Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 39 of 199
Found at i:11100888 original size:41 final size:40
Alignment explanation
Indices: 11100832--11100977 Score: 129
Period size: 41 Copynumber: 3.6 Consensus size: 40
11100822 TGATTCGATA
11100832 CACCGGC-TTATAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAGTCCGAAAT-TAT
* * *
11100873 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATT-A-T
* *
11100914 CACCGGCATTAAGCCTGCTAGGCAC-ATAG-CCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGTCC-GAAAT-TAT
* **
11100955 CACTGGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
11100978 AATAAGTCTG
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 5 0.06
41 73 0.85
42 6 0.07
43 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGTCCGAAATTAT
Found at i:11100985 original size:82 final size:83
Alignment explanation
Indices: 11100832--11100997 Score: 189
Period size: 82 Copynumber: 2.0 Consensus size: 83
11100822 TGATTCGATA
* * *
11100832 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTAAGCCTGCTAGACG
1 CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
11100897 TAAAGTCTGAATTA-ATT
66 TAAAGTCTGAATTACATT
* * * *
11100914 CACCGGCATTA-AGCCTGCTAGGCAC-ATAG-CCTGAATTATATCACTGGCATCCAGCCTGCTAG
1 CACCGGC-TTATAGCCTGCTAGAC-CTATAGTCC-GAAATATATCACCGGCATCAAGCCTGCTAG
*
11100976 ACA-ATAAGTCTGATTTACATT
63 ACATA-AAGTCTGAATTACATT
11100997 C
1 C
11100998 GATCACTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
81 3 0.04
82 60 0.85
83 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (83 bp):
CACCGGCTTATAGCCTGCTAGACCTATAGTCCGAAATATATCACCGGCATCAAGCCTGCTAGACA
TAAAGTCTGAATTACATT
Found at i:11103391 original size:14 final size:14
Alignment explanation
Indices: 11103372--11103406 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
11103362 ATTTTTTTTC
*
11103372 TTCTAATGACACTA
1 TTCTAACGACACTA
*
11103386 TTCTAACGATACTA
1 TTCTAACGACACTA
11103400 TTCTAAC
1 TTCTAAC
11103407 ATGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGACACTA
Found at i:11104079 original size:24 final size:24
Alignment explanation
Indices: 11104044--11104095 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11104034 ATATAGAGGT
11104044 CGAGCCAAAGCCAGAGCCCGAGCC
1 CGAGCCAAAGCCAGAGCCCGAGCC
* * **
11104068 CGAGCCACAGCCGGAGCTGGAGCC
1 CGAGCCAAAGCCAGAGCCCGAGCC
11104092 CGAG
1 CGAG
11104096 TGGTCGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.38, G:0.35, T:0.02
Consensus pattern (24 bp):
CGAGCCAAAGCCAGAGCCCGAGCC
Found at i:11104900 original size:61 final size:61
Alignment explanation
Indices: 11104633--11104923 Score: 449
Period size: 62 Copynumber: 4.7 Consensus size: 61
11104623 CAACATTACA
* * * * *
11104633 ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATATAATTTTTGTAATATAAATTATAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGT-ATATAAATTAAAT
*
11104695 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGCTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
*
11104757 ACATTACAACATTAAAAATTAGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTG-TATATAAATTAAAT
*
11104819 ACCTTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGT-TACTAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTATA-TAAATTAAAT
* *
11104880 ACATTACAACATTAAAAATTGAAACAAAATTTGTAATATAAATT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
11104924 AGATACATTG
Statistics
Matches: 215, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
60 2 0.01
61 52 0.24
62 160 0.74
63 1 0.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (61 bp):
ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTATATAAATTAAAT
Found at i:11107622 original size:18 final size:19
Alignment explanation
Indices: 11107599--11107636 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
11107589 AATAATACAT
11107599 TTTCTTTCTTCTCTT-TTC
1 TTTCTTTCTTCTCTTGTTC
11107617 TTTCTTTCTTCTCTTGTTC
1 TTTCTTTCTTCTCTTGTTC
11107636 T
1 T
11107637 GCTATTTTTT
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:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTCTTTCTTCTCTTGTTC
Found at i:11108342 original size:19 final size:20
Alignment explanation
Indices: 11108318--11108361 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11108308 TTTCTGCTTC
11108318 TTCTTCT-CGTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
**
11108337 TTCTTCTATTTACGTTTCTT
1 TTCTTCTACGTACGTTTCTT
11108357 TTCTT
1 TTCTT
11108362 TTCTCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.64
Consensus pattern (20 bp):
TTCTTCTACGTACGTTTCTT
Found at i:11113320 original size:16 final size:16
Alignment explanation
Indices: 11113299--11113329 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11113289 AAATTATATT
11113299 TTTTTATTTTTAATAA
1 TTTTTATTTTTAATAA
11113315 TTTTTATTTTTAATA
1 TTTTTATTTTTAATA
11113330 TTCCAATTTA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTAATAA
Found at i:11113616 original size:30 final size:29
Alignment explanation
Indices: 11113558--11113620 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
11113548 GGTGCAATTG
*
11113558 TATAAATATAATTTTAATTTTAATTCAAT
1 TATAAATAAAATTTTAATTTTAATTCAAT
*
11113587 ATATAGATAAAATTTTAATTTT-ATCTCAAT
1 -TATAAATAAAATTTTAATTTTAAT-TCAAT
11113617 TATA
1 TATA
11113621 CGTATACCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (29 bp):
TATAAATAAAATTTTAATTTTAATTCAAT
Found at i:11115730 original size:49 final size:49
Alignment explanation
Indices: 11115673--11115776 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
11115663 TCATGTAATA
* * *
11115673 TAATTTTATAAAGTGTTAAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGCGTTAACCTTTTGATTCATGATATTAAACTTAATTT
*
11115722 TAATTTTATAAAGCGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGCGTTAACCTTTTGATTCATGATATTAAACTTAATTT
11115771 TAATTT
1 TAATTT
11115777 GTTTTTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGCGTTAACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:11117755 original size:120 final size:120
Alignment explanation
Indices: 11117160--11117761 Score: 1086
Period size: 120 Copynumber: 5.0 Consensus size: 120
11117150 AAGTAGATTA
11117160 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11117225 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAAT-T
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGT
* *
11117280 TAAATTATATTTTATAATATTATATATTACGATTTTAGTAAATTC---TAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
* *
11117342 AAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATA-TTTAATAATAATTATGT
*
11117398 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
*
11117463 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
11117518 TAAATTATATTTTATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11117583 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
*
11117638 TAAATTATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATT
1 TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
11117703 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
66 AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
11117758 TAAA
1 TAAA
11117762 ATATGCTTAA
Statistics
Matches: 466, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
117 56 0.12
118 57 0.12
120 299 0.64
121 54 0.12
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
TAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT
AAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGT
Found at i:11118000 original size:16 final size:16
Alignment explanation
Indices: 11117975--11118012 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11117965 TTGAATTATT
* *
11117975 ATTACGCCTCTATTTC
1 ATTACACCTCTATTCC
11117991 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
11118007 ATTACA
1 ATTACA
11118013 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:11126488 original size:65 final size:64
Alignment explanation
Indices: 11126395--11126584 Score: 281
Period size: 65 Copynumber: 2.9 Consensus size: 64
11126385 CTAGTCATAA
*
11126395 ATTACCAGCAAAAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * * *
11126460 ATTATCAGCGTTAAAAAACCTTAATTTCTATGATACTTCCTTATTGAGGAATTACTCTATAATAC
1 ATTACCAGC-ATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
* * *
11126525 ATTACCAGCATAAAAAACCCTTACGTTCTATGATACTTCCTCATCAAGGAATTACTCTAT
1 ATTACCAGCATAAAAAA-CCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTAT
11126585 GCTCTTACCT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 7 0.06
65 104 0.94
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.34
Consensus pattern (64 bp):
ATTACCAGCATAAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATAC
Found at i:11132826 original size:16 final size:16
Alignment explanation
Indices: 11132805--11132835 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11132795 CATGTTAGAG
11132805 TACGTAAATTTGAAAC
1 TACGTAAATTTGAAAC
*
11132821 TACGTATATTTGAAA
1 TACGTAAATTTGAAA
11132836 AACTTTTTCA
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:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (16 bp):
TACGTAAATTTGAAAC
Found at i:11133725 original size:64 final size:63
Alignment explanation
Indices: 11133605--11133726 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
11133595 TATCCCTAGA
**
11133605 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGGTGCT
* * * *
11133668 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACTG
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACTG
11133727 AAACTGAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 26 0.50
64 26 0.50
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.33
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGGTGCT
Found at i:11133734 original size:64 final size:63
Alignment explanation
Indices: 11133605--11133743 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 63
11133595 TATCCCTAGA
** ***
11133605 GAATGTGTTGATGTAAGGAATGATGGGGCATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
* * * *
11133668 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACTGAAACT
1 GAATGTGTTGATGTAAGGAATGATGGGGC-ATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
* *
11133732 GAAGGTGATGAT
1 GAATGTGTTGAT
11133744 ACGAGGAATG
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
63 26 0.41
64 38 0.59
ACGTcount: A:0.29, C:0.06, G:0.33, T:0.32
Consensus pattern (63 bp):
GAATGTGTTGATGTAAGGAATGATGGGGCATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
Found at i:11133752 original size:64 final size:64
Alignment explanation
Indices: 11133605--11133760 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
11133595 TATCCCTAGA
* * ** ***
11133605 GAATGTGTTGATGTAAGGAATGA-TGGGGC-ATGCTGTGGTGCTTGTGTAAAATAAACTGGTGCT
1 GAATGTGTTGATGTAGGGAATGAGT-GTGCAATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
* *
11133668 GAATGTGTTGATGTAGGGAATGATTGTGCAATAATGTGGTGGTTGTGTAAAATAAACTGAAACT
1 GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
11133732 GAA-G-G-TGATGATACGAGGAATGAGTGTGC
1 GAATGTGTTGATG-TA-G-GGAATGAGTGTGC
11133761 GTGTTGTGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
61 5 0.06
62 3 0.04
63 27 0.34
64 44 0.56
ACGTcount: A:0.29, C:0.06, G:0.34, T:0.30
Consensus pattern (64 bp):
GAATGTGTTGATGTAGGGAATGAGTGTGCAATAATGTGGTGCTTGTGTAAAATAAACTGAAACT
Found at i:11140069 original size:7 final size:7
Alignment explanation
Indices: 11140031--11140123 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
11140021 AGATTGAGGT
11140031 TTGAAAA
1 TTGAAAA
11140038 TTTG-AAA
1 -TTGAAAA
11140045 TTGAAAA
1 TTGAAAA
11140052 TT-AAAA
1 TTGAAAA
*
11140058 TTTGAAGA
1 -TTGAAAA
11140066 TTGAAAA
1 TTGAAAA
11140073 TAT-AAAA
1 T-TGAAAA
11140080 TTGAAAA
1 TTGAAAA
***
11140087 TTGGGGA
1 TTGAAAA
**
11140094 TTGAGGA
1 TTGAAAA
**
11140101 TTGAAGG
1 TTGAAAA
11140108 TTGAAAA
1 TTGAAAA
11140115 TTGAAAA
1 TTGAAAA
11140122 TT
1 TT
11140124 TAGGAAGGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
6 8 0.11
7 55 0.79
8 7 0.10
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.32
Consensus pattern (7 bp):
TTGAAAA
Found at i:11140103 original size:35 final size:33
Alignment explanation
Indices: 11140020--11140123 Score: 91
Period size: 35 Copynumber: 3.0 Consensus size: 33
11140010 AAAATATTTG
* *
11140020 AAGATTGAGGTTTGAAAATTTGAAATTGAAAATT
1 AAGATTGAGGATTGAAAA-TTAAAATTGAAAATT
* *
11140054 AAAATTTGAAGATTGAAAATATAAAATTGAAAATT
1 AAGA-TTGAGGATTGAAAAT-TAAAATTGAAAATT
** **
11140089 GGGGATTGAGGATTGAAGGTTGAAAATTGAAAATT
1 -AAGATTGAGGATTGAAAATT-AAAATTGAAAATT
11140124 TAGGAAGGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
34 5 0.09
35 50 0.89
36 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (33 bp):
AAGATTGAGGATTGAAAATTAAAATTGAAAATT
Found at i:11143086 original size:30 final size:30
Alignment explanation
Indices: 11143052--11143142 Score: 173
Period size: 30 Copynumber: 3.0 Consensus size: 30
11143042 TTAGAGGAAA
11143052 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
11143082 TTTAGTTATTAGACTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
*
11143112 TTTAGTTATTAGATTCTGCATTGAAGTCTT
1 TTTAGTTATTAGACTCTGCATTGAAGTCTT
11143142 T
1 T
11143143 CTTTTCGTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (30 bp):
TTTAGTTATTAGACTCTGCATTGAAGTCTT
Found at i:11155030 original size:54 final size:55
Alignment explanation
Indices: 11154971--11155156 Score: 175
Period size: 54 Copynumber: 3.4 Consensus size: 55
11154961 CTATCATGCA
* * *
11154971 CCTTCTCCCTTCTCCTTTCACCATCT-AGATCCCTGTCCCGGCTCTTCCCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
** * * *
11155025 CCTTCTCCCTTCTCCTTTC-CC-TCTCCATTTCTCTCTCCCTACTCCTCTCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCT-CAGATCCCTCTCCCGACTCCTCCCTCGCT
* * * * **
11155079 CCTTCTCCCTTCTCCTTTCACCA-CTCATG-TCTCTATCTCTACTCCTTGCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCA-GATCCCTCTCCCGACTCCTCCCTCGCT
* *
11155133 CCCTCTCCCTTCTCCTCTCACCAT
1 CCTTCTCCCTTCTCCTTTCACCAT
11155157 AAATCTCCCT
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 102 0.92
55 4 0.04
ACGTcount: A:0.07, C:0.49, G:0.05, T:0.39
Consensus pattern (55 bp):
CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
Found at i:11155050 original size:24 final size:24
Alignment explanation
Indices: 11155021--11155097 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
11155011 GCTCTTCCCT
11155021 CGCTCCTTCTCCCTTCTCCTTTCC
1 CGCTCCTTCTCCCTTCTCCTTTCC
* * * *
11155045 CTCTCCATTTCTCTCTCCCTACTCCTCTCT
1 CGCT-C----CT-TCTCCCTTCTCCTTTCC
11155075 CGCTCCTTCTCCCTTCTCCTTTC
1 CGCTCCTTCTCCCTTCTCCTTTC
11155098 ACCACTCATG
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
24 17 0.43
25 3 0.08
29 3 0.08
30 17 0.43
ACGTcount: A:0.03, C:0.52, G:0.03, T:0.43
Consensus pattern (24 bp):
CGCTCCTTCTCCCTTCTCCTTTCC
Found at i:11156653 original size:15 final size:15
Alignment explanation
Indices: 11156635--11156668 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11156625 TGCGATGGCG
*
11156635 GTGGTGACGATGTTT
1 GTGGTGACGATGCTT
*
11156650 GTGGTGGCGATGCTT
1 GTGGTGACGATGCTT
11156665 GTGG
1 GTGG
11156669 CGTTTGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.47, T:0.35
Consensus pattern (15 bp):
GTGGTGACGATGCTT
Found at i:11157737 original size:48 final size:48
Alignment explanation
Indices: 11157685--11157778 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
11157675 TAAAATTTAT
*
11157685 CCCAATTTACAACTGAAAAGTAATTATACTGTTCGAAAAAAAAAATAG
1 CCCAATTTACAACTGAAAAGTAATTATACCGTTCGAAAAAAAAAATAG
* * * *
11157733 CCCAATTTACAACTGTAAAGTTATTATACCGTTGGAAAATAAAAAT
1 CCCAATTTACAACTGAAAAGTAATTATACCGTTCGAAAAAAAAAAT
11157779 TATAGTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.28
Consensus pattern (48 bp):
CCCAATTTACAACTGAAAAGTAATTATACCGTTCGAAAAAAAAAATAG
Found at i:11159817 original size:7 final size:7
Alignment explanation
Indices: 11159801--11159834 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
11159791 TGTTCTCACC
*
11159801 AAACATA
1 AAACACA
11159808 AAACACA
1 AAACACA
11159815 AAACACA
1 AAACACA
11159822 AAACACA
1 AAACACA
11159829 AAACAC
1 AAACAC
11159835 TACAGTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACACA
Found at i:11167576 original size:54 final size:54
Alignment explanation
Indices: 11167501--11167608 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
11167491 CAAAACAAAG
11167501 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
1 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
11167555 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
1 TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
11167609 AACTTTCCTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (54 bp):
TAAGCCATTTTCGCATGGCTTTTGATTACATTAATATGTACTTGATCCAAAATC
Found at i:11168031 original size:2 final size:2
Alignment explanation
Indices: 11168026--11168054 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11168016 CATTCAAACC
11168026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11168055 ATTCACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11168120 original size:67 final size:66
Alignment explanation
Indices: 11168047--11168252 Score: 265
Period size: 67 Copynumber: 3.1 Consensus size: 66
11168037 TATATATATA
* * *
11168047 TATATATAATTCACAACATTAAATTCAGCTCATAGAAATTGAAACATATATTCGAACCACATGTA
1 TATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCACATGTA
11168112 T
66 T
* * * *
11168113 GTATATATAATTCATAACATTAAGTTCAGCTCAAAGAATTTTGTAACATACATTCGAACCTCA--
1 -TATATATAATTCATAACATTAAATTCAGCTCAAAGAA-ATTGAAACATACATTCGAACCACATG
11168176 TA-
64 TAT
* * * *
11168178 TATATAAAATTCATAACATTAAATTCAACTCAAAGAAATTGAAAAATACATTCAAACCACATGTA
1 TATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCACATGTA
11168243 T
66 T
11168244 ATATATATA
1 -TATATATA
11168253 TATATTATAC
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
63 19 0.16
64 34 0.29
65 2 0.02
66 2 0.02
67 41 0.35
68 20 0.17
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (66 bp):
TATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCACATGTA
T
Found at i:11168195 original size:64 final size:63
Alignment explanation
Indices: 11168044--11168248 Score: 257
Period size: 64 Copynumber: 3.2 Consensus size: 63
11168034 ATATATATAT
* * *
11168044 ATATATATATAATTCACAACATTAAATTCAGCTCATAGAAATTGAAACATATATTCGAACCAC
1 ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCAC
* * *
11168107 ATGTATGTATATATAATTCATAACATTAAGTTCAGCTCAAAGAATTTTGTAACATACATTCGAAC
1 A--TA--TATATATAATTCATAACATTAAATTCAGCTCAAAGAA-ATTGAAACATACATTCGAAC
*
11168172 CTC
61 CAC
* * * *
11168175 ATATATATAAAATTCATAACATTAAATTCAACTCAAAGAAATTGAAAAATACATTCAAACCAC
1 ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCAC
*
11168238 ATGTATATATA
1 ATATATATATA
11168249 TATATATATT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
63 28 0.23
64 34 0.28
65 2 0.02
66 2 0.02
67 34 0.28
68 20 0.17
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.32
Consensus pattern (63 bp):
ATATATATATAATTCATAACATTAAATTCAGCTCAAAGAAATTGAAACATACATTCGAACCAC
Found at i:11170619 original size:18 final size:18
Alignment explanation
Indices: 11170596--11170634 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11170586 TGGGAAAATA
*
11170596 AGAAAGGGAATGGAAGAG
1 AGAAAGGGAATGAAAGAG
* *
11170614 AGAAAGTGAGTGAAAGAG
1 AGAAAGGGAATGAAAGAG
11170632 AGA
1 AGA
11170635 GAGATGTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.41, T:0.08
Consensus pattern (18 bp):
AGAAAGGGAATGAAAGAG
Found at i:11174662 original size:20 final size:18
Alignment explanation
Indices: 11174627--11174681 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
11174617 ATTATCGTTC
* *
11174627 TTTTATTTTTCATATATATA
1 TTTTATTTTT--TTTATATT
11174647 TTTTATTTTTTTTATATT
1 TTTTATTTTTTTTATATT
11174665 TTCTCTATTTTTTTTAT
1 TT-T-TATTTTTTTTAT
11174682 TTCTGCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 22 0.71
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTTTTATATT
Found at i:11179024 original size:12 final size:12
Alignment explanation
Indices: 11179007--11179031 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11178997 GAAGCAAATG
11179007 AAAGTCGTAATA
1 AAAGTCGTAATA
11179019 AAAGTCGTAATA
1 AAAGTCGTAATA
11179031 A
1 A
11179032 TGAACAGCTT
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:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
AAAGTCGTAATA
Found at i:11182943 original size:44 final size:44
Alignment explanation
Indices: 11182895--11183118 Score: 130
Period size: 44 Copynumber: 5.1 Consensus size: 44
11182885 AGACACCAGC
*
11182895 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGAT
1 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGTTGAAAATACCAGAT
* ** * * * * * *
11182939 CTTGCCATCCTGTATTGATAGCGAAGCAGATCGAAGACACCAG-T
1 CTTGCCTTCCTGGGTTG-CAGCGGAGCAGGTTGAAAATACCAGAT
* * * * ** * *
11182983 CTTTCCTCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGTTGAAAATACCAGAT
**** * * * * *
11183027 CTTGCCTTCCTGTACCGGCAGCGAAGCA-GATCAAAGACACCAG-C
1 CTTGCCTTCCTG-GGTTGCAGCGGAGCAGGTTGAAA-ATACCAGAT
* * *
11183071 CTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGTTGAAAATACCAGAT
11183115 CTTG
1 CTTG
11183119 TTTTCCTGTA
Statistics
Matches: 123, Mismatches: 51, Indels: 12
0.66 0.27 0.06
Matches are distributed among these distances:
43 32 0.26
44 59 0.48
45 32 0.26
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (44 bp):
CTTGCCTTCCTGGGTTGCAGCGGAGCAGGTTGAAAATACCAGAT
Found at i:11182999 original size:88 final size:88
Alignment explanation
Indices: 11182836--11183563 Score: 750
Period size: 88 Copynumber: 8.3 Consensus size: 88
11182826 GAACAGATCA
* * * * *
11182836 TTGAAGATAGCAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
11182901 TTCCTGGGTTGCAGCGGAGCAGG
66 TCCCTGGGTTGCAGCGGAGCAGG
* * * * * *
11182924 TTGAAAATAACAGATCTTGCCATCCTGTATTGATAGCGAAGCAGATCGAAGACACCAGTCTTTCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* * *
11182989 TCCCTAGGTTGCAGTGGAGCAGA
66 TCCCTGGGTTGCAGCGGAGCAGG
* * * * *
11183012 CTGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
11183077 TCCCTGGGTTGCAGCAGAGCAGG
66 TCCCTGGGTTGCAGCGGAGCAGG
** * * * *
11183100 TTGAAAATAGCAGATCTTGTTTTCCTGTACTAATAGCGAAGCAGATCGAAGACACTAGCCTTGCT
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
* *
11183165 TCCCTGGGGTGGAGCGGAGCAGG
66 TCCCTGGGTTGCAGCGGAGCAGG
* * * * * *
11183188 TTAAAAATAGCAGATTTTGCCTTCTTGTACCGACAGTGAAGCAGATCAAAGACACCAGCCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
11183253 TCCCTGGGTTGCAGCGAAGCAGG
66 TCCCTGGGTTGCAGCGGAGCAGG
* * ** * * * * *
11183276 TTGAAAATTGTAGATCTTATC-TCC-CTA-AG-CAGTAGTAGAGTAGATCGAAGACACTAGCCTT
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAG-CG-A-AGCAGATCGAAGACACCAGCCTT
** * *
11183337 GCCTCCCTCAGTGGCAGCAGAGCAGG
63 GCCTCCCTGGGTTGCAGCGGAGCAGG
* * * *
11183363 TT-AAAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGC
1 TTGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * * *
11183427 CTTCCTCGGTGGCAGCAGAGCAGG
65 CTCCCTGGGTTGCAGCGGAGCAGG
** * * *
11183451 TT-AAAGATAGCAGATCTTGCCTTCCTGTACTGACAATGAAGCAGATTGAAGACACTAGCCTTTC
1 TTGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * *
11183515 CTCCCTCGGTGGCAGCGGAACAGG
65 CTCCCTGGGTTGCAGCGGAGCAGG
* *
11183539 TT-AAAGATAGTAGATCTTGTCTTCC
1 TTGAAA-ATAGCAGATCTTGCCTTCC
11183564 CATACTGGTG
Statistics
Matches: 535, Mismatches: 97, Indels: 16
0.83 0.15 0.02
Matches are distributed among these distances:
84 3 0.01
85 2 0.00
86 6 0.01
87 56 0.10
88 461 0.86
89 3 0.01
90 1 0.00
91 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (88 bp):
TTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
TCCCTGGGTTGCAGCGGAGCAGG
Found at i:11183138 original size:176 final size:176
Alignment explanation
Indices: 11182839--11183563 Score: 861
Period size: 176 Copynumber: 4.1 Consensus size: 176
11182829 CAGATCATTG
* * *
11182839 AAGATAGCAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * * * *
11182904 CTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCATCCTGTATTGATAGCGAAGCAGA
66 CTGGGTTGCAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTAATAGCGAAGCAGA
* * * * * ** *
11182969 TCGAAGACACCAGTCTTTCCTCCCTAGGTTGCAGTGGAGCAGACTG
131 TCGAAGACACTAGCCTTGCCTCCCTAGGTGGCAGCGGAGCAGGTTA
*
11183015 AAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
**
11183080 CTGGGTTGCAGCAGAGCAGGTTGAAAATAGCAGATCTTGTTTTCCTGTACTAATAGCGAAGCAGA
66 CTGGGTTGCAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTAATAGCGAAGCAGA
* *
11183145 TCGAAGACACTAGCCTTGCTTCCCTGGGGTGG-AGCGGAGCAGGTTA
131 TCGAAGACACTAGCCTTGCCTCCCT-AGGTGGCAGCGGAGCAGGTTA
* * * *
11183191 AAAATAGCAGATTTTGCCTTCTTGTACCGACAGTGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * ** * * * * *
11183256 CTGGGTTGCAGC-GAAGCAGGTTGAAAATTGTAGATCTTATCTCCCT-AAGC-AGTAG-TAGAGT
66 CTGGGTTGCAGCAG-AGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTA-CTAATAGCGA-AGC
*
11183317 AGATCGAAGACACTAGCCTTGCCTCCCTCA-GTGGCAGCAGAGCAGGTTA
128 AGATCGAAGACACTAGCCTTGCCTCCCT-AGGTGGCAGCGGAGCAGGTTA
** * ** * *
11183366 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * * * **
11183431 CTCGGTGGCAGCAGAGCAGGTT-AAAGATAGCAGATCTTGCCTTCCTGTACTGACAATGAAGCAG
66 CTGGGTTGCAGCAGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGTACTAATAGCGAAGCAG
* * * *
11183495 ATTGAAGACACTAGCCTTTCCTCCCTCGGTGGCAGCGGAACAGGTTA
130 ATCGAAGACACTAGCCTTGCCTCCCTAGGTGGCAGCGGAGCAGGTTA
* *
11183542 AAGATAGTAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGCCTTCC
11183564 CATACTGGTG
Statistics
Matches: 471, Mismatches: 67, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
174 8 0.02
175 138 0.29
176 320 0.68
177 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (176 bp):
AAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
CTGGGTTGCAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTAATAGCGAAGCAGA
TCGAAGACACTAGCCTTGCCTCCCTAGGTGGCAGCGGAGCAGGTTA
Found at i:11183383 original size:44 final size:44
Alignment explanation
Indices: 11183334--11183476 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 44
11183324 AGACACTAGC
*
11183334 CTTGCCTCCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTTCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
* * ** * * * * *
11183378 CTTGCCTTCCTGTACTAACAG-TGAAGCAGATTGAAGACA-CTAG-C
1 CTTGCCTTCCT-CAGTGGCAGCAG-AGCAGGTTAAAGATAGC-AGAT
*
11183422 CTTGCCTTCCTCGGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTTCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
11183466 CTTGCCTTCCT
1 CTTGCCTTCCT
11183477 GTACTGACAA
Statistics
Matches: 73, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
43 18 0.25
44 36 0.49
45 19 0.26
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTCAGTGGCAGCAGAGCAGGTTAAAGATAGCAGAT
Found at i:11183416 original size:263 final size:265
Alignment explanation
Indices: 11182839--11183556 Score: 840
Period size: 263 Copynumber: 2.7 Consensus size: 265
11182829 CAGATCATTG
* *** * *
11182839 AAGATAGCAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTTC
* * * * * * * *
11182904 CTGGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCATCCTGTATTGATAGCGAAGCAGA
66 CTGGGGTGGAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
* * * ** * * *
11182969 TCGAAGACACCAGTCTTTCCTCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCT
131 TCGAAGACACCAGCCTTTCCTCCCTAGGTTGCAGCGAAGCAGGTTGAAAATAGTAGATCTTACCT
* * * * ** *
11183034 TCCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAG
196 CCCTGAACCAGCAGAGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCAGAGCAG
11183099 GTTGA
261 GTTGA
** *
11183104 AA-ATAGCAGATCTTGTTTTCCTGTACTAATAGCGAAGCAGATCGAAGACACTAGCCTTG-CTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTT-
* * *
11183167 CCTGGGGTGGAGCGGAGCAGGTTAAAAATAGCAGATTTTGCCTTCTTGTACCGACAGTGAAGCAG
65 CCTGGGGTGGAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAG
* * * * *
11183232 ATCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTGAAAATTGTAGATCTTATC
130 ATCGAAGACACCAGCCTTTCCTCCCTAGGTTGCAGCGAAGCAGGTTGAAAATAGTAGATCTTACC
* * * * *
11183297 TCCCT-AAGCAGTAGTAG-AGTAGATCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCAGAGC
195 TCCCTGAACCAGCAG-AGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCAGAGC
11183360 AGGTT-A
259 AGGTTGA
* *
11183366 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTTC
* * * *
11183431 CT-CGGTGGCAGCAGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAATGAAGCAG
66 CTGGGGTGG-AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAG
* * * *
11183495 ATTGAAGACACTAGCCTTTCCTCCCTCGGTGGCAGCGGAA-CAGGTT-AAAGATAGTAGATCTT
130 ATCGAAGACACCAGCCTTTCCTCCCTAGGTTGCAGC-GAAGCAGGTTGAAA-ATAGTAGATCTT
11183557 GTCTTCCCAT
Statistics
Matches: 382, Mismatches: 64, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
262 11 0.03
263 204 0.53
264 165 0.43
265 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (265 bp):
AAGATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTTC
CTGGGGTGGAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGA
TCGAAGACACCAGCCTTTCCTCCCTAGGTTGCAGCGAAGCAGGTTGAAAATAGTAGATCTTACCT
CCCTGAACCAGCAGAGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTCAGTGGCAGCAGAGCAG
GTTGA
Found at i:11183642 original size:44 final size:44
Alignment explanation
Indices: 11183542--11184163 Score: 441
Period size: 44 Copynumber: 14.1 Consensus size: 44
11183532 GAACAGGTTA
* ** * **
11183542 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGG-CATGAAGTAGATCG
* *
11183587 AAGAT-GACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATTG
1 AAGATAG-CAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
* * * * *
11183631 AAGATAGCAGATCCTGTATTCCTATATTGGTA-GAAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATG-AAGTAGATCG
*
11183675 AAGAT-GCAGATCTTGTCTTCCTATACTGGTGGC--GAAGTAGATCAG
1 AAGATAGCAGATCTTGTCTTCATATA-T--TGGCATGAAGTAGATC-G
* * * * *
11183720 AA-A-A-CGGATCTTGTCTTTATGTATTGGCGTGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
* * * * * *
11183761 AAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
* ** *
11183805 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGC--GAAGTAGATCA
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCATGAAGTAGATCG
* * * * * *
11183849 AAGAAAACAGATCTTATCTTCGTGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
* * * * *
11183893 AAGATAGCAGATCATGTCTTCTTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
* ** *
11183937 GAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCA
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCATGAAGTAGATCG
* *
11183981 AAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
* * * * * * *
11184025 AGGATAGCAGATCCTGTCTTCCTATAATGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-TGAAGTAGATCG
**
11184070 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCATGAAGTAGATCG
* * * *
11184114 AAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
11184158 AAGATA
1 AAGATA
11184164 TCAAATTTTG
Statistics
Matches: 450, Mismatches: 95, Indels: 65
0.74 0.16 0.11
Matches are distributed among these distances:
40 4 0.01
41 3 0.01
42 26 0.06
43 69 0.15
44 242 0.54
45 88 0.20
46 14 0.03
47 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCATATATTGGCATGAAGTAGATCG
Found at i:11183686 original size:132 final size:131
Alignment explanation
Indices: 11183550--11184163 Score: 953
Period size: 132 Copynumber: 4.7 Consensus size: 131
11183540 TAAAGATAGT
* *
11183550 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATGACAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AACAGATCTTGTCTTCATGTATT
* * * *
11183615 GGCATGAAGTAGATTGAAGATAGCAGATCCTGTATTCCTATATTGGTAGAAAGTGGATCGAAGAT
65 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
11183680 GC
130 GC
* * *
11183682 AGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATC--AGAAAACGGATCTTGTCTTTATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG-AAACAGATCTTGTCTTCATGTATT
* *
11183745 GGCGTGAAGTAGATTGAAGATAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
65 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
11183810 GC
130 GC
* * * *
11183812 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTATCTTCGTGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG-AAACAGATCTTGTCTTCATGTATT
* * *
11183877 GGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCTTATATTGGTAGGAAGTGGATCGGAGAT
65 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
11183942 GC
130 GC
*
11183944 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA-CAGATCTTGTCTTCATGTATT
* * *
11184009 GGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTCCTATAATGGTAGCGAAGTGGATCGAAGA
65 GGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA
11184074 TGC
129 TGC
*
11184077 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA-CAGATCTTGTCTTCATGTATT
11184142 GGCGTGAAGTAGATCGAAGATA
65 GGCGTGAAGTAGATCGAAGATA
11184164 TCAAATTTTG
Statistics
Matches: 444, Mismatches: 33, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
130 119 0.27
131 4 0.01
132 221 0.50
133 100 0.23
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (131 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAACAGATCTTGTCTTCATGTATTG
GCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATG
C
Found at i:11183965 original size:262 final size:264
Alignment explanation
Indices: 11183550--11184163 Score: 989
Period size: 262 Copynumber: 2.3 Consensus size: 264
11183540 TAAAGATAGT
* ** *
11183550 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATGACAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTATT
* * *
11183615 GGCATGAAGTAGATTGAAGATAGCAGATCCTGTATTCCTATATTGGTAGAAAGTGGATCGAAGAT
66 GGCGTGAAGTAGATCGAAGATAGCAGATCATGTATTCCTATATTGGTAGAAAGTGGATCGAAGAT
* * *
11183680 GCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATC-AGAAAACGGATCTTGTCTTTATGTAT
131 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAGAAAACAGATCTTGTCTTCATGTAT
* * *
11183744 TGGCGTGAAGTAGATTGAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
196 TGGCATGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAATGGTAGCGAAGTGGATCGAAG
11183808 ATGC
261 ATGC
* * *
11183812 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCTTATCTTCGTGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTATT
* * * *
11183877 GGCGTGAAGTAGATCGAAGATAGCAGATCATGTCTTCTTATATTGGTAGGAAGTGGATCGGAGAT
66 GGCGTGAAGTAGATCGAAGATAGCAGATCATGTATTCCTATATTGGTAGAAAGTGGATCGAAGAT
*
11183942 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTA
131 GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-AAGAAAACAGATCTTGTCTTCATGTA
* *
11184007 TTGGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTCCTATAATGGTAGCGAAGTGGATCGAA
195 TTGGCATGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAATGGTAGCGAAGTGGATCGAA
11184072 GATGC
260 GATGC
*
11184077 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTATT
11184142 GGCGTGAAGTAGATCGAAGATA
66 GGCGTGAAGTAGATCGAAGATA
11184164 TCAAATTTTG
Statistics
Matches: 322, Mismatches: 27, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
262 153 0.48
264 68 0.21
265 101 0.31
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (264 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTATCTTCATGTATT
GGCGTGAAGTAGATCGAAGATAGCAGATCATGTATTCCTATATTGGTAGAAAGTGGATCGAAGAT
GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAGAAAACAGATCTTGTCTTCATGTAT
TGGCATGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATAATGGTAGCGAAGTGGATCGAAG
ATGC
Found at i:11185522 original size:3 final size:3
Alignment explanation
Indices: 11185514--11185576 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
11185504 ATAGTTTTAT
*
11185514 TTA TTA TTA TT- TT- TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11185560 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
11185577 TCTATATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
2 4 0.07
3 54 0.93
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11185633 original size:21 final size:21
Alignment explanation
Indices: 11185585--11185635 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
11185575 TTTCTATATT
* *
11185585 TATACATGCATTTTTTTAATA
1 TATATATGCATTTTTATAATA
11185606 TATATATGCATTTTTATATAATA
1 TATATATGCA-TTTT-TATAATA
11185629 TATATAT
1 TATATAT
11185636 TTTTGACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 4 0.15
23 13 0.50
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
TATATATGCATTTTTATAATA
Found at i:11185635 original size:23 final size:21
Alignment explanation
Indices: 11185585--11185635 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
11185575 TTTCTATATT
*
11185585 TATACATGCATTTTTTTAATA
1 TATATATGCATTTTTTTAATA
11185606 TATATATGCATTTTTATATAATA
1 TATATATGCATTTTT-T-TAATA
11185629 TATATAT
1 TATATAT
11185636 TTTTGACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 12 0.44
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
TATATATGCATTTTTTTAATA
Found at i:11185637 original size:19 final size:18
Alignment explanation
Indices: 11185597--11185639 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
11185587 TACATGCATT
11185597 TTTTTAATATATATATGCA
1 TTTTTAATATATATAT-CA
11185616 TTTTTATATAATATATAT-A
1 TTTTTA-AT-ATATATATCA
11185635 TTTTT
1 TTTTT
11185640 GACTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 2 0.09
21 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTAATATATATATCA
Found at i:11189390 original size:44 final size:44
Alignment explanation
Indices: 11189342--11189437 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
11189332 ATATCTCAAG
*
11189342 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
** *
11189386 GTCCATGTTTATAATGTGGCAATTAAGAAAGAATTGATGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
11189430 GTACCATG
1 GT-CCATG
11189438 GTTGATCAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 42 0.89
45 5 0.11
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:11189515 original size:50 final size:50
Alignment explanation
Indices: 11189455--11189995 Score: 841
Period size: 50 Copynumber: 10.8 Consensus size: 50
11189445 AATGTCAACA
11189455 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* *
11189505 CAAGATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* * * *
11189555 CGAGATGAGAGGTCCAATGTAAGACCATGTTTTGGACATGGTGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
11189605 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* *
11189655 CAAGATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* * * *
11189705 CGAGATGAGAGGTCCAATGTAAGACCATGTTTTGGACATGGTGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
*
11189755 CGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
*
11189805 CGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
*
11189855 CGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* * * *
11189905 CGAGATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCAT
1 CGAGATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
* * ** * *
11189955 CGATATAAGAACTCCCATGTAAGACCATATCTGGGATATGG
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGG
11189996 TATTGGTAGT
Statistics
Matches: 454, Mismatches: 35, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
49 1 0.00
50 452 1.00
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
Found at i:11190584 original size:44 final size:44
Alignment explanation
Indices: 11190521--11190608 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
11190511 TTACTAATGA
11190521 TTGTTATTTTACATATGAACTTACTAAGCTTTATAAGCTTACCT
1 TTGTTATTTTACATATGAACTTACTAAGCTTTATAAGCTTACCT
11190565 TTGTTATTTTACATATGAACTTACTAAGCTTTATAAGCTTACCT
1 TTGTTATTTTACATATGAACTTACTAAGCTTTATAAGCTTACCT
11190609 ATTTCCTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (44 bp):
TTGTTATTTTACATATGAACTTACTAAGCTTTATAAGCTTACCT
Found at i:11196913 original size:9 final size:9
Alignment explanation
Indices: 11196898--11196929 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
11196888 TTTTATCTAT
11196898 TTATGTAAG
1 TTATGTAAG
*
11196907 CTATGTAAG
1 TTATGTAAG
11196916 TTATGTAAG
1 TTATGTAAG
11196925 TTATG
1 TTATG
11196930 ATCCAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11196977 original size:9 final size:9
Alignment explanation
Indices: 11196965--11197008 Score: 79
Period size: 9 Copynumber: 4.9 Consensus size: 9
11196955 ATGTTTATAC
11196965 AAGTTATGT
1 AAGTTATGT
*
11196974 AAGTTATAT
1 AAGTTATGT
11196983 AAGTTATGT
1 AAGTTATGT
11196992 AAGTTATGT
1 AAGTTATGT
11197001 AAGTTATG
1 AAGTTATG
11197009 ATTATCATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (9 bp):
AAGTTATGT
Found at i:11196986 original size:18 final size:18
Alignment explanation
Indices: 11196959--11197008 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
11196949 CTTTAAATGT
*
11196959 TTATACAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
11196977 TTATATAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
*
11196995 TTATGTAAGTTATG
1 TTATATAAGTTATG
11197009 ATTATCATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (18 bp):
TTATATAAGTTATGTAAG
Found at i:11197035 original size:13 final size:13
Alignment explanation
Indices: 11197017--11197043 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11197007 TGATTATCAT
11197017 CTTTAAATTTTAA
1 CTTTAAATTTTAA
11197030 CTTTAAATTTTAA
1 CTTTAAATTTTAA
11197043 C
1 C
11197044 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:11197340 original size:18 final size:20
Alignment explanation
Indices: 11197303--11197340 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
11197293 ACATTAGGAT
*
11197303 AAATATTATTTTCCATTAAA
1 AAATATTATTTTCAATTAAA
11197323 AAATA-TATTTT-AATTAAA
1 AAATATTATTTTCAATTAAA
11197341 TAAAGTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATTATTTTCAATTAAA
Found at i:11199866 original size:22 final size:22
Alignment explanation
Indices: 11199823--11199866 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11199813 AATATATAAT
*
11199823 TAAATTAATCAAAATTTACAAA
1 TAAATTAATCAAAAATTACAAA
*
11199845 TAAA-TAATCCAAAAATTGCAAA
1 TAAATTAAT-CAAAAATTACAAA
11199867 CAACCGCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTAATCAAAAATTACAAA
Found at i:11201839 original size:50 final size:50
Alignment explanation
Indices: 11201727--11201969 Score: 342
Period size: 50 Copynumber: 4.8 Consensus size: 50
11201717 GATAATAACA
* * ** *
11201727 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
11201778 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
11201828 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
11201878 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
11201928 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11201970 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 139 0.82
51 31 0.18
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11206639 original size:11 final size:12
Alignment explanation
Indices: 11206623--11206655 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
11206613 TCACAAAATG
11206623 ATTTCGT-GAAA
1 ATTTCGTCGAAA
11206634 ATTTCGTTCGAAA
1 ATTTCG-TCGAAA
11206647 ATTTCGTCG
1 ATTTCGTCG
11206656 TTTAGGCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 4 0.20
13 10 0.50
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (12 bp):
ATTTCGTCGAAA
Found at i:11207332 original size:50 final size:50
Alignment explanation
Indices: 11207221--11207418 Score: 270
Period size: 50 Copynumber: 3.8 Consensus size: 50
11207211 ATTTGAGTAA
* *
11207221 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGTTCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA-CC-T-AG---ATG
*
11207277 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCTAGATG
* *
11207327 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCTAGATG
** *
11207377 AGAGGTCCCCCGTAAGACTATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
11207419 TGTTATGATC
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
50 88 0.66
53 2 0.02
54 1 0.01
55 2 0.02
56 40 0.30
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCTAGATG
Found at i:11208892 original size:41 final size:41
Alignment explanation
Indices: 11208806--11208892 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
11208796 CTTTGCGGTG
* * *
11208806 TTTTTCTCATAAAAGCCGCTAATGCTTGATCTTTTGCTGCG
1 TTTTTCTCATAAAAGCCGCTAACGCTTGACCTTTTGCTGCA
* * * *
11208847 TTTTTCTCATAAACGCTGCTACCGCTTTACCTATTT-CTGCA
1 TTTTTCTCATAAAAGCCGCTAACGCTTGACCT-TTTGCTGCA
11208888 TTTTT
1 TTTTT
11208893 TTGTTAGCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 35 0.92
42 3 0.08
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (41 bp):
TTTTTCTCATAAAAGCCGCTAACGCTTGACCTTTTGCTGCA
Found at i:11215266 original size:41 final size:41
Alignment explanation
Indices: 11215221--11215330 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
11215211 CATTGAATGT
* * **
11215221 AAGGGGTTACTAAGTGAAGATTCCTTGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
*
11215262 AAGGGGTCGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
*
11215303 AAGGGGTTGCCAAGTGCAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
11215331 GGGGTTGCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
Found at i:11215343 original size:26 final size:26
Alignment explanation
Indices: 11215304--11215356 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11215294 CTGATCAAAA
11215304 AGGGGTTGCCAAGTGCAGATTCCCCG
1 AGGGGTTGCCAAGTGCAGATTCCCCG
* **
11215330 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCCAAGTGCAGATTCCCCG
11215356 A
1 A
11215357 ATTATTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.25
Consensus pattern (26 bp):
AGGGGTTGCCAAGTGCAGATTCCCCG
Found at i:11223637 original size:27 final size:27
Alignment explanation
Indices: 11223607--11223670 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
11223597 TTTCATTTTT
***
11223607 ATGCAATTTAGTTTGTAGGTCCAAATC
1 ATGCAATTTAGTCCATAGGTCCAAATC
11223634 ATGCAATTTAGTCCATAGGTCCAAATC
1 ATGCAATTTAGTCCATAGGTCCAAATC
*
11223661 ATACAATTTA
1 ATGCAATTTA
11223671 ACCATTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (27 bp):
ATGCAATTTAGTCCATAGGTCCAAATC
Found at i:11224156 original size:5 final size:5
Alignment explanation
Indices: 11224117--11224143 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11224107 TTATCATACC
11224117 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
11224144 AAAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:11225440 original size:20 final size:19
Alignment explanation
Indices: 11225412--11225459 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
11225402 TGATGTGTTA
*
11225412 AAATGATTTTAAATTGGTT
1 AAATCATTTTAAATTGGTT
* *
11225431 GAAATCATTTTGACTTGGTT
1 -AAATCATTTTAAATTGGTT
11225451 AGAATCATT
1 A-AATCATT
11225460 CTAACTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (19 bp):
AAATCATTTTAAATTGGTT
Found at i:11229577 original size:272 final size:271
Alignment explanation
Indices: 11229083--11229631 Score: 992
Period size: 272 Copynumber: 2.0 Consensus size: 271
11229073 ACTCTAGGAG
* *
11229083 CTTGTTTTAAACCATATAAAGCTTTTGAAATTTTGAAAACATGGTTTGGAAATTTTAGATCTTCA
1 CTTGTTTTAAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCA
* * **
11229148 AAACTTGGTGGTTGTTCAACATATGCTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTAC
66 AAACTTAGTGGTTGTTCAACAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTAC
11229213 ATCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCA
131 ATCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCA
11229278 TCCTAGCTACTGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGACTGTAACCTTGAGCA
196 TCCTAGCTACTGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGACTGTAACCTTGAGCA
11229343 ACAAGTCTAGC
261 ACAAGTCTAGC
*
11229354 CTTGTTTTCAAACCATATAAAGCTTTTGAAAGTTTGAAAATATGGTTTGCAAATTTTAGATCTTC
1 CTTGTTTT-AAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTC
*
11229419 AAAACTTAGTGGTTGTTCAACAGACACTTCTTTATTTATAAAACCATTTAGAAAAATACTTTTTA
65 AAAACTTAGTGGTTGTTCAACAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTA
11229484 CATCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCC
130 CATCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCC
*
11229549 ATCCTAGCTA-TGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAG
195 ATCCTAGCTACT-GGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGACTGTAACCTTGAG
11229613 CAACAAGTCTAGC
259 CAACAAGTCTAGC
11229626 CTTGTT
1 CTTGTT
11229632 CCTCACTATG
Statistics
Matches: 267, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
271 9 0.03
272 258 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (271 bp):
CTTGTTTTAAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCA
AAACTTAGTGGTTGTTCAACAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTAC
ATCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCA
TCCTAGCTACTGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGACTGTAACCTTGAGCA
ACAAGTCTAGC
Found at i:11248165 original size:20 final size:20
Alignment explanation
Indices: 11248132--11248171 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11248122 CCAACCCTCA
*
11248132 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
11248152 AAAC-TTTTATTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
11248172 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:11258356 original size:13 final size:13
Alignment explanation
Indices: 11258338--11258366 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11258328 CCTTATTAAA
11258338 AATTAGAAAAAAT
1 AATTAGAAAAAAT
11258351 AATTAGAAAAAAT
1 AATTAGAAAAAAT
11258364 AAT
1 AAT
11258367 AAATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AATTAGAAAAAAT
Found at i:11258412 original size:18 final size:18
Alignment explanation
Indices: 11258361--11258412 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
11258351 AATTAGAAAA
11258361 AATAATAAATAATAAATTTT
1 AATAA-AAAT-ATAAATTTT
* *
11258381 -AGAAAATTATTAAATTTT
1 AATAAAAATA-TAAATTTT
11258399 AATAAAAATATAAA
1 AATAAAAATATAAA
11258413 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 1 0.04
18 15 0.58
19 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATAAAAATATAAATTTT
Found at i:11258694 original size:48 final size:46
Alignment explanation
Indices: 11258633--11258766 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 46
11258623 ATAAAAAATT
* *
11258633 TTTATGAAATTTATATTTCTTTAAATTTTTTATAATTTTCTTACGA-C
1 TTTATAAAATTTATATTTCTTTATATTTTTTAT-ATTTT-TTACGATC
* *
11258680 TTTATAAAATTTTATATTTC--TATATATTTTATATTTTTTACGATT
1 TTTATAAAA-TTTATATTTCTTTATATTTTTTATATTTTTTACGATC
* *
11258725 TTTATAAAAATTTACAATTTTTTTATATTTTTTATGATTTTT
1 TTTAT-AAAATTTA-TATTTCTTTATATTTTTTAT-ATTTTT
11258767 ATATTTTTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
44 6 0.08
45 14 0.19
46 18 0.25
47 8 0.11
48 21 0.29
49 6 0.08
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (46 bp):
TTTATAAAATTTATATTTCTTTATATTTTTTATATTTTTTACGATC
Found at i:11258752 original size:46 final size:46
Alignment explanation
Indices: 11258660--11258755 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
11258650 TCTTTAAATT
* *
11258660 TTTTATAATTTTCTTACGACTTTATAAAATTTTATATTTCTATATA
1 TTTTATAATTTTCTTACGACTTTATAAAAATTTAAATTTCTATATA
* * *
11258706 TTTTAT-ATTTT-TTACGATTTTTATAAAAATTTACAATTTTTTTATA
1 TTTTATAATTTTCTTACGA-CTTTATAAAAATTTA-AATTTCTATATA
11258752 TTTT
1 TTTT
11258756 TTATGATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
44 6 0.14
45 18 0.42
46 19 0.44
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (46 bp):
TTTTATAATTTTCTTACGACTTTATAAAAATTTAAATTTCTATATA
Found at i:11258786 original size:18 final size:18
Alignment explanation
Indices: 11258747--11258796 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
11258737 TACAATTTTT
* *
11258747 TTATATTTTTTATGATTT
1 TTATATTTTTTATAATTA
*
11258765 TTATATTTTTTCTAATTA
1 TTATATTTTTTATAATTA
11258783 TTATTAATTTTTTA
1 TTA-T-ATTTTTTA
11258797 ATATTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 18 0.69
19 1 0.04
20 7 0.27
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATATTTTTTATAATTA
Found at i:11258978 original size:89 final size:92
Alignment explanation
Indices: 11258876--11259055 Score: 244
Period size: 91 Copynumber: 2.0 Consensus size: 92
11258866 TAATAAAAGC
* *
11258876 AGGGGCTTAATTGC-TTTTTTT-AAATA-AATTGAGGGTCTTTTTTT-ATACATTTTGAAAGTTT
1 AGGGGCTTAATTGCTTTTTTTTGAAA-AGAATTGAGGG-CTTTTTTTGATACATTTTAAAAGTTC
*
11258937 AAGTACCCAATTGAGTGCAAAAA-AAAAT
64 AAGTACCCAAATGAGTGCAAAAAGAAAAT
** *
11258965 AGGGGCTTAATTGCTTTTTTTTGAAAAGGTTTGAGGGCTTTTTTTGATGCATTTTAAAAGTTCAA
1 AGGGGCTTAATTGCTTTTTTTTGAAAAGAATTGAGGGCTTTTTTTGATACATTTTAAAAGTTCAA
*
11259030 GTACCCAAATGATTGCAAAAAGAAAA
66 GTACCCAAATGAGTGCAAAAAGAAAA
11259056 GAAAAAGCAA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
89 14 0.18
90 16 0.20
91 45 0.57
92 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (92 bp):
AGGGGCTTAATTGCTTTTTTTTGAAAAGAATTGAGGGCTTTTTTTGATACATTTTAAAAGTTCAA
GTACCCAAATGAGTGCAAAAAGAAAAT
Found at i:11260590 original size:9 final size:9
Alignment explanation
Indices: 11260578--11260703 Score: 61
Period size: 9 Copynumber: 14.2 Consensus size: 9
11260568 AAAATTAGAA
11260578 AAAAATTAT
1 AAAAATTAT
11260587 AAAAA-T-T
1 AAAAATTAT
11260594 -AAAATTAAT
1 AAAAATT-AT
*
11260603 AAAAACTAT
1 AAAAATTAT
*
11260612 AAATATTATT
1 AAAAATTA-T
**
11260622 AAATGTTAAT
1 AAAAATT-AT
11260632 AAAAA--AT
1 AAAAATTAT
*
11260639 CAAATATTA-
1 -AAAAATTAT
*
11260648 AAAATTTATT
1 AAAAATTA-T
*
11260658 AAAAATTAG
1 AAAAATTAT
*
11260667 AAAAAATAT
1 AAAAATTAT
11260676 AAAAA-TAGT
1 AAAAATTA-T
*
11260685 AAAAAATAT
1 AAAAATTAT
11260694 AAAAA-TAT
1 AAAAATTAT
11260702 AA
1 AA
11260704 TATTTTAGGA
Statistics
Matches: 91, Mismatches: 13, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
6 4 0.04
7 4 0.04
8 18 0.20
9 38 0.42
10 26 0.29
11 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:11260678 original size:18 final size:19
Alignment explanation
Indices: 11260657--11260699 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
11260647 AAAAATTTAT
11260657 TAAAAATTAG-AAAAAATA
1 TAAAAATTAGTAAAAAATA
11260675 TAAAAA-TAGTAAAAAATA
1 TAAAAATTAGTAAAAAATA
11260693 TAAAAAT
1 TAAAAAT
11260700 ATAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
TAAAAATTAGTAAAAAATA
Found at i:11260679 original size:8 final size:8
Alignment explanation
Indices: 11260668--11260703 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
11260658 AAAAATTAGA
11260668 AAAAATAT
1 AAAAATAT
11260676 AAAAATAGT
1 AAAAATA-T
11260685 AAAAAATAT
1 -AAAAATAT
11260694 AAAAATAT
1 AAAAATAT
11260702 AA
1 AA
11260704 TATTTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:11260680 original size:10 final size:9
Alignment explanation
Indices: 11260657--11260703 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 9
11260647 AAAAATTTAT
*
11260657 TAAAAATTA
1 TAAAAAATA
*
11260666 GAAAAAATA
1 TAAAAAATA
11260675 T-AAAAATA
1 TAAAAAATA
11260683 GTAAAAAATA
1 -TAAAAAATA
11260693 T-AAAAATA
1 TAAAAAATA
11260701 TAA
1 TAA
11260704 TATTTTAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 15 0.47
9 10 0.31
10 7 0.22
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
TAAAAAATA
Found at i:11260735 original size:91 final size:90
Alignment explanation
Indices: 11260565--11260736 Score: 199
Period size: 91 Copynumber: 1.9 Consensus size: 90
11260555 CTTGGTTTTC
* ** *
11260565 TTAAAAATTAGAAAAAAATTATAAAAATTAAAATTAATAAAAACTATAAATATTATTAAATGTTA
1 TTAAAAATTAGAAAAAAATTATAAAAATTAAAA-TAATAAAAAATATAAATATTAGGAAATGGTA
*
11260630 ATAAAAAATCAAATATTAAAAATTTA
65 ATAAAAAATAAAATATTAAAAATTTA
*
11260656 TTAAAAATTAG-AAAAAA-TATAAAAATAGTAAAA-AATATAAAAATATAATATTTTAGGAAATG
1 TTAAAAATTAGAAAAAAATTATAAAAAT--TAAAATAATA-AAAAATATAA-ATATTAGGAAATG
*
11260718 GTAA-AAGAATATAAAATAT
62 GTAATAA-AAAATAAAATAT
11260737 ATAGAAATAT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
89 13 0.19
90 17 0.25
91 39 0.57
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (90 bp):
TTAAAAATTAGAAAAAAATTATAAAAATTAAAATAATAAAAAATATAAATATTAGGAAATGGTAA
TAAAAAATAAAATATTAAAAATTTA
Found at i:11260988 original size:28 final size:28
Alignment explanation
Indices: 11260935--11260989 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
11260925 GACGTTATTA
**
11260935 TATTTTTAATAAATTTTAATTTTTTTTG
1 TATTTTTAATAAATTTTAATAATTTTTG
* *
11260963 TATTTTTATTAAATTTTGATAATTTTT
1 TATTTTTAATAAATTTTAATAATTTTT
11260990 CTAAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTTTAATAAATTTTAATAATTTTTG
Found at i:11261210 original size:92 final size:91
Alignment explanation
Indices: 11261039--11261260 Score: 290
Period size: 91 Copynumber: 2.4 Consensus size: 91
11261029 AATTTTTAAT
* * * *
11261039 AAGAGTAGGGGATTAATTGCTTTTTTGAAAAATTTTAAGGGTCTTTTTGATCCATTTGAAAGTTC
1 AAGAGAAGGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATACATTTGAAAGTTC
11261104 AAGTACCTAATTGAGTG-AAAAAAAA
66 AAGTACCTAATTGAGTGAAAAAAAAA
* *
11261129 AAGAGAAGGGGCTTAATTGCTTTTCTTGAAGAAGTTTGAGGG-CATTTTTGATACATTTTGAAAG
1 AAGAGAAGGGGCTTAATTGCTTTT-TTGAAAAAGTTTAAGGGTC-TTTTTGATACA-TTTGAAAG
*
11261193 TTCAAGT-GCTCAATTGAGTGCAAAAAAAAA
63 TTCAAGTACCT-AATTGAGTG-AAAAAAAAA
*
11261223 AAAAGAA-GGGCTTAATTGCTTTTTTTGAAAAAGTTTAA
1 AAGAGAAGGGGCTTAATTGC-TTTTTTGAAAAAGTTTAA
11261261 AGACTTTTTA
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
90 23 0.20
91 26 0.23
92 24 0.21
93 24 0.21
94 18 0.16
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (91 bp):
AAGAGAAGGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGTCTTTTTGATACATTTGAAAGTTC
AAGTACCTAATTGAGTGAAAAAAAAA
Found at i:11261269 original size:92 final size:90
Alignment explanation
Indices: 11261045--11261269 Score: 276
Period size: 93 Copynumber: 2.5 Consensus size: 90
11261035 TAATAAGAGT
* * * *
11261045 AGGGGATTAATTGC-TTTTTTGAAAAATTTTAAGGGTCTTTTTGATCCATTTGAAAGTTCAAGTA
1 AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAA-GGACTTTTTGATACATTTGAAAGTTCAAGTA
*
11261109 CCTAATTGAGTGAAAAAAAAAAGAGA
65 CCTAATTGAGTGAAAAAAAAAAAAGA
* * * *
11261135 AGGGGCTTAATTGCTTTTCTTGAAGAAGTTTGAGGGCATTTTTGATACATTTTGAAAGTTCAAGT
1 AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGAC-TTTTTGATACA-TTTGAAAGTTCAAGT
*
11261200 -GCTCAATTGAGTGCAAAAAAAAAAAAAGA
64 ACCT-AATTGAGTG--AAAAAAAAAAAAGA
*
11261229 A-GGGCTTAATTGCTTTTTTTGAAAAAGTTTAAAGACTTTTT
1 AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGACTTTTT
11261270 ACAGCCTTAA
Statistics
Matches: 115, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
90 16 0.14
91 26 0.23
92 29 0.25
93 30 0.26
94 14 0.12
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (90 bp):
AGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGACTTTTTGATACATTTGAAAGTTCAAGTAC
CTAATTGAGTGAAAAAAAAAAAAGA
Found at i:11266525 original size:13 final size:13
Alignment explanation
Indices: 11266509--11266539 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
11266499 TTCAACCTAA
11266509 GTGCCTAACCAAT
1 GTGCCTAACCAAT
11266522 GTGCCTAACCAAT
1 GTGCCTAACCAAT
11266535 GTGCC
1 GTGCC
11266540 CTCATTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (13 bp):
GTGCCTAACCAAT
Found at i:11267400 original size:44 final size:45
Alignment explanation
Indices: 11267302--11267414 Score: 156
Period size: 44 Copynumber: 2.5 Consensus size: 45
11267292 AAGTGCTGGA
**
11267302 ATAGTATCTTTCAACTATGGTCTTGATTCATTCACATTTAATGCC
1 ATAGTATCTTTCAACTATGGTCTTGACCCATTCACATTTAATGCC
* * * **
11267347 ATAGCATCTTTCAACTAGGGTCTT-ACCCGTTCAGGTTTAATGCC
1 ATAGTATCTTTCAACTATGGTCTTGACCCATTCACATTTAATGCC
11267391 ATAGTATCTTTCAACTATGGTCTT
1 ATAGTATCTTTCAACTATGGTCTT
11267415 TCTTATTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 37 0.63
45 22 0.37
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
ATAGTATCTTTCAACTATGGTCTTGACCCATTCACATTTAATGCC
Found at i:11269789 original size:142 final size:141
Alignment explanation
Indices: 11269602--11269870 Score: 296
Period size: 141 Copynumber: 1.9 Consensus size: 141
11269592 AGATAAAATG
* * *
11269602 TTTTTCTATAAAAGTCCAGGTAATTCCCTGTAAAACCCCAAGTTTTTGCTTTTA-CTAGGGAAAA
1 TTTTCCTATAAAAG-CCAGGTAATTCCCTGTAAAACCCCAAG-TTTTCCTTTTATC-AGGAAAAA
*** * * * *
11269666 GTTTAAAATTAATTCCAGAAA-ATGA-AAAAAATTAAAGGAAATTAAAAAGACAAAATGATTTTT
63 AAGTAAAACTAATTCCA-AAAGA-GAGAAAAAAATAAAGAAAATTAAAAAGA-AAAATGACTTTT
11269729 CCTATAAAGACCTAAGC
125 CCTATAAAGACCTAAGC
* * **
11269746 TTTTCCTATAAAA-CCAGTTAA-TCCCTTGTAAAACCTCGGGTTTTCCTTTTATCAGGAAAAAAA
1 TTTTCCTATAAAAGCCAGGTAATTCCC-TGTAAAACCCCAAGTTTTCCTTTTATCAGGAAAAAAA
* *
11269809 GTAAAACTAATTCTAAAAGAGAGAAAAAAATAAAGAAAATTAAAAAGATAAATGACTTTTCC
65 GTAAAACTAATTCCAAAAGAGAGAAAAAAATAAAGAAAATTAAAAAGAAAAATGACTTTTCC
11269871 ACATAAAACT
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
140 17 0.16
141 57 0.54
142 19 0.18
144 12 0.11
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (141 bp):
TTTTCCTATAAAAGCCAGGTAATTCCCTGTAAAACCCCAAGTTTTCCTTTTATCAGGAAAAAAAG
TAAAACTAATTCCAAAAGAGAGAAAAAAATAAAGAAAATTAAAAAGAAAAATGACTTTTCCTATA
AAGACCTAAGC
Found at i:11273941 original size:46 final size:46
Alignment explanation
Indices: 11273888--11274051 Score: 197
Period size: 46 Copynumber: 3.6 Consensus size: 46
11273878 TAATATTCCT
* * *
11273888 GTATTCTCGAGTCTACAACATATGCAGGAACTTAG-ACACTAATCAC
1 GTATTCTCGAGTCCACAACATATGCAGGAGCTTGGAAC-CTAATCAC
* * *
11273934 GTATTCTCGAGTCCGCAACATATGCAAGAGCTTGGAACCTAATCAT
1 GTATTCTCGAGTCCACAACATATGCAGGAGCTTGGAACCTAATCAC
** * *
11273980 GTATTCTCGAGTCCGTAACATATGTAGGAGCTTGGAACCTATTC-C
1 GTATTCTCGAGTCCACAACATATGCAGGAGCTTGGAACCTAATCAC
*
11274025 TGTAATCTCGAGTCCACAACATATGCA
1 -GTATTCTCGAGTCCACAACATATGCA
11274052 AAAGCTCGGA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
46 99 0.98
47 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (46 bp):
GTATTCTCGAGTCCACAACATATGCAGGAGCTTGGAACCTAATCAC
Found at i:11275990 original size:25 final size:25
Alignment explanation
Indices: 11275959--11276010 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
11275949 AGACAAGGAA
*
11275959 AATGATGGGAGTGAGGAGATGGATG
1 AATGATGGGAATGAGGAGATGGATG
11275984 AATGATGGGAATGAGGAGATGGATG
1 AATGATGGGAATGAGGAGATGGATG
11276009 AA
1 AA
11276011 GAGGACAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (25 bp):
AATGATGGGAATGAGGAGATGGATG
Found at i:11283129 original size:9 final size:9
Alignment explanation
Indices: 11283115--11283172 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
11283105 GTTAAACGAA
11283115 TCGAGTTAT
1 TCGAGTTAT
11283124 TCGAGTTAAT
1 TCGAGTT-AT
*
11283134 TAG-GTTAT
1 TCGAGTTAT
*
11283142 TCGAGTTAA
1 TCGAGTTAT
*
11283151 TCGAGTTGT
1 TCGAGTTAT
11283160 TCGAGTTAT
1 TCGAGTTAT
11283169 TCGA
1 TCGA
11283173 ATCAACTCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 4 0.10
9 33 0.80
10 4 0.10
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11283240 original size:9 final size:9
Alignment explanation
Indices: 11283225--11283261 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11283215 TAATTTTTTG
11283225 AATTCGAAT
1 AATTCGAAT
*
11283234 AACTCGAAT
1 AATTCGAAT
11283243 AATTCGAAT
1 AATTCGAAT
11283252 AATTCGAAT
1 AATTCGAAT
11283261 A
1 A
11283262 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11286649 original size:19 final size:19
Alignment explanation
Indices: 11286627--11286688 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
11286617 ACAAAGGGAT
11286627 TAAAAACAAATTAAATGAA
1 TAAAAACAAATTAAATGAA
* * * *
11286646 TAAAACCAAA-CAAAGGGAT
1 TAAAAACAAATTAAA-TGAA
11286665 TAAAAACAAATTAAATGAA
1 TAAAAACAAATTAAATGAA
11286684 TAAAA
1 TAAAA
11286689 CAGTGCAGGA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 3 0.09
19 27 0.82
20 3 0.09
ACGTcount: A:0.66, C:0.08, G:0.08, T:0.18
Consensus pattern (19 bp):
TAAAAACAAATTAAATGAA
Found at i:11286653 original size:38 final size:38
Alignment explanation
Indices: 11286610--11286689 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
11286600 ATTATTGAAG
11286610 AAACCAAACAAAGGGATTAAAAACAAATTAAATGAATA
1 AAACCAAACAAAGGGATTAAAAACAAATTAAATGAATA
11286648 AAACCAAACAAAGGGATTAAAAACAAATTAAATGAATA
1 AAACCAAACAAAGGGATTAAAAACAAATTAAATGAATA
11286686 AAAC
1 AAAC
11286690 AGTGCAGGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.64, C:0.11, G:0.10, T:0.15
Consensus pattern (38 bp):
AAACCAAACAAAGGGATTAAAAACAAATTAAATGAATA
Found at i:11293627 original size:17 final size:17
Alignment explanation
Indices: 11293607--11293641 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11293597 ATGCATAATC
*
11293607 ACAGTTCATTCAATATA
1 ACAGTTCATACAATATA
11293624 ACAGTTCATACAATATA
1 ACAGTTCATACAATATA
11293641 A
1 A
11293642 TAATTCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
ACAGTTCATACAATATA
Found at i:11293648 original size:17 final size:17
Alignment explanation
Indices: 11293611--11293649 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11293601 ATAATCACAG
* *
11293611 TTCATTCAATATAACAG
1 TTCATACAATATAACAA
*
11293628 TTCATACAATATAATAA
1 TTCATACAATATAACAA
11293645 TTCAT
1 TTCAT
11293650 CCATACCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
TTCATACAATATAACAA
Found at i:11300666 original size:2 final size:2
Alignment explanation
Indices: 11300661--11300732 Score: 67
Period size: 2 Copynumber: 37.0 Consensus size: 2
11300651 TATATAATCT
* * *
11300661 TA TA TA TA TA TA TA TA TA TT TA TA TA CA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
11300703 CA -A TA AA TC T- TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11300733 CATGTATCTA
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11300672 original size:16 final size:16
Alignment explanation
Indices: 11300665--11300735 Score: 94
Period size: 16 Copynumber: 4.6 Consensus size: 16
11300655 TAATCTTATA
*
11300665 TATATATATATATATT
1 TATATACATATATATT
11300681 TATATACATATATATT
1 TATATACATATATATT
*
11300697 TATATACA-ATAAATCT
1 TATATACATATATAT-T
11300713 TATAT--ATATATATT
1 TATATACATATATATT
11300727 TATATACAT
1 TATATACAT
11300736 GTATCTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
14 7 0.15
15 10 0.21
16 31 0.65
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATACATATATATT
Found at i:11301889 original size:2 final size:2
Alignment explanation
Indices: 11301882--11301914 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11301872 TACGGTAAAG
*
11301882 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11301915 AGTTGCTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11306704 original size:28 final size:27
Alignment explanation
Indices: 11306671--11306733 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
11306661 ATATGCCATG
*
11306671 TTAAAAAAT-AATTCAAAATTTATAAAAA
1 TTAAAAAATAAAATCAAAA-TTA-AAAAA
*
11306699 TTAAAAATTAAAATCAAAATTAAAAAA
1 TTAAAAAATAAAATCAAAATTAAAAAA
11306726 TATAAAAA
1 T-TAAAAA
11306734 GTTCATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 17 0.55
29 8 0.26
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (27 bp):
TTAAAAAATAAAATCAAAATTAAAAAA
Found at i:11306705 original size:29 final size:27
Alignment explanation
Indices: 11306674--11306733 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
11306664 TGCCATGTTA
*
11306674 AAAAAT-AATTCAAAATTTATAAAAAT-T
1 AAAAATAAAATCAAAA-TTA-AAAAATAT
11306701 AAAAATTAAAATCAAAATTAAAAAATAT
1 AAAAA-TAAAATCAAAATTAAAAAATAT
11306729 AAAAA
1 AAAAA
11306734 GTTCATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 11 0.38
28 10 0.34
29 8 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (27 bp):
AAAAATAAAATCAAAATTAAAAAATAT
Found at i:11309746 original size:15 final size:16
Alignment explanation
Indices: 11309720--11309749 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11309710 ATTAGTTAGT
11309720 TTTAAGTTTTGTTTTG
1 TTTAAGTTTTGTTTTG
11309736 TTTAA-TTTTGTTTT
1 TTTAAGTTTTGTTTT
11309750 ACTTTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (16 bp):
TTTAAGTTTTGTTTTG
Found at i:11312704 original size:3 final size:3
Alignment explanation
Indices: 11312696--11312728 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11312686 AATCTACCCA
11312696 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11312729 GTCTCAACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:11313351 original size:15 final size:16
Alignment explanation
Indices: 11313333--11313366 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
11313323 TTCTTTAATA
11313333 TTATTAAATTTAT-TT
1 TTATTAAATTTATATT
11313348 TTATTAAATTTATATT
1 TTATTAAATTTATATT
11313364 TTA
1 TTA
11313367 ACAATGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTAAATTTATATT
Found at i:11313973 original size:25 final size:25
Alignment explanation
Indices: 11313923--11313973 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11313913 TATTGATAAC
*
11313923 TTAATATATAGATAATATATACATT
1 TTAATATATAGATAATATATAAATT
* *
11313948 TTAATAT-TATATATTATTATAAATT
1 TTAATATATAGATAATA-TATAAATT
11313973 T
1 T
11313974 ATTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTAATATATAGATAATATATAAATT
Found at i:11329050 original size:25 final size:25
Alignment explanation
Indices: 11329014--11329086 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
11329004 ACGAGACTTA
*
11329014 AATTGCTCACATGAGCTATGAATGT
1 AATTACTCACATGAGCTATGAATGT
* * * *
11329039 AATTCCTTACATGAGCTGTGAACGT
1 AATTACTCACATGAGCTATGAATGT
*
11329064 AATTACTCACATGAGATATGAAT
1 AATTACTCACATGAGCTATGAAT
11329087 TGGGACTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (25 bp):
AATTACTCACATGAGCTATGAATGT
Found at i:11332268 original size:52 final size:51
Alignment explanation
Indices: 11332198--11332295 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
11332188 CTCATCTTAA
* *
11332198 TTTTACCCTAGTAAAATTTTGATGATTTTACCCCCGATAAAATTTTGATGG
1 TTTTACCCTAGTAAAATTTTAATGATTTTACCCCAGATAAAATTTTGATGG
*
11332249 TTTTACCCTTAGTAAAATTTTAATGATTTTACCCTAGATAAAATTTT
1 TTTTACCC-TAGTAAAATTTTAATGATTTTACCCCAGATAAAATTTT
11332296 AAGAAAATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 8 0.19
52 35 0.81
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (51 bp):
TTTTACCCTAGTAAAATTTTAATGATTTTACCCCAGATAAAATTTTGATGG
Found at i:11332296 original size:26 final size:25
Alignment explanation
Indices: 11332197--11332297 Score: 130
Period size: 26 Copynumber: 3.9 Consensus size: 25
11332187 TCTCATCTTA
*
11332197 ATTTTACCCTAGTAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTAATG
** *
11332222 ATTTTACCCCCGATAAAATTTTGATG
1 ATTTTACCCTAG-TAAAATTTTAATG
*
11332248 GTTTTACCCTTAGTAAAATTTTAATG
1 ATTTTACCC-TAGTAAAATTTTAATG
11332274 ATTTTACCCTAGATAAAATTTTAA
1 ATTTTACCCTAG-TAAAATTTTAA
11332298 GAAAATTCGT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.20
26 52 0.79
27 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTAATG
Found at i:11336028 original size:27 final size:26
Alignment explanation
Indices: 11335983--11336036 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
11335973 GTTGTAAAGT
* *
11335983 TTTATTTTTATTTTATTTATTTATTTA
1 TTTATTTTTATCTTATTTAATT-TTTA
11336010 TTTATTTTTA-CTTAGTTTAATTTTTA
1 TTTATTTTTATCTTA-TTTAATTTTTA
11336036 T
1 T
11336037 GTAAATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTATTTTTATCTTATTTAATTTTTA
Found at i:11339238 original size:18 final size:19
Alignment explanation
Indices: 11339215--11339263 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
11339205 AAGTTTTATT
*
11339215 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
11339233 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
11339252 TTTAATTTTTAT
1 TTT-ATTTTTAT
11339264 GTAAATATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:11339243 original size:22 final size:22
Alignment explanation
Indices: 11339206--11339263 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
11339196 CAAGTTGTAA
* *
11339206 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
11339228 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
11339250 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
11339264 GTAAATATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:11341666 original size:14 final size:14
Alignment explanation
Indices: 11341647--11341675 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11341637 TCAGTTTGAT
11341647 TATTTTTAGTTTTA
1 TATTTTTAGTTTTA
11341661 TATTTTTAGTTTTA
1 TATTTTTAGTTTTA
11341675 T
1 T
11341676 TTTAGTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TATTTTTAGTTTTA
Found at i:11343379 original size:43 final size:43
Alignment explanation
Indices: 11343330--11343428 Score: 171
Period size: 43 Copynumber: 2.3 Consensus size: 43
11343320 GAATCGTACT
* *
11343330 TTTAGCGGCGTTTGTGATAAAAGCGTCGCTGAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
*
11343373 TTTAGCGTCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
11343416 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
11343429 ATGGGTTCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
Found at i:11344512 original size:44 final size:43
Alignment explanation
Indices: 11344450--11344536 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 43
11344440 GCAGCCTGCT
*
11344450 TCAGTTAAAAGCATAATTGTTTTGCTCATCGGACTATTTCAAA
1 TCAGTTAAAAGCATAATTGTTTCGCTCATCGGACTATTTCAAA
*
11344493 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
1 TCAGTT-AAAAGCATAATTGTTTCGCTCATCGGACTATTTCAAA
11344537 CAACAGGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 6 0.15
44 35 0.85
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (43 bp):
TCAGTTAAAAGCATAATTGTTTCGCTCATCGGACTATTTCAAA
Found at i:11350469 original size:5 final size:5
Alignment explanation
Indices: 11350461--11350486 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11350451 GAGATGGAAT
11350461 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
11350487 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11350889 original size:19 final size:19
Alignment explanation
Indices: 11350856--11350903 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11350846 TAAACAATTC
11350856 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
11350873 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
11350892 AATAATATAAAT
1 AATAATATAAAT
11350904 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:11351036 original size:16 final size:16
Alignment explanation
Indices: 11351015--11351045 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11351005 AGGAAAAATA
*
11351015 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
11351031 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
11351046 AGTAAATAGG
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:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:11351491 original size:9 final size:9
Alignment explanation
Indices: 11351474--11351504 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11351464 TCGAGTTGAT
11351474 TCGAATAAC
1 TCGAATAAC
*
11351483 TCGATTAAC
1 TCGAATAAC
11351492 TCGAATAAC
1 TCGAATAAC
11351501 TCGA
1 TCGA
11351505 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11354198 original size:29 final size:30
Alignment explanation
Indices: 11354165--11354230 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
11354155 AGGGGGATGA
* * *
11354165 AAAATGGCA-TTTTGTTAAGTTTGTAACGG
1 AAAATGGCAGCTTCGTTAAGTCTGTAACGG
* *
11354194 AAAATGGTAGCTTCGTTATGTCTGTAACGG
1 AAAATGGCAGCTTCGTTAAGTCTGTAACGG
11354224 AAAATGG
1 AAAATGG
11354231 TTAGTGGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
AAAATGGCAGCTTCGTTAAGTCTGTAACGG
Found at i:11354650 original size:16 final size:16
Alignment explanation
Indices: 11354629--11354698 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
11354619 TTTGGTTCGC
* *
11354629 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* **
11354645 TGTATTGGGTTAGAGG
1 TGTAATGGAATAGAGG
*
11354661 TGTAATAGAATAGAGG
1 TGTAATGGAATAGAGG
11354677 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
11354693 TGTAAT
1 TGTAAT
11354699 AGCAAATCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:11354675 original size:32 final size:32
Alignment explanation
Indices: 11354639--11354700 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
11354629 TGTATTGGAT
* **
11354639 TAGAGGTGTATTGGGTTAGAGGTGTAATAGAA
1 TAGAGGTGTAATGGAATAGAGGTGTAATAGAA
11354671 TAGAGGTGTAATGGAATAGAGGTGTAATAG
1 TAGAGGTGTAATGGAATAGAGGTGTAATAG
11354701 CAAATCAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.37, T:0.29
Consensus pattern (32 bp):
TAGAGGTGTAATGGAATAGAGGTGTAATAGAA
Found at i:11354782 original size:39 final size:43
Alignment explanation
Indices: 11354677--11354786 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
11354667 AGAATAGAGG
11354677 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
11354722 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
11354762 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
11354787 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:11354953 original size:18 final size:17
Alignment explanation
Indices: 11354932--11354966 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11354922 TTATTATTAA
*
11354932 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11354950 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11354967 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11355068 original size:119 final size:120
Alignment explanation
Indices: 11354908--11355269 Score: 600
Period size: 120 Copynumber: 3.0 Consensus size: 120
11354898 TAATTTAATC
* * *
11354908 ATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
* * * * * *
11354973 TAATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAAT
66 TATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAT
11355028 ATATTTTAACATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
*
11355092 TATTAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAAT
66 TATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAT
*
11355147 ATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
* *
11355212 TATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAAT
66 TATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAT
11355267 ATA
1 ATA
11355270 GATTAATAAT
Statistics
Matches: 227, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
119 109 0.48
120 118 0.52
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
ATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
TATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAT
Found at i:11363402 original size:15 final size:15
Alignment explanation
Indices: 11363382--11363411 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11363372 CATATTCAAA
*
11363382 CCATCATTTTACCTT
1 CCATCATTCTACCTT
11363397 CCATCATTCTACCTT
1 CCATCATTCTACCTT
11363412 ATCAAGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (15 bp):
CCATCATTCTACCTT
Found at i:11364199 original size:49 final size:51
Alignment explanation
Indices: 11364093--11364205 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 51
11364083 GTACATGTAT
* * * *
11364093 GCTCATATGAGCT-ATGAATCGGTATGCTCCCACGAGCTGGAAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCCCACGAGCTGAAAATCGGTAA
* *
11364143 GCTCATACGAGCTGA-GAATCGATAAGCTCTCATGAGCT-AAAATCGGTAA
1 GCTCATACGAGCTGATGAATCGATAAGCTCCCACGAGCTGAAAATCGGTAA
*
11364192 GCTCATACCAGCTG
1 GCTCATACGAGCTG
11364206 TGGTGTGTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
49 23 0.42
50 31 0.56
51 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (51 bp):
GCTCATACGAGCTGATGAATCGATAAGCTCCCACGAGCTGAAAATCGGTAA
Found at i:11364204 original size:24 final size:25
Alignment explanation
Indices: 11364109--11364205 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
11364099 ATGAGCTATG
* ** *
11364109 AATCGGTATGCTCCCACGAGCTGGA
1 AATCGGTAAGCTCATACGAGCTGAA
*
11364134 AATCGGTAAGCTCATACGAGCTGAG
1 AATCGGTAAGCTCATACGAGCTGAA
* *
11364159 AATCGATAAGCTC-TCATGAGCT-AA
1 AATCGGTAAGCTCAT-ACGAGCTGAA
*
11364183 AATCGGTAAGCTCATACCAGCTG
1 AATCGGTAAGCTCATACGAGCTG
11364206 TGGTGTGTCT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 19 0.33
25 39 0.67
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.22
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGAA
Done.