTAT
*
30206879 GGATCATGGGTTTAGGGATTATGGTTTATGATTTAAGGGCTGGGGTTTAAGGTTTAAAGGTTAGG
131 GGATCATGGGCTTAGGGATTATGGTTTATGATTTAAGGGCTGGGG-TTAA-G-TTAAAGGTTAGG
*
30206944 GGTTTCTGATTTATGGTTGAATGGATAGGGGATAGTGGTTTAAGGTTGAGATTAATTAG
193 GGTTTATGATTTATGG-TG-AT-GATAGGGGATAGTGGTTTAAGGTTGAGATTAATTAG
*
30207003 TGTTATTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
*
30207068 AATATTAAATTAATTATCATTATAGTTTTGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTA
66 AATATTAAATTAATTATCA-TATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTA
* * * *
30207133 TGGATTATGGGCTTAGGGATTATGGTTTATGGTTTAAGGGTTAGGGG-T-A-TTAAGGGTTAGGG
130 TGGATCATGGGCTTAGGGATTATGGTTTATGATTTAAGGGCT-GGGGTTAAGTTAAAGGTTAGGG
* * *
30207195 GTTTATGATTTA-GG-G-T-TTA-GGGATAAG-GGTTTAGGGTTTAGATTAATTAG
194 GTTTATGATTTATGGTGATGATAGGGGAT-AGTGGTTTAAGGTTGAGATTAATTAG
* * * *
30207245 TGTTTTTTAATTTATATGTTAAATAATTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAT
1 TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
*
30207310 TATATTAACATTA
66 AATATTAA-ATTA
30207323 TGATTATAGT
Statistics
Matches: 296, Mismatches: 20, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
242 93 0.31
243 8 0.03
245 1 0.00
247 1 0.00
249 2 0.01
250 23 0.08
253 1 0.00
254 82 0.28
255 81 0.27
256 4 0.01
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (248 bp):
TGTTTTTTAATTTATATATTAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAA
AATATTAAATTAATTATCATATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAAGGTTTAT
GGATCATGGGCTTAGGGATTATGGTTTATGATTTAAGGGCTGGGGTTAAGTTAAAGGTTAGGGGT
TTATGATTTATGGTGATGATAGGGGATAGTGGTTTAAGGTTGAGATTAATTAG
Found at i:30209703 original size:43 final size:43
Alignment explanation
Indices: 30209628--30209815 Score: 288
Period size: 43 Copynumber: 4.3 Consensus size: 43
30209618 AAAACAGGTT
* * * *
30209628 TTTAGCGGTGCTTTTTAGCACAAATGCTGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCA-CACAAACGCCGCTATAGACCATGACC
*
30209672 TTTAGTGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
*
30209715 TTTAGCGGCGCTTTTC-CAACAAACGCCGTTATAGACCATGACC
1 TTTAGCGGCGCTTTTCAC-ACAAACGCCGCTATAGACCATGACC
*
30209758 TTTAGCGGCACTTTTCACACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
30209801 TTTAGCGGCGCTTTT
1 TTTAGCGGCGCTTTT
30209816 GTCACATGCT
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 116 0.88
44 15 0.11
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCACACAAACGCCGCTATAGACCATGACC
Found at i:30211940 original size:14 final size:15
Alignment explanation
Indices: 30211914--30211942 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30211904 TTTAACCCCT
30211914 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
30211929 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
30211943 TAACTGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:30212899 original size:41 final size:42
Alignment explanation
Indices: 30212811--30212900 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 42
30212801 GAGTATCAGT
* * *
30212811 GGCGCTTTTTAAAAAAACGTCGCTAAAACCCTGAGCATTAGT
1 GGCGCTTTTTAAAAAAACGTCGCCAAAACCCCGAGCATTAGC
* * * * *
30212853 AGCGCTTTTT-CATAAACGTCTCCAAAGCCCCGAGCATTAGC
1 GGCGCTTTTTAAAAAAACGTCGCCAAAACCCCGAGCATTAGC
30212894 GGCGCTT
1 GGCGCTT
30212901 CGCGTTTCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 30 0.77
42 9 0.23
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (42 bp):
GGCGCTTTTTAAAAAAACGTCGCCAAAACCCCGAGCATTAGC
Found at i:30213782 original size:86 final size:86
Alignment explanation
Indices: 30213669--30213919 Score: 283
Period size: 86 Copynumber: 2.9 Consensus size: 86
30213659 TAAAAATTGA
* * * *
30213669 AAATTGAAAATTTAGTCTGCTTGTTGGTAAATGCATGAACTTGAACCATTTATTTTTGCTAATTT
1 AAATTGAAAAATTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTT
* *
30213734 GTTGCATATAAGTTGTTATA-
66 GTTGCATATAAATCGTTATAG
* *
30213754 AATATTGAAAAATTAGTCTGATTTTTGGTAAATACATGAACTTGAACCATTGATTTTTGTTAATT
1 AA-ATTGAAAAATTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAATT
30213819 TGTTGCATATAAATCGTTATAG
65 TGTTGCATATAAATCGTTATAG
* * * ** * * *
30213841 AAATTGAAGATTTAGCCCT-ATTGCCGGTAAATATATGAACTACGAA-TAGTTGATTTTTGCTAA
1 AAATTGAAAAATTAG-TCTGATTGTTGGTAAATACATGAACT-TGAACCA-TTGATTTTTGCTAA
* *
30213904 TTTGTTTCACATAAAT
63 TTTGTTGCATATAAAT
30213920 TGTTGTAAGA
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
85 2 0.01
86 105 0.74
87 34 0.24
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (86 bp):
AAATTGAAAAATTAGTCTGATTGTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAATTT
GTTGCATATAAATCGTTATAG
Found at i:30213934 original size:40 final size:40
Alignment explanation
Indices: 30213889--30214014 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
30213879 ACTACGAATA
* * * * *
30213889 GTTGATTTTTGCTAATTTGTTTCACATAAATTGTTGTAA-
1 GTTGATTTTTGATAATTTCTTGCACATAAATTATTGAAAT
* * *
30213928 GATTGATTTGTGTTAATTTCTTGCATATAAATTATTGAAAT
1 G-TTGATTTTTGATAATTTCTTGCACATAAATTATTGAAAT
* * * *
30213969 GTTGATTTTTGATAATTCCTTACATATTAAA-TATTGAAGT
1 GTTGATTTTTGATAATTTCTTGCACA-TAAATTATTGAAAT
30214009 GTTGAT
1 GTTGAT
30214015 ATTCAAGCTA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 66 0.92
41 5 0.07
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.49
Consensus pattern (40 bp):
GTTGATTTTTGATAATTTCTTGCACATAAATTATTGAAAT
Found at i:30216081 original size:43 final size:43
Alignment explanation
Indices: 30216034--30216343 Score: 274
Period size: 43 Copynumber: 7.2 Consensus size: 43
30216024 GAACCATACT
* *
30216034 TTTAGCGGCGTTTGTGATAAAAGCACCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGTTC
* *
30216077 TTTAGCGGCGTTTATGGGT-AAAGCGCTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGATCATGTTC
* * * *
30216120 TTTAGCGGCGTTCGTTGGTAAAA-TGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTG-TGGTAAAAGCGCCGCTAAAGATCATGTTC
* *
30216163 TTTAGCAGCGTTTGTGGGT-AAAGCACCGCTAAA-ACTCATGTTC
1 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGA-TCATGTTC
* * * *
30216206 TATAGCAGCGTTTGTAGG-AAAACCGCCGCTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGT-GGTAAAAGCGCCGCTAAAGA-TCATGTTC
* * * * * *
30216249 TATAGCGGCATTTGTGGGAAAAGCGCTGTTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGA-TCATGTTC
* * * * **
30216292 TATAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGTTC
30216335 TTTAGCGGC
1 TTTAGCGGC
30216344 ATTTTTGTAC
Statistics
Matches: 224, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
42 6 0.03
43 212 0.95
44 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCATGTTC
Found at i:30216255 original size:129 final size:129
Alignment explanation
Indices: 30216034--30216331 Score: 320
Period size: 129 Copynumber: 2.3 Consensus size: 129
30216024 GAACCATACT
* * * * *
30216034 TTTAGCGGCGTTTGT-GATAAAAGCACCGCTAAAGATCATGTTCTTTAGCGGCGTTTATGGGTAA
1 TTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAAGATCATGTTCTATAGCAGCGTTTATAGGAAA
* * * * * * * *
30216098 AGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTCGTTGGTAAAATGC-CT-CTAAAGGTCATGT
65 ACCGCCGCTAAAGATCATGATCTATAGCGGCATTCG-TGGGAAAA-GCGCTGCTAAAAGTCATGA
30216161 TC
128 TC
* *
30216163 TTTAGCAGCGTTTGTGGGTAAAGCACCGCTAAA-ACTCATGTTCTATAGCAGCGTTTGTAGGAAA
1 TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGA-TCATGTTCTATAGCAGCGTTTATAGGAAA
* *
30216227 ACCGCCGCTAAA-AGTCATGATCTATAGCGGCATTTGTGGGAAAAGCGCTGTTAAAAGTCATGAT
65 ACCGCCGCTAAAGA-TCATGATCTATAGCGGCATTCGTGGGAAAAGCGCTGCTAAAAGTCATGAT
30216291 C
129 C
* * *
30216292 TATAGCGGCGTTTGTGGG-AGAAGCGCCGCTAAAGGTCATG
1 TTTAGCGGCGTTTGTGGGTA-AAGCACCGCTAAAGATCATG
30216332 ACCTTTAGCG
Statistics
Matches: 141, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
127 2 0.01
128 12 0.09
129 125 0.89
130 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (129 bp):
TTTAGCGGCGTTTGTGGGTAAAGCACCGCTAAAGATCATGTTCTATAGCAGCGTTTATAGGAAAA
CCGCCGCTAAAGATCATGATCTATAGCGGCATTCGTGGGAAAAGCGCTGCTAAAAGTCATGATC
Found at i:30216344 original size:86 final size:86
Alignment explanation
Indices: 30216036--30216347 Score: 340
Period size: 86 Copynumber: 3.6 Consensus size: 86
30216026 ACCATACTTT
** * * * * *
30216036 TAGCGGCGTTTGTGATAAAAGCACCGCTAAAGATCATGTTCTTTAGCGGCGTTTATGGGTAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAGC
*
30216101 GCTGCT-AAAGATCATGTTCTT
66 GCTGCTAAAAG-TCATGTTCTA
* * * * * * *
30216122 TAGCGGCGTTCGTTGGTAAAA-TGCCTCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGTAAAG
1 TAGCGGCGTTTG-TGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAG
* * *
30216186 CACCGCTAAAACTCATGTTCTA
65 CGCTGCTAAAAGTCATGTTCTA
* * * * * *
30216208 TAGCAGCGTTTGTAGGAAAACCGCCGCTAAAAGTCATGATCTATAGCGGCATTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAGC
* *
30216273 GCTGTTAAAAGTCATGATCTA
66 GCTGCTAAAAGTCATGTTCTA
* *
30216294 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTT
30216348 TTGTACTTTT
Statistics
Matches: 187, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
85 6 0.03
86 171 0.91
87 10 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAGC
GCTGCTAAAAGTCATGTTCTA
Found at i:30219803 original size:29 final size:29
Alignment explanation
Indices: 30219769--30219994 Score: 179
Period size: 29 Copynumber: 7.7 Consensus size: 29
30219759 TCACAATCTT
*
30219769 TTTTCATAGTTGATGGTCGTCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* * * *** * *
30219798 CTTTCATAATCGATAG-CCAAAGCTAACCC
1 TTTTCATAATTGATGGTCGTCA-CCATCCC
*
30219827 TTTTCATAATTCGAAGGTCGTCACCATCCC
1 TTTTCATAATT-GATGGTCGTCACCATCCC
* *
30219857 TTTTCATAGTTGATGGTCCTCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* * * * * *
30219886 -TTTCATAATCGATAGCCG-AAGCTATCCT
1 TTTTCATAATTGATGGTCGTCA-CCATCCC
30219914 TTTTCATAATTCGATGGTCGTCACCATCCC
1 TTTTCATAATT-GATGGTCGTCACCATCCC
* * *
30219944 TTTTCATAGTTGATAGTCATCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* *
30219973 ATTACATAATTGAGTGGTCGTC
1 TTTTCATAATTGA-TGGTCGTC
30219995 GATATGCCGT
Statistics
Matches: 146, Mismatches: 43, Indels: 15
0.72 0.21 0.07
Matches are distributed among these distances:
27 1 0.01
28 20 0.14
29 77 0.53
30 45 0.31
31 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (29 bp):
TTTTCATAATTGATGGTCGTCACCATCCC
Found at i:30219890 original size:58 final size:59
Alignment explanation
Indices: 30219769--30219991 Score: 181
Period size: 59 Copynumber: 3.8 Consensus size: 59
30219759 TCACAATCTT
* * * * * ** * *
30219769 TTTTCATAGTT-GATGGTCGTCACCATCCCCTTTCATAATCGATAG-CCAAAGCTAACCC
1 TTTTCATAATTCGATAGTCGTCACCATCCCTTTTCATAATTGATGGTCCTCA-CCATCCC
*
30219827 TTTTCATAATTCGA-AGGTCGTCACCATCCCTTTTCATAGTTGATGGTCCTCACCATCCC
1 TTTTCATAATTCGATA-GTCGTCACCATCCCTTTTCATAATTGATGGTCCTCACCATCCC
* * * * *
30219886 -TTTCATAA-TCGATAGCCG-AAGCTATCCTTTTTCATAATTCGATGGTCGTCACCATCCC
1 TTTTCATAATTCGATAGTCGTCA-CCATCCCTTTTCATAATT-GATGGTCCTCACCATCCC
* * * *
30219944 TTTTCATAGTT-GATAGTCATCACCATCCCATTACATAATTGAGTGGTC
1 TTTTCATAATTCGATAGTCGTCACCATCCCTTTTCATAATTGA-TGGTC
30219992 GTCGATATGC
Statistics
Matches: 131, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
56 1 0.01
57 22 0.17
58 38 0.29
59 65 0.50
60 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (59 bp):
TTTTCATAATTCGATAGTCGTCACCATCCCTTTTCATAATTGATGGTCCTCACCATCCC
Found at i:30219918 original size:87 final size:87
Alignment explanation
Indices: 30219769--30219982 Score: 338
Period size: 87 Copynumber: 2.4 Consensus size: 87
30219759 TCACAATCTT
*
30219769 TTTTCATAGTTGATGGTCGTCACCATCCCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCAT
1 TTTTCATAGTTGATGGTCATCACCAT-CCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCAT
30219834 AATTCGAAGGTCGTCACCATCCC
65 AATTCGAAGGTCGTCACCATCCC
* * * *
30219857 TTTTCATAGTTGATGGTCCTCACCATCCCTTTCATAATCGATAGCCGAAGCTATCCTTTTTCATA
1 TTTTCATAGTTGATGGTCATCACCATCCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCATA
*
30219922 ATTCGATGGTCGTCACCATCCC
66 ATTCGAAGGTCGTCACCATCCC
* *
30219944 TTTTCATAGTTGATAGTCATCACCATCCCATTACATAAT
1 TTTTCATAGTTGATGGTCATCACCATCCC-TTTCATAAT
30219983 TGAGTGGTCG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 84 0.72
88 33 0.28
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (87 bp):
TTTTCATAGTTGATGGTCATCACCATCCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCATA
ATTCGAAGGTCGTCACCATCCC
Found at i:30224349 original size:20 final size:20
Alignment explanation
Indices: 30224324--30224370 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
30224314 TAGCTTATAC
*
30224324 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
30224344 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
30224364 TAAGTAA
1 TAAGTAA
30224371 GTCGAGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:30224780 original size:42 final size:42
Alignment explanation
Indices: 30224721--30224815 Score: 190
Period size: 42 Copynumber: 2.3 Consensus size: 42
30224711 AGGGTTACAA
30224721 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
1 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
30224763 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
1 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
30224805 TGGCATGTATA
1 TGGCATGTATA
30224816 AGTGTTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (42 bp):
TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
Found at i:30225393 original size:42 final size:42
Alignment explanation
Indices: 30225286--30225393 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 42
30225276 AAGTCATGCA
* * * *
30225286 GTTACATGGCCTGGCACATGGGCGTGTAAGGCCATTCTGAGT
1 GTTACAAGGCCTAGCACACGGGCGTGTAAGGCCATTCCGAGT
* * *
30225328 GTTACACGACCTAGCACAGGGGCGTGTAAGGCCATTCCGAGT
1 GTTACAAGGCCTAGCACACGGGCGTGTAAGGCCATTCCGAGT
*
30225370 GTTACAAGGCCTAGCATACGGGCG
1 GTTACAAGGCCTAGCACACGGGCG
30225394 GCGGCTTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.21
Consensus pattern (42 bp):
GTTACAAGGCCTAGCACACGGGCGTGTAAGGCCATTCCGAGT
Found at i:30228339 original size:30 final size:29
Alignment explanation
Indices: 30228259--30228379 Score: 118
Period size: 29 Copynumber: 4.1 Consensus size: 29
30228249 AGCTTCGGCT
*
30228259 ATCAATTATGAAAAGGGGTGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* *
30228288 ATCAACTATGTAAAGGGATGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* ****
30228317 ATCAATTAATGAAAAAGGATGGTTTTAACC
1 ATCAATT-ATGAAAAGGGATGGTGACGACC
* * *
30228347 ATCGAA-TATGAAAAGGGACGGTTACAACC
1 ATC-AATTATGAAAAGGGATGGTGACGACC
30228376 ATCA
1 ATCA
30228380 TTTAGCACGC
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.01
29 53 0.70
30 20 0.26
31 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (29 bp):
ATCAATTATGAAAAGGGATGGTGACGACC
Found at i:30232538 original size:28 final size:28
Alignment explanation
Indices: 30232506--30232561 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30232496 TATGTGTTTT
30232506 TGGATAAAATTGAATGAATATTTCTTTA
1 TGGATAAAATTGAATGAATATTTCTTTA
30232534 TGGATAAAATTGAATGAATATTTCTTTA
1 TGGATAAAATTGAATGAATATTTCTTTA
30232562 ACTAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (28 bp):
TGGATAAAATTGAATGAATATTTCTTTA
Found at i:30232909 original size:92 final size:92
Alignment explanation
Indices: 30232797--30233450 Score: 893
Period size: 92 Copynumber: 7.1 Consensus size: 92
30232787 CGAATTCGAA
* * * * *
30232797 TTGTTTATAGTTATACATTGTCGAAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
30232862 ATATGATTGTACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
*
30232889 TTGTATATGGTTATACATTGTTGAAATTGAATTTTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
30232954 ATATGATTATACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * *
30232981 TTTTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * * *
30233046 ACATAACTGTACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * *
30233073 TTGTATATGGTTATACATTGTTGAAATTGCATTGTATATGGATATAAGTTCCCGAATTGATTCGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
30233138 ATAT-AGTTGTACATTGTTGAAATTAAT
66 ATATGA-TTATACATTGCTGAAATTAAT
*
30233165 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTAGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
30233230 ATATGATTATATATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * * **
30233257 TTGTACATGGTTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCTGAATTGATTCAT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
30233322 ATATGGTTATACATTGCTGAATTTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * * * * *
30233349 TTGTATATGATTATACATTGCTGAACTTG-ATTCGTATATGGGTTGTACA-TTGCTGAATTGATT
1 TTGTATATGGTTATACATTGTTGAAATTGAATT-GTATAT-GGATATA-AGTTGCCGAATTGATT
* * **
30233412 TGTATATAGA-TATACATTGCAGAATTTGGT
63 TGTATAT-GATTATACATTGCTGAAATTAAT
30233442 TTGTATATG
1 TTGTATATG
30233451 AATATATATA
Statistics
Matches: 503, Mismatches: 53, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
91 3 0.01
92 447 0.89
93 51 0.10
94 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (92 bp):
TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
ATATGATTATACATTGCTGAAATTAAT
Found at i:30233464 original size:33 final size:31
Alignment explanation
Indices: 30232722--30233476 Score: 391
Period size: 31 Copynumber: 24.7 Consensus size: 31
30232712 ATATATGTTT
**
30232722 TATACATTGCTGAATTTGATTAAT-TATAGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
*
30232752 TATACATTACTGAATTTGA-TTGT-T-T---
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * * * *
30232777 TATATATT-CTCGAATTCGAATTGTTTATAGT
1 TATACATTGCT-GAATTTGATTTGTATATAGA
* * *
30232808 TATACATTG-TCGAAATTGATTTGCATATGGA
1 TATACATTGCT-GAATTTGATTTGTATATAGA
*
30232839 TATA-AGTTGCCGAA-TTGATTTGTATAT-GA
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * *
30232868 TTGTACATTGCTGAAATTAATTTGTATATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
* * *
30232900 TATACATTGTTGAAATTGAATTT-TATATGGA
1 TATACATTGCTGAATTTG-ATTTGTATATAGA
*
30232931 TATA-AGTTGCCGAA-TTGATTTGTATAT-GA
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * * *
30232960 TTATACATTGCTGAAATTAATTTTTACATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
** * * *
30232992 TATACATTATTGAAATTGAATTGTATATGGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* *
30233023 TATA-AGTTGCCGAA-TTGATTTGTACATA-A
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * *
30233052 CTGTACATTGCTGAAATTAATTTGTATATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
* * *
30233084 TATACATTGTTGAAATTGCA-TTGTATATGGA
1 TATACATTGCTGAATTTG-ATTTGTATATAGA
* * * *
30233115 TATA-AGTTCCCGAA-TTGATTCGTATATAGT
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * * *
30233145 TGTACATTGTTGAAATTAATTTGTATATGGT
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * * *
30233176 TATACATTGTTGAAATTGAATTGTATATGGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* *
30233207 TATA-AGTAGCCGAA-TTGATTTGTATAT-GA
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * * *
30233236 TTATATATTGCTGAAATTAATTTGTACATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
* * * * *
30233268 TATACATTGTTGAAATTGAATAGTATATGGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
** * *
30233299 TATA-AGTTGCTGAA-TTGATTCATATATGGT
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
*
30233329 TATACATTGCTGAATTTAATTTGTATAT-GA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * * *
30233359 TTATACATTGCTGAACTTGATTCGTATATGGGT
1 -TATACATTGCTGAATTTGATTTGTATAT-AGA
*
30233392 TGTACATTGCTGAA-TTGATTTGTATATAGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * *
30233422 TATACATTGCAGAATTTGGTTTGTATATGAATA
1 TATACATTGCTGAATTTGATTTGTATAT--AGA
*
30233455 TATATATTGCTGAA-TTGATTTG
1 TATACATTGCTGAATTTGATTTG
30233477 AGCATTGGAT
Statistics
Matches: 570, Mismatches: 110, Indels: 88
0.74 0.14 0.11
Matches are distributed among these distances:
24 2 0.00
25 14 0.02
26 4 0.01
27 1 0.00
28 2 0.00
29 15 0.03
30 165 0.29
31 324 0.57
32 28 0.05
33 15 0.03
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
TATACATTGCTGAATTTGATTTGTATATAGA
Found at i:30241633 original size:25 final size:25
Alignment explanation
Indices: 30241605--30241658 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
30241595 TAATTATAGA
*
30241605 TATAAATTGTCGAATTTG-ATTGTT
1 TATAAATTGCCGAATTTGAATTGTT
*
30241629 T-TATATTTGCCGAATTTGAATTGTT
1 TATA-AATTGCCGAATTTGAATTGTT
30241654 TATAA
1 TATAA
30241659 TTATACATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 13 0.52
25 8 0.32
26 2 0.08
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.50
Consensus pattern (25 bp):
TATAAATTGCCGAATTTGAATTGTT
Found at i:30241737 original size:61 final size:60
Alignment explanation
Indices: 30241629--30242324 Score: 358
Period size: 61 Copynumber: 11.4 Consensus size: 60
30241619 TTTGATTGTT
* * * * *
30241629 TTATATTTGCCGAATTTGAATTGTTTATAATTATACATTGCCT-AAATTGATTTGCATATGG
1 TTATAATTGCCGAA-TTGATTTGTATATGATTATACATTG-CTGAAATTGATTTGTATATGG
* * * * **
30241690 ATATAAGTTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTTTATATAT
1 TTATAA-TTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
**** * *
30241751 TTATACATTATTAAAATTGAATTGTATATGGA-TATA-AGTTGAC-G-AATTGATTTGTATATGT
1 TTATA-ATT-GCCGAATTGATTTGTATAT-GATTATACA-TTG-CTGAAATTGATTTGTATATGG
* * * * * ** *
30241812 TTATACGTTGCTGAAATTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGG
1 TTATA-ATTGCCG-AATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
* * * * * * *
30241874 ATATAAGTTGTCAAATTGATTTATATATAATTGTACATTGCTGAAATTAATTTGTATATGG
1 TTATAA-TTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
** * * * * *
30241935 TTATACATTGTTGAAATTGAATTGTATATGGA-TATA-AGTGGTCG-AATTGATTCGTATTTGG
1 TTATA-ATTGCCG-AATTGATTTGTATAT-GATTATACATTGCT-GAAATTGATTTGTATATGG
* * * * * * * * *
30241996 TTGTACATTGCTGAAATTAATTT-AATATGGTTATACATTGTTAAAATTGAATTGTATATCG
1 TTATA-ATTGCCG-AATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
* * * * *
30242057 ATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTGAAATTAATTTGTACATGG
1 TTAT-AATTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
** * * * * *
30242118 TTATACATTGTTGAAATTGAATAGTATATGGA-TATA-AGTTGCCG-AATTTATTCGTATATGG
1 TTATA-ATTGCCG-AATTGATTTGTATAT-GATTATACA-TTGCTGAAATTGATTTGTATATGG
** * * * *
30242179 TTATACATTGTTGAATTTAATTTGTATATGATTATACATAGC-CAAACTTGATTCGTATATGG
1 TTATA-ATTGCCGAA-TTGATTTGTATATGATTATACATTGCTGAAA-TTGATTTGTATATGG
* * * * * * * *
30242241 TTGTACATTGCTGAATTAATTTGTATATAGA-TATACATTGCCGAATTTGGTTCGTATATGA
1 TTATA-ATTGCCGAATTGATTTGTATAT-GATTATACATTGCTGAAATTGATTTGTATATGG
* *
30242302 ATATATATTGCTGAATTGATTTG
1 TTATA-ATTGCCGAATTGATTTG
30242325 AGCATTGGAT
Statistics
Matches: 487, Mismatches: 115, Indels: 66
0.73 0.17 0.10
Matches are distributed among these distances:
59 1 0.00
60 24 0.05
61 331 0.68
62 125 0.26
63 6 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (60 bp):
TTATAATTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
Found at i:30241758 original size:31 final size:31
Alignment explanation
Indices: 30241659--30242281 Score: 415
Period size: 31 Copynumber: 20.4 Consensus size: 31
30241649 TTGTTTATAA
* *
30241659 TTATACATTGCCT-AAATTGATTTGCATATGG
1 TTATACATTG-CTGAAATTAATTTGTATATGG
* * * *
30241690 ATATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
* * **
30241720 TTGTACATTGCTGAAATTAATTTTTATATAT
1 TTATACATTGCTGAAATTAATTTGTATATGG
** *
30241751 TTATACATTATTAAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * *
30241782 ATATA-AGTTGAC-G-AATTGATTTGTATATGT
1 TTATACA-TTG-CTGAAATTAATTTGTATATGG
* *
30241812 TTATACGTTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
**
30241843 TTATACATTATTGAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * **
30241874 ATATA-AGTTG-TCAAATTGATTTATATATAA
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
*
30241904 TTGTACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
*
30241935 TTATACATTGTTGAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * *
30241966 ATATA-AGTGGTCG-AATTGATTCGTATTTGG
1 TTATACATTGCT-GAAATTAATTTGTATATGG
* *
30241996 TTGTACATTGCTGAAATTAATTT-AATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* * *
30242026 TTATACATTGTTAAAATTGAA-TTGTATATCG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * *
30242057 ATATAAATTGCCG-AATTGATTTGTACATGA
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
30242087 TTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
30242118 TTATACATTGTTGAAATTGAA-TAGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * *
30242149 ATATA-AGTTGCCG-AATTTATTCGTATATGG
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
* * *
30242179 TTATACATTGTTGAATTTAATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGG
* * * *
30242210 TTATACATAGC-CAAACTTGATTCGTATATGG
1 TTATACATTGCTGAAA-TTAATTTGTATATGG
* *
30242241 TTGTACATTGCTG-AATTAATTTGTATATAG
1 TTATACATTGCTGAAATTAATTTGTATATGG
*
30242271 ATATACATTGC
1 TTATACATTGC
30242282 CGAATTTGGT
Statistics
Matches: 447, Mismatches: 113, Indels: 65
0.72 0.18 0.10
Matches are distributed among these distances:
29 6 0.01
30 175 0.39
31 258 0.58
32 8 0.02
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGG
Found at i:30241770 original size:92 final size:92
Alignment explanation
Indices: 30241659--30242281 Score: 745
Period size: 92 Copynumber: 6.8 Consensus size: 92
30241649 TTGTTTATAA
* * * *
30241659 TTATACATTGCCT-AAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTG
1 TTATACATTG-TTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* **
30241723 TACATTGCTGAAATTAATTTTTATATAT
65 TACATTGCTGAAATTAATTTGTATATGG
* * * *
30241751 TTATACATTATTAAAATTGAATTGTATATGGATATAAGTTGACGAATTGATTTGTATATGTTTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* *
30241816 ACGTTGCTGAAATTAATTTGTACATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * * * *
30241843 TTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCAAATTGATTTATATATAATTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
30241908 ACATTGCTGAAATTAATTTGTATATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * * * *
30241935 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTGGTCGAATTGATTCGTATTTGGTTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
*
30242000 ACATTGCTGAAATTAATTT-AATATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * *
30242026 TTATACATTGTTAAAATTGAATTGTATATCGATATAAATTGCCGAATTGATTTGTACATGATTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* *
30242091 ATATTGCTGAAATTAATTTGTACATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * *
30242118 TTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTATATGGTTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* * *
30242183 ACATTGTTGAATTTAATTTGTATATGA
66 ACATTGCTGAAATTAATTTGTATATGG
* ** * * * *
30242210 TTATACATAG-CCAAACTTG-ATTCGTATATGGTTGTACA-TTGCTGAATTAATTTGTATATAGA
1 TTATACATTGTTGAAA-TTGAATT-GTATATGGATATA-AGTTGCCGAATTGATTTGTATAT-GA
30242272 -TATACATTGC
62 TTATACATTGC
30242282 CGAATTTGGT
Statistics
Matches: 458, Mismatches: 67, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
91 85 0.19
92 371 0.81
93 2 0.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (92 bp):
TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
ACATTGCTGAAATTAATTTGTATATGG
Found at i:30242101 original size:275 final size:276
Alignment explanation
Indices: 30241649--30242217 Score: 809
Period size: 275 Copynumber: 2.1 Consensus size: 276
30241639 CGAATTTGAA
* * * * *
30241649 TTGTTTATAATTATACATTGCCTAAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGATTATACATTGCCTAAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCGT
* *
30241714 ATATGATTGTACATTGCTGAAATTAATTTTTATATATTTATACATTATTAAAATTGAATTGTATA
66 ATATGATTGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATTGAATTGTATA
* * * * *
30241779 TGGATATAAGTTGACGAATTGATTTGTATATGTTTATACGTTGCTGAAATTAATTTGTACATGGT
131 TCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTACATGGT
* * * *
30241844 TATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCAAATTGATTTATATATAATTGTA
196 TATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATATATAATTATA
30241909 CATTGCTGAAATTAAT
261 CATTGCTGAAATTAAT
* * * *
30241925 TTGTATATGGTTATACATTG-TTGAAATTGAATTGTATATGGATATAAGTGGTCGAATTGATTCG
1 TTGTATATGATTATACATTGCCT-AAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCG
* * * *
30241989 TATTTGGTTGTACATTGCTGAAATTAA-TTTAATATGGTTATACATTGTTAAAATTGAATTGTAT
65 TATATGATTGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATTGAATTGTAT
* *
30242053 ATCGATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTGAAATTAATTTGTACATGG
130 ATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTACATGG
* * * * **
30242118 TTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTATATGGTTAT
195 TTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATATATAATTAT
* *
30242183 ACATTGTTGAATTTAAT
260 ACATTGCTGAAATTAAT
30242200 TTGTATATGATTATACAT
1 TTGTATATGATTATACAT
30242218 AGCCAAACTT
Statistics
Matches: 257, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
275 179 0.70
276 78 0.30
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (276 bp):
TTGTATATGATTATACATTGCCTAAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCGT
ATATGATTGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATTGAATTGTATA
TCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTACATGGT
TATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATATATAATTATA
CATTGCTGAAATTAAT
Found at i:30242280 original size:275 final size:272
Alignment explanation
Indices: 30241635--30242281 Score: 794
Period size: 275 Copynumber: 2.3 Consensus size: 272
30241625 TGTTTTATAT
* * * *
30241635 TTGCCGAATTTGAA-TTGTTTATAATTATACATTGCCTAAATTGATTTGCATATGGATATAAGTT
1 TTGCTGAATTT-AATTTGTATATGATTATACATTGCC-AAATTGA-TTGTATATGGATATAA-TT
* * *
30241699 GCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTTTATATATTTATACATTATTA
62 GCTGAATTGATTTGTATATGA-TGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTA
* * * * *
30241764 AAATTGAATTGTATATGGATATAAGTTGACGAATTGATTTGTATATGTTTATACGTTGCTGAAAT
126 AAATTGAATTGTATATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAAT
* *
30241829 TAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCAAATTGAT
191 TAATTTGTACATGGTTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGAT
* *
30241894 TTATATATAATTGTACA
256 TCATATATAATTATACA
* * ** * *
30241911 TTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTGG
1 TTGCTGAATTTAATTTGTATATGATTATACATTG-CCAAATTG-ATTGTATATGGATATAATTGC
* * * * *
30241976 TCGAATTGATTCGTATTTGGTTGTACATTGCTGAAATTAA-TTTAATATGGTTATACATTGTTAA
64 T-GAATTGATTTGTATAT-GATGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAA
* *
30242040 AATTGAATTGTATATCGATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTGAAATT
127 AATTGAATTGTATATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATT
* * *
30242105 AATTTGTACATGGTTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATT
192 AATTTGTACATGGTTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATT
* **
30242170 CGTATATGGTTATACA
257 CATATATAATTATACA
* * * *
30242186 TTGTTGAATTTAATTTGTATATGATTATACATAGCCAAACTTGATTCGTATATGGTTGTACATTG
1 TTGCTGAATTTAATTTGTATATGATTATACATTGCCAAA-TTGATT-GTATATGGATATA-ATTG
* *
30242251 CTGAATTAATTTGTATATAGATATACATTGC
63 CTGAATTGATTTGTATAT-GATGTACATTGC
30242282 CGAATTTGGT
Statistics
Matches: 312, Mismatches: 51, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
274 6 0.02
275 220 0.71
276 84 0.27
277 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (272 bp):
TTGCTGAATTTAATTTGTATATGATTATACATTGCCAAATTGATTGTATATGGATATAATTGCTG
AATTGATTTGTATATGATGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATT
GAATTGTATATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATT
TGTACATGGTTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATA
TATAATTATACA
Found at i:30242306 original size:31 final size:31
Alignment explanation
Indices: 30242040--30242318 Score: 133
Period size: 31 Copynumber: 9.1 Consensus size: 31
30242030 ACATTGTTAA
* *
30242040 AATTGAATT-GTATATCG-ATATAAATTGCCG
1 AATTTAATTCGTATAT-GAATATACATTGCCG
* * * * * *
30242070 AA-TTGATTTGTACATGATTATATATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * ** **
30242100 AAATTAATTTGTACATGGTTATACATTGTTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * *
30242131 AAATTGAA-TAGTATATGGATATA-AGTTGCCG
1 -AATTTAATTCGTATATGAATATACA-TTGCCG
** **
30242162 AATTT-ATTCGTATATGGTTATACATTGTTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * *
30242192 AATTTAATTTGTATATGATTATACATAGCCA
1 AATTTAATTCGTATATGAATATACATTGCCG
* * ** * *
30242223 AACTTGATTCGTATATGGTTGTACATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
*
30242254 AA-TTAATTTGTATAT-AGATATACATTGCCG
1 AATTTAATTCGTATATGA-ATATACATTGCCG
** * *
30242284 AATTTGGTTCGTATATGAATATATATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
30242315 AATT
1 AATT
30242319 GATTTGAGCA
Statistics
Matches: 191, Mismatches: 47, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
29 6 0.03
30 69 0.36
31 110 0.58
32 6 0.03
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (31 bp):
AATTTAATTCGTATATGAATATACATTGCCG
Found at i:30243487 original size:26 final size:26
Alignment explanation
Indices: 30243437--30243487 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
30243427 GGTGTTACAG
* *
30243437 TTAGTCTGGTTGATTAATTATTGGCA
1 TTAGTCTGGTTGATTAATCAATGGCA
30243463 TTAGTCTGGTTGATTAATCAATGGC
1 TTAGTCTGGTTGATTAATCAATGGC
30243488 CAAAGTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (26 bp):
TTAGTCTGGTTGATTAATCAATGGCA
Found at i:30245976 original size:39 final size:40
Alignment explanation
Indices: 30245881--30246142 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
30245871 TTGAATGATG
*
30245881 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30245919 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30245960 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
30245999 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30246038 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
30246077 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
30246116 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30246143 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30253774 original size:40 final size:40
Alignment explanation
Indices: 30253685--30253948 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
30253675 TTGAATGATG
* *
30253685 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
30253724 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
30253764 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30253803 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30253843 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30253883 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30253924 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30253949 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30253966 original size:120 final size:118
Alignment explanation
Indices: 30253685--30253981 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
30253675 TTGAATGATG
* *
30253685 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
30253745 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
30253803 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
30253868 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
30253924 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
30253982 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:30256274 original size:22 final size:22
Alignment explanation
Indices: 30256249--30256294 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
30256239 TGTGGACATG
*
30256249 CTACAACTGATTTGTAGATAAA
1 CTACAACTGAATTGTAGATAAA
* *
30256271 CTACTAGTGAATTGTAGATAAA
1 CTACAACTGAATTGTAGATAAA
30256293 CT
1 CT
30256295 GCCATTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
CTACAACTGAATTGTAGATAAA
Found at i:30261699 original size:14 final size:14
Alignment explanation
Indices: 30261680--30261713 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30261670 AATTTAATCT
30261680 AAATGAAAAGTATG
1 AAATGAAAAGTATG
*
30261694 AAATGAAATGTATG
1 AAATGAAAAGTATG
*
30261708 AGATGA
1 AAATGA
30261714 GTTTAGCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (14 bp):
AAATGAAAAGTATG
Found at i:30264064 original size:33 final size:33
Alignment explanation
Indices: 30263980--30264089 Score: 123
Period size: 33 Copynumber: 3.3 Consensus size: 33
30263970 TACTCTCTAT
*
30263980 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
* * *
30264013 TTAGTTTGTT-GATTGGATTAGCTTTTATGAGCA
1 TTGGTGTGTTGGA-TGGATTAGCTCTTATGAGCA
* * * *
30264046 TTGGTGTATTGGAGGGATTGGCTCTTGTGAGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
30264079 TCTGGTGTGTT
1 T-TGGTGTGTT
30264090 TGGTCGGACT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 51 0.82
34 10 0.16
ACGTcount: A:0.15, C:0.08, G:0.33, T:0.44
Consensus pattern (33 bp):
TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
Found at i:30273798 original size:22 final size:24
Alignment explanation
Indices: 30273755--30273799 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30273745 TTATGTAATT
*
30273755 ATTATTTTTACATTATATTTATAA
1 ATTATTTTAACATTATATTTATAA
30273779 ATTATTTTAAC-TT-TATTTATA
1 ATTATTTTAACATTATATTTATA
30273800 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTTTAACATTATATTTATAA
Found at i:30273961 original size:16 final size:15
Alignment explanation
Indices: 30273940--30273978 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30273930 GGTTCTCTTC
* *
30273940 TTTCTTTTGTTTTGTT
1 TTTCTTTTCTTTT-CT
30273956 TTTCTTTTCTTTTCT
1 TTTCTTTTCTTTTCT
30273971 TTTCTTTT
1 TTTCTTTT
30273979 AGGTTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTCTTTTCTTTTCT
Found at i:30273963 original size:5 final size:5
Alignment explanation
Indices: 30273940--30273978 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
30273930 GGTTCTCTTC
* *
30273940 TTTCT TTTGT TTTGTT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTT-CT TTTCT TTTCT TTTCT TTTCT TTT
30273979 AGGTTTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:30287075 original size:20 final size:21
Alignment explanation
Indices: 30287040--30287078 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30287030 TTAATGGTTT
*
30287040 TAAATAATTTTTGGTTAAAAA
1 TAAATAATTTTGGGTTAAAAA
30287061 TAAAT-ATTTTGGGTTAAA
1 TAAATAATTTTGGGTTAAA
30287079 TTGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTGGGTTAAAAA
Found at i:30289307 original size:17 final size:18
Alignment explanation
Indices: 30289273--30289312 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
30289263 AAAATAAGAT
30289273 AAAAAATTCTGGTAAGAAG
1 AAAAAATTC-GGTAAGAAG
*
30289292 AAAAAATTC-GTTAGAAG
1 AAAAAATTCGGTAAGAAG
30289309 AAAA
1 AAAA
30289313 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (18 bp):
AAAAAATTCGGTAAGAAG
Found at i:30289770 original size:21 final size:20
Alignment explanation
Indices: 30289740--30289778 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30289730 GTTTCTTTAA
30289740 TATTAATATAATATTTTAATT
1 TATTAATATAAT-TTTTAATT
*
30289761 TATTATTATAATTTTTAA
1 TATTAATATAATTTTTAA
30289779 AAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAATATAATTTTTAATT
Found at i:30289785 original size:21 final size:21
Alignment explanation
Indices: 30289738--30289785 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30289728 CAGTTTCTTT
30289738 AATATTAATATAATATTTTAA
1 AATATTAATATAATATTTTAA
** *
30289759 TTTATTATTATAAT-TTTTAAA
1 AATATTAATATAATATTTT-AA
30289780 AATATT
1 AATATT
30289786 TATTTATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTAATATAATATTTTAA
Found at i:30289803 original size:17 final size:17
Alignment explanation
Indices: 30289781--30289826 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
30289771 ATTTTTAAAA
30289781 ATATTTATTTATTTTAT
1 ATATTTATTTATTTTAT
*
30289798 ATATTT-TTAAATTTTAT
1 ATATTTATT-TATTTTAT
*
30289815 A-ATTTATATATT
1 ATATTTATTTATT
30289827 ATGATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:30289803 original size:29 final size:31
Alignment explanation
Indices: 30289749--30289833 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 31
30289739 ATATTAATAT
30289749 AATATTTTAATTTATTATTATAATTTTTAAA
1 AATATTTTAATTTATTATTATAATTTTTAAA
30289780 AATA-TTT-ATTTATT-TTATATATTTTT--A
1 AATATTTTAATTTATTATTATA-ATTTTTAAA
*
30289807 AAT-TTTATAATTTATATATTATGATTT
1 AATATTT-TAATTTAT-TATTATAATTT
30289834 CTTGTCAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
27 6 0.13
28 6 0.13
29 19 0.40
30 8 0.17
31 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
AATATTTTAATTTATTATTATAATTTTTAAA
Found at i:30289960 original size:51 final size:51
Alignment explanation
Indices: 30289884--30289987 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 51
30289874 TATTTCTTTA
* **
30289884 AATTTTTTAGAATTAGAATCAAATTGAGATCAAT-TGTAAATTTTGAGGGTT
1 AATTTTTTAAAATTAGAATCAAATTGAGAT-AATATGTAAAAGTTGAGGGTT
* *
30289935 AATTTTTTAAAATTATG-ATTAAATTGATATAATATGTAAAAGTTGAGGGTT
1 AATTTTTTAAAATTA-GAATCAAATTGAGATAATATGTAAAAGTTGAGGGTT
30289986 AA
1 AA
30289988 ATTTGTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
50 3 0.07
51 42 0.91
52 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.41
Consensus pattern (51 bp):
AATTTTTTAAAATTAGAATCAAATTGAGATAATATGTAAAAGTTGAGGGTT
Found at i:30310903 original size:18 final size:18
Alignment explanation
Indices: 30310880--30310922 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
30310870 ATAAATATTA
30310880 AAAAATTATTTTAAAAAT
1 AAAAATTATTTTAAAAAT
*
30310898 AAAAA-TATTTTAAAATT
1 AAAAATTATTTTAAAAAT
30310915 AAAAATTA
1 AAAAATTA
30310923 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTATTTTAAAAAT
Found at i:30310919 original size:7 final size:7
Alignment explanation
Indices: 30310890--30310948 Score: 64
Period size: 7 Copynumber: 8.1 Consensus size: 7
30310880 AAAAATTATT
30310890 TTAAAAA
1 TTAAAAA
*
30310897 TAAAAATA
1 TTAAAA-A
*
30310905 TTTTAAAA
1 -TTAAAAA
30310913 TTAAAAA
1 TTAAAAA
30310920 TTAAAAA
1 TTAAAAA
30310927 TTAAAAA
1 TTAAAAA
*
30310934 ATAAAAA
1 TTAAAAA
*
30310941 TAAAAAA
1 TTAAAAA
30310948 T
1 T
30310949 ATATATTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
7 37 0.86
8 2 0.05
9 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:30310947 original size:13 final size:13
Alignment explanation
Indices: 30310908--30310949 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
30310898 AAAAATATTT
* *
30310908 TAAAATTAAAAAT
1 TAAAAATAAAAAA
30310921 TAAAAATTAAAAAA
1 TAAAAA-TAAAAAA
30310935 TAAAAATAAAAAA
1 TAAAAATAAAAAA
30310948 TA
1 TA
30310950 TATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:30312664 original size:24 final size:24
Alignment explanation
Indices: 30312637--30312685 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
30312627 ATAATATTCT
30312637 AGTTAAACTCTGTTTATTTATTTC
1 AGTTAAACTCTGTTTATTTATTTC
*
30312661 AGTTAAACTCTGTTTATTTGTTTC
1 AGTTAAACTCTGTTTATTTATTTC
30312685 A
1 A
30312686 ATCAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (24 bp):
AGTTAAACTCTGTTTATTTATTTC
Found at i:30312692 original size:24 final size:24
Alignment explanation
Indices: 30312641--30312693 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30312631 TATTCTAGTT
* *
30312641 AAACTCTGTTTATTTATTTCAGTT
1 AAACTCTGTTTATTTATTTCAATC
*
30312665 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
30312689 AAACT
1 AAACT
30312694 TTGATTAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:30319190 original size:11 final size:11
Alignment explanation
Indices: 30319174--30319201 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30319164 AAACACAATT
30319174 AAACATGCTCA
1 AAACATGCTCA
30319185 AAACATGCTCA
1 AAACATGCTCA
30319196 AAACAT
1 AAACAT
30319202 CCAACCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (11 bp):
AAACATGCTCA
Found at i:30321772 original size:15 final size:15
Alignment explanation
Indices: 30321752--30321780 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30321742 GTATTGTTAC
30321752 TTGATAACACGGTGA
1 TTGATAACACGGTGA
30321767 TTGATAACACGGTG
1 TTGATAACACGGTG
30321781 TGTGAGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:30322776 original size:49 final size:49
Alignment explanation
Indices: 30322698--30322811 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 49
30322688 GCACTTGGCA
* ** * ** *
30322698 ACTAGGTGCCAAGCCCATGGGCTAACATCCTTCTGAAATACACCTAGGC
1 ACTAAGTGCCAAGCCCATAAGCTAACATCCCTCCAAAACACACCTAGGC
*
30322747 ACTGAA-TGCCAAGCGCATAAGCTAACATCCCTCCAAAACACACCTAGGC
1 ACT-AAGTGCCAAGCCCATAAGCTAACATCCCTCCAAAACACACCTAGGC
30322796 ACTAAGTGCCAAGCCC
1 ACTAAGTGCCAAGCCC
30322812 GAAAGCTTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.04
49 51 0.94
50 1 0.02
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (49 bp):
ACTAAGTGCCAAGCCCATAAGCTAACATCCCTCCAAAACACACCTAGGC
Found at i:30324931 original size:22 final size:22
Alignment explanation
Indices: 30324906--30324950 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
30324896 ATTGTATGTA
30324906 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATATAATTTAATT
30324928 TTAATTTATATATAATTTAATT
1 TTAATTTATATATAATTTAATT
30324950 T
1 T
30324951 GGGTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATTTAATT
Done.