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 41 of 253
Found at i:10570170 original size:23 final size:24
Alignment explanation
Indices: 10570142--10570197 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
10570132 ATTAGTAAAT
10570142 AATAAAATAAT-ATAATAAAATAA
1 AATAAAATAATAATAATAAAATAA
10570165 AAT-AAATAATAATAATAAAATAA
1 AATAAAATAATAATAATAAAATAA
*
10570188 AAAAAAATAA
1 AATAAAATAA
10570198 AAATTGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 7 0.23
23 17 0.57
24 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (24 bp):
AATAAAATAATAATAATAAAATAA
Found at i:10570187 original size:5 final size:5
Alignment explanation
Indices: 10570142--10570199 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
10570132 ATTAGTAAAT
*
10570142 AATAA AAT-- AATAT AATAA AATAA AATAAA TAATAA TAATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA -AATAA -AATAA AATAA
*
10570188 AAAAA AATAA AA
1 AATAA AATAA AA
10570200 ATTGGGTTGC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.07
5 30 0.65
6 10 0.22
7 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:10573074 original size:39 final size:40
Alignment explanation
Indices: 10572971--10573233 Score: 349
Period size: 39 Copynumber: 6.7 Consensus size: 40
10572961 GCTCCTCGTT
*
10572971 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
10573011 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
10573051 CAAATGCC-TCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
10573090 CAAATGCC-TCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
10573129 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
10573168 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
10573209 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10573234 CATCATTCAA
Statistics
Matches: 202, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 109 0.54
40 78 0.39
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:10581100 original size:39 final size:40
Alignment explanation
Indices: 10580997--10581258 Score: 340
Period size: 39 Copynumber: 6.7 Consensus size: 40
10580987 GCTCCTCGTT
*
10580997 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
10581037 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
10581077 CAAATGCC-TCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
10581116 CAAATGCC-TCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
10581155 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
10581193 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
10581234 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10581259 CATCATTCAA
Statistics
Matches: 200, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
38 30 0.15
39 84 0.42
40 73 0.37
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:10587076 original size:17 final size:18
Alignment explanation
Indices: 10587056--10587089 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10587046 AAGTGAATTG
10587056 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
10587073 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
10587090 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:10587825 original size:10 final size:10
Alignment explanation
Indices: 10587810--10587865 Score: 71
Period size: 10 Copynumber: 5.6 Consensus size: 10
10587800 ATTCTAAAAT
10587810 ATAAATACAA-
1 ATAAATA-AAG
10587820 ATAAATAAAG
1 ATAAATAAAG
*
10587830 ATAATTAAAG
1 ATAAATAAAG
10587840 ATAAATAAAG
1 ATAAATAAAG
10587850 ATAAATGAAA-
1 ATAAAT-AAAG
10587860 ATAAAT
1 ATAAAT
10587866 CCTAGAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.88
11 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:10590323 original size:20 final size:18
Alignment explanation
Indices: 10590285--10590320 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10590275 CCCTGGCCTG
*
10590285 TTGATTATATAATTTAAA
1 TTGATTATATAATTAAAA
10590303 TTGATTATATAATTAAAA
1 TTGATTATATAATTAAAA
10590321 AATATTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
TTGATTATATAATTAAAA
Found at i:10590613 original size:21 final size:21
Alignment explanation
Indices: 10590587--10590639 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
10590577 CGCTGTTTCT
* *
10590587 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAATAACC
10590608 AATCTCACCGCTACAATAACC
1 AATCTCACCGCTACAATAACC
10590629 AATCTCACCGC
1 AATCTCACCGC
10590640 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.40, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:10590818 original size:29 final size:30
Alignment explanation
Indices: 10590754--10590823 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
10590744 ACAATTAAAT
* *
10590754 ATGAATTTCAATTTAATGTATAATTATATAC
1 ATGAATTTTAATTT-ATGTATAATTATACAC
10590785 ATGAATTTTAATTT-TGTATAATTATACAC
1 ATGAATTTTAATTTATGTATAATTATACAC
*
10590814 GTGAAATTTT
1 ATG-AATTTT
10590824 TATTGTGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 16 0.46
30 6 0.17
31 13 0.37
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.47
Consensus pattern (30 bp):
ATGAATTTTAATTTATGTATAATTATACAC
Found at i:10592398 original size:3 final size:3
Alignment explanation
Indices: 10592379--10592466 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
10592369 GTTGAGAGCT
* * *
10592379 TTA TT- TTA TT- TTT TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
10592422 TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
10592466 T
1 T
10592467 ATATACCCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.13
3 50 0.74
4 7 0.10
5 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10592408 original size:12 final size:12
Alignment explanation
Indices: 10592378--10592459 Score: 64
Period size: 12 Copynumber: 7.0 Consensus size: 12
10592368 AGTTGAGAGC
10592378 TTTATT-TTATT
1 TTTATTATTATT
10592389 TTT-TTATTATT
1 TTTATTATTATT
*
10592400 TTTACTATTATT
1 TTTATTATTATT
*
10592412 TATATTATTATT
1 TTTATTATTATT
* *
10592424 ATTTCTCATGTA--
1 -TTTATTAT-TATT
*
10592436 TATATTATTATT
1 TTTATTATTATT
*
10592448 TATATTATTATT
1 TTTATTATTATT
10592460 ATATTATATA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 4 0.07
11 16 0.29
12 29 0.52
13 5 0.09
14 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:10592781 original size:23 final size:23
Alignment explanation
Indices: 10592718--10592782 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 23
10592708 ATATATATAT
* * *
10592718 TTATATATAGTTTTGTTTTTTTA
1 TTATATTTAATTTTGTATTTTTA
* **
10592741 TTA-CTTTAATTTAATATTTTTA
1 TTATATTTAATTTTGTATTTTTA
*
10592763 TTATATTTATTTTTGTATTT
1 TTATATTTAATTTTGTATTT
10592783 CTATATTTAT
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (23 bp):
TTATATTTAATTTTGTATTTTTA
Found at i:10602959 original size:46 final size:46
Alignment explanation
Indices: 10602892--10603062 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
10602882 AACCCGCCCC
*
10602892 TAAGTGAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGAGCGTTCGCATCCA
* * *
10602938 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC-GA-G-C--GTTCGCATCCA
* * * *
10602986 TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGAGCGTTCGCATCCA
* *
10603031 TAAATGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCG
10603063 GATGCTCAAC
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGAGCGTTCGCATCCA
Found at i:10603056 original size:93 final size:93
Alignment explanation
Indices: 10602897--10603067 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
10602887 GCCCCTAAGT
* * *
10602897 GAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
10602962 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
10602990 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
10603055 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10603068 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:10605448 original size:30 final size:30
Alignment explanation
Indices: 10605413--10605492 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
10605403 CAAGAAAATT
* *
10605413 GAATAAAGAAATCCAAGATAGAGA-AACCTG
1 GAATAAAGAAATCCAAGATAAAGAGAACC-A
*
10605443 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAGAACCA
*
10605473 GAATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
10605493 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.05
30 36 0.84
31 5 0.12
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAGAACCA
Found at i:10605452 original size:15 final size:14
Alignment explanation
Indices: 10605413--10605485 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 14
10605403 CAAGAAAATT
10605413 GAATAAAGAAATCCA
1 GAATAAAGAAA-CCA
* *
10605428 -AGATAGAGAAACCTG
1 GA-ATAAAGAAACC-A
10605443 GAATAAAGAAATCCA
1 GAATAAAGAAA-CCA
*
10605458 GAATAAAGAGATCCA
1 GAATAAAGA-AACCA
10605473 GAATAAAGAAACC
1 GAATAAAGAAACC
10605486 CAAGATACGA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 6 0.13
15 37 0.79
16 4 0.09
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (14 bp):
GAATAAAGAAACCA
Found at i:10608588 original size:45 final size:44
Alignment explanation
Indices: 10608435--10608602 Score: 173
Period size: 45 Copynumber: 3.7 Consensus size: 44
10608425 AACCCGCCCC
* *
10608435 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--GCATTCGCATCCA
* * *
10608481 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGCATTCGC-A--TCCA
* *
10608527 TTTCA-CGAACTC--ACTCAACTCAACGAGTTCGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCG-CATTCGCATCCA
10608571 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
10608603 GATGCTCAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 7 0.07
45 38 0.38
46 37 0.37
47 7 0.07
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (44 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGCATTCGCATCCA
Found at i:10611053 original size:43 final size:44
Alignment explanation
Indices: 10611006--10611100 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 44
10610996 GCCTCAGCGA
* * *
10611006 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
* * *
10611049 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCGCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
10611093 AGCAGACT
1 AGCAGACT
10611101 AAATGTACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 30 0.67
44 15 0.33
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCGCAGTGG
Found at i:10611485 original size:43 final size:44
Alignment explanation
Indices: 10611376--10611488 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 44
10611366 CCACCAAGCT
* * * *
10611376 TTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAGTTTATAGATA
1 TTAAACCCCTAAGCAGTAGGGTAACAAGCCAAAGTTTATAAACA
* * * * *
10611420 TTATTA-CCTTAAGCAATAGGGTAACAAGCCAAA-TTTTTAAACC
1 TTA-AACCCCTAAGCAGTAGGGTAACAAGCCAAAGTTTATAAACA
10611463 TTAAACCCCTAAGCAGTAGGGTAACA
1 TTAAACCCCTAAGCAGTAGGGTAACA
10611489 GGTTGAGTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.49
44 27 0.49
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (44 bp):
TTAAACCCCTAAGCAGTAGGGTAACAAGCCAAAGTTTATAAACA
Found at i:10611520 original size:42 final size:44
Alignment explanation
Indices: 10611461--10611580 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
10611451 AATTTTTAAA
* *
10611461 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA-GTTTAC-AG
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
* * * **
10611503 -ATCTAAACCCCTAAGCAGTAGGGAAACAGATCAATGATGACAAG
1 CCT-TAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
*
10611547 CCTTAACCCCCTAAGCAGTAGGGTAACAGGTTGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGA
10611581 AAATCAAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 4 0.07
44 28 0.46
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (44 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGATGATGACAAG
Found at i:10612028 original size:12 final size:12
Alignment explanation
Indices: 10612011--10612035 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10612001 ACCCAAAACC
10612011 CTTAGCCCAAAA
1 CTTAGCCCAAAA
10612023 CTTAGCCCAAAA
1 CTTAGCCCAAAA
10612035 C
1 C
10612036 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:10612117 original size:13 final size:13
Alignment explanation
Indices: 10612101--10612160 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
10612091 ACCACCCTTG
10612101 TTGGCCACCCACC
1 TTGGCCACCCACC
*
10612114 TTGGCCACCTA-C
1 TTGGCCACCCACC
*** ***
10612126 TCCACCACCCTTG
1 TTGGCCACCCACC
10612139 TTGGCCACCCACC
1 TTGGCCACCCACC
10612152 TTGGCCACC
1 TTGGCCACC
10612161 TACACCACTA
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
12 7 0.21
13 26 0.79
ACGTcount: A:0.15, C:0.50, G:0.15, T:0.20
Consensus pattern (13 bp):
TTGGCCACCCACC
Found at i:10612131 original size:38 final size:38
Alignment explanation
Indices: 10612080--10612168 Score: 169
Period size: 38 Copynumber: 2.3 Consensus size: 38
10612070 AACCCTAATC
10612080 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
10612118 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
1 CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
*
10612156 CCACCTACACCAC
1 CCACCTACTCCAC
10612169 TATGCCACCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.18, C:0.52, G:0.11, T:0.19
Consensus pattern (38 bp):
CCACCTACTCCACCACCCTTGTTGGCCACCCACCTTGG
Found at i:10612719 original size:8 final size:9
Alignment explanation
Indices: 10612706--10612790 Score: 57
Period size: 9 Copynumber: 9.0 Consensus size: 9
10612696 GAGAGCTTTG
10612706 TTTTATT-T
1 TTTTATTAT
10612714 TTTTATTAT
1 TTTTATTAT
*
10612723 TTTTACTAT
1 TTTTATTAT
10612732 TATTTA-TAT
1 T-TTTATTAT
*
10612741 TATTATTAT
1 TTTTATTAT
*
10612750 TTCTCATGTAT
1 TT-TTAT-TAT
*
10612761 ATATTATTAT
1 -TTTTATTAT
*
10612771 TTATATTAT
1 TTTTATTAT
10612780 TATTATATTAT
1 T-TT-TATTAT
10612791 ATATACCCTC
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 10 0.17
9 26 0.43
10 11 0.18
11 12 0.20
12 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATTAT
Found at i:10612722 original size:3 final size:3
Alignment explanation
Indices: 10612716--10612790 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
10612706 TTTTATTTTT
* *
10612716 TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA TGTA TATA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A T-TA T-TA
10612764 TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
10612791 ATATACCCTC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 5 0.09
3 44 0.76
4 7 0.12
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10612732 original size:12 final size:12
Alignment explanation
Indices: 10612708--10612783 Score: 59
Period size: 12 Copynumber: 6.4 Consensus size: 12
10612698 GAGCTTTGTT
10612708 TTATTTTT-TTA
1 TTATTTTTATTA
*
10612719 TTATTTTTACTA
1 TTATTTTTATTA
*
10612731 TTATTTATATTA
1 TTATTTTTATTA
* *
10612743 TTATTATTTCTCA
1 TTATT-TTTATTA
*
10612756 TGTA--TATATTA
1 T-TATTTTTATTA
*
10612767 TTATTTATATTA
1 TTATTTTTATTA
10612779 TTATT
1 TTATT
10612784 ATATTATATA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
10 2 0.04
11 13 0.25
12 29 0.57
13 5 0.10
14 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:10612750 original size:18 final size:18
Alignment explanation
Indices: 10612715--10612794 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
10612705 GTTTTATTTT
* *
10612715 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
10612734 TTTATATTATTATTATT-
1 TTTATATTATTATTATTA
* *
10612751 TCTCAT-GTATATATTATTA
1 T-TTATATTAT-TATTATTA
10612770 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
10612787 TTATATAT
1 TT-TATAT
10612795 ACCCTCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.16
18 34 0.68
19 8 0.16
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:10612871 original size:3 final size:3
Alignment explanation
Indices: 10612865--10612918 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
10612855 TTCTGACTAC
*
10612865 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
10612913 TAT TAT
1 TAT TAT
10612919 CACCCTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 34 0.74
4 11 0.24
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10617578 original size:3 final size:3
Alignment explanation
Indices: 10617570--10617705 Score: 70
Period size: 3 Copynumber: 45.3 Consensus size: 3
10617560 TAATAGTATG
* * * *
10617570 ATA ATA ATA ATA ATA GTA ACA AAA ATA ATA ATGA CA-A AT- ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA ATA ATA ATA
* * * **
10617615 A-A TATA ATA ATA ATA ATA CA-A ATA AAA ACA ATA GTA ATA GCA ATA
1 ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
10617660 ATA GA-A ATA ATA ATA CTCA A-A ATA ATA ATA A-A CATA ATA ATA ATA
1 ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA
10617705 A
1 A
10617706 ATATAAGACT
Statistics
Matches: 102, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
2 9 0.09
3 86 0.84
4 6 0.06
5 1 0.01
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:10617638 original size:15 final size:15
Alignment explanation
Indices: 10617575--10617705 Score: 83
Period size: 15 Copynumber: 8.7 Consensus size: 15
10617565 GTATGATAAT
*
10617575 AATAATAATAGTAACA
1 AATAATAATAAT-ACA
10617591 AA-AATAATAATGACA
1 AATAATAATAAT-ACA
* *
10617606 AAT-ATAACAAATA-T
1 AATAATAA-TAATACA
10617620 AATAATAATAATACA
1 AATAATAATAATACA
* * **
10617635 AATAAAAACAATAGT
1 AATAATAATAATACA
** *
10617650 AATAGCAATAATAGA
1 AATAATAATAATACA
*
10617665 AATAATAATACT-CAA
1 AATAATAATAATAC-A
10617680 AATAATAATAA-ACA
1 AATAATAATAATACA
10617694 TAATAATAATAA
1 -AATAATAATAA
10617706 ATATAAGACT
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
14 8 0.09
15 76 0.85
16 5 0.06
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (15 bp):
AATAATAATAATACA
Found at i:10617711 original size:24 final size:24
Alignment explanation
Indices: 10617570--10617711 Score: 101
Period size: 24 Copynumber: 5.8 Consensus size: 24
10617560 TAATAGTATG
*
10617570 ATAATAATAAT-AATAGTAACAAAA
1 ATAATAATAATAAATA-TAATAAAA
* * * *
10617594 ATAATAATGACAAATATAACAAAT
1 ATAATAATAATAAATATAATAAAA
*
10617618 ATAATAATAAT-AATACAAATAAAA
1 ATAATAATAATAAATA-TAATAAAA
* * * *
10617642 ACAATAGTAATAGCA-ATAATAGAA
1 ATAATAATAATA-AATATAATAAAA
* *
10617666 ATAATAATACTCAAAATAATAATAAAC
1 ATAATAATAAT--AAAT-ATAATAAAA
10617693 ATAATAATAATAAATATAA
1 ATAATAATAATAAATATAA
10617712 GACTGAAATT
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
23 4 0.04
24 57 0.63
25 10 0.11
26 2 0.02
27 17 0.19
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (24 bp):
ATAATAATAATAAATATAATAAAA
Found at i:10619698 original size:175 final size:177
Alignment explanation
Indices: 10619402--10619851 Score: 656
Period size: 177 Copynumber: 2.6 Consensus size: 177
10619392 AACTTTTAGA
* * **
10619402 GAGATAAGACTTGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTTCTC-TCTT
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCAC-CGTCTT
* * * *
10619466 CGATCTACTCCACTACGGCTTAGGGAGATAAGATCTGCAATTTTCAGTCTACTCTACTGCAACTT
65 CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAACTTTCAGTCTACTCTACTACAACTT
* * *
10619531 CA-GG-GATAAGACTTGTATCCTGAGCCTGCTCCATTGCAACCTCAGG
130 CAGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTACAACCTCAAG
*
10619577 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCGTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
* * *
10619642 GATCTACTCCACTACTGTTTAGGGAGATAAGATCTACAACTTTCAGTAC-GCTCTACTACTACTT
66 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAACTTTCAGT-CTACTCTACTACAACTT
*
10619706 CAGGGAGATAAGACTTGTATCTTGAGCCTGCTCCACTACAACCTCAAG
130 CAGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTACAACCTCAAG
* * *
10619754 AAGATAAAGCTGGTGGCTTAAATCTGCTCCATTGCCGCTATATGGAGATAAGATTCACCGTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
* * *
10619819 AATCTGCTCCACTATTGCTTAGGGAGATAAGAT
66 GATCTACTCCACTACTGCTTAGGGAGATAAGAT
10619852 ATGTGACTTC
Statistics
Matches: 247, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
174 1 0.00
175 115 0.47
176 3 0.01
177 128 0.52
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTCACCGTCTTC
GATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAACTTTCAGTCTACTCTACTACAACTTC
AGGGAGATAAGACTTGTATCCTGAGCCTGCTCCACTACAACCTCAAG
Found at i:10624532 original size:20 final size:20
Alignment explanation
Indices: 10624507--10624548 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10624497 AAATGCAAGA
*
10624507 AAAGAATATTTGCTCAGGAT
1 AAAGAATATTTGCTCAGAAT
10624527 AAAGAATATTTGCTCAGAAT
1 AAAGAATATTTGCTCAGAAT
10624547 AA
1 AA
10624549 GACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
AAAGAATATTTGCTCAGAAT
Found at i:10628123 original size:19 final size:19
Alignment explanation
Indices: 10628083--10628121 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10628073 GTGAAATTTG
* *
10628083 ATGCACATGATGCGATGAA
1 ATGCAAATGATGAGATGAA
10628102 ATGCAAATGCATGAGATGAA
1 ATGCAAATG-ATGAGATGAA
10628122 TGTAAAACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (19 bp):
ATGCAAATGATGAGATGAA
Found at i:10631991 original size:28 final size:29
Alignment explanation
Indices: 10631938--10631994 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
10631928 TGAAATAAAC
*
10631938 AAATAAAATAGAAATTTGTAAAAAAATGA
1 AAATAAAATAGAAATTTATAAAAAAATGA
*
10631967 AAATAAAA-AG-AATTTATATATAAAATGA
1 AAATAAAATAGAAATTTATA-AAAAAATGA
10631995 TAAGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
28 10 0.40
29 8 0.32
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (29 bp):
AAATAAAATAGAAATTTATAAAAAAATGA
Found at i:10632078 original size:17 final size:17
Alignment explanation
Indices: 10632043--10632081 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
10632033 CTAATTAATT
* * *
10632043 TAATAGTATGATAATAA
1 TAATAGTATCAAAAAAA
10632060 TAATAGTATCAAAAAAA
1 TAATAGTATCAAAAAAA
10632077 TAATA
1 TAATA
10632082 ACAAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (17 bp):
TAATAGTATCAAAAAAA
Found at i:10632105 original size:3 final size:3
Alignment explanation
Indices: 10632097--10632205 Score: 82
Period size: 3 Copynumber: 36.3 Consensus size: 3
10632087 TATAACAAAT
* * *
10632097 ATA ATA ATA ATA ATA ATA ATA ATG ATA GTA ATA ATA CA-A ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * ** *
10632142 ACA ATA GTA ATA GCA ATA ATA GA-A ATA ATA ATA CTCA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA
10632187 ATA A-A CATA ATA ATA ATA A
1 ATA ATA -ATA ATA ATA ATA A
10632206 ATATATGACT
Statistics
Matches: 83, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
2 5 0.06
3 74 0.89
4 4 0.05
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:10641567 original size:20 final size:19
Alignment explanation
Indices: 10641544--10641587 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
10641534 CTATTCGAAC
*
10641544 AATATTACTA-TAATAGTTA
1 AATATTA-TATTAATAATTA
10641563 TAATATTATATTAATAATTA
1 -AATATTATATTAATAATTA
10641583 AATAT
1 AATAT
10641588 CTTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AATATTATATTAATAATTA
Found at i:10643318 original size:50 final size:48
Alignment explanation
Indices: 10643245--10643420 Score: 173
Period size: 48 Copynumber: 3.7 Consensus size: 48
10643235 TAGGGTATGA
* * ** *
10643245 TGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTTTCACATATCCG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAAC-ACCAC-TATACG
* * * *
10643295 TGCCGATGCCATGTCCTAGACATGATCTTACACTAACACCTCTATACG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACCACTATACG
* *
10643343 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGACA-CA-TCT-CG
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACCACTATACG
* *
10643388 TAGCCGATG-CATGTCCCAGACAT-GTCTTGCACT
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACT
10643421 GGCTTATATC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 9 0.08
45 16 0.15
46 9 0.08
47 1 0.01
48 39 0.36
49 2 0.02
50 32 0.30
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACCACTATACG
Found at i:10647254 original size:17 final size:17
Alignment explanation
Indices: 10647232--10647265 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10647222 AAGTAAAAGA
10647232 TATTT-ATTGATTATTAT
1 TATTTAATTGA-TATTAT
10647249 TATTTAATTGATATTAT
1 TATTTAATTGATATTAT
10647266 ATTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTGATATTAT
Found at i:10649436 original size:40 final size:39
Alignment explanation
Indices: 10649350--10649489 Score: 165
Period size: 39 Copynumber: 3.5 Consensus size: 39
10649340 ACAAAGCATG
* * * *
10649350 CGGGACTTTAAGCCCGGATATAATACCCGCAC-AAGGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
10649390 CGGGACTTTAGCCCGGATATAACATCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
10649430 CAGGACTTGGCCTGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
10649469 CGGGACTTGGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
10649490 TTCTCCATTA
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 68 0.77
40 20 0.23
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:10652268 original size:29 final size:27
Alignment explanation
Indices: 10652229--10652312 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 27
10652219 CACTCTGTGC
*
10652229 TATTCTGGTGTGTTCTGGATGGATTGTAT
1 TATTCTGGTGTGTT-TGGA-GGATTATAT
10652258 TATTCTGGTGTGTTTGAGAGGATTATAT
1 TATTCTGGTGTGTTTG-GAGGATTATAT
* * *
10652286 GATACTAGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTG-TTTGGAGGATTATA
10652313 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 29 0.59
29 20 0.41
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (27 bp):
TATTCTGGTGTGTTTGGAGGATTATAT
Found at i:10652282 original size:23 final size:22
Alignment explanation
Indices: 10652256--10652350 Score: 57
Period size: 23 Copynumber: 3.9 Consensus size: 22
10652246 GATGGATTGT
10652256 ATTATTCTGGTGTGTTTGAGAGG
1 ATTATTCTGGTGTGTTTG-GAGG
*
10652279 ATTATATGATACTAGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTG-TTTGGAGG
* *
10652307 ATTATACTGGTGTGTTTTGGTTGG
1 ATTATTCTGGTGTG-TTTGG-AGG
*
10652331 A-CATTTCTGGTGTGTTTGGA
1 ATTA-TTCTGGTGTGTTTGGA
10652351 TGAAATCTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
23 20 0.35
24 13 0.23
25 3 0.05
26 3 0.05
27 2 0.04
28 12 0.21
29 4 0.07
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (22 bp):
ATTATTCTGGTGTGTTTGGAGG
Found at i:10652435 original size:18 final size:18
Alignment explanation
Indices: 10652414--10652473 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
10652404 AATGAGTAAA
10652414 TTGAATGAATTTGATTAT
1 TTGAATGAATTTGATTAT
* * *
10652432 TTGAATG-A-TTAATAAA
1 TTGAATGAATTTGATTAT
10652448 TTGAATGAATTTGATTAT
1 TTGAATGAATTTGATTAT
10652466 TTGAATGA
1 TTGAATGA
10652474 TTAAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 12 0.35
17 2 0.06
18 20 0.59
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (18 bp):
TTGAATGAATTTGATTAT
Found at i:10652448 original size:34 final size:34
Alignment explanation
Indices: 10652410--10652481 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
10652400 ATGAAATGAG
10652410 TAAATTGAATGAATTTGATTATTTGAATGATTAA
1 TAAATTGAATGAATTTGATTATTTGAATGATTAA
10652444 TAAATTGAATGAATTTGATTATTTGAATGATTAA
1 TAAATTGAATGAATTTGATTATTTGAATGATTAA
10652478 -AAAT
1 TAAAT
10652482 ATGAGAAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (34 bp):
TAAATTGAATGAATTTGATTATTTGAATGATTAA
Found at i:10658350 original size:21 final size:20
Alignment explanation
Indices: 10658306--10658351 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
10658296 TCCTTTCTTT
* *
10658306 TTCTTTCCCTTTTTCTTTCT
1 TTCTTTCCCTTTCTCTTTCG
*
10658326 TTCTTTCCCTGTTCTGTTTCG
1 TTCTTTCCCT-TTCTCTTTCG
10658347 TTCTT
1 TTCTT
10658352 CTTTCTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.65
Consensus pattern (20 bp):
TTCTTTCCCTTTCTCTTTCG
Found at i:10658396 original size:19 final size:19
Alignment explanation
Indices: 10658361--10658403 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10658351 TCTTTCTTTC
*
10658361 CTTTTTCTTTATTTTATTT
1 CTTTTTCTTTATATTATTT
10658380 CTTTATTCTTT-TATTATTT
1 CTTT-TTCTTTATATTATTT
10658399 CTTTT
1 CTTTT
10658404 ATTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
CTTTTTCTTTATATTATTT
Found at i:10658413 original size:8 final size:8
Alignment explanation
Indices: 10658402--10658439 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
10658392 ATTATTTCTT
10658402 TTATTATA
1 TTATTATA
10658410 TTATTA-A
1 TTATTATA
*
10658417 CTATTATA
1 TTATTATA
10658425 TTATTATAA
1 TTATTAT-A
10658434 TTATTA
1 TTATTA
10658440 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:10663082 original size:45 final size:47
Alignment explanation
Indices: 10662933--10663097 Score: 151
Period size: 48 Copynumber: 3.5 Consensus size: 47
10662923 CTGACGCCAC
* * * *
10662933 GTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCTGTGCCGATGCCAT
1 GTCCTAGACATGGTCTTACACT-G-ACACATCATA-C-GTGCCGATGACAT
* * * * *
10662983 GTCCCAGACATGATCTTACACTAACACCTCTATACGTGCTGATGACAT
1 GTCCTAGACATGGTCTTACACTGACACATC-ATACGTGCCGATGACAT
*
10663031 GTCCTAGAGATGGTCTTACACTGACACATC-T-CGTAGCCGATG-CAT
1 GTCCTAGACATGGTCTTACACTGACACATCATACGT-GCCGATGACAT
10663076 GTCCTAGACAT-GTCTTACACTG
1 GTCCTAGACATGGTCTTACACTG
10663098 GCTTACATCG
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 7 0.07
48 38 0.39
49 2 0.02
50 24 0.24
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCCTAGACATGGTCTTACACTGACACATCATACGTGCCGATGACAT
Found at i:10663117 original size:46 final size:46
Alignment explanation
Indices: 10663023--10663236 Score: 186
Period size: 46 Copynumber: 4.6 Consensus size: 46
10663013 TATACGTGCT
* *
10663023 GATGACATGTCCTAGAGATGGTCTTACACTGAC--ACATCTCGTA-GCC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCC
*
10663069 GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCGCGAGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCC
* * * * * *
10663115 GATGCGTGTCCCAAACATGTCTTACACTAGCTCT-CATCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGCC
* * * * * *
10663161 AATGCCATGTCCTAGACACAGTCTTACACAGGCTTTCATAAT-GTGGCC
1 GATG-CATGTCCTAGACA-TGTCTTACACTGGCTTACAT-CTCGAGGCC
*
10663209 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
10663237 AGCACAAAAA
Statistics
Matches: 135, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 63 0.47
47 24 0.18
48 21 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCC
Found at i:10670502 original size:19 final size:20
Alignment explanation
Indices: 10670478--10670520 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
10670468 CATGAGATTT
*
10670478 TGATATACATGATTTG-ACA
1 TGATATACATGATATGCACA
*
10670497 TGATATGCATGATATGCACA
1 TGATATACATGATATGCACA
10670517 TGAT
1 TGAT
10670521 GTATCCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (20 bp):
TGATATACATGATATGCACA
Found at i:10670650 original size:24 final size:24
Alignment explanation
Indices: 10670567--10670675 Score: 148
Period size: 25 Copynumber: 4.4 Consensus size: 24
10670557 CGAGGAAGTG
* *
10670567 CAAAAGGGCTATGCCCTAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
10670591 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10670616 CAAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10670641 CAAAAGGGCTTTGGCCCCAG-TTAT
1 CAAAAGGGCTTT-GCCCCAGTTTAT
*
10670665 TAAAAGAGGCT
1 CAAAAG-GGCT
10670676 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
24 21 0.27
25 57 0.73
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:10670680 original size:24 final size:24
Alignment explanation
Indices: 10670567--10670689 Score: 101
Period size: 25 Copynumber: 5.0 Consensus size: 24
10670557 CGAGGAAGTG
* *
10670567 CAAAAGGGC-TATGCCCTAGTTTAT
1 CAAAAGGGCTTAGGCCCCAG-TTAT
*
10670591 CGAAAAGGGCTT-TGCCCCAGTTTAT
1 C-AAAAGGGCTTAGGCCCCAG-TTAT
*
10670616 CAAAAAGGGCTT-TGCCCCAGTTTAT
1 C-AAAAGGGCTTAGGCCCCAG-TTAT
*
10670641 CAAAAGGGCTTTGGCCCCAGTTAT
1 CAAAAGGGCTTAGGCCCCAGTTAT
*
10670665 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTAGGCC-CCAGTTAT
10670690 AAGATAAAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
24 25 0.28
25 63 0.71
26 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTAGGCCCCAGTTAT
Found at i:10670953 original size:31 final size:31
Alignment explanation
Indices: 10670881--10670967 Score: 149
Period size: 32 Copynumber: 2.8 Consensus size: 31
10670871 ACCGTATACA
10670881 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
*
10670912 GAAAAAGGCTTCGGCCCAGTGATATGAATAAT
1 G-TAAAGGCTTCGGCCCAGTGATATGAATAAT
10670944 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTGATATG
10670968 CTGAGATTGA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
30 5 0.09
31 18 0.34
32 30 0.57
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGATATGAATAAT
Found at i:10678460 original size:11 final size:10
Alignment explanation
Indices: 10678428--10678481 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
10678418 CATGAGATTT
10678428 TGATAT-ACA
1 TGATATGACA
*
10678437 TGATTTGACA
1 TGATATGACA
10678447 TGATATGCACA
1 TGATATG-ACA
*
10678458 TGATATG-TA
1 TGATATGACA
10678467 TGATATGCACA
1 TGATATG-ACA
10678478 TGAT
1 TGAT
10678482 GTATCCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:10678611 original size:24 final size:24
Alignment explanation
Indices: 10678528--10678655 Score: 152
Period size: 25 Copynumber: 5.2 Consensus size: 24
10678518 GGCAAAAGTG
* *
10678528 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
10678552 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10678577 CAAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
10678602 CAAAAGGGCTTTAGCCCCAG-TTAT
1 CAAAAGGGCTTT-GCCCCAGTTTAT
* **
10678626 TAAAAGAGGCTAGGCCCCAG-TTAT
1 CAAAAG-GGCTTTGCCCCAGTTTAT
*
10678650 TAAAAG
1 CAAAAG
10678656 AGGGTAGGCC
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
24 38 0.40
25 57 0.60
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:10678656 original size:24 final size:24
Alignment explanation
Indices: 10678590--10678674 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
10678580 AAAGGGCTTT
*
10678590 GCCCCAGTTTATCAAAAG-GGCTTTA-
1 GCCCCAG-TTATTAAAAGAGGC--TAG
10678615 GCCCCAGTTATTAAAAGAGGCTAG
1 GCCCCAGTTATTAAAAGAGGCTAG
*
10678639 GCCCCAGTTATTAAAAGAGGGTAG
1 GCCCCAGTTATTAAAAGAGGCTAG
10678663 GCCTCCAGTTAT
1 GCC-CCAGTTAT
10678675 ATGATAAAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.04
24 35 0.64
25 18 0.33
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
GCCCCAGTTATTAAAAGAGGCTAG
Found at i:10678938 original size:31 final size:30
Alignment explanation
Indices: 10678866--10678952 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 30
10678856 ACCGTATACA
*
10678866 GTAAAGGCTTCGGTCCAGTGATATAAATAAT
1 GTAAAGGCTTCGG-CCAGTGATATGAATAAT
*
10678897 GAAAAAGGCTTCGGCCTAGTGATATGAATAAT
1 G-TAAAGGCTTCGGCC-AGTGATATGAATAAT
10678929 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGG-CCAGTGATATG
10678953 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.10
31 17 0.34
32 28 0.56
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (30 bp):
GTAAAGGCTTCGGCCAGTGATATGAATAAT
Found at i:10683333 original size:126 final size:126
Alignment explanation
Indices: 10683108--10683362 Score: 415
Period size: 126 Copynumber: 2.0 Consensus size: 126
10683098 CTACTACACC
* *
10683108 GATCCGCCTAAGACTGTGGATTACCTTACAATACAGACAAACAGATGTGAGTTTATGTAAACTCA
1 GATCCGCCTAAAACTGTGGATTACCTTACAATACAGACAAACAGATGTGAGTTTACGTAAACTCA
**
10683173 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTTGGAAATA
66 GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTCAGAAATA
10683234 GATCCGCCTAAAACTGTGGATTA-CTTGACAATACA-AGCAAACAGATGTGAGTTTACGTAAACT
1 GATCCGCCTAAAACTGTGGATTACCTT-ACAATACAGA-CAAACAGATGTGAGTTTACGTAAACT
* * *
10683297 CAGTGTGTAAGCCAATAGAATTAAGCATGCAATCATACAGAATCGTATACACAGTCAGAAATA
64 CAGTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTCAGAAATA
10683360 GAT
1 GAT
10683363 ATAAATACAG
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
125 4 0.03
126 116 0.97
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (126 bp):
GATCCGCCTAAAACTGTGGATTACCTTACAATACAGACAAACAGATGTGAGTTTACGTAAACTCA
GTGTGTAACCCAACAGAATTAAGCATGCAATCATACAGAATCATATACACAGTCAGAAATA
Found at i:10691381 original size:25 final size:25
Alignment explanation
Indices: 10691347--10691400 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
10691337 TGGGACTGGC
*
10691347 TGGGTATTATCGAAGGTTTGTAAAA
1 TGGGTATTATCGAAAGTTTGTAAAA
10691372 TGGGTATTATCGAAAGTTTGTAAAA
1 TGGGTATTATCGAAAGTTTGTAAAA
10691397 -GGGT
1 TGGGT
10691401 TCTCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (25 bp):
TGGGTATTATCGAAAGTTTGTAAAA
Found at i:10692853 original size:40 final size:40
Alignment explanation
Indices: 10692776--10692999 Score: 319
Period size: 40 Copynumber: 5.6 Consensus size: 40
10692766 ATTCCCAAAC
* * * *
10692776 CAAATACCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCA
*
10692815 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
10692855 CAAATGCCTTCGGGACCTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
10692895 CAAATGCCTTCGGGACCTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
10692935 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
10692975 CAAATGCCTTCGGCACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
10693000 TTATCATCCG
Statistics
Matches: 171, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 19 0.11
40 152 0.89
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:10701115 original size:40 final size:39
Alignment explanation
Indices: 10701048--10701250 Score: 234
Period size: 40 Copynumber: 5.4 Consensus size: 39
10701038 CAACCAAGTA
10701048 CTTCGGGA-TTAG-CCGG-TATAGCT-ACTCGCACAAATGC
1 CTTC-GGACTTAGCCCGGATATAG-TAACTCGCACAAATGC
*
10701085 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
10701125 CTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATGC
10701165 CTTCGGAC-TAG-CC--ATATAGTAACTCGCACAAATG-
1 CTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * *
10701199 --TCGGACTTAGCCCGAAT-TAGTCACTAGCACAAATGC
1 CTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
10701235 CTTCGG-CTTAGCCCGG
1 CTTCGGACTTAGCCCGG
10701251 TTATCATCCG
Statistics
Matches: 150, Mismatches: 5, Indels: 22
0.85 0.03 0.12
Matches are distributed among these distances:
32 6 0.04
33 3 0.02
34 2 0.01
35 37 0.25
36 2 0.01
37 19 0.13
38 11 0.07
39 9 0.06
40 61 0.41
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:10701247 original size:70 final size:75
Alignment explanation
Indices: 10701075--10701247 Score: 214
Period size: 70 Copynumber: 2.3 Consensus size: 75
10701065 ATAGCTACTC
*
10701075 GCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACCTAGCC
1 GCACAAATGCCTTC-GGACTTAG-CC-GATATAGTAACTCGCACAAATG-C-TCGGGACCTAGCC
* *
10701140 CGGATATAGTAACTC
61 CGAATATAGTAACTA
*
10701155 GCACAAATGCCTTCGGAC-TAGCC-ATATAGTAACTCGCACAAATG-TC-GGACTTAGCCCGAAT
1 GCACAAATGCCTTCGGACTTAGCCGATATAGTAACTCGCACAAATGCTCGGGACCTAGCCCGAAT
*
10701216 -TAGTCACTA
66 ATAGTAACTA
10701225 GCACAAATGCCTTCGG-CTTAGCC
1 GCACAAATGCCTTCGGACTTAGCC
10701248 CGGTTATCAT
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
69 1 0.01
70 28 0.32
71 13 0.15
72 2 0.02
75 20 0.23
77 2 0.02
78 3 0.03
79 4 0.05
80 14 0.16
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (75 bp):
GCACAAATGCCTTCGGACTTAGCCGATATAGTAACTCGCACAAATGCTCGGGACCTAGCCCGAAT
ATAGTAACTA
Found at i:10704391 original size:79 final size:79
Alignment explanation
Indices: 10704299--10704501 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
10704289 CCTTCGGAAT
* *
10704299 ACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAA
1 ACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTAACTCGCACAAA
10704363 TGCCATCGGGA-CTTA
65 TGCCATC-GGATCTTA
* *
10704378 ACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAA
1 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAGTAACTCGCACAAA
*
10704442 TGCCTTCGGATCTTA
65 TGCCATCGGATCTTA
** * * * *
10704457 GTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 ACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
10704502 GACATCATTC
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
78 10 0.09
79 80 0.75
80 17 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTAACTCGCACAAAT
GCCATCGGATCTTA
Found at i:10704398 original size:40 final size:40
Alignment explanation
Indices: 10704283--10704503 Score: 242
Period size: 39 Copynumber: 5.7 Consensus size: 40
10704273 GCTCCTCGTT
*
10704283 CAAATGCCTTC-GGA-AT-ACCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
10704320 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
10704359 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
10704399 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
10704438 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
10704479 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
10704504 CATCATTCAA
Statistics
Matches: 159, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
37 11 0.07
38 5 0.03
39 68 0.43
40 64 0.40
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:10743470 original size:40 final size:40
Alignment explanation
Indices: 10743339--10743500 Score: 172
Period size: 40 Copynumber: 4.0 Consensus size: 40
10743329 GATTTAGCCG
* *
10743339 ATATAGCT-ACTCGCTCAAATGCCTTCGGGAAACTTAGCCCGGT
1 ATATAG-TAACTCGCACAAATGCCTTCGGG--AC-TAGCCCGAT
*
10743382 ATATAGTAAACTCGACACAAATGCCTT-TGGACTAGCCCGGAT
1 ATATAGT-AACTCG-CACAAATGCCTTCGGGACTAGCCC-GAT
*
10743424 -TATAGTAACTCGCACAAATGCCTTCGGGACCTAGCCCAAT
1 ATATAGTAACTCGCACAAATGCCTTCGGGA-CTAGCCCGAT
10743464 AT-TAGTAACTCGCACAAATGCCGTTC-GGACTAGCCCG
1 ATATAGTAACTCGCACAAATGCC-TTCGGGACTAGCCCG
10743501 GAATTAGATC
Statistics
Matches: 105, Mismatches: 6, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
39 19 0.18
40 34 0.32
41 23 0.22
42 5 0.05
43 6 0.06
44 7 0.07
45 11 0.10
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGACTAGCCCGAT
Found at i:10751614 original size:118 final size:119
Alignment explanation
Indices: 10751433--10751654 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
10751423 TCCTCGTTCA
*
10751433 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
10751498 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
10751552 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
10751614 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
10751655 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10751654 original size:40 final size:40
Alignment explanation
Indices: 10751431--10751654 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
10751421 GCTCCTCGTT
* *
10751431 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
10751471 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
10751511 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
10751551 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
10751589 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
10751630 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10751655 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:10755769 original size:100 final size:100
Alignment explanation
Indices: 10755591--10755775 Score: 316
Period size: 100 Copynumber: 1.9 Consensus size: 100
10755581 AAAAAAAAAC
*
10755591 TTGTTTTATAATAGAGAAGGAAAATTTTGTAAACGATATGGGAAATATCTAGAATGTTGTAAACG
1 TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATATGGGAAATATCTAGAATGTTGTAAACG
10755656 CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
66 CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
* *
10755691 TTGTTTTATAATAGAAAAGTAAAATTTTGTAAACGATATGGGAAATGTCTAGAATGTTGTAAACG
1 TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATATGGGAAATATCTAGAATGTTGTAAACG
* * *
10755756 TAAATATGGAAGGGTCCCCA
66 CAAATATGAAAGGGTACCCA
10755776 CTTCCAACGG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.30
Consensus pattern (100 bp):
TTGTTTTATAATAGAAAAGGAAAATTTTGTAAACGATATGGGAAATATCTAGAATGTTGTAAACG
CAAATATGAAAGGGTACCCAAACACGAAAGCTATT
Found at i:10756273 original size:45 final size:46
Alignment explanation
Indices: 10756224--10756316 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
10756214 ATTATAAAAG
10756224 TTACTATCAATATTT-TTTTTATATTCTATTATTGTTAAATATTTA
1 TTACTATCAATATTTATTTTTATATTCTATTATTGTTAAATATTTA
10756269 TTACTATCAATATTTATTTTTATATTCTATTATTGTTAAATATTTA
1 TTACTATCAATATTTATTTTTATATTCTATTATTGTTAAATATTTA
10756315 TT
1 TT
10756317 CTTTTAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 15 0.32
46 32 0.68
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (46 bp):
TTACTATCAATATTTATTTTTATATTCTATTATTGTTAAATATTTA
Found at i:10756374 original size:15 final size:16
Alignment explanation
Indices: 10756338--10756375 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10756328 GCAATTTAAA
* *
10756338 AATTTTAAATTAAATT
1 AATTATAAATTAAATG
10756354 AATTATAAATT-AATG
1 AATTATAAATTAAATG
10756369 AATTATA
1 AATTATA
10756376 TTTTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTATAAATTAAATG
Found at i:10756977 original size:7 final size:7
Alignment explanation
Indices: 10756960--10757003 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
10756950 GAGTTGCACC
*
10756960 ATATAAG
1 ATATATG
*
10756967 ATATATT
1 ATATATG
10756974 ATATA-G
1 ATATATG
10756980 ATATA-G
1 ATATATG
10756986 ATATATG
1 ATATATG
10756993 ATATATG
1 ATATATG
10757000 ATAT
1 ATAT
10757004 TTATATGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 11 0.33
7 22 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (7 bp):
ATATATG
Found at i:10765714 original size:47 final size:47
Alignment explanation
Indices: 10765636--10766044 Score: 674
Period size: 47 Copynumber: 8.6 Consensus size: 47
10765626 CCCTTCGGGA
* * * * * *
10765636 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
10765683 CCTGTCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10765730 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10765777 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10765826 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10765873 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
10765920 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
10765969 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
10766016 CTTATCACATATATATACATTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
10766045 TATTCAAATA
Statistics
Matches: 343, Mismatches: 13, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
47 231 0.67
49 112 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:10765833 original size:96 final size:94
Alignment explanation
Indices: 10765636--10766044 Score: 674
Period size: 96 Copynumber: 4.3 Consensus size: 94
10765626 CCCTTCGGGA
* * * * * * * * *
10765636 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
10765701 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
10765730 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
10765795 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
10765826 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
10765891 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
10765920 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
10765985 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
10766016 CTTATCACATATATATACATTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
10766045 TATTCAAATA
Statistics
Matches: 299, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
94 100 0.33
96 193 0.65
98 6 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:10765905 original size:143 final size:143
Alignment explanation
Indices: 10765636--10766044 Score: 696
Period size: 143 Copynumber: 2.9 Consensus size: 143
10765626 CCCTTCGGGA
* * * * * * *
10765636 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
10765699 GCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
10765764 TCGGCCATTAGGC
131 TCGGCCATTAGGC
10765777 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
10765842 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
10765907 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
10765920 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
10765985 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACATT
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
10766045 TATTCAAATA
Statistics
Matches: 254, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 225 0.89
145 18 0.07
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:10775637 original size:21 final size:21
Alignment explanation
Indices: 10775611--10775651 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10775601 ATCTGCTCAA
* *
10775611 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
10775632 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
10775652 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:10782448 original size:18 final size:18
Alignment explanation
Indices: 10782427--10782470 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10782417 TGATTTACTG
10782427 TTATTTATT-TATTTATTT
1 TTATTT-TTATATTTATTT
*
10782445 TTATTTTTATTTTTATTT
1 TTATTTTTATATTTATTT
10782463 TTATTTTT
1 TTATTTTT
10782471 CTTCTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTATTTTTATATTTATTT
Found at i:10782449 original size:6 final size:6
Alignment explanation
Indices: 10782438--10782470 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10782428 TATTTATTTA
10782438 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
10782471 CTTCTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:10787034 original size:28 final size:28
Alignment explanation
Indices: 10786994--10787146 Score: 272
Period size: 28 Copynumber: 5.5 Consensus size: 28
10786984 TAAATTGTAC
10786994 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
10787022 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
10787050 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
10787078 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
10787106 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
10787133 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
10787147 AGACTTAATA
Statistics
Matches: 123, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 23 0.19
28 100 0.81
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:10787062 original size:56 final size:56
Alignment explanation
Indices: 10786966--10787146 Score: 276
Period size: 56 Copynumber: 3.2 Consensus size: 56
10786956 CATGAGATTG
* * *
10786966 GCACTAAGTGTGC-AGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGA-GTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTA
*
10787023 GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTA
*
10787079 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTA
*
10787134 GCACTGAGTGTGC
1 GCACTAAGTGTGC
10787147 AGACTTAATA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
55 22 0.19
56 76 0.66
57 17 0.15
58 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:10788748 original size:50 final size:52
Alignment explanation
Indices: 10788692--10788823 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 52
10788682 ATTGGGTACG
**
10788692 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACAA-T-T-TGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAA-AACTGTCTGAAACA
* * * ** *
10788742 CGTAGTAGCCTGCACTTAGTACTAAACACGTGACCTAAAACTGTCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAAAACTGTCTGAAACA
*
10788794 CATAGTAGCCTGCACATAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
10788824 TGTTCTCACA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 34 0.51
51 1 0.01
52 30 0.45
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (52 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAAAACTGTCTGAAACA
Found at i:10793761 original size:39 final size:39
Alignment explanation
Indices: 10793714--10793791 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
10793704 GCTTGATTCT
10793714 CTAATTTCTTAAAGTTTAAACAATCAATGCATAAATGCC
1 CTAATTTCTTAAAGTTTAAACAATCAATGCATAAATGCC
10793753 CTAATTTCTTAAAGTTTAAACAATCAATGCATAAATGCC
1 CTAATTTCTTAAAGTTTAAACAATCAATGCATAAATGCC
10793792 TATGTTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (39 bp):
CTAATTTCTTAAAGTTTAAACAATCAATGCATAAATGCC
Found at i:10805904 original size:12 final size:12
Alignment explanation
Indices: 10805883--10805917 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10805873 TATGTATCTA
10805883 TTTCTTACCAAT
1 TTTCTTACCAAT
*
10805895 TTTCTCACCAAT
1 TTTCTTACCAAT
10805907 TTTCTTACCAA
1 TTTCTTACCAA
10805918 ACCTCTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTCTTACCAAT
Found at i:10808777 original size:67 final size:67
Alignment explanation
Indices: 10808705--10808844 Score: 280
Period size: 67 Copynumber: 2.1 Consensus size: 67
10808695 ACACAATTTG
10808705 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
1 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
10808770 CT
66 CT
10808772 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
1 TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
10808837 CT
66 CT
10808839 TAATAA
1 TAATAA
10808845 CATTCGGAAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.36
Consensus pattern (67 bp):
TAATAATTATAACATAAATAAACTAGTACAATTACTTTAATTAAACTCAAATTATTATCAACATG
CT
Found at i:10809565 original size:7 final size:7
Alignment explanation
Indices: 10809553--10809587 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
10809543 AAGGAGGGAT
10809553 GATGAGG
1 GATGAGG
10809560 GATGAGG
1 GATGAGG
*
10809567 GATGATG
1 GATGAGG
*
10809574 GATGATG
1 GATGAGG
10809581 GATGAGG
1 GATGAGG
10809588 ATCAAATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.51, T:0.20
Consensus pattern (7 bp):
GATGAGG
Found at i:10810087 original size:30 final size:31
Alignment explanation
Indices: 10810046--10810109 Score: 121
Period size: 30 Copynumber: 2.1 Consensus size: 31
10810036 ATTATTAAAT
10810046 ATAATTTTATATTTTATTATTTAATTTAATC
1 ATAATTTTATATTTTATTATTTAATTTAATC
10810077 ATAA-TTTATATTTTATTATTTAATTTAATC
1 ATAATTTTATATTTTATTATTTAATTTAATC
10810107 ATA
1 ATA
10810110 CATGGCCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
ATAATTTTATATTTTATTATTTAATTTAATC
Found at i:10832598 original size:10 final size:10
Alignment explanation
Indices: 10832583--10832613 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
10832573 AAATTGAAGA
10832583 CCAAGTCAAC
1 CCAAGTCAAC
10832593 CCAAGTCAAC
1 CCAAGTCAAC
10832603 CCAAGTCAAC
1 CCAAGTCAAC
10832613 C
1 C
10832614 GAAGATTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.42, G:0.10, T:0.10
Consensus pattern (10 bp):
CCAAGTCAAC
Found at i:10836613 original size:39 final size:39
Alignment explanation
Indices: 10836570--10836687 Score: 155
Period size: 39 Copynumber: 3.0 Consensus size: 39
10836560 CCGGATTCCA
* * * * *
10836570 TTCCAGCACGTAGCCTGTGGACTTCAAGTCTGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
*
10836609 TTCCAGCACATAGCCTGCGGACCTCATTTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
* * *
10836648 TCCCAGCATATAGCCTGCGAACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
10836687 T
1 T
10836688 CCCAATATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTCATGTCCGGATATAT
Found at i:10843963 original size:52 final size:52
Alignment explanation
Indices: 10843906--10844008 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
10843896 ATCGAGTTGT
** *
10843906 CATGGAATGTGTTTTGAATGTTATTAAACATTTTGATAATAAATTGAGTTTC
1 CATGGAATGTGTTCCGAATGTTATTAAACATGTTGATAATAAATTGAGTTTC
*
10843958 CATGGAATGTGTTCCGAATGTTATTAAGCATGTTGATAATAAATTGAGTTT
1 CATGGAATGTGTTCCGAATGTTATTAAACATGTTGATAATAAATTGAGTTT
10844009 AATTAAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (52 bp):
CATGGAATGTGTTCCGAATGTTATTAAACATGTTGATAATAAATTGAGTTTC
Found at i:10847256 original size:18 final size:17
Alignment explanation
Indices: 10847233--10847304 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 17
10847223 GGAAGTGTCG
10847233 TTCATTTCCAAAACGTTA
1 TTCATTT-CAAAACGTTA
10847251 TTCATTATCACAAA-GTTA
1 TTCATT-TCA-AAACGTTA
*
10847269 TACTC-TTTCAAAATGTTA
1 T--TCATTTCAAAACGTTA
*
10847287 TTAATTTTCAAAACGTTA
1 TTCA-TTTCAAAACGTTA
10847305 CTTATAGCGG
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
16 1 0.02
17 3 0.07
18 33 0.73
19 6 0.13
20 2 0.04
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
TTCATTTCAAAACGTTA
Found at i:10854894 original size:28 final size:28
Alignment explanation
Indices: 10854831--10854981 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
10854821 ATATTAAGTC
*
10854831 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10854858 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10854886 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10854914 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
10854942 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
10854971 CGCACACTTAG
1 CGCACACTTAG
10854982 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.19
28 76 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:10862955 original size:28 final size:28
Alignment explanation
Indices: 10862892--10863042 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
10862882 ATATTAAGTC
*
10862892 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10862919 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10862947 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
10862975 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
10863003 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
10863032 CGCACACTTAG
1 CGCACACTTAG
10863043 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.19
28 76 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:10865869 original size:18 final size:17
Alignment explanation
Indices: 10865846--10865917 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 17
10865836 GGAAGTGTCG
10865846 TTCATTTCCAAAACGTTA
1 TTCATTT-CAAAACGTTA
10865864 TTCATTATCACAAA-GTTA
1 TTCATT-TCA-AAACGTTA
10865882 TACTC-TTTCAAAACGTTA
1 T--TCATTTCAAAACGTTA
*
10865900 TTAATTTTCAAAACGTTA
1 TTCA-TTTCAAAACGTTA
10865918 CTTATAGCGG
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
16 1 0.02
17 3 0.07
18 34 0.74
19 6 0.13
20 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (17 bp):
TTCATTTCAAAACGTTA
Found at i:10888459 original size:29 final size:29
Alignment explanation
Indices: 10888417--10888703 Score: 281
Period size: 29 Copynumber: 9.9 Consensus size: 29
10888407 ATCCTAAAAC
* *
10888417 ATGAAAAGAGATGGTTTCGACCATCAAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
10888446 ATGAAAAGGGATGGTTTCGACCATCTAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
10888475 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGAAT
* *** *
10888504 ATGAAAAGGGAGGGTGAAGACCATCAAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* * *** ** *
10888533 ATAAAAAGGGATGATGAGGACCATTAAAC
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
10888562 ATGAAAAGGGATGGTTTCGACCATTGAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* ** *
10888591 ATGAAAATGGATGGTGACGACGATCGAAT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
*
10888620 ATGAAAAGGGATGGTGAT-GACCATCGAAT
1 ATGAAAAGGGATGGT-TTCGACCATCGAAT
*
10888649 ATGAAAAGGGATGGTTTCGACCATCGATT
1 ATGAAAAGGGATGGTTTCGACCATCGAAT
* * * *
10888678 AAAGAAAAAGGATGATTACGACCATC
1 -ATGAAAAGGGATGGTTTCGACCATC
10888704 ATTTAGCACA
Statistics
Matches: 217, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
28 1 0.00
29 194 0.89
30 22 0.10
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.22
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACCATCGAAT
Found at i:10890160 original size:29 final size:30
Alignment explanation
Indices: 10890110--10890175 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
10890100 ATTTTATAAT
*
10890110 TATTTAAATAGATAATTATTATT-TATTTAA
1 TATTTTAATAGATAATTATTATTAT-TTTAA
*
10890140 TATTTTAATAAGAT-ATT-TTATTATTTTAT
1 TATTTTAAT-AGATAATTATTATTATTTTAA
10890169 TATTTTA
1 TATTTTA
10890176 TTTAGTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.50
30 12 0.38
31 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTAATAGATAATTATTATTATTTTAA
Found at i:10890164 original size:8 final size:8
Alignment explanation
Indices: 10890153--10890177 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10890143 TTTAATAAGA
10890153 TATTTTAT
1 TATTTTAT
10890161 TATTTTAT
1 TATTTTAT
10890169 TATTTTAT
1 TATTTTAT
10890177 T
1 T
10890178 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:10890814 original size:26 final size:26
Alignment explanation
Indices: 10890778--10890887 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
10890768 TGATACAAAT
10890778 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10890804 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10890830 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
10890856 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
10890882 TGATAA
1 TGATAA
10890888 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:10894839 original size:33 final size:33
Alignment explanation
Indices: 10894800--10894866 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10894790 TTGAGCCTAA
10894800 GGATGAAATCATCATTAATTAAAAAGTTTAAGG
1 GGATGAAATCATCATTAATTAAAAAGTTTAAGG
*
10894833 GGATGAAATCGTCATTAATTAAAAAGTTTAAGG
1 GGATGAAATCATCATTAATTAAAAAGTTTAAGG
10894866 G
1 G
10894867 TAAAATGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (33 bp):
GGATGAAATCATCATTAATTAAAAAGTTTAAGG
Found at i:10895930 original size:31 final size:31
Alignment explanation
Indices: 10895892--10895951 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
10895882 GTATATGATA
10895892 AATTGATCTCAACATAGTCAAGATATAGTAT
1 AATTGATCTCAACATAGTCAAGATATAGTAT
*
10895923 AATTGATCTCAACATGGTCAAGATATAGT
1 AATTGATCTCAACATAGTCAAGATATAGT
10895952 TTACTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (31 bp):
AATTGATCTCAACATAGTCAAGATATAGTAT
Found at i:10898688 original size:43 final size:42
Alignment explanation
Indices: 10898620--10898701 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
10898610 ATAAATAAAT
* * *
10898620 AAAAATAGTGAATATCAATATAAAGAGCGAAACAAAATTTTG
1 AAAAATAGCGAATACCAATATAAAGAGCAAAACAAAATTTTG
*
10898662 AAAAATTAGCGAATACCAATCA-AAAGAGCAAAACACAATT
1 AAAAA-TAGCGAATACCAAT-ATAAAGAGCAAAACAAAATT
10898702 CAAATCTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 5 0.15
43 28 0.82
44 1 0.03
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (42 bp):
AAAAATAGCGAATACCAATATAAAGAGCAAAACAAAATTTTG
Found at i:10900505 original size:18 final size:19
Alignment explanation
Indices: 10900482--10900518 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
10900472 ATATATGTAT
10900482 TAGAAGTT-ATGATGGTAA
1 TAGAAGTTAATGATGGTAA
10900500 TAGAAGTTAAATGATGGTA
1 TAGAAGTT-AATGATGGTA
10900519 TGAATTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (19 bp):
TAGAAGTTAATGATGGTAA
Found at i:10906640 original size:37 final size:37
Alignment explanation
Indices: 10906598--10906672 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
10906588 ATTTAATTTC
10906598 AAACATATTTACATGCTCAATTAAGTTACACGAACTT
1 AAACATATTTACATGCTCAATTAAGTTACACGAACTT
10906635 AAACATATTTACATGCTCAATTAAGTTACACGAACTT
1 AAACATATTTACATGCTCAATTAAGTTACACGAACTT
10906672 A
1 A
10906673 CCTCGATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (37 bp):
AAACATATTTACATGCTCAATTAAGTTACACGAACTT
Found at i:10909204 original size:36 final size:36
Alignment explanation
Indices: 10909164--10909252 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
10909154 AACCATTGGT
*
10909164 GTGTTTTAGATGGATTGGCTCTTATGAGCATCTAGA
1 GTGTTTTAGATGGATTAGCTCTTATGAGCATCTAGA
* *
10909200 GTGTTTCAGATGGATTAGCTCTTATGAGCATCTAGT
1 GTGTTTTAGATGGATTAGCTCTTATGAGCATCTAGA
* *
10909236 GTGTTTTGGTTGGATTA
1 GTGTTTTAGATGGATTA
10909253 TCGATGTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (36 bp):
GTGTTTTAGATGGATTAGCTCTTATGAGCATCTAGA
Found at i:10911759 original size:13 final size:13
Alignment explanation
Indices: 10911741--10911767 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10911731 AGAGCCAGGT
10911741 TACAAAACTCGGC
1 TACAAAACTCGGC
10911754 TACAAAACTCGGC
1 TACAAAACTCGGC
10911767 T
1 T
10911768 GTGGATTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.15, T:0.19
Consensus pattern (13 bp):
TACAAAACTCGGC
Found at i:10921012 original size:30 final size:28
Alignment explanation
Indices: 10920947--10921012 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
10920937 TAAAAAAAAG
*
10920947 TGTTGCT-TTTCCTTGCTATTTTTTATT
1 TGTTGCTATTTCCTTGCTATTTTTTAAT
* * *
10920974 TTTTGCTATTTTCTTGTTATTTTTTCACAT
1 TGTTGCTATTTCCTTGCTATTTTTT-A-AT
10921004 TGTTGCTAT
1 TGTTGCTAT
10921013 CATTTCACTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.19
28 15 0.48
29 1 0.03
30 9 0.29
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.65
Consensus pattern (28 bp):
TGTTGCTATTTCCTTGCTATTTTTTAAT
Found at i:10925840 original size:22 final size:22
Alignment explanation
Indices: 10925802--10925853 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
10925792 ATATTTCTAG
*
10925802 AATAATCAGAGTTTAACTAAAAA
1 AATAAT-AGAATTTAACTAAAAA
*
10925825 AATAATAGAATTTAACTAAGAA
1 AATAATAGAATTTAACTAAAAA
*
10925847 AAGAATA
1 AATAATA
10925854 TGACACACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.25
Consensus pattern (22 bp):
AATAATAGAATTTAACTAAAAA
Found at i:10927067 original size:132 final size:132
Alignment explanation
Indices: 10926880--10927400 Score: 579
Period size: 132 Copynumber: 4.0 Consensus size: 132
10926870 TTTAGAGAGT
* * * *
10926880 ATGAGTGAAATTCTAAAGGAATCTTCGA-CATTTT-AGACAAAC-AGGAAATCGCAACCCAACAC
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGA-ACAAACGA-GAAATTGCAACCCAACAC
* * ** *
10926942 GATAGGGCACGATTCCCCGAATTGCCAAATATCGAATATTACCTTTGTTTTGAAGAGTTTTTAGA
64 GATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAGAGTTTTTAGA
10927007 AAAC
129 AAAC
* * * *
10927011 ATGAGTGAAATCCAAAAGGGACCTTTGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGA
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* *
10927076 TAGGGCACGATTCCGTGAATTGCCAAATATCGAACATCGCCTTTG-TTTAAAGAATTTTTTA-AA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAG-AGTTTTTAGAA
10927139 AGAC
130 A-AC
* * * *
10927143 ATGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * * *
10927208 TAGGGCACGATTCTGCGAATTGTCAAATATCGAACATCGCCCTCGTTTTAAAG-GATTTTTAGAA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAGAG-TTTTTAGAA
*
10927272 GAC
130 AAC
* * * ** * *
10927275 ATAAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * * * * * * * *
10927340 TAGGACACAATTTCACGAATTACCAAATATCAAATC-TCGCCTTCGTTTTAGAGAATTTTTA
66 TAGGGCACGATTCCGCGAATTGCCAAATATCGAA-CATCGCCTTTGTTTTAAAGAGTTTTTA
10927401 AACGAATAAT
Statistics
Matches: 330, Mismatches: 50, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
131 32 0.10
132 286 0.87
133 12 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
TAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTTGTTTTAAAGAGTTTTTAGAAA
AC
Found at i:10927269 original size:264 final size:264
Alignment explanation
Indices: 10926884--10927399 Score: 646
Period size: 264 Copynumber: 2.0 Consensus size: 264
10926874 GAGAGTATGA
* *
10926884 GTGAAATTCTAAAGGAATCTTCGACATTTTAGACAAACAGGAAATCGCAACCCAACACGATAGGG
1 GTGAAATTCTAAAGGAACCTTCGACATTTGAGACAAACAGGAAATCGCAACCCAACACGATAGGG
* * * * * *
10926949 CACGATTCCCCGAATTGCCAAATATCGAATATTACCTTTGTTTTGAAGAGTTTTTAGAAAACATG
66 CACGATTCCCCGAATTGCCAAATATCGAACATCACCCTCGTTTTAAAGAGTTTTTAGAAAACATA
* *
10927014 AGTGAAATCCAAAAGGGACCTTTGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
131 AGTGAAATCCAAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
* * ** * * *
10927079 GGCACGATTCCGTGAATTGCCAAATATCGAA-CATCGCCTTTG-TTTAAAGAATTTTTTAAAAGA
196 GACACAATTCCACGAATTACCAAATATCAAATC-TCGCCTTCGTTTTAAAGAATTTTTTAAAAGA
10927142 CATGG
260 CATGG
* * * *
10927147 GTGAAATTCTAAAGGGACCTTCGATTACTTTGAG-CAAAC-GAGAAATTGCAACCCAACACGTTA
1 GTGAAATTCTAAAGGAACCTTCGA-CA-TTTGAGACAAACAG-GAAATCGCAACCCAACACGATA
** * * *
10927210 GGGCACGATTCTGCGAATTGTCAAATATCGAACATCGCCCTCGTTTTAAAG-GATTTTTAGAAGA
63 GGGCACGATTCCCCGAATTGCCAAATATCGAACATCACCCTCGTTTTAAAGAG-TTTTTAGAAAA
**** *
10927274 CATAAGTGAAATTTTGAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACG
127 CATAAGTGAAATCCAAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACG
* * *
10927339 TTAGGACACAATTTCACGAATTACCAAATATCAAATCTCGCCTTCGTTTTAGAGAATTTTT
192 ATAGGACACAATTCCACGAATTACCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTT
10927400 AAACGAATAA
Statistics
Matches: 213, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
263 24 0.11
264 170 0.80
265 19 0.09
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (264 bp):
GTGAAATTCTAAAGGAACCTTCGACATTTGAGACAAACAGGAAATCGCAACCCAACACGATAGGG
CACGATTCCCCGAATTGCCAAATATCGAACATCACCCTCGTTTTAAAGAGTTTTTAGAAAACATA
AGTGAAATCCAAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
GACACAATTCCACGAATTACCAAATATCAAATCTCGCCTTCGTTTTAAAGAATTTTTTAAAAGAC
ATGG
Found at i:10931884 original size:55 final size:55
Alignment explanation
Indices: 10931778--10931884 Score: 153
Period size: 55 Copynumber: 1.9 Consensus size: 55
10931768 CTTATCATTT
* **
10931778 TTTTTCATCACACTATCATTGTTGTATTCAAGGTTGTTGAAACCAGTTCAAAATA
1 TTTTTCATCACACTATCATTGTTGTATTCAAGGTTGTTAAAACCAAATCAAAATA
* *
10931833 TTTTTCATCACACTGTCATTGTTGTAGTT-AAGGTTGTTAAAACTAAATCAAA
1 TTTTTCATCACACTATCATTGTTGTA-TTCAAGGTTGTTAAAACCAAATCAAA
10931885 TCGATTAATC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 44 0.96
56 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (55 bp):
TTTTTCATCACACTATCATTGTTGTATTCAAGGTTGTTAAAACCAAATCAAAATA
Found at i:10932185 original size:16 final size:16
Alignment explanation
Indices: 10932164--10932194 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10932154 ATTCTAGAAG
*
10932164 AAAATATACAAAATTA
1 AAAATATAAAAAATTA
10932180 AAAATATAAAAAATT
1 AAAATATAAAAAATT
10932195 CAACACTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATATAAAAAATTA
Found at i:10934044 original size:3 final size:3
Alignment explanation
Indices: 10934036--10934061 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10934026 TAAGGAAACT
10934036 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10934062 TTGGAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10934296 original size:26 final size:27
Alignment explanation
Indices: 10934258--10934310 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
10934248 TTAAATTTTT
* *
10934258 TATTTTTCATTAT-TTCGAAAATAAAA
1 TATTTATCATTATATTAGAAAATAAAA
* *
10934284 TATTTATCTTTATATTATAAAATAAAA
1 TATTTATCATTATATTAGAAAATAAAA
10934311 AAGTTTCGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (27 bp):
TATTTATCATTATATTAGAAAATAAAA
Found at i:10934720 original size:2 final size:2
Alignment explanation
Indices: 10934713--10934749 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10934703 TCCTTAATCT
10934713 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10934750 TTATTATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10942267 original size:17 final size:18
Alignment explanation
Indices: 10942245--10942285 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10942235 ACAAAAAAAA
* *
10942245 TTAAAAT-TTATATTTTT
1 TTAAAATATAATAATTTT
10942262 TTAAAATATAATAATTTT
1 TTAAAATATAATAATTTT
10942280 TTAAAA
1 TTAAAA
10942286 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAAAATATAATAATTTT
Found at i:10943884 original size:42 final size:42
Alignment explanation
Indices: 10943823--10943985 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
10943813 TCGTTTTCTC
** * *
10943823 GATGCCATAGTTCAACTATGGTCTTACACATCTTCAGATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* *
10943865 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
* *
10943906 CGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATTATCACATATT
1 -GATGCCATAGCCCAGCTATGGTCTTACAC---AT--C--T-TCACATAAT
10943957 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
10943986 GAATCACATA
Statistics
Matches: 101, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 62 0.61
45 2 0.02
49 1 0.01
50 33 0.33
51 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATAAT
Found at i:10943971 original size:50 final size:48
Alignment explanation
Indices: 10943891--10944028 Score: 163
Period size: 50 Copynumber: 2.9 Consensus size: 48
10943881 TATGGTCTTA
* *
10943891 CACATATTCATATATCGATGCCATAACCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATTGATGCCATAACCCAGCTATGGTCTTACACG-AAT
*
10943941 CACATTATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACA-TATCACATATTGATGCCATAACCCAGCTATGGTCTTACACGAAT
* * * * *
10943990 CACATATCTC--ACTGATGTCATATCCCAGATATGGTCTTA
1 CACATATCACATATTGATGCCATAACCCAGCTATGGTCTTA
10944029 TACAGTAGCA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
46 25 0.32
48 5 0.06
49 7 0.09
50 40 0.51
51 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (48 bp):
CACATATCACATATTGATGCCATAACCCAGCTATGGTCTTACACGAAT
Found at i:10944062 original size:47 final size:46
Alignment explanation
Indices: 10943906--10944079 Score: 168
Period size: 47 Copynumber: 3.7 Consensus size: 46
10943896 ATTCATATAT
* * * * *
10943906 CGATGCCATAACCCAGCTATGGTCTTACACGTAATCACATTATCACATAT
1 CGATGCCATATCCCAGATATGGTCTTATACG-AAGCACA-TATCAC--AC
* * * * * *
10943956 TGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * * *
10944002 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
10944049 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
10944080 GAAATCACTT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
46 28 0.26
47 40 0.37
48 5 0.05
49 7 0.06
50 29 0.27
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:10944132 original size:31 final size:31
Alignment explanation
Indices: 10944097--10944245 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
10944087 CTTGTCACTT
*
10944097 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
10944128 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
10944159 GTAGCCGGAGTTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
10944190 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
10944221 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
10944246 TGTTATTTGT
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 105 0.99
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:10944331 original size:50 final size:50
Alignment explanation
Indices: 10944221--10944397 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
10944211 CACTAATCAG
* * * *
10944221 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
10944272 GTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
10944322 GTAGCCGAAGCTATTACATATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
10944372 GTAGCCGAAACTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
10944398 GTTGCCATGG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:10945770 original size:105 final size:105
Alignment explanation
Indices: 10945588--10945816 Score: 415
Period size: 105 Copynumber: 2.2 Consensus size: 105
10945578 ATTAGGTCCC
*
10945588 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAGCTCTAATT
1 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAACTCTAATT
10945653 CCATGCCAAATCATCATATACTTCCAGCACATATTCATAG
66 CCATGCCAAATCATCATATACTTCCAGCACATATTCATAG
*
10945693 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATTAGCATATAAACAATTTGAAACTCTAATT
1 AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAACTCTAATT
10945758 CCATGCCAAATCATCATATACTTCCAGCACATATTCATAG
66 CCATGCCAAATCATCATATACTTCCAGCACATATTCATAG
* *
10945798 AAACTTTCAATTTCT-TTCA
1 AAACATTCACTTTCTATTCA
10945817 TAGAATCAAA
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 4 0.03
105 116 0.97
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (105 bp):
AAACATTCACTTTCTATTCAATTCTTTCAAAAAAATCAGCATATAAACAATTTGAAACTCTAATT
CCATGCCAAATCATCATATACTTCCAGCACATATTCATAG
Done.