Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 131 of 770
Found at i:38233263 original size:80 final size:79
Alignment explanation
Indices: 38233129--38233279 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
38233119 TATAACATGT
*
38233129 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
38233194 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
38233209 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
38233272 CCGGATAT
64 CCGGATAT
38233280 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:38237214 original size:40 final size:40
Alignment explanation
Indices: 38236982--38237207 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
38236972 TCGAATGATG
* * *
38236982 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38237022 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
38237062 TCCGGACTAAGAT-TCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38237102 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38237142 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38237183 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38237208 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 155 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38240327 original size:19 final size:19
Alignment explanation
Indices: 38240300--38240353 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
38240290 GATGTTTCAA
38240300 TATGTGTATTGACAACGAC
1 TATGTGTATTGACAACGAC
* *
38240319 TATGCGTATTGACCACGAC
1 TATGTGTATTGACAACGAC
*
38240338 TATGTGTATTGGCAAC
1 TATGTGTATTGACAAC
38240354 TTGTGTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (19 bp):
TATGTGTATTGACAACGAC
Found at i:38249185 original size:43 final size:42
Alignment explanation
Indices: 38249074--38249191 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
38249064 TGTATTTTCG
* * * *
38249074 TGTAAGACGACATTTGGGACGTTGGCATCGTGCTTGATTTCG
1 TGTAAGACCACATTTGGGACGTTGGCATCGTACTTGATTACA
* ** * *
38249116 TGTAAGACC-CTATCTCAGAC-TGTGGCATCGATATTTTATTACA
1 TGTAAGACCAC-ATTTGGGACGT-TGGCATCG-TACTTGATTACA
*
38249159 TGTAAGACCACATTTGGGACGTTGGCATTGTAC
1 TGTAAGACCACATTTGGGACGTTGGCATCGTAC
38249192 GAGCTTTTCG
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
41 2 0.04
42 24 0.42
43 29 0.51
44 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACATTTGGGACGTTGGCATCGTACTTGATTACA
Found at i:38250175 original size:13 final size:13
Alignment explanation
Indices: 38250157--38250181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38250147 CGTGTGTGAC
38250157 ACACGGTCATGTA
1 ACACGGTCATGTA
38250170 ACACGGTCATGT
1 ACACGGTCATGT
38250182 GTCCCTTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACACGGTCATGTA
Found at i:38252098 original size:80 final size:80
Alignment explanation
Indices: 38252014--38252162 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38252004 TATGGTAACC
* * * *
38252014 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38252078 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38252094 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38252159 CCGG
66 CCGG
38252163 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38252104 original size:40 final size:38
Alignment explanation
Indices: 38252055--38252162 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38252045 ATCACGATTT
*
38252055 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38252095 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38252135 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38252163 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38260216 original size:80 final size:80
Alignment explanation
Indices: 38260132--38260280 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
38260122 TATGGTAACC
* * * *
38260132 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
38260196 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
38260212 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
38260277 CCGG
66 CCGG
38260281 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:38260222 original size:40 final size:38
Alignment explanation
Indices: 38260173--38260280 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
38260163 ATCACGATTT
*
38260173 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
38260213 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
38260253 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
38260281 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:38265295 original size:134 final size:133
Alignment explanation
Indices: 38265125--38265374 Score: 464
Period size: 134 Copynumber: 1.9 Consensus size: 133
38265115 GAATTCAACA
38265125 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
*
38265190 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTGAATAACCAAAATATAACAATTT
66 TAAGTTGGATAGAAACATG-AAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
38265255 TATT
130 TATT
38265259 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* *
38265324 TAAGTTGGATAGAAACATGAAAACAGACCAAAATAACGTCTAAATAACCAA
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAA
38265375 GATGGAATCA
Statistics
Matches: 113, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
133 29 0.26
134 84 0.74
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.20
Consensus pattern (133 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:38267946 original size:199 final size:199
Alignment explanation
Indices: 38267606--38268018 Score: 772
Period size: 199 Copynumber: 2.1 Consensus size: 199
38267596 CTAATAAGAC
38267606 CTTTTGCGGCGTTTTCAGCAAAGCGCCACTAATACCTATTTTATATACACAATAAAACGACGCCG
1 CTTTTGCGGCGTTTTCAGCAAAGCGCCACTAATACCTATTTTATATACACAATAAAACGACGCCG
*
38267671 TTCTAATACGCGTTGTGGCGTTTATTATAGAAATGCCGCTAAAGCCACTACTATTCTGAGGAAAC
66 TTCTAATACGCGTTGTGGCGTTTATTATAGAAACGCCGCTAAAGCCACTACTATTCTGAGGAAAC
* *
38267736 GACACCGTTTTACTGTAATGTATAATGAAATTTTGTGGTGTTTTCTAAAAAAATGCCGCTATTTT
131 GACACCGTTTTACTGTAATGTATAATGAAATTTTGTGGCGTTTTCTAAAAAAACGCCGCTATTTT
38267801 CTAT
196 CTAT
38267805 CTTTTGCGGCGTTTTCAGCAAAGCGCCACTAATACCTATTTTATATACACAATAAAACGACGCCG
1 CTTTTGCGGCGTTTTCAGCAAAGCGCCACTAATACCTATTTTATATACACAATAAAACGACGCCG
*
38267870 TTCTAATAGGCGTTGTGGCGTTTATTATAGAAACGCCGCTAAAGCCACTACTATTCTGAGGAAAC
66 TTCTAATACGCGTTGTGGCGTTTATTATAGAAACGCCGCTAAAGCCACTACTATTCTGAGGAAAC
* *
38267935 GACGCCGTTTTACTGTAATGTATAATGAAATTTTGTGGCGTTTTCTAAAAAAACGCTGCTATTTT
131 GACACCGTTTTACTGTAATGTATAATGAAATTTTGTGGCGTTTTCTAAAAAAACGCCGCTATTTT
38268000 CTAT
196 CTAT
38268004 CTTTTGCGGCGTTTT
1 CTTTTGCGGCGTTTT
38268019 ATGTATAAAC
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 208 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (199 bp):
CTTTTGCGGCGTTTTCAGCAAAGCGCCACTAATACCTATTTTATATACACAATAAAACGACGCCG
TTCTAATACGCGTTGTGGCGTTTATTATAGAAACGCCGCTAAAGCCACTACTATTCTGAGGAAAC
GACACCGTTTTACTGTAATGTATAATGAAATTTTGTGGCGTTTTCTAAAAAAACGCCGCTATTTT
CTAT
Found at i:38268327 original size:10 final size:11
Alignment explanation
Indices: 38268311--38268356 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
38268301 ACCACTTTCC
38268311 ATATATATATTT
1 ATATATAT-TTT
38268323 ATATATATTTT
1 ATATATATTTT
*
38268334 AAAATAATATTTT
1 -ATAT-ATATTTT
38268347 ATATATATTT
1 ATATATATTT
38268357 ATCTTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 9 0.30
12 14 0.47
13 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATATATTTT
Found at i:38268365 original size:15 final size:15
Alignment explanation
Indices: 38268345--38268376 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38268335 AAATAATATT
*
38268345 TTATATATATTTATC
1 TTATATACATTTATC
38268360 TTATATACATTTATC
1 TTATATACATTTATC
38268375 TT
1 TT
38268377 CTAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:38269279 original size:14 final size:14
Alignment explanation
Indices: 38269260--38269293 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
38269250 ATTGAACCTG
38269260 CTTAAACCATATAT-
1 CTTAAACCATA-ATC
38269274 CTTAAACCATAATC
1 CTTAAACCATAATC
38269288 CTTAAA
1 CTTAAA
38269294 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:38269612 original size:40 final size:41
Alignment explanation
Indices: 38269457--38269596 Score: 255
Period size: 41 Copynumber: 3.4 Consensus size: 41
38269447 AGGGGTTATG
*
38269457 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAAGGCTCT
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
38269498 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
38269539 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
1 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
*
38269580 GG-TTTTACCGGCGTTTT
1 GGTTTTTAGCGGCGTTTT
38269597 TTTTGGAACG
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
40 14 0.14
41 83 0.86
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.35
Consensus pattern (41 bp):
GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
Found at i:38275598 original size:46 final size:46
Alignment explanation
Indices: 38275548--38275720 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
38275538 TGGTTGAGCA
*
38275548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
38275594 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
38275641 TCCGAACTCGTTGAGTTGAATCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
38275687 CCCGAGCTCATTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38275721 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38275704 original size:93 final size:93
Alignment explanation
Indices: 38275545--38275715 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
38275535 GGATGGTTGA
* * * *
38275545 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
38275610 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
38275638 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
38275703 TGAGTCCTAGTTC
66 TGAGTCCGAGTTC
38275716 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38275982 original size:19 final size:20
Alignment explanation
Indices: 38275945--38275982 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38275935 ATAAGGTGGT
38275945 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38275965 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38275983 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38283677 original size:19 final size:19
Alignment explanation
Indices: 38283653--38283691 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
38283643 TGTCGTTGTG
*
38283653 TTTATTGATTACATTTTGA
1 TTTATTGATGACATTTTGA
38283672 TTTATTGATGACATTTTGA
1 TTTATTGATGACATTTTGA
38283691 T
1 T
38283692 CTACTCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTATTGATGACATTTTGA
Found at i:38297053 original size:68 final size:61
Alignment explanation
Indices: 38296948--38297095 Score: 147
Period size: 68 Copynumber: 2.3 Consensus size: 61
38296938 TGGAACCACG
* * *
38296948 CATGCGACCTAGCTACATATATCCCGTAGCTCACTTGT-CTACATGGTGTACACAT-AGTATCA
1 CATGTGACCTAGCTACATATATCCCGTAGCTCACTTGTAC-ACATGATGTACAC-TCAGCAT-A
* * *
38297010 CCCATGTGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTACACATGATGTGCACTCAGCA
1 --CATGTGACCTAGCTACAT-AT-A--TCCCGTAGCTCACTTGTACACATGATGTACACTCAGCA
38297075 TA
60 TA
38297077 CATGTGACCTAGCTACATA
1 CATGTGACCTAGCTACATA
38297096 CCATCTGTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
64 18 0.25
65 20 0.28
66 1 0.01
67 2 0.03
68 30 0.42
69 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (61 bp):
CATGTGACCTAGCTACATATATCCCGTAGCTCACTTGTACACATGATGTACACTCAGCATA
Found at i:38297593 original size:30 final size:30
Alignment explanation
Indices: 38297559--38297619 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38297549 TCCTTAACTC
38297559 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
38297589 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
38297619 A
1 A
38297620 GGCTCGGGAA
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:38298717 original size:2 final size:2
Alignment explanation
Indices: 38298710--38298737 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38298700 TGTGTTATTT
38298710 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38298738 ATCTATAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38300636 original size:40 final size:40
Alignment explanation
Indices: 38300599--38300784 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
38300589 GCTACTCGTT
* *
38300599 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
38300639 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
38300679 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * *
38300719 CAAATGCCTTC-GAATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38300760 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38300785 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.02
40 118 0.89
41 12 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38304341 original size:46 final size:46
Alignment explanation
Indices: 38304274--38304381 Score: 144
Period size: 37 Copynumber: 2.5 Consensus size: 46
38304264 TATAAAAGAA
*
38304274 GTCTTACCCGGACATAATCTCCACAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACAATCTCCACACGTAGTCATCGG
38304320 GTCTTACCCGGTC---A--T----AATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACAATCTCCACACGTAGTCATCGG
38304357 GTCTTACCCGGTCATAATCTCCACA
1 GTCTTACCCGGTCATAATCTCCACA
38304382 CGTAGTCATC
Statistics
Matches: 52, Mismatches: 1, Indels: 18
0.73 0.01 0.25
Matches are distributed among these distances:
37 35 0.67
40 1 0.02
41 1 0.02
42 1 0.02
43 1 0.02
46 13 0.25
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (46 bp):
GTCTTACCCGGTCATAATCTCCACAATCTCCACACGTAGTCATCGG
Found at i:38304348 original size:37 final size:37
Alignment explanation
Indices: 38304298--38304404 Score: 205
Period size: 37 Copynumber: 2.9 Consensus size: 37
38304288 TAATCTCCAC
38304298 AATCTCCACACGTAGTCATCGGGTCTTACCCGGTCAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGTCAT
38304335 AATCTCCACACGTAGTCATCGGGTCTTACCCGGTCAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGTCAT
*
38304372 AATCTCCACACGTAGTCATCGGGTCTCACCCGG
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGG
38304405 AACATATTCC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGTCAT
Found at i:38304581 original size:55 final size:49
Alignment explanation
Indices: 38304507--38304640 Score: 259
Period size: 49 Copynumber: 2.7 Consensus size: 49
38304497 TTTACATTAT
*
38304507 CCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGG
1 CCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGG
38304556 CCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGG
1 CCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGG
38304605 CCATTAGGCCTCATCACATATACATACACTTTCACA
1 CCATTAGGCCTCATCACATATACATACACTTTCACA
38304641 AATTTTAGTA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.31, C:0.34, G:0.07, T:0.28
Consensus pattern (49 bp):
CCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGG
Found at i:38312726 original size:40 final size:40
Alignment explanation
Indices: 38312681--38312774 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
38312671 CTCGGTATCA
*
38312681 CACACTCAGTGCCTCAG-ATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCCTC-GCATAGCCGAAGCTATTTTGAATCG
38312721 CACACTTAGTGCCTCGCATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCCTCGCATAGCCGAAGCTATTTTGAATCG
*
38312761 CATACTTAGTGCCT
1 CACACTTAGTGCCT
38312775 AATACCATTG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 50 0.98
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCTCGCATAGCCGAAGCTATTTTGAATCG
Found at i:38324377 original size:27 final size:26
Alignment explanation
Indices: 38324338--38324391 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
38324328 GCAGCTAATT
* **
38324338 AATTTGTTCTAAATTAGACACATTAA
1 AATTTGTCCTAAACCAGACACATTAA
*
38324364 AATTATGTCCTAAACCAGACATATTAA
1 AATT-TGTCCTAAACCAGACACATTAA
38324391 A
1 A
38324392 CACCTACATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (26 bp):
AATTTGTCCTAAACCAGACACATTAA
Found at i:38330880 original size:40 final size:40
Alignment explanation
Indices: 38330802--38331025 Score: 267
Period size: 40 Copynumber: 5.5 Consensus size: 40
38330792 ACCCAAGTAT
* *
38330802 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
38330841 CTT-TGGATCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38330881 CTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
38330921 CTTCGGGACTTTGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
38330964 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
38331004 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
38331026 CATCCGAATA
Statistics
Matches: 159, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 8 0.05
40 109 0.69
41 4 0.03
43 35 0.22
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:38330986 original size:83 final size:80
Alignment explanation
Indices: 38330802--38331025 Score: 267
Period size: 83 Copynumber: 2.8 Consensus size: 80
38330792 ACCCAAGTAT
* * *
38330802 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTT-TGGATCTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATA
**
38330864 GTCACTAGCATGAATGC
64 GTCACTAGCACAAATGC
* * *
38330881 CTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTTGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
38330945 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
38330964 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
38331026 CATCCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
79 13 0.10
80 43 0.35
81 4 0.03
83 64 0.52
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:38333782 original size:40 final size:40
Alignment explanation
Indices: 38333727--38333890 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
38333717 TGAATGATAC
* * *
38333727 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
38333767 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
38333807 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
38333847 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
38333887 CCGG
1 CCGG
38333891 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:38333860 original size:80 final size:80
Alignment explanation
Indices: 38333727--38333904 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
38333717 TGAATGATAC
* * * * * *
38333727 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
38333791 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
38333807 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
38333872 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
38333887 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
38333905 TATGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:38336356 original size:5 final size:5
Alignment explanation
Indices: 38336346--38336377 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
38336336 TTGTGTATTC
38336346 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
38336378 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:38336360 original size:9 final size:9
Alignment explanation
Indices: 38336346--38336376 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
38336336 TTGTGTATTC
38336346 TTTATTTTA
1 TTTATTTTA
38336355 TTTATTTTA
1 TTTATTTTA
38336364 TTTTATTTTA
1 -TTTATTTTA
38336374 TTT
1 TTT
38336377 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:38340802 original size:5 final size:5
Alignment explanation
Indices: 38340792--38340828 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
38340782 TTGTGTGTTC
38340792 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
38340829 TCACAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:38340811 original size:14 final size:15
Alignment explanation
Indices: 38340792--38340828 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
38340782 TTGTGTGTTC
38340792 TTTATTTTATTTTA-
1 TTTATTTTATTTTAT
38340806 TTTATTTTATTTTAT
1 TTTATTTTATTTTAT
38340821 TTTATTTT
1 TTTATTTT
38340829 TCACAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:38343369 original size:15 final size:15
Alignment explanation
Indices: 38343342--38343374 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
38343332 GCATATTTTG
38343342 AAAAAAAGAAAAAGA
1 AAAAAAAGAAAAAGA
38343357 AAAAGAAAG-AAAAGA
1 AAAA-AAAGAAAAAGA
38343372 AAA
1 AAA
38343375 TAATGGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAGA
Found at i:38350290 original size:39 final size:39
Alignment explanation
Indices: 38350098--38350280 Score: 276
Period size: 39 Copynumber: 4.7 Consensus size: 39
38350088 TAATTGAGAA
*
38350098 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
38350137 TTATATCCGGGATAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
38350176 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
38350215 TTATATCCGAGTTAAGCCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
38350254 TTATATCTGGGCTAAAGTCCCGCAGGC
1 TTATATCCGGGCT-AAGTCCCGAAGGC
38350281 TTTTTGCTGG
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 120 0.92
40 10 0.08
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:38354703 original size:24 final size:24
Alignment explanation
Indices: 38354664--38354733 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 24
38354654 CTTGCTGATA
38354664 TATT-AGCTC-ATAAGAGCTTACTG
1 TATTCAGCTCAAT-AGAGCTTACTG
* **
38354687 TTTTCAGCTCGTTAGAGCTTAC--
1 TATTCAGCTCAATAGAGCTTACTG
*
38354709 CATTCAGCTCAATAGAGCTTACTG
1 TATTCAGCTCAATAGAGCTTACTG
38354733 T
1 T
38354734 CCATCAGCTC
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
22 18 0.50
23 3 0.08
24 14 0.39
25 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (24 bp):
TATTCAGCTCAATAGAGCTTACTG
Found at i:38357384 original size:40 final size:40
Alignment explanation
Indices: 38357329--38357538 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
38357319 AACATTGGAA
38357329 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
38357369 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
38357409 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
38357449 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
38357488 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
38357529 CTATATCCGG
1 ATATATCCGG
38357539 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:38360683 original size:25 final size:25
Alignment explanation
Indices: 38360654--38360733 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
38360644 TAACCCACAA
38360654 CTCGTGAGAGCATACCGATTTACAG
1 CTCGTGAGAGCATACCGATTTACAG
* *
38360679 CTCGTGAGAGCATACCAAGTTACAG
1 CTCGTGAGAGCATACCGATTTACAG
* * * * *
38360704 CTCGAGTGAGCATATCGATTCAGAG
1 CTCGTGAGAGCATACCGATTTACAG
38360729 CTCGT
1 CTCGT
38360734 ATGAGAATAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (25 bp):
CTCGTGAGAGCATACCGATTTACAG
Found at i:38363072 original size:28 final size:27
Alignment explanation
Indices: 38363009--38363078 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
38362999 ATAGTGAGTC
38363009 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
38363036 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
38363064 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38363079 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:38366141 original size:20 final size:20
Alignment explanation
Indices: 38366112--38366156 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38366102 AGCACATGTA
*
38366112 TTCATAAAATTTTAGAAATT
1 TTCATAAAATTTTACAAATT
* *
38366132 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAAATT
38366152 TTCAT
1 TTCAT
38366157 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAAATT
Found at i:38370719 original size:30 final size:30
Alignment explanation
Indices: 38370683--38370783 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
38370673 GACAAGATTG
* * *
38370683 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
38370713 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
38370741 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
38370770 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38370784 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:38370795 original size:29 final size:28
Alignment explanation
Indices: 38370712--38370787 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
38370702 AAAATTGTAC
* *
38370712 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
38370740 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
38370769 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
38370788 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:38384468 original size:13 final size:13
Alignment explanation
Indices: 38384452--38384484 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38384442 TTTGATTAAA
*
38384452 TTAGTTAATTAGT
1 TTAGATAATTAGT
38384465 TTAGATAATTAGT
1 TTAGATAATTAGT
38384478 TTA-ATAA
1 TTAGATAA
38384485 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:38387949 original size:47 final size:47
Alignment explanation
Indices: 38387879--38388265 Score: 571
Period size: 47 Copynumber: 8.3 Consensus size: 47
38387869 CCCTTCGGGA
* * * * * *
38387879 CTTATCACATTTATACACGTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* * *
38387926 CTTATCTCATATATACACTTTCACATTCAGCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* * *
38387973 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* * *
38388020 CTTATCACATATATATATTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* *
38388067 CTTA--ACATATATATATTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
38388112 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
38388159 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
38388206 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
38388253 CTTATCAAATATA
1 CTTATCACATATA
38388266 CATATCTTGT
Statistics
Matches: 316, Mismatches: 22, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
45 44 0.14
47 272 0.86
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:38388212 original size:186 final size:186
Alignment explanation
Indices: 38387898--38388265 Score: 592
Period size: 186 Copynumber: 2.0 Consensus size: 186
38387888 TTTATACACG
* * *
38387898 TTCACATCCATCACATTGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCAGCACATTG
1 TTCACATCCATCACATTGGCCACTAGGCCTTATCACATATATACACTTTCACATTCAGCACATTG
* *
38387963 GCCATTCGGCCTTATCACATATATACACTTCCACATTCATCACGTTGGCCATTCGGCCTTATCAC
66 GCCATTCGGCCTTATCACATATATACACTTCCACATTCATCACATTGGCCACTCGGCCTTATCAC
* *
38388028 ATATATATATTTTCACATTCATCACGTTGGCCACTCGGCCTTAACATATATATATT
131 ATATATATATTTTCACATTCATCACATTGGCCACTCGGCCTTAACAAATATATATT
* * * * *
38388084 TTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCACATTG
1 TTCACATCCATCACATTGGCCACTAGGCCTTATCACATATATACACTTTCACATTCAGCACATTG
* *
38388149 GCCATTCGGCCTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGCCTTATCAC
66 GCCATTCGGCCTTATCACATATATACACTTCCACATTCATCACATTGGCCACTCGGCCTTATCAC
* *
38388214 ATATATATATTTTCACATTCATCACATTGGCCATTCGGCCTTATCAAATATA
131 ATATATATATTTTCACATTCATCACATTGGCCACTCGGCCTTAACAAATATA
38388266 CATATCTTGT
Statistics
Matches: 166, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
186 166 1.00
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (186 bp):
TTCACATCCATCACATTGGCCACTAGGCCTTATCACATATATACACTTTCACATTCAGCACATTG
GCCATTCGGCCTTATCACATATATACACTTCCACATTCATCACATTGGCCACTCGGCCTTATCAC
ATATATATATTTTCACATTCATCACATTGGCCACTCGGCCTTAACAAATATATATT
Found at i:38394504 original size:6 final size:6
Alignment explanation
Indices: 38394463--38394503 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
38394453 CCTCTTATCT
*
38394463 TTTTTA TTTTTA TTTTTA TTTTTA TGTTTA TTTTTCA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTT
38394504 CTGGTCTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:38397702 original size:24 final size:24
Alignment explanation
Indices: 38397675--38397758 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
38397665 TTGGAGGCCT
38397675 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
38397699 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
**
38397724 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-AATAAACTGGGGCAA
38397749 AGCCCTTTTA
1 AGCCCTTTTA
38397759 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 39 0.72
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:38397722 original size:25 final size:25
Alignment explanation
Indices: 38397688--38397757 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
38397678 CTCTTTTAAT
*
38397688 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
38397713 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
38397738 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
38397758 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:38398021 original size:27 final size:27
Alignment explanation
Indices: 38397962--38398223 Score: 333
Period size: 27 Copynumber: 10.0 Consensus size: 27
38397952 GGGGCAAAAT
* * * *
38397962 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
38397989 GATAATTCTACCCTACAGGGGCATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38398016 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38398043 GGTAATTCTACCCTACAGGGGTA-TT-
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38398068 GG------TACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38398089 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38398116 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38398143 GGTAGTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38398170 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38398197 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38398224 AATATTTTAC
Statistics
Matches: 204, Mismatches: 23, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
19 14 0.07
20 2 0.01
21 2 0.01
25 2 0.01
26 2 0.01
27 182 0.89
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:38398143 original size:100 final size:103
Alignment explanation
Indices: 38397969--38398222 Score: 334
Period size: 100 Copynumber: 2.4 Consensus size: 103
38397959 AATGGTAATT
* * * * * * *
38397969 TTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGCATTTTGGTAATTCTACCCTATAG
1 TTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAA
38398034 GGGTATTTCGGTAATTCTACCCTACAGGGGTA-TT-GG
66 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
* *
38398070 -TACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAA
1 TTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAA
*
38398134 GGGTATTTCGGTAGTTCTACCCTACAGGGGTATTTCGG
66 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
* *
38398172 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
1 ----T-TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
38398223 CAATATTTTA
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
100 86 0.65
101 2 0.02
102 2 0.02
108 42 0.32
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (103 bp):
TTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAA
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGG
Found at i:38398282 original size:27 final size:27
Alignment explanation
Indices: 38398227--38398393 Score: 187
Period size: 27 Copynumber: 6.2 Consensus size: 27
38398217 GTATTTCAAT
* *
38398227 ATTTTACAAA-TCGAGGG-ATTTTCGATA
1 ATTTTACAAACTAG-GGGTATTTT-GGTA
* *
38398254 ATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
* *
38398281 ATTTTACAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
*
38398308 ATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
* *
38398335 ATTTTACAAACCAGGGGCATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTTGGTA
* *
38398362 ATTTTACAGA-TTGAGGGTATTTTGGTA
1 ATTTTACAAACTAG-GGGTATTTTGGTA
38398389 ATTTT
1 ATTTT
38398394 GTAAACCATG
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 112 0.93
28 7 0.06
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTACAAACTAGGGGTATTTTGGTA
Found at i:38398310 original size:54 final size:54
Alignment explanation
Indices: 38398227--38398393 Score: 214
Period size: 54 Copynumber: 3.1 Consensus size: 54
38398217 GTATTTCAAT
* * *
38398227 ATTTTACAAATC-GAGGG-ATTTTCGATAATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAG-GGGCATTTT-GGTAATTTTACAAATTAGGGGTATTTTGGTA
* * * *
38398281 ATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTA
*
38398335 ATTTTACAAACCAGGGGCATTTTGGTAATTTTACAGATT-GAGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAATTAG-GGGTATTTTGGTA
38398389 ATTTT
1 ATTTT
38398394 GTAAACCATG
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 92 0.93
55 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
ATTTTACAAACCAGGGGCATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTA
Found at i:38398351 original size:81 final size:81
Alignment explanation
Indices: 38398227--38398419 Score: 212
Period size: 81 Copynumber: 2.4 Consensus size: 81
38398217 GTATTTCAAT
* * ** *
38398227 ATTTTACAAA-TCGAGGG-ATTTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAA
1 ATTTTACAAACTAG-GGGTATTTTAG-TAATTTCACAAACCAGGGGCATTTTGGTAATTTTAC-A
*
38398290 GCCAG-GGGTATTTTGGTA
63 GACAGAGGGTATTTTGGTA
* *
38398308 ATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGCATTTTGGTAATTTTACAGAT
1 ATTTTACAAACTAGGGGTATTTTAGTAATTTCACAAACCAGGGGCATTTTGGTAATTTTACAGAC
*
38398373 TGAGGGTATTTTGGTA
66 AGAGGGTATTTTGGTA
** * * *
38398389 ATTTTGTAAACCATGGGTATTTCAGTAATTT
1 ATTTTACAAACTAGGGGTATTTTAGTAATTT
38398420 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.03
81 84 0.88
82 8 0.08
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
ATTTTACAAACTAGGGGTATTTTAGTAATTTCACAAACCAGGGGCATTTTGGTAATTTTACAGAC
AGAGGGTATTTTGGTA
Found at i:38398400 original size:54 final size:54
Alignment explanation
Indices: 38398227--38398419 Score: 212
Period size: 54 Copynumber: 3.6 Consensus size: 54
38398217 GTATTTCAAT
* * * *
38398227 ATTTTACAAATC-GAGGG-ATTTTCGATAATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAG-GGGTATTTT-GGTAATTTTACAAACTAGGGGTATTTTGGTA
* *
38398281 ATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTA
* * *
38398335 ATTTTACAAACCAGGGGCATTTTGGTAATTTTACAGA-TTGAGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTA
** * **
38398389 ATTTTGTAAACCATGGGTATTTCAGTAATTT
1 ATTTTACAAACCAGGGGTATTTTGGTAATTT
38398420 GGTAAACTAA
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 111 0.93
55 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
ATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTA
Found at i:38398406 original size:27 final size:27
Alignment explanation
Indices: 38398227--38398419 Score: 185
Period size: 27 Copynumber: 7.1 Consensus size: 27
38398217 GTATTTCAAT
* *
38398227 ATTTTACAAATC-GAGGG-ATTTTCGATA
1 ATTTTACAAACCAG-GGGTATTTT-GGTA
* **
38398254 ATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
*
38398281 ATTTTACAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
* *
38398308 ATTTTACAAACTAGGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
*
38398335 ATTTTACAAACCAGGGGCATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
* **
38398362 ATTTTACAGA-TTGAGGGTATTTTGGTA
1 ATTTTACAAACCAG-GGGTATTTTGGTA
** * **
38398389 ATTTTGTAAACCATGGGTATTTCAGTA
1 ATTTTACAAACCAGGGGTATTTTGGTA
38398416 ATTT
1 ATTT
38398420 GGTAAACTAA
Statistics
Matches: 137, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 130 0.95
28 6 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTTTACAAACCAGGGGTATTTTGGTA
Found at i:38399978 original size:13 final size:13
Alignment explanation
Indices: 38399962--38399994 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38399952 TTTGATTAAA
*
38399962 TTAGTTAATTAGT
1 TTAGATAATTAGT
38399975 TTAGATAATTAGT
1 TTAGATAATTAGT
38399988 TTA-ATAA
1 TTAGATAA
38399995 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:38403092 original size:27 final size:28
Alignment explanation
Indices: 38403035--38403104 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38403025 AAACTTGTAC
*
38403035 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
38403063 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
38403090 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38403105 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:38403115 original size:27 final size:27
Alignment explanation
Indices: 38403035--38403116 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
38403025 AAACTTGTAC
* * *
38403035 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
38403063 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
38403090 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
38403117 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:38405328 original size:56 final size:56
Alignment explanation
Indices: 38405197--38405331 Score: 200
Period size: 56 Copynumber: 2.4 Consensus size: 56
38405187 TCCCAGACAG
* * * *
38405197 GGTCTTACTCT-CACACATAAATCAGAATCGCTTATCGATGCCAACATATTAAACGT
1 GGTCTTACT-TGCACACATATATCAGAATCACATATCGATGCCAACATAATAAACGT
* *
38405253 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCTAACATAATAAACGT
1 GGTCTTACTTGCACACATATATCAGAATCACATATCGATGCCAACATAATAAACGT
38405309 GGTCTTACTTGCACACATATATC
1 GGTCTTACTTGCACACATATATC
38405332 GATTCCATGT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (56 bp):
GGTCTTACTTGCACACATATATCAGAATCACATATCGATGCCAACATAATAAACGT
Found at i:38405375 original size:33 final size:30
Alignment explanation
Indices: 38405310--38405375 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
38405300 AATAAACGTG
* * *
38405310 GTCTTACTTGCACACATATATCGATTCCAT
1 GTCTTACTCGCACACACATATCGAATCCAT
38405340 GTCTTACTCGCACATCACATATCAGAATCCTAT
1 GTCTTACTCGCACA-CACATATC-GAATCC-AT
38405373 GTC
1 GTC
38405376 ATGACATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 13 0.43
31 7 0.23
32 5 0.17
33 5 0.17
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (30 bp):
GTCTTACTCGCACACACATATCGAATCCAT
Found at i:38406317 original size:21 final size:19
Alignment explanation
Indices: 38406279--38406317 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
38406269 ATTCATTTAC
*
38406279 TAATATAACCTGAATAATT
1 TAATATAACCTCAATAATT
38406298 TAATATAACAACTCAATAAT
1 TAATATAAC--CTCAATAAT
38406318 GCTTGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (19 bp):
TAATATAACCTCAATAATT
Found at i:38408419 original size:27 final size:28
Alignment explanation
Indices: 38408363--38408432 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
38408353 AAATTTGTAC
38408363 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
38408391 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
38408418 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38408433 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:38408443 original size:27 final size:27
Alignment explanation
Indices: 38408363--38408444 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
38408353 AAATTTGTAC
* *
38408363 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
38408391 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
38408418 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
38408445 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:38410225 original size:49 final size:50
Alignment explanation
Indices: 38410105--38410246 Score: 187
Period size: 49 Copynumber: 2.9 Consensus size: 50
38410095 ACAACTTCAA
* * **
38410105 TCACGTGTGTAGTACTAAGTGCAAGATACTACGTGTATTAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGG
* * *
38410155 TCACATGTGTAGTACTGAGTGCAGGCTACTACGTGTACCAGATTGTT-GG
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGG
* * *
38410204 TCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGAT
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGAT
38410247 AGCTTCGGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 40 0.50
50 40 0.50
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGG
Found at i:38410464 original size:16 final size:15
Alignment explanation
Indices: 38410443--38410472 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38410433 GAATGGAGTA
38410443 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
38410459 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
38410473 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:38416176 original size:42 final size:43
Alignment explanation
Indices: 38416083--38416244 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 43
38416073 AATGTCAACA
* *** * * *
38416083 TCCCAGACATGGTCTTACATGTAATCAAACATCGATG-CTACTG
1 TCCCAGACAGGGTCTTACACAAAATCAGATATCGATGCCGA-TG
*
38416126 TCTCAGACAGGGTCTTACACAAAATCAGATAT-GATGCCGATG
1 TCCCAGACAGGGTCTTACACAAAATCAGATATCGATGCCGATG
* * *
38416168 TCCCAGACATGGTCATACACGTAAAAT-AGA-AGTCGATGCTGATG
1 TCCCAGACAGGGTCTTACAC--AAAATCAGATA-TCGATGCCGATG
* *
38416212 TCCCAGAC-GTGGTCTTACACAAATTCACATATC
1 TCCCAGACAG-GGTCTTACACAAAATCAGATATC
38416245 AGATCCTATG
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
42 28 0.29
43 35 0.37
44 32 0.34
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACAAAATCAGATATCGATGCCGATG
Found at i:38424559 original size:23 final size:26
Alignment explanation
Indices: 38424533--38424580 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
38424523 ATTATCATTA
38424533 TTATTC-TTTATT-T-GTTATTGTTG
1 TTATTCTTTTATTGTCGTTATTGTTG
38424556 TTATTCTTTTATTGTCGTTATTGTT
1 TTATTCTTTTATTGTCGTTATTGTT
38424581 AATATTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 1 0.05
26 9 0.41
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (26 bp):
TTATTCTTTTATTGTCGTTATTGTTG
Found at i:38427551 original size:27 final size:26
Alignment explanation
Indices: 38427507--38427558 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38427497 CTCGCTGCAA
*
38427507 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
38427534 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38427559 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38432219 original size:47 final size:45
Alignment explanation
Indices: 38432151--38432319 Score: 162
Period size: 47 Copynumber: 3.6 Consensus size: 45
38432141 TTTGTGTGCC
*
38432151 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCC-CATTATGAGAGCT
* *
38432197 AGTGTAAGACCATGTCTAGGACAAGGCATCAG--CATTAAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAGGAC-ATGCATCAGCCCATTATGA-GA--GCT
* * * *
38432245 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCC-C-ATTATGAGAGCT
* * *
38432292 AGTGTAAGACAGGTCTGGGATATGCATC
1 AGTGTAAGACATGTCTAGGACATGCATC
38432320 GGCTAAAAGT
Statistics
Matches: 102, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
45 7 0.07
46 18 0.18
47 50 0.49
48 20 0.20
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCCATTATGAGAGCT
Found at i:38441117 original size:37 final size:37
Alignment explanation
Indices: 38441075--38441155 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
38441065 TGGGGTTTTA
* *
38441075 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
38441112 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
38441149 ACCCGGA
1 ACCCGGA
38441156 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:38441367 original size:47 final size:47
Alignment explanation
Indices: 38441313--38441427 Score: 167
Period size: 47 Copynumber: 2.4 Consensus size: 47
38441303 GTATTGCACA
* *
38441313 ATAGCCATTCGGCTTTACCAAATATACATCCCTCATACATATTTCAT
1 ATAGCCATTCGGCTTTACCAAATATACATACCTCATACATATCTCAT
* * * *
38441360 ATAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCAT
1 ATAGCCATTCGGCTTTACCAAATATACATACCTCATACATATCTCAT
38441407 ATTAGCCATTCGGCTTTACCA
1 A-TAGCCATTCGGCTTTACCA
38441428 CACATATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 42 0.70
48 18 0.30
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (47 bp):
ATAGCCATTCGGCTTTACCAAATATACATACCTCATACATATCTCAT
Found at i:38447050 original size:47 final size:46
Alignment explanation
Indices: 38446985--38447109 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 46
38446975 TTTGTGTGCT
*
38446985 AGTGTAAGACATGTCTGAGACATGCATCGGCCATATTATGA-GA-GCC
1 AGTGTAAGACATGTCTGAGACATGCATCGGCCAT-TGA-GACGAGGCC
*
38447031 AGTGTAAGACCATGTCTGAGACATGGCATCGG-CATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCATTGAGACGAG-GCC
* *
38447079 AGTGTAAGACATGTCTGGGATATGCATCGGC
1 AGTGTAAGACATGTCTGAGACATGCATCGGC
38447110 TAAGAGTTGT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 2 0.03
46 20 0.29
47 29 0.42
48 18 0.26
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGAGACATGCATCGGCCATTGAGACGAGGCC
Found at i:38447152 original size:46 final size:47
Alignment explanation
Indices: 38447035--38447208 Score: 140
Period size: 52 Copynumber: 3.6 Consensus size: 47
38447025 AGAGCCAGTG
* * * *
38447035 TAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-TAAGACGAGTGCTAATA
* *
38447083 TAAGA-CATGTCTGGGATAT-GCATCGGC-TAAGA-GTTGTGCTAATA
1 TAAGACCATGTCTGGGACATGGCATCGGCATAAGACG-AGTGCTAATA
* * * * * *
38447127 TAAGACCATGTCTGGGACATGGCATCAACACGTATATATACGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCAT---C-GGCATA-AGACGAGTGCTAATA
*
38447179 TAAGACCATGTTTGGGACATGGCATCGGCA
1 TAAGACCATGTCTGGGACATGGCATCGGCA
38447209 ACTTAGCCCA
Statistics
Matches: 99, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.01
44 16 0.16
45 13 0.13
46 12 0.12
47 12 0.12
48 7 0.07
49 2 0.02
50 1 0.01
51 2 0.02
52 32 0.32
53 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATAAGACGAGTGCTAATA
Found at i:38450555 original size:18 final size:19
Alignment explanation
Indices: 38450528--38450563 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38450518 GAATGTACTA
38450528 TTCATATACA-CATATATT
1 TTCATATACATCATATATT
*
38450546 TTCATTTACATCATATAT
1 TTCATATACATCATATAT
38450564 AAATTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCATATACATCATATATT
Found at i:38450891 original size:56 final size:56
Alignment explanation
Indices: 38450798--38450984 Score: 297
Period size: 56 Copynumber: 3.4 Consensus size: 56
38450788 CAGATAGGGA
* *
38450798 CTTACTCGCACACATA-AAC-GAAATCACATATCAATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCAG-AATCACATATCGATGCCAACGTATTAAACGTGGT
*
38450853 CTTACTCACACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGT
*
38450909 CTTACTCGCACATATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGT
* *
38450965 CTTAATCGTACACATATATC
1 CTTACTCGCACACATATATC
38450985 GATGCCATGG
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
55 15 0.12
56 106 0.87
57 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (56 bp):
CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGT
Found at i:38453426 original size:28 final size:28
Alignment explanation
Indices: 38453369--38453428 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
38453359 TGGGAAGTAG
***
38453369 TTGGGCCAGATGGGCCATATGAATGTGA
1 TTGGGCCAGATGGGCCATATGAACAAGA
* *
38453397 TTGGGCCTGATGGGCCATGTGAACAAGA
1 TTGGGCCAGATGGGCCATATGAACAAGA
38453425 TTGG
1 TTGG
38453429 CCTAAAGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.37, T:0.25
Consensus pattern (28 bp):
TTGGGCCAGATGGGCCATATGAACAAGA
Found at i:38453776 original size:27 final size:27
Alignment explanation
Indices: 38453746--38454085 Score: 222
Period size: 27 Copynumber: 12.7 Consensus size: 27
38453736 CATAACAGAG
* * * *
38453746 AAATTACCGAAGTACCCCCAGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
38453773 AAATTACCAAAATACCCTCGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
38453800 AAATTACCAAAATACCCTCGGTTTGCA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * *
38453827 AAATTACTAAAATACCCTCGATTTGCA
1 AAATTACCAAAATACCCTCGGTTTGTA
** * ***
38453854 AAATTAGTAAAATACCTTTAATTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * * *
38453881 AAATTACCGAAATATCCTAGATTATG--
1 AAATTACCAAAATACCCTCGGTT-TGTA
** **
38453907 AAATTACTGAAATA-CCTCAATTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * ** *
38453933 AAATTACTAAAATACCCCCAATTTGTG
1 AAATTACCAAAATACCCTCGGTTTGTA
* * * *
38453960 AAATTA-TAGAAACACCCTTGATTTGTA
1 AAATTACCA-AAATACCCTCGGTTTGTA
* * * * *
38453987 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * *
38454014 AAATTACCGAAATACCATCGATTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *
38454041 AAATTACCAAAACACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * *
38454068 AAAGTATCGAAATACCCT
1 AAATTACCAAAATACCCT
38454086 TGTAGTATAG
Statistics
Matches: 262, Mismatches: 43, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
24 2 0.01
25 6 0.02
26 29 0.11
27 223 0.85
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:38453830 original size:54 final size:54
Alignment explanation
Indices: 38453746--38454085 Score: 301
Period size: 54 Copynumber: 6.3 Consensus size: 54
38453736 CATAACAGAG
* * * *
38453746 AAATTACCGAAGTACCCCCAGTTTGTAAAATTACCAAAATACCCTCGGTTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* ** * * *
38453800 AAATTACCAAAATACCCTCGGTTTGCAAAATTACTAAAATACCCTCGATTTGCA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTA
*** * * * * *
38453854 AAATTAGTAAAATACCTTTAATTTGTAAAATTACCGAAATATCCTAGATTATG--
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATT-TGTA
* * * * *
38453907 AAATTACTGAAATA-CCTCAATTTGTAAAATTACTAAAATACCCCCAATTTGTG
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTA
** * ** * * * *
38453960 AAATTATAGAAACACCCTTGATTTGTAAAATTATCGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTA
* * *
38454014 AAATTACCGAAATACCATCGATTTGTAAAATTACCAAAACACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTC-GATTTGTA
* *
38454068 AAAGTATCGAAATACCCT
1 AAATTACCGAAATACCCT
38454086 TGTAGTATAG
Statistics
Matches: 228, Mismatches: 53, Indels: 10
0.78 0.18 0.03
Matches are distributed among these distances:
51 2 0.01
52 27 0.12
53 23 0.10
54 174 0.76
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTA
Found at i:38454087 original size:81 final size:81
Alignment explanation
Indices: 38453767--38454085 Score: 301
Period size: 81 Copynumber: 4.0 Consensus size: 81
38453757 GTACCCCCAG
** * * * *
38453767 TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTCGGTTTGCAAAATT
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAACACCCTAGATTTGTAAAATT
*
38453832 ACTAAAATACCCTCGA
66 ACTGAAATACCCTCGA
* ** * * * * *
38453848 TTTGCAAAATTAGTAAAATACCTTTAATTTGTAAAATTACCGAAATATCCTAGATTATG--AAAT
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAACACCCTAGATT-TGTAAAAT
*
38453911 TACTGAAATA-CCTCAA
65 TACTGAAATACCCTCGA
* * * * *
38453927 TTTGTAAAATTACTAAAATACCCCCAATTTGTGAAATTA-TAGAAACACCCTTGATTTGTAAAAT
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA-AAACACCCTAGATTTGTAAAAT
* *
38453991 TA-TCGAAACACCCTTGA
65 TACT-GAAATACCCTCGA
* * * *
38454008 TTTGTAAAATTACCGAAATACCATCGATTTGTAAAATTACCAAAACACCCCT-GATTTGTAAAAG
1 TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAACA-CCCTAGATTTGTAAAAT
38454072 TA-TCGAAATACCCT
65 TACT-GAAATACCCT
38454086 TGTAGTATAG
Statistics
Matches: 194, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
78 2 0.01
79 50 0.26
80 24 0.12
81 111 0.57
82 7 0.04
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (81 bp):
TTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAACACCCTAGATTTGTAAAATT
ACTGAAATACCCTCGA
Found at i:38469869 original size:42 final size:42
Alignment explanation
Indices: 38469766--38469870 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 42
38469756 TACAATGCCA
* * *
38469766 ACGTCCCAGACGTGGTCTTACATGTAATCATATATCGATGCT
1 ACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCT
* *
38469808 ACTGTCCTAGATAG-GGTCTTACACGAAATCAAATA-CGATG-T
1 AC-GTCCCAGA-CGTGGTCTTACACGAAATCAAATATCGATGCT
38469849 CATCGTCCCAGACGTGGTCTTA
1 -A-CGTCCCAGACGTGGTCTTA
38469871 TGCGTAAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.04
42 22 0.43
43 26 0.51
44 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (42 bp):
ACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCT
Found at i:38472603 original size:19 final size:19
Alignment explanation
Indices: 38472571--38472616 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
38472561 CAGGTTAAGG
* *
38472571 GGTGTTACAGCTCCAATCA
1 GGTGTAACAACTCCAATCA
38472590 GGTGTAACAACTCCAATCA
1 GGTGTAACAACTCCAATCA
38472609 GGTGTAAC
1 GGTGTAAC
38472617 GATTATTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (19 bp):
GGTGTAACAACTCCAATCA
Found at i:38484783 original size:57 final size:57
Alignment explanation
Indices: 38484713--38484836 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 57
38484703 AAATGCACAT
* * * *
38484713 ACATGTATCTGGCCCATTA-AGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATG
1 ACATTTATATGGCCCATTAGA-CCCAAATCAGATTCATATGGCCCATTAGGCCC-AATC
* * *
38484770 ACATTTATATGGCCCATTAGACCCAAATCAGATTTATATGGCCCGTTAGGCCCAGTC
1 ACATTTATATGGCCCATTAGACCCAAATCAGATTCATATGGCCCATTAGGCCCAATC
38484827 ACATTTATAT
1 ACATTTATAT
38484837 TCATGCTCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 32 0.55
58 26 0.45
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (57 bp):
ACATTTATATGGCCCATTAGACCCAAATCAGATTCATATGGCCCATTAGGCCCAATC
Found at i:38484787 original size:29 final size:28
Alignment explanation
Indices: 38484713--38484836 Score: 140
Period size: 29 Copynumber: 4.4 Consensus size: 28
38484703 AAATGCACAT
* * *
38484713 ACATGTATCTGGCCCATTAAGCCCAATC
1 ACATTTATATGGCCCATTAGGCCCAATC
* * *
38484741 ATATTCATATGGCCCATTAGGCCCAAATG
1 ACATTTATATGGCCCATTAGGCCC-AATC
*
38484770 ACATTTATATGGCCCATTAGACCCAAATC
1 ACATTTATATGGCCCATTAGGCCC-AATC
* * *
38484799 AGATTTATATGGCCCGTTAGGCCCAGTC
1 ACATTTATATGGCCCATTAGGCCCAATC
38484827 ACATTTATAT
1 ACATTTATAT
38484837 TCATGCTCAC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
28 31 0.39
29 49 0.61
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (28 bp):
ACATTTATATGGCCCATTAGGCCCAATC
Found at i:38487787 original size:39 final size:39
Alignment explanation
Indices: 38487742--38487823 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
38487732 AAGCAAGACA
38487742 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* *
38487781 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
38487820 CTGG
1 CTGG
38487824 TAACATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:38494423 original size:39 final size:39
Alignment explanation
Indices: 38494378--38494498 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
38494368 AAGCAAGACA
* *
38494378 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
38494417 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
* *
38494456 CTGTAAATGTATCCAGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
38494495 CTGG
1 CTGG
38494499 TAACATAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:38501452 original size:50 final size:50
Alignment explanation
Indices: 38501377--38501602 Score: 228
Period size: 50 Copynumber: 4.5 Consensus size: 50
38501367 TGAGCACACG
* *
38501377 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * ** *
38501427 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
38501478 TGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
38501528 TGTATAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GACTGTTAAGTCACA
38501577 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38501603 TGCTATCAGA
Statistics
Matches: 148, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 34 0.23
50 71 0.48
51 34 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:38508866 original size:50 final size:49
Alignment explanation
Indices: 38508741--38508920 Score: 211
Period size: 50 Copynumber: 3.6 Consensus size: 49
38508731 ATTGTGAGTA
* * * *
38508741 CACGTGTGTAGTACTAAGTGCAGGCTACTATGAGTACTCA-ATGACTTTGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTTGGT
*
38508792 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-TGGT
* * *
38508842 CACGTATATAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GATGGTTGGT
* *
38508891 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTA
38508921 TGCTATTAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 32 0.28
50 44 0.39
51 37 0.33
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTGGT
Found at i:38514614 original size:24 final size:24
Alignment explanation
Indices: 38514580--38514634 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
38514570 TCATGTACAA
38514580 ATATC-ATCATCCCATATTACCAT
1 ATATCAATCATCCCATATTACCAT
* **
38514603 ATATCAATCATCTCATATTTTCAT
1 ATATCAATCATCCCATATTACCAT
38514627 ATATCAAT
1 ATATCAAT
38514635 TGTCATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATCAATCATCCCATATTACCAT
Found at i:38516693 original size:26 final size:26
Alignment explanation
Indices: 38516657--38516714 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
38516647 GTTGGAGTTA
*
38516657 AGAGTAATGCTCAAGCCTCTATTCAC
1 AGAGTAATGCTCAAGCCTCCATTCAC
*
38516683 AGAGTAATGCTCAAGCCTCCGTTCAC
1 AGAGTAATGCTCAAGCCTCCATTCAC
38516709 AGAGTA
1 AGAGTA
38516715 GCATCGAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (26 bp):
AGAGTAATGCTCAAGCCTCCATTCAC
Found at i:38518970 original size:17 final size:19
Alignment explanation
Indices: 38518928--38518971 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38518918 AGAAAATTTT
*
38518928 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
38518947 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
38518965 AA-TATTA
1 AATTATTA
38518972 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:38520825 original size:28 final size:28
Alignment explanation
Indices: 38520792--38520888 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
38520782 GCGTAGATCA
38520792 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
38520820 TGAAATCACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
38520848 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
38520876 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
38520889 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.13
28 52 0.83
ACGTcount: A:0.45, C:0.27, G:0.08, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:38536667 original size:29 final size:27
Alignment explanation
Indices: 38536633--38536735 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
38536623 TACTCAATCA
*
38536633 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
38536662 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
38536691 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
38536720 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
38536736 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:38544458 original size:29 final size:27
Alignment explanation
Indices: 38544424--38544526 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
38544414 TACTCAATCA
*
38544424 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
38544453 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
38544482 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
38544511 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
38544527 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:38548647 original size:40 final size:40
Alignment explanation
Indices: 38548545--38548724 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
38548535 AAATTGAATG
* * * * * *
38548545 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
38548585 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
38548625 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGT-GTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * *
38548663 A-ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
38548702 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
38548725 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
37 26 0.22
38 7 0.06
39 21 0.17
40 66 0.55
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:38548677 original size:37 final size:38
Alignment explanation
Indices: 38548584--38548694 Score: 154
Period size: 37 Copynumber: 2.9 Consensus size: 38
38548574 TGCTGGAAAT
*
38548584 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTAGC
*
38548624 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGT-GT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTAGC
38548662 TA-ATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
38548695 AATCGTGATA
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
37 28 0.42
38 5 0.07
39 6 0.09
40 28 0.42
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTAGC
Found at i:38556664 original size:40 final size:40
Alignment explanation
Indices: 38556562--38556713 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
38556552 AAATTGAATG
* * * * * *
38556562 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
38556602 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
38556642 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
38556682 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
38556714 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.03
40 91 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:38556728 original size:40 final size:38
Alignment explanation
Indices: 38556558--38556730 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
38556548 TGAGAAATTG
* * *
38556558 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
38556598 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
38556635 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
38556675 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
38556715 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
38556731 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 4 0.04
40 98 0.90
41 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:38558980 original size:42 final size:42
Alignment explanation
Indices: 38558885--38559032 Score: 147
Period size: 43 Copynumber: 3.5 Consensus size: 42
38558875 TAGCTTAGAA
* * * * *
38558885 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCTC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCAATGTCCC
* * *
38558928 AGACAAGGTCTTCCACGAAATCAAATACGTTGCCAATGTCCC
1 AGACATGGTCTTACACGAAATCAAATACGATGCCAATGTCCC
* *
38558970 AGACATGGTCTTACACGTAAATCATAAGT-CGATGCTAACGTCCC
1 AGACATGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCCC
*
38559014 -GACGTGGTCTTACACGAAA
1 AGACATGGTCTTACACGAAA
38559033 CCACATATCG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 30 0.34
43 43 0.49
44 14 0.16
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCAATGTCCC
Found at i:38560901 original size:14 final size:14
Alignment explanation
Indices: 38560882--38560910 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38560872 ATGTTATTGC
38560882 TAGTATCTTTTCTA
1 TAGTATCTTTTCTA
38560896 TAGTATCTTTTCTA
1 TAGTATCTTTTCTA
38560910 T
1 T
38560911 CTTTAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TAGTATCTTTTCTA
Found at i:38561536 original size:23 final size:23
Alignment explanation
Indices: 38561509--38561559 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
38561499 CCTCACACGT
* *
38561509 CCGTGTGGAGGCAATGCGCACAC
1 CCGTGTAGAGACAATGCGCACAC
38561532 CCGTGTAGAGACAATGCGCACAC
1 CCGTGTAGAGACAATGCGCACAC
38561555 CCGTG
1 CCGTG
38561560 CGTATTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (23 bp):
CCGTGTAGAGACAATGCGCACAC
Found at i:38563094 original size:43 final size:43
Alignment explanation
Indices: 38563023--38563106 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
38563013 TACATGAATT
* **
38563023 GCATCCATTATGAACTCGGACTTCTCAACGAGCTCAGATGCTC
1 GCATCCATAATGAACTCAAACTTCTCAACGAGCTCAGATGCTC
38563066 GCATCCATAATGAACTCAAACCTT-TCAACGAGCTCAGATGC
1 GCATCCATAATGAACTCAAA-CTTCTCAACGAGCTCAGATGC
38563107 CACATATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 34 0.92
44 3 0.08
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
GCATCCATAATGAACTCAAACTTCTCAACGAGCTCAGATGCTC
Found at i:38567045 original size:44 final size:42
Alignment explanation
Indices: 38566981--38567139 Score: 126
Period size: 44 Copynumber: 3.7 Consensus size: 42
38566971 TATGTGTTAT
* * *
38566981 CATGTAAGGCCACGTTTAGGACGTTGGCATCGATTTGTGAGTTA
1 CATGTAAGACCACGTCTAGGACATTGGCATCGATTT-TGA-TTA
* *
38567025 CATGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATT-
1 CATGTAAGACCACGTCTAGGACATTGGCATCGAT-TTTGATTA
* ** * *
38567066 -TTGTATATGACCTTGTCTGGGACAATGGCATCGATATTTGATTA
1 CATGTA-A-GACCACGTCTAGGACATTGGCATCGAT-TTTGATTA
* **
38567110 CATATAAGACCACGTCTAGGATGTTGGCAT
1 CATGTAAGACCACGTCTAGGACATTGGCAT
38567140 TGTACGAGGT
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
40 4 0.04
41 1 0.01
42 24 0.26
43 29 0.32
44 30 0.33
45 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
CATGTAAGACCACGTCTAGGACATTGGCATCGATTTTGATTA
Found at i:38567138 original size:43 final size:43
Alignment explanation
Indices: 38566968--38567139 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
38566958 CATAGGGTTC
* * * * *
38566968 CGATATGTG-TTATCATGTAAGGCCACGTTTAGGACGTTGGCAT
1 CGATATTTGATTA-CATATAAGACCACGTCTAGGACATTGGCAT
* *
38567011 CGAT-TTGTGAGTTACATGTAAGACCATGTCTAGGACATTGGCAT
1 CGATATT-TGA-TTACATATAAGACCACGTCTAGGACATTGGCAT
* *** * ** * *
38567055 CG-TATATGATTTTGTATATGACCTTGTCTGGGACAATGGCAT
1 CGATATTTGATTACATATAAGACCACGTCTAGGACATTGGCAT
**
38567097 CGATATTTGATTACATATAAGACCACGTCTAGGATGTTGGCAT
1 CGATATTTGATTACATATAAGACCACGTCTAGGACATTGGCAT
38567140 TGTACGAGGT
Statistics
Matches: 99, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
42 28 0.28
43 39 0.39
44 29 0.29
45 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTACATATAAGACCACGTCTAGGACATTGGCAT
Found at i:38574439 original size:37 final size:37
Alignment explanation
Indices: 38574381--38574451 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
38574371 TAACTCGAAT
*
38574381 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
38574418 AATCTCCACACGTAGTCATCGGGTCTTACTCGGA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGA
38574452 ATATATTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:38574650 original size:48 final size:48
Alignment explanation
Indices: 38574592--38574881 Score: 472
Period size: 48 Copynumber: 6.0 Consensus size: 48
38574582 ATATACACAC
* *
38574592 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38574640 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
** *
38574688 ATCTCATACATATTTCATGTTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38574736 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38574784 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
38574832 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38574880 AT
1 AT
38574882 ATTTATCTTG
Statistics
Matches: 223, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 223 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:38579945 original size:51 final size:51
Alignment explanation
Indices: 38579885--38579984 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
38579875 AGATCTGTGG
*
38579885 CATCTGAGCTCGTTGAAAGGTCCGATTTCATAATAGATGTGATT-CATGTAA
1 CATCTGAGCTCGTTGAAAGGTCCGAGTTCATAATAGATGTG-TTACATGTAA
* * * *
38579936 CATCTGAGCTCGTTGAGAGGTTCGAGTTCATTATGGATGTGTTACATGT
1 CATCTGAGCTCGTTGAAAGGTCCGAGTTCATAATAGATGTGTTACATGT
38579985 TATGTGGTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (51 bp):
CATCTGAGCTCGTTGAAAGGTCCGAGTTCATAATAGATGTGTTACATGTAA
Found at i:38581773 original size:39 final size:40
Alignment explanation
Indices: 38581715--38581857 Score: 170
Period size: 39 Copynumber: 3.6 Consensus size: 40
38581705 GCTACTAGCT
* *
38581715 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTCACTCGCA
*
38581755 CAAATGCCTTCGGG-CTTAGCCCGGAATTAT--TCACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTATAGTCACTCGCA
* *
38581794 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTCACTCGCA
*
38581833 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
38581858 GTATCAATCC
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
39 60 0.67
40 24 0.27
41 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTCACTCGCA
Found at i:38586074 original size:13 final size:14
Alignment explanation
Indices: 38586032--38586076 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
38586022 TAATAATGAT
38586032 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
38586047 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
38586060 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
38586073 TAAA
1 TAAA
38586077 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:38586426 original size:9 final size:9
Alignment explanation
Indices: 38586412--38586438 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
38586402 ATAGTAGGGA
38586412 TTAAATTGT
1 TTAAATTGT
38586421 TTAAATTGT
1 TTAAATTGT
38586430 TTAAATTGT
1 TTAAATTGT
38586439 AGAATTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
TTAAATTGT
Found at i:38593286 original size:13 final size:14
Alignment explanation
Indices: 38593244--38593288 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
38593234 CAATAATGAT
38593244 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
38593259 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
38593272 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
38593285 TAAA
1 TAAA
38593289 ATAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:38593638 original size:9 final size:9
Alignment explanation
Indices: 38593624--38593650 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
38593614 ATAGTAGGGA
38593624 TTAAATTGT
1 TTAAATTGT
38593633 TTAAATTGT
1 TTAAATTGT
38593642 TTAAATTGT
1 TTAAATTGT
38593651 AGAATTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (9 bp):
TTAAATTGT
Found at i:38595844 original size:17 final size:18
Alignment explanation
Indices: 38595801--38595845 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
38595791 TTGTTTATCA
38595801 TCTTTATTTT-TCACCTT
1 TCTTTATTTTATCACCTT
* *
38595818 T-TTAATTTTATC-CTTT
1 TCTTTATTTTATCACCTT
38595834 TCTTTATTTTAT
1 TCTTTATTTTAT
38595846 TTTCCACGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTTATTTTATCACCTT
Found at i:38598262 original size:30 final size:30
Alignment explanation
Indices: 38598228--38598287 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38598218 ATTTAATACG
38598228 AACTTTAGCAAAATTACAATTTTGCCCCTA
1 AACTTTAGCAAAATTACAATTTTGCCCCTA
* * *
38598258 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGCAAAATTACAATTTTGCCCCTA
38598288 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGCAAAATTACAATTTTGCCCCTA
Found at i:38600084 original size:21 final size:20
Alignment explanation
Indices: 38600060--38600114 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
38600050 GTGTAACCTA
38600060 CACATAGTCATGTACCTCCCT
1 CACATAG-CATGTACCTCCCT
* * *
38600081 CACATGGGCGTGTGCCTCCCT
1 CACAT-AGCATGTACCTCCCT
38600102 CACATGAGCATGT
1 CACAT-AGCATGT
38600115 TGATCCCTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.25
Consensus pattern (20 bp):
CACATAGCATGTACCTCCCT
Found at i:38607657 original size:15 final size:15
Alignment explanation
Indices: 38607637--38607666 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38607627 TTCTTGAAAG
38607637 GTATCAACTAGTGAA
1 GTATCAACTAGTGAA
*
38607652 GTATCAATTAGTGAA
1 GTATCAACTAGTGAA
38607667 TTGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (15 bp):
GTATCAACTAGTGAA
Found at i:38607920 original size:20 final size:20
Alignment explanation
Indices: 38607895--38607938 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
38607885 TCTAATAAAT
*
38607895 AAAGTAATT-CGTAAAATATG
1 AAAGT-ATTACGTAAAACATG
*
38607915 AAAGTATTACTTAAAACATG
1 AAAGTATTACGTAAAACATG
38607935 AAAG
1 AAAG
38607939 AGTTTTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (20 bp):
AAAGTATTACGTAAAACATG
Found at i:38608051 original size:56 final size:55
Alignment explanation
Indices: 38607896--38608055 Score: 171
Period size: 56 Copynumber: 2.9 Consensus size: 55
38607886 CTAATAAATA
* * * * * *
38607896 AAGTAATTCGTAAAATATGAAAGTATTACTTAAAACATGAAAGAGTTTTAAGAAATT
1 AAGTAATTCGTAATACATGAAAGAATTACTTAAAACTTG-AA-AGTGTTAAGAAAGT
* * * *
38607953 AA-TAATCCATAATACATGAAAGAGTTACTTCAAA-TATGAAAGTGTTAATGAAAGT
1 AAGTAATTCGTAATACATGAAAGAATTACTTAAAACT-TGAAAGTGTTAA-GAAAGT
*
38608008 AAGTAATTCGTAATACATGTAAGAATTACTTAAAACTTGAAAGTGTTA
1 AAGTAATTCGTAATACATGAAAGAATTACTTAAAACTTGAAAGTGTTA
38608056 CTTAAAACAT
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
54 7 0.08
55 9 0.11
56 65 0.77
57 3 0.04
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.31
Consensus pattern (55 bp):
AAGTAATTCGTAATACATGAAAGAATTACTTAAAACTTGAAAGTGTTAAGAAAGT
Done.