Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 100 of 207
Found at i:29799110 original size:25 final size:25
Alignment explanation
Indices: 29799078--29799153 Score: 118
Period size: 25 Copynumber: 3.1 Consensus size: 25
29799068 TTTGCCCCTC
29799078 GAGGTTAAATGATTGATTTGTCTGT
1 GAGGTTAAATGATTGATTTGTCTGT
*
29799103 GAGGTTAAATGATTGACTTGTCTGT
1 GAGGTTAAATGATTGATTTGTCTGT
* *
29799128 GATG-TAAATGACTGATTTGTCTGT
1 GAGGTTAAATGATTGATTTGTCTGT
29799152 GA
1 GA
29799154 TTTGTATGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 20 0.43
25 27 0.57
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.41
Consensus pattern (25 bp):
GAGGTTAAATGATTGATTTGTCTGT
Found at i:29799164 original size:24 final size:24
Alignment explanation
Indices: 29799082--29799156 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
29799072 CCCCTCGAGG
* *
29799082 TTAAATGATTGATTTGTCTGTGAGG
1 TTAAATGACTGATTTGTCTGTGA-T
* *
29799107 TTAAATGATTGACTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
29799131 GTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
29799155 TT
1 TT
29799157 GTATGACTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:29799322 original size:26 final size:26
Alignment explanation
Indices: 29799284--29799337 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
29799274 TTGGCCACAT
*
29799284 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
29799310 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
29799336 AT
1 AT
29799338 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:29799349 original size:26 final size:26
Alignment explanation
Indices: 29799298--29799349 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
29799288 TATTACTGGT
** *
29799298 AGCTTTGCTGCGATACTGTTGCTGGC
1 AGCTTTGCTGCGATACTACTGATGGC
*
29799324 AGCTTTGCTGCGATGCTACTGATGGC
1 AGCTTTGCTGCGATACTACTGATGGC
29799350 TTCGTACCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.33
Consensus pattern (26 bp):
AGCTTTGCTGCGATACTACTGATGGC
Found at i:29799412 original size:32 final size:32
Alignment explanation
Indices: 29799340--29799528 Score: 150
Period size: 32 Copynumber: 6.0 Consensus size: 32
29799330 GCTGCGATGC
* * * * **
29799340 TACTGATGGCTTCGTACCAATCATAGTACTAC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
29799372 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * * * **
29799404 TACCGATGGCTGTATGCCAATCATATCACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * *
29799436 TACTGATGG--GTGTGTCGATCATATGACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * *
29799466 CACTGATGGCTTTGTGCCGATGATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
29799498 TACTGATGG-TTGTGTGCCGATCATATCACTG
1 TACTGATGGCTT-TGTGCCGATCATATTACTG
29799529 CTATCACATT
Statistics
Matches: 120, Mismatches: 34, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
30 22 0.18
31 2 0.02
32 96 0.80
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:29799866 original size:33 final size:33
Alignment explanation
Indices: 29799824--29799886 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
29799814 AGGCTGATAG
* *
29799824 GGGCTAAGGCCCA-ATTGCTACCGTTACTGTAGT
1 GGGCTAAGGCCCACACTG-TACCATTACTGTAGT
29799857 GGGCTAAGGCCCACACTGTACCATTACTGT
1 GGGCTAAGGCCCACACTGTACCATTACTGT
29799887 TAAAGGGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (33 bp):
GGGCTAAGGCCCACACTGTACCATTACTGTAGT
Found at i:29803866 original size:25 final size:24
Alignment explanation
Indices: 29803837--29803925 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 24
29803827 TAATTAATAT
29803837 AAATAAAGAATAAAGAAGAATAAAA
1 AAATAAAGAA-AAAGAAGAATAAAA
* * * * *
29803862 AAATATAGTAGAAATAAGAGT-AAT
1 AAATAAAG-AAAAAGAAGAATAAAA
*
29803886 AAATAAAGAAAAA-AATAA-AAATA
1 AAATAAAGAAAAAGAAGAATAAA-A
*
29803909 AAATAATGAAAAAGAAG
1 AAATAAAGAAAAAGAAG
29803926 GGGCAAACGG
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
22 5 0.10
23 16 0.33
24 11 0.23
25 15 0.31
26 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (24 bp):
AAATAAAGAAAAAGAAGAATAAAA
Found at i:29803900 original size:38 final size:37
Alignment explanation
Indices: 29803814--29803900 Score: 88
Period size: 38 Copynumber: 2.3 Consensus size: 37
29803804 ACATAAGAAT
* *
29803814 AAGAGAAAAAAAATAATTAATATAAATAAAGAATAAAG
1 AAGA-AAAAAAAATAATTAATAGAAATAAAGAATAAAA
*
29803852 AAGAATAAAAAAAT-A-TAGTAGAAATAAGAGTAATAAATA
1 AAGAA-AAAAAAATAATTAATAGAAATAA-AG-AATAAA-A
29803891 AAGAAAAAAA
1 AAGAAAAAAA
29803901 TAAAAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
36 10 0.24
37 4 0.10
38 23 0.55
39 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (37 bp):
AAGAAAAAAAAATAATTAATAGAAATAAAGAATAAAA
Found at i:29814637 original size:37 final size:37
Alignment explanation
Indices: 29814586--29814665 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
29814576 CTTATTACGA
* *
29814586 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
* *
29814623 GGTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
29814660 AGTCTT
1 AGTCTT
29814666 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:29814862 original size:47 final size:47
Alignment explanation
Indices: 29814784--29815020 Score: 352
Period size: 47 Copynumber: 5.1 Consensus size: 47
29814774 CCCATCGGGA
* * * * * * *
29814784 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29814831 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29814878 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29814924 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29814970 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29815017 CTTA
1 CTTA
29815021 CTATCATTTC
Statistics
Matches: 175, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 29 0.17
46 31 0.18
47 115 0.66
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29814960 original size:92 final size:93
Alignment explanation
Indices: 29814784--29815020 Score: 350
Period size: 92 Copynumber: 2.5 Consensus size: 93
29814774 CCCATCGGGA
* * * * * * * *
29814784 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCAC-ATGGCCATTAGGCCTTATCACATATATACAC
29814849 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
29814878 CTTATCACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTAT-ACATATATACACT
1 CTTATCACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACT
*
29814942 TTCACATTCATCACATCGGCTATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
* *
29814970 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTA
29815021 CTATCATTTC
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
92 74 0.56
93 27 0.21
94 30 0.23
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:29819251 original size:40 final size:40
Alignment explanation
Indices: 29819194--29819414 Score: 238
Period size: 40 Copynumber: 5.6 Consensus size: 40
29819184 CCAGCATGAT
* *
29819194 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
29819234 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
29819274 TGCTCTTC-GGACTTAGCCCGGATACATC-CTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
29819312 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
29819353 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
29819393 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
29819415 CATCATTCGA
Statistics
Matches: 155, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
38 18 0.12
39 38 0.25
40 81 0.52
41 18 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:29819319 original size:78 final size:80
Alignment explanation
Indices: 29819181--29819335 Score: 233
Period size: 78 Copynumber: 2.0 Consensus size: 80
29819171 CGAATACACG
* * *
29819181 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAA
29819246 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
* * * *
29819261 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACATC-CTAGCATGAATGCTCTTCGGGA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAA
29819324 CTTAGCCCGGAT
66 CTTAGCCCGGAT
29819336 TTAGTAACTC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
78 32 0.47
79 17 0.25
80 19 0.28
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCCGGATACA
Found at i:29819360 original size:78 final size:79
Alignment explanation
Indices: 29819194--29819414 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 79
29819184 CCAGCATGAT
* * *
29819194 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* **
29819259 CATCACTAGCATGAA
65 CATAACTAGCACCAA
* * **
29819274 TGCTCTTCGGACTTAGCCCGGATACATC-CTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTT
1 TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
*
29819338 AGTAACTCGCACCAA
66 A-TAACTAGCACCAA
* ** * *
29819353 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCCGGA
29819415 CATCATTCGA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 40 0.33
79 41 0.34
80 29 0.24
81 5 0.04
82 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
ATAACTAGCACCAA
Found at i:29819400 original size:118 final size:119
Alignment explanation
Indices: 29819186--29819414 Score: 286
Period size: 118 Copynumber: 1.9 Consensus size: 119
29819176 ACACGTCACC
* * * *
29819186 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAG
* *
29819251 CCCGGATACATCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACATCCT
66 CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCCT
* * * *
29819304 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTA
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGAACTTA
* **
29819368 GTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
65 GCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
29819415 CATCATTCGA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
118 54 0.57
119 35 0.37
120 5 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGAACTTAG
CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCCT
Found at i:29819759 original size:29 final size:29
Alignment explanation
Indices: 29819720--29819798 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
29819710 CTTAATAATC
*
29819720 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
29819750 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
29819779 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
29819799 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:29819841 original size:43 final size:43
Alignment explanation
Indices: 29819780--29819882 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29819770 TGCATTTCAA
29819780 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29819823 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29819866 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
29819883 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:29821798 original size:37 final size:37
Alignment explanation
Indices: 29821748--29821826 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29821738 TTATTACGAA
* *
29821748 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
29821785 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
29821822 GTCTT
1 GTCTT
29821827 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:29822022 original size:47 final size:47
Alignment explanation
Indices: 29821944--29822177 Score: 346
Period size: 47 Copynumber: 5.0 Consensus size: 47
29821934 GCCTTCGGGA
* * * * * * *
29821944 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29821991 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29822038 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29822085 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29822132 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29822177 C
1 C
29822178 ATACTATCAT
Statistics
Matches: 173, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 38 0.22
47 135 0.78
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29826286 original size:11 final size:11
Alignment explanation
Indices: 29826256--29826300 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 11
29826246 TTTATGCTCT
29826256 AAAATTTCATG
1 AAAATTTCATG
29826267 AAAATATTTCATG
1 -AAA-ATTTCATG
29826280 AAAATTTCATTCG
1 AAAATTTCA-T-G
29826293 AAAATTTC
1 AAAATTTC
29826301 GACGTTTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.20
12 7 0.23
13 17 0.57
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (11 bp):
AAAATTTCATG
Found at i:29827338 original size:50 final size:49
Alignment explanation
Indices: 29827276--29827463 Score: 200
Period size: 50 Copynumber: 3.8 Consensus size: 49
29827266 GATGGTCATG
* *
29827276 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAAAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAT-AAAGGTCACA
* * * * *
29827326 TGTGCAGTACTATGTGCAGGCTACTACGTGTATCGGATATTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-AATAAAGGTCACA
* *
29827377 TGTGTAGTACTATGTGCAGGCTACTACGTGAACC-AAA-AAATTTGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATAAA---GGTCACA
* * *
29827427 TGTGTAGTACTATCTGAAGGCTACTACGTGTATCGAA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
29827464 TGATAATAGT
Statistics
Matches: 114, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 1 0.01
50 66 0.58
51 42 0.37
52 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATAAAGGTCACA
Found at i:29827398 original size:101 final size:99
Alignment explanation
Indices: 29827267--29827461 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 99
29827257 AGTGAAAGTG
* * * * *
29827267 ATGGTCATGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAAA-GGTCGCATGTGC
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACC-AAA--AAATGATCACATGTGC
* *
29827331 AGTACTATGTGCAGGCTACTACGTGTATCGGATATTA
63 AGTACTATCTGAAGGCTACTACGTGTATCGGATATTA
*
29827368 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAATTTGATCACATGTGTA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAA--TGATCACATGTGCA
29827433 GTACTATCTGAAGGCTACTACGTGTATCG
64 GTACTATCTGAAGGCTACTACGTGTATCG
29827462 AATGATAATA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
98 3 0.04
100 3 0.04
101 77 0.93
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAATGATCACATGTGCAGT
ACTATCTGAAGGCTACTACGTGTATCGGATATTA
Found at i:29827488 original size:101 final size:100
Alignment explanation
Indices: 29827279--29827495 Score: 235
Period size: 101 Copynumber: 2.1 Consensus size: 100
29827269 GGTCATGTGT
* * * * * *
29827279 GTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAAAGGTCGCATGTGCAGTACTATGTGCA
1 GTAGTACTATGTGCAGGCTACTACGTGAACCGAAA-GAAAGATCACATGTGCAGTACTATCTGAA
* * * *
29827344 GGCTACTACGTGTATCGGATATTAATGGTCACGTGT
65 GGCTACTACGTGTATCGAATATTAATGGTAAAGTGA
*
29827380 GTAGTACTATGTGCAGGCTACTACGTGAACC-AAA-AAATTTGATCACATGTGTAGTACTATCTG
1 GTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGAAA---GATCACATGTGCAGTACTATCTG
*
29827443 AAGGCTACTACGTGTATCGAATGA-TAATAGTTAAAG-GA
63 AAGGCTACTACGTGTATCGAAT-ATTAAT-GGTAAAGTGA
*
29827481 GTGGTACTATGTGCA
1 GTAGTACTATGTGCA
29827496 AACCACCGAA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
98 3 0.03
100 3 0.03
101 87 0.89
102 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (100 bp):
GTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGAAAGATCACATGTGCAGTACTATCTGAAG
GCTACTACGTGTATCGAATATTAATGGTAAAGTGA
Found at i:29831996 original size:44 final size:44
Alignment explanation
Indices: 29831683--29832132 Score: 137
Period size: 44 Copynumber: 10.2 Consensus size: 44
29831673 AAGATTGTAG
* **
29831683 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * **
29831727 ATCTTAGCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGTAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * * ** * *
29831771 GCCTTGTCTCCCCTGAGTAGTAGCGGAGTAGGTTGAAGATTGTAG
1 ATCTTATCT-CCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
**
29831816 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * * * **
29831860 ATCTCATCTTTCC-AAG-A-TAATGGGAAGTAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGTAGTAGT-GG-AGCAGATTGAAGACGGCAA
* * * * * * * * ** * *
29831904 GTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
* *
29831948 ATCTTATCTCCCTAAGTAGTAGTGGAGAAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
29831992 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAA-ACCACCAA
1 ATCTTATC-TCCCTAAGTAGTAGT-GG-AGCAGATTGAAGA-CGGCAA
** * * * * * * * ** * *
29832036 GCCTTGTCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
* * * *
29832080 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAGGACAGCAA
1 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
29832124 ATCTTATCT
1 ATCTTATCT
29832133 TTCCAAGATA
Statistics
Matches: 277, Mismatches: 108, Indels: 42
0.65 0.25 0.10
Matches are distributed among these distances:
42 11 0.04
43 17 0.06
44 206 0.74
45 33 0.12
46 7 0.03
47 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGACGGCAA
Found at i:29832001 original size:132 final size:132
Alignment explanation
Indices: 29831633--29832180 Score: 889
Period size: 132 Copynumber: 4.1 Consensus size: 132
29831623 ACCGGTGAAA
* * *
29831633 CACCAAGCCTTGACTTCCTGAGCAGCAACGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
29831698 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29831763 GC
131 GC
* *
29831765 CACCAAGCCTTGTCTCCCCTGAGTAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCT-CCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * * *
29831830 AGTAGTAGTGGAGCAGATCAAAGACGGCAAATCTCATCTTTCCAAGATAATGGGAAGTAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
29831895 AGC
130 AGC
* *
29831898 CACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
29831963 GTAGTAGTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
29832028 AC
131 GC
**
29832030 CACCAAGCCTTGTCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
29832095 GCAGTAGTGGAGCAGATCGAGGACAGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29832160 GC
131 GC
29832162 CACCAAGCCTTGTCTCCCT
1 CACCAAGCCTTGTCTCCCT
29832181 AAAGTTGCAG
Statistics
Matches: 386, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 264 0.68
133 122 0.32
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:29832221 original size:264 final size:264
Alignment explanation
Indices: 29831633--29832182 Score: 841
Period size: 265 Copynumber: 2.1 Consensus size: 264
29831623 ACCGGTGAAA
* * * * * *
29831633 CACCAAGCCTTGACTTCCTGAGCAGCAACGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAAATTG-AGATCTTATCTCCCTAA
*
29831698 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAGCAGATTTAA
65 GCAGTAGTGGAGAAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * *
29831763 GCCACCAAGCCTTGTCTCCCCTGAGTAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCC
130 ACCACCAAGCCTTGTCTCCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCC
* * *
29831828 TAAGTAGTAGTGGAGCAGATCAAAGACGGCAAATCTCATCTTTCCAAGATAATGGGAAGTAGATT
195 TAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTCATCTTTCCAAGATAATGGGAAGCAGATT
29831893 TAAGC
260 TAAGC
* * *
29831898 CACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAAATTG-AGATCTTATCTCCCTAA
* * * *
29831963 GTAGTAGTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
65 GCAGTAGTGGAGAAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
29832028 ACCACCAAGCCTTGTCT-CCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAGATCTTATCTCCC
130 ACCACCAAGCCTTGTCTCCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCC
* * * *
29832092 TAAGCAGTAGTGGAGCAGATCGAGGACAGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
195 TAAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTCATCTTTCCAAGATAATGGGAAGCAGATT
29832157 TAAGC
260 TAAGC
29832162 CACCAAGCCTTGTCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAA
29832183 AGTTGCAGTG
Statistics
Matches: 261, Mismatches: 24, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
264 125 0.48
265 136 0.52
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (264 bp):
CACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAAATTGAGATCTTATCTCCCTAAG
CAGTAGTGGAGAAGATCAAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAGCAGATTTAAA
CCACCAAGCCTTGTCTCCCCTGAGCAGCAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCT
AAGCAGTAGTGGAGCAGATCAAAGACAGCAAATCTCATCTTTCCAAGATAATGGGAAGCAGATTT
AAGC
Found at i:29832303 original size:44 final size:43
Alignment explanation
Indices: 29832213--29833164 Score: 357
Period size: 44 Copynumber: 21.8 Consensus size: 43
29832203 AAACCTTGGA
* * * * * *
29832213 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
*
29832253 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * *
29832297 TCTTATC-CTCCTGAAGTTCCAGT-GAGGCAGATTGAAGATAGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAG
* * * **
29832342 TCTTATCTCCTTGAGGTTGCAGTGGAGCAGATTAAAGCTGACAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CAAG
* * *
29832386 TCGTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA-AATCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AG
* * * * * * * * *
29832429 ATCTTATCTCTCTAAATTTGCAG-AGAGCA-AATCA-CATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
* * * *
29832470 TCTTGTCTCCTTGAAGTTGCAATGGAGCAGACTGAGCAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* *
29832514 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAG
* * *
29832559 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-GTTA-AAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AG
* * ** * * **
29832603 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA-AACCTTGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG
* * * * *
29832646 ATCTTATCTCTCTGAAGTTACAGAT--AGCAGA-T-CGCATCAAG
1 -TCTTATCTCCCTGAAGTTGCAG-TGGAGCAGACTAAGAAGCAAG
** * *
29832687 TCTTATC-CTCCAAAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAAG
* * * *
29832732 TCTTATCTCCCTGAAGTTGCGGTGGAGCAG-GTTA-AAGCCTATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AG
* * * ** * *
29832776 TCCTATCTTCTTGAAGTTGCAGTGGAGTGGATTAA-AA-CTTTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--AAG
* * * * * *
29832819 ATCTTATTTCTCTGAAGTTACAG-AGAGCAGA-GAGCAGATCGCATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA--AGA-AGCA---AG
* * *
29832867 TCTTATCTCCCTGAAGTTGCAATGGAGCAAACTAAGTAATCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAG
* * *
29832911 TCTTATC-CTCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCGAA-
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGC-AAG
* * * * * *
29832956 TCCTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCAAG
* * * * *
29833000 TCCTGTCTCCCTGAAGTTGCAGTAGAGCAGATTAA-AACCACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA-AG
* * * * * * *
29833043 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCA-CATCGAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
*
29833085 TCTTATCTCCCTGAAGTTGCAGTTGAGCAGACTTAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TAAG-AAGCAAG
* * * * * *
29833130 CCTTATCCCCCTAAAATTGCAGTGGGGCATACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
29833165 ATAAACAAAT
Statistics
Matches: 680, Mismatches: 163, Indels: 134
0.70 0.17 0.14
Matches are distributed among these distances:
39 2 0.00
40 53 0.08
41 52 0.08
42 26 0.04
43 41 0.06
44 292 0.43
45 169 0.25
46 12 0.02
47 23 0.03
48 9 0.01
49 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAG
Found at i:29832409 original size:89 final size:89
Alignment explanation
Indices: 29832253--29832418 Score: 205
Period size: 89 Copynumber: 1.9 Consensus size: 89
29832243 TCGCATCTAG
* *
29832253 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTCCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCGTATCCTCCTGAAGTTCCA
29832318 GT-GAGGCAGATTGAAGATAGCAAA
66 GTGGA-GCAGATTGAAGATAGCAAA
* * * *
29832342 TCTTATCTCCTTGAGGTTGCAGTGGAGCAGATTAAAGCTGA-CAA-TCGTAT-CTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCGTATCCT-CCTGAAGTT
*
29832404 GCAGTGGAGCAGATT
63 CCAGTGGAGCAGATT
29832419 AAAATCACAG
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
88 2 0.03
89 54 0.82
90 8 0.12
91 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCGTATCCTCCTGAAGTTCCA
GTGGAGCAGATTGAAGATAGCAAA
Found at i:29832689 original size:173 final size:173
Alignment explanation
Indices: 29832510--29832849 Score: 599
Period size: 173 Copynumber: 2.0 Consensus size: 173
29832500 ACTGAGCAAG
**
29832510 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
29832575 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
* *
29832640 CCTTGGATCTTATCTCTCTGAAGTTACAGATAGCAGATCGCAT
131 CCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
29832683 CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* * *
29832748 TTGCGGTGGAGCAGGTTAAAGCCTATAATCCTATCTTCTTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
* *
29832813 CTTTAGATCTTATTTCTCTGAAGTTACAGAGAGCAGA
131 CCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGA
29832850 GAGCAGATCG
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 158 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (173 bp):
CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
CCTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCAT
Found at i:29832706 original size:217 final size:215
Alignment explanation
Indices: 29832174--29832751 Score: 773
Period size: 217 Copynumber: 2.7 Consensus size: 215
29832164 CCAAGCCTTG
*
29832174 TCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
* *
29832239 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATC
66 CAGATCGCATCTAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAG-AAGCAAGTCTTATC
* * * *
29832304 CTCCTGAAGTTCCAGTGAGGCAGATTGAAGATAGCAAATCTTATCTCCTTGAGGTTGCAGTGGAG
129 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* *
29832369 CAGATTAAAGCTGACAATCGTA
194 CAGATTAAAGCCGACAATCCTA
* * *** * *
29832391 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAATTTGCAGAGAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
* * * *
29832456 CAAATCACATCTAGTCTTGTCTCCTTGAAGTTGCAATGGAGCAGACTGAGCAAGCAAGTCTTATC
66 CAGATCGCATCTAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAG-AAGCAAGTCTTATC
*
29832521 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
129 CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
* *
29832586 CAGGTTAAAGCCGATAATCCTA
194 CAGATTAAAGCCGACAATCCTA
* * * *
29832608 TCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGATAG
1 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
* ** * *
29832673 CAGATCGCATCAAGTCTTATCCTCCAAAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTA
66 CAGATCGCATCTAGTCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGACTG-AGA-AGCAAGTCTTA
29832737 T-CTCCCTGAAGTTGC
127 TCCT-CCTGAAGTTGC
29832752 GGTGGAGCAG
Statistics
Matches: 311, Mismatches: 44, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
216 4 0.01
217 280 0.90
218 27 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (215 bp):
TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAG
CAGATCGCATCTAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAGAAGCAAGTCTTATCCT
CCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
GATTAAAGCCGACAATCCTA
Found at i:29832836 original size:217 final size:211
Alignment explanation
Indices: 29832182--29832984 Score: 621
Period size: 217 Copynumber: 3.7 Consensus size: 211
29832172 TGTCTCCCTA
* * *
29832182 AAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGC
1 AAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGC
* * * *
29832247 ATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATCCTCCTG
66 ATCAAGTCTTATCT-CCTAAAGTTGCAGTGGAGCAGACTGAAGAT-AGCAAATCTTATCCTCCTG
* *
29832310 AAGTTCCAGTGAGGCAGATTGAAGATAGC-AAATCTTATCTCCTTGAGGTTGCAGTGGAGCA-GA
129 AAGTTGCAGTGAGGCAGATT--A-A-AGCTAAATCTTATCTCCTTGAAGTTGCAGTGGAG-AGGA
* * * *
29832373 TTAAAGCTGACAATCGTATCTCCCTG
189 TTAAAACT--TAATCCTAT-TTCCTG
* ** * * *
29832399 AAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAATTTGCAGAGAGCAAATCAC
1 AAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGC
* * * * *
29832464 ATCTAGTCTTGTCTCCTTGAAGTTGCAATGGAGCAGACTG-AGCA-AGCAAGTCTTATCCTCCTG
66 ATCAAGTCTTATCTCC-TAAAGTTGCAGTGGAGCAGACTGAAG-ATAGCAAATCTTATCCTCCTG
* *
29832527 AAGTTGCAGTGAGGCAGACTGAAGATGGC-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-
129 AAGTTGCAGTGAGGCAGA-TTAA-A--GCTAAATCTTATCTCCTTGAAGTTGCAGTGGAG-AGGA
* *
29832590 TTAAAGCCGATAATCCTATCTTCCTG
189 TTAAA-AC-TTAATCCTAT-TTCCTG
** * * * *
29832616 AAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGATAGCAGATCGC
1 AAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGC
* *
29832681 ATCAAGTCTTATCCTCCAAAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTAT-CTCCCT
66 ATCAAGTCTTAT-CTCCTAAAGTTGCAGTGGA-GCAGACTGAAGATAGCAAATCTTATCCT-CCT
* * * * *
29832744 GAAGTTGCGGTG-GAGCAGGTTAAAGCCTATAATCCTATCTTCTTGAAGTTGCAGTGGAGTGGAT
128 GAAGTTGCAGTGAG-GCAGATTAAAG-CTA-AATCTTATCTCCTTGAAGTTGCAGTGGAGAGGAT
*
29832808 TAAAACTTTAGATCTTATTTCTCTG
190 TAAAAC-TTA-ATCCTATTTC-CTG
* * * * *
29832833 AAGTTACAG-AGAGCAGA-GAGCAGATCGCATCTAG-TCTTATCTCCCTGAAGTTGCA-ATGGAG
1 AAGTTGCAGTGGAGCAGATTA--A-AAC-C-T-TAGATCTTATCTCTCTGAAGTTGCAGA--GAG
* * * * * * *
29832894 CAAACTAAGTAATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCGAATCC
58 CAAA-T-CG-CATCAAGTCTTAT-CTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCT
*
29832959 TAT-CTCCCTGAAGTTGCAGTGGGGCA
119 TATCCT-CCTGAAGTTGCAGTGAGGCA
29832985 TACTAAATAA
Statistics
Matches: 480, Mismatches: 71, Indels: 63
0.78 0.12 0.10
Matches are distributed among these distances:
214 1 0.00
215 4 0.01
216 20 0.04
217 313 0.65
218 39 0.08
219 2 0.00
220 20 0.04
221 7 0.01
222 1 0.00
223 1 0.00
224 70 0.15
225 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (211 bp):
AAGTTGCAGTGGAGCAGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGC
ATCAAGTCTTATCTCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCCTCCTGAA
GTTGCAGTGAGGCAGATTAAAGCTAAATCTTATCTCCTTGAAGTTGCAGTGGAGAGGATTAAAAC
TTAATCCTATTTCCTG
Found at i:29832942 original size:224 final size:219
Alignment explanation
Indices: 29832681--29833158 Score: 550
Period size: 224 Copynumber: 2.2 Consensus size: 219
29832671 AGCAGATCGC
* * * *
29832681 ATCAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
1 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCCTATCTCCCTGA
* ** * ** * * * **
29832746 AGTTGCGGTGGAGCA-GGTTAA-AGCCTATAATCCTATCTTCTTGAAGTTGCAGTGGAGTGGATT
66 AGTTGCAGTGGAGCATACTAAATAAAC-A-AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATT
*** * * *
29832809 AAAACTTTAGATCTTATTTCTCTGAAGTTACAGAGAGCAG-AGAGCAGATCGCATCTAGTCTTAT
129 AAAACCACAGATCTTATCTCTCTGAAGTT-------GCAGTAGAGCAGATCACATCGAGTCTTAT
*
29832873 CTCCCTGAAGTTGCAATGGAGCAAAC-TAAGTA
187 CTCCCTGAAGTTGCAATGGAGCAAACTTAAGAA
*
29832905 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCGAATCCTATCTCCCTGA
1 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCCTATCTCCCTGA
* *
29832970 AGTTGCAGTGGGGCATACTAAATAAACAAATCCTGTCTCCCTGAAGTTGCAGTAGAGCAGATTAA
66 AGTTGCAGTGGAGCATACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAA
*
29833035 AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCGAGTCTTATCTCCCTGAA
131 AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCGAGTCTTATCTCCCTGAA
* * *
29833100 GTTGCAGTTGAGCAGACTTAAGAA
196 GTTGCAATGGAGCAAACTTAAGAA
* * * *
29833124 AGCAAGCCTTATCCCCCTAAAATTGCAGTGGGGCA
1 ATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCA
29833159 TACTAAATAA
Statistics
Matches: 217, Mismatches: 33, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
217 4 0.02
218 44 0.20
219 36 0.17
224 127 0.59
225 4 0.02
226 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (219 bp):
ATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCCTATCTCCCTGA
AGTTGCAGTGGAGCATACTAAATAAACAAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAA
AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCGAGTCTTATCTCCCTGAA
GTTGCAATGGAGCAAACTTAAGAA
Found at i:29833199 original size:397 final size:397
Alignment explanation
Indices: 29832293--29833206 Score: 944
Period size: 397 Copynumber: 2.3 Consensus size: 397
29832283 ACTAAGTAAG
** * * * * * * * **
29832293 CAAGTCTTATCCTCCTGAAGTTCCAGTGAGGCAGATTGAAGATAGCAAATCTTATCTCCTTGAGG
1 CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGAAAGCAAACCTTATCCCCCTAAAA
* * * * * **
29832358 TTGCAGTGGAGCAGA-T-TAAAGCTGACAATCGTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
66 TTGCAGTGGAGCA-ACTAAAAAACT-ATAATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAA
** * * * *
29832421 AA-TCACAGATCTTATCTCTCT-AAATT------TGCAGAGAGCAAATCACATCTAGTCTTGTCT
129 AACT-TTAGATCTTATTTCTCTGAAGTTACAGAGAGCAGAGAGCAAATCACATCTAGTCTTATCT
* * * *
29832478 CCTTGAAGTTGCAATGGAGCAGACTGAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCA
193 CCCTGAAGTTGCAATGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCA
* * ** * **
29832543 GACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTA
258 GACTCAAGATGGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAACTAAAAAACGATAATCCTA
* * ** *** *
29832608 TCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTACAGATAG
323 TCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAG
*
29832673 CAGATCGCAT
388 CAGATCACAT
** * * * *
29832683 CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGAAAGCAAACCTTATCCCCCTAAAA
* ** * ** *
29832748 TTGCGGTGGAGCAGGTTAAAGCCTATAATCCTATCTTCTTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAACTAAAAAACTATAATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAA
* *
29832813 CTTTAGATCTTATTTCTCTGAAGTTACAGAGAGCAGAGAGCAGATCGCATCTAGTCTTATCTCCC
131 CTTTAGATCTTATTTCTCTGAAGTTACAGAGAGCAGAGAGCAAATCACATCTAGTCTTATCTCCC
* * *
29832878 TGAAGTTGCAATGGAGCAAACTAAGTAATCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGAC
196 TGAAGTTGCAATGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGAC
* * *
29832943 TCAAGATGGCGAATCCTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAAC-A-AATCCTGT
261 TCAAGATGGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCA-ACTAAA-AAACGATAATCCTAT
*
29833006 CTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAG
324 CTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAG-AGAG
*
29833071 TAGATCACAT
388 CAGATCACAT
* ** * *
29833081 CGAGTCTTAT-CTCCCTGAAGTTGCAGTTGA-GCAGACTTAAGAAAGCAAGCCTTATCCCCCTAA
1 CAAGTCTTATCCT-CCAAAAGTTGCAG-TGAGGCAGACTGAAGAAAGCAAACCTTATCCCCCTAA
* * *
29833144 AATTGCAGTGGGGCATACTAAATAAAC-A-AATCCTGTCTCCTT-AAGTTGTAGTGGAGTGGATT
64 AATTGCAGTGGAGCA-ACTAAA-AAACTATAATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATT
29833206 A
127 A
29833207 GAGTGATGGA
Statistics
Matches: 432, Mismatches: 75, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
390 120 0.28
391 9 0.02
397 207 0.48
398 85 0.20
399 9 0.02
400 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (397 bp):
CAAGTCTTATCCTCCAAAAGTTGCAGTGAGGCAGACTGAAGAAAGCAAACCTTATCCCCCTAAAA
TTGCAGTGGAGCAACTAAAAAACTATAATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAA
CTTTAGATCTTATTTCTCTGAAGTTACAGAGAGCAGAGAGCAAATCACATCTAGTCTTATCTCCC
TGAAGTTGCAATGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGAC
TCAAGATGGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAACTAAAAAACGATAATCCTATCT
CCCTGAAGTTGCAGTAGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGCAG
ATCACAT
Found at i:29833533 original size:19 final size:19
Alignment explanation
Indices: 29833509--29833583 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
29833499 AATCTTTGAG
29833509 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29833528 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
29833547 GATATATTAAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
**
29833568 GATATTTAATCTTAGA
1 GATATGCAATCTTAGA
29833584 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:29833609 original size:22 final size:22
Alignment explanation
Indices: 29833541--29833606 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
29833531 ATGCAATCTT
29833541 AGATATGATATATTAAATCTT---
1 AGATATGATAT-TT-AATCTTAGA
29833562 AGATATGATATTTAATCTTAGA
1 AGATATGATATTTAATCTTAGA
*
29833584 AGATATGATTTTGTAATCTTAGA
1 AGATATGATATT-TAATCTTAGA
29833607 GATTTAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 11 0.28
22 11 0.28
23 10 0.25
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (22 bp):
AGATATGATATTTAATCTTAGA
Found at i:29833616 original size:22 final size:23
Alignment explanation
Indices: 29833574--29833616 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
29833564 ATATGATATT
*
29833574 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
29833597 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
29833617 GTAGATAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:29833815 original size:21 final size:20
Alignment explanation
Indices: 29833783--29833822 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29833773 GGCTTACTGT
* *
29833783 TTTTTTTCCATTTTCGATTA
1 TTTTTTACCATTTACGATTA
29833803 TTTTTTACTCATTTACGATT
1 TTTTTTAC-CATTTACGATT
29833823 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTTACCATTTACGATTA
Found at i:29840823 original size:17 final size:17
Alignment explanation
Indices: 29840771--29840823 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
29840761 TATGGAAACA
* *
29840771 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
29840788 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
29840807 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
29840824 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:29840823 original size:22 final size:23
Alignment explanation
Indices: 29840795--29840839 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
29840785 ATGCAATCTT
29840795 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
29840817 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
29840840 GACTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:29841498 original size:23 final size:21
Alignment explanation
Indices: 29841468--29841509 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
29841458 TTTTTAATTA
29841468 GTTTTTATTTATATATATTTTTT
1 GTTTTTATTTAT-T-TATTTTTT
29841491 GTTTTTATTTATTTATTTT
1 GTTTTTATTTATTTATTTT
29841510 AAAACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
GTTTTTATTTATTTATTTTTT
Found at i:29848015 original size:44 final size:44
Alignment explanation
Indices: 29847967--29848283 Score: 127
Period size: 44 Copynumber: 7.2 Consensus size: 44
29847957 AAGATTGTAG
*
29847967 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
* * ** *
29848011 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGA-CAA
* * * * * * * * *
29848055 GTCTTGTCTCCCTGAA-CAGTAGCGGAGAAGGTTGAAGATTG-TAG
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGA-CGACAA
*
29848099 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
* * ** *
29848143 ATTTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAA-ACCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGA-CAA
** * * ** * * * * * * *
29848187 GCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGATGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGACAA
*
29848231 ATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGAC-AGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA-CAA
29848275 ATCTTATCT
1 ATCTTATCT
29848284 TTCCAAGATA
Statistics
Matches: 189, Mismatches: 61, Indels: 46
0.64 0.21 0.16
Matches are distributed among these distances:
42 8 0.04
43 19 0.10
44 142 0.75
45 14 0.07
46 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
Found at i:29848022 original size:132 final size:132
Alignment explanation
Indices: 29847785--29848333 Score: 884
Period size: 132 Copynumber: 4.2 Consensus size: 132
29847775 ACTGGTGAAA
* * * *
29847785 CACCAAGCCTTGTCTTCCTGAGCAGCAACGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
29847850 AAAGTAGTGGAGCAAATCGAAGACGGCAAATCTTAGCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GAAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29847915 GC
131 GC
29847917 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
29847982 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GAAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
29848047 GC
131 GC
* * * *
29848049 CACCAAGTCTTGTCTCCCTGAACAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
29848114 GCAGTAGTGGAGCAGATCGAAGACGGCAAATTTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GAAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
29848179 AC
131 GC
*
29848181 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGATGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
29848246 GAAGTAGTGGAGCAGATCGAAGAC-AGCAAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTA
66 GAAGTAGTGGAGCAGATCGAAGACGA-CAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
29848310 AGC
130 AGC
29848313 CACCAAGCCTTGTCTCCCTGA
1 CACCAAGCCTTGTCTCCCTGA
29848334 AGTTGCAGTG
Statistics
Matches: 387, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 387 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGTAGCAGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GAAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:29848512 original size:45 final size:44
Alignment explanation
Indices: 29848404--29849305 Score: 352
Period size: 44 Copynumber: 20.6 Consensus size: 44
29848394 TCGCATCTAG
* * ** * *
29848404 TCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAT-GGCAAA
29848448 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAGATGGCAAA
* *
29848493 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTAA-A-GCCGACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGC-A-AA
* * * * **
29848537 TCCTATCTCCCTGAAGTTGCAATGGAGAAGATTAAAATCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAA
* * * * * * * * *
29848581 TCTTATCTCTCTAAATTTGCAG-AGAGTAGA-TCACAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAA
* * * * * *
29848621 TCTTATCTCCTTAAAGTTGCAATGGAGCAGACTAAGCA-AGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG-ATGGCAAA
*
29848665 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAGATGGCAAA
* *
29848710 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGC-A-AA
* * * * ** *
29848754 TCCTATCTTCTTGATGTT-CAAGTGGAGTGGATTAAAACCTTGG---A
1 TCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTAAGA---TGGCAAA
* * *
29848798 TCTTATCTCTCTGAAGTTGCAGAT--AGCAGATT--GCCT--CAAG
1 TCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTAAG-ATGGCAAA
*
29848838 TCTTATCCTCCC-GAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAA
1 TCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGA-TTAAGATGGCAAA
* *
29848883 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGC-A-AA
* * ** * **** *
29848927 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAA
* * * * * *
29848971 TCTGATCTCTCTGAAGTTGCAG-AGAGCAGA-GAGCAGATCGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA--AGATGGCA---AA
* *
29849018 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAT--CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAG--ATGGCAAA
* *
29849062 TCTTATC-CTCCTGAAGTTGCAGTGG-GCCAGACTCAAGATGGCGAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTAAGATGGCAAA
* * * ***
29849107 TCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAA-ATAAAAAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGAT-GGCAAA
* * * * ***
29849151 T-TCTGTCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAAA
1 TCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAA
* * * * * * * *
29849195 TCTTATCTCTCTGAAGTTGTAGTAGAGTAGA-TCACAT--CGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAA
* * * ** *
29849236 TCTTGTCTCCCTGAAGTTGCAGTGGTGCAGACTCAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAGATGGCAAA
* * *
29849281 CCTTATCCCCCTGAAATTGCAGTGG
1 TCTTATCTCCCTGAAGTTGCAGTGG
29849306 GGCATACTAA
Statistics
Matches: 644, Mismatches: 141, Indels: 145
0.69 0.15 0.16
Matches are distributed among these distances:
39 2 0.00
40 37 0.06
41 42 0.07
42 14 0.02
43 44 0.07
44 304 0.47
45 154 0.24
46 12 0.02
47 24 0.04
48 7 0.01
49 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGATGGCAAA
Found at i:29848840 original size:173 final size:173
Alignment explanation
Indices: 29848661--29849000 Score: 610
Period size: 173 Copynumber: 2.0 Consensus size: 173
29848651 ACTAAGCAAG
*
29848661 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* *
29848726 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCTTGATGTT-CAAGTGGAGTGGATTAAA
66 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGC-AGTGGAGTGGATTAAA
* * *
29848790 ACCTTGGATCTTATCTCTCTGAAGTTGCAGATAGCAGATTGCCT
130 ACCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGATTGCCT
29848834 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
29848899 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
29848964 CCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGA
131 CCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGA
29849001 GAGCAGATCG
Statistics
Matches: 160, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
173 159 0.99
174 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (173 bp):
CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
CCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGATTGCCT
Found at i:29848942 original size:217 final size:216
Alignment explanation
Indices: 29848325--29848962 Score: 747
Period size: 217 Copynumber: 2.9 Consensus size: 216
29848315 CCAAGCCTTG
* *
29848325 TCTCCCTGAAGTTGC-AGTGGAGCGGATTAAAACCTTGGATCTTATGTCTCTGAAGTTGCAGAGA
1 TCTCCCTGAAGTTGCAAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
29848389 GCATATCGCATCTAGTCTTATCTCCCTAAAGTTTCAGTGGAGCAGACAAAG-TAAGCAAGTCTTA
66 GCAGATCGCATCTAGTCTTATCTCCC-AAAGTTGCAGTGGAGCAGACTAAGAT-AGCAAGTCTTA
*
29848453 TCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGG
129 TCCTCCTGAAGTTGCAGTGAGGCAGATT-AAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
29848518 AGCAGATTAAAGCCGACAATCCTA
193 AGCAGATTAAAGCCGACAATCCTA
* * **** * *
29848542 TCTCCCTGAAGTTGCAA-TGGAGAAGATTAAAATCACAAATCTTATCTCTCTAAATTTGCAGAGA
1 TCTCCCTGAAGTTGCAAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
* * * *
29848606 GTAGATCACATCTAGTCTTATCTCCTTAAAGTTGCAATGGAGCAGACTAAGCA-AGCAAGTCTTA
66 GCAGATCGCATCTAGTCTTATCTCC-CAAAGTTGCAGTGGAGCAGACTAAG-ATAGCAAGTCTTA
*
29848670 TCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
129 TCCTCCTGAAGTTGCAGTGAGGCAGA-TTAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
29848735 AGCAGGTTAAAGCCGATAATCCTA
193 AGCAGATTAAAGCCGACAATCCTA
* * * * *
29848759 TCTTCTTGATGTT-CAAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGATA
1 TCTCCCTGAAGTTGCAAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
* * * * * *
29848823 GCAGATTGCCTCAAGTCTTATCCTCCCGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTT
66 GCAGATCGCATCTAGTCTTAT-CTCCCAAAGTTGCAGTGGA-GCAGACT-AAGATAGCAAGTCTT
* * * *
29848887 AT-CTCCCTGAAGTTGCAGTG-GAGCAGGTTAA-A-GCCGATAATCCTATCTTCCTGAAGTTGCA
128 ATCCT-CCTGAAGTTGCAGTGAG-GCAGATTAAGATGGC-A-AATCTTATCTCCCTGAAGTTGCA
**
29848948 GTGGAGTGGATTAAA
189 GTGGAGCAGATTAAA
29848963 ACCTTAGATC
Statistics
Matches: 355, Mismatches: 52, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
215 2 0.01
216 7 0.02
217 308 0.87
218 38 0.11
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (216 bp):
TCTCCCTGAAGTTGCAAGTGGAGAGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCTAGTCTTATCTCCCAAAGTTGCAGTGGAGCAGACTAAGATAGCAAGTCTTATC
CTCCTGAAGTTGCAGTGAGGCAGATTAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
AGATTAAAGCCGACAATCCTA
Found at i:29849082 original size:224 final size:218
Alignment explanation
Indices: 29848833--29849306 Score: 572
Period size: 224 Copynumber: 2.1 Consensus size: 218
29848823 GCAGATTGCC
* *
29848833 TCAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
1 TCAAGTCTTATCCTCCTGAAGTTGCAGTG-GGCAGACTCAAGATGGCAAATCTTATCTCCCTGAA
** *** * * *
29848898 GTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAA
65 GTTGCAGTGGAGCAGACTAAAGAAAAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
** * * *
29848963 ACCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGAGAGCAGATCGCATCTAGTCTTATCTCC
130 ACCACAAATCTGATCTCTCTGAAGTT---G-GAG--GAGAGCAGATCACATCGAGTCTTATCTCC
*
29849028 CTGAAGTTGCAGTGGAGCAGACT-AAGTAA
189 CTGAAGTTGCAGTGGAGCAGACTCAAGAAA
*
29849057 TCAAGTCTTATCCTCCTGAAGTTGCAGTGGGCCAGACTCAAGATGGCGAATCTTATCTCCCTGAA
1 TCAAGTCTTATCCTCCTGAAGTTGCAGTGGG-CAGACTCAAGATGGCAAATCTTATCTCCCTGAA
* * * * * *
29849122 GTTGCAGTGGGGCATACTAAATAAAAAAATTCTGTCTCCCTGAAGTTGTAGTGGAGCGGATTAAA
65 GTTGCAGTGGAGCAGACTAAAGAAAAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
* * * * *
29849187 ACCACAAATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCACATCGAGTCTTGTCTCCCTGAAG
130 ACCACAAATCTGATCTCTCTGAAGTTGGAGGAGAGCAGATCACATCGAGTCTTATCTCCCTGAAG
*
29849252 TTGCAGTGGTGCAGACTCAAGAAA
195 TTGCAGTGGAGCAGACTCAAGAAA
* * * *
29849276 GCAAGCCTTATCCCCCTGAAATTGCAGTGGG
1 TCAAGTCTTATCCTCCTGAAGTTGCAGTGGG
29849307 GCATACTAAA
Statistics
Matches: 215, Mismatches: 33, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
218 46 0.21
219 32 0.15
220 2 0.01
221 1 0.00
223 2 0.01
224 132 0.61
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (218 bp):
TCAAGTCTTATCCTCCTGAAGTTGCAGTGGGCAGACTCAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGACTAAAGAAAAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
CCACAAATCTGATCTCTCTGAAGTTGGAGGAGAGCAGATCACATCGAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAGACTCAAGAAA
Found at i:29849122 original size:180 final size:171
Alignment explanation
Indices: 29848661--29849131 Score: 535
Period size: 173 Copynumber: 2.7 Consensus size: 171
29848651 ACTAAGCAAG
*
29848661 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAG
* * * * *
29848726 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCTTGATGTT-CAAGTGGAGTGGATTAAA
65 TTGCAGTGGAGCAGCTCAAAGCCGA-AATCCTATCTCCCTGAAGTTGC-AGTGGAGTGGATTAAA
* * * * *
29848790 ACCTTGGATCTTATCTCTCTGAAGTTGCAGATAGCAGATTGCCT
128 ACCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
29848834 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGAT-GCAAATCTTATCTCCCTGAAG
* * *
29848899 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
65 TTGCAGTGGAGCAGCTCAAAGCCGA-AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
29848964 CCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGAGAGCAGATCGCAT
129 CCTTAGATCTGATCTCTCTGAAGTT-------GCAGAGAGCAGATCGCAT
* *
29849014 CTAGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGACT-AAGTAAT-CAAGTCTTATC-CTCCT
1 CAAGTCTTATCCTCCC-GAAGTTGCAGTGAG-GCAGACTGAAG--ATGCAAATCTTATCTC-CCT
* *
29849074 GAAGTTGCAGTGG-GCCAGACTCAAGATGGCG-AATCTTATCTCCCTGAAGTTGCAGTGG
61 GAAGTTGCAGTGGAG-CAG-CTCAA-A-GCCGAAATCCTATCTCCCTGAAGTTGCAGTGG
29849132 GGCATACTAA
Statistics
Matches: 266, Mismatches: 15, Indels: 27
0.86 0.05 0.09
Matches are distributed among these distances:
173 148 0.56
174 1 0.00
178 2 0.01
179 38 0.14
180 71 0.27
181 3 0.01
182 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (171 bp):
CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGCAAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGCTCAAAGCCGAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACC
TTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
Found at i:29849379 original size:397 final size:397
Alignment explanation
Indices: 29848444--29849357 Score: 974
Period size: 397 Copynumber: 2.3 Consensus size: 397
29848434 ACAAAGTAAG
* * * ** * * **
29848444 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTGAGG
1 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTCAAGAAAGCAAACCTTATCCCCCTGAAA
* ** * * **
29848509 TTGCAGTGGAGCAGA-TTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAATGGAGAAGATTAAA
66 TTGCAGTGGAGCA-ACTAAAAAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA
* * * * * * *
29848573 ATCACAAATCTTATCTCTCT-AAATT------TGCAGAGAGTAGATCACATCTAGTCTTATCTCC
130 ACCATAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGAGAGCAGATCACATCTAGTCTTATCTCC
*
29848631 TTAAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGA
195 CTAAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGA
* ** *** *
29848696 CTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATC
260 CTCAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAAAAATCCTATC
* * * * **** *
29848761 TTCTTGATGTTCAAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGATAGCA
325 TCCCTGAAGTTCAAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGAGAGCA
** *
29848826 GATTGCCT
390 GATCACAT
* ** * * *
29848834 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTCAAGAAAGCAAACCTTATCCCCCTGAAA
** * ** *
29848899 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAGCAACTAAAAAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
* *
29848964 CCTTAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGAGAGCAGATCGCATCTAGTCTTATCTCCC
131 CCATAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGAGAGCAGATCACATCTAGTCTTATCTCCC
* * * *
29849029 TGAAGTTGCAGTGGAGCAGACTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAGTG-GGCCAGA
196 TAAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGG-CAGA
* * * * * *
29849093 CTCAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCATACTAAATAAAAAAATTCTGTC
260 CTCAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAAAAATCCTATC
** * *
29849158 TCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGTAGTAGAGT
325 TCCCTGAAGTTCAAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAG-AGAGC
29849223 AGATCACAT
389 AGATCACAT
* * *
29849232 CGAGTCTTGT-CTCCCTGAAGTTGCAGTG-GTGCAGACTCAAGAAAGCAAGCCTTATCCCCCTGA
1 CAAGTCTTATCCTCCC-GAAGTTGCAGTGAG-GCAGACTCAAGAAAGCAAACCTTATCCCCCTGA
* * *
29849295 AATTGCAGTGGGGCATACTAAATAAAC-A-AATCCTGTCTCCCT-AAGTTGTAGTGGAGTGGATT
64 AATTGCAGTGGAGCA-ACTAAA-AAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATT
29849357 A
127 A
29849358 GAGTGATGGA
Statistics
Matches: 440, Mismatches: 70, Indels: 21
0.83 0.13 0.04
Matches are distributed among these distances:
390 134 0.30
391 4 0.01
396 2 0.00
397 213 0.48
398 81 0.18
399 4 0.01
400 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (397 bp):
CAAGTCTTATCCTCCCGAAGTTGCAGTGAGGCAGACTCAAGAAAGCAAACCTTATCCCCCTGAAA
TTGCAGTGGAGCAACTAAAAAACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAA
CCATAGATCTGATCTCTCTGAAGTTGCAGAGAGCAGAGAGCAGATCACATCTAGTCTTATCTCCC
TAAAGTTGCAATGGAGCAGACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGAC
TCAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAAAAATCCTATCT
CCCTGAAGTTCAAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTGCAGAGAGCAG
ATCACAT
Found at i:29849710 original size:19 final size:19
Alignment explanation
Indices: 29849667--29849738 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 19
29849657 GAGGATATGC
29849667 AATCTTAGATATGATATATT
1 AATCTTAGATATGATAT-TT
29849687 AAATCTTAGATATGATATTT
1 -AATCTTAGATATGATATTT
*
29849707 AATCTTAGAAGATATGATTTTGT
1 AATCTT---AGATATGATATT-T
29849730 AATCTTAGA
1 AATCTTAGA
29849739 GATTTAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 6 0.13
20 5 0.11
21 17 0.37
22 11 0.24
23 7 0.15
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (19 bp):
AATCTTAGATATGATATTT
Found at i:29849748 original size:22 final size:23
Alignment explanation
Indices: 29849706--29849748 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
29849696 ATATGATATT
*
29849706 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
29849729 TAATCTTAG-AGATTTAATTT
1 TAATCTTAGAAGATATAATTT
29849749 GTAGATACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:29849953 original size:21 final size:19
Alignment explanation
Indices: 29849916--29849954 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
29849906 GCTTACTGTT
*
29849916 TTTTTTCCTTTTTCGATTA
1 TTTTTTACTTTTTCGATTA
29849935 TTTTTTACTTATTTACGATT
1 TTTTTTACTT-TTT-CGATT
29849955 TTAGAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTACTTTTTCGATTA
Found at i:29850468 original size:19 final size:16
Alignment explanation
Indices: 29850432--29850473 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 16
29850422 ATATGTACGT
29850432 ATATTTAATTTTTTTA
1 ATATTTAATTTTTTTA
29850448 ATATTGTAATTATTATTTA
1 ATATT-TAATT-TT-TTTA
29850467 ATATTTA
1 ATATTTA
29850474 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 5 0.22
18 4 0.17
19 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATATTTAATTTTTTTA
Found at i:29853141 original size:42 final size:42
Alignment explanation
Indices: 29853061--29853142 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
29853051 CGTTTTCTCT
* **
29853061 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
29853103 ATGCCATAGCCCAACTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
29853143 CACACCGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:29855725 original size:23 final size:22
Alignment explanation
Indices: 29855682--29855725 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
29855672 TTCTAAGCCG
29855682 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
29855705 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
29855726 TTAGTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:29855837 original size:45 final size:45
Alignment explanation
Indices: 29855770--29855863 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
29855760 AACAGATACT
* * *
29855770 CGGTGGATTCAGCACATAGCAACCACTTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
29855815 CGGTGGAATCAGCACATGGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
29855860 CGGT
1 CGGT
29855864 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:29855928 original size:51 final size:51
Alignment explanation
Indices: 29855860--29856053 Score: 214
Period size: 51 Copynumber: 3.8 Consensus size: 51
29855850 CAATGATGTT
* * *
29855860 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGA-CTATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTA-TACCATC
* * * * * *
29855911 TGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTATACCATC
* * * * *
29855962 CGGTACGCATAGTAGCCTGCATATAGTACTACACATGCGACCTAT--CATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTATACCA-TC
*
29856012 CGGTACACGTAGTTGCCTGCACATAGTACTACACACGTGACC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
29856054 ATCAGTTTTA
Statistics
Matches: 116, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 38 0.33
51 75 0.65
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTATACCATC
Found at i:29856044 original size:101 final size:101
Alignment explanation
Indices: 29855867--29856051 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
29855857 GTTCGGTTCA
* *
29855867 CATAGTAGCCTGCACATAGTACTACACATGTGACTATTACCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACTATTA-CATCCGATACACGTAGTAGCCTGCA
29855932 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
29855969 CATAGTAGCCTGCATATAGTACTACACATGCGACCTA-T-CATTCCGGTACACGTAGTTGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGA-CTATTACA-TCCGATACACGTAGTAGCCTGC
29856032 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
29856052 CCATCAGTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 39 0.51
102 32 0.42
103 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACTATTACATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:29858501 original size:8 final size:8
Alignment explanation
Indices: 29858480--29858509 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
29858470 GCAAGCCCTA
29858480 TATTTCATT
1 TATTTCA-T
29858489 TATTTCAT
1 TATTTCAT
29858497 TATTTCAT
1 TATTTCAT
29858505 TATTT
1 TATTT
29858510 AAAATTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (8 bp):
TATTTCAT
Found at i:29872204 original size:11 final size:11
Alignment explanation
Indices: 29872188--29872216 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
29872178 GTAAGATGAG
29872188 AAGAGAAATAC
1 AAGAGAAATAC
29872199 AAGAGAAATAC
1 AAGAGAAATAC
29872210 AAGAGAA
1 AAGAGAA
29872217 TAGTAGCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (11 bp):
AAGAGAAATAC
Found at i:29877521 original size:25 final size:25
Alignment explanation
Indices: 29877464--29877527 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
29877454 CTCCAAAACT
* *
29877464 CGTGAGAGCATACCGATTTATAGCT
1 CGTGACAGCATACCGATTTATAGCC
* * *
29877489 CATAACAGCATACTGATTTATAGCC
1 CGTGACAGCATACCGATTTATAGCC
*
29877514 CGTGACAGTATACC
1 CGTGACAGCATACC
29877528 AATCTACAGC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
CGTGACAGCATACCGATTTATAGCC
Found at i:29892148 original size:490 final size:490
Alignment explanation
Indices: 29891228--29892213 Score: 1427
Period size: 490 Copynumber: 2.0 Consensus size: 490
29891218 AGAAAAGAGC
* * * *
29891228 TAAATTATTCAACAAATGTAAAAATTATTGCAATAAGACAATTAAAGCCGATGAATATTGTTCTT
1 TAAATTATTCAACAAATCTAAAAATTATTGCAATAAGACAATTAAAACCAATGAACATTGTTCTT
* *
29891293 GTACCTCCAACCAATCAACACCATGAAAAATGGGAAATAAATTGATTATGAGAACAAATCGACAC
66 GTACCTCCAACCAATCAACACCAAGAAAAATGGGAAATAAATTGATTATAAGAACAAATCGACAC
* * * * *
29891358 ACTTTATCTATCCTCGTGGATTAAGATTTTTGCGCACAGAAAATCTTAAATTAGGTAACCCTATT
131 ACTTTATCTATCCTCGTGGATTAAGATTCTAGCGCACAGAAAACCCTAAACTAGGTAACCCTATT
* * *
29891423 CAGAGTGAAATTATTTAATTTTAGGTGCTCAACGTTTATTCAACAACTTGCTCTTACTACAATGC
196 CAGAGTGAAATTATTTAATTTTAGGTGCTCAACATTCATTCAACAACTTGCTATTACTACAATGC
* * *
29891488 ACAGAAATAGTAGTAATTGAATTCTTGAAGCCCAGAACAATTGTATTTTCTTAATTTATCCTTCT
261 ACAGAAACAGTAGGAATTGAATTCTTAAAGCCCAGAACAATTGTATTTTCTTAATTTATCCTTCT
* * * * * *
29891553 CTATACAACTCTGATGTAGACATTGCTATATTTCATTTCTCCTAAAATAAAGCCAAGTAAAGACG
326 CTATACAACTCTGATGTAGACATCGCGATAATTAATTTATCATAAAATAAAGCCAAGTAAAGACG
* ** * *
29891618 CAAATTTTGGGTCATTTCAGATGCTATTGGCAACATCATCATACTTTCAATGGTAGTACTACCTA
391 CAAAATCAGGGTCATTTCAGATGCTATTGGCAACATCATCATACTTTCAATGGTAGTACAAACTA
* * * *
29891683 ACTTATTCTAGAATTTACCCAATTTTGCAAAGAAA
456 ACCTATTCTAGAATATACCAAAATTTGCAAAGAAA
* *
29891718 TAAATTATTCAACAATTCTAAAAATTATTGCAATAAGACAATTAAAACCAATTAACATCT-TTCT
1 TAAATTATTCAACAAATCTAAAAATTATTGCAATAAGACAATTAAAACCAATGAACAT-TGTTCT
* *
29891782 TGTACCTCCAACCAATGAACACCAAGAAAAATGGGCAATAAATTGATTATAAGAACAAATCGACA
65 TGTACCTCCAACCAATCAACACCAAGAAAAATGGGAAATAAATTGATTATAAGAACAAATCGACA
* * **
29891847 CACTTTATCTTTCCTCGTGGATTAAGATTCTAGTGCATGGAAAACCCTAAACTAGGTAACCCTAT
130 CACTTTATCTATCCTCGTGGATTAAGATTCTAGCGCACAGAAAACCCTAAACTAGGTAACCCTAT
* * * *
29891912 TCAGAGTGAAATTGTTTAATTTTAGGTGCTCAACATTCATTCAACAACTTGTTATTACTGCAATT
195 TCAGAGTGAAATTATTTAATTTTAGGTGCTCAACATTCATTCAACAACTTGCTATTACTACAATG
* * * * *
29891977 CGCA-ATAACAGTAGGAGTTGAATTCTTAAAGCCCAGAACAATTTTATTTTCTTAGTTTATTCTT
260 CACAGA-AACAGTAGGAATTGAATTCTTAAAGCCCAGAACAATTGTATTTTCTTAATTTATCCTT
* * * * * *
29892041 CTTTATATAACTTTGATGTAGACATCGCGATAATTAATTTATCATAAAATAAATCCGAGTAAATA
324 CTCTATACAACTCTGATGTAGACATCGCGATAATTAATTTATCATAAAATAAAGCCAAGTAAAGA
29892106 CGCAAAATCAGGGTCATTTCAGATGCTATTGGCAACATCATCATACTTTCAATGGTAGTACAAAC
389 CGCAAAATCAGGGTCATTTCAGATGCTATTGGCAACATCATCATACTTTCAATGGTAGTACAAAC
* *
29892171 TAACCTATTCTAGAATATACCAAAATTTGGAATGAAA
454 TAACCTATTCTAGAATATACCAAAATTTGCAAAGAAA
29892208 TAAATT
1 TAAATT
29892214 TGATATCCCT
Statistics
Matches: 437, Mismatches: 57, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
489 1 0.00
490 435 1.00
491 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (490 bp):
TAAATTATTCAACAAATCTAAAAATTATTGCAATAAGACAATTAAAACCAATGAACATTGTTCTT
GTACCTCCAACCAATCAACACCAAGAAAAATGGGAAATAAATTGATTATAAGAACAAATCGACAC
ACTTTATCTATCCTCGTGGATTAAGATTCTAGCGCACAGAAAACCCTAAACTAGGTAACCCTATT
CAGAGTGAAATTATTTAATTTTAGGTGCTCAACATTCATTCAACAACTTGCTATTACTACAATGC
ACAGAAACAGTAGGAATTGAATTCTTAAAGCCCAGAACAATTGTATTTTCTTAATTTATCCTTCT
CTATACAACTCTGATGTAGACATCGCGATAATTAATTTATCATAAAATAAAGCCAAGTAAAGACG
CAAAATCAGGGTCATTTCAGATGCTATTGGCAACATCATCATACTTTCAATGGTAGTACAAACTA
ACCTATTCTAGAATATACCAAAATTTGCAAAGAAA
Found at i:29902946 original size:85 final size:85
Alignment explanation
Indices: 29902803--29902973 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
29902793 AAGAAAAAAT
**
29902803 TGAGATTAAGATCATTGAAAATACAGATGACAGGCTCATCCCATTTCCAAAACGATGCACAGGAA
1 TGAGATTAAGATCATTGAAAATACAGATGACAGGCTCATCCCATTTCCAAAACGATGCACAACAA
29902868 TTTATAAGAAAATCTCTATG
66 TTTATAAGAAAATCTCTATG
*
29902888 TGAGATTAAGATCATTGAAAATACAGATGACAGGCTCATCCCATTTTCAAAACGATGCACAACAA
1 TGAGATTAAGATCATTGAAAATACAGATGACAGGCTCATCCCATTTCCAAAACGATGCACAACAA
29902953 TTTATAAGAAAATCTCTATG
66 TTTATAAGAAAATCTCTATG
29902973 T
1 T
29902974 TCTCCACTCT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (85 bp):
TGAGATTAAGATCATTGAAAATACAGATGACAGGCTCATCCCATTTCCAAAACGATGCACAACAA
TTTATAAGAAAATCTCTATG
Found at i:29952422 original size:27 final size:27
Alignment explanation
Indices: 29951851--29952410 Score: 564
Period size: 27 Copynumber: 20.8 Consensus size: 27
29951841 ATTCGTGGGC
29951851 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29951878 AAATGACCAAAATACCC-CAGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
**
29951905 AAATGATTGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29951932 AAATG-CGCGAAATATCCTCGAAAGGTA
1 AAATGAC-CGAAATACCCTCGAAGGGTA
* * *
29951959 AAATGACCAAAATACCCCCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* ** *
29951986 AAATAATTGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29952013 AAATGACCAAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
29952040 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29952067 AAATGATCGAAATATCCC-CGAAGGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
* * *
29952094 AAATGACTGCAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29952121 AAATGACCGAAATA-CCTCTAAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * *
29952148 AAATGACCAAAATACCTTCAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29952175 AAATGACTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* ** *
29952202 AATTGACTAAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
29952229 AAATGACCAAAATACCCTCGAAGGAT-
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29952255 AAATGACCAAAATACCCTC-AACAGGTA
1 AAATGACCGAAATACCCTCGAA-GGGTA
* **
29952282 AAATGACTGAAATACCCTCGAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29952309 AAATGACTGAAATA-CCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29952335 AAATGATCGAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29952362 AATTGACCGAAATA-CCTCTGATGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
29952389 AATTGACCAAAATACCCCCGAA
1 AAATGACCGAAATACCCTCGAA
29952411 AGTTGAAATG
Statistics
Matches: 447, Mismatches: 68, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.00
26 54 0.12
27 376 0.84
28 15 0.03
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:29959900 original size:26 final size:27
Alignment explanation
Indices: 29959776--29959988 Score: 279
Period size: 27 Copynumber: 8.0 Consensus size: 27
29959766 GCAAATGATA
*
29959776 GAAATACCCTCGTAGGGTAAAATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
29959803 GAAATACCCTCGAAGGTTAAAATGAGC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
29959830 AAAATACCC-CTGAAGGGTAAAATGACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
* *
29959857 GAAGTACCCTCGAAGGGTAAAATAACC
1 GAAATACCCTCGAAGGGTAAAATGACC
**
29959884 GAAATA-CCTCGAAGGGTAAAATGATT
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
29959910 GAAATACCCTCAAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACC
* **
29959937 AAAATA-CCTCGAAGGGTAAAATGATA
1 GAAATACCCTCGAAGGGTAAAATGACC
29959963 GAAATACCCTCGAAGGGTAAAATGAC
1 GAAATACCCTCGAAGGGTAAAATGAC
29959989 TAAATGGTGA
Statistics
Matches: 161, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 46 0.29
27 114 0.71
28 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:29959931 original size:80 final size:81
Alignment explanation
Indices: 29959777--29959987 Score: 284
Period size: 80 Copynumber: 2.6 Consensus size: 81
29959767 CAAATGATAG
* * *
29959777 AAATACCCTCGTAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGAGCAAAATACCCCTG
1 AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAGCAAAATACCCCTA
*
29959842 AAGGGTAAAATGACCG
66 AAGGGTAAAATGACCA
* * ***
29959858 AAGTACCCTCGAAGGGTAAAATAACCGAAATA-CCTCGAAGGGTAAAATGATTGAAATA-CCCTC
1 AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAGCAAAATACCCCT-
*
29959921 AAAGGGTAAAATGACTA
65 AAAGGGTAAAATGACCA
**
29959938 AAATA-CCTCGAAGGGTAAAATGATAGAAATACCCTCGAAGGGTAAAATGA
1 AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGA
29959988 CTAAATGGTG
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
79 27 0.24
80 58 0.51
81 29 0.25
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (81 bp):
AAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAGCAAAATACCCCTA
AAGGGTAAAATGACCA
Found at i:29959989 original size:53 final size:53
Alignment explanation
Indices: 29959768--29959992 Score: 292
Period size: 53 Copynumber: 4.2 Consensus size: 53
29959758 ATTCATGGGC
* *
29959768 AAATGA-TAGAAATACCCTCGTAGGGTAAAATGACCGAAATACCCTCGAAGGTTA
1 AAATGACTA-AAATA-CCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* *
29959822 AAATGAGC-AAAATACCCCTGAAGGGTAAAATGACCGAAGTACCCTCGAAGGGTA
1 AAATGA-CTAAAATACCTC-GAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
* ** ** *
29959876 AAATAACCGAAATACCTCGAAGGGTAAAATGATTGAAATACCCTCAAAGGGTA
1 AAATGACTAAAATACCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
**
29959929 AAATGACTAAAATACCTCGAAGGGTAAAATGATAGAAATACCCTCGAAGGGTA
1 AAATGACTAAAATACCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
29959982 AAATGACTAAA
1 AAATGACTAAA
29959993 TGGTGATATG
Statistics
Matches: 151, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
53 94 0.62
54 56 0.37
55 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.18
Consensus pattern (53 bp):
AAATGACTAAAATACCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGGTA
Found at i:29972089 original size:88 final size:88
Alignment explanation
Indices: 29971960--29972127 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 88
29971950 TTGATGTTTT
* * * * * * *
29971960 GATCTGCTTCACTGCTAGTACAGGAAGGGAACATCTGCTATTTTCAACCTACTCCACTACTGCTT
1 GATCTACTTCACTGCCAATACAGGAAGAGAACATCTACTATTTGCAACCTACTCCACTACTGCTC
29972025 AGGGAGACAAGGCTGGTATCTTC
66 AGGGAGACAAGGCTGGTATCTTC
* * *
29972048 GATCTACTTCACTGCCAATACAGGAAGATAAGATCTACTATTTGCAACCTACTCCACTGCTGCTC
1 GATCTACTTCACTGCCAATACAGGAAGAGAACATCTACTATTTGCAACCTACTCCACTACTGCTC
*
29972113 AGGGAGATAAGGCTG
66 AGGGAGACAAGGCTG
29972128 AAGTTCTACC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 69 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (88 bp):
GATCTACTTCACTGCCAATACAGGAAGAGAACATCTACTATTTGCAACCTACTCCACTACTGCTC
AGGGAGACAAGGCTGGTATCTTC
Found at i:29984470 original size:39 final size:36
Alignment explanation
Indices: 29984399--29984483 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 36
29984389 GAATATTCAT
29984399 TTAAAAAAATAAATATATATGTACACATAAAA-TATA
1 TTAAAAAAATAAATATATATGTACACATAAAATTA-A
*
29984435 TTAAAAATAATTAAATA-ATATGTACATTATCAAAATTAA
1 TTAAAAA-AA-TAAATATATATGTACA-CAT-AAAATTAA
29984474 TTAAATAAAA
1 TTAAA-AAAA
29984484 AAAACATGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 7 0.17
37 11 0.26
38 8 0.19
39 12 0.29
40 4 0.10
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (36 bp):
TTAAAAAAATAAATATATATGTACACATAAAATTAA
Found at i:29993766 original size:12 final size:11
Alignment explanation
Indices: 29993737--29993780 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
29993727 AATCATTTAA
*
29993737 TAATAAAATAA
1 TAATAAAATAT
*
29993748 TACTAAAAATAT
1 TAAT-AAAATAT
29993760 TAATAAAATAT
1 TAATAAAATAT
*
29993771 TAATTAAATA
1 TAATAAAATA
29993781 ACATTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:29995833 original size:50 final size:50
Alignment explanation
Indices: 29995706--29996242 Score: 691
Period size: 50 Copynumber: 10.6 Consensus size: 50
29995696 GATAGTAACA
* * * * * *
29995706 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGG-CTATTTCCTGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC-CTCTCATCTCAG
* * ** * **
29995755 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * ** *
29995805 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* **
29995855 TGCCAATGCCATGTTCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
29995905 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
29995955 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
29996005 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
29996055 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
29996105 TGCCAATGCCATGTACCAGACATGGTCTTACATGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
29996155 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---AG
*
29996211 TGCCAATGCCATGTCTCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
29996243 CTGGCTCACA
Statistics
Matches: 435, Mismatches: 45, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
49 38 0.09
50 362 0.83
53 4 0.01
56 31 0.07
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:29998978 original size:28 final size:27
Alignment explanation
Indices: 29998901--29998978 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
29998891 TATAATATGT
* *
29998901 ATAAATTAAAAGGTTAAAATAAATTTGA
1 ATAAATTAAAATGTTAAAAT-AAGTTGA
**
29998929 ATAAATTAACAATGTTGGAATAAGTTGA
1 ATAAATTAA-AATGTTAAAATAAGTTGA
29998957 GATAAATTAAAATGTTAAAATA
1 -ATAAATTAAAATGTTAAAATA
29998979 TTGGAAAGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
28 25 0.60
29 17 0.40
ACGTcount: A:0.54, C:0.01, G:0.13, T:0.32
Consensus pattern (27 bp):
ATAAATTAAAATGTTAAAATAAGTTGA
Found at i:29999275 original size:24 final size:24
Alignment explanation
Indices: 29999239--29999284 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
29999229 TGGAAATTTA
* *
29999239 AATAATGATACATAATAAATTTTG
1 AATAATAAAACATAATAAATTTTG
**
29999263 AATAATAAAACATTGTAAATTT
1 AATAATAAAACATAATAAATTT
29999285 ATATAATACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
AATAATAAAACATAATAAATTTTG
Found at i:30000003 original size:20 final size:19
Alignment explanation
Indices: 29999969--30000036 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
29999959 TTTTTCGTAT
*
29999969 AGAAAATAGAAAGAAACAA
1 AGAAAACAGAAAGAAACAA
*
29999988 AGAAAACAGTAAAGAAACAC
1 AGAAAACAG-AAAGAAACAA
*
30000008 AGAGAAAGAGAAAG-AA-AA
1 AGA-AAACAGAAAGAAACAA
*
30000026 AGAAAAGAGAA
1 AGAAAACAGAA
30000037 CCACCTTCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
17 8 0.19
18 4 0.09
19 10 0.23
20 16 0.37
21 5 0.12
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.03
Consensus pattern (19 bp):
AGAAAACAGAAAGAAACAA
Found at i:30000452 original size:26 final size:27
Alignment explanation
Indices: 30000423--30000473 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
30000413 CCACATTAGC
*
30000423 TGGGCTAGGTTAATTGGGT-TTTGGTT
1 TGGGCTAGGTTAAGTGGGTATTTGGTT
30000449 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAGGTTAAGTGGGTATTTGG
30000474 GATCTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.14, C:0.04, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGCTAGGTTAAGTGGGTATTTGGTT
Found at i:30000593 original size:16 final size:15
Alignment explanation
Indices: 30000554--30000600 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
30000544 CTTTTAATAA
30000554 TTTTGTTT-TTATTT
1 TTTTGTTTATTATTT
*
30000568 TTATTTTTTATATATTT
1 TT-TTGTTTAT-TATTT
30000585 TTTTGTTTATTTATTT
1 TTTTGTTTA-TTATTT
30000601 GATTTGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.07
15 5 0.19
16 12 0.44
17 8 0.30
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (15 bp):
TTTTGTTTATTATTT
Found at i:30001067 original size:46 final size:46
Alignment explanation
Indices: 30001014--30001256 Score: 150
Period size: 46 Copynumber: 5.5 Consensus size: 46
30001004 ATCTGCTCCG
*
30001014 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCCATTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
* * * * * **
30001060 CTGTAATCTCAAGGAGATAAGACCTG--A---TGCGATCTACTCTG
1 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
* * ** **
30001101 CTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TCTT-AATCCGTTCCA
1 CTGTAATC-TCAGGGAGATAAGAT-CTGTAATTCTTCGGTCTATTCCA
* * * * * * * ** *
30001145 CTGTAATATCAGGGAAATAGGA--T-TACTGGCGTCAGTCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTGTAAT-TCTTCGGTCTATTCCA
*
30001189 CTGTAATTTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
30001235 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
30001257 CCTGATGTGA
Statistics
Matches: 143, Mismatches: 41, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
40 1 0.01
41 28 0.20
42 2 0.01
43 3 0.02
44 49 0.34
45 1 0.01
46 56 0.39
47 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (46 bp):
CTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
Found at i:30001120 original size:87 final size:87
Alignment explanation
Indices: 30001004--30001299 Score: 325
Period size: 87 Copynumber: 3.4 Consensus size: 87
30000994 ACTTGCTTCA
* *
30001004 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTGTAATTCTTCGGTCCATTCCACTGTAATC
1 ATCTACTCCGCTGTAACT-TCAGAGAGATAAGATCTGTAATTCTTCGGTCCATTCCACTGTAATC
*
30001068 TCAAGGAGATAAGACCTGATGCG
65 TCAGGGAGATAAGACCTGATGCG
* * ** * *
30001091 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCT-TTA-TCTT-AATCCGTTCCACTGTAATA
1 ATCTACTCCGCTGTAACTTCAGAGAGATAAGAT-CTGTAATTCTTCGGTCCATTCCACTGTAATC
* * *
30001153 TCAGGGAAATAGGA--TTACTGGCG
65 TCAGGGAGATAAGACCTGA-T-GCG
* * * *
30001176 TCAGTCTGCTCCGCTGTAATTTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAA
1 --A-TCTACTCCGCTGTAACTTCAGAGAGATAAGATCTGTAATTCTTCGGTCCATTCCACTGTAA
*
30001241 TCTCAGGGAGATAAGACCTGATGTG
63 TCTCAGGGAGATAAGACCTGATGCG
*
30001266 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 ATCTACTCCGCTGTAACTTCAGAGAGATAAGATC
30001300 CTTTATTTTA
Statistics
Matches: 167, Mismatches: 30, Indels: 24
0.76 0.14 0.11
Matches are distributed among these distances:
83 2 0.01
84 1 0.01
85 29 0.17
86 4 0.02
87 62 0.37
88 34 0.20
89 4 0.02
90 28 0.17
91 1 0.01
92 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
ATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTGTAATTCTTCGGTCCATTCCACTGTAATCT
CAGGGAGATAAGACCTGATGCG
Found at i:30001218 original size:175 final size:175
Alignment explanation
Indices: 30000927--30001386 Score: 794
Period size: 175 Copynumber: 2.6 Consensus size: 175
30000917 TCTATTCCAT
*
30000927 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTTAGGGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
*
30000992 TTACTTGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCCATT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCCATT
30001057 CCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGC
131 CCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGC
* *
30001102 TGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCGTTCCACTGTAATATCAGGGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
* * * *
30001167 TTACTGGCGTCAGTCTGCTCCGCTGTAATTTCAGGGAGATAAGATCTGTAATTCTTCGGTCTATT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCCATT
* *
30001232 CCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTACTCTGC
131 CCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGC
* *
30001277 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTGTAATCTCAAGGAAATAGGA
1 TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
* *
30001342 TTACTGGCTTCAATCCGCTCCGCTGCAATCTCAGGGAGATAAGAT
66 TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
30001387 TCACCATTTT
Statistics
Matches: 266, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
175 266 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (175 bp):
TGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAAATAGGA
TTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGTAATTCTTCGGTCCATT
CCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTGC
Found at i:30013820 original size:28 final size:27
Alignment explanation
Indices: 30013789--30013877 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 27
30013779 ATTTAGGAAA
*
30013789 TAAATATAATATGTATAAATTAAAATGT
1 TAAATATAAT-TGAATAAATTAAAATGT
30013817 TAAA-ATAAATTTGAATAAATTAACAATGT
1 TAAATAT-AA-TTGAATAAATTAA-AATGT
* *
30013846 TGAAATA-AGTTGGGATAAATTAAAATGT
1 T-AAATATAATT-GAATAAATTAAAATGT
30013874 TAAA
1 TAAA
30013878 ATATTGGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
27 5 0.10
28 25 0.48
29 18 0.35
30 3 0.06
31 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35
Consensus pattern (27 bp):
TAAATATAATTGAATAAATTAAAATGT
Found at i:30013844 original size:29 final size:28
Alignment explanation
Indices: 30013803--30013880 Score: 111
Period size: 29 Copynumber: 2.8 Consensus size: 28
30013793 TATAATATGT
*
30013803 ATAAATTAAAATGTTAAAATAAATTTGA
1 ATAAATTAAAATGTTAAAATAAATTGGA
* * *
30013831 ATAAATTAACAATGTTGAAATAAGTTGGG
1 ATAAATTAA-AATGTTAAAATAAATTGGA
30013860 ATAAATTAAAATGTTAAAATA
1 ATAAATTAAAATGTTAAAATA
30013881 TTGGAAAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 20 0.45
29 24 0.55
ACGTcount: A:0.54, C:0.01, G:0.12, T:0.33
Consensus pattern (28 bp):
ATAAATTAAAATGTTAAAATAAATTGGA
Found at i:30014177 original size:23 final size:24
Alignment explanation
Indices: 30014142--30014186 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
30014132 TGGAAATTTA
*
30014142 AATAATGATACATAATAAATTTTG
1 AATAATGAAACATAATAAATTTTG
**
30014166 AATAAT-AAACATGGTAAATTT
1 AATAATGAAACATAATAAATTT
30014187 ATATAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (24 bp):
AATAATGAAACATAATAAATTTTG
Found at i:30015337 original size:26 final size:27
Alignment explanation
Indices: 30015308--30015358 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
30015298 CCACATTAGC
*
30015308 TGGGATAGGTTAATTGGGT-TTTGGTT
1 TGGGATAGGTTAAGTGGGTATTTGGTT
*
30015334 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGATAGGTTAAGTGGGTATTTGG
30015359 GATCTGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGATAGGTTAAGTGGGTATTTGGTT
Found at i:30015478 original size:16 final size:16
Alignment explanation
Indices: 30015439--30015485 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
30015429 CTTTTAATAA
*
30015439 TTTTGTTTTTGT-TTT
1 TTTTGTTTATGTATTT
30015454 TATTT-TTTATGTATTT
1 T-TTTGTTTATGTATTT
*
30015470 TTTTGTTTATTTATTT
1 TTTTGTTTATGTATTT
30015486 GATTTGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTTGTTTATGTATTT
Found at i:30017949 original size:27 final size:27
Alignment explanation
Indices: 30017909--30018265 Score: 497
Period size: 27 Copynumber: 13.3 Consensus size: 27
30017899 GATTCGTGGG
* *
30017909 AAAATGATCGAAATACCCTCGAACGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
30017936 AAAATGACCAAAATACTCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
30017963 AAAATGA-TGTAAATACCCTCGAAGGGT
1 AAAATGACCG-AAATACCCTCGAAGGGT
* *
30017990 AAAATGAACGAAATACCCTCGAAGCGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
30018017 AAAATGACCAAAATA-CCTCCCAAAGGT
1 AAAATGACCGAAATACCCT-CGAAGGGT
* *
30018044 AAAATAACTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
30018071 AAAATGACCAAAATACCCTCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
30018098 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
30018125 AAAATGACCGAAGTACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
30018152 AAAATGATCGAAATA-CCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
30018178 AAAATGACCGAAATACACTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
30018205 AAAATGACCGAAATA-CCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
30018231 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
30018258 AAAATGAC
1 AAAATGAC
30018266 TAAATGGTGA
Statistics
Matches: 291, Mismatches: 33, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
26 52 0.18
27 235 0.81
28 4 0.01
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:30034444 original size:14 final size:14
Alignment explanation
Indices: 30034398--30034445 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
30034388 TTCACTTTAG
30034398 TATCGAAAATGATT
1 TATCGAAAATGATT
* *
30034412 TATTGTATTAATAGATT
1 TATCG-A-AAAT-GATT
30034429 TATCGAAAATGATT
1 TATCGAAAATGATT
30034443 TAT
1 TAT
30034446 TGTATCGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.41
15 4 0.15
16 4 0.15
17 8 0.30
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (14 bp):
TATCGAAAATGATT
Found at i:30048731 original size:51 final size:50
Alignment explanation
Indices: 30048668--30048840 Score: 163
Period size: 51 Copynumber: 3.4 Consensus size: 50
30048658 GCATGGACTG
* *
30048668 TGTGTAGGCTACTATGTGAAAGTGAAAGTGATGGTCACGTGTGTAGTACTA
1 TGTGCAGGCTACTATGTGAACG-GAAAGTGATGGTCACGTGTGTAGTACTA
* * * * *
30048719 TGTGCAGGCTACTACGTGTAC-CAGAA-TGATAGGTCGCATGTGTAGTACTA
1 TGTGCAGGCTACTATGTGAACGGA-AAGTGAT-GGTCACGTGTGTAGTACTA
* * * * *
30048769 TGTGCAGGCTACTATGCGTACCGGATAGCT-TTGATCACGTGTGTAGTACTA
1 TGTGCAGGCTACTATGTG-AACGGAAAG-TGATGGTCACGTGTGTAGTACTA
*
30048820 TGTGCAGGGTACTATGTGAAC
1 TGTGCAGGCTACTATGTGAAC
30048841 CGGTATCATT
Statistics
Matches: 96, Mismatches: 20, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
49 5 0.05
50 37 0.39
51 51 0.53
52 2 0.02
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (50 bp):
TGTGCAGGCTACTATGTGAACGGAAAGTGATGGTCACGTGTGTAGTACTA
Found at i:30048790 original size:50 final size:51
Alignment explanation
Indices: 30048702--30048835 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 51
30048692 AAAGTGATGG
* * * *
30048702 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-G-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCATAGA
* * * *
30048752 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTTGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCATAGA
* *
30048803 TCACGTGTGTAGTACTATGTGCAGGGTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
30048836 TGAACCGGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
49 3 0.04
50 36 0.51
51 32 0.45
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCATAGA
Found at i:30048843 original size:51 final size:50
Alignment explanation
Indices: 30048702--30048843 Score: 169
Period size: 51 Copynumber: 2.8 Consensus size: 50
30048692 AAAGTGATGG
* * *
30048702 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGA
* * * * *
30048752 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGCTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATAGA
* *
30048803 TCACGTGTGTAGTACTATGTGCAGGGTACTATGTGAACCGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
30048844 TATCATTAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.03
50 37 0.48
51 38 0.49
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGA
Found at i:30054361 original size:27 final size:27
Alignment explanation
Indices: 30054323--30054852 Score: 542
Period size: 27 Copynumber: 19.6 Consensus size: 27
30054313 ATTCATGGGC
*
30054323 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
30054350 AAATGACCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
30054377 AAATGATCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
30054404 AAATGACCAAAATACCCCCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
30054431 AAATAACCGAAATACCCTCGTACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
30054458 AAATGACCAAAATACCCCCGATTGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
30054485 AAATAATCGAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * *
30054512 AAATAATCTAAACACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
30054539 AAATGACCGAAATACCC-CTGAAGGGTT
1 AAATGACCGAAATACCCTC-GAAGGGTA
** * *
30054566 AAATGACAAAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
30054593 AAATGATCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * ** *
30054620 AAATGACCAAAATATCCTTAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
30054647 AAATGATCGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * **
30054674 AAATGAACGATATACTCTTAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
30054701 AAATGACCAAAATACCCTCGCAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
30054728 AAAGGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* **
30054755 AAATGACCGAAATACCCTCAAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
30054782 AAATGATCGAAATACCCTCGATGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
30054809 AAATGATCGAAATACCCTCTATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
30054836 AATTGACCGAAATACCC
1 AAATGACCGAAATACCC
30054853 CCTAAAGGTG
Statistics
Matches: 414, Mismatches: 85, Indels: 8
0.82 0.17 0.02
Matches are distributed among these distances:
26 2 0.00
27 410 0.99
28 2 0.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:30055257 original size:28 final size:28
Alignment explanation
Indices: 30055217--30055287 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
30055207 TTTACTATAT
* *** *
30055217 TGGGCAAAGGCCCACATTGTCACTGTAC
1 TGGGCTAAGGCCCACACCCTCACTGTAA
*
30055245 TGGGCTAAGGCCCACACCCTTACTGTAA
1 TGGGCTAAGGCCCACACCCTCACTGTAA
*
30055273 TGGGCTTAGGCCCAC
1 TGGGCTAAGGCCCAC
30055288 GCTGTACCGA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (28 bp):
TGGGCTAAGGCCCACACCCTCACTGTAA
Found at i:30062493 original size:53 final size:53
Alignment explanation
Indices: 30062260--30062776 Score: 601
Period size: 53 Copynumber: 9.7 Consensus size: 53
30062250 GATTCGTGGG
* ** * *
30062260 AAAATGA-TCGAAATACCCTCGAAGGGTAGAATGACCAAAATACCCCCGATGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGTAAAATGACTGAAATA-CCTCGAAGGGT
* * * * *
30062314 AAAATTACTGAAATACCCCCGAAGGGTAAAATAACCGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATA-CCTCGAAGGGT
** * **
30062368 AAAATGACCAAAATACCC-CTGAAGGGTAAAATGA-TCAAAATACCCTTAAAGGGT
1 AAAATGACTGAAATACCCTC-GAAGGGTAAAATGACT-GAAATA-CCTCGAAGGGT
** *
30062422 AAAATGACCAAAATACCCTCGAAGGGTAAAATGACAGAAATACCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCGAAGGGT
* * *
30062475 AAAATGACTGAAATACCCTTGAAGGGTAAAATGAGTGAAATACCTCGAAAGGT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCGAAGGGT
* * * *
30062528 AGAATGGCTGAAATACCCTTGAAGGGTAAAATGAGTGAAATACCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCGAAGGGT
* * * *
30062581 AAAATGACCGAAATACCCTTGAAGGGTAAAATGAGTGAAATACCTCGAAAGGT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCGAAGGGT
* * * *
30062634 AGAATGGCTGAAATACCCTTGAAGGGTAAAATGAGTGAAATACCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCGAAGGGT
*
30062687 AAAATGA-TCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCGATGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGTAAAATGACTGAAATA-CCTCGAAGGGT
* * *
30062741 AAATTGACCGAAATACCCTCGAAGGGTGAAATGACT
1 AAAATGACTGAAATACCCTCGAAGGGTAAAATGACT
30062777 ATTATACCCC
Statistics
Matches: 411, Mismatches: 44, Indels: 16
0.87 0.09 0.03
Matches are distributed among these distances:
52 1 0.00
53 241 0.59
54 167 0.41
55 2 0.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (53 bp):
AAAATGACTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCTCGAAGGGT
Found at i:30062785 original size:27 final size:27
Alignment explanation
Indices: 30062260--30062776 Score: 602
Period size: 27 Copynumber: 19.3 Consensus size: 27
30062250 GATTCGTGGG
30062260 AAAATGA-TCGAAATACCCTCGAAGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
* ** * *
30062287 AGAATGACCAAAATACCCCCGATGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
30062314 AAAATTACTGAAATACCCCCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* * *
30062341 AAAATAACCGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
**
30062368 AAAATGACCAAAATACCC-CTGAAGGGT
1 AAAATGACTGAAATACCCTC-GAAGGGT
* **
30062395 AAAATGA-TCAAAATACCCTTAAAGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
**
30062422 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
30062449 AAAATGACAGAAATA-CCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
30062475 AAAATGACTGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
30062502 AAAATGAGTGAAATA-CCTCGAAAGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* * *
30062528 AGAATGGCTGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
30062555 AAAATGAGTGAAATA-CCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
30062581 AAAATGACCGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
30062608 AAAATGAGTGAAATA-CCTCGAAAGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* * *
30062634 AGAATGGCTGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
30062661 AAAATGAGTGAAATA-CCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
30062687 AAAATGA-TCGAAATACCCTCGAAGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
*
30062714 AAAATGACTGAAATACCCTCGATGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
30062741 AAATTGACCGAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
30062768 GAAATGACT
1 AAAATGACT
30062777 ATTATACCCC
Statistics
Matches: 416, Mismatches: 62, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 113 0.27
27 301 0.72
28 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCTCGAAGGGT
Found at i:30062973 original size:26 final size:25
Alignment explanation
Indices: 30062933--30063004 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 25
30062923 GCCACATATG
*
30062933 CTGTTGCTGGTAGCTTTGCTGCG-TT
1 CTGTT-CTGGCAGCTTTGCTGCGCTT
30062958 ACTGTTACTGGCAGCTTTGCTGCGCTT
1 -CTGTT-CTGGCAGCTTTGCTGCGCTT
* *
30062985 TTATTCTGGCAGCTTTGCTG
1 CTGTTCTGGCAGCTTTGCTG
30063005 TGATATTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 15 0.37
26 24 0.59
27 2 0.05
ACGTcount: A:0.08, C:0.22, G:0.28, T:0.42
Consensus pattern (25 bp):
CTGTTCTGGCAGCTTTGCTGCGCTT
Found at i:30063159 original size:28 final size:27
Alignment explanation
Indices: 30063118--30063205 Score: 131
Period size: 28 Copynumber: 3.2 Consensus size: 27
30063108 TTATTCTATT
30063118 TACTGTATTGGGCTAAGGCCCACATTG
1 TACTGTATTGGGCTAAGGCCCACATTG
*
30063145 TCACTGTATTGGGCTAAGGCCCACACTG
1 T-ACTGTATTGGGCTAAGGCCCACATTG
* *
30063173 TTACTGTAATGGGCTAAGGCCCACTTTG
1 -TACTGTATTGGGCTAAGGCCCACATTG
30063201 TACTG
1 TACTG
30063206 ATACTGTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 6 0.11
28 48 0.87
29 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (27 bp):
TACTGTATTGGGCTAAGGCCCACATTG
Found at i:30063220 original size:33 final size:31
Alignment explanation
Indices: 30063118--30063228 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 31
30063108 TTATTCTATT
*
30063118 TACTGTATTGGGCTAAGGCCCACATTGT-C--
1 TACTGTATAGGGCTAAGGCCCAC-TTGTACTG
*
30063147 -ACTGTATTGGGCTAAGGCCCAC----ACTG
1 TACTGTATAGGGCTAAGGCCCACTTGTACTG
30063173 TTACTGTA-ATGGGCTAAGGCCCACTTTGTACTG
1 -TACTGTATA-GGGCTAAGGCCCAC-TTGTACTG
*
30063206 ATACTGTATAGGGCTCAGGCCCA
1 -TACTGTATAGGGCTAAGGCCCA
30063229 GACTGATTCT
Statistics
Matches: 67, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
24 1 0.01
28 42 0.63
33 23 0.34
34 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (31 bp):
TACTGTATAGGGCTAAGGCCCACTTGTACTG
Found at i:30063241 original size:61 final size:56
Alignment explanation
Indices: 30063117--30063241 Score: 144
Period size: 61 Copynumber: 2.1 Consensus size: 56
30063107 ATTATTCTAT
* *
30063117 TTACTGTATTGGGCTAAGGCCCACATTGTCACTGTATTGGGCTAAGGCCCACACTG
1 TTACTGTAATGGGCTAAGGCCCACATTGTCACTGTATAGGGCTAAGGCCCACACTG
* * *
30063173 TTACTGTAATGGGCTAAGGCCCACTTTGTACTGATACTGTATAGGGCTCAGGCCCAGACTG
1 TTACTGTAATGGGCTAAGGCCCACATTGT-C----ACTGTATAGGGCTAAGGCCCACACTG
30063234 ATT-CTGTA
1 -TTACTGTA
30063242 TGTTGCATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
56 27 0.47
57 1 0.02
61 28 0.48
62 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (56 bp):
TTACTGTAATGGGCTAAGGCCCACATTGTCACTGTATAGGGCTAAGGCCCACACTG
Found at i:30072959 original size:26 final size:26
Alignment explanation
Indices: 30072879--30072953 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
30072869 TTTGCCACAT
*
30072879 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* * *
30072905 ATGCTGA-TACTGGTAGCTTCGCTGCG
1 ATACT-ATTACTGGCAGCTTTGCTGCG
30072931 ATACTATTACTGGCAGCTTTGCT
1 ATACTATTACTGGCAGCTTTGCT
30072954 TTGATATTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:30073129 original size:28 final size:27
Alignment explanation
Indices: 30073062--30073151 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
30073052 ATTGCACTGT
* **
30073062 ACTATTACTGTATTGGGCTAAGGCAAAAC
1 ACTATTATTGTATT-GGCTAAGGC-CCAC
30073091 ACTATTATTGTATTGGACTAAGGCCCAC
1 ACTATTATTGTATTGG-CTAAGGCCCAC
30073119 ACTATTATTGTATTTGGCTAAGGCCCAC
1 ACTATTATTGTA-TTGGCTAAGGCCCAC
30073147 ACTAT
1 ACTAT
30073152 ACTGTTACTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (27 bp):
ACTATTATTGTATTGGCTAAGGCCCAC
Found at i:30076603 original size:24 final size:24
Alignment explanation
Indices: 30076576--30076657 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
30076566 CCATGCACGG
30076576 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
* *
30076600 AATCAGTCATACAAATCATACACA
1 AATCAGTCATACAAATCACAAACA
**
30076624 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
30076648 AATCAGTCAT
1 AATCAGTCAT
30076658 TTAGATCTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:30076658 original size:24 final size:24
Alignment explanation
Indices: 30076576--30076709 Score: 126
Period size: 24 Copynumber: 5.6 Consensus size: 24
30076566 CCATGCACGG
**
30076576 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
** * *
30076600 AATCAGTCATACAAATCATACACA
1 AATCAGTCATTTAAATCACAAACA
30076624 AATCAGTCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAAACA
* *
30076648 AATCAGTCATTTAGATCTCGAAA-A
1 AATCAGTCATTTAAATCAC-AAACA
* * * **
30076672 AATCATTCATTTACATCATAGGCA
1 AATCAGTCATTTAAATCACAAACA
*
30076696 AATCAATCATTTAA
1 AATCAGTCATTTAA
30076710 CCCCGAGGGG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 1 0.01
24 88 0.96
25 3 0.03
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAAACA
Found at i:30076745 original size:27 final size:27
Alignment explanation
Indices: 30076727--30076832 Score: 167
Period size: 27 Copynumber: 3.9 Consensus size: 27
30076717 GGGCAAAATA
*
30076727 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30076754 GTCATTTTACCCTACAAGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30076781 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
30076808 GTCATTTTACCCTACAGGGGCATTA
1 GTCATTTTACCCTACAGGGGCATTA
30076833 TCCTACAGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:30076863 original size:26 final size:27
Alignment explanation
Indices: 30076834--30076888 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
30076824 GGGGCATTAT
*
30076834 CCTACA-GGACCTTACGGTCATTTTAC
1 CCTACAGGGACATTACGGTCATTTTAC
* *
30076860 CCTATAGGGGCATTACGGTCATTTTAC
1 CCTACAGGGACATTACGGTCATTTTAC
30076887 CC
1 CC
30076889 ATTGAGGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (27 bp):
CCTACAGGGACATTACGGTCATTTTAC
Found at i:30076938 original size:54 final size:52
Alignment explanation
Indices: 30076853--30077020 Score: 183
Period size: 54 Copynumber: 3.1 Consensus size: 52
30076843 CCTTACGGTC
* * * * *
30076853 ATTTTACCCTATAGGGGCATTACGGTCATTTTACCCATTGAGGGTATTTCAGTC
1 ATTTTACCCT-TTGGGGTATTTCGGTAATTTTACCC-TTGAGGGTATTTCAGTA
* * *
30076907 ATTTTACCCTTTCGGGGTATTTGGGTAATTTTACCCTTCGAAGGTATTTCGGTA
1 ATTTTACCCTTT-GGGGTATTTCGGTAATTTTACCCTT-GAGGGTATTTCAGTA
* * * *
30076961 ATTTTACCCTTTGAGGGTATTTTGATAATTTTACCCTCGAGGGTATTTCAATA
1 ATTTTACCCTTTG-GGGTATTTCGGTAATTTTACCCTTGAGGGTATTTCAGTA
30077014 ATTTTAC
1 ATTTTAC
30077021 AACCTTTTCG
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
53 23 0.24
54 74 0.76
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (52 bp):
ATTTTACCCTTTGGGGTATTTCGGTAATTTTACCCTTGAGGGTATTTCAGTA
Found at i:30077014 original size:26 final size:27
Alignment explanation
Indices: 30076848--30077020 Score: 165
Period size: 27 Copynumber: 6.4 Consensus size: 27
30076838 CAGGACCTTA
* * * *
30076848 CGGTCATTTTACCCTATAG-GGGCATTA
1 CGGTAATTTTACCCT-TCGAGGGTATTT
*
30076875 CGGTCATTTTACCCATT-GAGGGTATTT
1 CGGTAATTTTACCC-TTCGAGGGTATTT
* *
30076902 CAGTCATTTTACCCTTTCG-GGGTATTT
1 CGGTAATTTTACCC-TTCGAGGGTATTT
* *
30076929 GGGTAATTTTACCCTTCGAAGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
*
30076956 CGGTAATTTTACCCTTTGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
* *
30076983 TGATAATTTTACCC-TCGAGGGTATTT
1 CGGTAATTTTACCCTTCGAGGGTATTT
**
30077009 CAATAATTTTAC
1 CGGTAATTTTAC
30077021 AACCTTTTCG
Statistics
Matches: 126, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.21
27 98 0.78
28 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
CGGTAATTTTACCCTTCGAGGGTATTT
Found at i:30087748 original size:17 final size:18
Alignment explanation
Indices: 30087718--30087751 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30087708 AACAACTCAT
30087718 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
30087736 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
30087752 ACTCAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:30089227 original size:5 final size:5
Alignment explanation
Indices: 30089214--30089266 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
30089204 AGTTTCCCCA
* * * * *
30089214 TTTAC TTTAT TTTAT TTT-T ATTAT TTTAT TCTAT TTTAT TTTCT CTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
30089263 TTTA
1 TTTA
30089267 ATAATTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
4 3 0.08
5 35 0.92
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:30089273 original size:24 final size:24
Alignment explanation
Indices: 30089222--30089274 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
30089212 CATTTACTTT
* *
30089222 ATTTTATTTTTATTATTTTATTCT
1 ATTTTATTTTTATTATTTTAATCA
*
30089246 ATTTTATTTTCTCTTATTTTAAT-A
1 ATTTTATTTT-TATTATTTTAATCA
30089270 ATTTT
1 ATTTT
30089275 TAGTTCTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTTATTTTTATTATTTTAATCA
Found at i:30090653 original size:6 final size:6
Alignment explanation
Indices: 30090579--30090655 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
30090569 ATTTTATTTG
* * * * *
30090579 TTTTGT TTTTAA TTTTAA TTTTAT TTTGT-T TGTTTAT GTTTAT TTCTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT T-TTTAT TTTTAT TTTTAT
30090628 TTTTAGT TGTTT-T GTTTTAT TTTTAT TT
1 TTTTA-T T-TTTAT -TTTTAT TTTTAT TT
30090656 CCTTTTACTT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
6 46 0.81
7 8 0.14
8 3 0.05
ACGTcount: A:0.14, C:0.01, G:0.09, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:30090653 original size:32 final size:32
Alignment explanation
Indices: 30090575--30090656 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
30090565 ATTGATTTTA
* *
30090575 TTTGTTTTGTTTTTAATTT-TAATTTTATTTTG
1 TTTGTTTTATTTTT-ATTTCTAATTTTATTGTG
* *
30090607 TTTG-TTTATGTTTATTTCTATTTTTAGTTGT-
1 TTTGTTTTATTTTTATTTCTAATTTTA-TTGTG
30090638 TTTGTTTTATTTTTATTTC
1 TTTGTTTTATTTTTATTTC
30090657 CTTTTACTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
30 4 0.10
31 18 0.43
32 20 0.48
ACGTcount: A:0.13, C:0.02, G:0.10, T:0.74
Consensus pattern (32 bp):
TTTGTTTTATTTTTATTTCTAATTTTATTGTG
Found at i:30094570 original size:24 final size:24
Alignment explanation
Indices: 30094538--30094591 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
30094528 ATATGTAGGT
* * *
30094538 ATAATAATAATATATAATAGAA-TA
1 ATAAAAATAATA-ATAACAAAATTA
30094562 ATAAAAATAATAATAACAAAATTA
1 ATAAAAATAATAATAACAAAATTA
30094586 ATAAAA
1 ATAAAA
30094592 TAGACTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
ATAAAAATAATAATAACAAAATTA
Found at i:30094576 original size:15 final size:15
Alignment explanation
Indices: 30094538--30094593 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
30094528 ATATGTAGGT
*
30094538 ATAATAATAATATATA
1 ATAATAATAATA-AAA
*
30094554 AT-AGAATAATAAAA
1 ATAATAATAATAAAA
*
30094568 ATAATAATAACAAAA
1 ATAATAATAATAAAA
*
30094583 TTAATAA-AATA
1 ATAATAATAATA
30094594 GACTAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 7 0.21
15 24 0.73
16 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAATAATAATAAAA
Found at i:30094837 original size:19 final size:21
Alignment explanation
Indices: 30094799--30094837 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
30094789 CCTTTTTTAA
*
30094799 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
30094820 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
30094838 AAGAAAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:30095059 original size:24 final size:22
Alignment explanation
Indices: 30095012--30095080 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
30095002 TACAAATTAA
* *
30095012 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTGC-ATATCAT
30095034 ATCTTCTAAGATTG--TA-CAT
1 ATCTTCTAAGATTGCATATCAT
30095053 ATCATATCTAAGATTGCATATCAT
1 ATC-T-TCTAAGATTGCATATCAT
30095077 ATCT
1 ATCT
30095081 AAGATTGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 10 0.26
22 5 0.13
23 10 0.26
24 6 0.15
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
ATCTTCTAAGATTGCATATCAT
Found at i:30095064 original size:21 final size:21
Alignment explanation
Indices: 30095031--30095089 Score: 90
Period size: 19 Copynumber: 3.0 Consensus size: 21
30095021 ATTACAAAAT
30095031 CATATC-T-TCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
30095050 CATATCATATCTAAGATTG--
1 CATATCATATCTAAGATTGTA
30095069 CATATCATATCTAAGATTGTA
1 CATATCATATCTAAGATTGTA
30095090 TATCCTCGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 25 0.69
20 1 0.03
21 10 0.28
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (21 bp):
CATATCATATCTAAGATTGTA
Found at i:30099488 original size:101 final size:102
Alignment explanation
Indices: 30099370--30099552 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 102
30099360 AAAGTGATGG
* *
30099370 TCACGTATGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGGTCGCATGTGTAGTA
1 TCACGTATGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
*
30099434 CTATGTGCAGGATACTATACGTACCAGATAGCTTCGA
66 CTATGTGAAGGATACTATACGTACCAGATAGCTTCGA
* * * * * * *
30099471 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCATATATTAATGGTCACGTGTGTAGTA
1 TCACGTATGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
*
30099536 CTATGTGAAGGCTACTA
66 CTATGTGAAGGATACTA
30099553 CGTGTATCGA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
101 37 0.53
102 33 0.47
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (102 bp):
TCACGTATGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATGAAAGGTCACATGTGTAGTA
CTATGTGAAGGATACTATACGTACCAGATAGCTTCGA
Found at i:30099560 original size:51 final size:51
Alignment explanation
Indices: 30099366--30099558 Score: 194
Period size: 51 Copynumber: 3.8 Consensus size: 51
30099356 AGTGAAAGTG
* * *
30099366 ATGGTCACGTATGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
* * * * * ***
30099416 AAGGTCGCATGTGTAGTACTATGTGCAGGATACTATACGTACCAGATAGCTT-
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATA--TTA
* * * * *
30099468 -CGATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCATATATTA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
*
30099518 ATGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTA
30099559 TCGAATGATA
Statistics
Matches: 113, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
49 2 0.02
50 36 0.32
51 74 0.65
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATATTA
Found at i:30103785 original size:27 final size:27
Alignment explanation
Indices: 30103754--30103930 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
30103744 TAAATTGTAC
*
30103754 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30103781 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30103807 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
30103835 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30103862 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
30103889 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30103916 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30103931 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30103815 original size:54 final size:55
Alignment explanation
Indices: 30103754--30103930 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
30103744 TAAATTGTAC
* **
30103754 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
30103809 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
30103862 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
30103916 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30103931 GACTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:30103894 original size:81 final size:81
Alignment explanation
Indices: 30103755--30103909 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
30103745 AAATTGTACA
* * *
30103755 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
30103820 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
30103836 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
30103900 TGCGAGTTGA
65 TGCGAATTGA
30103910 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30103921 original size:81 final size:81
Alignment explanation
Indices: 30103751--30103930 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
30103741 GATTAAATTG
* * *
30103751 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30103816 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30103832 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
30103896 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
30103913 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30103931 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.