Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 153 of 253
Found at i:49197629 original size:19 final size:19
Alignment explanation
Indices: 49197593--49197631 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49197583 TTTTCATCAT
* *
49197593 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
49197612 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
49197631 A
1 A
49197632 ATAAGTAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:49198183 original size:28 final size:28
Alignment explanation
Indices: 49198097--49198186 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 28
49198087 GTGACAGAGT
*
49198097 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
* **
49198126 CACCAGAATAGAT-ATACGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
49198153 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
49198181 CACCAG
1 CACCAG
49198187 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
27 21 0.42
28 21 0.42
29 8 0.16
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:49198342 original size:28 final size:28
Alignment explanation
Indices: 49198292--49198356 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
49198282 AAATTAACCC
* *
49198292 TAGGGGTATAACGGTCATTTTGCACACA
1 TAGGGGTATAACGGTAATATTGCACACA
* *
49198320 TAGGGGTATAATGGTAATATTGCATACA
1 TAGGGGTATAACGGTAATATTGCACACA
49198348 TAGGGGTAT
1 TAGGGGTAT
49198357 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATATTGCACACA
Found at i:49199433 original size:12 final size:13
Alignment explanation
Indices: 49199414--49199446 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
49199404 GGGTTCGGCT
49199414 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
49199427 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
49199439 ATGGAGAA
1 ATGGAGAA
49199447 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:49205423 original size:19 final size:19
Alignment explanation
Indices: 49205387--49205425 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49205377 TTTTCATCAT
* *
49205387 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
49205406 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
49205425 A
1 A
49205426 ATAATTAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:49205940 original size:27 final size:28
Alignment explanation
Indices: 49205883--49205952 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
49205873 GTGACAGAGT
** * *
49205883 CACCAGATACAGATATTTTGTGGCTGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
49205912 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
49205939 CACCAGAACAGATA
1 CACCAGAACAGATA
49205953 ATTTGTGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 23 0.62
28 7 0.19
29 7 0.19
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:49205969 original size:28 final size:28
Alignment explanation
Indices: 49205883--49205972 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
49205873 GTGACAGAGT
* *
49205883 CACCAGATACAGATATTTTGTGGC-TGTGC
1 CACCAGA-ACAGATAATTTGTGGCAT-AGC
** **
49205912 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCATAGC
49205939 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
49205967 CACCAG
1 CACCAG
49205973 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.42
28 22 0.44
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:49206125 original size:28 final size:28
Alignment explanation
Indices: 49206078--49206142 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
49206068 AAATTAACCC
*
49206078 TAGGGGTATAAAGGTTATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
49206106 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
49206134 TAGGGGTAT
1 TAGGGGTAT
49206143 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:49210628 original size:13 final size:13
Alignment explanation
Indices: 49210595--49210628 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
49210585 AATATTTGAC
*
49210595 TTGTTCTTAATTA
1 TTGTTTTTAATTA
49210608 TGTGTTTTTAATTA
1 T-TGTTTTTAATTA
49210622 TTGTTTT
1 TTGTTTT
49210629 GATATTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (13 bp):
TTGTTTTTAATTA
Found at i:49225770 original size:37 final size:37
Alignment explanation
Indices: 49225720--49225798 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49225710 TTATTACGAA
* *
49225720 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
49225757 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
49225794 GTCTT
1 GTCTT
49225799 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:49225995 original size:47 final size:47
Alignment explanation
Indices: 49225917--49226108 Score: 285
Period size: 47 Copynumber: 4.1 Consensus size: 47
49225907 CCCTTCGGGA
* * * * * * *
49225917 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
49225964 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49226011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49226058 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49226105 CTTA
1 CTTA
49226109 CTATCATTTC
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49229583 original size:40 final size:40
Alignment explanation
Indices: 49229526--49229708 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
49229516 CCAGCATGAT
* *
49229526 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
49229566 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
49229606 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
49229647 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
49229687 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
49229709 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:49230054 original size:29 final size:29
Alignment explanation
Indices: 49230015--49230093 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49230005 CTTAATAATC
*
49230015 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49230045 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49230074 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49230094 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49230136 original size:43 final size:43
Alignment explanation
Indices: 49230075--49230177 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
49230065 TGCATTTCAA
49230075 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49230118 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49230161 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
49230178 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:49232081 original size:37 final size:37
Alignment explanation
Indices: 49232031--49232109 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49232021 TTATTACGAA
* *
49232031 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
49232068 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
49232105 GTCTT
1 GTCTT
49232110 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:49232345 original size:47 final size:47
Alignment explanation
Indices: 49232228--49232514 Score: 468
Period size: 47 Copynumber: 6.1 Consensus size: 47
49232218 CCCTTCGGGA
* * * * * * *
49232228 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
49232275 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49232321 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49232368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49232415 CTTATCACATATATACACTTTCACATTCATCACACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCAT--CACATCGGCCATTAGGC
49232464 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49232511 CTTA
1 CTTA
49232515 CTATCATTTC
Statistics
Matches: 226, Mismatches: 11, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 37 0.16
47 142 0.63
49 47 0.21
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49235293 original size:80 final size:79
Alignment explanation
Indices: 49235161--49235381 Score: 320
Period size: 80 Copynumber: 2.8 Consensus size: 79
49235151 ACCAAAGCAT
* * * * *
49235161 CTTCGGGATTTAG-CCGAATATAACTACTTGCTCAAATGCCTTTGGGACTTAGCCCAGTTATAGT
1 CTTCGGGACTTAGCCCGAATAT-AGTACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTATAGT
49235225 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
49235240 CTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGAATATAGT-ACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTATAGT
49235305 AACTCGCACAAATGC
65 AACTCGCACAAATGC
49235320 CTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTAT
1 CTTCGGGACTTAGCCC-GAATATAGT-ACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTAT
49235382 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 14 0.11
80 110 0.86
81 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGAATATAGTACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTATAGTA
ACTCGCACAAATGC
Found at i:49235377 original size:40 final size:40
Alignment explanation
Indices: 49235193--49235377 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
49235183 ACTACTTGCT
* * *
49235193 CAAATGCCTTTGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
49235233 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
49235273 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49235313 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
49235353 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49235378 TTATCATCCG
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49238085 original size:25 final size:25
Alignment explanation
Indices: 49238057--49238126 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
49238047 TCTTGTATAT
49238057 GTATGCTCACACAAGCTGTAAATTG
1 GTATGCTCACACAAGCTGTAAATTG
**
49238082 GTATGCTCACATGAGCTGTAAATTG
1 GTATGCTCACACAAGCTGTAAATTG
* * * *
49238107 ATATACGCTCACAAGCTGTA
1 GTATGCTCACACAAGCTGTA
49238127 GGTCAGAACG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTAAATTG
Found at i:49239613 original size:43 final size:43
Alignment explanation
Indices: 49239552--49239833 Score: 411
Period size: 43 Copynumber: 6.6 Consensus size: 43
49239542 AGGATTTTTT
**
49239552 ATATGTGATTACGTGTAAGACCACGTCTTAGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * *
49239595 ATATGTGATTATGTGTAAGAACACGTCTGGGATGCTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
49239638 ATATGTGATTACGTGTAAGAGCACGTCTAGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * * *
49239681 ATATGGGATTATGTGTGAGACCACGTCTGGGACGTTCGCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
49239724 ATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
49239767 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
49239810 ATATGTGACTACGAGTAAGACCAC
1 ATATGTGATTACGTGTAAGACCAC
49239834 ATTTAATACA
Statistics
Matches: 210, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 210 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:49239896 original size:56 final size:56
Alignment explanation
Indices: 49239821--49240165 Score: 483
Period size: 56 Copynumber: 6.2 Consensus size: 56
49239811 TATGTGACTA
* * * *
49239821 CGAGTAAGACCACATTTAATACATTGGCATCGATATTTGATTCTGATGTGTGTGTG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
* * * * *
49239877 CGAGTAAGACCACGTTTAATACGTTAGCATCGATATATGATTTCAATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
49239933 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
* * * * *
49239989 CGACTAAGACCATGTTTAACATATTGGCATCGATATGTGATTCCAATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
* * ** *
49240045 CAAGTAAGACCATGTTTAATATGTTGGTATCGATATGTGATTCCGATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
* * * *
49240101 CGAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCCGATATGTGTTTA
1 CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
49240157 CGAGTAAGA
1 CGAGTAAGA
49240166 TCCTGTGTGA
Statistics
Matches: 258, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 258 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATTCCGATATGTGTGTG
Found at i:49243406 original size:40 final size:41
Alignment explanation
Indices: 49243271--49243456 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
49243261 TACTCGAATG
*
49243271 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
49243312 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
49243353 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * * * *
49243393 ATATCCAGGCTAAGTCCCGAAGGCATTTATGC-GAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
49243433 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49243457 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.45
41 69 0.53
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:49243476 original size:39 final size:40
Alignment explanation
Indices: 49243271--49243478 Score: 148
Period size: 41 Copynumber: 5.2 Consensus size: 40
49243261 TACTCGAATG
* ** * * *
49243271 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCACTTATGC-GAGTGACT
* ** * * *
49243312 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCACTTATGC-GAGTGACT
* * * * * * *
49243353 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCACTTATGCGAGTGACT
* * * *
49243393 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCGAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCACTTATGCGAGTGACT
* * **
49243433 ATATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCACTTATGCGAGTGACT
49243472 ATATCCG
1 ATATCCG
49243479 ACTAAACCCC
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 17 0.12
40 59 0.41
41 68 0.47
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCACTTATGCGAGTGACT
Found at i:49251365 original size:40 final size:40
Alignment explanation
Indices: 49251223--49251408 Score: 248
Period size: 41 Copynumber: 4.6 Consensus size: 40
49251213 TACTCGAATG
*
49251223 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
49251264 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GCGACT
* * *
49251305 ACATCCGGACTAAAAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
49251345 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
49251385 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49251409 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 59 0.45
41 65 0.50
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:49254305 original size:37 final size:37
Alignment explanation
Indices: 49254255--49254333 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
49254245 TTATTATGAA
* * * *
49254255 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
49254292 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49254329 GTCTT
1 GTCTT
49254334 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49254530 original size:47 final size:47
Alignment explanation
Indices: 49254452--49254668 Score: 335
Period size: 47 Copynumber: 4.6 Consensus size: 47
49254442 CCCTTCGGGA
* * * * * *
49254452 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49254499 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49254546 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49254593 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49254640 CTTATCACATATATACACTTTCACCTTCA
1 CTTATCACATATATACACTTTCACATTCA
49254669 CGAATTTGAT
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49259487 original size:40 final size:40
Alignment explanation
Indices: 49259391--49259660 Score: 368
Period size: 40 Copynumber: 6.8 Consensus size: 40
49259381 ATAACCACAA
* * * *
49259391 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
49259431 G--CAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
49259469 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
49259509 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
49259549 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
49259589 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
49259629 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
49259661 CATTCAAATG
Statistics
Matches: 204, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 34 0.17
39 4 0.02
40 158 0.77
41 8 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:49259602 original size:120 final size:118
Alignment explanation
Indices: 49259371--49259656 Score: 484
Period size: 120 Copynumber: 2.4 Consensus size: 118
49259361 TCTTCGGAAT
* * *
49259371 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAA
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAA
49259435 ATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 ATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
49259488 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCG--C
49259553 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
64 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
49259608 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
49259657 ATATCATTCA
Statistics
Matches: 159, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
117 4 0.03
118 54 0.34
120 101 0.64
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (118 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAA
ATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:49262353 original size:46 final size:44
Alignment explanation
Indices: 49262265--49262378 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 44
49262255 CCCAATGCCG
*
49262265 TGTCCCAAACATGGTCTTACACTAACACATCTCGTAGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTAACACATCTCGTAGCCGATGCA
* *
49262310 TGTCCCAGACATGTCTTACACTGACTTACGTCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAAC--ACATCTCGTA-GCCGATGCA
*
49262356 TGTCCTAGACATGTCTTACACTA
1 TGTCCCAGACATGTCTTACACTA
49262379 GCTCACAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.20
45 12 0.20
46 37 0.61
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAACACATCTCGTAGCCGATGCA
Found at i:49265242 original size:42 final size:43
Alignment explanation
Indices: 49265134--49265292 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
49265124 AGTTCGTACA
* * * *
49265134 ATGCCAATTTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * * *
49265177 ATGCCATTGTCCCAAAGAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
49265219 ATGCCAATGTCCCAGACATGGTCTTACACGTAGATCACGAAT-T-G
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA--AATATCG
** *
49265263 ATGCCAACATCCCAAACATGG-CTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
49265293 TAACACATAT
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 29 0.31
43 44 0.47
44 19 0.20
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:49265288 original size:85 final size:85
Alignment explanation
Indices: 49265134--49265292 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
49265124 AGTTCGTACA
* * * *** *
49265134 ATGCCAATTTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAAAGAAGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACATCCCAAACAAGGT
49265199 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
*
49265219 ATGCCAATGTCCCAGACATGGTCTTACACGTAGATCACGAAT-T-GATGCCAACATCCCAAACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTA-ATCA--AATATCGATGCCAACATCCCAAACAA
49265282 GG-CTTACACGA
63 GGTCTTACACGA
49265293 TAACACATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
85 38 0.60
86 21 0.33
87 1 0.02
88 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAACATCCCAAACAAGGT
CTTACACGAAATCATATACG
Found at i:49272510 original size:53 final size:53
Alignment explanation
Indices: 49272332--49272575 Score: 221
Period size: 55 Copynumber: 4.6 Consensus size: 53
49272322 ATTAGGGTTT
* * * *
49272332 AAGGATACCATGTAAAACCATGCCAAGGCATGAAAGTTGGTAAGGTTTCTAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACA-TTGGTAA-GTTTCTAAGGC
* * * *
49272387 GAGGATATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTC--TAAGGC
* * * * *
49272442 AAAGG-TCCCATGTAAGACCATACCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTC-TAAGGC
* * * *
49272495 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTCTAAGGC
* *
49272544 AAGGATACCATGTAAGACCATGACAAGTCATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
49272576 GAAATGGTAA
Statistics
Matches: 157, Mismatches: 27, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 29 0.18
52 6 0.04
53 43 0.27
54 12 0.08
55 64 0.41
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTTCTAAGGC
Found at i:49272538 original size:108 final size:110
Alignment explanation
Indices: 49272339--49272541 Score: 268
Period size: 108 Copynumber: 1.9 Consensus size: 110
49272329 TTTAAGGATA
* * *
49272339 CCATGTAAAACCATGCCAAGGCATGAAAGTTGGTAAGGTTTCTAAGACGAGGATATCATGTAAGA
1 CCATGTAAAACCATACCAAGGCATGAAAGTTGGTAAGGTTTCTAAGACAAGGATACCATGTAAGA
*
49272404 CCATGTCAAGACATGACATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
* ** * *
49272449 CCATGTAAGACCATACCAAGGCATGGCA-TTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAAACCATACCAAGGCATGAAAGTTGGTAAGGTTTC-TAAGACAAGGATACCATGTAAG
* * *
49272511 ACCATGTCGAGACATGGCAATGGTAAGTTTC
65 ACCATGTCAAGACATGACAATGATAAGTTTC
49272542 AAAAGGATAC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 6 0.08
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (110 bp):
CCATGTAAAACCATACCAAGGCATGAAAGTTGGTAAGGTTTCTAAGACAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:49277983 original size:73 final size:73
Alignment explanation
Indices: 49277903--49278049 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
49277893 AAAAACTCCA
49277903 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
1 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
49277968 TTATCAAC
66 TTATCAAC
49277976 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
1 ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
49278041 TTATCAAC
66 TTATCAAC
49278049 A
1 A
49278050 ATGGTATAAC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.30
Consensus pattern (73 bp):
ATACAAAATATGTTAATCTAAAACATATATTTCATATTTCATCATCAAACAACAAAAATCACAAG
TTATCAAC
Found at i:49283489 original size:44 final size:42
Alignment explanation
Indices: 49283339--49283505 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 42
49283329 CGAAAAGCTC
* * * * *
49283339 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
* * * * *
49283381 ATATTGATGCC-AC-TAACCCAAATAGGGTCTTACATGAAATCAA
1 ATA-CGATGCCAACGT--CCCAGACATGGTCTTACACGAAATCAA
* * *
49283424 ATACGATGCCGATGTCTCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-A
*
49283468 AGT-CGATGCCAACGTCCCAGACGTGGTCTTACACGAAA
1 A-TACGATGCCAACGTCCCAGACATGGTCTTACACGAAA
49283506 AAACATATCG
Statistics
Matches: 98, Mismatches: 19, Indels: 15
0.74 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 40 0.41
44 31 0.32
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:49290628 original size:43 final size:43
Alignment explanation
Indices: 49290567--49290653 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
49290557 AAATGTCTTC
** *
49290567 CAATCGAGCACAAGATGAGTTTAAGGGAGCCGAGAGCCATGCT
1 CAATCGAGCACAAGATGAGTCCAAGGGAGCCAAGAGCCATGCT
* * *
49290610 CAATCGAGCATAAGATGAGTCCGAGGGAGCTAAGAGCCATGCT
1 CAATCGAGCACAAGATGAGTCCAAGGGAGCCAAGAGCCATGCT
49290653 C
1 C
49290654 TAGCTTCCGT
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:0.32, C:0.22, G:0.30, T:0.16
Consensus pattern (43 bp):
CAATCGAGCACAAGATGAGTCCAAGGGAGCCAAGAGCCATGCT
Found at i:49301617 original size:43 final size:43
Alignment explanation
Indices: 49301549--49301700 Score: 166
Period size: 43 Copynumber: 3.5 Consensus size: 43
49301539 AGCCTGTATA
* *
49301549 ATGCCAACGTCCCAGACATGTTCTTACATGTAATCAAATATCG
1 ATGCCGACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
* *
49301592 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATCAAATAT-G
1 ATGCCGAC-GTCCCAGACATGGTCTTACATGTAATCAAATATCG
* * * * *
49301634 ATGCCGATGTCACAGATATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCGACGTCCCAGACATGGTCTTACATGT-AATCA-AATATCG
*
49301678 ATGCCGACGTCCCAGACGTGGTC
1 ATGCCGACGTCCCAGACATGGTC
49301701 CTGCACGAAA
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 26 0.29
43 42 0.47
44 22 0.24
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
Found at i:49311698 original size:54 final size:54
Alignment explanation
Indices: 49311640--49311966 Score: 219
Period size: 54 Copynumber: 6.1 Consensus size: 54
49311630 AAATTTATTT
** ** * **
49311640 TTACAAGATTTTTTGAATCTTGTGGCTCATTGATTTAAGATCGCAGTCTTATAC
1 TTACAAGATTTTTCAAATCTTGTGGCTCGCTAATTTAAGATCGCAACCTTATAC
* * * * * * * *
49311694 TTACAGGATTTTCCAAATCTTGCAGG-TTG-TCAATTTAATATTGTAACCTTATAT
1 TTACAAGATTTTTCAAATCTTG-TGGCTCGCT-AATTTAAGATCGCAACCTTATAC
* * ** * *
49311748 TTAGAA-TTTTTTTTAATCTTGTGGCTCGCTAATTTAAGATCACAGCCTTATAC
1 TTACAAGATTTTTCAAATCTTGTGGCTCGCTAATTTAAGATCGCAACCTTATAC
* * ** * * *
49311801 TTATAAGATTTTCCAAATCTTACGGTTTGCTGATTTAAGATCGCAACCTTATAC
1 TTACAAGATTTTTCAAATCTTGTGGCTCGCTAATTTAAGATCGCAACCTTATAC
* ** ** * * * * **
49311855 TTATAAGATTTTTTTGAATCTTGCCGCTTGCCAATTTAAGATCACAAGCTTATGT
1 TTACAAGA-TTTTTCAAATCTTGTGGCTCGCTAATTTAAGATCGCAACCTTATAC
* * * *
49311910 TTACAAGATTTTTCAAATCTTGTGACTCACTGATTTAAGATCCCAACCTTATAC
1 TTACAAGATTTTTCAAATCTTGTGGCTCGCTAATTTAAGATCGCAACCTTATAC
49311964 TTA
1 TTA
49311967 GGCTTAGTTT
Statistics
Matches: 201, Mismatches: 66, Indels: 12
0.72 0.24 0.04
Matches are distributed among these distances:
52 2 0.01
53 36 0.18
54 120 0.60
55 43 0.21
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (54 bp):
TTACAAGATTTTTCAAATCTTGTGGCTCGCTAATTTAAGATCGCAACCTTATAC
Found at i:49311837 original size:107 final size:108
Alignment explanation
Indices: 49311644--49311930 Score: 307
Period size: 107 Copynumber: 2.7 Consensus size: 108
49311634 TTATTTTTAC
** * * *
49311644 AAGA-TTTTTTGAATCTTGTGGCTCATTGATTTAAGATCGCAGTCTTATACTTACAGGATTTTCC
1 AAGATTTTTTTGAATCTTGTGGCTCGCTAATTTAAGATCACAG-CTTATACTTACAAGATTTTCC
* * * *
49311708 AAATCTTGCAGGTTGTCAATTTAATATTGTAACCTTATA-TT-T
65 AAATCTTACAGGTTGTCAATTTAAGATCGCAACCTTATACTTAT
* *
49311750 -AGAATTTTTTTTAATCTTGTGGCTCGCTAATTTAAGATCACAGCCTTATACTTATAAGATTTTC
1 AAG-ATTTTTTTGAATCTTGTGGCTCGCTAATTTAAGATCACAG-CTTATACTTACAAGATTTTC
*
49311814 CAAATCTTAC-GGTT-TGCTGATTTAAGATCGCAACCTTATACTTAT
64 CAAATCTTACAGGTTGT-C-AATTTAAGATCGCAACCTTATACTTAT
** * * ** *
49311859 AAGATTTTTTTGAATCTTGCCGCTTGCCAATTTAAGATCACAAGCTTATGTTTACAAGATTTTTC
1 AAGATTTTTTTGAATCTTGTGGCTCGCTAATTTAAGATCAC-AGCTTATACTTACAAGATTTTCC
49311924 AAATCTT
65 AAATCTT
49311931 GTGACTCACT
Statistics
Matches: 151, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
105 3 0.02
106 6 0.04
107 78 0.52
108 2 0.01
109 58 0.38
110 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (108 bp):
AAGATTTTTTTGAATCTTGTGGCTCGCTAATTTAAGATCACAGCTTATACTTACAAGATTTTCCA
AATCTTACAGGTTGTCAATTTAAGATCGCAACCTTATACTTAT
Found at i:49311918 original size:109 final size:108
Alignment explanation
Indices: 49311672--49311966 Score: 303
Period size: 109 Copynumber: 2.7 Consensus size: 108
49311662 TGGCTCATTG
* * * * * *
49311672 ATTTAAGATCGCAGTCTTATACTTACAGGATTTTCCAAATCTTGCAGGTTG-TCAATTTAATATT
1 ATTTAAGATCACAGCCTTATACTTACAAGATTTTCCAAATCTTGC-GGTTGCT-GATTTAAGATC
* * ** *
49311736 GTAACCTTATA-TT-TAGAATTTTTTTTAATCTTGTGGCTCGCTA
64 GCAACCTTATACTTATAGAATTTTTTTGAATCTTGCCGCTCGCCA
* *
49311779 ATTTAAGATCACAGCCTTATACTTATAAGATTTTCCAAATCTTACGGTTTGCTGATTTAAGATCG
1 ATTTAAGATCACAGCCTTATACTTACAAGATTTTCCAAATCTTGCGG-TTGCTGATTTAAGATCG
*
49311844 CAACCTTATACTTATA-AGATTTTTTTGAATCTTGCCGCTTGCCA
65 CAACCTTATACTTATAGA-ATTTTTTTGAATCTTGCCGCTCGCCA
** * * * **
49311888 ATTTAAGATCACAAG-CTTATGTTTACAAGATTTTTCAAATCTTGTGACTCACTGATTTAAGATC
1 ATTTAAGATCAC-AGCCTTATACTTACAAGATTTTCCAAATCTTGCG-GTTGCTGATTTAAGATC
*
49311952 CCAACCTTATACTTA
64 GCAACCTTATACTTA
49311967 GGCTTAGTTT
Statistics
Matches: 157, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
106 2 0.01
107 61 0.39
108 4 0.03
109 88 0.56
110 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (108 bp):
ATTTAAGATCACAGCCTTATACTTACAAGATTTTCCAAATCTTGCGGTTGCTGATTTAAGATCGC
AACCTTATACTTATAGAATTTTTTTGAATCTTGCCGCTCGCCA
Found at i:49313874 original size:19 final size:19
Alignment explanation
Indices: 49313838--49313876 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
49313828 TTTTCATCAT
* *
49313838 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
49313857 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
49313876 A
1 A
49313877 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:49314391 original size:27 final size:28
Alignment explanation
Indices: 49314340--49314404 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
49314330 GTGACAGAGT
* * *
49314340 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
49314369 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
49314396 CACCAGAAC
1 CACCAGAAC
49314405 GCTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 20 0.61
28 6 0.18
29 7 0.21
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:49314554 original size:28 final size:28
Alignment explanation
Indices: 49314507--49314571 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
49314497 AAATTAACCC
*
49314507 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
49314535 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
49314563 TAGGGGTAT
1 TAGGGGTAT
49314572 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:49314840 original size:16 final size:15
Alignment explanation
Indices: 49314819--49314850 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
49314809 CCAAAATACC
49314819 GGCTTTTCGGCATTTT
1 GGCTTTTCGGC-TTTT
49314835 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
49314850 G
1 G
49314851 CCGATCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:49318826 original size:14 final size:14
Alignment explanation
Indices: 49318807--49318835 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49318797 AAGAATATGG
49318807 TAGAATAAGCTTGA
1 TAGAATAAGCTTGA
49318821 TAGAATAAGCTTGA
1 TAGAATAAGCTTGA
49318835 T
1 T
49318836 TTTTTTATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (14 bp):
TAGAATAAGCTTGA
Found at i:49327879 original size:16 final size:16
Alignment explanation
Indices: 49327837--49327879 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
49327827 GTAGAACGGA
49327837 AAAAGCTGAAAAGTCG
1 AAAAGCTGAAAAGTCG
* *
49327853 AAATGTTGAAAAGTCG
1 AAAAGCTGAAAAGTCG
*
49327869 AAAAGCCGAAA
1 AAAAGCTGAAA
49327880 GAATGGCCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.12, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAAGCTGAAAAGTCG
Found at i:49328525 original size:20 final size:20
Alignment explanation
Indices: 49328494--49328588 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
49328484 GGACCTACTA
*
49328494 ATGGCTTTTGTGCCGCTATTG
1 ATGGC-TTTGTGCCACTATTG
49328515 ATGGCTTTGTGCCACTATTG
1 ATGGCTTTGTGCCACTATTG
*
49328535 ATGGCTTTGTACCACTATTG
1 ATGGCTTTGTGCCACTATTG
* * * *
49328555 ATGGCTTCGTGCCGCTACTC
1 ATGGCTTTGTGCCACTATTG
49328575 ATGGCTTTGTGCCA
1 ATGGCTTTGTGCCA
49328589 TATACTGATA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
20 60 0.92
21 5 0.08
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (20 bp):
ATGGCTTTGTGCCACTATTG
Found at i:49338092 original size:27 final size:27
Alignment explanation
Indices: 49338061--49338112 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
49338051 CTTAAGTGAG
49338061 ATAAGGGGGTGAATTATGTTGGATGTT
1 ATAAGGGGGTGAATTATGTTGGATGTT
49338088 ATAAGGGGGTGAATTATGTTGGATG
1 ATAAGGGGGTGAATTATGTTGGATG
49338113 CTAGTCCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (27 bp):
ATAAGGGGGTGAATTATGTTGGATGTT
Found at i:49338653 original size:28 final size:28
Alignment explanation
Indices: 49338622--49338754 Score: 104
Period size: 28 Copynumber: 4.7 Consensus size: 28
49338612 ATAATGTGAT
49338622 TTGGGCCGAATGGGCCATATAAATGAGA
1 TTGGGCCGAATGGGCCATATAAATGAGA
* * **
49338650 TTGGGCCTAATGGGCCATATGAATTTGA
1 TTGGGCCGAATGGGCCATATAAATGAGA
* * * * * *
49338678 TTGGGTCGGATGGGCTATATGAACGTAAA
1 TTGGGCCGAATGGGCCATATAAATG-AGA
** * *
49338707 TTAAGCCGGATGGGCTATATAAATGAGA
1 TTGGGCCGAATGGGCCATATAAATGAGA
* * *
49338735 TTTGGCCTAGTGGGCCATAT
1 TTGGGCCGAATGGGCCATAT
49338755 GCATGTATGT
Statistics
Matches: 80, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
28 59 0.74
29 21 0.26
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (28 bp):
TTGGGCCGAATGGGCCATATAAATGAGA
Found at i:49343144 original size:28 final size:29
Alignment explanation
Indices: 49343112--49343263 Score: 159
Period size: 29 Copynumber: 5.3 Consensus size: 29
49343102 GTATGCATAA
* *
49343112 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCGAATGGGCC
* * *
49343140 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCGAATGGGCC
*
49343168 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCGAATGGGCC
* *
49343197 ATATGAACGTGAATTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCGAATGGGCC
* * *
49343226 ATATAAAT-T-AGATTGGGCCTAGTGGGCC
1 ATATGAATGTGA-ATTGGGCCGAATGGGCC
*
49343254 ATATGCATGT
1 ATATGAATGT
49343264 ATGTAGGGGT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
27 1 0.01
28 48 0.46
29 55 0.53
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCGAATGGGCC
Found at i:49343241 original size:57 final size:58
Alignment explanation
Indices: 49343112--49343258 Score: 169
Period size: 57 Copynumber: 2.6 Consensus size: 58
49343102 GTATGCATAA
* ** *
49343112 ATAT-AATGTGATTTGGGCCGGATGGGCCATAT-AAATGAGATTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCCATATGAAATGAGATTGGGCCGAATGGGCC
* * *
49343168 ATATGAATGTGAATTGGGCCTAATGGGCCATATGAACGTGA-ATTGGGCCGGATGGGCC
1 ATATAAATGTGAATTGGGCCTAATGGGCCATATGAA-ATGAGATTGGGCCGAATGGGCC
*
49343226 ATATAAAT-T-AGATTGGGCCTAGTGGGCCATATG
1 ATATAAATGTGA-ATTGGGCCTAATGGGCCATATG
49343259 CATGTATGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
56 5 0.06
57 47 0.59
58 24 0.30
59 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (58 bp):
ATATAAATGTGAATTGGGCCTAATGGGCCATATGAAATGAGATTGGGCCGAATGGGCC
Found at i:49360043 original size:26 final size:27
Alignment explanation
Indices: 49359974--49360044 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
49359964 AGAAACAGTA
49359974 AATGTGGCAAAGCCACCAATAATAGTG
1 AATGTGGCAAAGCCACCAATAATAGTG
* * * *
49360001 AATGTGACATAGTCACCAGTACA-A-TG
1 AATGTGGCAAAGCCACCAATA-ATAGTG
49360027 AATGTGGCAAAGCCACCA
1 AATGTGGCAAAGCCACCA
49360045 TAACATAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 17 0.47
27 18 0.50
28 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
AATGTGGCAAAGCCACCAATAATAGTG
Found at i:49360187 original size:27 final size:27
Alignment explanation
Indices: 49360172--49360368 Score: 126
Period size: 27 Copynumber: 7.3 Consensus size: 27
49360162 GGCATAATTT
*
49360172 TCATTTTACCCTACAAGGGAATTATGG
1 TCATTTTACCCTACAAGGGAATAATGG
* * *
49360199 TCATTTTACCCTACAGGGGCATTATGG
1 TCATTTTACCCTACAAGGGAATAATGG
* * * * *
49360226 CCATTTTACCCTAC-GGGGCATTACGG
1 TCATTTTACCCTACAAGGGAATAATGG
* * * * * *
49360252 TCATTTTATCCTACAGGGGCATTACGA
1 TCATTTTACCCTACAAGGGAATAATGG
* * * * * * *
49360279 CCATTTTATCCTACAGGGGCATTACGA
1 TCATTTTACCCTACAAGGGAATAATGG
* * *
49360306 TCATTTTACCCTACAAAGGCATTATGG
1 TCATTTTACCCTACAAGGGAATAATGG
* * * *
49360333 TCATTTTACCCTTCAGGGGTATTATGG
1 TCATTTTACCCTACAAGGGAATAATGG
49360360 TCATTTTAC
1 TCATTTTAC
49360369 AAACCAGGGT
Statistics
Matches: 151, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.15
27 128 0.85
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAAGGGAATAATGG
Found at i:49360232 original size:54 final size:54
Alignment explanation
Indices: 49360173--49360368 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
49360163 GCATAATTTT
* * *
49360173 CATTTTACCCTACAAGGGAATTATGGTCATTTTACCCTACAGGGGCATTATGGC
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTATGGC
* * *
49360227 CATTTTACCCTAC-GGGGCATTACGGTCATTTTATCCTACAGGGGCATTACGAC
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTATGGC
* * ** *
49360280 CATTTTATCCTACAGGGGCATTACGATCATTTTACCCTACAAAGGCATTATGGT
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTATGGC
* * *
49360334 CATTTTACCCTTCAGGGGTATTATGGTCATTTTAC
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTAC
49360369 AAACCAGGGT
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
53 46 0.38
54 76 0.62
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (54 bp):
CATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTATGGC
Found at i:49360295 original size:80 final size:81
Alignment explanation
Indices: 49360172--49360356 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 81
49360162 GGCATAATTT
* * ** * *
49360172 TCATTTTACCCTACAAGGGAATTATGGTCATTTTACCCTACAGGGGCATTATGGCCATTTTACCC
1 TCATTTTACCCTACAGGGGAATTACGACCATTTTACCCTACAGGGGCATTACGACCATTTTACCC
**
49360237 TAC-GGGGCATTACGG
66 TACAAAGGCATTACGG
* * * *
49360252 TCATTTTATCCTACAGGGGCATTACGACCATTTTATCCTACAGGGGCATTACGATCATTTTACCC
1 TCATTTTACCCTACAGGGGAATTACGACCATTTTACCCTACAGGGGCATTACGACCATTTTACCC
*
49360317 TACAAAGGCATTATGG
66 TACAAAGGCATTACGG
* *
49360333 TCATTTTACCCTTCAGGGGTATTA
1 TCATTTTACCCTACAGGGGAATTA
49360357 TGGTCATTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 58 0.66
81 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGAATTACGACCATTTTACCCTACAGGGGCATTACGACCATTTTACCC
TACAAAGGCATTACGG
Found at i:49360376 original size:27 final size:27
Alignment explanation
Indices: 49360326--49360377 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
49360316 CTACAAAGGC
****
49360326 ATTATGGTCATTTTACCCTTCAGGGGT
1 ATTATGGTCATTTTACAAACCAGGGGT
49360353 ATTATGGTCATTTTACAAACCAGGG
1 ATTATGGTCATTTTACAAACCAGGG
49360378 TCTTAACGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTATGGTCATTTTACAAACCAGGGGT
Found at i:49398481 original size:27 final size:27
Alignment explanation
Indices: 49398449--49398514 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
49398439 AGCTGCCAAA
49398449 AACAGTAAATGTAGCA-AAGCCACCAGT
1 AACAGTAAATGTAGCATAA-CCACCAGT
* * *
49398476 ATCAGTAATTGTAGCATAACCACCTGT
1 AACAGTAAATGTAGCATAACCACCAGT
*
49398503 AACAGTGAATGT
1 AACAGTAAATGT
49398515 GACATAGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (27 bp):
AACAGTAAATGTAGCATAACCACCAGT
Found at i:49398702 original size:27 final size:27
Alignment explanation
Indices: 49398671--49398791 Score: 118
Period size: 27 Copynumber: 4.5 Consensus size: 27
49398661 GGACATAATT
* *
49398671 GTCATTTTACCATACAAGGGTATTACA
1 GTCATTTTACCCTACAAGGGCATTACA
* * * *
49398698 TTCATTTTACCCTATAGGGGCATTATA
1 GTCATTTTACCCTACAAGGGCATTACA
* * **
49398725 GTCATTTTACCCTTC-AGCGGTATTATG
1 GTCATTTTACCCTACAAG-GGCATTACA
* *
49398752 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACA
49398779 GTCATTTTACCCT
1 GTCATTTTACCCT
49398792 TCAAATAACG
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCATTACA
Found at i:49402204 original size:19 final size:21
Alignment explanation
Indices: 49402163--49402210 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
49402153 TTAAAATTTT
49402163 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
49402184 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
49402203 AACTAAAA
1 AACTAAAA
49402211 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:49404881 original size:22 final size:21
Alignment explanation
Indices: 49404856--49404896 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49404846 AATTGACTTC
*
49404856 AATATTTTAATTAAAATAATTA
1 AATATATTAATT-AAATAATTA
*
49404878 AATATATTAGTTAAATAAT
1 AATATATTAATTAAATAAT
49404897 ATTATGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATATTAATTAAATAATTA
Found at i:49404939 original size:13 final size:13
Alignment explanation
Indices: 49404918--49404960 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
49404908 GAATTAAATT
*
49404918 ATATTAATTTTAA
1 ATATAAATTTTAA
49404931 ATATAAATTTTAA
1 ATATAAATTTTAA
*
49404944 ATTTTAAA-TTTAA
1 A-TATAAATTTTAA
49404957 ATAT
1 ATAT
49404961 TATAGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 2 0.08
13 19 0.73
14 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATAAATTTTAA
Found at i:49407587 original size:14 final size:14
Alignment explanation
Indices: 49407565--49407604 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
49407555 TTTTATATTA
*
49407565 ATTTCTATTTTTAC
1 ATTTTTATTTTTAC
*
49407579 ATTTTTATTTTTAT
1 ATTTTTATTTTTAC
49407593 A-TTTTATTTTTA
1 ATTTTTATTTTTA
49407605 TTTATTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTTATTTTTAC
Found at i:49407588 original size:6 final size:6
Alignment explanation
Indices: 49407550--49407612 Score: 54
Period size: 6 Copynumber: 9.7 Consensus size: 6
49407540 CTCTTATTGC
* * *
49407550 TTATCTT TTATAT TAATTT CTATTT TTACATTT TTATTT TTATATT TTATTT
1 TTAT-TT TTATTT TTATTT TTATTT TT--ATTT TTATTT TTAT-TT TTATTT
49407602 TTATTT ATTAT
1 TTATTT -TTAT
49407613 CAATATTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 26 0.57
7 14 0.30
8 6 0.13
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (6 bp):
TTATTT
Found at i:49407597 original size:13 final size:13
Alignment explanation
Indices: 49407565--49407605 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
49407555 TTTTATATTA
*
49407565 ATTTCTATTTTTAC
1 ATTT-TATTTTTAT
49407579 ATTTTTATTTTTAT
1 A-TTTTATTTTTAT
49407593 ATTTTATTTTTAT
1 ATTTTATTTTTAT
49407606 TTATTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 10 0.40
15 3 0.12
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTATTTTTAT
Found at i:49407612 original size:13 final size:12
Alignment explanation
Indices: 49407550--49407612 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 12
49407540 CTCTTATTGC
*
49407550 TTATCTTTTATAT
1 TTAT-TTTTATTT
* *
49407563 TAATTTCTATTT
1 TTATTTTTATTT
49407575 TTACATTTTTATTT
1 TT--ATTTTTATTT
49407589 TTATATTTTATTT
1 TTAT-TTTTATTT
49407602 TTATTTATTAT
1 TTATTT-TTAT
49407613 CAATATTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
12 11 0.27
13 19 0.46
14 11 0.27
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:49407619 original size:19 final size:20
Alignment explanation
Indices: 49407597--49407646 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
49407587 TTTTATATTT
49407597 TATTTTTATTTA-TTATCAA
1 TATTTTTATTTATTTATCAA
*
49407616 TATTTCTATTTATTTATCAA
1 TATTTTTATTTATTTATCAA
*
49407636 TGTTTTT-TTTA
1 TATTTTTATTTA
49407647 AATTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTTTATTTATTTATCAA
Found at i:49408271 original size:8 final size:8
Alignment explanation
Indices: 49408258--49408285 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
49408248 GTTTTTTTTA
49408258 GGTTTAGG
1 GGTTTAGG
49408266 GGTTTAGG
1 GGTTTAGG
49408274 GGTTTAGG
1 GGTTTAGG
49408282 GGTT
1 GGTT
49408286 ATATAGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.50, T:0.39
Consensus pattern (8 bp):
GGTTTAGG
Found at i:49408457 original size:22 final size:22
Alignment explanation
Indices: 49408400--49408461 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
49408390 AAACCTCAAC
*
49408400 CCTTAAACC-ATAATTCATAAA
1 CCTTAAACCTATAACTCATAAA
*
49408421 CCTTAAA-ATAGTAACTCATAAA
1 CCTTAAACCTA-TAACTCATAAA
*
49408443 CCTTAAACCTTTAAC-CATA
1 CCTTAAACCTATAACTCATA
49408462 TACCCTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.35
22 21 0.62
23 1 0.03
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (22 bp):
CCTTAAACCTATAACTCATAAA
Found at i:49408635 original size:21 final size:21
Alignment explanation
Indices: 49408610--49408707 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 21
49408600 AATCTTTAAT
49408610 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
* * *
49408631 TCTTAAAACATAAACTCTTAA
1 TCTTAAACCATAAACCCTAAA
* * * * *
49408652 TCATAGACCCTTAACCCCTAAC
1 TCTTA-AACCATAAACCCTAAA
* * * *
49408674 CCCTAAACCTTAAACCCCAACA
1 TCTTAAACCATAAACCCTAA-A
49408696 -CTTAAACCATAA
1 TCTTAAACCATAA
49408708 TTCCTAAACC
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
21 44 0.79
22 12 0.21
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:49408970 original size:24 final size:23
Alignment explanation
Indices: 49408943--49408992 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
49408933 ATGTTTAGGG
* *
49408943 GTTTTTAGGGTTTACGAGTTTAGT
1 GTTTTTAGGGGTTA-GAGATTAGT
*
49408967 G-TTTTAGGGGTTATAGATTAGT
1 GTTTTTAGGGGTTAGAGATTAGT
49408989 GTTT
1 GTTT
49408993 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 8 0.36
23 13 0.59
24 1 0.05
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (23 bp):
GTTTTTAGGGGTTAGAGATTAGT
Found at i:49408975 original size:23 final size:22
Alignment explanation
Indices: 49408945--49408992 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
49408935 GTTTAGGGGT
* *
49408945 TTTTAGGGTTTACGAGTTTAGTG
1 TTTTAGGGGTTA-GAGATTAGTG
*
49408968 TTTTAGGGGTTATAGATTAGTG
1 TTTTAGGGGTTAGAGATTAGTG
49408990 TTT
1 TTT
49408993 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (22 bp):
TTTTAGGGGTTAGAGATTAGTG
Found at i:49409089 original size:41 final size:41
Alignment explanation
Indices: 49409032--49409250 Score: 264
Period size: 41 Copynumber: 5.4 Consensus size: 41
49409022 GTTATATGAC
* *
49409032 TTTTAGCAGCGTTTTA-CAGAAAGCGCCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTATC-GAAAGCGCCGCTAATGCTCTGGT
* * * * *
49409073 TTTTATCTGCGTTTTA-CGGAAAGCACTGCTAATGCTATGGT
1 TTTTAGCGGCGTTTTATC-GAAAGCGCCGCTAATGCTCTGGT
*
49409114 TTTTAGCGGCGTTTTATCGAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
* *
49409155 TTTTAGCAGCGTTTTATCGAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
* * *
49409196 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
* *
49409236 TTTTAGTGGTGTTTT
1 TTTTAGCGGCGTTTT
49409251 TTATAAAACG
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
40 15 0.09
41 142 0.90
42 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGCTCTGGT
Found at i:49409280 original size:82 final size:82
Alignment explanation
Indices: 49409032--49409280 Score: 250
Period size: 82 Copynumber: 3.0 Consensus size: 82
49409022 GTTATATGAC
* * * * * ** *
49409032 TTTTAGCAGCGTTTTA-CAGAAAGCGCCGCTAATGCTTTGGTTTTTATCTGCGTTTTACGGAAAG
1 TTTTAGCGGCGTTTTACCA-AAAGCACCGCTAATGCTCTGGTTTTTAGCAGCGTTTTATAGAAAA
* *
49409096 CACTGCTAATGCTATGGT
65 CGCTGCTAATGCTCTGGT
* * * *
49409114 TTTTAGCGGCGTTTTATCGAAAGCACCGCTAATGCTCTGGTTTTTAGCAGCGTTTTATCGAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCAGCGTTTTATAGAAAAC
* *
49409179 GCCGCTAATGCTCTAGT
66 GCTGCTAATGCTCTGGT
* * ** * * *
49409196 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCT-GTTTTTAGTGGTGTTTTTTATAAAAC
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCAGCGTTTTATAGAAAAC
*
49409260 GCTGCTATTGCTCTGTGT
66 GCTGCTAATGCTCTG-GT
49409278 TTT
1 TTT
49409281 ACAATTTTTG
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
81 31 0.22
82 107 0.77
83 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGTTTTTAGCAGCGTTTTATAGAAAAC
GCTGCTAATGCTCTGGT
Found at i:49409280 original size:123 final size:123
Alignment explanation
Indices: 49409032--49409280 Score: 295
Period size: 123 Copynumber: 2.0 Consensus size: 123
49409022 GTTATATGAC
* * * * **
49409032 TTTTAGCAGCGTTTTACAGAAAGCGCCGCTAATGCTTTGGTTTTTATCTGCGTTTTACGGAAAGC
1 TTTTAGCAGCGTTTTACAGAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
* * *
49409097 ACTGCTAATGCTATGGTTTTTAGCGGCGTTTTATCGAAAGCACCGCTAATGCTCTGGT
66 ACCGCTAATGCTATGGTTTTTAGCGGCGTTTTATAGAAAACACCGCTAATGCTCTGGT
49409155 TTTTAGCAGCGTTTTATC-GAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAG
1 TTTTAGCAGCGTTTTA-CAGAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAG
* * * * * * * * * *
49409219 CGCCGCTATTGCTCT-GTTTTTAGTGGTGTTTTTTATAAAACGCTGCTATTGCTCTGTGT
65 CACCGCTAATGCTATGGTTTTTAGCGGCGTTTTATAGAAAACACCGCTAATGCTCTG-GT
49409278 TTT
1 TTT
49409281 ACAATTTTTG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
122 32 0.30
123 72 0.69
124 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (123 bp):
TTTTAGCAGCGTTTTACAGAAAGCGCCGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
ACCGCTAATGCTATGGTTTTTAGCGGCGTTTTATAGAAAACACCGCTAATGCTCTGGT
Found at i:49409320 original size:12 final size:12
Alignment explanation
Indices: 49409305--49409330 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49409295 GTTTTTTGAT
49409305 AAAACGCCGCTA
1 AAAACGCCGCTA
49409317 AAAACGCCGCTA
1 AAAACGCCGCTA
49409329 AA
1 AA
49409331 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:49410159 original size:27 final size:26
Alignment explanation
Indices: 49410115--49410172 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
49410105 TAGGCTGCCG
49410115 GATATTGTGACGAAGCCACCAGATACA
1 GATATTGTGACGAAGCCACCAGA-ACA
* * *
49410142 GATATTGTGGCTAGGCCACCAGAACA
1 GATATTGTGACGAAGCCACCAGAACA
49410168 GATAT
1 GATAT
49410173 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
GATATTGTGACGAAGCCACCAGAACA
Found at i:49426683 original size:26 final size:26
Alignment explanation
Indices: 49426653--49426705 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
49426643 TAAGCCTACG
49426653 TAAGATTTCTGTCGATCGGATGCTGC
1 TAAGATTTCTGTCGATCGGATGCTGC
* *
49426679 TAAGATTTTTGTCGATCGGATGTTGC
1 TAAGATTTCTGTCGATCGGATGCTGC
49426705 T
1 T
49426706 TTCAAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (26 bp):
TAAGATTTCTGTCGATCGGATGCTGC
Found at i:49427613 original size:63 final size:63
Alignment explanation
Indices: 49427535--49427661 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
49427525 AATCTTAAAT
49427535 AATCATCAGAATTAACTTGAAATTCTGAATTAGGGTTTGAATCACATTGATCTCGTTTTAACA
1 AATCATCAGAATTAACTTGAAATTCTGAATTAGGGTTTGAATCACATTGATCTCGTTTTAACA
49427598 AATCATCAGAATTAACTTGAAATTCTGAATTAGGGTTTGAATCACATTGATCTCGTTTTAACA
1 AATCATCAGAATTAACTTGAAATTCTGAATTAGGGTTTGAATCACATTGATCTCGTTTTAACA
49427661 A
1 A
49427662 CATTTCATTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (63 bp):
AATCATCAGAATTAACTTGAAATTCTGAATTAGGGTTTGAATCACATTGATCTCGTTTTAACA
Found at i:49437424 original size:21 final size:20
Alignment explanation
Indices: 49437359--49437425 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 20
49437349 AAAATACAAC
** *
49437359 AACAAAAACAAAAAGGAAAG
1 AACAAAAATGAAAAGTAAAG
* *
49437379 AA-AAAAATGAAAATCTAAAC
1 AACAAAAATGAAAA-GTAAAG
*
49437399 TACAAAATATGAAAAGTAAAG
1 AACAAAA-ATGAAAAGTAAAG
49437420 AACAAA
1 AACAAA
49437426 TGTTCAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
19 9 0.26
20 6 0.17
21 13 0.37
22 7 0.20
ACGTcount: A:0.70, C:0.09, G:0.10, T:0.10
Consensus pattern (20 bp):
AACAAAAATGAAAAGTAAAG
Found at i:49443997 original size:30 final size:30
Alignment explanation
Indices: 49443963--49444023 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49443953 TCCTTAACTC
49443963 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
49443993 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
49444023 A
1 A
49444024 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:49446259 original size:40 final size:40
Alignment explanation
Indices: 49446222--49446367 Score: 204
Period size: 40 Copynumber: 3.7 Consensus size: 40
49446212 TGAGGAATTG
*
49446222 TATCCGGGCTTAAAGACTCGCAGGCTAAATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTAAATGCTGGAATGT
*
49446262 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTAAATGCTGGAATGT
*** * *
49446302 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAAATGCTGGAATGT
* *
49446342 TATCCGGGC-TAGAGACCTGCAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
49446368 CGAGCTGGTA
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 14 0.15
40 82 0.85
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTAAATGCTGGAATGT
Found at i:49454121 original size:30 final size:31
Alignment explanation
Indices: 49454058--49454122 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
49454048 TCTTGTTTTT
*
49454058 AAAAATTTAAAAAATAATTATAAATGTAACAA
1 AAAAATTTAAAAAATAATTAAAAATGT-ACAA
*
49454090 AAAAATTTAAAATATATATTAAAAAT-T-CAA
1 AAAAATTTAAAAAATA-ATTAAAAATGTACAA
49454120 AAA
1 AAA
49454123 TACAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 6 0.20
32 16 0.53
33 8 0.27
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (31 bp):
AAAAATTTAAAAAATAATTAAAAATGTACAA
Found at i:49456052 original size:23 final size:23
Alignment explanation
Indices: 49455998--49456185 Score: 304
Period size: 23 Copynumber: 8.1 Consensus size: 23
49455988 CCTAGCCTCT
*
49455998 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
49456021 TTTTAATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
49456045 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
49456068 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
49456091 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
49456114 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
49456137 TTTAATAACTAGGGCATAAACCC
1 TTTAATAACTGGGGCATAAGCCC
49456160 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49456183 TTT
1 TTT
49456186 CGCACTTCCT
Statistics
Matches: 155, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 134 0.86
24 21 0.14
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:49456260 original size:20 final size:20
Alignment explanation
Indices: 49456232--49456302 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
49456222 GCATTTAAGA
*
49456232 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49456252 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
49456272 ACATGTCATGTGTATATCAT
1 ACATATCATGTGCATATCAT
49456292 ACATATCATGT
1 ACATATCATGT
49456303 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:49456367 original size:25 final size:25
Alignment explanation
Indices: 49456339--49456386 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49456329 ATATATAAAC
* * *
49456339 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
49456364 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49456387 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:49457598 original size:27 final size:27
Alignment explanation
Indices: 49457537--49457613 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
49457527 GGCATATTCG
*
49457537 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGA
* *
49457564 TCACTTTACCCTACAGGGGCT-TTACGA
1 TCATTTTACCATACAGGGG-TATTACGA
* *
49457591 TCTTTTTACC-TATTAGGGGTATT
1 TCATTTTACCATA-CAGGGGTATT
49457614 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGA
Found at i:49457867 original size:81 final size:81
Alignment explanation
Indices: 49457718--49457868 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
49457708 GAAAGTCAAG
* *
49457718 GGTATTTATGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGAT
1 GGTATTTATGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTAGAT
49457783 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* **
49457799 GGTATTT-TGGTAATTTTACAAA-CTAGTGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTA
1 GGTATTTAT-GTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAATCGAGGGTA-TTTA
49457862 G-TAATTT
63 GATAATTT
49457869 TGTAAATCGA
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 2 0.03
81 56 0.90
82 4 0.06
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (81 bp):
GGTATTTATGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTAGAT
AATTTCACAAACCAGT
Found at i:49457877 original size:27 final size:27
Alignment explanation
Indices: 49457660--49458003 Score: 153
Period size: 27 Copynumber: 12.7 Consensus size: 27
49457650 CTACTAACCA
* * * *
49457660 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * *
49457687 ATGGTATTTCTA-TAGTTTTTAGAAAGTCA
1 AGGGTATTT-TAGTA-ATTTTATAAA-TCG
*
49457716 AGGGTA-TTTATGTAATTTTACAAATC-
1 AGGGTATTTTA-GTAATTTTATAAATCG
* * *
49457742 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTAGTAATTTTATAAATCG
* * * *
49457770 AGGGTA-TTTCGATAATTTCACAAA-CC
1 AGGGTATTTTAG-TAATTTTATAAATCG
* * *
49457796 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTAGTAATTTTATAAATCG
* *
49457823 AGTGGTATTTTGGTAATTTTACT-GATCG
1 AG-GGTATTTTAGTAATTTTA-TAAATCG
*
49457851 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
**** * *
49457878 AGGGTAAAACAGTAATTCTATAAATCA
1 AGGGTATTTTAGTAATTTTATAAATCG
**** *
49457905 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
***** *
49457932 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * * *
49457959 AGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTATTTTAGTAATTTTATAAATCG
*
49457986 AGGGTATTTCAGTAATTT
1 AGGGTATTTTAGTAATTT
49458004 GGTAAACTAA
Statistics
Matches: 259, Mismatches: 44, Indels: 28
0.78 0.13 0.08
Matches are distributed among these distances:
26 8 0.03
27 213 0.82
28 29 0.11
29 9 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAATCG
Found at i:49458001 original size:54 final size:54
Alignment explanation
Indices: 49457716--49458002 Score: 183
Period size: 54 Copynumber: 5.3 Consensus size: 54
49457706 TAGAAAGTCA
* *
49457716 AGGGTATTT-ATGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCA-GTAATTCTATAAATCGA-GGGTATTTTGGTAATTTTACAAATTG
* * *
49457770 AGGGTATTTC-GATAATT-TCACAAA-CCAGTGGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTCAG-TAATTCT-ATAAATCGAG-GGTATTTTGGTAATTTTACAAATTG
** * * * ** *
49457823 AGTGGTATTTTGGTAATTTTACT-GATCGAGGGTATTTTAGTAATTTTGTAAATCG
1 AG-GGTATTTCAGTAATTCTA-TAAATCGAGGGTATTTTGGTAATTTTACAAATTG
*** * ***** * * *
49457878 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTCAGTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAATTG
*** * * *
49457932 AGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTATTTCAGTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAATTG
49457986 AGGGTATTTCAGTAATT
1 AGGGTATTTCAGTAATT
49458003 TGGTAAACTA
Statistics
Matches: 182, Mismatches: 39, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
53 7 0.04
54 168 0.92
55 7 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTCTATAAATCGAGGGTATTTTGGTAATTTTACAAATTG
Found at i:49461234 original size:47 final size:47
Alignment explanation
Indices: 49461141--49461747 Score: 973
Period size: 47 Copynumber: 12.7 Consensus size: 47
49461131 ATTCATTGGA
49461141 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
49461190 ATGTGATGAATGTGAAAGTG-ATTATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTA-TATATGTGATAAGGCCTAATGGCCG
* *
49461237 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49461284 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
49461333 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49461380 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
49461427 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
49461474 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
49461523 ATGTGATGAATGTCAAAGTGTATATATATGTGATAAGGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
49461572 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49461619 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
49461666 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
49461713 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49461748 TCCCAAAGGG
Statistics
Matches: 530, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 372 0.70
48 1 0.00
49 156 0.29
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:49461308 original size:143 final size:143
Alignment explanation
Indices: 49461140--49461747 Score: 996
Period size: 143 Copynumber: 4.3 Consensus size: 143
49461130 TATTCATTGG
49461140 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49461205 AAGTG-ATTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
66 AAGTGTA-TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
49461269 AAGGCCGAATGGCC
130 AAGGCCGAATGGCC
49461283 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
49461348 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
66 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
49461413 AGGCCGAATGGCC
131 AGGCCGAATGGCC
* * *
49461426 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
49461489 AAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTCAAAGTGTATATATATGT
66 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
* *
49461554 GATAAGGCCTAATGACC
127 GATAAGGCCGAATGGCC
*
49461571 GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
49461634 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACA
66 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* *
49461699 GGGCCGAGTGGCC
131 AGGCCGAATGGCC
* *
49461712 AACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
49461748 TCCCAAAGGG
Statistics
Matches: 437, Mismatches: 21, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
141 94 0.22
142 1 0.00
143 251 0.57
144 1 0.00
145 90 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGGCCGAATGGCC
Found at i:49461560 original size:239 final size:239
Alignment explanation
Indices: 49461141--49461747 Score: 1062
Period size: 239 Copynumber: 2.5 Consensus size: 239
49461131 ATTCATTGGA
49461141 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
49461206 AGTG-ATTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
64 AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
49461268 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
128 TAAGGCCGAATGGCCAATGTGATGAATGTCAAAGTGTATATATATGTGATAAGGCCTAATGACCG
49461333 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
193 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
49461380 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
49461445 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
49461510 GGCCGAATGGCCAATGTGATGAATGTCAAAGTGTATATATATGTGATAAGGCCTAATGACCGATG
131 GGCCGAATGGCCAATGTGATGAATGTCAAAGTGTATATATATGTGATAAGGCCTAATGACCGATG
49461575 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
196 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
49461619 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * *
49461684 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAA
66 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
49461747 G
131 G
49461748 TCCCAAAGGG
Statistics
Matches: 354, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
237 99 0.28
238 2 0.01
239 253 0.71
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (239 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCGAATGGCCAATGTGATGAATGTCAAAGTGTATATATATGTGATAAGGCCTAATGACCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:49465573 original size:23 final size:23
Alignment explanation
Indices: 49465543--49465660 Score: 200
Period size: 23 Copynumber: 5.1 Consensus size: 23
49465533 CCTAGCCTAT
*
49465543 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49465566 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
49465589 TTTAATGACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
49465612 TTTAATGACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49465635 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49465658 TTT
1 TTT
49465661 CGCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 90 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:49465733 original size:9 final size:9
Alignment explanation
Indices: 49465719--49465775 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
49465709 ATCTCATGTG
49465719 CATATCATA
1 CATATCATA
*
49465728 CATATCATGTG
1 CATATCA--TA
49465739 CATATCATA
1 CATATCATA
* *
49465748 CATGTCATGTG
1 CATATCA--TA
49465759 CATATCATA
1 CATATCATA
49465768 CATATCAT
1 CATATCAT
49465776 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:49465735 original size:20 final size:20
Alignment explanation
Indices: 49465707--49465777 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
49465697 GCATTTATGA
*
49465707 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49465727 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
49465747 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49465767 ACATATCATGT
1 ACATATCATGT
49465778 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:49465742 original size:11 final size:11
Alignment explanation
Indices: 49465712--49465766 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49465702 TATGAACATC
49465712 TCATGTGCATA
1 TCATGTGCATA
*
49465723 TCA--TACATA
1 TCATGTGCATA
49465732 TCATGTGCATA
1 TCATGTGCATA
* *
49465743 TCA--TACATG
1 TCATGTGCATA
49465752 TCATGTGCATA
1 TCATGTGCATA
49465763 TCAT
1 TCAT
49465767 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:49465842 original size:25 final size:25
Alignment explanation
Indices: 49465814--49465886 Score: 128
Period size: 25 Copynumber: 2.9 Consensus size: 25
49465804 ATATATAAAC
* *
49465814 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
49465839 CCTAGGGGCAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
49465864 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
49465887 CATATTATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:49467320 original size:27 final size:26
Alignment explanation
Indices: 49467140--49467368 Score: 138
Period size: 27 Copynumber: 8.5 Consensus size: 26
49467130 ACAAGGGTGC
* *
49467140 TTTGGTAAATCTACAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACC-AGGGTAT
** ** *
49467167 TTCAGTAATTTTGTAAACCAATGGTAT
1 TTTGGTAATTTTACAAACC-AGGGTAT
* * *
49467194 TTCT-ATAATTTTTAGAAAGTCAAGGGTAT
1 TT-TGGTAA-TTTTACAAA--CCAGGGTAT
* **
49467223 TTAT-GTAATTTTGCAAATTAGGGTAT
1 TT-TGGTAATTTTACAAACCAGGGTAT
** *
49467249 TTTGGTAATTTTACAAATTGAAGGTAT
1 TTTGGTAATTTTACAAA-CCAGGGTAT
* * *
49467276 TTCGATAATTTCACAAACCAGTGGTAT
1 TTTGGTAATTTTACAAACCAG-GGTAT
49467303 TTTGGTAATTTTACAAACCAGTGGTAT
1 TTTGGTAATTTTACAAACCAG-GGTAT
* * *
49467330 TTTGGTAATTTTACTGATCGAGGGTAT
1 TTTGGTAATTTTAC-AAACCAGGGTAT
*
49467357 TTTAGTAATTTT
1 TTTGGTAATTTT
49467369 GTAAATCGAG
Statistics
Matches: 159, Mismatches: 35, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
25 1 0.01
26 22 0.14
27 105 0.66
28 18 0.11
29 12 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTGGTAATTTTACAAACCAGGGTAT
Found at i:49467366 original size:81 final size:80
Alignment explanation
Indices: 49467218--49467367 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 80
49467208 GAAAGTCAAG
* ** * *
49467218 GGTATTTATGTAATTTTGCAAATTAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGATA
1 GGTATTTATGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTAGATA
49467283 ATTTCACAAACCAGT
66 ATTTCACAAACCAGT
** *
49467298 GGTATTT-TGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTAG
1 GGTATTTAT-GTAATTTTACAAACCAG-GGTATTTTGGTAATTTTACAAATCGAAGGTA-TTTAG
49467362 -TAATTT
63 ATAATTT
49467368 TGTAAATCGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 1 0.02
80 21 0.36
81 33 0.56
82 4 0.07
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.43
Consensus pattern (80 bp):
GGTATTTATGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTAGATA
ATTTCACAAACCAGT
Found at i:49467376 original size:27 final size:27
Alignment explanation
Indices: 49467160--49467529 Score: 137
Period size: 27 Copynumber: 13.7 Consensus size: 27
49467150 CTACAAACCA
* * * *
49467160 AGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCG
* * *
49467187 ATGGTATTTCTA-TAATTTTTAGAAAGTCA
1 AGGGTATTT-TAGTAA-TTTTATAAA-TCG
** *
49467216 AGGGTA-TTTATGTAATTTTGCAAAT-T
1 AGGGTATTTTA-GTAATTTTATAAATCG
* * *
49467242 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTAGTAATTTTATAAATCG
* * * * *
49467269 AAGGTA-TTTCGATAATTTCACAAA-CC
1 AGGGTATTTTAG-TAATTTTATAAATCG
* * *
49467295 AGTGGTATTTTGGTAATTTTACAAA-CC
1 AG-GGTATTTTAGTAATTTTATAAATCG
* *
49467322 AGTGGTATTTTGGTAATTTTACT-GATCG
1 AG-GGTATTTTAGTAATTTTA-TAAATCG
*
49467350 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
*** * *
49467377 AGGGTAAAATAGTAATTCTATAAATCA
1 AGGGTATTTTAGTAATTTTATAAATCG
*** *
49467404 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTATAAATCG
***** * * *
49467431 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTATTTTAGTAATTTTATAAATCG
** *
49467458 AGGGTA--AAACGATAATTCTATAAATCG
1 AGGGTATTTTA-G-TAATTTTATAAATCG
* * * * *
49467485 AGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTATTTTAGTAATTTTATAAATCG
*
49467512 AGGGTATTTCAGTAATTT
1 AGGGTATTTTAGTAATTT
49467530 GGTAAACTAA
Statistics
Matches: 275, Mismatches: 51, Indels: 34
0.76 0.14 0.09
Matches are distributed among these distances:
25 1 0.00
26 26 0.09
27 213 0.77
28 25 0.09
29 10 0.04
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTATAAATCG
Found at i:49467392 original size:54 final size:54
Alignment explanation
Indices: 49467359--49467490 Score: 194
Period size: 54 Copynumber: 2.4 Consensus size: 54
49467349 GAGGGTATTT
* *
49467359 TAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAA
** *
49467413 TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAA
*
49467467 -CGATAATTCTATAAATCGAGGGTA
1 TAG-TAATTCTATAAATCGAGGGTA
49467491 CTTTGGTAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 70 0.99
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (54 bp):
TAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAA
Found at i:49467419 original size:81 final size:81
Alignment explanation
Indices: 49467334--49467535 Score: 203
Period size: 81 Copynumber: 2.5 Consensus size: 81
49467324 TGGTATTTTG
* * *
49467334 GTAATTTTACTGATCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTAT
1 GTAATTTTACTAATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAA-AGATAATTCTAT
49467398 AAATCAAGGGTAAAATA
65 AAATCAAGGGTAAAATA
* *** * * *
49467415 GTAATTCTA-TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGATAATTCTAT
1 GTAATTTTACT-AATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAAAGATAATTCTAT
* *** *
49467479 AAATCGAGGGTACTTTG
65 AAATCAAGGGTAAAATA
* *
49467496 GTAATTTTAC-AATTTGAGGGTATTTCAGTAATTTGGTAAA
1 GTAATTTTACTAA-TCGAGGGTATTTCAGTAATTTTGTAAA
49467536 CTAAAGTATT
Statistics
Matches: 94, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
80 4 0.04
81 90 0.96
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (81 bp):
GTAATTTTACTAATCGAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAAAGATAATTCTATA
AATCAAGGGTAAAATA
Found at i:49469150 original size:27 final size:27
Alignment explanation
Indices: 49469120--49469254 Score: 162
Period size: 27 Copynumber: 5.0 Consensus size: 27
49469110 ACCCAAATAT
* *
49469120 CCTCGATTGACAAAATTATTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
49469147 CCTCAATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
49469174 CCTCAATTTACAACATTACTATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* * **
49469201 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
* *
49469228 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
49469255 GCCTAGGGTG
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (27 bp):
CCTCGATTTACAAAATTACTATTTTAC
Found at i:49469197 original size:54 final size:54
Alignment explanation
Indices: 49469120--49469254 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 54
49469110 ACCCAAATAT
* * *
49469120 CCTCGATTGACAAAATTATTATTTTACCCTCAATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAAAATTACCGTTTTAC
* * * * *
49469174 CCTCAATTTACAACATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAAAATTACCGTTTTAC
* *
49469228 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTAC
49469255 GCCTAGGGTG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (54 bp):
CCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAAAATTACCGTTTTAC
Found at i:49469612 original size:26 final size:27
Alignment explanation
Indices: 49469583--49469642 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
49469573 CCACATATAT
* *
49469583 ATATCTGT-TCTGGTGGCTTAGCCACA
1 ATATCTGTATCTAGTGACTTAGCCACA
* *
49469609 ATATCTGTATCTAGTGACTTCGTCACA
1 ATATCTGTATCTAGTGACTTAGCCACA
49469636 ATATCTG
1 ATATCTG
49469643 GCAGCCTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTAGTGACTTAGCCACA
Found at i:49469805 original size:30 final size:31
Alignment explanation
Indices: 49469761--49469832 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 31
49469751 TTGCATTCAC
* * *
49469761 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
49469792 ATTCT-ATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
49469822 ATTCTGATTCT
1 ATTCTGATTCT
49469833 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:49469806 original size:6 final size:6
Alignment explanation
Indices: 49469761--49469841 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
49469751 TTGCATTCAC
* *
49469761 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCT- ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
49469809 -TCACCTA ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
49469842 AATGTTTCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
5 9 0.16
6 41 0.71
7 6 0.10
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:49471761 original size:40 final size:41
Alignment explanation
Indices: 49471724--49471870 Score: 203
Period size: 40 Copynumber: 3.7 Consensus size: 41
49471714 TGAGGAATTG
49471724 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGT
*
49471764 TATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGT
* * * *
49471804 TATCCGGGCTTAAAGACCCGCAAGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGT
* *
49471844 TATCCGGGC-TAGAGACTCGCAGGCTAT
1 TATCCGGGCTTAAAGACCCGCAGGCTAT
49471871 GAGCTGGTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.15
40 82 0.85
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATCATGCTGGAATGT
Found at i:49491130 original size:48 final size:48
Alignment explanation
Indices: 49491059--49491186 Score: 211
Period size: 48 Copynumber: 2.7 Consensus size: 48
49491049 TTAATGAGAT
*
49491059 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTGTG
* *
49491107 CCAGTGTAAGACCATGTCTGGGACATGGCATCTGTAATGATATGTGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTGTG
* *
49491155 CTAGTGTAAGACCATGTGTGGGACATGGCATC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC
49491187 AGCACCGATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTGTG
Found at i:49495177 original size:47 final size:47
Alignment explanation
Indices: 49495123--49495593 Score: 611
Period size: 47 Copynumber: 10.0 Consensus size: 47
49495113 TTAGGATTTT
** ** * * *
49495123 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** * *
49495170 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
49495221 ATGTGATGAATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
49495268 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGGCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
49495315 ATGTGATGAATGTGAACACGCGTATGTGTTATAAGGGCGATTGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
49495362 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
49495409 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
49495456 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
49495503 ATGTGATGAATGTGAACATGCATATATGAGATAAGG-CGAATGACCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** * *
49495549 ATATGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGC
49495594 TATTGCGAAA
Statistics
Matches: 385, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
46 41 0.11
47 305 0.79
50 1 0.00
51 38 0.10
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:49495389 original size:23 final size:23
Alignment explanation
Indices: 49495362--49495436 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
49495352 CGATTGGCCA
49495362 ATGTGATGAATGTGAACACGCGT
1 ATGTGATGAATGTGAACACGCGT
* * **
49495385 ATGTG-TGATAAG-GCCAA-ATGGCCA
1 ATGTGATGA-ATGTG--AACA-CGCGT
49495409 ATGTGATGAATGTGAACACGCGT
1 ATGTGATGAATGTGAACACGCGT
49495432 ATGTG
1 ATGTG
49495437 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (23 bp):
ATGTGATGAATGTGAACACGCGT
Found at i:49495622 original size:46 final size:46
Alignment explanation
Indices: 49495572--49495690 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
49495562 GAACATGTAT
* * *
49495572 ATATGTGGTAAGGCCGAATGGCTATTGCGAAATGAGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGAGTATGAGATAG
* * * * *
49495618 ATATGAGCTAAAGCCGAATGGCTAATGGGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGAGTATGAGATAG
* *
49495664 ATATGTGGCAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
49495691 TGAGATATGT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGAGTATGAGATAG
Found at i:49495702 original size:46 final size:46
Alignment explanation
Indices: 49495572--49495708 Score: 143
Period size: 46 Copynumber: 3.0 Consensus size: 46
49495562 GAACATGTAT
* * * *
49495572 ATATGTGGTAAGGCCGAATGGCTATTGCGAAATGA-GTATGAGATAG
1 ATATGTGGCAAAGCCGAATGGCTAATGCGAAAT-ATGTATGAGATGG
* * **
49495618 ATATG-AGCTAAAGCCGAATGGCTAATGGGAAACGTGTATGAGATGG
1 ATATGTGGC-AAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
* * *
49495664 ATATGTGGCAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGCAAAGCCGAATGGCTAATGCGAAATATGTATGAGATG
49495709 TGTATATATA
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 71 0.96
47 2 0.03
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGCAAAGCCGAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:49497299 original size:40 final size:40
Alignment explanation
Indices: 49497234--49497564 Score: 457
Period size: 40 Copynumber: 8.3 Consensus size: 40
49497224 TGAGAGTTAT
* * *
49497234 ATATATCCGGGCTAAGTCCCGAAGAGCACTCGTGCTGGTA
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * * *
49497274 ATATGTCCGGGCTAAGTTCCAAAGAGCATTCATGCTAGTG
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* *
49497314 ATATATCCGGGCTAAGTTCCGAAGATCATTCGTGCTGGTA
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * *
49497354 ATATGTCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * *
49497394 ATATATCTGGGCTAAGTTTCGAAGAGCATTCGTGCTGGTA
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
*
49497434 ATATGTCCGGGCTAAGTTCCAAAGAGCATTCGTGCTGGTA
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
*
49497474 ATATGTCCGGGCTAAGTTCCAAAGAGCATTCGTGCTGGTA
1 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * *
49497514 ATATGTCCGGGCTAAGTTCTGAAGAGCAATT-GTGCTAGTG
1 ATATGTCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTGGTA
*
49497554 ATATATCCGGG
1 ATATGTCCGGG
49497565 TTAAACCTCG
Statistics
Matches: 257, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 254 0.99
41 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
Found at i:49497367 original size:80 final size:80
Alignment explanation
Indices: 49497234--49497564 Score: 520
Period size: 80 Copynumber: 4.1 Consensus size: 80
49497224 TGAGAGTTAT
* *
49497234 ATATATCCGGGCTAAGTCCCGAAGAGCACTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
*
49497299 GCATTCATGCTAGTG
66 GCATTCGTGCTAGTG
* **
49497314 ATATATCCGGGCTAAGTTCCGAAGATCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCTGAAGA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
49497379 GCATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
* *
49497394 ATATATCTGGGCTAAGTTTCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
* *
49497459 GCATTCGTGCTGGTA
66 GCATTCGTGCTAGTG
* * **
49497474 ATATGTCCGGGCTAAGTTCCAAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCTGAAGA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
49497539 GCAATT-GTGCTAGTG
66 GC-ATTCGTGCTAGTG
49497554 ATATATCCGGG
1 ATATATCCGGG
49497565 TTAAACCTCG
Statistics
Matches: 228, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 225 0.99
81 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCAAAGA
GCATTCGTGCTAGTG
Found at i:49501433 original size:47 final size:47
Alignment explanation
Indices: 49501379--49501761 Score: 514
Period size: 47 Copynumber: 8.1 Consensus size: 47
49501369 TTAGGATTTT
** * * * *
49501379 ATGTGATGAATGTGAATGTGTATATATGAGATAACGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49501426 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* * *
49501477 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49501524 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGGCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
49501571 ATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49501618 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49501665 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49501712 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49501759 ATG
1 ATG
49501762 CGAAATGTGT
Statistics
Matches: 308, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 262 0.85
49 11 0.04
51 35 0.11
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49501648 original size:25 final size:25
Alignment explanation
Indices: 49501572--49501649 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
49501562 GAATGGCCAA
*
49501572 TGTGATGAATGTGAACACGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * *
49501597 TGTGAT-AAGGCTG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
49501619 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
49501644 TGTGAT
1 TGTGAT
49501650 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 9 0.23
23 7 0.18
24 8 0.21
25 15 0.38
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:49501871 original size:46 final size:46
Alignment explanation
Indices: 49501735--49501871 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
49501725 GAACATGTAT
* *
49501735 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
49501781 ATATGAGGTAAAGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
49501827 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
49501872 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:49502088 original size:37 final size:37
Alignment explanation
Indices: 49502047--49502128 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
49502037 GATGACCATA
* *
49502047 TGTGGTGACTACGTCCGGGTAAGACCCGATGACTACG
1 TGTGGAGACTACGTCCGGGTAAGACCCGATAACTACG
* ** * *
49502084 TGTGGAGATTTTGTTCGGGTAAGACCCGATAACTTCG
1 TGTGGAGACTACGTCCGGGTAAGACCCGATAACTACG
49502121 TGTGGAGA
1 TGTGGAGA
49502129 TTTCATCTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (37 bp):
TGTGGAGACTACGTCCGGGTAAGACCCGATAACTACG
Found at i:49504394 original size:79 final size:81
Alignment explanation
Indices: 49504260--49504440 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 81
49504250 GAATGATGTT
* * *
49504260 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGGTCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGGTCCGAAGGCATTTG
*
49504324 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* **
49504340 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAA-GTCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGGT-CCGAAGGCATTT
49504402 GTGCGAGTTACTATAAC
65 GTGCGAGTTACTATAAC
*
49504419 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
49504441 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.02
79 59 0.66
80 28 0.31
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGGTCCGAAGGCATTTG
TGCGAGTTACTATAAC
Done.