Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 127 of 332
Found at i:41511319 original size:30 final size:30
Alignment explanation
Indices: 41511213--41511446 Score: 88
Period size: 30 Copynumber: 7.9 Consensus size: 30
41511203 TTCGCAGCTC
* *
41511213 GATAGCCAAAGCTATCCCTTTTCATTATTT
1 GATATCCAAAGCCATCCCTTTTCATTATTT
* * ***
41511243 AATGGTCGTCA-CCATCCCTTTTCATTA-TT
1 GAT-ATCCAAAGCCATCCCTTTTCATTATTT
***
41511272 GATGAT-CGTCGCCATCCCTTTTCATTATTT
1 GAT-ATCCAAAGCCATCCCTTTTCATTATTT
* ** *
41511302 GATATCCAAAGCTATCCCTTTTCACAATTC
1 GATATCCAAAGCCATCCCTTTTCATTATTT
* ** * * * *
41511332 GATAGCTGAAGCTATCTCTTTTCGTTATTC
1 GATATCCAAAGCCATCCCTTTTCATTATTT
** *
41511362 GAGGT-CATCA-CCATCCCTTTTCATT-TTT
1 GATATCCA-AAGCCATCCCTTTTCATTATTT
* * *
41511390 GATGGT-CACCA-CCATCCCTTTTCATAATTT
1 GAT-ATCCA-AAGCCATCCCTTTTCATTATTT
* * * *
41511420 GATAGCCGAGGCTATCCCTTTTCATTA
1 GATATCCAAAGCCATCCCTTTTCATTA
41511447 GCTCATGATC
Statistics
Matches: 148, Mismatches: 47, Indels: 18
0.69 0.22 0.08
Matches are distributed among these distances:
28 4 0.03
29 56 0.38
30 86 0.58
31 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
GATATCCAAAGCCATCCCTTTTCATTATTT
Found at i:41511420 original size:118 final size:119
Alignment explanation
Indices: 41511168--41511443 Score: 349
Period size: 118 Copynumber: 2.3 Consensus size: 119
41511158 GTTGTCCCCA
* * *
41511168 CCCTTTTCATAGATCT-ATAGCCGAAGCTATCCCTTTTCGCAGCTCGATAGCCAAAGCTATCCCT
1 CCCTTTTCATA-ATTTGATAGCCGAAGCTATCCCTTTTCACAACTCGATAGCCAAAGCTATCCCT
* * ** *
41511232 TTTCATTATTTAATGGTCGTCACCATCCCTTTTCATTATTGATGATCGTCGCCAT
65 TTTCATTATTCAATGGTCATCACCATCCCTTTTCATTATTGATGATCACCACCAT
* * * * ** *
41511287 CCCTTTTCATTATTTGATATCCAAAGCTATCCCTTTTCACAATTCGATAGCTGAAGCTATCTCTT
1 CCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCACAACTCGATAGCCAAAGCTATCCCTT
* * * *
41511352 TTCGTTATTCGA-GGTCATCACCATCCCTTTTCATTTTTGATGGTCACCACCAT
66 TTCATTATTCAATGGTCATCACCATCCCTTTTCATTATTGATGATCACCACCAT
*
41511405 CCCTTTTCATAATTTGATAGCCGAGGCTATCCCTTTTCA
1 CCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCA
41511444 TTAGCTCATG
Statistics
Matches: 133, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
118 73 0.55
119 60 0.45
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (119 bp):
CCCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCACAACTCGATAGCCAAAGCTATCCCTT
TTCATTATTCAATGGTCATCACCATCCCTTTTCATTATTGATGATCACCACCAT
Found at i:41517354 original size:9 final size:9
Alignment explanation
Indices: 41517325--41517361 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
41517315 TGAGTTTTCA
41517325 AATTCGAAT
1 AATTCGAAT
*
41517334 AACTCGAAT
1 AATTCGAAT
41517343 AATTCGAAT
1 AATTCGAAT
*
41517352 AATTCAAAT
1 AATTCGAAT
41517361 A
1 A
41517362 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:41517605 original size:29 final size:31
Alignment explanation
Indices: 41517546--41517610 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
41517536 GTTTTATTTT
* * *
41517546 CCCTCAAAATTTTTATTCCCTTCCCCTTTCC
1 CCCTCAAAACTTTTACTCCCTTCCCCATTCC
41517577 CCCT-AAAACTTTTACTCCCTT-CCCATTCC
1 CCCTCAAAACTTTTACTCCCTTCCCCATTCC
*
41517606 ACCTC
1 CCCTC
41517611 CCATCTACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 10 0.34
30 15 0.52
31 4 0.14
ACGTcount: A:0.18, C:0.45, G:0.00, T:0.37
Consensus pattern (31 bp):
CCCTCAAAACTTTTACTCCCTTCCCCATTCC
Found at i:41520063 original size:21 final size:21
Alignment explanation
Indices: 41520037--41520078 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
41520027 TCCAAGGAGA
* *
41520037 TACTTTTAAAAATACTTTATC
1 TACTTTCAAAAATAATTTATC
41520058 TACTTTCAAAAATAATTTATC
1 TACTTTCAAAAATAATTTATC
41520079 CCCAACTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.45
Consensus pattern (21 bp):
TACTTTCAAAAATAATTTATC
Found at i:41529672 original size:20 final size:20
Alignment explanation
Indices: 41529649--41529686 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41529639 CTCGCAACTC
41529649 ACCATAGTCTTTCACAACAT
1 ACCATAGTCTTTCACAACAT
*
41529669 ACCATAGTCTTTCCCAAC
1 ACCATAGTCTTTCACAAC
41529687 TTTAACATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.29
Consensus pattern (20 bp):
ACCATAGTCTTTCACAACAT
Found at i:41529883 original size:42 final size:42
Alignment explanation
Indices: 41529765--41529883 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
41529755 CACATAGTAC
* ****
41529765 CATACCAATGTCATATCCCAGATATGGTCTTACATGGGATCT
1 CATACCAATGCCATATCCCAGATATGGTCTTACACAAAATCT
* * * * * *
41529807 CATATCGATGACAATAGCCCAGCTATGGTCTTACACAAAATTT
1 CATACCAATG-CCATATCCCAGATATGGTCTTACACAAAATCT
41529850 CATACCAATGCCATATCCCAGATATGGTCTTACA
1 CATACCAATGCCATATCCCAGATATGGTCTTACA
41529884 TGTAATCTCA
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 29 0.48
43 31 0.52
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
CATACCAATGCCATATCCCAGATATGGTCTTACACAAAATCT
Found at i:41537182 original size:12 final size:13
Alignment explanation
Indices: 41537158--41537187 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
41537148 AGTAATCAAT
41537158 ATCAACTTATTTA
1 ATCAACTTATTTA
41537171 ATCAAC-TATTTA
1 ATCAACTTATTTA
41537183 ATCAA
1 ATCAA
41537188 TTTAGTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (13 bp):
ATCAACTTATTTA
Found at i:41538910 original size:9 final size:9
Alignment explanation
Indices: 41538890--41538920 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
41538880 AAAATATCAT
41538890 ATTAATTTTA
1 ATTAA-TTTA
41538900 ATTAATTTA
1 ATTAATTTA
41538909 ATTAATTTA
1 ATTAATTTA
41538918 ATT
1 ATT
41538921 TTACTTGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:41542667 original size:38 final size:38
Alignment explanation
Indices: 41542546--41542709 Score: 220
Period size: 38 Copynumber: 4.3 Consensus size: 38
41542536 ATATTCGATG
41542546 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
41542584 TATATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
41542624 AATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
41542662 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
41542700 TATATTCGGG
1 TATATCCGGG
41542710 CCTTCGTGCC
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
38 70 0.65
39 10 0.09
40 28 0.26
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:41542826 original size:43 final size:43
Alignment explanation
Indices: 41542702--41542813 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
41542692 GCTGGTATTA
* * * *
41542702 TATTCGGGCCTTCGTGCCTAGTATGCTTCGTGTCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
41542745 TATTCGGGCCATCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
41542788 TATTCAGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
41542814 GTAATGCCGG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:41545350 original size:27 final size:27
Alignment explanation
Indices: 41545320--41545494 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
41545310 ATATTGAGTC
* *
41545320 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
41545347 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
41545373 CGCACACTTAGTGCTACAT-ATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
41545399 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
41545426 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
41545453 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
41545480 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41545495 GTACAATTTA
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
25 5 0.04
26 39 0.30
27 84 0.65
28 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41553419 original size:27 final size:27
Alignment explanation
Indices: 41553389--41553564 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
41553379 ATATTGAGCC
* *
41553389 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
41553416 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
41553443 CGCACACTTAGTGCTACATAGT-AACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
41553469 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
41553496 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
41553523 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
41553550 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41553565 GTACAATTTA
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.18
27 101 0.81
28 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:41553526 original size:80 final size:80
Alignment explanation
Indices: 41553410--41553563 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 80
41553400 TGCTATATAA
* *
41553410 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGT-AACTCGCAC
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-TCGCAC
41553474 ACTTAGTGCCGCATGG
65 ACTTAGTGCCGCATGG
* * **
41553490 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTC-AATCGCA
41553554 CACTTAGTGC
64 CACTTAGTGC
41553564 TGTACAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
79 2 0.03
80 46 0.71
81 15 0.23
82 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:41556396 original size:66 final size:67
Alignment explanation
Indices: 41556314--41556443 Score: 226
Period size: 67 Copynumber: 2.0 Consensus size: 67
41556304 CTTTTCAGAG
*
41556314 AGCACACTCCTGCGAACCTCATTTCTTACA-CAGGATTACCAATCCAGGCTAAATCCCCTGTAAA
1 AGCACACTCCTACGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTGTAAA
41556378 AT
66 AT
* *
41556380 AGCACACTCCTACGAACCTTATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGTAA
1 AGCACACTCCTACGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTGTAA
41556444 CATATGCTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 28 0.47
67 32 0.53
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.25
Consensus pattern (67 bp):
AGCACACTCCTACGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTGTAAA
AT
Found at i:41567013 original size:108 final size:108
Alignment explanation
Indices: 41566825--41567040 Score: 319
Period size: 108 Copynumber: 2.0 Consensus size: 108
41566815 CACGAGGGTG
* * *
41566825 TATCTTGAGGCTCTTATCAGGTTCTGCATGTACATCATCAGCCAGTTCAGTTTCAGCAGATTTTT
1 TATCTTGAGGCTCCTATCAGGTTCTGCAAGTACATCATCAGCCAGTTCAGTTTCAGCAGAATTTT
*
41566890 TTTCATTATACTTCT-CAAGAACAGTCGCATCTTTCAAATTACA
66 TTTCATTATACTTCTCCAA-AACAGTCGCATCTGTCAAATTACA
* * *
41566933 TATCTTGGGGCTCCTATCAGGTTCTGCAAGTACATTATCTGCCAGTTCAGTTTCAGCAGAATTTT
1 TATCTTGAGGCTCCTATCAGGTTCTGCAAGTACATCATCAGCCAGTTCAGTTTCAGCAGAATTTT
* *
41566998 TTTCATTAT-CATTCTCCAAAACAGTTGCATCTGTCAATTTACA
66 TTTCATTATAC-TTCTCCAAAACAGTCGCATCTGTCAAATTACA
41567041 CAACTGAGTT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 93 0.96
109 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (108 bp):
TATCTTGAGGCTCCTATCAGGTTCTGCAAGTACATCATCAGCCAGTTCAGTTTCAGCAGAATTTT
TTTCATTATACTTCTCCAAAACAGTCGCATCTGTCAAATTACA
Found at i:41575086 original size:20 final size:19
Alignment explanation
Indices: 41575061--41575105 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
41575051 CGAAAAATGA
41575061 TTTCTGAAAAATAATTTACT
1 TTTCTG-AAAATAATTTACT
* * *
41575081 TTTCTGGAAATGATTTATT
1 TTTCTGAAAATAATTTACT
41575100 TTTCTG
1 TTTCTG
41575106 GTGTTTGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTCTGAAAATAATTTACT
Found at i:41575096 original size:19 final size:19
Alignment explanation
Indices: 41575069--41575106 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41575059 GATTTCTGAA
41575069 AAATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
* *
41575088 AAATGATTTATTTTTCTGG
1 AAATAATTTACTTTTCTGG
41575107 TGTTTGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:41575212 original size:20 final size:20
Alignment explanation
Indices: 41575187--41575226 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
41575177 CTGTTTTTAC
41575187 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
41575207 ATATATTAATAAATTTATAT
1 ATATATTAATAAATTTATAT
41575227 TTTAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTAATAAATTTATAT
Found at i:41575234 original size:13 final size:13
Alignment explanation
Indices: 41575216--41575260 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
41575206 TATATATTAA
41575216 TAAATTTATATTT
1 TAAATTTATATTT
*
41575229 TAAATTT-TTTTT
1 TAAATTTATATTT
*
41575241 ATAAATTTATACTT
1 -TAAATTTATATTT
41575255 TAAATT
1 TAAATT
41575261 GTTTTTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.15
13 20 0.74
14 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATTTATATTT
Found at i:41575244 original size:26 final size:26
Alignment explanation
Indices: 41575215--41575267 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
41575205 ATATATATTA
* *
41575215 ATAAATTTATATTTTAAATTTTTTTT
1 ATAAATTTATACTTTAAATTGTTTTT
41575241 ATAAATTTATACTTTAAATTGTTTTT
1 ATAAATTTATACTTTAAATTGTTTTT
41575267 A
1 A
41575268 CATATATTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
ATAAATTTATACTTTAAATTGTTTTT
Found at i:41576540 original size:21 final size:21
Alignment explanation
Indices: 41576516--41576556 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41576506 TCAATATCAT
41576516 TATCCAACCA-AATAAATTCAC
1 TATCCAA-CATAATAAATTCAC
*
41576537 TATCTAACATAATAAATTCA
1 TATCCAACATAATAAATTCA
41576557 ACAAGCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAC
Found at i:41576591 original size:21 final size:21
Alignment explanation
Indices: 41576526--41576591 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 21
41576516 TATCCAACCA
*
41576526 AATAAATTCACTATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
41576547 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
41576572 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
41576592 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:41576592 original size:32 final size:32
Alignment explanation
Indices: 41576565--41576625 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
41576555 CAACAAGCTT
* *
41576565 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
41576597 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
41576626 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:41578720 original size:32 final size:32
Alignment explanation
Indices: 41578679--41578745 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
41578669 ACATGTTAGT
41578679 TTTGGATTTGTTTTTCTCTCTACCTGATTCTA
1 TTTGGATTTGTTTTTCTCTCTACCTGATTCTA
* *
41578711 TTTGGATTTGTTTTTCTCTCTACTTGATTTTA
1 TTTGGATTTGTTTTTCTCTCTACCTGATTCTA
41578743 TTT
1 TTT
41578746 TATTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (32 bp):
TTTGGATTTGTTTTTCTCTCTACCTGATTCTA
Found at i:41580019 original size:464 final size:464
Alignment explanation
Indices: 41579146--41580540 Score: 2323
Period size: 464 Copynumber: 3.0 Consensus size: 464
41579136 TTCATTAAAG
* *
41579146 TTGCAACATGACAAACCAAGAAACAACATCCCTCAAAGGCATTGCCTTAAGAAAAGCACTGTAAA
1 TTGCAACATGACAGACCAAGAAACAACATCCCTCAAAGGCATTGCCTTAAGAAAAGCACTGTGAA
* *
41579211 GAACCAATTAATTCTAGGTAACAATGTTTCACTCAGGAATTTCATCGAACAATTTACATGCATCA
66 TAACCAATTAATTCCAGGTAACAATGTTTCACTCAGGAATTTCATCGAACAATTTACATGCATCA
*
41579276 TCAAAATAATAGACAACACATTGTAAAAAGTTTTGACGAACACATAAAAAGTAGAAAAATGGAAG
131 TCAAAATAATAGACAACACATTGTTAAAAGTTTTGACGAACACATAAAAAGTAGAAAAATGGAAG
*
41579341 GAAAAAACAAAATTTGATTCATTGATTTCATTCTCTTGCCATTCATACAGAAAAAAGAAGAAGCT
196 GAAAAAACAAAATTTGATTCATTGATTTCATTATCTTGCCATTCATACAGAAAAAAGAAGAAGCT
* * *
41579406 GTAGTTAACAATTACTTCCTGTAAATTCAACAACATGTTCATTGATCTTTTAGCGTTCTTTTTTT
261 GTAGTTAACAACTACTTCCTGTAAATTCAGCAACATGTTCATTGATCTTTTAGTGTTCTTTTTTT
*
41579471 GTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAACAGC
326 GTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAAGAGC
* *
41579536 AAAACCAAAACTTCTATGTTAAAACTAAAATCTATCTAACTAATGTATATATGTCAAAAATATCA
391 AAAACCAAAACTACTATGTTAAAACTAAAATCTATCTAACTAATGTATATATGTCAAGAATATCA
41579601 CTAGTCCTT
456 CTAGTCCTT
41579610 TTGCAACATGACAGACCAAGAAACAACATCCCTCAAAGGCATTG-CTTAAGAAAAGCACTGTGAA
1 TTGCAACATGACAGACCAAGAAACAACATCCCTCAAAGGCATTGCCTTAAGAAAAGCACTGTGAA
*
41579674 TAACCAAGTAATTCCAGGTAACAATGTTTCACTCAGGAATTTCATCGAACAATTTACATGCATCA
66 TAACCAATTAATTCCAGGTAACAATGTTTCACTCAGGAATTTCATCGAACAATTTACATGCATCA
* *
41579739 TCAAAATAATAGATAACACATTTTTAAAAGTTTTGACGAACACATAAAAAGTAGAAAAATGGAAG
131 TCAAAATAATAGACAACACATTGTTAAAAGTTTTGACGAACACATAAAAAGTAGAAAAATGGAAG
41579804 GAAAAAAACAAAATTTGATTCATTGATTTCATTATCTTGCCATTCATACAGAAAAAAGAAGAAGC
196 G-AAAAAACAAAATTTGATTCATTGATTTCATTATCTTGCCATTCATACAGAAAAAAGAAGAAGC
41579869 TGTAGTTAACAACTACTTCCTGTAAATTCAGCAACATGTTCATTGATCTTTTAGTGTTCTTTTTT
260 TGTAGTTAACAACTACTTCCTGTAAATTCAGCAACATGTTCATTGATCTTTTAGTGTTCTTTTTT
41579934 TGTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAAGAG
325 TGTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAAGA-
41579999 GAAAACCAAAACTGCTATGTTAAAACTAAAATCTATGTTAAAACTAAAATCTATCTAACTAATGT
389 G-----CAAAAC--C------AAAACT---A-CTATGTTAAAACTAAAATCTATCTAACTAATGT
41580064 ATATATGTCAAGAATATCACTAGTCCTT
437 ATATATGTCAAGAATATCACTAGTCCTT
41580092 TTGCAACATGACAGACCAAGAAACAA-ATCCCTCAAAGGCATTGCCTTAAGAAAAGCACTGTGAA
1 TTGCAACATGACAGACCAAGAAACAACATCCCTCAAAGGCATTGCCTTAAGAAAAGCACTGTGAA
*
41580156 TAACCAATTAATTCCAGGTAACAATGTTTCACTTAGGAATTTCATCGAACAATTTACATGCATCA
66 TAACCAATTAATTCCAGGTAACAATGTTTCACTCAGGAATTTCATCGAACAATTTACATGCATCA
** *
41580221 TCAAAATAATAGACAATGCATTGTTAAAAGTTTTGATGAACACATAAAAAGTAGAAAAATGGAAG
131 TCAAAATAATAGACAACACATTGTTAAAAGTTTTGACGAACACATAAAAAGTAGAAAAATGGAAG
41580286 GAAAAAACAAAATTTGATTCATTGATTTCATTATCTTGCCATTCATACAGAAAAAAGAAGAAGCT
196 GAAAAAACAAAATTTGATTCATTGATTTCATTATCTTGCCATTCATACAGAAAAAAGAAGAAGCT
* *
41580351 GTAGTTAACAACTACTTCCTATAAATTCAGCAACATG-T--TT-A-----T--TGATCTTTTTTT
261 GTAGTTAACAACTACTTCCTGTAAATTCAGCAACATGTTCATTGATCTTTTAGTGTTCTTTTTTT
41580405 GTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAATG-G
326 GTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAA-GAG
41580469 CAAAACCAAAACTACTATGTTAAAACTAAAATCTATCTAACTAATGTATATATGTCAAGAATATC
390 CAAAACCAAAACTACTATGTTAAAACTAAAATCTATCTAACTAATGTATATATGTCAAGAATATC
41580534 ACTAGTC
455 ACTAGTC
41580541 ATTTATTTAG
Statistics
Matches: 886, Mismatches: 24, Indels: 54
0.92 0.02 0.06
Matches are distributed among these distances:
452 58 0.07
453 1 0.00
456 6 0.01
462 1 0.00
463 144 0.16
464 236 0.27
465 1 0.00
469 1 0.00
470 78 0.09
471 1 0.00
472 2 0.00
477 1 0.00
478 8 0.01
480 1 0.00
481 117 0.13
482 230 0.26
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (464 bp):
TTGCAACATGACAGACCAAGAAACAACATCCCTCAAAGGCATTGCCTTAAGAAAAGCACTGTGAA
TAACCAATTAATTCCAGGTAACAATGTTTCACTCAGGAATTTCATCGAACAATTTACATGCATCA
TCAAAATAATAGACAACACATTGTTAAAAGTTTTGACGAACACATAAAAAGTAGAAAAATGGAAG
GAAAAAACAAAATTTGATTCATTGATTTCATTATCTTGCCATTCATACAGAAAAAAGAAGAAGCT
GTAGTTAACAACTACTTCCTGTAAATTCAGCAACATGTTCATTGATCTTTTAGTGTTCTTTTTTT
GTCGACCTCCATCTTTTAGCTTAAAATAAGCTATGTTAAAACTAAACCAAATTGCAGCAAAGAGC
AAAACCAAAACTACTATGTTAAAACTAAAATCTATCTAACTAATGTATATATGTCAAGAATATCA
CTAGTCCTT
Found at i:41580036 original size:18 final size:18
Alignment explanation
Indices: 41580013--41580052 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
41580003 ACCAAAACTG
41580013 CTATGTTAAAACTAAAAT
1 CTATGTTAAAACTAAAAT
41580031 CTATGTTAAAACTAAAAT
1 CTATGTTAAAACTAAAAT
41580049 CTAT
1 CTAT
41580053 CTAACTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (18 bp):
CTATGTTAAAACTAAAAT
Found at i:41582685 original size:3 final size:3
Alignment explanation
Indices: 41582666--41582875 Score: 128
Period size: 3 Copynumber: 71.0 Consensus size: 3
41582656 TTAATTAGTT
* * * * *
41582666 TAA TAA T-A TGA TGA TAA TAA TAG TAA TAA T-A CAA TAA TAA TAA -AG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
41582711 TAGA AAA TAA TAA TAA TAA TAA T-A CAA TAA TAA TAA -AA CAAA GAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* ** * *
41582756 TAA TAA -CA TAA TAA TAA TAA TAA TAA TAA TAA GCA TGA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
41582803 TAA TAG TAA AAA TAA TAA TAA TGA CAA TAG TAA TAA TAA TGA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
41582851 TAA -AA TTAA TTAA TTT TAA TAA TAA
1 TAA TAA -TAA -TAA TAA TAA TAA TAA
41582876 AGTAGCAAAA
Statistics
Matches: 157, Mismatches: 40, Indels: 20
0.72 0.18 0.09
Matches are distributed among these distances:
2 10 0.06
3 138 0.88
4 9 0.06
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:41582724 original size:38 final size:37
Alignment explanation
Indices: 41582679--41582784 Score: 133
Period size: 38 Copynumber: 2.8 Consensus size: 37
41582669 TAATATGATG
**
41582679 ATAATAATAGTAATAATACAATAATAATAAAGTAGAA-A
1 ATAATAATA-TAATAATACAATAATAATAAAACA-AAGA
41582717 ATAATAATAATAATAATACAATAATAATAAAACAAAGA
1 ATAATAAT-ATAATAATACAATAATAATAAAACAAAGA
* *
41582755 ATAATAACATAATAATAATAATAATAATAA
1 ATAATAATATAATAAT-ACAATAATAATAA
41582785 TAAGCATGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
37 10 0.16
38 50 0.82
39 1 0.02
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (37 bp):
ATAATAATATAATAATACAATAATAATAAAACAAAGA
Found at i:41582728 original size:35 final size:36
Alignment explanation
Indices: 41582681--41582848 Score: 126
Period size: 38 Copynumber: 4.4 Consensus size: 36
41582671 ATATGATGAT
* * *
41582681 AATAATAGTAATAATACAATAATAATAAAGTAGAAAAT
1 AATAATAATAATAATACAATAATAATAAA--ACAAAAG
41582719 AATAATAATAATAATACAATAATAATAAAAC-AAAG
1 AATAATAATAATAATACAATAATAATAAAACAAAAG
* *
41582754 AATAATAACATAATAATAATAATAATAATAATAAGCATGATAG
1 AATAAT-A-ATAATAAT-ACAATAATAATAA-AA-CA--AAAG
* * *
41582797 TAATAATAATAGTAA-A-AATAATAATAATGACAATAG
1 -AATAATAATAATAATACAATAATAATAA-AACAAAAG
*
41582833 TAATAATAATGATAAT
1 -AATAATAATAATAAT
41582849 GATAAAATTA
Statistics
Matches: 111, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
35 9 0.08
36 19 0.17
37 8 0.07
38 42 0.38
39 15 0.14
40 2 0.02
42 6 0.05
43 4 0.04
44 6 0.05
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (36 bp):
AATAATAATAATAATACAATAATAATAAAACAAAAG
Found at i:41584584 original size:15 final size:15
Alignment explanation
Indices: 41584564--41584620 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
41584554 ATTCAATTTT
41584564 AATATTTTAATAATA
1 AATATTTTAATAATA
* *
41584579 AATATTTATTACAATTACA
1 AATA-TT-TT--AATAATA
*
41584598 AATATATTAATAATA
1 AATATTTTAATAATA
41584613 AATATTTT
1 AATATTTT
41584621 GTAGTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.28
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:41585414 original size:14 final size:14
Alignment explanation
Indices: 41585395--41585427 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
41585385 AAAATAAGTT
41585395 ATTTTTCAAAAATC
1 ATTTTTCAAAAATC
*
41585409 ATTTTTCCAAAATC
1 ATTTTTCAAAAATC
41585423 ATTTT
1 ATTTT
41585428 AAGTGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTTCAAAAATC
Found at i:41585483 original size:18 final size:19
Alignment explanation
Indices: 41585457--41585494 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
41585447 TACAGAAAGT
*
41585457 TCAAATATA-AAATATTCA
1 TCAAATATATAAATACTCA
*
41585475 TCAATTATATAAATACTCA
1 TCAAATATATAAATACTCA
41585494 T
1 T
41585495 TAATACTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (19 bp):
TCAAATATATAAATACTCA
Found at i:41588871 original size:16 final size:16
Alignment explanation
Indices: 41588852--41588882 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
41588842 ATAAATAACA
41588852 ATATAAATTTTATAAT
1 ATATAAATTTTATAAT
41588868 ATATAAATTTTATAA
1 ATATAAATTTTATAA
41588883 AAAAAAAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAAATTTTATAAT
Found at i:41589475 original size:26 final size:26
Alignment explanation
Indices: 41589446--41589527 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
41589436 TGATACAAAT
*
41589446 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
41589472 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTCCA
41589498 TGATAAT-GAGTTAGGTAAATGTTCCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
41589524 TGAT
1 TGAT
41589528 GGGAATTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
25 1 0.02
26 49 0.98
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:41595095 original size:28 final size:28
Alignment explanation
Indices: 41595063--41595123 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
41595053 ATTTACTAGA
*
41595063 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
41595091 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41595119 ATACC
1 ATACC
41595124 TCTAGGGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41595274 original size:28 final size:28
Alignment explanation
Indices: 41595233--41595351 Score: 193
Period size: 28 Copynumber: 4.2 Consensus size: 28
41595223 AGGAAGCGTC
**
41595233 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
41595261 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
41595289 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
* *
41595317 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCACAAATTATCTGT-T
41595346 CTGGTG
1 CTGGTG
41595352 ACTCTGTCAC
Statistics
Matches: 86, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 79 0.92
29 7 0.08
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAAATTATCTGTT
Found at i:41595376 original size:56 final size:55
Alignment explanation
Indices: 41595243--41595376 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 55
41595233 CTGGTGGCTA
* * *
41595243 TGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCAC-AATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGTTCTGGTGACCC
*
41595299 TGCCACAAATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCAC-AATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGT-TCTGGTGACCC
* *
41595356 TGTCAC-ATTTTCTGTATCTGG
1 TGCCACAATTATCTGT-TCTGG
41595377 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
55 8 0.11
56 48 0.69
57 14 0.20
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (55 bp):
TGCCACAATTATCTGTTCTGGTGGCACTGCCACAAAATATCTGTTCTGGTGACCC
Found at i:41596462 original size:11 final size:10
Alignment explanation
Indices: 41596434--41596467 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
41596424 AGCCTGTAAG
41596434 TATTCTGAAT
1 TATTCTGAAT
*
41596444 TTTTCTGAAT
1 TATTCTGAAT
41596454 ATATTCTGAAT
1 -TATTCTGAAT
41596465 TAT
1 TAT
41596468 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:41596891 original size:10 final size:11
Alignment explanation
Indices: 41596863--41596888 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41596853 AAAGGGTTGC
41596863 CGGGGCAAGTT
1 CGGGGCAAGTT
41596874 CGGGGCAAGTT
1 CGGGGCAAGTT
41596885 CGGG
1 CGGG
41596889 CAACGAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.50, T:0.15
Consensus pattern (11 bp):
CGGGGCAAGTT
Found at i:41603002 original size:28 final size:28
Alignment explanation
Indices: 41602970--41603034 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
41602960 ATTTACTAGA
*
41602970 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
41602998 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
41603026 ATACCCCTA
1 ATACCCCTA
41603035 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41603172 original size:28 final size:27
Alignment explanation
Indices: 41603140--41603229 Score: 117
Period size: 27 Copynumber: 3.2 Consensus size: 27
41603130 AGGAAGCGTC
*
41603140 CTGGTGGCTATACCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAATTATCTGTT
* *
41603168 CTGGTGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCATGCCACAAATTATCTGTT
*
41603195 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCACAAATTATCTGT-T
41603224 CTGGTG
1 CTGGTG
41603230 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
27 24 0.44
28 23 0.43
29 7 0.13
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (27 bp):
CTGGTGGCATGCCACAAATTATCTGTT
Found at i:41603240 original size:29 final size:27
Alignment explanation
Indices: 41603152--41603229 Score: 120
Period size: 27 Copynumber: 2.8 Consensus size: 27
41603142 GGTGGCTATA
*
41603152 CCACAAATTATCTGTTCTGGTGCCCTG
1 CCACAAATTATCTGTTCTGGTGCACTG
41603179 CCACAAATTATCTGTTCTGGTGGCACTG
1 CCACAAATTATCTGTTCTGGT-GCACTG
*
41603207 CCACAAAATATCTGTATCTGGTG
1 CCACAAATTATCTGT-TCTGGTG
41603230 ACTCTGTCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 21 0.45
28 20 0.43
29 6 0.13
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (27 bp):
CCACAAATTATCTGTTCTGGTGCACTG
Found at i:41603722 original size:18 final size:18
Alignment explanation
Indices: 41603683--41603723 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
41603673 TAATAAGGCC
* *
41603683 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
41603701 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
41603719 TTTTA
1 TTTTA
41603724 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:41603876 original size:35 final size:35
Alignment explanation
Indices: 41603830--41603899 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
41603820 TACAAGTAAG
41603830 ACTTCCGCTAAGCAAACGTTTTCAAACTTAATCAT
1 ACTTCCGCTAAGCAAACGTTTTCAAACTTAATCAT
*
41603865 ACTTCCGCTAAGCAAACGTTTTGAAACTTAATCAT
1 ACTTCCGCTAAGCAAACGTTTTCAAACTTAATCAT
41603900 TTTCTTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (35 bp):
ACTTCCGCTAAGCAAACGTTTTCAAACTTAATCAT
Found at i:41609822 original size:19 final size:20
Alignment explanation
Indices: 41609779--41609824 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
41609769 ATTGGGCCTT
41609779 GCCCATATTAATACAGTTGG
1 GCCCATATTAATACAGTTGG
*
41609799 GCCCATTTTAATACAGTT-G
1 GCCCATATTAATACAGTTGG
41609818 GCCCATA
1 GCCCATA
41609825 ACAAAACAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
GCCCATATTAATACAGTTGG
Found at i:41624163 original size:47 final size:49
Alignment explanation
Indices: 41624094--41624356 Score: 223
Period size: 47 Copynumber: 5.6 Consensus size: 49
41624084 GTAAGGTGCT
* * *
41624094 GATGCCATATCTCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* *
41624141 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * * * * *
41624189 AATG-CATGTCCTAGACAT-GTCTTACTCTGGCTTA-CGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
* * * *
41624235 GATG-CATGTCCCCGATAT-GTCTTACACTAGCTC-TCGTCTC-AATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GCC
* * *
41624281 GATGCCATGTCCCAAACATGGTCTTACACTGGCT-ATCATAAT--ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCGA-AGCC
*
41624329 GATG-CATGTCCCAGCCAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
41624357 AGCCAACAAC
Statistics
Matches: 177, Mismatches: 29, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 72 0.41
47 73 0.41
48 30 0.17
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCC
Found at i:41627473 original size:50 final size:48
Alignment explanation
Indices: 41627307--41627576 Score: 180
Period size: 48 Copynumber: 5.7 Consensus size: 48
41627297 GGTATGATGT
* ** * * * ** *
41627307 CGATGCCATGTCCCAGACATGGTCTTAGACTGGCTCCTCCA-ACAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACCACTATACGTGC
* * * * *
41627354 CGATGCCATGTCCCAGACATGGTCTTACATTGACTATCGA-AAT-CGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-A-CCACTATACG-TGC
* * *
41627403 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAC-ATATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACAC-CACTATA-C-GTGC
* * * *
41627453 CGATGTCATATCCCAGACATGGTCTTACACTAACACCTCTATACGTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACCACTATACGTGC
* * *
41627501 CAATGCCATGTCCCAGACATGGTCTTACACTGACACAAC--T-CGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACCACTATACGT-GC
* *
41627547 CGATG-CATGTCCCAAACAT-ATCTTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
41627577 GCTCTCGTCT
Statistics
Matches: 177, Mismatches: 35, Indels: 25
0.75 0.15 0.11
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 6 0.03
47 32 0.18
48 41 0.23
49 35 0.20
50 37 0.21
51 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACCACTATACGTGC
Found at i:41627526 original size:48 final size:49
Alignment explanation
Indices: 41627307--41627536 Score: 204
Period size: 48 Copynumber: 4.7 Consensus size: 49
41627297 GGTATGATGT
* * * * *
41627307 CGATGCCATGTCCCAGACATGGTCTTAGACTGGCTCCTCCA-A-CAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCCATATCGAGG
* * *
41627354 CGATGCCATGTCCCAGACATGGTCTTACATTGACTA--TCGAAATCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCCATATCGAGG
* * * *
41627402 CCGATGCCATGTCCCAAACATGGTCTTACACT-AGC-TCTCACATATCTGTGC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTC-CATATC-GAGG
* * * * *
41627453 CGATGTCATATCCCAGACATGGTCTTACACTAACACCTCTATA-CGTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCCATATCGAGG
*
41627501 CAATGCCATGTCCCAGACATGGTCTTACACTGACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACAC
41627537 AACTCGTAGC
Statistics
Matches: 149, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
46 3 0.02
47 32 0.21
48 39 0.26
49 33 0.22
50 36 0.24
51 6 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCCATATCGAGG
Found at i:41627658 original size:47 final size:48
Alignment explanation
Indices: 41627307--41627672 Score: 212
Period size: 47 Copynumber: 7.7 Consensus size: 48
41627297 GGTATGATGT
* * *
41627307 CGATGCCATGTCCCAGACATGGTCTTAGACTGGCTCCTCCA-ACAAGT---
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-C-CCATA-ATGTGGC
* * * *
41627354 CGATGCCATGTCCCAGACATGGTCTTACA-TTGACTATCGA-AATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CT-CCCATAAT-GTGGC
* *
41627403 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAT-ATCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-C-CATAATGTG-GC
* * * * *
41627453 CGATGTCATATCCCAGACATGGTCTTACACTAACACCTC-TATACGTGG-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCC-CATA-ATGTGGC
* * * * *
41627501 CAATGCCATGTCCCAGACATGGTCTTACACT-G-ACACA-ACTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCATAAT-GTGGC
* * * *
41627547 CGATG-CATGTCCCAAACAT-ATCTTACACTAGCTCTCGTCTTAAT-T--T
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-C--CATAATGTGGC
* * * *
41627593 TGATGCCATGTCTCAGACATGGTTTTACACTGGCTCCCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCATAATGTGGC
*
41627641 CGATG-CATGTCCCAGACAT-GTCTTACATTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
41627673 ACACAAATAA
Statistics
Matches: 243, Mismatches: 50, Indels: 53
0.70 0.14 0.15
Matches are distributed among these distances:
44 9 0.04
45 25 0.10
46 28 0.12
47 56 0.23
48 46 0.19
49 36 0.15
50 43 0.18
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCATAATGTGGC
Found at i:41628044 original size:30 final size:31
Alignment explanation
Indices: 41628008--41628090 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
41627998 ATAATTGGGA
*
41628008 AAAATGACCATTTTGCCCCTAGAA-TTCTAC
1 AAAATGACCATTTTACCCCTAGAACTTCTAC
*
41628038 AAAATGACCATTTTTCCCCTA-AACTTCTAC
1 AAAATGACCATTTTACCCCTAGAACTTCTAC
*
41628068 AAAATGACCATTTTACCCTTAGA
1 AAAATGACCATTTTACCCCTAGA
41628091 CTCGAAAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.04
30 45 0.94
31 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.31
Consensus pattern (31 bp):
AAAATGACCATTTTACCCCTAGAACTTCTAC
Found at i:41631743 original size:25 final size:25
Alignment explanation
Indices: 41631714--41631765 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
41631704 AAGAATAATT
*
41631714 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
41631739 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
41631764 TG
1 TG
41631766 TCAAGCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:41635171 original size:22 final size:23
Alignment explanation
Indices: 41635138--41635181 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
41635128 TTCAATTTAT
41635138 TTTATTTTATATATAAATATTTG
1 TTTATTTTATATATAAATATTTG
* *
41635161 TTTA-TTTATATTTATATATTT
1 TTTATTTTATATATAAATATTT
41635182 ATTCGTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTG
Found at i:41635934 original size:17 final size:18
Alignment explanation
Indices: 41635912--41635947 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
41635902 CTAAAACTTT
41635912 ATTTTAA-TATATTATAC
1 ATTTTAATTATATTATAC
*
41635929 ATTTTAATTTTATTATAC
1 ATTTTAATTATATTATAC
41635947 A
1 A
41635948 CATTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTAATTATATTATAC
Found at i:41644025 original size:21 final size:21
Alignment explanation
Indices: 41644001--41644053 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
41643991 CTATGCCCCA
* *
41644001 TCCACATGGGCTTGTGGGGCC
1 TCCACATGGGCATGTGAGGCC
*
41644022 TCCACACGGGCATGTGAGGCC
1 TCCACATGGGCATGTGAGGCC
41644043 TCCACATGGGC
1 TCCACATGGGC
41644054 GTGTAGACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (21 bp):
TCCACATGGGCATGTGAGGCC
Found at i:41647653 original size:21 final size:21
Alignment explanation
Indices: 41647602--41647671 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
41647592 TGTTCATACG
**
41647602 GGCGTGTGACCCCTTCACACTA
1 GGCGTGTGAGGCCTTCACAC-A
41647624 -GCGTGTGAGGCCTTCACACA
1 GGCGTGTGAGGCCTTCACACA
* **
41647644 GGCGTGTGAGGCCTCCACATG
1 GGCGTGTGAGGCCTTCACACA
41647665 GGCGTGT
1 GGCGTGT
41647672 AGACCCCCAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.21
Consensus pattern (21 bp):
GGCGTGTGAGGCCTTCACACA
Found at i:41665686 original size:18 final size:18
Alignment explanation
Indices: 41665663--41665699 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41665653 TGTAAAGAGT
41665663 AGAATCTATTCTAGACCA
1 AGAATCTATTCTAGACCA
41665681 AGAATCTATTCTAGACCA
1 AGAATCTATTCTAGACCA
41665699 A
1 A
41665700 CACATTTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (18 bp):
AGAATCTATTCTAGACCA
Found at i:41666268 original size:44 final size:46
Alignment explanation
Indices: 41666169--41666577 Score: 310
Period size: 47 Copynumber: 8.7 Consensus size: 46
41666159 ATAAGTTGCT
* * * * *
41666169 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACG-TGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTC--ATCT-CGACGCC
* * *
41666219 GATGCATGTCCTAGACATGTCTTACACTCGCAC-AACTCTC-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCA-TCTCGACGCC
* * * *
41666263 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCGTCGAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATC-TCGACGCC
*
41666310 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGACGCC
* * * ** *
41666356 GATGCCATGTCCCAGACATGGTCTTACACTGGAACTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCGACGCC
* * * **
41666404 GATGCATGTCCCAGACATGTCTTACAATGGCTA-TCATCATCGAGGAT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-ACTCATC-TCGACGCC
* * * *
41666451 GATGCATATCCCATACATGTCTTACACTAGCACTTATCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGACGCC
* * * ** *
41666497 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCGACGCC
* *
41666545 GATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTAGCAC
41666578 ATAAGTAATC
Statistics
Matches: 294, Mismatches: 49, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
44 34 0.12
45 5 0.02
46 52 0.18
47 127 0.43
48 57 0.19
49 15 0.05
50 4 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGACGCC
Found at i:41666324 original size:47 final size:46
Alignment explanation
Indices: 41666219--41666577 Score: 352
Period size: 47 Copynumber: 7.7 Consensus size: 46
41666209 TATACGTGCT
* * *
41666219 GATGCATGTCCTAGACATGTCTTACACTCGCAC-AACTCTC-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTCGAGGCC
* *
41666263 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCGTCGAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCGAGGCC
* * *
41666310 GATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAGGCC
* * * *
41666356 GATGCCATGTCCCAGACATGGTCTTACACTGGAACTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCGAGGCC
* **
41666404 GATGCATGTCCCAGACATGTCTTACAATGGCTA-TCATCATCGAGGAT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGAGGCC
* * * * * *
41666451 GATGCATATCCCATACATGTCTTACACTAGCACTTATCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAGGCC
* * * *
41666497 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCGAGGCC
*
41666545 GATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
41666578 ATAAGTAATC
Statistics
Matches: 259, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
44 32 0.12
45 3 0.01
46 50 0.19
47 127 0.49
48 45 0.17
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAGGCC
Found at i:41666423 original size:141 final size:141
Alignment explanation
Indices: 41666263--41666575 Score: 529
Period size: 141 Copynumber: 2.2 Consensus size: 141
41666253 ACTCTCAGCC
* * *
41666263 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCGTCGAGG-TCGATGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGAT-GATGCATATCCCAGACA
*
41666327 TGTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGAACT
65 TGTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGAACA
41666392 CATAATGTGGCT
130 CATAATGTGGCT
* *
41666404 GATGCATGTCCCAGACATGTCTTACAATGGCTATCATCATCGAGGATGATGCATATCCCATACAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGATGATGCATATCCCAGACAT
* *
41666469 GTCTTACACTAGCACTTATCTCTACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACAC
66 GTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGAACAC
41666534 ATAATGTGGCT
131 ATAATGTGGCT
*
41666545 GATGCATGTCCCAAACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
41666576 ACATAAGTAA
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 160 0.99
142 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (141 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGATGATGCATATCCCAGACAT
GTCTTACACTAGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGAACAC
ATAATGTGGCT
Found at i:41666463 original size:94 final size:92
Alignment explanation
Indices: 41666166--41666577 Score: 347
Period size: 94 Copynumber: 4.4 Consensus size: 92
41666156 GGGATAAGTT
* * *
41666166 GCTGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATATACGT-GCTGATGCATGTCC
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC--ATAT--GTGGCTGATGCATGTCC
* * *
41666230 TAGACATGTCTTACACTCGCAC-AACTC-TC-A-
60 CAGACATGTCTTACACTGGCACTCA-TCATCGAG
* * * *
41666260 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-CGTCGAGGTCGATGCATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATGT-G-GCT-GATGCATGTCCCAG
* * *
41666324 ACATGTCTTACACTAGCACTCATC-TCTAC
63 ACATGTCTTACACTGGCACTCATCATCGAG
* *
41666353 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGAACTCATAATGTGGCTGATGCATGTCCCAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-ATGTGGCTGATGCATGTCCCAG
*
41666418 ACATGTCTTACAATGGCTA-TCATCATCGAG
63 ACATGTCTTACACTGGC-ACTCATCATCGAG
* * * * * * * * *
41666448 GATGATGCATATCCCATACATGTCTTACACTAGCACTTATCTCTACGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATGT-GGCTGATG-CATGTCCCAGA
* * *
41666513 CATGGTCTTACACTGGCACACATAAT-GTG
64 CAT-GTCTTACACTGGCACTCATCATCGAG
*
41666542 GCTGATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCAC
41666578 ATAAGTAATC
Statistics
Matches: 266, Mismatches: 35, Indels: 34
0.79 0.10 0.10
Matches are distributed among these distances:
87 2 0.01
90 4 0.02
91 35 0.13
92 19 0.07
93 43 0.16
94 115 0.43
95 45 0.17
96 1 0.00
97 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (92 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATATGTGGCTGATGCATGTCCCAGACA
TGTCTTACACTGGCACTCATCATCGAG
Found at i:41667456 original size:41 final size:41
Alignment explanation
Indices: 41667399--41667481 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
41667389 TCGGTGGAGA
41667399 GAAAGGATGGAGAAGAAGAAAAATAATAGCTAGGCTTTTAG
1 GAAAGGATGGAGAAGAAGAAAAATAATAGCTAGGCTTTTAG
41667440 GAAAGGATGGAGAAGAAGAAAAATAATAGCTAGGCTTTTAG
1 GAAAGGATGGAGAAGAAGAAAAATAATAGCTAGGCTTTTAG
41667481 G
1 G
41667482 TATTATTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.46, C:0.05, G:0.30, T:0.19
Consensus pattern (41 bp):
GAAAGGATGGAGAAGAAGAAAAATAATAGCTAGGCTTTTAG
Found at i:41673509 original size:63 final size:63
Alignment explanation
Indices: 41673410--41673537 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
41673400 CGGTATTGCT
41673410 AAGACCAAGAGTACAAAATTATTAGTGAACTTAGAATAGATTTTCTGATAAATAAGTTTCAGC
1 AAGACCAAGAGTACAAAATTATTAGTGAACTTAGAATAGATTTTCTGATAAATAAGTTTCAGC
41673473 AAGACCAAGAGTACAAAATTATTAGTGAACTTAGAATAGATTTTCTGATAAATAAGTTTCAGC
1 AAGACCAAGAGTACAAAATTATTAGTGAACTTAGAATAGATTTTCTGATAAATAAGTTTCAGC
41673536 AA
1 AA
41673538 TATATCAAAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (63 bp):
AAGACCAAGAGTACAAAATTATTAGTGAACTTAGAATAGATTTTCTGATAAATAAGTTTCAGC
Found at i:41682484 original size:27 final size:27
Alignment explanation
Indices: 41682423--41682484 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
41682413 TAAGGCGATC
* *
41682423 CTTTCATAATTCGCCACAAATGCTTTT
1 CTTTCATGATTCGCCACAAAGGCTTTT
* *
41682450 CTTTCATGATTCGTCGCAAAGGCTTTT
1 CTTTCATGATTCGCCACAAAGGCTTTT
41682477 CTTTCATG
1 CTTTCATG
41682485 GAATGTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (27 bp):
CTTTCATGATTCGCCACAAAGGCTTTT
Found at i:41686239 original size:24 final size:24
Alignment explanation
Indices: 41686212--41686269 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
41686202 ATTTTGATGA
41686212 TTAAATTATTGTTATTAAATATGC
1 TTAAATTATTGTTATTAAATATGC
*
41686236 TTAAAATATTGTTATTAAATATGC
1 TTAAATTATTGTTATTAAATATGC
41686260 TTAAAATTAT
1 TT-AAATTAT
41686270 ATCTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (24 bp):
TTAAATTATTGTTATTAAATATGC
Found at i:41686257 original size:13 final size:13
Alignment explanation
Indices: 41686211--41686257 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
41686201 TATTTTGATG
41686211 ATTAAATTATTGTT
1 ATTAAA-TATTGTT
41686225 ATTAAATA-TGCTT
1 ATTAAATATTG-TT
41686238 A--AAATATTGTT
1 ATTAAATATTGTT
41686249 ATTAAATAT
1 ATTAAATAT
41686258 GCTTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.28
12 4 0.14
13 11 0.38
14 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (13 bp):
ATTAAATATTGTT
Found at i:41692512 original size:20 final size:20
Alignment explanation
Indices: 41692487--41692524 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41692477 AAATAGGGGC
*
41692487 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTATGGCCTGGG
41692507 ACATGCCCGTATGGCCTG
1 ACATGCCCGTATGGCCTG
41692525 CCCATGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTATGGCCTGGG
Found at i:41693385 original size:53 final size:52
Alignment explanation
Indices: 41693310--41693469 Score: 180
Period size: 52 Copynumber: 3.1 Consensus size: 52
41693300 TGGGTCACAT
* *
41693310 ATCATACCGATGCCATATCCCAGATATGGTCTTATACGAAATCACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAA-CACATTATCAC
* ** *
41693363 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGA-ACATGAATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAACACAT-TATCAC
** * * *
41693415 ATTGTACTGATGCCATAGCCCGGCTATGGTCTTATACAGAAGCACA-TATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GAAACACATTATCAC
41693467 ATC
1 ATC
41693470 TTTTCCGTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
51 4 0.05
52 44 0.50
53 37 0.42
54 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGAAACACATTATCAC
Found at i:41696173 original size:30 final size:30
Alignment explanation
Indices: 41696139--41696199 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
41696129 TTCCTGAGCC
41696139 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
41696169 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
41696199 T
1 T
41696200 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:41697135 original size:50 final size:50
Alignment explanation
Indices: 41697004--41697188 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 50
41696994 TATATGTAGC
* * * *
41697004 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T
* * * *
41697055 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
* * *
41697105 TAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
*
41697155 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
41697189 TGCGTACTAG
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 30 0.25
50 47 0.40
51 41 0.35
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
Found at i:41698839 original size:40 final size:40
Alignment explanation
Indices: 41698757--41698938 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
41698747 TGAATGCTGT
* * * *
41698757 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT-TC
** *
41698797 CGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAATTC
1 CGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAATTC
* * *
41698837 CGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTC
1 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTC
* *
41698877 CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATC
1 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AATTC
41698917 CGGGTTAAGTCCCGAAGGCATT
1 CGGGTTAAGTCCCGAAGGCATT
41698939 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAATTC
Found at i:41698904 original size:80 final size:81
Alignment explanation
Indices: 41698757--41698935 Score: 217
Period size: 80 Copynumber: 2.2 Consensus size: 81
41698747 TGAATGCTGT
* * * *
41698757 CGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATTTG
1 CGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCG
*
41698821 TGCGAGTTATT-AATTC
66 TGCGAGTT-TTAAAATC
**
41698837 CGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGCAT
1 CGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGCAT
41698898 TCGTGCGAGTTTTAAAATC
63 TCGTGCGAGTTTTAAAATC
41698917 CGGGTTAAGTCCCGAAGGC
1 CGGGTTAAGTCCCGAAGGC
41698936 ATTGAATGAG
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
79 4 0.05
80 74 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (81 bp):
CGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTTTAAAATC
Found at i:41698959 original size:39 final size:38
Alignment explanation
Indices: 41698836--41698985 Score: 122
Period size: 40 Copynumber: 3.8 Consensus size: 38
41698826 GTTATTAATT
* ** * *
41698836 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACT-ATA
** * *
41698876 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-ATA
*
41698915 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAT-A
* *
41698955 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
41698986 GAGCTATATC
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.35
40 60 0.65
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTATA
Found at i:41702559 original size:22 final size:22
Alignment explanation
Indices: 41702534--41702588 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
41702524 CATTTGTAAA
* *
41702534 ATATGTATTAGATATTA-AATAG
1 ATATTTATTA-ATATTATAAAAG
41702556 ATATTTATT-ATATTATAAAAG
1 ATATTTATTAATATTATAAAAG
41702577 ATATTTATTAAT
1 ATATTTATTAAT
41702589 TAAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 6 0.21
21 13 0.45
22 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATTTATTAATATTATAAAAG
Found at i:41702580 original size:21 final size:20
Alignment explanation
Indices: 41702545--41702592 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
41702535 TATGTATTAG
*
41702545 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
41702565 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
41702586 A-ATTAAA
1 ATATTAAA
41702593 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:41702861 original size:21 final size:21
Alignment explanation
Indices: 41702815--41702855 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
41702805 GCAGGGGAAG
41702815 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
*
41702836 GAAAG-AAGAAAAGGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
41702856 TTAAAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:41704834 original size:46 final size:46
Alignment explanation
Indices: 41704783--41705107 Score: 384
Period size: 46 Copynumber: 7.0 Consensus size: 46
41704773 GTGTGCTCTC
* * *
41704783 TGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
41704829 TGATATGAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAAGA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
41704875 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
41704921 TGATA-GAAAATGAATGAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
41704967 TGACATGAAATGAATAAGACCATGGTTGAAAGCTACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
41705013 TGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
41705060 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
41705106 TG
1 TG
41705108 TCAAAGATAA
Statistics
Matches: 247, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 0.83
47 42 0.17
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:41705409 original size:16 final size:17
Alignment explanation
Indices: 41705388--41705420 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41705378 ATGATGGAGC
41705388 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
41705404 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
41705421 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:41712790 original size:39 final size:39
Alignment explanation
Indices: 41712746--41712827 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
41712736 AATTATATTA
*
41712746 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
*
41712785 CCAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
41712824 CCAG
1 CCAG
41712828 TATCTTGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.20
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGAGACTTTAGCCCGGATACATTT
Found at i:41714596 original size:19 final size:19
Alignment explanation
Indices: 41714559--41714596 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41714549 AGGCAAGTGG
*
41714559 TTTTATTTTATTCATTTTC
1 TTTTATTTTATTCACTTTC
41714578 TTTTATTTTTATT-ACTTTC
1 TTTTA-TTTTATTCACTTTC
41714597 ATTTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATTTTATTCACTTTC
Found at i:41717899 original size:15 final size:16
Alignment explanation
Indices: 41717867--41717900 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
41717857 CAAAAATCAA
41717867 TTTATTTTATTAAATT
1 TTTATTTTATTAAATT
41717883 TTTA-TTTA-TAAATT
1 TTTATTTTATTAAATT
41717897 TTTA
1 TTTA
41717901 CAAATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 4 0.22
16 4 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTTATTAAATT
Found at i:41731158 original size:37 final size:36
Alignment explanation
Indices: 41731117--41731213 Score: 88
Period size: 36 Copynumber: 2.6 Consensus size: 36
41731107 CATCAGTTAG
* *
41731117 TATAACAGTAAGATTTGCTTAGTTAAGC-TCTACTCAA
1 TATAA-AGTAAGATTTGCTCAATTAAGCTTC-ACTCAA
* * * * *
41731154 TATAAGGTATGATTTGCTCAATTGAGCTTCATTCAG
1 TATAAAGTAAGATTTGCTCAATTAAGCTTCACTCAA
41731190 TATAATAGTAAGATTTGGCTCAAT
1 TATAA-AGTAAGATTT-GCTCAAT
41731214 AGAACATACT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
36 26 0.54
37 15 0.31
38 7 0.15
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (36 bp):
TATAAAGTAAGATTTGCTCAATTAAGCTTCACTCAA
Found at i:41732429 original size:24 final size:24
Alignment explanation
Indices: 41732402--41732447 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
41732392 CATATGTCTT
41732402 TTCATAGTT-AGATACAAATGCATA
1 TTCATA-TTCAGATACAAATGCATA
41732426 TTCATATTCAGATACAAATGCA
1 TTCATATTCAGATACAAATGCA
41732448 GACACAGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (24 bp):
TTCATATTCAGATACAAATGCATA
Found at i:41736500 original size:21 final size:22
Alignment explanation
Indices: 41736471--41736517 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
41736461 CAGAAGGAGT
*
41736471 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
41736493 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
41736514 GAGT
1 GAGT
41736518 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:41737550 original size:51 final size:51
Alignment explanation
Indices: 41737495--41737598 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
41737485 GTTGGGACAA
41737495 AAATAGAAAAAATTCAATGAAAAAAGTTCAAACCCAGAACATCTCATACAC
1 AAATAGAAAAAATTCAATGAAAAAAGTTCAAACCCAGAACATCTCATACAC
*
41737546 AAATAGCAAAAATTCAATGAAAAAAGTTCAAACCCAGAACATCTCATACAC
1 AAATAGAAAAAATTCAATGAAAAAAGTTCAAACCCAGAACATCTCATACAC
41737597 AA
1 AA
41737599 GTACAACACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.55, C:0.20, G:0.08, T:0.17
Consensus pattern (51 bp):
AAATAGAAAAAATTCAATGAAAAAAGTTCAAACCCAGAACATCTCATACAC
Found at i:41738472 original size:28 final size:26
Alignment explanation
Indices: 41738423--41738478 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
41738413 AAATCACTTC
* *
41738423 AAAAAATTTAAATAATTCATAAAATAT
1 AAAAAAATTAAACAATTCAT-AAATAT
*
41738450 AAAAAAATTAAACAATTTTATAAATAT
1 AAAAAAATTAAACAA-TTCATAAATAT
41738477 AA
1 AA
41738479 TAATGCATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAAAAATTAAACAATTCATAAATAT
Found at i:41738700 original size:46 final size:46
Alignment explanation
Indices: 41738647--41738741 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
41738637 AATTAGAAGA
41738647 ATAACTTTTTTTCATTAATTCTTTGATGAATTTTTAATATATATAT
1 ATAACTTTTTTTCATTAATTCTTTGATGAATTTTTAATATATATAT
41738693 ATAACTTTTTTTCATTAATTCTTTGATGAATTTTTAATATATATAT
1 ATAACTTTTTTTCATTAATTCTTTGATGAATTTTTAATATATATAT
41738739 ATA
1 ATA
41738742 TAATGGCGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (46 bp):
ATAACTTTTTTTCATTAATTCTTTGATGAATTTTTAATATATATAT
Found at i:41740273 original size:67 final size:67
Alignment explanation
Indices: 41740165--41740296 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
41740155 TTGTGTAATG
41740165 GAGAATTAAATATAAACATTATATTTACTTTTTATGGATTTTAATATTAGGCTAAATAAGGTACG
1 GAGAATTAAATATAAACATTATATTTACTTTTTATGGATTTTAATATTAGGCTAAATAAGGTACG
41740230 TC
66 TC
* * *
41740232 GAGAATTAAATATAAATATTATATTTACTTTTTATGGATTTTAATATTGGGCTACATAAGGTACG
1 GAGAATTAAATATAAACATTATATTTACTTTTTATGGATTTTAATATTAGGCTAAATAAGGTACG
41740297 CCGATTTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (67 bp):
GAGAATTAAATATAAACATTATATTTACTTTTTATGGATTTTAATATTAGGCTAAATAAGGTACG
TC
Found at i:41746867 original size:40 final size:40
Alignment explanation
Indices: 41746804--41746897 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
41746794 GACTATGTTT
**
41746804 GGCACTAAGTGTGCGTTTCGAAATAGCTTCGGCTATAAAT-A
1 GGCACTAAGTGTGCAATTCGAAATAGCTTCGGCTAT--ATGA
41746845 -GCACTAAGTGTGCAAATT-GAAATAGCTTCGGCTATATGA
1 GGCACTAAGTGTGC-AATTCGAAATAGCTTCGGCTATATGA
41746884 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
41746898 GATACCGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 43 0.90
41 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCAATTCGAAATAGCTTCGGCTATATGA
Found at i:41751335 original size:14 final size:14
Alignment explanation
Indices: 41751316--41751342 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41751306 GCTTCTGATA
41751316 ATCTATAAAACATT
1 ATCTATAAAACATT
41751330 ATCTATAAAACAT
1 ATCTATAAAACAT
41751343 AGGAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCTATAAAACATT
Found at i:41757576 original size:12 final size:12
Alignment explanation
Indices: 41757559--41757588 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41757549 TCTCACATGC
41757559 CCGTGTGATAGG
1 CCGTGTGATAGG
*
41757571 CCGTGTGTTAGG
1 CCGTGTGATAGG
41757583 CCGTGT
1 CCGTGT
41757589 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.20, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGATAGG
Found at i:41763237 original size:25 final size:25
Alignment explanation
Indices: 41763207--41763254 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
41763197 CAATAAAATA
41763207 TATGC-ATTTAAGTAAATAAATCTTT
1 TATGCAATTT-AGTAAATAAATCTTT
*
41763232 TATGCAATTTAGTCAATAAATCT
1 TATGCAATTTAGTAAATAAATCT
41763255 GAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (25 bp):
TATGCAATTTAGTAAATAAATCTTT
Found at i:41766697 original size:12 final size:11
Alignment explanation
Indices: 41766678--41766707 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
41766668 ATGTTGCTAC
41766678 TATTTTATTAT
1 TATTTTATTAT
41766689 TACTTTTATTAT
1 TA-TTTTATTAT
41766701 TATTTTA
1 TATTTTA
41766708 GAGGCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:41769931 original size:31 final size:31
Alignment explanation
Indices: 41769893--41769957 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
41769883 GAGTATGGCA
41769893 TGTAGAGGAAACTTGATTATTTTGTGATATG
1 TGTAGAGGAAACTTGATTATTTTGTGATATG
41769924 TGTAGAGGAAACTTGATTATTTTGTGATATG
1 TGTAGAGGAAACTTGATTATTTTGTGATATG
41769955 TGT
1 TGT
41769958 TGTGCTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.43
Consensus pattern (31 bp):
TGTAGAGGAAACTTGATTATTTTGTGATATG
Found at i:41775850 original size:27 final size:27
Alignment explanation
Indices: 41775150--41775841 Score: 983
Period size: 27 Copynumber: 25.7 Consensus size: 27
41775140 TACCTGAACT
*
41775150 CTTATGTGATAAAATGATGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775177 CTTATGTGATAAAATGACGATTTTATC
1 CTTATGTGATAAAATGACGATTTTACC
* * * *
41775204 CATATGTGATAAAATTACGATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775231 CTTATGTGATAAAATGATGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775258 CTTATGTGATAAAATGACGATTTTATC
1 CTTATGTGATAAAATGACGATTTTACC
* * * * *
41775285 CATATGTGATAAAATTATGATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
* *
41775312 CTTATGTGATAAAATGACAATTTCACC
1 CTTATGTGATAAAATGACGATTTTACC
* **
41775339 CTTATGTGATAAAATAACGATAGT--C
1 CTTATGTGATAAAATGACGATTTTACC
*
41775364 CTTATGTGATAAAATGATGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775391 CTTTATGTGATAAAATGACGATTTTATC
1 C-TTATGTGATAAAATGACGATTTTACC
* * * *
41775419 CATATGTGATAAAATTACGATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
* *
41775446 CTTATGTGATAAAATGACAATTTCACC
1 CTTATGTGATAAAATGACGATTTTACC
* **
41775473 CTTATGTGATAAAATGACGATATTGTC
1 CTTATGTGATAAAATGACGATTTTACC
41775500 CTTATGTGATAAAATGACGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
* * *
41775527 CTTATGTGATAAAATGACAATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
* *
41775554 CTTATGTGATAAAATGACGATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
41775581 CTTATGTGATAAAATGACGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775608 CTTATGTGATAAAATGACGATTTTACT
1 CTTATGTGATAAAATGACGATTTTACC
41775635 CTTATGTGATAAAATGACGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775662 CTTATGTGATAAAATGATGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
* * *
41775689 CTTATGTGATAAAATAACGATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
* *
41775716 CTTATGTGATAAAATGACGATATTGCC
1 CTTATGTGATAAAATGACGATTTTACC
41775743 CTTATGTGATAAAATGACGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
41775770 CTTATGTGATAAAATGACGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
*
41775797 CTTATATGATAAAATGACGATTTTACC
1 CTTATGTGATAAAATGACGATTTTACC
41775824 CTTATGTGATAAAATGAC
1 CTTATGTGATAAAATGAC
41775842 CGAAATACCT
Statistics
Matches: 587, Mismatches: 75, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
25 21 0.04
27 541 0.92
28 25 0.04
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (27 bp):
CTTATGTGATAAAATGACGATTTTACC
Found at i:41779921 original size:10 final size:10
Alignment explanation
Indices: 41779905--41779934 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
41779895 AACTATCGTA
41779905 AAATGTGATT
1 AAATGTGATT
*
41779915 GAATGTGATT
1 AAATGTGATT
41779925 AAATGTGATT
1 AAATGTGATT
41779935 TATATGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (10 bp):
AAATGTGATT
Found at i:41780608 original size:15 final size:16
Alignment explanation
Indices: 41780588--41780617 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
41780578 GAAAATTGCC
41780588 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
41780603 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
41780618 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:41781041 original size:16 final size:17
Alignment explanation
Indices: 41781020--41781053 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
41781010 AATGTCTAGA
41781020 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
41781036 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
41781054 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:41784002 original size:43 final size:43
Alignment explanation
Indices: 41783954--41784078 Score: 207
Period size: 43 Copynumber: 2.9 Consensus size: 43
41783944 ACATATAATT
*
41783954 TCACCGGCATTACA-CCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGA-AGCCTGCTAGGCACGAAGGCCCGAATACACA
*
41783997 TCACCGGTATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
41784040 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
41784079 TAATACCAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 1 0.01
43 76 0.99
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.13
Consensus pattern (43 bp):
TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:41784119 original size:38 final size:38
Alignment explanation
Indices: 41784071--41784178 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
41784061 GGCACGAAGG
* * * *
41784071 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
41784109 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
41784147 CCCGGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
41784179 TCGTTAAGCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:41784945 original size:37 final size:37
Alignment explanation
Indices: 41784895--41784968 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
41784885 CATAGCCTTA
41784895 AATCATTACATATTCGGCACATTAACTAAATAAAATT
1 AATCATTACATATTCGGCACATTAACTAAATAAAATT
*
41784932 AATCATTACATATTCGGCATATTAACTAAATAAAATT
1 AATCATTACATATTCGGCACATTAACTAAATAAAATT
41784969 TACATTCCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCATTACATATTCGGCACATTAACTAAATAAAATT
Found at i:41788804 original size:40 final size:40
Alignment explanation
Indices: 41788696--41788862 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
41788686 CGGATGATAA
* *
41788696 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
41788736 CTGGGCTAAG-CCCGAAGGCATTTATGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
41788775 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41788815 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
41788855 CC-GGCTAA
1 CCGGGCTAA
41788863 ATTTCGAAGG
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 41 0.37
40 69 0.63
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41788861 original size:79 final size:79
Alignment explanation
Indices: 41788696--41788862 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
41788686 CGGATGATAA
* * * *
41788696 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTAT
*
41788761 GCGAGTTACTATAT
66 GCAAGTTACTATAT
* *
41788775 CCGGGCTAAGTCCTGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
41788839 GA-GCAAG-TAGCTATAT
64 -ATGCAAGTTA-CTATAT
41788855 CC-GGCTAA
1 CCGGGCTAA
41788863 ATTTCGAAGG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
78 2 0.03
79 49 0.64
80 25 0.32
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTAT
GCAAGTTACTATAT
Found at i:41793200 original size:46 final size:46
Alignment explanation
Indices: 41793127--41793296 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
41793117 TGGTTGAGCA
*
41793127 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * * *
41793173 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-A-ATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* *
41793218 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* *
41793266 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
41793297 ATATGGGCGG
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 56 0.55
47 28 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:41793283 original size:93 final size:93
Alignment explanation
Indices: 41793124--41793294 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
41793114 GGATGGTTGA
* * * *
41793124 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGCCCGAACTCGTTGAGT
41793189 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
41793217 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGCCCGAACTCGTTGAGT
41793282 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41793295 ACATATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATAGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:41805440 original size:2 final size:2
Alignment explanation
Indices: 41805433--41805528 Score: 149
Period size: 2 Copynumber: 47.5 Consensus size: 2
41805423 TGTTCAACTC
41805433 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
41805475 CT CT CT CGT CAT CT CT CT CT CC CT CT CT CT C- CC CT CT CT CT CT
1 CT CT CT C-T C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
41805518 CT CT CT CT CT C
1 CT CT CT CT CT C
41805529 GTTATAAGTC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.01
2 83 0.94
3 4 0.05
ACGTcount: A:0.01, C:0.52, G:0.01, T:0.46
Consensus pattern (2 bp):
CT
Found at i:41810617 original size:58 final size:59
Alignment explanation
Indices: 41810422--41810663 Score: 263
Period size: 59 Copynumber: 4.1 Consensus size: 59
41810412 GTTTTACAAG
* * * * * *
41810422 TTTTACAGTTTTGCCTAGAAATTTATAATATGTTCAGCTTAGACCCTATGTAACCCCTA
1 TTTTACAGTTTTGCCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCTA
* * * * * *
41810481 TTTTATAGTTTTGCCCAATAATTTATGATATGTTAAGTTTTGTCCCTGTGTGATCCCTA
1 TTTTACAGTTTTGCCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCTA
* ** * *
41810540 TTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGTTTAGT-CCTGTGTGACCCCTG
1 TTTTACAGTTTTGCCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCTA
* * * * *
41810598 TTTTATAGTTTTGCTTAAAAAATTAT-AGTATGTTCAATTTAGTCCCTGTCTGACCCCTA
1 TTTTACAGTTTTGCCTAAAAATTTATGA-TATGTTCAGTTTAGTCCCTGTGTGACCCCTA
41810657 TTTTACA
1 TTTTACA
41810664 AAATTTACAG
Statistics
Matches: 148, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
57 1 0.01
58 46 0.31
59 101 0.68
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (59 bp):
TTTTACAGTTTTGCCTAAAAATTTATGATATGTTCAGTTTAGTCCCTGTGTGACCCCTA
Found at i:41810630 original size:117 final size:118
Alignment explanation
Indices: 41810422--41810664 Score: 285
Period size: 117 Copynumber: 2.1 Consensus size: 118
41810412 GTTTTACAAG
* *
41810422 TTTTACAGTTTTGCCTAGAAATTTATAATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTAT
1 TTTTACAATTTTGCCTAAAAATTTATAATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTAT
* * * * *
41810487 AGTTTTGCCCAATAATTTATGATATGTT-AAGTTTTGTCCCTGTGTGATCCCTA
66 AGTTTTGCCCAAAAAATTATGATATGTTCAA-TTTAGTCCCTGTCTGACCCCTA
** * * * * * * *
41810540 TTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGTTTAG-TCCTGTGTGACCCCTGTTTTAT
1 TTTTACAATTTTGCCTAAAAATTTATAATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTAT
**
41810604 AGTTTTGCTTAAAAAATTAT-AGTATGTTCAATTTAGTCCCTGTCTGACCCCTA
66 AGTTTTGCCCAAAAAATTATGA-TATGTTCAATTTAGTCCCTGTCTGACCCCTA
41810657 TTTTACAA
1 TTTTACAA
41810665 AATTTACAGT
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
116 1 0.01
117 67 0.64
118 37 0.35
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (118 bp):
TTTTACAATTTTGCCTAAAAATTTATAATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTAT
AGTTTTGCCCAAAAAATTATGATATGTTCAATTTAGTCCCTGTCTGACCCCTA
Found at i:41810829 original size:59 final size:59
Alignment explanation
Indices: 41810758--41810971 Score: 275
Period size: 59 Copynumber: 3.6 Consensus size: 59
41810748 CTATTTTGAA
*
41810758 ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTCCCCAAAAATTTATG
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTCCCCAAAAATTTATG
* * * * * ** *
41810817 ATATGTTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTCCCCAAAAATTTATG
* * * * *
41810876 ATATGTTTAGTTTAGTCCCTATGTGACCCATGTTTTATAGTTTTGCCCAAAAAATTATG
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTCCCCAAAAATTTATG
* * *
41810935 GTATGTTCAGTTTAGTCCCTATCTGACCCTTATTTTA
1 ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTA
41810972 CAAAATTTAC
Statistics
Matches: 130, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 130 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (59 bp):
ATATGTTCAGTTTAGTCCCTATGTGACCCCTATTTTATAGTTTTCCCCAAAAATTTATG
Found at i:41810925 original size:118 final size:118
Alignment explanation
Indices: 41810758--41810974 Score: 326
Period size: 118 Copynumber: 1.8 Consensus size: 118
41810748 CTATTTTGAA
* *
41810758 ATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTCCCCAAAAATTTATGATATGT
1 ATATGTTCAGTTTAGTCCCTATGTAACCCATATTTTATAGTTTTCCCCAAAAAATTATGATATGT
* * *
41810823 TAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
66 TAAGTTTAGTCCCTATCTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
* * * * *
41810876 ATATGTTTAGTTTAGTCCCTATGTGACCCATGTTTTATAGTTTTGCCCAAAAAATTATGGTATGT
1 ATATGTTCAGTTTAGTCCCTATGTAACCCATATTTTATAGTTTTCCCCAAAAAATTATGATATGT
* *
41810941 TCAGTTTAGTCCCTATCTGACCCTTATTTTACAA
66 TAAGTTTAGTCCCTATCTGACCCCTATTTTACAA
41810975 AATTTACAGT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 87 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (118 bp):
ATATGTTCAGTTTAGTCCCTATGTAACCCATATTTTATAGTTTTCCCCAAAAAATTATGATATGT
TAAGTTTAGTCCCTATCTGACCCCTATTTTACAATTTTTTCTAAAAATTTATG
Found at i:41811034 original size:310 final size:309
Alignment explanation
Indices: 41810448--41811052 Score: 1057
Period size: 310 Copynumber: 2.0 Consensus size: 309
41810438 AGAAATTTAT
* *
41810448 AATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTATAGTTTTGCCCAATAATTTATGATATG
1 AATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTATAGTTTTCCCCAAAAATTTATGATATG
*
41810513 TTAAGTTTTGTCCCTGTGTGATCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
66 TTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
* * **
41810578 TTAGTCCTGTGTGACCCCTGTTTTATAGTTTTGCTTAAAAAATTATAGTATGTTCAATTTAGTCC
131 TTAGTCCTATGTGACCCATGTTTTATAGTTTTGCCCAAAAAATTATAGTATGTTCAATTTAGTCC
*
41810643 CTGTCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTCA
196 CTATCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTCA
*
41810708 ATTGAGTCCCTGATATTATGTATGTTTTGAAATATGTAATCTATTTTGA
261 ATTGAGTCACTGATATTATGTATGTTTTGAAATATGTAATCTATTTTGA
* *
41810757 AATATGTTCAGTTTAGTCCCTATGTAACCCCTATTTTATAGTTTTCCCCAAAAATTTATGATATG
1 AATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTATAGTTTTCCCCAAAAATTTATGATATG
41810822 TTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
66 TTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
* *
41810887 TTAGTCCCTATGTGACCCATGTTTTATAGTTTTGCCCAAAAAATTATGGTATGTTCAGTTTAGTC
131 TTAGT-CCTATGTGACCCATGTTTTATAGTTTTGCCCAAAAAATTATAGTATGTTCAATTTAGTC
* *
41810952 CCTATCTGACCCTTATTTTACAAAATTTACAGTTCCTGAATTATTTTTAGAGTTTTTATTCACTC
195 CCTATCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTC
*
41811017 AATTGAGTCATTGATATTATGTATGTTTTGAAATAT
260 AATTGAGTCACTGATATTATGTATGTTTTGAAATAT
41811053 ATGATATGAT
Statistics
Matches: 279, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
309 130 0.47
310 149 0.53
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.45
Consensus pattern (309 bp):
AATATGTTCAGCTTAGACCCTATGTAACCCCTATTTTATAGTTTTCCCCAAAAATTTATGATATG
TTAAGTTTTGTCCCTGTGTGACCCCTATTTTACAATTTTTTCTAAAAATTTATGATATGTTTAGT
TTAGTCCTATGTGACCCATGTTTTATAGTTTTGCCCAAAAAATTATAGTATGTTCAATTTAGTCC
CTATCTGACCCCTATTTTACAAAATTTACAGTTCCCGAATTATTTTTAGAGTTTTTATTCACTCA
ATTGAGTCACTGATATTATGTATGTTTTGAAATATGTAATCTATTTTGA
Found at i:41812546 original size:19 final size:19
Alignment explanation
Indices: 41812514--41812550 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41812504 ACTTGGGTTG
*
41812514 AGAATTGGCCAAATGGGCC
1 AGAATGGGCCAAATGGGCC
*
41812533 AGAATGGGCTAAATGGGC
1 AGAATGGGCCAAATGGGC
41812551 TTGATGGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (19 bp):
AGAATGGGCCAAATGGGCC
Found at i:41812660 original size:28 final size:29
Alignment explanation
Indices: 41812629--41812746 Score: 109
Period size: 28 Copynumber: 4.2 Consensus size: 29
41812619 GTGAGTATGA
*
41812629 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
41812657 ATATGAATGTGAATTGGGCCTAGT-GGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * *
41812685 ATAAGAATATGAACTGGGCC-AGATGGGTC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * * *
41812714 ATTTGAATAAG-ATTAGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
41812742 ATATG
1 ATATG
41812747 CATGTATGTA
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
27 1 0.01
28 41 0.59
29 28 0.40
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:41812695 original size:57 final size:57
Alignment explanation
Indices: 41812633--41812744 Score: 129
Period size: 57 Copynumber: 2.0 Consensus size: 57
41812623 GTATGAATAT
** ** *
41812633 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGT-GGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTAGGCCTAGTGGGCCATAAG
* *
41812690 AATATGAACTGGGCCAGATGGGTCATTTGAATAAGATTAGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTAGGCCTAGTGGGCCATA
41812745 TGCATGTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
56 12 0.26
57 34 0.74
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTAGGCCTAGTGGGCCATAAG
Found at i:41813033 original size:25 final size:26
Alignment explanation
Indices: 41813005--41813058 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
41812995 AAACCATAAT
* *
41813005 TAAGGG-AAAATTACCAAAATGCCCC
1 TAAGGGAAAAATGACCAAAATACCCC
41813030 TAAGGGAAAAAATGACCAAAATACCCC
1 TAAGGG-AAAAATGACCAAAATACCCC
41813057 TA
1 TA
41813059 CGTGTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
27 19 0.76
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (26 bp):
TAAGGGAAAAATGACCAAAATACCCC
Found at i:41813941 original size:19 final size:19
Alignment explanation
Indices: 41813917--41814014 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
41813907 AATCTTTAAG
*
41813917 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
41813936 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41813955 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41813972 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41813991 GATATGCAATCTTAAAGATAT
1 GATATGCAATCTT--AGATAT
41814012 GAT
1 GAT
41814015 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41813947 original size:36 final size:35
Alignment explanation
Indices: 41813907--41813992 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 35
41813897 ATGGAAATAT
41813907 AATCTTTAAGGATATG-CAATCCTAGATATGATATGC
1 AATCTTT-A-GATATGACAATCCTAGATATGATATGC
*
41813943 AATC-TTAGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAGATATG--ACAATCCTAGATATGATATGC
41813979 AATC-TTAGATATGA
1 AATCTTTAGATATGA
41813993 TATGCAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (35 bp):
AATCTTTAGATATGACAATCCTAGATATGATATGC
Found at i:41813953 original size:14 final size:15
Alignment explanation
Indices: 41813936--41813992 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
41813926 TCCTAGATAT
41813936 GATATG-CAATCTTA
1 GATATGACAATCTTA
41813950 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
41813967 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
41813986 GATATGA
1 GATATGA
41813993 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:41813993 original size:36 final size:37
Alignment explanation
Indices: 41813917--41814014 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
41813907 AATCTTTAAG
*
41813917 GATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATCTTAGATAT
41813955 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
41813991 GATATGCAATCTTAAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
41814015 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
40 9 0.16
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:41819883 original size:19 final size:18
Alignment explanation
Indices: 41819851--41819908 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
41819841 TTATAGATTT
41819851 TAAAAATTCAAAATAATATA
1 TAAAAATT--AAATAATATA
** *
41819871 TAAAAATTGAAATTTTTTA
1 TAAAAATT-AAATAATATA
*
41819890 TAAAAATTAAAAAATATA
1 TAAAAATTAAATAATATA
41819908 T
1 T
41819909 TTAAATTTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATTAAATAATATA
Done.