Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 172 of 189
Found at i:51117963 original size:21 final size:22
Alignment explanation
Indices: 51117926--51117969 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
51117916 CAATAATTTA
51117926 TTTAATTAAATAATTATT-ATT
1 TTTAATTAAATAATTATTGATT
*
51117947 TTTAATTAAA-ATTTTATTGATT
1 TTTAATTAAATA-ATTATTGATT
51117969 T
1 T
51117970 AAGTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 15 0.75
22 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTAATTAAATAATTATTGATT
Found at i:51128390 original size:10 final size:10
Alignment explanation
Indices: 51128375--51128408 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
51128365 TAAAGTAAAT
51128375 GAAATAAAAA
1 GAAATAAAAA
51128385 GAAATAAAAA
1 GAAATAAAAA
* *
51128395 CAAAGAAAAA
1 GAAATAAAAA
51128405 GAAA
1 GAAA
51128409 GGAAAGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (10 bp):
GAAATAAAAA
Found at i:51128449 original size:11 final size:11
Alignment explanation
Indices: 51128433--51128458 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51128423 TAGAAGAGAC
51128433 GAAACAGGGGA
1 GAAACAGGGGA
51128444 GAAACAGGGGA
1 GAAACAGGGGA
51128455 GAAA
1 GAAA
51128459 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:51129141 original size:18 final size:18
Alignment explanation
Indices: 51129118--51129166 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
51129108 ATGTGAGGTA
*
51129118 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
51129136 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
51129154 ATTATTATTATTA
1 AGTATTATTATTA
51129167 TGAGTGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:51129146 original size:3 final size:3
Alignment explanation
Indices: 51129120--51129167 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
51129110 GTGAGGTAAG
* * * *
51129120 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51129168 GAGTGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:51129167 original size:12 final size:12
Alignment explanation
Indices: 51129120--51129167 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
51129110 GTGAGGTAAG
* *
51129120 TATTAATATTAG
1 TATTAGTATTAT
51129132 TATTAGTATTAT
1 TATTAGTATTAT
51129144 TATTAGTATTAT
1 TATTAGTATTAT
*
51129156 TATTATTATTAT
1 TATTAGTATTAT
51129168 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:51129362 original size:24 final size:24
Alignment explanation
Indices: 51129308--51129379 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
51129298 TGTGTGAAGT
*
51129308 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
51129331 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
51129356 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
51129380 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:51129582 original size:37 final size:39
Alignment explanation
Indices: 51129523--51129618 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
51129513 CGGATAGATT
* * * *
51129523 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
51129560 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
51129599 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
51129619 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:51130678 original size:15 final size:14
Alignment explanation
Indices: 51130658--51130696 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
51130648 GGAGAAAGAT
51130658 GTTAATTAAGGTTTA
1 GTTAATTAA-GTTTA
51130673 GTTAATTGAAGTTTA
1 GTTAATT-AAGTTTA
*
51130688 ATTAATTAA
1 GTTAATTAA
51130697 TTTTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (14 bp):
GTTAATTAAGTTTA
Found at i:51131793 original size:70 final size:70
Alignment explanation
Indices: 51131673--51131833 Score: 277
Period size: 70 Copynumber: 2.3 Consensus size: 70
51131663 CATGTGACAT
*
51131673 AGGTTTAGCCTAGACTGGTAATCTTACATGTATATTTTTAACTTAGCCAAGCAATTGAATGTGTC
1 AGGTTTAGCCTGGACTGGTAATCTTACATGTATATTTTTAACTTAGCCAAGCAATTGAATGTGTC
51131738 ATTAA
66 ATTAA
* * *
51131743 AGGTTTAGCCTGGACTAGTAATCTTACATGTATATTTTTATCTTATCCAAGCAATTGAATGTGTC
1 AGGTTTAGCCTGGACTGGTAATCTTACATGTATATTTTTAACTTAGCCAAGCAATTGAATGTGTC
51131808 ATTAA
66 ATTAA
*
51131813 ATGTTTAGCCTGGACTGGTAA
1 AGGTTTAGCCTGGACTGGTAA
51131834 CCTAACAAGA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 85 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (70 bp):
AGGTTTAGCCTGGACTGGTAATCTTACATGTATATTTTTAACTTAGCCAAGCAATTGAATGTGTC
ATTAA
Found at i:51134860 original size:26 final size:25
Alignment explanation
Indices: 51134831--51134905 Score: 78
Period size: 27 Copynumber: 2.9 Consensus size: 25
51134821 AATTTTCTAG
*
51134831 AAATTTTATCGGGGGTAAAATTGTTA
1 AAATTTTA-CGGGGGTAAAATTGTCA
**
51134857 AAATTTTACTGAGGGGTAAAATCATCA
1 AAATTTTAC-G-GGGGTAAAATTGTCA
* *
51134884 AAATTTAACTGGGGTAAAATTG
1 AAATTTTACGGGGGTAAAATTG
51134906 GGGTGGGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
25 11 0.28
26 9 0.22
27 20 0.50
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (25 bp):
AAATTTTACGGGGGTAAAATTGTCA
Found at i:51137339 original size:60 final size:60
Alignment explanation
Indices: 51137246--51137361 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
51137236 CTTATTCAAT
* * *
51137246 ATTAATTCGTTAAGTATAACTCAATGCATAACTTGTTAACATGAATTTTCTCTAATTCTG
1 ATTAATTCGTTAAGTAGAACTCAATGCATAACTTGTTAACATGAACTTTATCTAATTCTG
* *
51137306 ATTAATTCGTTAAGTAGAGCTCAATGCATAACTTTTTAACATGAACTTTATCTAAT
1 ATTAATTCGTTAAGTAGAACTCAATGCATAACTTGTTAACATGAACTTTATCTAAT
51137362 ACTAAAGATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (60 bp):
ATTAATTCGTTAAGTAGAACTCAATGCATAACTTGTTAACATGAACTTTATCTAATTCTG
Found at i:51155635 original size:18 final size:19
Alignment explanation
Indices: 51155599--51155635 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
51155589 AATCACATAT
51155599 CTATTTAATATTGTTTAAA
1 CTATTTAATATTGTTTAAA
*
51155618 CTATTTAAT-TTTTTTAAA
1 CTATTTAATATTGTTTAAA
51155636 AAATGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
CTATTTAATATTGTTTAAA
Found at i:51160628 original size:18 final size:21
Alignment explanation
Indices: 51160596--51160639 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
51160586 TCAAATTTTG
*
51160596 AAAATAATTT-TTAAAATTC-
1 AAAATAATTTATAAAAATTCT
51160615 AAAAT-ATTTATAAAAATTCT
1 AAAATAATTTATAAAAATTCT
51160635 AAAAT
1 AAAAT
51160640 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAATTTATAAAAATTCT
Found at i:51160797 original size:3 final size:3
Alignment explanation
Indices: 51160789--51160818 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
51160779 TAATGAAATA
51160789 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
51160819 GTGCTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51160803 original size:11 final size:11
Alignment explanation
Indices: 51160787--51160818 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
51160777 CATAATGAAA
51160787 TATATTATTAT
1 TATATTATTAT
51160798 TATATTATTAT
1 TATATTATTAT
51160809 TATTATTATT
1 TA-TATTATT
51160819 GTGCTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTATTAT
Found at i:51167616 original size:22 final size:22
Alignment explanation
Indices: 51167569--51167618 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
51167559 AATAACACAG
* * *
51167569 TTTTAATAAATGCAGGAAAATC
1 TTTTAATAAATGAAAGAAAATA
51167591 TTTTAATAAATGGAAAGAAAA-A
1 TTTTAATAAAT-GAAAGAAAATA
51167613 TTTTAA
1 TTTTAA
51167619 ACTGTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (22 bp):
TTTTAATAAATGAAAGAAAATA
Found at i:51184043 original size:32 final size:33
Alignment explanation
Indices: 51184006--51184087 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 33
51183996 TTACAATTAG
*
51184006 TTTGTTGGATTTTGAAA-ATATTATGTTTTAAA
1 TTTGTTGGATATTGAAATATATTATGTTTTAAA
* **
51184038 TTTGTTGGATATT-AAATTTATTATGTTTTACG
1 TTTGTTGGATATTGAAATATATTATGTTTTAAA
*
51184070 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
51184088 GATTAGCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.07
32 36 0.84
33 4 0.09
ACGTcount: A:0.28, C:0.02, G:0.17, T:0.52
Consensus pattern (33 bp):
TTTGTTGGATATTGAAATATATTATGTTTTAAA
Found at i:51185746 original size:6 final size:6
Alignment explanation
Indices: 51185735--51185761 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51185725 CTCTCTTTCC
51185735 CTCTGT CTCTGT CTCTGT CTCTGT CTC
1 CTCTGT CTCTGT CTCTGT CTCTGT CTC
51185762 AAGCCTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.37, G:0.15, T:0.48
Consensus pattern (6 bp):
CTCTGT
Found at i:51187658 original size:16 final size:16
Alignment explanation
Indices: 51187639--51187669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51187629 TATTTTAGAG
51187639 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
51187655 CATATATATTTGAAA
1 CATATAAATTTGAAA
51187670 ACTTTCTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:51187875 original size:18 final size:18
Alignment explanation
Indices: 51187840--51187901 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
51187830 TTTTTAAGAA
51187840 TTATAAAT-TTTGGAATTT
1 TTATAAATATTTGG-ATTT
51187858 TTATAAATATTTGGATTT
1 TTATAAATATTTGGATTT
* * *
51187876 GTAAAAATTATTTTGATTT
1 TTATAAA-TATTTGGATTT
51187895 TT-TAAAT
1 TTATAAAT
51187902 TTTTAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 20 0.54
19 16 0.43
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (18 bp):
TTATAAATATTTGGATTT
Found at i:51187999 original size:18 final size:18
Alignment explanation
Indices: 51187972--51188009 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51187962 CACCAATTTG
*
51187972 TTATTTGAGTT-TCTTGAA
1 TTATTCGAGTTAT-TTGAA
51187990 TTATTCGAGTTATTTGAA
1 TTATTCGAGTTATTTGAA
51188008 TT
1 TT
51188010 GTAAAGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.55
Consensus pattern (18 bp):
TTATTCGAGTTATTTGAA
Found at i:51188901 original size:4 final size:4
Alignment explanation
Indices: 51188894--51188918 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
51188884 TCTCTCTCTC
51188894 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
51188919 TGATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:51195107 original size:40 final size:42
Alignment explanation
Indices: 51195018--51195107 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
51195008 CATTTTTCGC
* * *
51195018 GAAATCGCGTCCACGTCAGCGCGATGTTAGGGTACGTGACAG
1 GAAATCGCATCCACGTCAGCGCGATCTTACGGTACGTGACAG
* *
51195060 GACATCGCATCCACGTCAGCGCGA-CTTACTG-ACGTGGA-AG
1 GAAATCGCATCCACGTCAGCGCGATCTTACGGTACGT-GACAG
51195100 GAAATCGC
1 GAAATCGC
51195108 GTCCTTGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 13 0.32
41 6 0.15
42 22 0.54
ACGTcount: A:0.26, C:0.27, G:0.30, T:0.18
Consensus pattern (42 bp):
GAAATCGCATCCACGTCAGCGCGATCTTACGGTACGTGACAG
Found at i:51195359 original size:22 final size:22
Alignment explanation
Indices: 51195289--51195359 Score: 101
Period size: 22 Copynumber: 3.2 Consensus size: 22
51195279 AAATTCAATA
*
51195289 TCAATTTCCTTCAAAAATTCTC
1 TCAAATTCCTTCAAAAATTCTC
51195311 TC-AATTCCGTTCAAAAATTCTC
1 TCAAATTCC-TTCAAAAATTCTC
51195333 TCAAATTCCTTTC-AAAATTCTC
1 TCAAATTCC-TTCAAAAATTCTC
51195355 TCAAA
1 TCAAA
51195360 CTCTCAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.11
22 31 0.69
23 9 0.20
ACGTcount: A:0.34, C:0.27, G:0.01, T:0.38
Consensus pattern (22 bp):
TCAAATTCCTTCAAAAATTCTC
Found at i:51195365 original size:30 final size:30
Alignment explanation
Indices: 51195330--51195389 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
51195320 TTCAAAAATT
* *
51195330 CTCTCAAATTCCTTTCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
51195360 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
51195390 TTCCTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:51195378 original size:11 final size:12
Alignment explanation
Indices: 51195331--51195396 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 12
51195321 TCAAAAATTC
51195331 TCTCAAATTCCT
1 TCTCAAATTCCT
51195343 T-TCAAAATT-C-
1 TCTC-AAATTCCT
51195353 TCTCAAA---C-
1 TCTCAAATTCCT
51195361 TCTCAAATTCCT
1 TCTCAAATTCCT
*
51195373 TC-CAAAATCC-
1 TCTCAAATTCCT
51195383 TCTCAAATTCCT
1 TCTCAAATTCCT
51195395 TC
1 TC
51195397 AAAAAATCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
8 8 0.18
10 6 0.14
11 20 0.45
12 10 0.23
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (12 bp):
TCTCAAATTCCT
Found at i:51195387 original size:22 final size:22
Alignment explanation
Indices: 51195360--51195401 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
51195350 TTCTCTCAAA
*
51195360 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCAAAAATC
51195382 CTCTCAAATTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
51195402 ATCTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:51195507 original size:29 final size:29
Alignment explanation
Indices: 51195447--51195507 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
51195437 AATTTCATTA
* * *
51195447 TTTTAAGAAAATTTTAAATTTTTTATTTT
1 TTTTAAGAAAATTTTAAAATTTTTAATAT
51195476 TTTTAA-AATAATTTTAAAATTTTTAATAT
1 TTTTAAGAA-AATTTTAAAATTTTTAATAT
51195505 TTT
1 TTT
51195508 CAACAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTAAGAAAATTTTAAAATTTTTAATAT
Found at i:51195627 original size:14 final size:15
Alignment explanation
Indices: 51195598--51195631 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
51195588 AAATTTTAAA
51195598 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
51195613 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
51195627 TTTTA
1 TTTTA
51195632 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:51197890 original size:51 final size:51
Alignment explanation
Indices: 51197776--51198495 Score: 796
Period size: 51 Copynumber: 13.6 Consensus size: 51
51197766 TTTTGACATT
* * *
51197776 ATTTGATTAAAAACCCTAACCTAACTTAATATAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATT-AAAA-----ACCCTAACCTA
*
51197833 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAATCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAA--C---CCTAACCTA
*
51197889 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
51197940 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
* * **
51197991 ATTTAGTTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCTA
*
51198043 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
* * **
51198094 ATTTAGTTAAAATCCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAATTTAATTTAATT--AAA----AACCCTAACCTA
*
51198152 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACATA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
*
51198203 ATTTAATTAAAAACCCTAA-C----TTAACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACC-----TA
51198254 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACC-----TA
* * * **
51198310 ATTTAATTAAAAACCCTAACATAATTTAGTTAAAATCT-CTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATT-TAAT-TAAAAACCCTAACCTA
*** *
51198362 ATTTAATTAAAAACCCTAACCTTAGCCTAATTTAATTAAAAATCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACC-TAATTTAATTTAATTAAAAACCCTAACC-----TA
51198419 ATTTAATTAAAAACCCTAA-C--A--TAATTTAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
*
51198465 ATTTAATTAAAAACCATAACCTAATTTAATT
1 ATTTAATTAAAAACCCTAACCTAATTTAATT
51198496 AAAAACTCTA
Statistics
Matches: 581, Mismatches: 45, Indels: 80
0.82 0.06 0.11
Matches are distributed among these distances:
46 42 0.07
47 1 0.00
49 1 0.00
50 1 0.00
51 201 0.35
52 97 0.17
53 7 0.01
54 4 0.01
55 3 0.01
56 113 0.19
57 82 0.14
58 29 0.05
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (51 bp):
ATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTA
Found at i:51198044 original size:18 final size:19
Alignment explanation
Indices: 51198022--51198068 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
51198012 CTAACCTAAT
51198022 TTAATTAAAAACCCTAACC
1 TTAATTAAAAACCCTAACC
51198041 TAATTTAATTAAAAACCCTAACC
1 ----TTAATTAAAAACCCTAACC
51198064 -TAATT
1 TTAATT
51198069 TAATTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
23 19 0.79
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (19 bp):
TTAATTAAAAACCCTAACC
Found at i:51198506 original size:18 final size:21
Alignment explanation
Indices: 51198417--51198501 Score: 98
Period size: 23 Copynumber: 3.8 Consensus size: 21
51198407 TAACCTAATT
*
51198417 TAATTTAATTAAAAACCCTAAC
1 TAATTTAATTAAAAACCAT-AC
*
51198439 ATAATTTAATTAAAAACCCTAACC
1 -TAATTTAATTAAAAACCAT-A-C
51198463 TAATTTAATTAAAAACCATAACC
1 TAATTTAATTAAAAACCAT-A-C
51198486 TAATTTAATTAAAAAC
1 TAATTTAATTAAAAAC
51198502 TCTAACCCTA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
23 59 0.98
24 1 0.02
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATTTAATTAAAAACCATAC
Found at i:51198545 original size:28 final size:28
Alignment explanation
Indices: 51197776--51198541 Score: 820
Period size: 28 Copynumber: 28.7 Consensus size: 28
51197766 TTTTGACATT
* *
51197776 ATTTGATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
* * **
51197804 ATATAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCC-TAACCTAATTTA
51197833 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
* *
51197861 ATTTAATTAAAAATCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51197889 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51197917 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51197940 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51197968 ATTTAATTAAAAACCCTAACC-----TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
* * **
51197991 ATTTAGTTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAATTTA
51198020 ATTTAATTAAAAACCCTAACC-----TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198043 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198071 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
* * **
51198094 ATTTAGTTAAAATCCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAATTTA
**
51198123 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAATTTA
51198152 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198180 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198203 ATTTAATTAAAAACCCTAA-C----TTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
*
51198226 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198254 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198282 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198310 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
* * * **
51198333 ATTTAGTTAAAATCTCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAATTTA
***
51198362 ATTTAATTAAAAACCCTAACCTTAGCCTA
1 ATTTAATTAAAAACCCTAACC-TAATTTA
*
51198391 ATTTAATTAAAAATCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198419 ATTTAATTAAAAACCCTAA-C--A--TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
51198442 ATTTAATTAAAAACCCTAACC-----TA
1 ATTTAATTAAAAACCCTAACCTAATTTA
*
51198465 ATTTAATTAAAAACCATAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAATTTA
*
51198493 A-TTAA--AAACTCTAACCCTAACATAATTTA
1 ATTTAATTAAA----AACCCTAACCTAATTTA
51198522 A-TTAATGTAAAAACCCTAAC
1 ATTTAAT-TAAAAACCCTAAC
51198542 ATAACTCAGC
Statistics
Matches: 650, Mismatches: 39, Indels: 98
0.83 0.05 0.12
Matches are distributed among these distances:
23 185 0.28
24 5 0.01
25 10 0.02
26 1 0.00
27 11 0.02
28 279 0.43
29 156 0.24
32 3 0.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAATTTA
Found at i:51203037 original size:20 final size:19
Alignment explanation
Indices: 51203004--51203089 Score: 88
Period size: 19 Copynumber: 4.4 Consensus size: 19
51202994 TTTATGAAAA
51203004 TTATA-TTTCTTTAC-ATTT
1 TTATATTTTC-TTACAATTT
51203022 TGTATAATTTTCTTACAATTT
1 T-TAT-ATTTTCTTACAATTT
*
51203043 TTATATTTTCTTACTATTT
1 TTATATTTTCTTACAATTT
*
51203062 TTATATTTT-TTTCTAATTT
1 TTATATTTTCTTAC-AATTT
51203081 TTAATATTT
1 TT-ATATTT
51203090 GAATTTTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.07
19 32 0.54
20 14 0.24
21 9 0.15
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.66
Consensus pattern (19 bp):
TTATATTTTCTTACAATTT
Found at i:51206981 original size:26 final size:26
Alignment explanation
Indices: 51206942--51207003 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
51206932 ATAAAAAATA
51206942 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
**
51206968 ATTAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
51206994 ACCAAAATAT
1 ACCAAAATAT
51207004 AAAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
ACCAAAATATTATAATTTTTTTATTT
Found at i:51207198 original size:37 final size:37
Alignment explanation
Indices: 51207148--51207218 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
51207138 CCTGATATGT
51207148 AAATTTACTATTTTAAATTTTGAAAGTGAATTGCTGC
1 AAATTTACTATTTTAAATTTTGAAAGTGAATTGCTGC
*
51207185 AAATTTACTATTTTGAATTTTGAAAGTGAATTGC
1 AAATTTACTATTTTAAATTTTGAAAGTGAATTGC
51207219 GCACTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (37 bp):
AAATTTACTATTTTAAATTTTGAAAGTGAATTGCTGC
Found at i:51207712 original size:19 final size:19
Alignment explanation
Indices: 51207688--51207783 Score: 115
Period size: 19 Copynumber: 5.2 Consensus size: 19
51207678 TCTAATTAAG
51207688 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
51207707 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
51207725 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
51207744 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
*
51207762 TAATAACTTTATTTTAATT
1 TAATAACTCTATTTTAATT
51207781 TAA
1 TAA
51207784 AAAAATTAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
18 30 0.48
19 32 0.52
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:51207717 original size:18 final size:18
Alignment explanation
Indices: 51207696--51207783 Score: 97
Period size: 18 Copynumber: 4.8 Consensus size: 18
51207686 AGTAATAACT
51207696 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* * *
51207714 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAA-A
51207733 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
51207751 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
51207768 CTTTATTTTAATTTAA
1 C--TATTTTAATTTAA
51207784 AAAAATTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
17 3 0.05
18 28 0.49
19 26 0.46
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:51207729 original size:37 final size:37
Alignment explanation
Indices: 51207688--51207783 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
51207678 TCTAATTAAG
51207688 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
51207725 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
51207762 TAATAACTTTATTTTAATTTAA
1 TAATAACTCTATTTTAATTTAA
51207784 AAAAATTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:51207906 original size:37 final size:37
Alignment explanation
Indices: 51207820--51207949 Score: 228
Period size: 37 Copynumber: 3.5 Consensus size: 37
51207810 AATTTTTAAA
*
51207820 AAATTAAAATAGAGTTATTAAATGAGAAT--TTTTTT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
51207855 AAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
1 -AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
51207893 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
51207930 AAATTAAAATAGAGTTATTA
1 AAATTAAAATAGAGTTATTA
51207950 CTTAATTAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
36 29 0.32
37 57 0.63
38 5 0.05
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
Found at i:51207954 original size:18 final size:19
Alignment explanation
Indices: 51207820--51207949 Score: 126
Period size: 19 Copynumber: 7.1 Consensus size: 19
51207810 AATTTTTAAA
51207820 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * * *
51207839 AAATGAGAAT---TTTTTT
1 AAATTAAAATAGAGTTATT
51207855 AAAATTAAAATAGAGTTATT
1 -AAATTAAAATAGAGTTATT
* * *
51207875 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
51207893 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
51207912 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
51207930 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
51207949 A
1 A
51207950 CTTAATTAAA
Statistics
Matches: 85, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
16 4 0.05
17 8 0.09
18 30 0.35
19 39 0.46
20 4 0.05
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:51208531 original size:27 final size:27
Alignment explanation
Indices: 51208490--51208541 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
51208480 CATTTTAGTC
51208490 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
51208517 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
51208542 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:51208549 original size:27 final size:27
Alignment explanation
Indices: 51208492--51208550 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
51208482 TTTTAGTCCT
*
51208492 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
51208519 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
51208546 TTGGC
1 TTGGC
51208551 CTAATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:51208624 original size:28 final size:27
Alignment explanation
Indices: 51208600--51208665 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 27
51208590 TTTTTTTGGT
51208600 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAAT-AAAAAATTTTATA
51208628 ATATTTTGGTAAATAAAAAATTTTTATA
1 ATATTTTGGTAAATAAAAAA-TTTTATA
51208656 ATATTTTGGT
1 ATATTTTGGT
51208666 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 6 0.16
28 31 0.84
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAATTTTATA
Found at i:51208956 original size:20 final size:20
Alignment explanation
Indices: 51208906--51208956 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
51208896 ATTTAATATA
*
51208906 AATATAA-ATATATATAATT
1 AATATAATATTTATATAATT
* *
51208925 ATTAT-TTAATTTATATAATT
1 AATATAAT-ATTTATATAATT
51208945 AATATAATATTT
1 AATATAATATTT
51208957 TTTTATAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
19 4 0.17
20 19 0.79
21 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATAATATTTATATAATT
Found at i:51218047 original size:39 final size:41
Alignment explanation
Indices: 51217980--51218056 Score: 140
Period size: 39 Copynumber: 1.9 Consensus size: 41
51217970 GGGAGAACCG
51217980 ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTT-CACTGTA
1 ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTTACACTGTA
51218020 ATCTTTTTGTTTTT-TAAAAAGAGGGTTTTTTTACACT
1 ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTTACACT
51218057 TTCGGGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 18 0.50
40 18 0.50
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.53
Consensus pattern (41 bp):
ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTTACACTGTA
Found at i:51218050 original size:40 final size:40
Alignment explanation
Indices: 51217980--51218056 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
51217970 GGGAGAACCG
*
51217980 ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTTCACTGTA
1 ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTACACTGTA
51218020 ATCTTTTTGTTTTT-TAAAAAGAGGGTTTTTTTACACT
1 ATCTTTTTGTTTTTGTAAAAAGAGGG-TTTTTTACACT
51218057 TTCGGGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 11 0.31
40 24 0.69
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.53
Consensus pattern (40 bp):
ATCTTTTTGTTTTTGTAAAAAGAGGGTTTTTTACACTGTA
Found at i:51219107 original size:21 final size:18
Alignment explanation
Indices: 51219076--51219115 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
51219066 TCGTTTTTGT
51219076 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
51219095 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
51219115 T
1 T
51219116 GCATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:51221136 original size:50 final size:51
Alignment explanation
Indices: 51221061--51221181 Score: 208
Period size: 50 Copynumber: 2.4 Consensus size: 51
51221051 CTTACGAATG
* *
51221061 ATCACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAA-CTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
51221111 ATCACTTGCCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
51221162 ATCACTTGTCACTTGTCACT
1 ATCACTTGTCACTTGTCACT
51221182 TGTCACTGAT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 38 0.58
51 28 0.42
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:51221173 original size:7 final size:7
Alignment explanation
Indices: 51221157--51221188 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
51221147 CTAAAGCTAC
*
51221157 CACTTAT
1 CACTTGT
51221164 CACTTGT
1 CACTTGT
51221171 CACTTGT
1 CACTTGT
51221178 CACTTGT
1 CACTTGT
51221185 CACT
1 CACT
51221189 GATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:51221180 original size:14 final size:14
Alignment explanation
Indices: 51221157--51221193 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
51221147 CTAAAGCTAC
51221157 CACTTATCACTTGT
1 CACTTATCACTTGT
*
51221171 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
51221185 CACTGATCA
1 CACTTATCA
51221194 GATAAGTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:51221205 original size:28 final size:28
Alignment explanation
Indices: 51221174--51221230 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
51221164 CACTTGTCAC
51221174 TTGTCACTTGTCACTGATCAGATAAGTG
1 TTGTCACTTGTCACTGATCAGATAAGTG
51221202 TTGTCACTTGTCACTGATCAGATAAGTG
1 TTGTCACTTGTCACTGATCAGATAAGTG
51221230 T
1 T
51221231 AGCTAAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (28 bp):
TTGTCACTTGTCACTGATCAGATAAGTG
Found at i:51221258 original size:79 final size:83
Alignment explanation
Indices: 51221120--51221281 Score: 251
Period size: 86 Copynumber: 2.0 Consensus size: 83
51221110 TATCACTTGC
51221120 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTTGT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCA--T-TCACTTGTCACTTGT
51221185 CACTGATCAGATAAGTGTTGT
63 CACTGATCAGATAAGTGTTGT
* *
51221206 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC-T-T-A-TCACTTGTCACTTTTCAT
1 CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTCACTTGTCACTTGTCAC
51221267 TGATCAGATAAGTGT
66 TGATCAGATAAGTGT
51221282 AGCTGAAGCT
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
79 31 0.42
83 1 0.01
84 1 0.01
85 1 0.01
86 40 0.54
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (83 bp):
CACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCATTCACTTGTCACTTGTCAC
TGATCAGATAAGTGTTGT
Found at i:51221271 original size:137 final size:136
Alignment explanation
Indices: 51221069--51221318 Score: 428
Period size: 137 Copynumber: 1.8 Consensus size: 136
51221059 TGATCACTTA
*
51221069 TCACTTGTCCCTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTGTCACTGAT
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTGTCACTGAT
*
51221134 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACTTGTCACTGATCAGATAA
66 CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACTTGTCACTGATCAGATAA
51221199 GTGTTG
131 GTGTTG
* * *
51221205 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTTTCATTGA
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTGCCACTTGTCACTGA
* *
51221270 TCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTGCCACTTGTCACT
65 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACT
51221319 GATCAGATAA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
136 32 0.30
137 74 0.70
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (136 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTGCCACTTGTCACTGAT
CAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGCCACTTGTCACTTGTCACTGATCAGATAA
GTGTTG
Found at i:51221278 original size:51 final size:51
Alignment explanation
Indices: 51221202--51221362 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
51221192 CAGATAAGTG
*
51221202 TTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
51221253 TTGTCACTTTTCATTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC
1 TTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
51221304 TTGCCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTTATCAC
1 TTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
51221355 TTGTCACT
1 TTGTCACT
51221363 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 100 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (51 bp):
TTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:51231823 original size:73 final size:71
Alignment explanation
Indices: 51231734--51231871 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 71
51231724 AAAAAAGGGA
* * *
51231734 TTTAACTAATAAAAATAATGGTTTGCAGCTTTAAGAACCAAATTAAACTAAAAAAATCCTTCTAA
1 TTTAACTAATAAAAATAATGATTTGCAACTTTAAAAACCAAATTAAACT-AAAAAATCCTTC-AA
51231799 ATATGGGG
64 ATATGGGG
*
51231807 TTTAACTAATAGAAATAATGATTTGCAACTTTAAAAACCAAATTAAACTAAAAAATCCTTCAAAT
1 TTTAACTAATAAAAATAATGATTTGCAACTTTAAAAACCAAATTAAACTAAAAAATCCTTCAAAT
51231872 TTCAATATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 4 0.07
72 12 0.20
73 45 0.74
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (71 bp):
TTTAACTAATAAAAATAATGATTTGCAACTTTAAAAACCAAATTAAACTAAAAAATCCTTCAAAT
ATGGGG
Found at i:51233000 original size:18 final size:17
Alignment explanation
Indices: 51232977--51233038 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
51232967 TACTGTGTTT
51232977 TTTTTAAATTTTATGAAC
1 TTTTTAAATTTTAT-AAC
* *
51232995 TTTTTATATTTTCTAAC
1 TTTTTAAATTTTATAAC
*
51233012 -TTTTAACTTTTTTATAA-
1 TTTTTAA--ATTTTATAAC
51233029 TTTTTAAATT
1 TTTTTAAATT
51233039 ATTTATTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
16 7 0.20
17 3 0.09
18 25 0.71
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTTAAATTTTATAAC
Found at i:51245679 original size:32 final size:32
Alignment explanation
Indices: 51245643--51245705 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
51245633 CCACATCCAT
51245643 CACATTGGCCATTCGGCCTTATCACATATATA
1 CACATTGGCCATTCGGCCTTATCACATATATA
*
51245675 CACATTGGCCATTCGGCCTTATCTCATATAT
1 CACATTGGCCATTCGGCCTTATCACATATAT
51245706 GCATGTTCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (32 bp):
CACATTGGCCATTCGGCCTTATCACATATATA
Found at i:51245734 original size:47 final size:46
Alignment explanation
Indices: 51245675--51246141 Score: 609
Period size: 47 Copynumber: 9.9 Consensus size: 46
51245665 CACATATATA
* *
51245675 CACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACAT-TTCACATTCAT
* *
51245722 CACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACAT-TTCACATTCAT
* *
51245769 CACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACAT-TTCACATTCAT
* * *
51245816 CACATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACAT-TTCACATTCAT
* *
51245863 CACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACAT-TTCACATTCAT
51245910 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACA-TTTCACATTCAT
* *
51245957 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCAC--ATATATACA-TTTCACATTCAT
* * *
51246006 CACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACATATATACA-TTTCACATTCAT
* *
51246053 CACATCGGCCATTAGGCCTTATCACATATATATACACTTT--CA--CAT
1 CACATTGGCCATTCGGCCTTATCAC--ATATATACA-TTTCACATTCAT
*
51246098 CACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 CACATTGGCCATTCGGCCTTATCACATATATACA-TTTCACATT
51246142 TATTCAAATA
Statistics
Matches: 390, Mismatches: 21, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
43 13 0.03
45 29 0.07
47 288 0.74
48 1 0.00
49 59 0.15
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
CACATTGGCCATTCGGCCTTATCACATATATACATTTCACATTCAT
Found at i:51247658 original size:56 final size:56
Alignment explanation
Indices: 51247591--51247710 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
51247581 TATTAGTTTA
51247591 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
51247647 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
51247703 TTGCCCAT
1 TTGCCCAT
51247711 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:51257723 original size:23 final size:25
Alignment explanation
Indices: 51257697--51257759 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
51257687 TTTCTTGGTG
51257697 TTTTGATGTTGTTTTTCTA-T-T-AT
1 TTTTGATGTTGTTTTT-TACTGTCAT
* *
51257720 TTTTGCTGGTGTTGTTTTACTGTCAT
1 TTTTGATGTTGTT-TTTTACTGTCAT
*
51257746 TTTTAATGTTGTTT
1 TTTTGATGTTGTTT
51257760 CGTTATCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 13 0.42
24 4 0.13
25 2 0.06
26 12 0.39
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.65
Consensus pattern (25 bp):
TTTTGATGTTGTTTTTTACTGTCAT
Found at i:51258816 original size:16 final size:16
Alignment explanation
Indices: 51258795--51258825 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51258785 AAACTTATTA
51258795 TACATTTATTTTTCAT
1 TACATTTATTTTTCAT
51258811 TACATTTATTTTTCA
1 TACATTTATTTTTCA
51258826 CACATCTTAA
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:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (16 bp):
TACATTTATTTTTCAT
Found at i:51258830 original size:15 final size:16
Alignment explanation
Indices: 51258796--51258830 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51258786 AACTTATTAT
*
51258796 ACATTTATTTTTCATT
1 ACATTTATTTTTCATC
51258812 ACATTTATTTTTCA-C
1 ACATTTATTTTTCATC
51258827 ACAT
1 ACAT
51258831 CTTAAGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (16 bp):
ACATTTATTTTTCATC
Found at i:51260462 original size:18 final size:18
Alignment explanation
Indices: 51260439--51260480 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
51260429 ATAAAAAATA
* *
51260439 AAAAAAAATATAATTTAG
1 AAAAAAAATATAAATTAC
*
51260457 AAAAAAAATCTAAATTAC
1 AAAAAAAATATAAATTAC
51260475 AAAAAA
1 AAAAAA
51260481 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAAAAATATAAATTAC
Found at i:51260479 original size:19 final size:18
Alignment explanation
Indices: 51260438--51260505 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
51260428 TATAAAAAAT
*
51260438 AAAAAAAAATATAATTTA
1 AAAAAAAAATATAAATTA
* *
51260456 GAAAAAAAATCTAAATTA
1 AAAAAAAAATATAAATTA
** *
51260474 CAAAAAATTATAAAAATTA
1 -AAAAAAAAATATAAATTA
*
51260493 AAATTAAAAATAT
1 AAA-AAAAAATAT
51260506 GATAAATCAA
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
18 18 0.50
19 18 0.50
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (18 bp):
AAAAAAAAATATAAATTA
Found at i:51260496 original size:25 final size:24
Alignment explanation
Indices: 51260460--51260511 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
51260450 AATTTAGAAA
*
51260460 AAAAATCTAAATTACAAAAAATTAT
1 AAAAATCTAAATTA-AAAAAATGAT
*
51260485 AAAAAT-TAAAATTAAAAATATGAT
1 AAAAATCT-AAATTAAAAAAATGAT
51260509 AAA
1 AAA
51260512 TCAAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAATCTAAATTAAAAAAATGAT
Found at i:51261230 original size:11 final size:11
Alignment explanation
Indices: 51261214--51261242 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
51261204 GATATTTTTC
51261214 ACATTTTCTAA
1 ACATTTTCTAA
51261225 ACATTTTCTAA
1 ACATTTTCTAA
51261236 ACATTTT
1 ACATTTT
51261243 TGACAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (11 bp):
ACATTTTCTAA
Found at i:51261338 original size:22 final size:22
Alignment explanation
Indices: 51261310--51261352 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51261300 AATAGTTTTA
51261310 TTTTTTTT-CAAATTTTTATAAG
1 TTTTTTTTAC-AATTTTTATAAG
*
51261332 TTTTTTTTACATTTTTTATAA
1 TTTTTTTTACAATTTTTATAA
51261353 TGATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTTTTACAATTTTTATAAG
Found at i:51261416 original size:20 final size:19
Alignment explanation
Indices: 51261372--51261427 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
51261362 TAATTTCAAC
*
51261372 TATTTTTTACATTTATCTTA
1 TATTTTTTA-ATTTATATTA
*
51261392 T-TTTTTTAATTTGTATATA
1 TATTTTTTAATTTATAT-TA
*
51261411 TATTTTATAATTTATAT
1 TATTTTTTAATTTATAT
51261428 GTTTTTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
20 14 0.47
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTTTTTAATTTATATTA
Found at i:51261453 original size:19 final size:19
Alignment explanation
Indices: 51261372--51261453 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
51261362 TAATTTCAAC
*
51261372 TATTTTT-TACATTTATCT-
1 TATTTTTATA-ATTTATATA
* *
51261390 TATTTTTTTAATTTGTATA
1 TATTTTTATAATTTATATA
*
51261409 TATATTTTATAATTTATATG
1 TAT-TTTTATAATTTATATA
* *
51261429 TTTTTTTCTAGA-TTATATA
1 TATTTTTATA-ATTTATATA
51261448 TATTTT
1 TATTTT
51261454 CACGAATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
18 13 0.25
19 22 0.43
20 16 0.31
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
TATTTTTATAATTTATATA
Found at i:51277687 original size:26 final size:25
Alignment explanation
Indices: 51277638--51277689 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
51277628 TCATTTTATC
*
51277638 TTTTTAAAAATTAATTTTATTATTA
1 TTTTTAAAAATTAATTTTACTATTA
51277663 TTTTT-AAAATTAATTTTAGGCTATTA
1 TTTTTAAAAATTAATTTTA--CTATTA
51277689 T
1 T
51277690 GTAAAAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 5 0.21
26 6 0.25
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTTTAAAAATTAATTTTACTATTA
Found at i:51280044 original size:50 final size:52
Alignment explanation
Indices: 51279918--51280044 Score: 136
Period size: 50 Copynumber: 2.5 Consensus size: 52
51279908 ATGAACAAAT
* *
51279918 GAGTTACTTAATGCA-AGACTTAATTTAATAATGCAGACTTAAACTAACATGA
1 GAGTTACATAATGCATA-ACTTTATTTAATAATGCAGACTTAAACTAACATGA
** * * * *
51279970 GAGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATG-
1 GAGTTACATAATGCATAACTTTATTTAATAATGCAGACTTAAACTAACATGA
51280019 GAAGTTACATAATGCATAACTTTATT
1 G-AGTTACATAATGCATAACTTTATT
51280045 AAATGCAGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.02
50 30 0.48
51 11 0.18
52 20 0.32
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATAATGCAGACTTAAACTAACATGA
Found at i:51280129 original size:20 final size:19
Alignment explanation
Indices: 51280088--51280129 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
51280078 AAAAATATGC
*
51280088 AAACTTATTAATTTAAATA
1 AAACTTATTAATTTAAAAA
51280107 AAACTATATTGAA-TTAAAAA
1 AAACT-TATT-AATTTAAAAA
51280127 AAA
1 AAA
51280130 AGTCTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 13 0.65
21 2 0.10
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
AAACTTATTAATTTAAAAA
Found at i:51280130 original size:21 final size:19
Alignment explanation
Indices: 51280088--51280130 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
51280078 AAAAATATGC
* *
51280088 AAACTTATTAATTTAAATA
1 AAACTTATTAATTAAAAAA
51280107 AAACTATATTGAATTAAAAAA
1 AAACT-TATT-AATTAAAAAA
51280128 AAA
1 AAA
51280131 GTCTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
AAACTTATTAATTAAAAAA
Found at i:51282825 original size:26 final size:24
Alignment explanation
Indices: 51282779--51282830 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
51282769 TAGTTTATTA
*
51282779 ATATTTTAATTTAATTTTTAAATT
1 ATATTTTAATTTAATTATTAAATT
* *
51282803 ATATTTTATTATTTTATTATTAATTT
1 ATATTTTA--ATTTAATTATTAAATT
51282829 AT
1 AT
51282831 TTAGTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATTTTAATTTAATTATTAAATT
Found at i:51285614 original size:26 final size:26
Alignment explanation
Indices: 51285591--51285646 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
51285581 TAGATTAACT
51285591 ATTTCAAAAATAATTTTAATTTAATA
1 ATTTCAAAAATAATTTTAATTTAATA
* * * *
51285617 ATTTTAATATTAAATTTAATTTAATA
1 ATTTCAAAAATAATTTTAATTTAATA
51285643 ATTT
1 ATTT
51285647 TCTTAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTCAAAAATAATTTTAATTTAATA
Found at i:51285618 original size:14 final size:14
Alignment explanation
Indices: 51285599--51285647 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
51285589 CTATTTCAAA
51285599 AATAATTTTAATTT
1 AATAATTTTAATTT
51285613 AATAATTTTAATATT
1 AATAATTTTAAT-TT
51285628 -A-AA-TTTAATTT
1 AATAATTTTAATTT
51285639 AATAATTTT
1 AATAATTTT
51285648 CTTAATAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.06
12 7 0.23
13 4 0.13
14 16 0.52
15 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AATAATTTTAATTT
Found at i:51289963 original size:12 final size:12
Alignment explanation
Indices: 51289946--51289970 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51289936 CTGAGGATCT
51289946 AGCAATCAGTAA
1 AGCAATCAGTAA
51289958 AGCAATCAGTAA
1 AGCAATCAGTAA
51289970 A
1 A
51289971 CTCTAAAATA
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:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AGCAATCAGTAA
Found at i:51295129 original size:18 final size:17
Alignment explanation
Indices: 51295115--51295150 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
51295105 ACATTTTTGC
*
51295115 ATTTTTTATTTTTTTATA
1 ATTTTTTATTCTTTT-TA
51295133 ATTTTTTATTCTTTTTA
1 ATTTTTTATTCTTTTTA
51295150 A
1 A
51295151 AATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTTTATTCTTTTTA
Found at i:51301114 original size:45 final size:44
Alignment explanation
Indices: 51300991--51301162 Score: 166
Period size: 45 Copynumber: 3.8 Consensus size: 44
51300981 TGGTTTGAAG
* * * * *
51300991 GAAATGATTAAGACCATAGTTGAAAGACACTATGACACTATACC
1 GAAATGAGTAAGACCATAGCTGAAAGACATTATGGCACCATACC
* * *
51301035 GGAAATAAATAAGACCATAGTTGAAAGACATTATGGCACCATACC
1 -GAAATGAGTAAGACCATAGCTGAAAGACATTATGGCACCATACC
* * * *
51301080 AGAAACGAGTAAGACTATAGCTGAAAGACGTTATGGCACCATGATTC
1 -GAAATGAGTAAGACCATAGCTGAAAGACATTATGGCACCAT-A-CC
* * *
51301127 -TATTGAGTAAGACCATAGCTGAAAGACGTTATGGCA
1 GAAATGAGTAAGACCATAGCTGAAAGACATTATGGCA
51301163 TCACGATTCT
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 106 0.98
46 1 0.01
47 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (44 bp):
GAAATGAGTAAGACCATAGCTGAAAGACATTATGGCACCATACC
Found at i:51301210 original size:45 final size:45
Alignment explanation
Indices: 51301085--51301197 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
51301075 ATACCAGAAA
* * *
51301085 CGAGTAAGACTATAGCTGAAAGACGTTATGGCACCATGATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAT
*
51301130 TGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAT
*
51301175 CGAGTAAGACCATAACTGAAAGA
1 CGAGTAAGACCATAGCTGAAAGA
51301198 TGCTGTGGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (45 bp):
CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTAT
Found at i:51301228 original size:45 final size:45
Alignment explanation
Indices: 51301134--51301252 Score: 112
Period size: 45 Copynumber: 2.6 Consensus size: 45
51301124 TTCTATTGAG
* * ** * * *
51301134 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGAG
1 TAAGACCATAACTGAAAGACGCTATGGCATCACGAACCAAACGAA
* * *
51301179 TAAGACCATAACTGAAAGATGCTGTGGCATCATGAACCAAACGAA
1 TAAGACCATAACTGAAAGACGCTATGGCATCACGAACCAAACGAA
* ** *
51301224 TAAGACTATAGTTGAAAGACACTATGGCA
1 TAAGACCATAACTGAAAGACGCTATGGCA
51301253 ACAAAAGGAA
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (45 bp):
TAAGACCATAACTGAAAGACGCTATGGCATCACGAACCAAACGAA
Found at i:51301287 original size:46 final size:45
Alignment explanation
Indices: 51301221--51301343 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
51301211 TGAACCAAAC
* * *
51301221 GAATAAGACTATAGTTGAAAGACACTATGGCAACAAAAGGAAAAAT
1 GAATAAGACCATGGTTGAAAGACACTATGGCAACAAAACG-AAAAT
* * * ** *
51301267 GAATAAGACCATGGTGGAAAGACACTATGTCATCAAGTCGAGAAT
1 GAATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAT
* *
51301312 AAATAAGACCATGGTTGAAAGACACCATGGCA
1 GAATAAGACCATGGTTGAAAGACACTATGGCA
51301344 CCCTTCGATC
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
45 32 0.50
46 32 0.50
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.18
Consensus pattern (45 bp):
GAATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAT
Found at i:51305796 original size:19 final size:19
Alignment explanation
Indices: 51305772--51305808 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51305762 TGAGTTGTGA
* *
51305772 GTCTGAAGGTGATGTATGG
1 GTCTGAAGATGATCTATGG
51305791 GTCTGAAGATGATCTATG
1 GTCTGAAGATGATCTATG
51305809 TCAAGACTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.35, T:0.32
Consensus pattern (19 bp):
GTCTGAAGATGATCTATGG
Found at i:51317242 original size:29 final size:29
Alignment explanation
Indices: 51317208--51317275 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
51317198 TTAACCATTC
51317208 TTATAATTTAAAAAATAAAGGGATTGAAA
1 TTATAATTTAAAAAATAAAGGGATTGAAA
*
51317237 TTATAATCTAAAAAATAAAGGGATTGAAA
1 TTATAATTTAAAAAATAAAGGGATTGAAA
51317266 TTGA-AATTTA
1 TT-ATAATTTA
51317276 GTGAAGGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.13, T:0.32
Consensus pattern (29 bp):
TTATAATTTAAAAAATAAAGGGATTGAAA
Found at i:51317839 original size:14 final size:14
Alignment explanation
Indices: 51317820--51317859 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
51317810 TTGTTTGGCA
51317820 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
51317834 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
51317848 GGAAAATGTTTT
1 GTAAAATGTTTT
51317860 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:51317868 original size:20 final size:20
Alignment explanation
Indices: 51317843--51317880 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51317833 CGTAAAATGA
*
51317843 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
51317863 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
51317881 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:51317872 original size:34 final size:35
Alignment explanation
Indices: 51317828--51317894 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51317818 CAGTAAAATG
*
51317828 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
51317862 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
51317895 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:51318000 original size:14 final size:14
Alignment explanation
Indices: 51317981--51318008 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51317971 TTTTTACATA
51317981 TATTAATATATATT
1 TATTAATATATATT
51317995 TATTAATATATATT
1 TATTAATATATATT
51318009 AATAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:51319331 original size:35 final size:36
Alignment explanation
Indices: 51319282--51319350 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
51319272 ATTCAACCAT
51319282 TTCAATATCCAACAAACTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAAACTTAAAACATAATCAATAAA
* *
51319317 TTCAATATCTAACAAGCTTAAAACATAATCAATA
1 TTCAATATCCAACAAACTTAAAACATAATCAATA
51319351 TCTAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (36 bp):
TTCAATATCCAACAAACTTAAAACATAATCAATAAA
Found at i:51319369 original size:27 final size:27
Alignment explanation
Indices: 51319318--51319393 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
51319308 AATAATAAAT
*
51319318 TCAATATCTAACAAGCTTAAAACATA-A
1 TCAATATCTAACAA-ATTAAAACATATA
*
51319345 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCTAACAAATT-AAAACATATA
* * *
51319373 TCAAAATCCAACAAACTAAAA
1 TCAATATCTAACAAATTAAAA
51319394 TTTCAATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 24 0.59
28 15 0.37
ACGTcount: A:0.54, C:0.20, G:0.03, T:0.24
Consensus pattern (27 bp):
TCAATATCTAACAAATTAAAACATATA
Found at i:51322876 original size:25 final size:25
Alignment explanation
Indices: 51322837--51322888 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
51322827 AAAATGTCTG
51322837 CTGCTTAGAAGAGAACAGAAAATGT
1 CTGCTTAGAAGAGAACAGAAAATGT
**
51322862 CTGCTTAG-AGAAGAATGGAAAATGT
1 CTGCTTAGAAG-AGAACAGAAAATGT
51322887 CT
1 CT
51322889 TACCAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (25 bp):
CTGCTTAGAAGAGAACAGAAAATGT
Found at i:51333314 original size:23 final size:22
Alignment explanation
Indices: 51333271--51333314 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
51333261 TTCTAAGTCG
51333271 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
51333294 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
51333315 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:51333428 original size:45 final size:45
Alignment explanation
Indices: 51333359--51333452 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
51333349 AACAGATACT
* * * *
51333359 CGGTGGATTCAGCACATAGCAACCATCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTC
*
51333404 CGGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTC
51333449 CGGT
1 CGGT
51333453 TCACACAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTC
Found at i:51333529 original size:51 final size:50
Alignment explanation
Indices: 51333454--51333644 Score: 172
Period size: 51 Copynumber: 3.8 Consensus size: 50
51333444 ATGTTCGGTT
* *
51333454 CACACAGTAGCCTGCACGTAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATA
* * * * * *
51333505 CACATAGTAGCTTGCACATGGTACTACACACGTGATCGAAACTATCC-AGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGA-TA
* * ** * *
51333556 -AGTATAGTAGCCTGTACATAGTACTACACATGCAACC-TATCATTCCGGTA
1 CA-CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATA
* *
51333606 CACGTAGTAGCTTGCACATAGTACTACACATGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
51333645 CACTTTCACT
Statistics
Matches: 107, Mismatches: 26, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
49 2 0.02
50 37 0.35
51 66 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATA
Found at i:51337312 original size:18 final size:19
Alignment explanation
Indices: 51337284--51337321 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
51337274 ATTTATTATT
51337284 TTTTCATCAGTTTTTTTTG
1 TTTTCATCAGTTTTTTTTG
51337303 TTTT-ATCAGTTTTTTTTG
1 TTTTCATCAGTTTTTTTTG
51337321 T
1 T
51337322 GTCAGATCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.71
Consensus pattern (19 bp):
TTTTCATCAGTTTTTTTTG
Found at i:51337658 original size:21 final size:21
Alignment explanation
Indices: 51337624--51337677 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
51337614 TAGTTTTGAC
*
51337624 AAAAAAAAACAAAACTGTTTAA
1 AAAAAAAAAAAAAACTG-TTAA
*
51337646 AAAATAAAAAAAAACTGTTAA
1 AAAAAAAAAAAAAACTGTTAA
*
51337667 AAAAAACAAAA
1 AAAAAAAAAAA
51337678 CTGATGGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAAAAAAAAAAACTGTTAA
Found at i:51340820 original size:48 final size:48
Alignment explanation
Indices: 51340760--51340852 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
51340750 CCAATGTACC
* * *
51340760 TAATTTATATTACAAAGTTTGTTCCAATTTTTAATATTGTAATGTATT
1 TAATTTATATTACAAAATTTGTTCCAAGTTGTAATATTGTAATGTATT
*
51340808 TAATTTATATTACAAAATTTGTTCCAAGTTGTAATGTTGTAATGT
1 TAATTTATATTACAAAATTTGTTCCAAGTTGTAATATTGTAATGT
51340853 TGCAATTAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.49
Consensus pattern (48 bp):
TAATTTATATTACAAAATTTGTTCCAAGTTGTAATATTGTAATGTATT
Found at i:51348088 original size:23 final size:23
Alignment explanation
Indices: 51348062--51348137 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
51348052 ATAAGTGCAA
*
51348062 CACTGATATGTAGCCGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
* *
51348085 CACTGTTATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
51348108 CACTGA-AGCGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
51348131 CACTGAT
1 CACTGAT
51348138 CAATAACACT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.02
23 44 0.98
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:51348389 original size:18 final size:17
Alignment explanation
Indices: 51348363--51348401 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
51348353 ATTTTCCTTC
51348363 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
51348380 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
51348398 CACA
1 CACA
51348402 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:51361969 original size:709 final size:709
Alignment explanation
Indices: 51360612--51362038 Score: 2845
Period size: 709 Copynumber: 2.0 Consensus size: 709
51360602 CTTTAGGGTA
51360612 CAAAAGTTGAGGCAAATTTGAAGGGGTCAGAAAAAAAAGAAATGTGTTTAGGGTACTGATTAGGC
1 CAAAAGTTGAGGCAAATTTGAAGGGGTCAGAAAAAAAAGAAATGTGTTTAGGGTACTGATTAGGC
51360677 CTCTGCATTGTTGAAATAACTGAAGTTAACTTTATTAAGAATGATTTAATTTAATGATCAGAAGC
66 CTCTGCATTGTTGAAATAACTGAAGTTAACTTTATTAAGAATGATTTAATTTAATGATCAGAAGC
51360742 TAGTTAAAGAAGCAATCATCAATATATGATCATATAAGGAACCCCATCATTTGACTATGAAACTC
131 TAGTTAAAGAAGCAATCATCAATATATGATCATATAAGGAACCCCATCATTTGACTATGAAACTC
51360807 ATCTCACGGTCTAAATTATCCAATACAGTTGCTATAGCTTTATATTCATGGTGGCTTTTATCTCC
196 ATCTCACGGTCTAAATTATCCAATACAGTTGCTATAGCTTTATATTCATGGTGGCTTTTATCTCC
51360872 CCTAAGGAAAGCATGGAGCTTCCCATCCACATCCAATACACTGTATCCAGGTACTTTCTTCTTCC
261 CCTAAGGAAAGCATGGAGCTTCCCATCCACATCCAATACACTGTATCCAGGTACTTTCTTCTTCC
51360937 CCGAGTCTTTCATGAGTTTCTTTACAACAGCAACTTCATCCCACATGTTTCCCATGGCGAAGAAG
326 CCGAGTCTTTCATGAGTTTCTTTACAACAGCAACTTCATCCCACATGTTTCCCATGGCGAAGAAG
51361002 TTCGAGACCAACGCATGAATTCCCAAGTCGTCTGGATTTAACTCGAGGACTTTCTTTGCTGCCAT
391 TTCGAGACCAACGCATGAATTCCCAAGTCGTCTGGATTTAACTCGAGGACTTTCTTTGCTGCCAT
*
51361067 TTCCCCGATTGACAACTTCCCATGATTACGGCAGCCAGACAGGAGAGCAACCCAAACAGCCACCC
456 TTCCCCGATTGACAACTTCCCATGATTACGGCAGCCAGACAGGAGAGCAACCCAAACAGACACCC
51361132 CGGGTTTGTTGTTCATAGACCCTATTAGTTTATAAGCTTCTTCCACAAGTCCTGCACGAGCTAAA
521 CGGGTTTGTTGTTCATAGACCCTATTAGTTTATAAGCTTCTTCCACAAGTCCTGCACGAGCTAAA
51361197 AGATCGACCATACAAGTGTAGTGCTTCTCAATTGGTTGGATACTGTATTCATTTACCATGAAATT
586 AGATCGACCATACAAGTGTAGTGCTTCTCAATTGGTTGGATACTGTATTCATTTACCATGAAATT
51361262 AAACCAGTATCGACCTTCGTTAACCATTCCTGAGTGGCTGAGAGCTGAGAGAAGTGCTG
651 AAACCAGTATCGACCTTCGTTAACCATTCCTGAGTGGCTGAGAGCTGAGAGAAGTGCTG
51361321 CAAAAGTTGAGGCAAATTTGAAGGGGTCAGAAAAAAAAGAAATGTGTTTAGGGTACTGATTAGGC
1 CAAAAGTTGAGGCAAATTTGAAGGGGTCAGAAAAAAAAGAAATGTGTTTAGGGTACTGATTAGGC
51361386 CTCTGCATTGTTGAAATAACTGAAGTTAACTTTATTAAGAATGATTTAATTTAATGATCAGAAGC
66 CTCTGCATTGTTGAAATAACTGAAGTTAACTTTATTAAGAATGATTTAATTTAATGATCAGAAGC
51361451 TAGTTAAAGAAGCAATCATCAATATATGATCATATAAGGAACCCCATCATTTGACTATGAAACTC
131 TAGTTAAAGAAGCAATCATCAATATATGATCATATAAGGAACCCCATCATTTGACTATGAAACTC
51361516 ATCTCACGGTCTAAATTATCCAATACAGTTGCTATAGCTTTATATTCATGGTGGCTTTTATCTCC
196 ATCTCACGGTCTAAATTATCCAATACAGTTGCTATAGCTTTATATTCATGGTGGCTTTTATCTCC
51361581 CCTAAGGAAAGCATGGAGCTTCCCATCCACATCCAATACACTGTATCCAGGTACTTTCTTCTTCC
261 CCTAAGGAAAGCATGGAGCTTCCCATCCACATCCAATACACTGTATCCAGGTACTTTCTTCTTCC
51361646 CCGAGTCTTTCATGAGTTTCTTTACAACAGCAACTTCATCCCACATGTTTCCCATGGCGAAGAAG
326 CCGAGTCTTTCATGAGTTTCTTTACAACAGCAACTTCATCCCACATGTTTCCCATGGCGAAGAAG
51361711 TTCGAGACCAACGCATGAATTCCCAAGTCGTCTGGATTTAACTCGAGGACTTTCTTTGCTGCCAT
391 TTCGAGACCAACGCATGAATTCCCAAGTCGTCTGGATTTAACTCGAGGACTTTCTTTGCTGCCAT
51361776 TTCCCCGATTGACAACTTCCCATGATTACGGCAGCCAGACAGGAGAGCAACCCAAACAGACACCC
456 TTCCCCGATTGACAACTTCCCATGATTACGGCAGCCAGACAGGAGAGCAACCCAAACAGACACCC
51361841 CGGGTTTGTTGTTCATAGACCCTATTAGTTTATAAGCTTCTTCCACAAGTCCTGCACGAGCTAAA
521 CGGGTTTGTTGTTCATAGACCCTATTAGTTTATAAGCTTCTTCCACAAGTCCTGCACGAGCTAAA
51361906 AGATCGACCATACAAGTGTAGTGCTTCTCAATTGGTTGGATACTGTATTCATTTACCATGAAATT
586 AGATCGACCATACAAGTGTAGTGCTTCTCAATTGGTTGGATACTGTATTCATTTACCATGAAATT
51361971 AAACCAGTATCGACCTTCGTTAACCATTCCTGAGTGGCTGAGAGCTGAGAGAAGTGCTG
651 AAACCAGTATCGACCTTCGTTAACCATTCCTGAGTGGCTGAGAGCTGAGAGAAGTGCTG
51362030 CAAAAGTTG
1 CAAAAGTTG
51362039 CATGATCAGG
Statistics
Matches: 717, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
709 717 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (709 bp):
CAAAAGTTGAGGCAAATTTGAAGGGGTCAGAAAAAAAAGAAATGTGTTTAGGGTACTGATTAGGC
CTCTGCATTGTTGAAATAACTGAAGTTAACTTTATTAAGAATGATTTAATTTAATGATCAGAAGC
TAGTTAAAGAAGCAATCATCAATATATGATCATATAAGGAACCCCATCATTTGACTATGAAACTC
ATCTCACGGTCTAAATTATCCAATACAGTTGCTATAGCTTTATATTCATGGTGGCTTTTATCTCC
CCTAAGGAAAGCATGGAGCTTCCCATCCACATCCAATACACTGTATCCAGGTACTTTCTTCTTCC
CCGAGTCTTTCATGAGTTTCTTTACAACAGCAACTTCATCCCACATGTTTCCCATGGCGAAGAAG
TTCGAGACCAACGCATGAATTCCCAAGTCGTCTGGATTTAACTCGAGGACTTTCTTTGCTGCCAT
TTCCCCGATTGACAACTTCCCATGATTACGGCAGCCAGACAGGAGAGCAACCCAAACAGACACCC
CGGGTTTGTTGTTCATAGACCCTATTAGTTTATAAGCTTCTTCCACAAGTCCTGCACGAGCTAAA
AGATCGACCATACAAGTGTAGTGCTTCTCAATTGGTTGGATACTGTATTCATTTACCATGAAATT
AAACCAGTATCGACCTTCGTTAACCATTCCTGAGTGGCTGAGAGCTGAGAGAAGTGCTG
Found at i:51369989 original size:15 final size:15
Alignment explanation
Indices: 51369969--51369999 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51369959 GCAATCCATA
51369969 CTTGAAACATTAGGT
1 CTTGAAACATTAGGT
51369984 CTTGAAACATTAGGT
1 CTTGAAACATTAGGT
51369999 C
1 C
51370000 CATCTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (15 bp):
CTTGAAACATTAGGT
Found at i:51371476 original size:15 final size:17
Alignment explanation
Indices: 51371456--51371496 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
51371446 ATAGTTTATT
51371456 TTATTATTTTAA-A-AA
1 TTATTATTTTAATATAA
*
51371471 TTATTAATTTAATTATAA
1 TTATTATTTTAA-TATAA
51371489 TTATTATT
1 TTATTATT
51371497 AAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATTTTAATATAA
Found at i:51375344 original size:20 final size:18
Alignment explanation
Indices: 51375316--51375362 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
51375306 ATTGAGAAAC
*
51375316 ATTTATTTAATGTTATTAGT
1 ATTTTTTTAATG-TATTA-T
51375336 ATTTTTTT-ATGTATTAT
1 ATTTTTTTAATGTATTAT
*
51375353 ACTTTTTTAA
1 ATTTTTTTAA
51375363 AAAATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 3 0.12
20 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (18 bp):
ATTTTTTTAATGTATTAT
Found at i:51380133 original size:9 final size:9
Alignment explanation
Indices: 51380119--51380149 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
51380109 GTTAAACGAA
51380119 TCGAGTTAT
1 TCGAGTTAT
*
51380128 TCGAGTTAA
1 TCGAGTTAT
51380137 TCGAGTTAT
1 TCGAGTTAT
51380146 TCGA
1 TCGA
51380150 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:51380307 original size:21 final size:21
Alignment explanation
Indices: 51380266--51380308 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
51380256 ACCCCAAATT
* *
51380266 CTCAAACATTTTTACTTTTCC
1 CTCAAACACTTTTACTCTTCC
51380287 CTCAAA-ACTTTTACTCCTTCC
1 CTCAAACACTTTTACT-CTTCC
51380308 C
1 C
51380309 ACTTTGCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAACACTTTTACTCTTCC
Found at i:51380478 original size:30 final size:31
Alignment explanation
Indices: 51380444--51380503 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
51380434 AAACCTTTTA
*
51380444 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
51380474 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
51380504 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:51382452 original size:17 final size:17
Alignment explanation
Indices: 51382430--51382465 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51382420 ATTGAACCGA
51382430 AATTTTAATTTGTTTTT
1 AATTTTAATTTGTTTTT
* *
51382447 AATTTTGATTTTTTTTT
1 AATTTTAATTTGTTTTT
51382464 AA
1 AA
51382466 ACAAGCTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
AATTTTAATTTGTTTTT
Found at i:51388468 original size:21 final size:21
Alignment explanation
Indices: 51388442--51388485 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
51388432 TTGATGAGTT
51388442 AATTGCTAATGGACTAAATTG
1 AATTGCTAATGGACTAAATTG
51388463 AATTGCTAATGGACTAAATTG
1 AATTGCTAATGGACTAAATTG
51388484 AA
1 AA
51388486 AAAATTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (21 bp):
AATTGCTAATGGACTAAATTG
Found at i:51389047 original size:105 final size:101
Alignment explanation
Indices: 51388868--51389058 Score: 265
Period size: 105 Copynumber: 1.9 Consensus size: 101
51388858 GACGGATAAG
* * *
51388868 ACCATGGTTGGACCATGGCAGTGTTTAAATGTAAGACCATAGCTGGGCTATGGCATTTTAATGAA
1 ACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATAGCATTCTAATGAA
*
51388933 AAGATCATAACTAGGTTATGATACCTTGAATGTAAA
66 AAGACCATAACTAGGTTATGATACCTTGAATGTAAA
* * *
51388969 ACCATGGTTGGACCATGGCAGTATATATACATGTGTAATACCATAGCTGGGCTATAGCATTCTGA
1 ACCATGGTTGGACCATGGCAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATAGCATTCTAA
* *
51389034 TGATAAGACCATAACTGGGTTATGA
62 TGAAAAGACCATAACTAGGTTATGA
51389059 CACTACAAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 23 0.30
102 1 0.01
103 2 0.03
104 1 0.01
105 50 0.65
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
ACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATAGCATTCTAATGAA
AAGACCATAACTAGGTTATGATACCTTGAATGTAAA
Found at i:51389070 original size:105 final size:101
Alignment explanation
Indices: 51388868--51389080 Score: 257
Period size: 105 Copynumber: 2.1 Consensus size: 101
51388858 GACGGATAAG
* * *
51388868 ACCATGGTTGGACCATGGCAGTGTTTAAATGTAAGACCATAGCTGGGCTATGGCATTTTAATGAA
1 ACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATAGCATTCTAATGAA
* * **
51388933 AAGATCATAACTAGGTTATGATACCTTGAATGTAAA
66 AAGACCATAACTAGGTTATGACACCTCAAATGTAAA
* * *
51388969 ACCATGGTTGGACCATGGCAGTATATATACATGTGTAATACCATAGCTGGGCTATAGCATTCTGA
1 ACCATGGTTGGACCATGGCAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATAGCATTCTAA
* * *
51389034 TGATAAGACCATAACTGGGTTATGACA-CTACAAATGTAAG
62 TGAAAAGACCATAACTAGGTTATGACACCT-CAAATGTAAA
51389074 ACCATGG
1 ACCATGG
51389081 CAGGGCCATG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 23 0.24
102 1 0.01
103 2 0.02
104 3 0.03
105 65 0.69
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (101 bp):
ACCATGGTTGGACCATGGCAGTATTTAAATGTAAGACCATAGCTGGGCTATAGCATTCTAATGAA
AAGACCATAACTAGGTTATGACACCTCAAATGTAAA
Found at i:51389945 original size:72 final size:73
Alignment explanation
Indices: 51389854--51390008 Score: 251
Period size: 72 Copynumber: 2.2 Consensus size: 73
51389844 GCGTGTAGTC
*
51389854 TGGCCGTGTG-ACCCTTGCACCTTAATTTCATAAATTAGTTACCCACACAGCCTGACATACGAGC
1 TGGCCGTGTGAACCCTTGCACCTTAATTTCATAAATTAGTTACCCACACAGCCTGACACACGAGC
51389918 GTGTGACT
66 GTGTGACT
* * * *
51389926 TGGCCGTGTGAACCC-TGCACCTTAATTTTATAAATTAGTTACCCACACGGCCTGGCACACGGGC
1 TGGCCGTGTGAACCCTTGCACCTTAATTTCATAAATTAGTTACCCACACAGCCTGACACACGAGC
51389990 GTGTGACT
66 GTGTGACT
51389998 TGGCCGTGTGA
1 TGGCCGTGTGA
51390009 CCCAAGTCAG
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 73 0.95
73 4 0.05
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (73 bp):
TGGCCGTGTGAACCCTTGCACCTTAATTTCATAAATTAGTTACCCACACAGCCTGACACACGAGC
GTGTGACT
Found at i:51390476 original size:24 final size:25
Alignment explanation
Indices: 51390431--51390483 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
51390421 AAATCTTTAT
51390431 TAAATCCTTAAAATATTCAAATCCC
1 TAAATCCTTAAAATATTCAAATCCC
* *
51390456 TAAATCCTT-AAATCTTGAAATCCC
1 TAAATCCTTAAAATATTCAAATCCC
51390480 TAAA
1 TAAA
51390484 ACTTTTACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (25 bp):
TAAATCCTTAAAATATTCAAATCCC
Found at i:51394414 original size:51 final size:51
Alignment explanation
Indices: 51394345--51394451 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
51394335 CATGCAACAT
* *
51394345 CAACATTATCCAATCCATTTGATGTTGCAAAATCACTAGCTTATTCATCAA
1 CAACATTATCCAATCCATTTGATGTTGCAAAATCACCAGCATATTCATCAA
* * *
51394396 CAACGTTATCCACTCCATTTGATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCAATCCATTTGATGTTGCAAAATCACCAGCATATTCATCAA
51394447 CAACA
1 CAACA
51394452 ACTTCACTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (51 bp):
CAACATTATCCAATCCATTTGATGTTGCAAAATCACCAGCATATTCATCAA
Found at i:51395494 original size:117 final size:117
Alignment explanation
Indices: 51395297--51395507 Score: 368
Period size: 117 Copynumber: 1.8 Consensus size: 117
51395287 GGTAACAGAA
* * * *
51395297 ATCAACATCATCGGGACCACTGTCGCATCACAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTATCGCATAAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
* *
51395362 AAATTGCAATAATAAATCATAATTAACCATCTACAATTTTGACAACAGTTTT
66 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTGACAACAGTTTT
51395414 ATCAACAACATCGGGACCACTATCGCATAAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTATCGCATAAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
51395479 AAATTGCAATAATAAATCACAAATAACCA
66 AAATTGCAATAATAAATCACAAATAACCA
51395508 AAAAATCAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 88 1.00
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (117 bp):
ATCAACAACATCGGGACCACTATCGCATAAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTGACAACAGTTTT
Found at i:51395730 original size:16 final size:16
Alignment explanation
Indices: 51395695--51395738 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
51395685 AATGGTAACG
* * *
51395695 ATTTAAGGATTTTAAG
1 ATTTAGGGATTTGAAA
51395711 ATTTAGGGATTTGAAA
1 ATTTAGGGATTTGAAA
51395727 ATTTTAGGGATT
1 A-TTTAGGGATT
51395739 CAATAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (16 bp):
ATTTAGGGATTTGAAA
Found at i:51396696 original size:20 final size:19
Alignment explanation
Indices: 51396672--51396720 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
51396662 TTTGGCAGAA
51396672 AAAAAAAGAGAAGAAAATG
1 AAAAAAAGAGAAGAAAATG
* *
51396691 AAAAAATGTAGAAGAAGATG
1 AAAAAAAG-AGAAGAAAATG
51396711 CAAAAAAAGA
1 -AAAAAAAGA
51396721 AAAAAAAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.69, C:0.02, G:0.20, T:0.08
Consensus pattern (19 bp):
AAAAAAAGAGAAGAAAATG
Found at i:51396984 original size:6 final size:6
Alignment explanation
Indices: 51396969--51396997 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
51396959 TTTAACCCTA
51396969 AATT-T AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT
51396998 TAATATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AATTAT
Found at i:51397004 original size:12 final size:13
Alignment explanation
Indices: 51396972--51397005 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
51396962 AACCCTAAAT
51396972 TTAATTATAATTA
1 TTAATTATAATTA
51396985 -TAATTATAATTA
1 TTAATTATAATTA
51396997 TTAA-TATAA
1 TTAATTATAA
51397006 AATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATTATAATTA
Done.