Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 160 of 333
Found at i:52560413 original size:100 final size:100
Alignment explanation
Indices: 52560240--52560480 Score: 428
Period size: 100 Copynumber: 2.4 Consensus size: 100
52560230 TCTATTGTGA
*
52560240 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
*
52560305 TACTAAGTGTAGGCTACTACGTGTACCAGATAATT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
52560340 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
* *
52560405 TACTAAGTGCAGGCTACTATGTGTACCAGATTATT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
52560440 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACC
52560481 AGATAGCTTC
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 134 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:52563849 original size:29 final size:29
Alignment explanation
Indices: 52563816--52563874 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
52563806 TTATTACTTA
52563816 TACATTTATACCATGCTTGCCTAAGTCAT
1 TACATTTATACCATGCTTGCCTAAGTCAT
52563845 TACATTTATACCATGCTTGCCTAAGTCAT
1 TACATTTATACCATGCTTGCCTAAGTCAT
52563874 T
1 T
52563875 CCACACCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (29 bp):
TACATTTATACCATGCTTGCCTAAGTCAT
Found at i:52565429 original size:43 final size:43
Alignment explanation
Indices: 52565368--52565454 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
52565358 GTTACATGTA
* *
52565368 TCGCATCCATTATGAACTCGAACCAGTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGAACAAGTCAACGAGCTCAGATGC
* * * *
52565411 TCGCATTCATAATGAACTCGGACAATTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGAACAAGTCAACGAGCTCAGATGC
52565454 T
1 T
52565455 ACATATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACAAGTCAACGAGCTCAGATGC
Found at i:52567232 original size:29 final size:29
Alignment explanation
Indices: 52567200--52567257 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
52567190 ATATGATAAT
*
52567200 GACTTGAAAGAATATTGCTTGATGAGCTC
1 GACTTGAAAGAATATTGCTCGATGAGCTC
*
52567229 GACTTGAAATAATATTGCTCGATGAGCTC
1 GACTTGAAAGAATATTGCTCGATGAGCTC
52567258 ATCTATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (29 bp):
GACTTGAAAGAATATTGCTCGATGAGCTC
Found at i:52570822 original size:40 final size:40
Alignment explanation
Indices: 52570745--52570926 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
52570735 AAACCAAGTA
* * * *
52570745 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* * *
52570784 CCTTCGGGATTTAGCCTGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
52570824 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
52570864 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
52570904 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
52570927 CATCCAAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.11
40 116 0.89
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:52578848 original size:40 final size:40
Alignment explanation
Indices: 52578767--52579028 Score: 384
Period size: 40 Copynumber: 6.6 Consensus size: 40
52578757 AAACCAAGTA
* ** *
52578767 CCTTCGGGATTTAG-CCGGAAATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
52578806 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
52578846 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
52578886 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
52578926 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* **
52578966 CCTCCGGGACTTAGCCCGGTTATAGTAACAAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
52579006 CCTTCGGGACTTAGCCCAGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
52579029 CATCCGAATA
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 15 0.07
40 191 0.93
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:52581008 original size:40 final size:39
Alignment explanation
Indices: 52580934--52581158 Score: 292
Period size: 40 Copynumber: 5.6 Consensus size: 39
52580924 AACCCAAGTA
* * *
52580934 CCTTCGGGATTTAG-CTGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
52580973 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
52581013 CCTTCGGGACTTAGCCCAGG-TATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGC-ACTA---GCACAAATG
*
52581056 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
52581096 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
52581136 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52581159 CATCTGAATA
Statistics
Matches: 167, Mismatches: 9, Indels: 19
0.86 0.05 0.10
Matches are distributed among these distances:
39 13 0.08
40 113 0.68
41 4 0.02
42 2 0.01
43 34 0.20
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:52581054 original size:83 final size:80
Alignment explanation
Indices: 52580934--52581158 Score: 346
Period size: 83 Copynumber: 2.8 Consensus size: 80
52580924 AACCCAAGTA
* * * *
52580934 CCTTCGGGATTTAG-CTGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
52580998 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
52581013 CCTTCGGGACTTAGCCCAGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGAT
1 CCTTCGGGACTTAGCCC-GGATATAG-AA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
52581077 ATAGTCACTAGCACAAATG
62 ATAGTCACTAGCACAAATG
*
52581096 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
52581159 CATCTGAATA
Statistics
Matches: 133, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
79 13 0.10
80 41 0.31
81 3 0.02
82 3 0.02
83 73 0.55
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:52588496 original size:33 final size:33
Alignment explanation
Indices: 52588454--52588520 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
52588444 ACCTTGGTTA
52588454 CATTTTTAGGTGGTTTCCTGTAACACCCCGTAC
1 CATTTTTAGGTGGTTTCCTGTAACACCCCGTAC
52588487 CATTTTTAGGTGGTTTCCTGTAACACCCCGTAC
1 CATTTTTAGGTGGTTTCCTGTAACACCCCGTAC
52588520 C
1 C
52588521 TGAGACCGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (33 bp):
CATTTTTAGGTGGTTTCCTGTAACACCCCGTAC
Found at i:52589912 original size:37 final size:37
Alignment explanation
Indices: 52589862--52589977 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
52589852 TTATTACGAA
* * * *
52589862 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
52589899 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
52589936 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGA
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
52589973 GTCTT
1 GTCTT
52589978 TAGAGCTCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:52590174 original size:47 final size:47
Alignment explanation
Indices: 52590096--52590414 Score: 478
Period size: 47 Copynumber: 6.7 Consensus size: 47
52590086 CCCTTCGGGA
* * * * * *
52590096 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52590143 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52590190 CTTATCACATATATACACTTTCACATTCATCACAACGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52590237 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52590284 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52590331 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52590380 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
52590415 AGAATCCTAA
Statistics
Matches: 252, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 206 0.82
49 45 0.18
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52594114 original size:40 final size:40
Alignment explanation
Indices: 52593946--52594128 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
52593936 CCAGCATGAT
* * * *
52593946 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
52593986 TGCTCTTCGGGACCTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* ** *
52594026 TGCTCTTCGGAACTTAGTCCAAATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
52594066 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
52594107 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
52594129 CATCATTCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 112 0.89
41 8 0.06
42 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:52594476 original size:29 final size:29
Alignment explanation
Indices: 52594434--52594512 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
52594424 CTTAATAATC
*
52594434 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
52594464 AACTCGTACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52594493 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52594513 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52594555 original size:43 final size:43
Alignment explanation
Indices: 52594494--52594596 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
52594484 TGCATTTCAA
52594494 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52594537 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52594580 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
52594597 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:52596511 original size:37 final size:36
Alignment explanation
Indices: 52596461--52596576 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 36
52596451 TTATTACGAA
* * *
52596461 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
52596498 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAAT-CCCACACGTAGTCATCGG
*
52596535 GTCTTACCCGGACAAAATCCTCACACGTAGTCATCGA
1 GTCTTACCCGGACAAAATCC-CACACGTAGTCATCGG
52596572 GTCTT
1 GTCTT
52596577 TAGAGCTCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 2 0.03
37 70 0.96
38 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCACACGTAGTCATCGG
Found at i:52596773 original size:47 final size:47
Alignment explanation
Indices: 52596695--52596966 Score: 375
Period size: 47 Copynumber: 5.7 Consensus size: 47
52596685 CCCTTCGGGA
* * * * * * *
52596695 CTTATCACATTTATACAATTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52596742 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52596789 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52596836 CTTATAACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52596883 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52596932 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
52596967 AGAATCCTAA
Statistics
Matches: 204, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 158 0.77
49 45 0.22
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52596955 original size:143 final size:141
Alignment explanation
Indices: 52596695--52596966 Score: 384
Period size: 143 Copynumber: 1.9 Consensus size: 141
52596685 CCCTTCGGGA
* * * * * *
52596695 CTTATCACATTTATACAATTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATAACATGTATACAATTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
52596760 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
52596825 GGCCATTAGGC
131 GGCCATTAGGC
* * * *
52596836 CTTATAACATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATAACATGTATACAATTTCACATCCATCACATCGGCCACTAGGCCCTATCACA--TATATAC
* *
52596901 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATCCATCAC
52596965 AT
128 AT
52596967 AGAATCCTAA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
141 46 0.40
142 1 0.01
143 67 0.59
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (141 bp):
CTTATAACATGTATACAATTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
GGCCATTAGGC
Found at i:52603040 original size:30 final size:32
Alignment explanation
Indices: 52602986--52603046 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
52602976 GCCACATTAG
52602986 ATATTTAGCAATAGGTTGAAA-TTTTCCATCT
1 ATATTTAGCAATAGGTTGAAATTTTTCCATCT
*
52603017 ATATTTAGCAGTAGGTT-AAATTTTTCCATC
1 ATATTTAGCAATAGGTTGAAATTTTTCCATC
52603047 CATTTTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (32 bp):
ATATTTAGCAATAGGTTGAAATTTTTCCATCT
Found at i:52603328 original size:31 final size:31
Alignment explanation
Indices: 52603288--52603354 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
52603278 GTTACAAAAT
* *
52603288 AGTCGTTGAATTATTTAAAAAT-TTTCATTTA
1 AGTCATTGAATTATTCAAAAATCTTT-ATTTA
*
52603319 AGTCATTGAATTATTCAAATATCTTTATTTA
1 AGTCATTGAATTATTCAAAAATCTTTATTTA
52603350 AGTCA
1 AGTCA
52603355 CTAGGTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 29 0.91
32 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (31 bp):
AGTCATTGAATTATTCAAAAATCTTTATTTA
Found at i:52607326 original size:13 final size:13
Alignment explanation
Indices: 52607294--52607318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52607284 TTAAAAATAT
52607294 ATTATATAATAAA
1 ATTATATAATAAA
52607307 ATTATATAATAA
1 ATTATATAATAA
52607319 TTTAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATATAATAAA
Found at i:52608721 original size:16 final size:16
Alignment explanation
Indices: 52608701--52608748 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
52608691 GCGTAAAGAT
* *
52608701 CGAAAGGCGTTATCAT
1 CGAAAGGCGTTAACAC
* **
52608717 TGAAAAACGTTAACAC
1 CGAAAGGCGTTAACAC
52608733 CGAAAGGCGTTAACAC
1 CGAAAGGCGTTAACAC
52608749 AATTACATCA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (16 bp):
CGAAAGGCGTTAACAC
Found at i:52614042 original size:36 final size:36
Alignment explanation
Indices: 52613990--52614061 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
52613980 CCCAGAAGAG
* *
52613990 AAAACAGTCGATAGAAAGAGTAATGGGGAGAAAGTA
1 AAAACAGTCGACAGAAACAGTAATGGGGAGAAAGTA
52614026 AAAACAGTCGACAGAAACAGTAATGGGGAGAAAGTA
1 AAAACAGTCGACAGAAACAGTAATGGGGAGAAAGTA
52614062 CCATCCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.08, G:0.29, T:0.12
Consensus pattern (36 bp):
AAAACAGTCGACAGAAACAGTAATGGGGAGAAAGTA
Found at i:52615812 original size:58 final size:57
Alignment explanation
Indices: 52615663--52615812 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 57
52615653 ATCGTATAAC
* *
52615663 AGGATTACTAGTCCAAGCTAAATCCTTTATATAACGTATACTCAAAAGAGTTCAATT
1 AGGATTACCAGTCCAAGCTAAATCCTTTCTATAACGTATACTCAAAAGAGTTCAATT
* * * * * *
52615720 AGGATTACCAGTCCAGGCTAAACCCTAATC-ATAACGTATACTCGAGAG-GTATTATATT
1 AGGATTACCAGTCCAAGCTAAATCCT-TTCTATAACGTATACTCAAAAGAGT-TCA-ATT
* * *
52615778 CGGATTACCCGTTCAAGCTAAATCCTTTCTATAAC
1 AGGATTACCAGTCCAAGCTAAATCCTTTCTATAAC
52615813 AAGGTCAGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 2 0.03
57 43 0.57
58 30 0.40
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAAGCTAAATCCTTTCTATAACGTATACTCAAAAGAGTTCAATT
Found at i:52622178 original size:23 final size:24
Alignment explanation
Indices: 52622147--52622218 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
52622137 TATCGAGTTG
*
52622147 AACAATAAGCTTATATGAGCTGA-
1 AACAGTAAGCTTATATGAGCTGAT
**
52622170 AATGGTAAGCTTCA-ATGAGCTGAT
1 AACAGTAAGCTT-ATATGAGCTGAT
52622194 AACAGTAAGCTCT-TATGAGCTGAT
1 AACAGTAAGCT-TATATGAGCTGAT
52622218 A
1 A
52622219 TATCAATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 18 0.45
24 21 0.52
25 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (24 bp):
AACAGTAAGCTTATATGAGCTGAT
Found at i:52622239 original size:26 final size:24
Alignment explanation
Indices: 52622147--52622240 Score: 66
Period size: 24 Copynumber: 3.9 Consensus size: 24
52622137 TATCGAGTTG
* *
52622147 AACAATAAGCTTATATGAGCTGA-
1 AACAATAAGCTCATACGAGCTGAT
*** *
52622170 AATGGTAAGCTTCA-ATGAGCTGAT
1 AACAATAAGC-TCATACGAGCTGAT
* * *
52622194 AACAGTAAGCTCTTATGAGCTGAT
1 AACAATAAGCTCATACGAGCTGAT
52622218 ATATCAATAAGCTCATACGAGCT
1 A-A-CAATAAGCTCATACGAGCT
52622241 ATGGTGAGTC
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
23 18 0.32
24 21 0.38
25 1 0.02
26 16 0.29
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (24 bp):
AACAATAAGCTCATACGAGCTGAT
Found at i:52626188 original size:50 final size:50
Alignment explanation
Indices: 52626107--52626339 Score: 227
Period size: 50 Copynumber: 4.6 Consensus size: 50
52626097 TCCATTGTGA
*
52626107 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAG
* * * *** * *
52626157 GTCGCATGTGTAGTACTAAGTACAGGCTACT--ATGCATACTCGTTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTA-ACAAATTGA--TAG
* * * * * * * *
52626208 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAG
* * ** *
52626258 GTCACGTGCGTAGTACTAAGTGCAGGCTACTACATGTTCCAAATTTATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAG
52626308 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
52626340 TGGGTACCAG
Statistics
Matches: 142, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
48 4 0.03
49 5 0.04
50 99 0.70
51 29 0.20
52 2 0.01
53 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAG
Found at i:52626284 original size:101 final size:101
Alignment explanation
Indices: 52626108--52626289 Score: 274
Period size: 101 Copynumber: 1.8 Consensus size: 101
52626098 CCATTGTGAG
* * * *
52626108 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATGGATAAGTCACATGCGTAGTAC
52626173 TAAGTACAGGCTACTATGCATACTCGTTAACTTCGA
66 TAAGTACAGGCTACTATGCATACTCGTTAACTTCGA
* * * * *
52626209 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGCGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATGGATAAGTCACATGCGTAGTAC
*
52626274 TAAGTGCAGGCTACTA
66 TAAGTACAGGCTACTA
52626290 CATGTTCCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATGGATAAGTCACATGCGTAGTAC
TAAGTACAGGCTACTATGCATACTCGTTAACTTCGA
Found at i:52631543 original size:20 final size:20
Alignment explanation
Indices: 52631494--52631537 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
52631484 TGGGCAAGGA
* *
52631494 ACACGGGCGCGTCCCAAGCC
1 ACACGAGCGTGTCCCAAGCC
52631514 ACACGAGCGTGTCCCAAGCC
1 ACACGAGCGTGTCCCAAGCC
52631534 ACAC
1 ACAC
52631538 ACGCGTATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.43, G:0.25, T:0.07
Consensus pattern (20 bp):
ACACGAGCGTGTCCCAAGCC
Found at i:52633810 original size:23 final size:24
Alignment explanation
Indices: 52633762--52633810 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
52633752 AAGATTAGGG
*
52633762 TTTAATATTTAAGGTTTAAGGTTT
1 TTTAATATTTAAGGTTTAAGGATT
52633786 TTTAAT-TTTAAGTGTTT-AGGATT
1 TTTAATATTTAAG-GTTTAAGGATT
52633809 TT
1 TT
52633811 AGGGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (24 bp):
TTTAATATTTAAGGTTTAAGGATT
Found at i:52658543 original size:19 final size:20
Alignment explanation
Indices: 52658513--52658561 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
52658503 TCAATCAGTG
52658513 AAAATGGGCCCA-A-AGCCCA
1 AAAAT-GGCCCACATAGCCCA
*
52658532 TAATATGGCCCACATAGCCCA
1 -AAAATGGCCCACATAGCCCA
52658553 AAAATGGCC
1 AAAATGGCC
52658562 TTAGCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.39, C:0.31, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATGGCCCACATAGCCCA
Found at i:52664888 original size:46 final size:46
Alignment explanation
Indices: 52664820--52665085 Score: 179
Period size: 46 Copynumber: 5.7 Consensus size: 46
52664810 TGTAACCCGC
* *
52664820 CCATAAGCGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * * *
52664866 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * * *
52664916 -C-TCA-CGAACTCAGACTCAACTGAACGAGTTCAGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * * *
52664959 CCATAAGTGAACTCGAACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * ***
52665009 --ATCA-CGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
52665052 CCATAAGTGAACTCGGACTCAACTCAATGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
52665086 AGATGCCCAA
Statistics
Matches: 165, Mismatches: 37, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 2 0.01
45 5 0.03
46 80 0.48
47 48 0.29
48 6 0.04
49 3 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:52664942 original size:93 final size:93
Alignment explanation
Indices: 52664827--52665092 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 93
52664817 CGCCCATAAG
* * * * *
52664827 CGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
52664892 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ATGAGTTCGGATGCCTAGTTACATATCA
* * *
52664920 CGAACTCAGACTCAACTGAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
52664985 ACAAGTTCGGATGCCTAGTTACATATCA
66 ATGAGTTCGGATGCCTAGTTACATATCA
*
52665013 CGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
52665078 ATGAGTTCAGATGCC
66 ATGAGTTCGGATGCC
52665093 CAAATATCTA
Statistics
Matches: 154, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 154 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ATGAGTTCGGATGCCTAGTTACATATCA
Found at i:52665028 original size:47 final size:47
Alignment explanation
Indices: 52664874--52665044 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 47
52664864 ATCCATAAGT
* * * *
52664874 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
* * * * * * * *
52664921 GAACTCAGACTCAACTGAACGAGTTCAGACG-TTCGCATCCATA--AGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATATCA-C
*
52664967 GAACTC-GAACTCAACTCAACAAGTTCGGATGCCTAGTTACATATCAC
1 GAACTCAG-ACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
52665014 GAACTCAGACTCAACTCAACGAGTTCGGATG
1 GAACTCAGACTCAACTCAACGAGTTCGGATG
52665045 TTCGCATCCA
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
45 2 0.02
46 32 0.34
47 59 0.62
48 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
Found at i:52667860 original size:30 final size:29
Alignment explanation
Indices: 52667818--52667874 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
52667808 AAAGATAACA
52667818 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAATCCAAGATTG
*
52667847 AGAAACCCAGAATAAAGAAATCCAAGAT
1 AGAAAACC-GAATAAAGAAATCCAAGAT
52667875 ACGATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATTG
Found at i:52670638 original size:92 final size:92
Alignment explanation
Indices: 52670468--52670732 Score: 377
Period size: 92 Copynumber: 2.9 Consensus size: 92
52670458 TGCCCATAAG
* * *** * **
52670468 CGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCATCTATAAGTGAACTAAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATC-CTAAGTGAACTCGGACTCAACTCA
* *
52670533 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTAAATCTCA
* *
52670561 CGAACTCGGACTCAACTCAATGAGTTCAGATGTTCGCATCCTAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCTAAGTGAACTCGGACTCAACTCAA
*
52670626 CGAGTTCAGATGCCTAGTTAAATCTCA
66 CGAGTTCGGATGCCTAGTTAAATCTCA
* *
52670653 CGAACTAGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTGAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCC-TAAGTGAACTCGGACTCAACTCA
52670718 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
52670733 CAAATATCTG
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
92 84 0.55
93 69 0.45
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCTAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTAAATCTCA
Found at i:52670670 original size:47 final size:47
Alignment explanation
Indices: 52670515--52670684 Score: 186
Period size: 47 Copynumber: 3.7 Consensus size: 47
52670505 ATCTATAAGT
* * *
52670515 GAACTAAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTAGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
* * ** * *
52670562 GAACTCGGACTCAACTCAATGAGTTCAGATG--T--TCGCATCCTAAGT
1 GAACTAGGACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-CTCA-C
* *
52670607 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTAAATCTCAC
1 GAACTAGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
*
52670654 GAACTAGGACTCAACTCAACGAGTTCGGATG
1 GAACTAGGACTCAACTCAACGAGTTCAGATG
52670685 TTCGCATCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
43 4 0.04
44 3 0.03
45 31 0.31
47 56 0.56
48 3 0.03
49 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTAGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:52674333 original size:34 final size:37
Alignment explanation
Indices: 52674290--52674380 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 37
52674280 TTTTAGAAAT
*
52674290 AGGGGAGAGAGAGAGGACA-GGAGGGGGAG-GGGAG-
1 AGGGGAGAGAGAGAGGACAGGGAGAGGGAGTGGGAGA
*
52674324 AGGGGAGAGAAGAGAGTGAGAGAGGGAGAGGGAGTGGGAGA
1 AGGGGAGAG-AGAGA--G-GACAGGGAGAGGGAGTGGGAGA
*
52674365 AAGGGAGAGAGAGAGG
1 AGGGGAGAGAGAGAGG
52674381 GGGGAGGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
34 9 0.19
35 5 0.11
37 2 0.04
38 4 0.09
39 9 0.19
40 10 0.21
41 8 0.17
ACGTcount: A:0.36, C:0.01, G:0.60, T:0.02
Consensus pattern (37 bp):
AGGGGAGAGAGAGAGGACAGGGAGAGGGAGTGGGAGA
Found at i:52674352 original size:6 final size:6
Alignment explanation
Indices: 52674292--52674381 Score: 51
Period size: 6 Copynumber: 14.5 Consensus size: 6
52674282 TTAGAAATAG
* * * *
52674292 GGGAGA GAGAGA -GGACA -GGAGG GGGAG- GGGAGA GGGGAGA GAAGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA -GGGAGA G-GGAGA
* *
52674339 GTGAGAGA GGGAGA GGGAGT GGGAGAAA GGGAGA GAGAGA GGG
1 G-G-GAGA GGGAGA GGGAGA GGGAG--A GGGAGA GGGAGA GGG
52674382 GGGAGGGAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
5 11 0.17
6 32 0.49
7 12 0.18
8 10 0.15
ACGTcount: A:0.36, C:0.01, G:0.61, T:0.02
Consensus pattern (6 bp):
GGGAGA
Found at i:52674364 original size:20 final size:19
Alignment explanation
Indices: 52674309--52674394 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 19
52674299 AGAGAGGACA
*
52674309 GGAGGGGGAGGGGAGAG-G
1 GGAGAGGGAGGGGAGAGAG
* *
52674327 GGAGAGAAGAGAGTGAGAGAG
1 GGAGAG-GGAG-GGGAGAGAG
*
52674348 GGAGAGGGAGTGGGAGAAAG
1 GGAGAGGGAG-GGGAGAGAG
52674368 GGAGAGAGAGAGGGG-G-GAG
1 GGAGAG-G-GAGGGGAGAGAG
52674387 GGAAGAGG
1 GG-AGAGG
52674395 TAATTCCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
18 5 0.09
19 8 0.15
20 27 0.50
21 11 0.20
22 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.64, T:0.02
Consensus pattern (19 bp):
GGAGAGGGAGGGGAGAGAG
Found at i:52678013 original size:37 final size:37
Alignment explanation
Indices: 52677954--52678062 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
52677944 AGCTCAGACG
* *
52677954 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
52677991 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
52678028 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
52678063 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:52678321 original size:47 final size:47
Alignment explanation
Indices: 52678269--52678415 Score: 240
Period size: 47 Copynumber: 3.1 Consensus size: 47
52678259 CATACATATT
* * * * *
52678269 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
52678316 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
52678363 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
52678410 TCACAT
1 TCACAT
52678416 AAAATCCTAA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:52678341 original size:22 final size:22
Alignment explanation
Indices: 52678315--52678389 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
52678305 GTTCATATTC
52678315 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
52678337 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
52678361 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
52678384 ATCACA
1 ATCACA
52678390 CATATGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 11 0.28
23 12 0.30
24 12 0.30
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:52685734 original size:93 final size:93
Alignment explanation
Indices: 52685575--52685745 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
52685565 GCCCCTAAGT
* * * *
52685575 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCAAATCCATAAATGAACTTGGACTCAAATCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAATGAACTCGGACTCAAATCAA
52685640 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *** * *
52685668 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAATGAACTCGGACTCAAATCAA
52685733 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52685746 TCAACCATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAATGAACTCGGACTCAAATCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52685761 original size:46 final size:45
Alignment explanation
Indices: 52685569--52685750 Score: 122
Period size: 46 Copynumber: 4.0 Consensus size: 45
52685559 TAACCCGCCC
* * ** *
52685569 CTAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCAA-AT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
* * *
52685613 CCATAAATGAACTTGGACTCAAATCAACGAGTTCGGATGC-CTAGTTACAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * ***
52685663 CTCA-CGAACTCGGACTCAACTCAACGAGTTCAGA--CATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACAT
52685706 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
52685751 CATCCTAGTG
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.05
46 58 0.57
47 28 0.27
48 3 0.03
49 2 0.02
50 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:52687948 original size:17 final size:17
Alignment explanation
Indices: 52687928--52687963 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
52687918 TCCGAGACAG
52687928 GAAGAA-GGTAGAGAAAA
1 GAAGAACGG-AGAGAAAA
52687945 GAAGAACGGAGAGAAAA
1 GAAGAACGGAGAGAAAA
52687962 GA
1 GA
52687964 GATATTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.58, C:0.03, G:0.36, T:0.03
Consensus pattern (17 bp):
GAAGAACGGAGAGAAAA
Found at i:52698901 original size:166 final size:162
Alignment explanation
Indices: 52698622--52698951 Score: 552
Period size: 166 Copynumber: 2.0 Consensus size: 162
52698612 ATTCTCTTTC
*
52698622 AACTCACTATATTGTGTTTAAACAAACCATTACCCTATTTTTGTAGTTAAGCCCTTTACTTCATC
1 AACTCACTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAGTTAAGCCCTTTACTTCATC
*
52698687 CGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCGAAGATATTACAG
66 CGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCAAAGATATTACAG
*
52698752 CAGCTTAATGTGCTCCATGCTCTTTAACCAAA
131 CAGCTTAATGTGCTCCATGCACTTTAACCAAA
*
52698784 AACTCATTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAGTTTAATAAGCCCTTTACTT
1 AACTCACTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAG--T--TAAGCCCTTTACTT
* *
52698849 CATCCGGAGATATTACAGCTAAACAGTCATGTTTACAAGCTGCATGCACTTCATCCAAAGATATT
62 CATCCGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCAAAGATATT
* *
52698914 ACAGCAGCTTCATGTGCTGCATGCACTTTAACCAAA
127 ACAGCAGCTTAATGTGCTCCATGCACTTTAACCAAA
52698950 AA
1 AA
52698952 TATCACAGCA
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
162 44 0.28
164 1 0.01
166 111 0.71
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (162 bp):
AACTCACTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAGTTAAGCCCTTTACTTCATC
CGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCAAAGATATTACAG
CAGCTTAATGTGCTCCATGCACTTTAACCAAA
Found at i:52704921 original size:12 final size:12
Alignment explanation
Indices: 52704904--52704929 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52704894 GTCACACATG
52704904 GCTGAGACAAAT
1 GCTGAGACAAAT
52704916 GCTGAGACAAAT
1 GCTGAGACAAAT
52704928 GC
1 GC
52704930 CAATGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.15
Consensus pattern (12 bp):
GCTGAGACAAAT
Found at i:52713785 original size:630 final size:626
Alignment explanation
Indices: 52712563--52714204 Score: 2729
Period size: 630 Copynumber: 2.6 Consensus size: 626
52712553 AACCAAAAAT
* *
52712563 AAAAAAATTATTTTATTTTATTTTATGGTTGGCATCATGATAGGAAGGTCACATGAAAATTTTGG
1 AAAAAAATAATTTT-TTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGG
* * * * *
52712628 TATGAAATTTTTACCGATTGTGTATTTAATTAAGGAAAAGACTAAATTGTATAAAATGCATAAGT
65 TATGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAGT
* *
52712693 TGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTTAAAACTTAAGGTCCTTTTATGGTA
130 TGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGTA
* * *
52712758 GTTAGACTATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAAGG
195 ATTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATG
*
52712823 GTAGGGACTAAATTGAAAATAAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATC
260 GTAGGGACTAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATC
* *
52712888 TATTATCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAAGAGAGAGGAAGAAAACTTTTCA
325 TATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCA
52712953 AGCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTGAATCGGGATAG
390 AGCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTGAATCGGGATAG
*
52713018 CCTAATCTTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGAT
455 CCTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGAT
52713083 GAATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCT
520 GAATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCT
*
52713148 ATGAAGTAGGAACAGTGGTTTCTAGATCACAAATCCGAGTTAAA
585 ATGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTT--A
*
52713192 AACAAAAATAATTTTGTTTTATTTTATGGTTGGCATCTTGATAGGAATGTCACATGAAAATTTTG
1 AA-AAAAATAATTTT-TTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTG
*
52713257 GTACGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAG
64 GTATGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAG
*
52713322 TTGGGTTCTAGTAGCTATAGGTATCAAATAGCTAT-AGAATTCAAAACTTAGGGTCCTTATATGG
129 TTGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGA-AATTCAAAACTTAAGGTCCTTATATGG
*
52713386 TAATTAAACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAA
193 TAATTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAA
* *
52713451 TGGTAGGGAATAAATTAAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCA
258 TGGTAGGGACTAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCA
*
52713516 TCTATTTTCATATCATTTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTT
323 TCTATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTT
52713581 CAAGCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTGAATCGGGAT
388 CAAGCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTGAATCGGGAT
52713646 AGCCTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGG
453 AGCCTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGG
52713711 ATGAATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTT
518 ATGAATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTT
52713776 C-AGTGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTTA
583 CTA-TGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTTA
* * *
52713820 AAAAAAAGAATTTTTTTTATTTTATGGTTGGCATCTTGATAGAAAGGTCACATGAAAATTTTGAT
1 AAAAAAATAATTTTTTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGGT
* * * *
52713885 ATAAAAATTTTA-TCGATTGTTTGGTTAATT-AGGTAAAGGACTAAATTGTATAAAATGAAAAAG
66 ATGAAAATTTTACT-GATTGTGTGTTTAATTAAGG-AAAGGACTAAATTGTATAAAATGCAAAAG
*
52713948 TTGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGCCCTTATATGGT
129 TTGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGT
* *
52714013 AATTAGACCATTGAAGTGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATT-TAAAAT
194 AATTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAAT
* * * * * * *
52714077 GGCAAGGGACTAAATTGGAAATCACTAAAATTAAAAGATGGA-AATTAAATAAAAAGAAATATTC
259 GG-TAGGGACTAAATTGAAAATCAATAAAATTAATAGAT-GATAATTAATTAAAAAGAAAAAATC
* ** * *
52714141 ATCTAATTTCATATCATCTTCCCCAAAATTTCTATGGAAACCCTAGGAGAGAGGAGGACAACTT
322 ATCTATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTT
52714205 ACCAAACTTA
Statistics
Matches: 951, Mismatches: 54, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
625 11 0.01
626 324 0.34
627 14 0.01
628 3 0.00
629 4 0.00
630 595 0.63
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (626 bp):
AAAAAAATAATTTTTTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGGT
ATGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAGTT
GGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGTAA
TTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATGG
TAGGGACTAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATCT
ATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCAA
GCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTGAATCGGGATAGC
CTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGATG
AATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCTA
TGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTTA
Found at i:52717140 original size:49 final size:49
Alignment explanation
Indices: 52717070--52717307 Score: 269
Period size: 49 Copynumber: 4.8 Consensus size: 49
52717060 TGAGGTCATG
* * *
52717070 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACA
* * * *
52717119 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA--TTGGTCACA
* * ** *
52717170 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACA
* * ** * *
52717220 TGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACA
* *
52717269 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
52717308 GCTTTGGCTA
Statistics
Matches: 157, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 76 0.48
50 41 0.26
51 40 0.25
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACA
Found at i:52717337 original size:150 final size:150
Alignment explanation
Indices: 52717062--52717345 Score: 401
Period size: 150 Copynumber: 1.9 Consensus size: 150
52717052 ATCTATTGTG
* * ** **
52717062 AGGTCATGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
* * * * *
52717127 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCA
52717192 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
52717212 AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
* * * *
52717277 ACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATATGTGCAGG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTT-GAT-CAAGTGTGTAGAAATAAGTGCAGG
52717340 CAACTA
129 CAACTA
52717346 AGTATCAGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 107 0.91
151 3 0.03
152 7 0.06
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTTGATCAAGTGTGTAGAAATAAGTGCAGGCA
ACTACGTGTATCAGATGGTT
Found at i:52720920 original size:59 final size:57
Alignment explanation
Indices: 52720839--52720974 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 57
52720829 TGCAGATAGA
* ** *
52720839 ATTTAGCCCAGATAGGTAATTCTAATGTAAGCCCT-TCTGAGGTAGTTTATAAATTGG
1 ATTTACCCCAGACGGGTAATTCTAATGTAAGCCCTCT-TGAGGTAGGTTATAAATTGG
* *
52720896 ATTTTTCCTCCAGACGGGTAATTCTAATGTAAGCCCTCTTGAGTTAGGTTATAAATTGG
1 A-TTTACC-CCAGACGGGTAATTCTAATGTAAGCCCTCTTGAGGTAGGTTATAAATTGG
*
52720955 ATTTAGCCCAGACGGGTAAT
1 ATTTACCCCAGACGGGTAAT
52720975 CCATATTAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.21
58 8 0.12
59 45 0.66
60 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (57 bp):
ATTTACCCCAGACGGGTAATTCTAATGTAAGCCCTCTTGAGGTAGGTTATAAATTGG
Found at i:52722700 original size:43 final size:43
Alignment explanation
Indices: 52722634--52722790 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
52722624 AGCTCGTACA
*
52722634 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
** * * * *
52722677 ATGCCTTTGTCCCAGACAG-GGTCTTACACGAAATCAGATA-CA
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* *
52722719 ATGCCAACGTCCTAGACGTGGTCTTACATGTAACTCAAA-AGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAA-TCAAATA-TCG
52722763 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
52722791 CGATAACACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 36 0.39
44 28 0.30
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:52722786 original size:86 final size:85
Alignment explanation
Indices: 52722630--52722793 Score: 260
Period size: 85 Copynumber: 1.9 Consensus size: 85
52722620 GAAAAGCTCG
**
52722630 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTTTGTCCCAGACA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACA
52722695 GGGTCTTACACGAAATCAGA
66 GGGTCTTACACGAAATCAGA
*
52722715 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAACTCAAA-AGTCGATGCCAATGTCCCAGA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAA-TCAAATA-TCGATGCCAATGTCCCAGA
52722779 C-GTGGTCTTACACGA
64 CAG-GGTCTTACACGA
52722794 TAACACATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
85 38 0.52
86 35 0.48
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACA
GGGTCTTACACGAAATCAGA
Found at i:52730694 original size:52 final size:52
Alignment explanation
Indices: 52730616--52730722 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
52730606 TTTATGAGTT
* *
52730616 TCATGTTTTTGAGATCCTTGTATCTTAATTTAGCCAACCTGCATGTCTAGTC
1 TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
52730668 TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
1 TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
52730720 TCA
1 TCA
52730723 AAATTCTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (52 bp):
TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
Found at i:52734214 original size:35 final size:35
Alignment explanation
Indices: 52734168--52734239 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
52734158 GGCTAAATTG
*
52734168 CCTAATCACATACATTCAATCGAACATGTTAGTCA
1 CCTAATCACATACATTCAATCAAACATGTTAGTCA
52734203 CCTAATCACATACATTCAATCAAACATGTTAGTCA
1 CCTAATCACATACATTCAATCAAACATGTTAGTCA
52734238 CC
1 CC
52734240 AAAATCTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (35 bp):
CCTAATCACATACATTCAATCAAACATGTTAGTCA
Found at i:52735195 original size:20 final size:20
Alignment explanation
Indices: 52735154--52735195 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
52735144 AGCACATGTA
* *
52735154 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
52735174 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
52735194 TT
1 TT
52735196 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:52737789 original size:17 final size:18
Alignment explanation
Indices: 52737767--52737801 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
52737757 AGTTTACTCG
52737767 TGTGGGGCCCACA-AGCC
1 TGTGGGGCCCACACAGCC
52737784 TGTGGGGCCCACACAGCC
1 TGTGGGGCCCACACAGCC
52737802 CATTTCAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.17, C:0.37, G:0.34, T:0.11
Consensus pattern (18 bp):
TGTGGGGCCCACACAGCC
Found at i:52760606 original size:36 final size:36
Alignment explanation
Indices: 52760561--52760631 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
52760551 TATTAAATAG
52760561 TTTATTTGCTTATGACTTACTAGGCTACAAAAGCTA
1 TTTATTTGCTTATGACTTACTAGGCTACAAAAGCTA
52760597 TTTATTTGCTTATGACTTACTAGGCTACAAAAGCT
1 TTTATTTGCTTATGACTTACTAGGCTACAAAAGCT
52760632 TACTTTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTATTTGCTTATGACTTACTAGGCTACAAAAGCTA
Found at i:52764339 original size:21 final size:21
Alignment explanation
Indices: 52764313--52764352 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52764303 CACTTGACAT
*
52764313 AGGGGCACATGCCCGTGTGAA
1 AGGGGCACACGCCCGTGTGAA
*
52764334 AGGGGCACACGTCCGTGTG
1 AGGGGCACACGCCCGTGTG
52764353 GCCAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGAA
Found at i:52767238 original size:46 final size:46
Alignment explanation
Indices: 52767168--52767375 Score: 151
Period size: 46 Copynumber: 4.5 Consensus size: 46
52767158 TCAATGCCAC
*
52767168 GTCCCAGACATGGTCTTACTCTGACTATCATCTCGTAGTC-GATGCAT
1 GTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGTCTGATGCAT
* * *
52767215 GTCCCAGACATGTCTTACACTGACT-TACGTCTTGAGGTC-GATGTAT
1 GTCCCAGACATGTCTTACACTGACTAT-CATCTCGA-GTCTGATGCAT
* * *
52767261 ATCCCAAACATGTCTTACACT-AGC-ACTCGTCTCGA-TGCTGATGCCAT
1 GTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAGT-CTGATG-CAT
* * * * * *
52767308 GTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTAATGCAT
1 GTCCCAGACAT-GTCTTACACTGACTATCAT-CTCGAGTCTGATGCAT
*
52767355 GTCTCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
52767376 AGTCCACAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 27
0.74 0.10 0.15
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 68 0.52
47 36 0.28
48 20 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
GTCCCAGACATGTCTTACACTGACTATCATCTCGAGTCTGATGCAT
Found at i:52779900 original size:43 final size:43
Alignment explanation
Indices: 52779788--52779887 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
52779778 TTACCGAATG
* *
52779788 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
* * *
52779831 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATA
1 TGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
*
52779874 TGATAACATGTAAG
1 TGATTACATGTAAG
52779888 GCTATATCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
Found at i:52786936 original size:40 final size:40
Alignment explanation
Indices: 52786877--52787127 Score: 278
Period size: 40 Copynumber: 6.3 Consensus size: 40
52786867 CATTTGAATG
*
52786877 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
52786917 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
52786957 TTATCTGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
52786997 TTATCTGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATT
** * *
52787037 ATATTAGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
52787077 ATACCCGGGTTAAGACCCGAA-GCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
52787116 ATATCC-GGCTAA
1 ATATCCGGGCTAA
52787128 ATTCCGAAGA
Statistics
Matches: 185, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
38 7 0.04
39 17 0.09
40 158 0.85
41 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:52803228 original size:12 final size:11
Alignment explanation
Indices: 52803211--52803285 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 11
52803201 AATCCTCCTT
52803211 TTTTTATTCTTA
1 TTTTTATT-TTA
52803223 TTTTTATTTTA
1 TTTTTATTTTA
52803234 -TTTTATTTT-
1 TTTTTATTTTA
52803243 TCTTTTGATATTTA
1 T-TTTT-AT-TTTA
* *
52803257 TTTTCATTTCAA
1 TTTTTATTT-TA
52803269 TTTTATTATTTTA
1 -TTT-TTATTTTA
52803282 TTTT
1 TTTT
52803286 GAAAGACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
10 9 0.18
11 10 0.20
12 16 0.31
13 10 0.20
14 6 0.12
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:52803229 original size:6 final size:6
Alignment explanation
Indices: 52803211--52803265 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
52803201 AATCCTCCTT
* * * *
52803211 TTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTTTC TTTTGA TATTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
52803257 TTTTCA TTT
1 TTTTTA TTT
52803266 CAATTTTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:52803234 original size:5 final size:5
Alignment explanation
Indices: 52803212--52803285 Score: 53
Period size: 5 Copynumber: 13.8 Consensus size: 5
52803202 ATCCTCCTTT
*
52803212 TTTTA TTCTTA TTTTTA TTTTA TTTTA TTTTTC TTTTGA TATTTA TTTTCA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA TTTT-A T-TTTA TTTT-A
*
52803263 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
52803286 GAAAGACATA
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
3 3 0.05
5 27 0.48
6 21 0.38
7 5 0.09
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:52806168 original size:13 final size:13
Alignment explanation
Indices: 52806152--52806184 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52806142 TTTAATTAAA
*
52806152 TTAGTTAATTAGT
1 TTAGATAATTAGT
52806165 TTAGATAATTAGT
1 TTAGATAATTAGT
52806178 TTA-ATAA
1 TTAGATAA
52806185 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:52810248 original size:28 final size:28
Alignment explanation
Indices: 52810184--52810273 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
52810174 CCCAATCTCA
* * *
52810184 TTCATATGACCCATC-GAACCCAACCACA
1 TTCATATGGCCCATCAG-GCCCAACCACT
52810212 TTCATATGGCCCATCAGGCCCAACCACT
1 TTCATATGGCCCATCAGGCCCAACCACT
* * *
52810240 TTCATATGGCTCGTCAGGCCCAATCACT
1 TTCATATGGCCCATCAGGCCCAACCACT
52810268 TTCATA
1 TTCATA
52810274 GTCATGCAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 54 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (28 bp):
TTCATATGGCCCATCAGGCCCAACCACT
Found at i:52810521 original size:16 final size:16
Alignment explanation
Indices: 52810489--52810522 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52810479 CCAAACTTCT
* *
52810489 GGCTTTTCGGCATTTC
1 GGCTTTTCGACAGTTC
52810505 GGCTTTTCGACAGTTC
1 GGCTTTTCGACAGTTC
52810521 GG
1 GG
52810523 GAATTGCCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.24, G:0.29, T:0.38
Consensus pattern (16 bp):
GGCTTTTCGACAGTTC
Found at i:52812194 original size:79 final size:81
Alignment explanation
Indices: 52812026--52812210 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
52812016 GCTACTTGTT
* *
52812026 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATCCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATCCCTTCGGGACTTAACCCG
* *
52812090 AATTTAGTAACTCGCAC
65 AATATAGTAACTAGCAC
* * **
52812107 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATCCCTTCGGGA-CTTAACCCG
* * *
52812169 GATATGGTCACTTAGCA-
65 AATATAGTAAC-TAGCAC
52812186 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
52812211 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATCCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCAC
Found at i:52812210 original size:40 final size:40
Alignment explanation
Indices: 52812026--52812210 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
52812016 GCTACTTGTT
* *
52812026 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
52812066 CAAATCCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
52812106 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
52812145 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
52812186 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52812211 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:52820244 original size:79 final size:81
Alignment explanation
Indices: 52820135--52820317 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
52820125 TACTCGTTCA
*
52820135 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
52820198 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
52820215 AATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
52820278 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
52820294 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
52820318 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 31 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:52820317 original size:40 final size:40
Alignment explanation
Indices: 52820133--52820317 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
52820123 GCTACTCGTT
*
52820133 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
* *
52820173 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
52820213 CCAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
52820252 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
52820293 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52820318 CATCATTCGA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 79 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:52830289 original size:12 final size:12
Alignment explanation
Indices: 52830272--52830296 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52830262 ATGTTAGCTA
52830272 AATTGACTATCT
1 AATTGACTATCT
52830284 AATTGACTATCT
1 AATTGACTATCT
52830296 A
1 A
52830297 CTATGTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (12 bp):
AATTGACTATCT
Found at i:52830618 original size:18 final size:18
Alignment explanation
Indices: 52830580--52830619 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
52830570 GAGCATTGAT
*
52830580 GTGTATGAGTATTCCTGA
1 GTGTATGAGTATTCCTAA
52830598 GTGTATGAGTATTACC-AA
1 GTGTATGAGTATT-CCTAA
52830616 GTGT
1 GTGT
52830620 CCGTTGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (18 bp):
GTGTATGAGTATTCCTAA
Found at i:52838204 original size:52 final size:52
Alignment explanation
Indices: 52838133--52838233 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
52838123 AAACCCAAAT
*
52838133 ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACGACCTCGGATGCC
1 ACATATATCGCATCCATTATGAACTCAGACCAACTCAACGACCTCGGATGCC
* ** * *
52838185 ACATATATCTCATCCATTATGAACTTGGACCAACTGAACGAGCTCGGAT
1 ACATATATCGCATCCATTATGAACTCAGACCAACTCAACGACCTCGGAT
52838234 TTTTTAACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (52 bp):
ACATATATCGCATCCATTATGAACTCAGACCAACTCAACGACCTCGGATGCC
Found at i:52839212 original size:19 final size:19
Alignment explanation
Indices: 52839188--52839262 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
52839178 TTTCTTTCAA
52839188 ATTTTTCCTATGCATGCCC
1 ATTTTTCCTATGCATGCCC
* ** *
52839207 ATTTTTGTCTA-AAAAGCCC
1 ATTTTT-CCTATGCATGCCC
52839226 ATTTTTTCCTATGCATGCCC
1 A-TTTTTCCTATGCATGCCC
*
52839246 TTTTTATTCCTATGCAT
1 -ATTT-TTCCTATGCAT
52839263 TCCCTCTTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
19 15 0.36
20 16 0.38
21 11 0.26
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.45
Consensus pattern (19 bp):
ATTTTTCCTATGCATGCCC
Found at i:52839257 original size:21 final size:20
Alignment explanation
Indices: 52839189--52839267 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 20
52839179 TTCTTTCAAA
52839189 TTTTTCCTATGCATGCCCATT
1 TTTTTCCTATGCATGCCC-TT
* ** * *
52839210 TTTGT-CTA-AAAAGCCCAT
1 TTTTTCCTATGCATGCCCTT
52839228 TTTTTCCTATGCATGCCCTT
1 TTTTTCCTATGCATGCCCTT
*
52839248 TTTATTCCTATGCATTCCCT
1 TTT-TTCCTATGCATGCCCT
52839268 CTTAATTTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 5 0.11
19 8 0.18
20 12 0.27
21 19 0.43
ACGTcount: A:0.18, C:0.28, G:0.09, T:0.46
Consensus pattern (20 bp):
TTTTTCCTATGCATGCCCTT
Found at i:52842848 original size:22 final size:24
Alignment explanation
Indices: 52842818--52842867 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
52842808 TATACCCTAC
* *
52842818 CGGTTTGGC-ACGA-CCTATCACA
1 CGGTCTGGCAACGAGCCGATCACA
52842840 CGGTCTGGCATACGAGCCGATCACA
1 CGGTCTGGCA-ACGAGCCGATCACA
52842865 CGG
1 CGG
52842868 ACTTGTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 8 0.35
24 4 0.17
25 11 0.48
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (24 bp):
CGGTCTGGCAACGAGCCGATCACA
Found at i:52848360 original size:49 final size:49
Alignment explanation
Indices: 52848205--52848381 Score: 207
Period size: 49 Copynumber: 3.6 Consensus size: 49
52848195 CAAGGCTATA
* * * * *
52848205 TCCCAGATATGGTCTTACATAGGATCACGTA--CTACTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCTCATATTCGA-TGCCAATGCCATG
* * *
52848253 TCCCAAACATGGTCTTACATGGGATATTACATATT-GATGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGAT-CT-CATATTCGATGCCAATGCCATG
*
52848303 TCCTAGACATGGTCTTACATGGGATCTCATATTCGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGATCTCATATTCGATGCCAATGCCATG
* *
52848352 TCCCAGACATGGTCCTACATGGGATTTCAT
1 TCCCAGACATGGTCTTACATGGGATCTCAT
52848382 TGGTCACGGG
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
48 28 0.26
49 42 0.39
50 38 0.35
51 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGATCTCATATTCGATGCCAATGCCATG
Found at i:52851995 original size:52 final size:50
Alignment explanation
Indices: 52851876--52852008 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 50
52851866 ACAATCTAGT
* *
52851876 ACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCGGAT
1 ACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAACCATCGGAA
* * ***
52851926 ACACGTAGTAGCATGCACCTAGTACTACACACGTGACCTAAAACCATTTTAA
1 ACACGTAGTAGCCTGCACATAGTACTACACACGTGACCT--AACCATCGGAA
*
52851978 ACACATAGTAGCCTGCACATAGTACTACACA
1 ACACGTAGTAGCCTGCACATAGTACTACACA
52852009 TGTGTTCTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 37 0.51
52 35 0.49
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.22
Consensus pattern (50 bp):
ACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAACCATCGGAA
Found at i:52860711 original size:40 final size:40
Alignment explanation
Indices: 52860628--52860930 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
52860618 TTGAATGCTG
* * * * * *
52860628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
52860668 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
52860708 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
52860748 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
52860788 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
52860828 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
52860868 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
52860907 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52860931 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:52873012 original size:16 final size:16
Alignment explanation
Indices: 52872975--52873012 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52872965 GTAGAATATC
52872975 ACATA-AGTACAACTT
1 ACATACAGTACAACTT
* *
52872990 TCTTACAGTACAACTT
1 ACATACAGTACAACTT
52873006 ACATACA
1 ACATACA
52873013 ATTAGGGTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (16 bp):
ACATACAGTACAACTT
Found at i:52873594 original size:80 final size:82
Alignment explanation
Indices: 52873461--52873625 Score: 262
Period size: 80 Copynumber: 2.0 Consensus size: 82
52873451 GAATACTATG
* *
52873461 TTTAAAAAGTACTAATAAGCTTTGCTATTTAAGAGAACATCATTACAGACTTGTA-T-GATATAT
1 TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTAGATATAT
*
52873524 ATTCATTTACTTAAGAT
66 ATTCATTTACTTAAAAT
* * *
52873541 TTTAAAAAGTACAAATGAGCTTTATTATTTAAGAGAACATCATTACAGACTTGTATTATATATAT
1 TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTAGATATAT
52873606 ATTCATTTACTTAAAAT
66 ATTCATTTACTTAAAAT
52873623 TTT
1 TTT
52873626 TGTTGTTTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 51 0.66
81 1 0.01
82 25 0.32
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (82 bp):
TTTAAAAAGTACAAATAAGCTTTACTATTTAAGAGAACATCATTACAGACTTGTATTAGATATAT
ATTCATTTACTTAAAAT
Found at i:52875709 original size:28 final size:28
Alignment explanation
Indices: 52875669--52875725 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
52875659 AATGTCAATG
52875669 TTGTAATTATGGCTAAGGTTTAGTTTTA
1 TTGTAATTATGGCTAAGGTTTAGTTTTA
52875697 TTGTAATTATGGCTAAGGTTTAGTTTTA
1 TTGTAATTATGGCTAAGGTTTAGTTTTA
52875725 T
1 T
52875726 GTTAAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (28 bp):
TTGTAATTATGGCTAAGGTTTAGTTTTA
Found at i:52887938 original size:48 final size:48
Alignment explanation
Indices: 52887866--52887965 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
52887856 GGTGCATGGC
* *
52887866 GTTCTCTTAAATATCTACGTGGTGGTTGTGTTTCTACAGCAGTTACTT
1 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
52887914 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
1 GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
52887962 GTTC
1 GTTC
52887966 CTCAATTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (48 bp):
GTTCTCTTAAAGATCTACGCGGTGGTTGTGTTTCTACAGCAGTTACTT
Found at i:52896994 original size:39 final size:40
Alignment explanation
Indices: 52896877--52897058 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
52896867 GCTACTCGTT
*
52896877 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
52896917 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
52896957 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52896996 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
52897037 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
52897059 AGACATCATT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 73 0.61
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52897021 original size:79 final size:81
Alignment explanation
Indices: 52896877--52897058 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
52896867 GCTACTCGTT
* * *
52896877 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
52896942 ATTTAGTAAC-TCGCG
66 ATATAGTAACTTAGCA
* **
52896957 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
52897019 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
52897037 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
52897059 AGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 54 0.62
80 29 0.33
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:52906551 original size:27 final size:27
Alignment explanation
Indices: 52906520--52906697 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52906510 TAAATTGTAC
52906520 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52906547 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52906573 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52906601 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52906629 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52906656 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52906683 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52906698 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52906634 original size:82 final size:81
Alignment explanation
Indices: 52906521--52906676 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52906511 AAATTGTACA
* *
52906521 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52906585 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52906602 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52906667 TGCGAGTTGA
65 TGCGAATTGA
52906677 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52906688 original size:82 final size:81
Alignment explanation
Indices: 52906517--52906697 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
52906507 GATTAAATTG
* *
52906517 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52906582 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52906598 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
52906662 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52906680 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52906698 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52911857 original size:20 final size:20
Alignment explanation
Indices: 52911834--52911900 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
52911824 TGCATTTGTA
*
52911834 TACACTTTGTTGTCCCTGTT
1 TACACTTTGTTGCCCCTGTT
*
52911854 TACACTATGTTGCCCCTGTT
1 TACACTTTGTTGCCCCTGTT
* *
52911874 TGCACATTTG-TGCCCTTGTT
1 TACAC-TTTGTTGCCCCTGTT
*
52911894 TGCACTT
1 TACACTT
52911901 CAGTTATAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.05
20 36 0.88
21 3 0.07
ACGTcount: A:0.12, C:0.27, G:0.16, T:0.45
Consensus pattern (20 bp):
TACACTTTGTTGCCCCTGTT
Found at i:52914103 original size:27 final size:26
Alignment explanation
Indices: 52914066--52914151 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
52914056 AACATGGCTT
*
52914066 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
52914092 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
52914119 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
*
52914146 CAAGAA
1 CCAGAA
52914152 ACATATAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
26 12 0.22
27 42 0.78
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:52914163 original size:27 final size:27
Alignment explanation
Indices: 52914068--52914173 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 27
52914058 CATGGCTTCC
* * * *
52914068 AGAACAGATAT-TGTGACAGAGTCACC
1 AGAACAGATATATGTGGCAAAGCCACA
* *
52914094 AGATACAGATAT-TGTGGCAGAGCCACC
1 AGA-ACAGATATATGTGGCAAAGCCACA
* *
52914121 AGAACAGATATTTGTGGCATAGCCACA
1 AGAACAGATATATGTGGCAAAGCCACA
*
52914148 AGAA-ACATATAATGTGGCAAAGCCAC
1 AGAACAGATAT-ATGTGGCAAAGCCAC
52914174 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 16 0.23
27 54 0.77
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (27 bp):
AGAACAGATATATGTGGCAAAGCCACA
Found at i:52914181 original size:53 final size:53
Alignment explanation
Indices: 52914066--52914173 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
52914056 AACATGGCTT
* * * * *
52914066 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACAAGAAACAGATAATGTGGCAAAGCCA
* * *
52914119 CCAGAACAGATATTTGTGGCATAGCCACAAGAAACATATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACAAGAAACAGATAATGTGGCAAAGCCA
52914173 C
1 C
52914174 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACAAGAAACAGATAATGTGGCAAAGCCA
Found at i:52914562 original size:27 final size:26
Alignment explanation
Indices: 52914516--52914578 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 26
52914506 GTGACAAAGA
52914516 CACCAGATACAGATACTGTGGCAGAGC
1 CACCAGA-ACAGATACTGTGGCAGAGC
* *
52914543 CACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAACAGATA-CTGTGGCAGAGC
52914570 CACCAGAAC
1 CACCAGAAC
52914579 GCTTCCTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 7 0.21
27 26 0.79
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (26 bp):
CACCAGAACAGATACTGTGGCAGAGC
Found at i:52914832 original size:27 final size:27
Alignment explanation
Indices: 52914802--52914917 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
52914792 GGGGTAAAAT
*
52914802 GGTAATTTTATCCC-ACAAGGGTATCTC
1 GGTAATTTTA-CCCTACAAGGGTATTTC
* *
52914829 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
52914856 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
52914883 AGTAATTCTACCCTA-TAGCGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
*
52914910 AGTAATTT
1 GGTAATTT
52914918 GGTAAACTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.07
27 71 0.93
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:52917150 original size:27 final size:26
Alignment explanation
Indices: 52917106--52917209 Score: 118
Period size: 27 Copynumber: 3.9 Consensus size: 26
52917096 TGGCTGCCAG
* *
52917106 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAA
* *
52917132 ATATAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAA
*
52917159 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATA-TTGTGGCAGAGCCACCA-A
* *
52917187 AACAGATAATGTGGCAAAGCCAC
1 AACAGATATTGTGGCAGAGCCAC
52917210 TTAACAGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 7 0.11
27 51 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAA
Found at i:52917194 original size:54 final size:53
Alignment explanation
Indices: 52917102--52917209 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 53
52917092 AGCATGGCTG
* * * *
52917102 CCAGAACAGATATTGTGACAGAGTCACCAAATATAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAAATACAGATAATGTGGCAAAGCCA
* *
52917155 CCAGAACAGATATTTGTGGCATAGCCACCAGAA-ACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCA-AATACAGATAATGTGGCAAAGCCA
52917209 C
1 C
52917210 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 12 0.26
54 33 0.70
55 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAAATACAGATAATGTGGCAAAGCCA
Found at i:52917415 original size:22 final size:22
Alignment explanation
Indices: 52917367--52917425 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52917357 GTAAATACGT
*
52917367 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
52917389 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
52917411 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
52917426 TGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:52917583 original size:27 final size:26
Alignment explanation
Indices: 52917536--52917615 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
52917526 ATCGGTCAAT
* *
52917536 AGATATTGTGACAAAGTCACCAGATAC
1 AGATATTGTGGCAAAGCCACCAGA-AC
* *
52917563 AGATATTGTGGCAGAGGCACCAGAAC
1 AGATATTGTGGCAAAGCCACCAGAAC
*
52917589 AGATATTCGTGGCATAGCCACCAGAAC
1 AGATATT-GTGGCAAAGCCACCAGAAC
52917616 GCTTCCTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 9 0.19
27 38 0.81
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
AGATATTGTGGCAAAGCCACCAGAAC
Found at i:52917885 original size:27 final size:27
Alignment explanation
Indices: 52917841--52917945 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
52917831 GGTAAAATGG
* * * * *
52917841 TAATTTTACCCCATAAGGGCATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
52917868 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
52917895 TATTTCTACACTACAAGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
52917921 GTAATTCTACCCTATAGGGGTATTT
1 -TAATTCTACCCTACAAGGGTATTT
52917946 TAGTAATTTG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:52917950 original size:27 final size:27
Alignment explanation
Indices: 52917868--52917953 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
52917858 GGCATCTCGA
*
52917868 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAG
* *
52917895 TATTTCTACACTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAG
* * *
52917922 TAATTCTACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAG
52917949 TAATT
1 TAATT
52917954 TGGTAAACTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCAG
Found at i:52918260 original size:9 final size:9
Alignment explanation
Indices: 52918246--52918270 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
52918236 GAGTTAATCC
52918246 GCACTCTGA
1 GCACTCTGA
52918255 GCACTCTGA
1 GCACTCTGA
52918264 GCACTCT
1 GCACTCT
52918271 TAGCCGACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.24
Consensus pattern (9 bp):
GCACTCTGA
Found at i:52918437 original size:16 final size:16
Alignment explanation
Indices: 52918416--52918450 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
52918406 GATCCCTCAA
52918416 TCATCAGAGTTTAAAT
1 TCATCAGAGTTTAAAT
52918432 TCATCAGAGTTTAAAT
1 TCATCAGAGTTTAAAT
52918448 TCA
1 TCA
52918451 AGACCAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (16 bp):
TCATCAGAGTTTAAAT
Found at i:52920215 original size:26 final size:26
Alignment explanation
Indices: 52920174--52920307 Score: 110
Period size: 27 Copynumber: 5.0 Consensus size: 26
52920164 AGTATGGCTG
* * *
52920174 CCAGAACAAAGATTGT-GAAGAGTCA
1 CCAGAACAGATATTGTGGAAGAGCCA
*
52920199 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGAAGAGCCA
* * *
52920226 CCAGAACAGATATTTATGGTATAGCCA
1 CCAGAACAGATA-TTGTGGAAGAGCCA
* * *
52920253 CCAGAACAGATATTTATGGTATAGCCA
1 CCAGAACAGATA-TTGTGGAAGAGCCA
*
52920280 CCAGAAACAGATAATGTGGCAA-AGCCA
1 CCAG-AACAGATATTGTGG-AAGAGCCA
52920307 C
1 C
52920308 TTAACAGAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
25 5 0.05
26 16 0.17
27 65 0.68
28 9 0.09
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGAAGAGCCA
Found at i:52920306 original size:54 final size:54
Alignment explanation
Indices: 52920197--52920307 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
52920187 TGTGAAGAGT
* * * *
52920197 CACCAGATACAGATATTGTGGTAGAGCCACCAGAACAGATATTTATGGTATAGC
1 CACCAGATACAGATATTATGGTAGAGCCACCAGAACAGATATATATGGCAAAGC
* *
52920251 CACCAGA-ACAGATATTTATGGTATAGCCACCAGAAACAGATA-ATGTGGCAAAGC
1 CACCAGATACAGATA-TTATGGTAGAGCCACCAG-AACAGATATATATGGCAAAGC
52920305 CAC
1 CAC
52920308 TTAACAGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 7 0.14
54 34 0.69
55 8 0.16
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (54 bp):
CACCAGATACAGATATTATGGTAGAGCCACCAGAACAGATATATATGGCAAAGC
Found at i:52920307 original size:27 final size:27
Alignment explanation
Indices: 52920197--52920292 Score: 149
Period size: 27 Copynumber: 3.5 Consensus size: 27
52920187 TGTGAAGAGT
* *
52920197 CACCAGATACAGATA-TTGTGGTAGAGC
1 CACCAGA-ACAGATATTTATGGTATAGC
52920224 CACCAGAACAGATATTTATGGTATAGC
1 CACCAGAACAGATATTTATGGTATAGC
52920251 CACCAGAACAGATATTTATGGTATAGC
1 CACCAGAACAGATATTTATGGTATAGC
52920278 CACCAGAAACAGATA
1 CACCAG-AACAGATA
52920293 ATGTGGCAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATATTTATGGTATAGC
Found at i:52920388 original size:32 final size:32
Alignment explanation
Indices: 52920321--52920396 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
52920311 ACAGAATACG
* *
52920321 TGGCACAAAGCCATCAATAACTGTAATAACTT
1 TGGCACAAAGCCATCAATAACGGTAATAACAT
* * *
52920353 TGGCACATAGCCATCAGTGACGGTAAT-ACAAT
1 TGGCACAAAGCCATCAATAACGGTAATAAC-AT
*
52920385 TGGCACACAGCC
1 TGGCACAAAGCC
52920397 TTCGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 2 0.05
32 35 0.95
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (32 bp):
TGGCACAAAGCCATCAATAACGGTAATAACAT
Found at i:52920513 original size:22 final size:22
Alignment explanation
Indices: 52920465--52920523 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52920455 GTAAATACGT
*
52920465 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
52920487 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
52920509 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
52920524 CGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:52920670 original size:27 final size:26
Alignment explanation
Indices: 52920631--52920713 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
52920621 TCGATCGGTC
* *
52920631 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
52920657 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
52920684 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
52920711 AAC
1 AAC
52920714 GCTTCCTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:52920967 original size:27 final size:27
Alignment explanation
Indices: 52920937--52921043 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
52920927 GAGGTAAAAT
* * *
52920937 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52920964 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
52920991 GGTATTTCTACCCTACAAGGATATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
52921018 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
52921044 TAGTAATTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:52921003 original size:54 final size:53
Alignment explanation
Indices: 52920941--52921043 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
52920931 TAAAATGGTA
*
52920941 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
52920994 ATTTCTACCCTACAAGGATATTTTGGTAATTCTACCCTACAGGGGTATTT
1 ATTT-TACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTT
52921044 TAGTAATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.09
54 41 0.91
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (53 bp):
ATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:52922080 original size:24 final size:23
Alignment explanation
Indices: 52922026--52922071 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
52922016 ATGGCTAGGT
52922026 AAAATTTTTAAGTTATGCATTAA
1 AAAATTTTTAAGTTATGCATTAA
52922049 AAAATTTTTAAGTTATGCATTAA
1 AAAATTTTTAAGTTATGCATTAA
52922072 GGGTATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
AAAATTTTTAAGTTATGCATTAA
Found at i:52924851 original size:94 final size:94
Alignment explanation
Indices: 52924753--52925266 Score: 722
Period size: 94 Copynumber: 5.5 Consensus size: 94
52924743 TTAGGATTTT
* ** * * * *
52924753 ATGTGATGGATGTGAATGTGTATACATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * **
52924818 TGCATTTGTGTGCTAAGGCCGAATGGAAA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
52924847 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
52924912 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* *
52924941 ATGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
52925006 TGCATATATGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
52925035 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
52925100 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
52925129 ATGTGAAGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** *
52925194 TGCATACATGTGATAAGGCAGAATGGCCA
66 TGCATATGTGTGATAAGGCCGAATGGCCA
* * ** ** *
52925223 ATGTGATGAACGTGGATGTGTATATATGTGGGAATGCCGAATGG
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGG
52925267 TTAATGCGAA
Statistics
Matches: 382, Mismatches: 38, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 382 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:52924897 original size:24 final size:24
Alignment explanation
Indices: 52924824--52924898 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
52924814 AACATGCATT
*
52924824 TGTGTGCTAAGGCCGAATGGAAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * *
52924848 TGTGATG--AATG-TGAACAT-GCATA
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
52924871 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
52924895 TGTG
1 TGTG
52924899 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.35
24 18 0.49
25 3 0.08
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:52925041 original size:22 final size:22
Alignment explanation
Indices: 52925013--52925088 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
52925003 ACATGCATAT
52925013 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
52925035 ATGTGATGAATG-TGAACATGTATA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
52925059 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
52925082 ATGTGAT
1 ATGTGAT
52925089 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:52925229 original size:22 final size:22
Alignment explanation
Indices: 52925154--52925229 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
52925144 ACATGCATAT
*
52925154 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
52925176 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
52925200 CATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
52925223 ATGTGAT
1 ATGTGAT
52925230 GAACGTGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:52925266 original size:47 final size:47
Alignment explanation
Indices: 52924784--52925232 Score: 700
Period size: 47 Copynumber: 9.6 Consensus size: 47
52924774 ATACATGAGC
* * * *
52924784 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
** * *
52924831 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATATGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
52924878 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
52924925 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
52924972 TAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
52925019 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
52925066 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
52925113 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
52925160 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
52925207 TAAGGCAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
52925233 CGTGGATGTG
Statistics
Matches: 376, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 376 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
Found at i:52925299 original size:46 final size:46
Alignment explanation
Indices: 52925246--52925336 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
52925236 GGATGTGTAT
* * * *
52925246 ATATGTGGGAATGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
52925292 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
52925337 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.29
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:52942661 original size:21 final size:21
Alignment explanation
Indices: 52942637--52942681 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
52942627 AAATGAAAAG
52942637 TTATTCATAGATAAACAACTT
1 TTATTCATAGATAAACAACTT
52942658 TTATTCATAGATAAACAACTT
1 TTATTCATAGATAAACAACTT
52942679 TTA
1 TTA
52942682 CAAAGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (21 bp):
TTATTCATAGATAAACAACTT
Done.