Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 156 of 316
Found at i:49465404 original size:29 final size:29
Alignment explanation
Indices: 49465369--49465530 Score: 157
Period size: 29 Copynumber: 5.5 Consensus size: 29
49465359 CGATCACTCA
49465369 ATTATGAAAAAGGATGGTGACGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
* **
49465398 ACTATGAAATGGGATGGTGACGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
* * * **
49465427 AATTTTGAAAAAGGATAGCTTTA-G-CTGTCG
1 -ATTATGAAAAAGGAT-G-GTGACGACCATCG
* *
49465457 ATTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAAGGATGGTGACGACCATCG
* *
49465486 ACTATGAAAAAGGGTGGTGACGACCATCG
1 ATTATGAAAAAGGATGGTGACGACCATCG
*
49465515 AATTATGAAAAGGGAT
1 -ATTATGAAAAAGGAT
49465531 AACTTCATCT
Statistics
Matches: 102, Mismatches: 25, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 67 0.66
30 27 0.26
31 2 0.02
32 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (29 bp):
ATTATGAAAAAGGATGGTGACGACCATCG
Found at i:49465518 original size:88 final size:88
Alignment explanation
Indices: 49465369--49465602 Score: 308
Period size: 88 Copynumber: 2.7 Consensus size: 88
49465359 CGATCACTCA
* * * *
49465369 ATTATGAAAAAGGATGGTGACGACCATCGACTATG-AAATGGGATGGTGACGACCATCGAATTTT
1 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGG-TGGTGACGACCATCGAATTAT
* * *
49465433 GAAAAAGGATAGCTTTAGCTGTCG
65 GAAAAAGGATAACTTCAGCTATCG
49465457 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATG
1 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATG
* *
49465522 AAAAGGGATAACTTCATCTATCG
66 AAAAAGGATAACTTCAGCTATCG
* * * * * * *
49465545 ATTATGAAAGGGGATGGTAATGACCATCAACTAAGAAAAATGATGGTGAAGACCATCG
1 ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCG
49465603 TGATTCCACT
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 123 0.95
89 6 0.05
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (88 bp):
ATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATG
AAAAAGGATAACTTCAGCTATCG
Found at i:49465520 original size:59 final size:58
Alignment explanation
Indices: 49465357--49465530 Score: 199
Period size: 59 Copynumber: 2.9 Consensus size: 58
49465347 ACGACGTATC
* * *
49465357 GACGATCACTCAATTATGAAAAAGGATGGTGACGACCATCGACTATGAAATGGGATGGT
1 GACGACCA-TCAATTATGAAAAAGGATGGTGACGACCATCGATTATGAAAAGGGATGGT
* * * **
49465416 GACGACCATCGAATTTTGAAAAAGGATAGCTTTA-G-CTGTCGATTATGAAAAGGGATGGT
1 GACGACCATC-AATTATGAAAAAGGAT-G-GTGACGACCATCGATTATGAAAAGGGATGGT
* *
49465475 GACGACCATCAACTATGAAAAAGGGTGGTGACGACCATCGAATTATGAAAAGGGAT
1 GACGACCATCAATTATGAAAAAGGATGGTGACGACCATCG-ATTATGAAAAGGGAT
49465531 AACTTCATCT
Statistics
Matches: 94, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
56 2 0.02
57 2 0.02
58 19 0.20
59 67 0.71
60 2 0.02
61 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.22
Consensus pattern (58 bp):
GACGACCATCAATTATGAAAAAGGATGGTGACGACCATCGATTATGAAAAGGGATGGT
Found at i:49468120 original size:46 final size:46
Alignment explanation
Indices: 49468068--49468243 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
49468058 TATTTGGGCA
49468068 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
49468114 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
49468159 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
49468207 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49468244 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 4 0.04
46 63 0.57
47 28 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:49468223 original size:93 final size:93
Alignment explanation
Indices: 49468064--49468236 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
49468054 AGGATATTTG
* *
49468064 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
49468129 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
49468157 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
49468222 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
49468237 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49471214 original size:15 final size:15
Alignment explanation
Indices: 49471194--49471249 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
49471184 GTATCTTGGG
49471194 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
49471209 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
49471224 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
49471239 TTTCTTTATTC
1 TTTCTTTATTC
49471250 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:49473699 original size:46 final size:45
Alignment explanation
Indices: 49473644--49473818 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
49473634 TATTTGGGCA
49473644 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCAAATG
* * * *
49473690 TTCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--ATG
* * * *
49473735 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAATG
* * *
49473783 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
49473819 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 5 0.05
46 60 0.56
47 27 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAATG
Found at i:49473799 original size:93 final size:93
Alignment explanation
Indices: 49473640--49473811 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49473630 AGGATATTTG
* * **
49473640 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
49473705 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* * * *
49473733 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
49473798 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49473812 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:49484817 original size:27 final size:27
Alignment explanation
Indices: 49484781--49484977 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
49484771 GGCATAATCA
*
49484781 TCATTTTACCTTACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* * * **
49484808 CCATTGTACCCTACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGTATTACAG
49484835 TCATTTTACCCTACAGGGGTATTAC-G
1 TCATTTTACCCTACAGGGGTATTACAG
* * *
49484861 TTCATTCTACCCTACAGGGGCATTACAA
1 -TCATTTTACCCTACAGGGGTATTACAG
* *
49484889 TCATTTTACCCTATAGGGATATTA-AG
1 TCATTTTACCCTACAGGGGTATTACAG
49484915 TCATTTTACCCTACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
* *
49484942 TCATTTTACCCTATAGGGATATTACAG
1 TCATTTTACCCTACAGGGGTATTACAG
49484969 TCATTTTAC
1 TCATTTTAC
49484978 TTATTTTGGG
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 24 0.17
27 121 0.83
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACAG
Found at i:49484939 original size:80 final size:81
Alignment explanation
Indices: 49484781--49484977 Score: 263
Period size: 80 Copynumber: 2.4 Consensus size: 81
49484771 GGCATAATCA
* * * * *
49484781 TCATTTTACCTTACAGGGGTATTACAGCCATTGTACCCTACAGGGGCATTATGGTCATTTTACCC
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGACATTATAGTCATTTTACCC
49484846 TACAGGGGTATTAC-G
66 TACAGGGGTATTACAG
* * * * *
49484861 TTCATTCTACCCTACAGGGGCATTACAATCATTTTACCCTATAGGGATATTA-AGTCATTTTACC
1 -TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGACATTATAGTCATTTTACC
49484925 CTACAGGGGTATTACAG
65 CTACAGGGGTATTACAG
* *
49484942 TCATTTTACCCTATAGGGATATTACAGTCATTTTAC
1 TCATTTTACCCTACAGGGGTATTACAGTCATTTTAC
49484978 TTATTTTGGG
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
80 57 0.57
81 43 0.43
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (81 bp):
TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAGGGACATTATAGTCATTTTACCC
TACAGGGGTATTACAG
Found at i:49488574 original size:33 final size:34
Alignment explanation
Indices: 49488524--49488591 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
49488514 CTAAGCCTAG
* *
49488524 ATCAGTAACAATCTGGGCCTGAGCCTTATTCAGT
1 ATCAGTAACAATCTGGGCCTGAGCCCTATACAGT
* *
49488558 ATCAGT-ACAGTCTGGGCCTTAGCCCTATACAGT
1 ATCAGTAACAATCTGGGCCTGAGCCCTATACAGT
49488591 A
1 A
49488592 ATAGTGTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (34 bp):
ATCAGTAACAATCTGGGCCTGAGCCCTATACAGT
Found at i:49488590 original size:27 final size:26
Alignment explanation
Indices: 49488560--49488618 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
49488550 TATTCAGTAT
* *
49488560 CAGTACAGTCTGGGCCTTAGCCCTATA
1 CAGTACAGTCT-GGCCTAAGCCCAATA
* *
49488587 CAGTAATAGTGTGGCCTAAGCCCAATA
1 CAGT-ACAGTCTGGCCTAAGCCCAATA
49488614 CAGTA
1 CAGTA
49488619 TTAGTACAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 21 0.78
28 5 0.19
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (26 bp):
CAGTACAGTCTGGCCTAAGCCCAATA
Found at i:49488623 original size:27 final size:27
Alignment explanation
Indices: 49488572--49488623 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
49488562 GTACAGTCTG
* *
49488572 GGCCTTAGCCCTATACAGTAATAGTGT
1 GGCCTAAGCCCAATACAGTAATAGTGT
*
49488599 GGCCTAAGCCCAATACAGTATTAGT
1 GGCCTAAGCCCAATACAGTAATAGT
49488624 ACAGTGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (27 bp):
GGCCTAAGCCCAATACAGTAATAGTGT
Found at i:49488982 original size:27 final size:27
Alignment explanation
Indices: 49488960--49489115 Score: 107
Period size: 27 Copynumber: 5.4 Consensus size: 27
49488950 ATTTTACCAA
49488960 ACAGGGGTATTACGGTCAGTTTACCCT
1 ACAGGGGTATTACGGTCAGTTTACCCT
* * *
49488987 ACAAGGGCATTACGGTCATTTTACCCT
1 ACAGGGGTATTACGGTCAGTTTACCCT
* * *
49489014 ATAGGGGTATTATGGTCA-TTGTACCCC
1 ACAGGGGTATTACGGTCAGTT-TACCCT
* *
49489041 ATAGGGGCATTACGATCATTACGGTCATTTTACCCT
1 ACA-GGG------G-T-ATTACGGTCAGTTTACCCT
* *
49489077 ACAGGAGTATTACGGTCATTTTACCCT
1 ACAGGGGTATTACGGTCAGTTTACCCT
* *
49489104 ACAAGGGCATTA
1 ACAGGGGTATTA
49489116 AGGTTATTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
26 2 0.02
27 74 0.72
28 4 0.04
29 1 0.01
34 1 0.01
35 3 0.03
36 16 0.16
37 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
ACAGGGGTATTACGGTCAGTTTACCCT
Found at i:49489089 original size:36 final size:36
Alignment explanation
Indices: 49489022--49489096 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
49489012 CTATAGGGGT
* * *
49489022 ATTATGGTCATTGTACCCCATAGGGGCATTACGATC
1 ATTACGGTCATTGTACCCCACAGGAGCATTACGATC
* * * *
49489058 ATTACGGTCATTTTACCCTACAGGAGTATTACGGTC
1 ATTACGGTCATTGTACCCCACAGGAGCATTACGATC
49489094 ATT
1 ATT
49489097 TTACCCTACA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (36 bp):
ATTACGGTCATTGTACCCCACAGGAGCATTACGATC
Found at i:49489112 original size:63 final size:63
Alignment explanation
Indices: 49488994--49489115 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 63
49488984 CCTACAAGGG
* * * * *
49488994 CATTACGGTCATTTTACCCTATAGGGGTATTATGGTCATTGTACCCCATAGGGGCATTACGAT
1 CATTACGGTCATTTTACCCTACAGGAGTATTACGGTCATTGTACCCCACAAGGGCATTACGAT
* *
49489057 CATTACGGTCATTTTACCCTACAGGAGTATTACGGTCATTTTACCCTACAAGGGCATTA
1 CATTACGGTCATTTTACCCTACAGGAGTATTACGGTCATTGTACCCCACAAGGGCATTA
49489116 AGGTTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (63 bp):
CATTACGGTCATTTTACCCTACAGGAGTATTACGGTCATTGTACCCCACAAGGGCATTACGAT
Found at i:49489124 original size:27 final size:27
Alignment explanation
Indices: 49489057--49489128 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
49489047 GCATTACGAT
49489057 CATTACGGTCATTTTACCCTACAGGAG
1 CATTACGGTCATTTTACCCTACAGGAG
*
49489084 TATTACGGTCATTTTACCCTACAAGG-G
1 CATTACGGTCATTTTACCCTAC-AGGAG
* *
49489111 CATTAAGGTTATTTTACC
1 CATTACGGTCATTTTACC
49489129 TATTTTAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
CATTACGGTCATTTTACCCTACAGGAG
Found at i:49490018 original size:30 final size:31
Alignment explanation
Indices: 49489982--49490044 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
49489972 AAGGACCAAG
49489982 AACCAAATCAAGAACAAGAAA-TACTTACCC
1 AACCAAATCAAGAACAAGAAAGTACTTACCC
*
49490012 AACCAAATCAAGAGCAAGAAAGTACTTACCC
1 AACCAAATCAAGAACAAGAAAGTACTTACCC
49490043 AA
1 AA
49490045 ACTTAGTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.52, C:0.25, G:0.10, T:0.13
Consensus pattern (31 bp):
AACCAAATCAAGAACAAGAAAGTACTTACCC
Found at i:49492491 original size:46 final size:46
Alignment explanation
Indices: 49492439--49492541 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
49492429 ACTTGATAGT
49492439 GTCTTACACTGGCTCTTCATCAAGTCAATGCCATGTCCCAGACAGG
1 GTCTTACACTGGCTCTTCATCAAGTCAATGCCATGTCCCAGACAGG
* *
49492485 GTCTTACACTGGCTCTTCATCAAGTCAATGCCATGTCCCATACATG
1 GTCTTACACTGGCTCTTCATCAAGTCAATGCCATGTCCCAGACAGG
49492531 GTCTTACACTG
1 GTCTTACACTG
49492542 ACTATCGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
GTCTTACACTGGCTCTTCATCAAGTCAATGCCATGTCCCAGACAGG
Found at i:49499040 original size:29 final size:29
Alignment explanation
Indices: 49498974--49499103 Score: 199
Period size: 29 Copynumber: 4.5 Consensus size: 29
49498964 TATAGTAAGT
* * *
49498974 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
** *
49499002 TTGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
49499031 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
49499060 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
49499089 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49499104 CAATTTCATA
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 18 0.19
29 75 0.81
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAATTTGAAC
Found at i:49506870 original size:29 final size:29
Alignment explanation
Indices: 49506804--49506933 Score: 199
Period size: 29 Copynumber: 4.5 Consensus size: 29
49506794 TATAGTAAGT
* * *
49506804 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
* *
49506832 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
*
49506861 CCACACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
49506890 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAATTTGAAC
49506919 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49506934 CAATTTCATG
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 19 0.20
29 74 0.80
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAATTTGAAC
Found at i:49526846 original size:14 final size:15
Alignment explanation
Indices: 49526806--49526844 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
49526796 TTTGGCTATT
49526806 GCATATATAAATTTA
1 GCATATATAAATTTA
* *
49526821 -CATATTTCAATTTA
1 GCATATATAAATTTA
49526835 GCATATATAA
1 GCATATATAA
49526845 TTCACATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (15 bp):
GCATATATAAATTTA
Found at i:49528006 original size:27 final size:27
Alignment explanation
Indices: 49527984--49528108 Score: 139
Period size: 27 Copynumber: 4.6 Consensus size: 27
49527974 TTAGTTTACC
**
49527984 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGCG
* * *
49528011 AAACTATCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGCG
49528038 AAATTACCAAAATACCCCTGATTT-CTG
1 AAATTACCAAAATACCCCTGATTTGC-G
49528065 AAATTACCAAAATACCCCTGATTT-CTG
1 AAATTACCAAAATACCCCTGATTTGC-G
**
49528092 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
49528109 TCGACCTATA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
27 87 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGCG
Found at i:49528049 original size:54 final size:54
Alignment explanation
Indices: 49527984--49528108 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
49527974 TTAGTTTACC
* * *
49527984 AAATTACCAAAATACCCCT-AGTTTGTAAAACTATCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGA-TTTCTAAAACTACCAAAATACCCCTGATTTCTG
* *
49528038 AAATTACCAAAATACCCCTGATTTCTGAAATTACCAAAATACCCCTGATTTCTG
1 AAATTACCAAAATACCCCTGATTTCTAAAACTACCAAAATACCCCTGATTTCTG
**
49528092 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
49528109 TCGACCTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 62 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTCTAAAACTACCAAAATACCCCTGATTTCTG
Found at i:49528135 original size:54 final size:54
Alignment explanation
Indices: 49527984--49528124 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 54
49527974 TTAGTTTACC
** * * * *
49527984 AAATTACCAAAATACCCCT-AGTTTGTAAAACTATCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGA-CCTATAAAATTACCAAAATACCCCTGATTTCTG
** * *
49528038 AAATTACCAAAATACCCCTGATTTCTGAAATTACCAAAATACCCCTGATTTCTG
1 AAATTACCAAAATACCCCTGACCTATAAAATTACCAAAATACCCCTGATTTCTG
**
49528092 AAATTACTGAAATA-CCCTCGACCTATAAAATTA
1 AAATTACCAAAATACCCCT-GACCTATAAAATTA
49528125 TTGAAATACC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 69 0.93
55 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGACCTATAAAATTACCAAAATACCCCTGATTTCTG
Found at i:49528177 original size:27 final size:27
Alignment explanation
Indices: 49528038--49528219 Score: 129
Period size: 27 Copynumber: 6.7 Consensus size: 27
49528028 CTGATTTGTG
* *
49528038 AAATTACCAAAATACCC-CTGATTT-CTG
1 AAATTACCGAAATACCCTC-GATTTAC-A
* *
49528065 AAATTACCAAAATACCC-CTGATTT-CTG
1 AAATTACCGAAATACCCTC-GATTTAC-A
* ** *
49528092 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCGAAATACCCTCGATTTACA
** * **
49528119 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTACA
* *
49528146 AAATTACCGAAGTACCCTTGATTTACA
1 AAATTACCGAAATACCCTCGATTTACA
* ***
49528173 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTACA
49528200 AAATTACCGAAATACCCTCG
1 AAATTACCGAAATACCCTCG
49528220 TAGGGTAGAA
Statistics
Matches: 128, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
27 127 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTACA
Found at i:49528234 original size:27 final size:27
Alignment explanation
Indices: 49528201--49528693 Score: 684
Period size: 27 Copynumber: 18.3 Consensus size: 27
49528191 CGATTTACAA
49528201 AATTACCGAAATA-CCCTCGTAGGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
49528228 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49528255 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49528282 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49528309 AATTACCGGAATTA-CCTTGTAGGGTAG
1 AATTACC-GAAATACCCCTGTAGGGTAG
*
49528336 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49528363 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
49528390 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
49528417 AAGTATTGCAATACCCCAGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49528444 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49528471 AATTATCGAAATACCCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49528498 AATTACCGAAATACTCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49528525 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49528552 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49528579 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
49528606 AATTGTCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49528633 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
49528660 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
49528687 AATTACC
1 AATTACC
49528694 ATTTTGCCCC
Statistics
Matches: 415, Mismatches: 48, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
26 4 0.01
27 403 0.97
28 8 0.02
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49529409 original size:27 final size:26
Alignment explanation
Indices: 49529321--49529410 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 26
49529311 ATTCTGTTAA
* *
49529321 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* *
49529348 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
49529375 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
*
49529402 GTGACTCTG
1 GTGGCTCTG
49529411 TCAGACTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.15
27 41 0.75
28 6 0.11
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:49529597 original size:6 final size:6
Alignment explanation
Indices: 49529559--49529647 Score: 58
Period size: 6 Copynumber: 14.3 Consensus size: 6
49529549 TTGCATTCAC
* *
49529559 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
49529609 -TCACCTA ATTCTG ATTCTG ATCCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
49529648 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
5 4 0.06
6 47 0.73
7 11 0.17
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:49529608 original size:31 final size:31
Alignment explanation
Indices: 49529559--49529638 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
49529549 TTGCATTCAC
* * *
49529559 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTAATACTG
*
49529591 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
49529622 ATTCTGATCCTGATTCT
1 ATTCTGATTCTGATTCT
49529639 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 36 0.84
32 7 0.16
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:49531704 original size:54 final size:54
Alignment explanation
Indices: 49531598--49531784 Score: 182
Period size: 54 Copynumber: 3.5 Consensus size: 54
49531588 TTAGCTTACC
*
49531598 AAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTATAAAATTATCAAAATACCCCTGA-TTTGTA
* * *
49531652 AAATTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCTGATTTGTA
* ** * ** ** *
49531706 TAATTACTGAAATACCCTTGACATATAAAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCT-GATTTGTA
* * *
49531760 AATTTACCAAAGTACCCTTGATTTA
1 AAATTACCAAAATACCCCTGATTTA
49531785 CAGAATTACC
Statistics
Matches: 107, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
53 4 0.04
54 101 0.94
55 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCTGATTTGTA
Found at i:49531712 original size:27 final size:27
Alignment explanation
Indices: 49531598--49531697 Score: 157
Period size: 27 Copynumber: 3.7 Consensus size: 27
49531588 TTAGCTTACC
49531598 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
49531625 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
49531652 AAATTACCAAAATACCCCT-GATTTATG
1 AAATTACCAAAATACCCCTAG-TTTGTA
49531679 AAATTACCAAAATACCCCT
1 AAATTACCAAAATACCCCT
49531698 GATTTGTGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.01
27 67 0.99
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:49531718 original size:27 final size:27
Alignment explanation
Indices: 49531598--49531722 Score: 155
Period size: 27 Copynumber: 4.6 Consensus size: 27
49531588 TTAGCTTACC
*
49531598 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTG
* *
49531625 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTG
*
49531652 AAATTACCAAAATACCCCTGATTTATG
1 AAATTACCAAAATACCCCTGATTTGTG
49531679 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTG
* **
49531706 TAATTACTGAAATACCC
1 AAATTACCAAAATACCC
49531723 TTGACATATA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 88 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTG
Found at i:49531793 original size:27 final size:27
Alignment explanation
Indices: 49531593--49531833 Score: 126
Period size: 27 Copynumber: 8.9 Consensus size: 27
49531583 ATACTTTAGC
* *
49531593 TTACCAAATTACCAAAATACCCCT-AGT
1 TTACAAAATTACCAAAATACCCTTGA-T
** * *
49531620 TTGTAAAATTATCAAAATACCCCT-AGT
1 TTACAAAATTACCAAAATACCCTTGA-T
** *
49531647 TTGTAAAATTACCAAAATACCCCTGAT
1 TTACAAAATTACCAAAATACCCTTGAT
** *
49531674 TTATGAAATTACCAAAATACCCCTGAT
1 TTACAAAATTACCAAAATACCCTTGAT
**** ** *
49531701 TTGTGTAATTACTGAAATACCCTTGAC
1 TTACAAAATTACCAAAATACCCTTGAT
* * *** * *
49531728 ATATAAAATTATTGAAATACCCTCGAC
1 TTACAAAATTACCAAAATACCCTTGAT
** * *
49531755 TTGTAAATTTACCAAAGTACCCTTGAT
1 TTACAAAATTACCAAAATACCCTTGAT
* **** *
49531782 TTACAGAATTACCGTTTTACCCTCGAT
1 TTACAAAATTACCAAAATACCCTTGAT
49531809 TTACAAAATTACCAAAATACCCTTG
1 TTACAAAATTACCAAAATACCCTTG
49531834 TAGGGTAGAA
Statistics
Matches: 170, Mismatches: 43, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
27 169 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TTACAAAATTACCAAAATACCCTTGAT
Found at i:49531848 original size:27 final size:27
Alignment explanation
Indices: 49531815--49532169 Score: 421
Period size: 27 Copynumber: 13.3 Consensus size: 27
49531805 CGATTTACAA
*
49531815 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * ** *
49531842 AAATACCGAAATACCCCTACACGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
49531869 AATTATCAAAATTCCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
49531896 AATTACCAAAATACCCCTGTAGGATAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
49531923 AATTACCAGAATGCCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
49531950 AATTACCGAATTACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
49531977 AATTACCAGAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
** *
49532004 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
**
49532031 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
49532058 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
49532085 AA-TA-C-GAATACCCATGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
49532109 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * * *
49532136 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
49532162 AATTACCA
1 AATTACCA
49532170 TTTTGCCCCT
Statistics
Matches: 277, Mismatches: 48, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
24 19 0.07
25 3 0.01
26 18 0.06
27 237 0.86
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:49532849 original size:27 final size:27
Alignment explanation
Indices: 49532818--49532919 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
49532808 ATTCTGTTAA
* *
49532818 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* *
49532845 TTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
49532872 GTGGCTCTGCCATAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
49532899 GTGACTCTGTCATAATATCTG
1 GTGGCTATGCCACAATATCTG
49532920 ATAACTGAGC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:49533094 original size:6 final size:6
Alignment explanation
Indices: 49533079--49533141 Score: 74
Period size: 6 Copynumber: 10.3 Consensus size: 6
49533069 ATTCTGTTAC
* * *
49533079 CTGATA CTGATT CTGATT CTGATT CTGATT CTG-TCAG CTAATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
49533128 CTGATT CTGATT CT
1 CTGATT CTGATT CT
49533142 AGTTTTGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
5 1 0.02
6 45 0.92
7 2 0.04
8 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:49533108 original size:37 final size:37
Alignment explanation
Indices: 49533067--49533141 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
49533057 TTCTAATTTT
* *
49533067 TGATTCTGTTACCTGATACTGATTCTGATTCTGATTC
1 TGATTCTGTCACCTAATACTGATTCTGATTCTGATTC
* *
49533104 TGATTCTGTCAGCTAATTCTGATTCTGATTCTGATTC
1 TGATTCTGTCACCTAATACTGATTCTGATTCTGATTC
49533141 T
1 T
49533142 AGTTTTGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (37 bp):
TGATTCTGTCACCTAATACTGATTCTGATTCTGATTC
Found at i:49535097 original size:27 final size:27
Alignment explanation
Indices: 49535067--49535252 Score: 182
Period size: 27 Copynumber: 6.9 Consensus size: 27
49535057 TTAGTTTACC
*
49535067 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
49535094 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
49535121 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
*
49535148 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
*** **
49535175 AAATTATTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
** *
49535202 AAATT-CTTGAAATA-CCCTCGACTTGTA
1 AAATTAC-CAAAATACCCCT-GATTTGTA
* *
49535229 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
49535253 ACAGAATTAC
Statistics
Matches: 136, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
26 4 0.03
27 127 0.93
28 5 0.04
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:49535202 original size:81 final size:81
Alignment explanation
Indices: 49535067--49535252 Score: 207
Period size: 81 Copynumber: 2.3 Consensus size: 81
49535057 TTAGTTTACC
* * **
49535067 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTAC-CAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCCCGAGCCTGTAAAATT-CTCAA
* *
49535131 AATACCC-CTGATTTGTG
65 AATACCCTC-GACTTGTA
* ** **
49535148 AAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATACCCTCGA-CCTGTAAAATTCTTGA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCC-CGAGCCTGTAAAATTCTCAA
49535212 AATACCCTCGACTTGTA
65 AATACCCTCGACTTGTA
* *
49535229 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
49535253 ACAGAATTAC
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.01
81 85 0.96
82 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCCCGAGCCTGTAAAATTCTCAAA
ATACCCTCGACTTGTA
Found at i:49535260 original size:27 final size:26
Alignment explanation
Indices: 49535228--49535302 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
49535218 CTCGACTTGT
49535228 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* *** *
49535255 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
49535282 AAAATTACCGAAATACCCTTG
1 AAAATTACC-AAATACCCTTG
49535303 TAGGGTAGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:49535317 original size:27 final size:27
Alignment explanation
Indices: 49535284--49536070 Score: 899
Period size: 27 Copynumber: 29.3 Consensus size: 27
49535274 CGATTTACAA
*
49535284 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49535311 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535338 AATAATCGAAATACCCC-GATAAGGTAG
1 AATTACCGAAATACCCCTG-TAGGGTAG
*
49535365 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
49535392 AATTACC-AGAATGTCCCTATAGGGAAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
49535419 AATTACCGAAATAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49535446 AATTACC-AGAATACCTCTATAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
49535473 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49535500 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49535527 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49535554 AATTATCGAAATACCCCGGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535581 AATTACCGGAATGCCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535608 AATTACC-AGAATGCCCCTATAGGGAAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * * *
49535635 AATTACCGAACTAACCCTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49535662 AATTACC-AGAATACCTCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
49535689 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49535716 AATTACCTAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535743 AAATACCGAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535770 AATTATCAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49535797 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49535824 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49535851 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535878 AATTACC-AGAATTCCTCTATAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
49535905 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
49535932 AATTACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535958 AATTATCGCAATACCCCTGTAGGGGAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49535985 AATTACCAAAATACCCCTGTATGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
49536012 AATTACTAAAATACCCCTGTAGGG-CG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** *
49536038 AATTACCGAGATA-CGTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49536064 AATTACC
1 AATTACC
49536071 ATTTTGCCCC
Statistics
Matches: 643, Mismatches: 103, Indels: 29
0.83 0.13 0.04
Matches are distributed among these distances:
25 8 0.01
26 45 0.07
27 584 0.91
28 6 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49536549 original size:22 final size:22
Alignment explanation
Indices: 49536497--49536561 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
49536487 TTAAAGCCTT
* *
49536497 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
49536519 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* * *
49536541 TTGATTATGGCTGTCTGCCAA
1 CTGATTATGGCTCTGTGCCAA
49536562 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:49536750 original size:27 final size:27
Alignment explanation
Indices: 49536720--49536821 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
49536710 ATTCTGTTAA
* *
49536720 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
49536747 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
49536774 GTGGCTCTGCCACAATATCTGTATCCG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
49536801 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
49536822 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:49536778 original size:54 final size:53
Alignment explanation
Indices: 49536720--49536821 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
49536710 ATTCTGTTAA
* * * * *
49536720 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCCGGTGACTATGCCAC-AATATCTGTTCTG
* *
49536774 GTGGCTCTGCCACAATATCTGTATCCGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCCGGTGACTATGCCACAATATCTG
49536822 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCCGGTGACTATGCCACAATATCTGTTCTG
Found at i:49536996 original size:6 final size:6
Alignment explanation
Indices: 49536958--49537051 Score: 61
Period size: 6 Copynumber: 15.3 Consensus size: 6
49536948 TTGCATTCAC
* * *
49536958 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
49537008 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCT- ATTCT- AGTTCTG AT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
49537052 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
5 9 0.13
6 47 0.68
7 11 0.16
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:49537013 original size:37 final size:38
Alignment explanation
Indices: 49536958--49537037 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
49536948 TTGCATTCAC
* *
49536958 ATTCTGATTTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTGATTTTTGATTCTGTCACCTAATACTGATTCTG
*
49536996 ATTCTGA-TTTTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTTTTGATTCTGTCACCTAATACTGATTCTG
49537033 ATTCT
1 ATTCT
49537038 ATTCTAGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 32 0.82
38 7 0.18
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (38 bp):
ATTCTGATTTTTGATTCTGTCACCTAATACTGATTCTG
Found at i:49540528 original size:359 final size:359
Alignment explanation
Indices: 49539869--49540580 Score: 1415
Period size: 359 Copynumber: 2.0 Consensus size: 359
49539859 TTTTGCGACA
49539869 CTTTCAAAAGTAATGGCATTTCTGATGATGCCATTCACCTTCGGTTATTCCCTTTTTCACTAAGA
1 CTTTCAAAAGTAATGGCATTTCTGATGATGCCATTCACCTTCGGTTATTCCCTTTTTCACTAAGA
49539934 AACAAAGCTAAACAGTGGTTGAACTCGTTACCATGAGGGTCCATCACTATTTGGGAACAAATGAC
66 AACAAAGCTAAACAGTGGTTGAACTCGTTACCATGAGGGTCCATCACTATTTGGGAACAAATGAC
49539999 CGAAAAATTTCTACTAAAATATTTTTCACCGGCTAAAACGGCTAAGTTACGTAATGATATCTCTT
131 CGAAAAATTTCTACTAAAATATTTTTCACCGGCTAAAACGGCTAAGTTACGTAATGATATCTCTT
49540064 CTTTTGTGCAGATGGACTTAGAAACACTTTATGATGCATGGGAGAGATACAAGGGTCTATTGCGA
196 CTTTTGTGCAGATGGACTTAGAAACACTTTATGATGCATGGGAGAGATACAAGGGTCTATTGCGA
49540129 AGGTGTTCTCACCATGGGTTACCTCTATGGTTGCAAGTTCAAATGTTTTACAATGGTGTGAATCC
261 AGGTGTTCTCACCATGGGTTACCTCTATGGTTGCAAGTTCAAATGTTTTACAATGGTGTGAATCC
49540194 CTCAACAAGACAGATGATTGACACAGGTTATTCC
326 CTCAACAAGACAGATGATTGACACAGGTTATTCC
49540228 CTTTCAAAAGTAATGGCATTTCTGATGATGCCATTCACCTTCGGTTATTCCCTTTTTCACTAAGA
1 CTTTCAAAAGTAATGGCATTTCTGATGATGCCATTCACCTTCGGTTATTCCCTTTTTCACTAAGA
49540293 AACAAAGCTAAACAGTGGTTGAACTCGTTACCATGAGGGTCCATCACTATTTGGGAACAAATGAC
66 AACAAAGCTAAACAGTGGTTGAACTCGTTACCATGAGGGTCCATCACTATTTGGGAACAAATGAC
49540358 CGAAAAATTTCTACTAAAATATTTTTCACCGGCTAAAACGGCTAAGTTACGTAATGATATCTCTT
131 CGAAAAATTTCTACTAAAATATTTTTCACCGGCTAAAACGGCTAAGTTACGTAATGATATCTCTT
*
49540423 CTTTTGTGCGGATGGACTTAGAAACACTTTATGATGCATGGGAGAGATACAAGGGTCTATTGCGA
196 CTTTTGTGCAGATGGACTTAGAAACACTTTATGATGCATGGGAGAGATACAAGGGTCTATTGCGA
49540488 AGGTGTTCTCACCATGGGTTACCTCTATGGTTGCAAGTTCAAATGTTTTACAATGGTGTGAATCC
261 AGGTGTTCTCACCATGGGTTACCTCTATGGTTGCAAGTTCAAATGTTTTACAATGGTGTGAATCC
49540553 CTCAACAAGACAGATGATTGACACAGGT
326 CTCAACAAGACAGATGATTGACACAGGT
49540581 GCTGGAGGAA
Statistics
Matches: 352, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
359 352 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (359 bp):
CTTTCAAAAGTAATGGCATTTCTGATGATGCCATTCACCTTCGGTTATTCCCTTTTTCACTAAGA
AACAAAGCTAAACAGTGGTTGAACTCGTTACCATGAGGGTCCATCACTATTTGGGAACAAATGAC
CGAAAAATTTCTACTAAAATATTTTTCACCGGCTAAAACGGCTAAGTTACGTAATGATATCTCTT
CTTTTGTGCAGATGGACTTAGAAACACTTTATGATGCATGGGAGAGATACAAGGGTCTATTGCGA
AGGTGTTCTCACCATGGGTTACCTCTATGGTTGCAAGTTCAAATGTTTTACAATGGTGTGAATCC
CTCAACAAGACAGATGATTGACACAGGTTATTCC
Found at i:49554110 original size:40 final size:40
Alignment explanation
Indices: 49554073--49554256 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
49554063 GCTACTCGTT
* *
49554073 CAAATGCCTTCGGGACATAGTCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
49554113 CAAATGCATTCGGGACTTAACCCGGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
49554153 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
49554192 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
49554233 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49554257 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 72 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49554185 original size:79 final size:81
Alignment explanation
Indices: 49554075--49554257 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
49554065 TACTCGTTCA
* * * *
49554075 AATGCCTTCGGGACATAGTCCGG-TTATAGTAACTCGCACAAATGCATTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCATTC-GGATCTTAACCCAG
* * *
49554138 ATTTAGTGAC-TCGCACC
65 ATATAGTCACTTAGCA-C
* **
49554155 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCATTCGGATCTTAACCCAGA
49554218 TATAGTCACTTAGCAC
66 TATAGTCACTTAGCAC
*
49554234 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49554258 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCATTCGGATCTTAACCCAGA
TATAGTCACTTAGCAC
Found at i:49561913 original size:39 final size:41
Alignment explanation
Indices: 49561799--49561982 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
49561789 GCTACTCGTT
* *
49561799 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
49561839 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
49561879 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
49561918 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
49561959 CAAA-G-CTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49561983 CATCATTCGA
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 46 0.37
40 70 0.56
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:49561914 original size:79 final size:81
Alignment explanation
Indices: 49561801--49561982 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
49561791 TACTCGTTCA
* *
49561801 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
49561864 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
49561881 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
49561944 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
49561960 AAAG-CTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49561983 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 10 0.11
79 63 0.70
80 17 0.19
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:49567617 original size:4 final size:4
Alignment explanation
Indices: 49567608--49567636 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
49567598 TCCGAATTTG
49567608 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
49567637 ATGTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:49569287 original size:16 final size:18
Alignment explanation
Indices: 49569256--49569288 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49569246 AACTCATCAC
49569256 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
49569274 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
49569289 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:49572407 original size:37 final size:37
Alignment explanation
Indices: 49572357--49572435 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49572347 TTATTACGAA
* *
49572357 GTCTTACCCGGACATAAT-CTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATAC-CCACACGAAGTCATCGG
*
49572394 GTCTTACCCGGACAAAATACCCACGCGAAGTCATCGG
1 GTCTTACCCGGACAAAATACCCACACGAAGTCATCGG
49572431 GTCTT
1 GTCTT
49572436 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATACCCACACGAAGTCATCGG
Found at i:49572916 original size:49 final size:49
Alignment explanation
Indices: 49572554--49573345 Score: 1287
Period size: 47 Copynumber: 16.5 Consensus size: 49
49572544 CCCTTCGGGA
* * * * *
49572554 CTTATCACAT-T-TATACACTTTCACATGCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49572601 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49572648 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49572695 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49572742 CTTATCAC--ATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49572789 CTTA-C-CACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49572836 CTTAGCAC--ATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49572883 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49572932 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49572981 CTAATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49573030 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49573079 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49573128 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49573175 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49573224 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49573273 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49573320 CTTATCACATATATATACACTTTCAC
1 CTTATCACATATATATACACTTTCAC
49573346 GTATACACAC
Statistics
Matches: 709, Mismatches: 24, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
45 1 0.00
46 2 0.00
47 357 0.50
48 1 0.00
49 348 0.49
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49573091 original size:145 final size:144
Alignment explanation
Indices: 49572554--49573345 Score: 1317
Period size: 145 Copynumber: 5.5 Consensus size: 144
49572544 CCCTTCGGGA
* * * * * * * *
49572554 CTTATCACATTTATACACTTTCACATGCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49572617 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
49572681 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
49572695 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
49572758 ACTTTCAAATTCATCACATCGGCCATTAGGCCTTACCAC-ATATATACACCTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
49572822 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
* *
49572836 CTTAGCACATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
49572901 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
*
49572966 CATCGGCCGTTAGGC
130 CATCGGCCATTAGGC
* *
49572981 CTAATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
49573046 ACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCGCATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
49573111 CACATCGGCCATTAGGC
128 CACATCGGCCATTAGGC
*
49573128 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49573193 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
49573258 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
49573273 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49573338 ACTTTCAC
66 ACTTTCAC
49573346 GTATACACAC
Statistics
Matches: 615, Mismatches: 30, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
141 183 0.30
143 44 0.07
145 248 0.40
147 140 0.23
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:49576971 original size:40 final size:40
Alignment explanation
Indices: 49576937--49577288 Score: 560
Period size: 40 Copynumber: 8.8 Consensus size: 40
49576927 CCAGCATGAT
* * * *
49576937 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
49576977 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
49577017 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
49577057 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
49577097 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49577137 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49577177 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
49577217 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
49577257 TGCTGTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
49577289 CTCAATTCTC
Statistics
Matches: 285, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 285 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:49578552 original size:37 final size:37
Alignment explanation
Indices: 49578502--49578580 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
49578492 TTATTACGAA
* * *
49578502 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* * *
49578539 GTCTTGCCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
49578576 GTCTT
1 GTCTT
49578581 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:49578816 original size:47 final size:47
Alignment explanation
Indices: 49578699--49579150 Score: 717
Period size: 47 Copynumber: 9.5 Consensus size: 47
49578689 CCCTTCGGGA
* * * * * *
49578699 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACT-CGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49578745 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49578792 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49578839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49578886 CTTATCACATATATACACTTTCACTTTCATCACATCGGCCCTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49578933 CTTATCACATATATATACACTTTCATATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49578982 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49579029 CTTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49579078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49579125 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
49579151 GTATACACAC
Statistics
Matches: 378, Mismatches: 21, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
46 36 0.10
47 237 0.63
49 105 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49578980 original size:96 final size:96
Alignment explanation
Indices: 49578699--49579150 Score: 743
Period size: 96 Copynumber: 4.8 Consensus size: 96
49578689 CCCTTCGGGA
* * * * * * * *
49578699 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACT-CGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49578761 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49578792 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49578855 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
49578886 CTTATCACATATATACACTTTCACTTTCATCACATCGGCCCTTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
49578951 ACTTTCATATTCATCACATCGGCCGTTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
49578982 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49579047 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49579078 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49579143 ACTTTCAC
66 ACTTTCAC
49579151 GTATACACAC
Statistics
Matches: 336, Mismatches: 20, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
93 38 0.11
94 100 0.30
96 198 0.59
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49578999 original size:143 final size:141
Alignment explanation
Indices: 49578699--49579150 Score: 717
Period size: 143 Copynumber: 3.2 Consensus size: 141
49578689 CCCTTCGGGA
* * * * * * * *
49578699 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACT-CGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49578763 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
49578828 GGCCATTAGGC
131 GGCCATTAGGC
49578839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
49578904 TTTCACTTTCATCACATCGGCCCTTAGGCCTTATCACATATATATACACTTTCATATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
49578969 TCGGCCGTTAGGC
129 TCGGCCATTAGGC
* *
49578982 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATAC
49579047 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49579112 TCGGCCATTAGGC
129 TCGGCCATTAGGC
49579125 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
49579151 GTATACACAC
Statistics
Matches: 286, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
140 38 0.13
141 53 0.19
143 133 0.47
145 62 0.22
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:49584021 original size:42 final size:43
Alignment explanation
Indices: 49583944--49584045 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
49583934 TCTCGGATGT
* * **
49583944 GGTCTTACATGTAATTCAATATCGATGCCTTTGTCCCAGACAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
*
49583987 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
*
49584029 GGTCTTATACGTAAATC
1 GGTCTTACACGTAAATC
49584046 TCAATCGAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 33 0.65
43 18 0.35
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:49584387 original size:9 final size:9
Alignment explanation
Indices: 49584373--49584405 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
49584363 ACCATTCAAC
49584373 CATTCATTT
1 CATTCATTT
49584382 CATTCATTT
1 CATTCATTT
49584391 CATTCATTT
1 CATTCATTT
49584400 CATTCA
1 CATTCA
49584406 ATTTAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
CATTCATTT
Found at i:49586880 original size:29 final size:28
Alignment explanation
Indices: 49586784--49586895 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 28
49586774 CAGCATCTGA
* *
49586784 CCCATTAAGCCCAATCATATTCATATGG
1 CCCATTAGGCCCAATCACATTCATATGG
* *
49586812 CCCACTAGGCCCAAATCACCTAT-ATATGG
1 CCCATTAGGCCC-AATCACAT-TCATATGG
* *
49586841 CTCATTAGGCCCAAATCACATTTATATGG
1 CCCATTAGGCCC-AATCACATTCATATGG
* * *
49586870 CCCGTTCGGCCCAGTCACATTCATAT
1 CCCATTAGGCCCAATCACATTCATAT
49586896 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.33
29 45 0.65
30 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (28 bp):
CCCATTAGGCCCAATCACATTCATATGG
Found at i:49587116 original size:8 final size:8
Alignment explanation
Indices: 49587103--49587138 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
49587093 ACTTTTGGCT
49587103 TTTCGGCA
1 TTTCGGCA
49587111 TTTCGGCA
1 TTTCGGCA
49587119 TTTCGGCA
1 TTTCGGCA
*
49587127 TTTCGTCA
1 TTTCGGCA
49587135 TTTC
1 TTTC
49587139 AGCTTTTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.44
Consensus pattern (8 bp):
TTTCGGCA
Found at i:49591367 original size:29 final size:29
Alignment explanation
Indices: 49591304--49591411 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
49591294 TTCGCATACC
* * * *
49591304 TGTATCTGGCCCATTAAGTCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
49591332 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
*
49591361 TGTATATGGCTCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
49591390 TTTATATGGCCCATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
49591412 GTCATATTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 16 0.24
29 50 0.74
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:49591400 original size:58 final size:57
Alignment explanation
Indices: 49591301--49591411 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
49591291 AATTTCGCAT
* * *
49591301 ACCTGTATCTGGCCCATTAAGTCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
49591358 ACCTGTATATGGCTCATTAGGCCCAAATCACATTTATATGGCCCATTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
49591412 GTCATATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 20 0.43
58 27 0.57
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:49593409 original size:47 final size:47
Alignment explanation
Indices: 49593346--49593648 Score: 507
Period size: 47 Copynumber: 6.4 Consensus size: 47
49593336 CCCTTCGGGA
* * *
49593346 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
49593393 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
49593440 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
49593487 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
49593534 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
49593581 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
49593628 CTTATCACATATACACACTTT
1 CTTATCACATATATACACTTT
49593649 TATACACACT
Statistics
Matches: 243, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 243 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:49593507 original size:94 final size:94
Alignment explanation
Indices: 49593346--49593704 Score: 529
Period size: 94 Copynumber: 3.7 Consensus size: 94
49593336 CCCTTCGGGA
* * * * * *
49593346 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCTCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
49593411 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
49593440 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
49593505 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
*
49593534 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
* *
49593599 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
49593628 CTTATCACATATACACACTTTTATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CTTATCAC--AT----A----TAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
49593693 ACATATACACAC
54 ACATATACACAC
49593705 CTTGTACACC
Statistics
Matches: 243, Mismatches: 10, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
94 187 0.77
96 2 0.01
100 1 0.00
104 3 0.01
106 50 0.21
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:49593661 original size:59 final size:59
Alignment explanation
Indices: 49593590--49593704 Score: 230
Period size: 59 Copynumber: 1.9 Consensus size: 59
49593580 CCTTATCACA
49593590 TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTT
1 TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTT
49593649 TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
1 TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACAC
49593705 CTTGTACACC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.30
Consensus pattern (59 bp):
TATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTT
Found at i:49593721 original size:59 final size:59
Alignment explanation
Indices: 49593593--49593721 Score: 206
Period size: 59 Copynumber: 2.2 Consensus size: 59
49593583 TATCACATAT
* * *
49593593 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTTAT
1 ACACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTGTAC
*
49593652 ACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACCTTGTAC
1 ACACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACA-CTTGTAC
49593712 AC-CAATTTCA
1 ACACAATTTCA
49593722 TCATAAAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
59 59 0.89
60 7 0.11
ACGTcount: A:0.31, C:0.32, G:0.07, T:0.30
Consensus pattern (59 bp):
ACACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTGTAC
Found at i:49600920 original size:46 final size:46
Alignment explanation
Indices: 49600827--49600940 Score: 115
Period size: 46 Copynumber: 2.5 Consensus size: 46
49600817 GTGAGCTAGA
* *
49600827 GTAAGACATGTCTGGAACATGCATCAGCCTCGAGGTGTAAGCCAAT
1 GTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAAT
* * **
49600873 GTAAGACATGCCTGGGACATGCATCTG-CTACGAGATG-ATAGTTAAT
1 GTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGTA-AGCCAAT
* *
49600919 GTAAAACCATGTCTGAGACATG
1 GTAAGA-CATGTCTGGGACATG
49600941 GCTTCGACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
45 3 0.05
46 40 0.71
47 13 0.23
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAAT
Found at i:49608744 original size:15 final size:15
Alignment explanation
Indices: 49608726--49608765 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
49608716 TTTTCTTGCT
*
49608726 TTGGATTTCTTTATG
1 TTGGATTTCTATATG
*
49608741 TTGGATTTCTATATT
1 TTGGATTTCTATATG
49608756 TTGGATTTCT
1 TTGGATTTCT
49608766 CCGTTATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.07, G:0.17, T:0.60
Consensus pattern (15 bp):
TTGGATTTCTATATG
Found at i:49620624 original size:27 final size:27
Alignment explanation
Indices: 49620594--49620771 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49620584 ATATTGAGTC
* * * *
49620594 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49620621 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49620648 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49620676 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49620703 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49620730 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49620757 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49620772 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49620733 original size:82 final size:81
Alignment explanation
Indices: 49620615--49620770 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49620605 TGCTATATAA
* *
49620615 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49620680 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49620697 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49620761 CACTTAGTGC
65 CACTTAGTGC
49620771 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49621268 original size:12 final size:12
Alignment explanation
Indices: 49621251--49621277 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49621241 ATGGCATACT
49621251 TATGTATATATA
1 TATGTATATATA
49621263 TATGTATATATA
1 TATGTATATATA
49621275 TAT
1 TAT
49621278 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:49628626 original size:27 final size:27
Alignment explanation
Indices: 49628596--49628773 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49628586 ATATTGAGTC
* * * *
49628596 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49628623 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49628650 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49628678 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49628705 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49628732 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49628759 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49628774 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49628735 original size:82 final size:81
Alignment explanation
Indices: 49628617--49628772 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49628607 TGCTATATAA
* *
49628617 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49628682 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49628699 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49628763 CACTTAGTGC
65 CACTTAGTGC
49628773 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:49629272 original size:12 final size:12
Alignment explanation
Indices: 49629255--49629281 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49629245 ATGGCATACT
49629255 TATGTATATATA
1 TATGTATATATA
49629267 TATGTATATATA
1 TATGTATATATA
49629279 TAT
1 TAT
49629282 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:49645141 original size:79 final size:80
Alignment explanation
Indices: 49645045--49645223 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 80
49645035 CGTTCAAATT
* * * *
49645045 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTAACCCGGATTT
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATAT
* * *
49645108 AGTGAC-TCGCACCAATG
64 AGTCACTTAGCA-CAAAG
**
49645125 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAG
49645189 TCACTTAGCACAAAG
66 TCACTTAGCACAAAG
49645204 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
49645224 CATCATTCGA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.69
80 24 0.28
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAG
TCACTTAGCACAAAG
Found at i:49645223 original size:40 final size:40
Alignment explanation
Indices: 49645020--49645223 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
49645010 CGAAATTTAA
** * *
49645020 CCGGATATAGCT-ACTCGTTCAAATTCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49645060 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
49645100 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49645139 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
49645179 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49645219 CCGGA
1 CCGGA
49645224 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49660501 original size:50 final size:50
Alignment explanation
Indices: 49660442--49660542 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
49660432 CATAACTCAA
49660442 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
1 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
49660492 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
1 GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
49660542 G
1 G
49660543 ATCAAATTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (50 bp):
GTAGTATTCTTTCCTAGGATTCCATAGACATCAAAATTACAAGAAAAAGG
Found at i:49662397 original size:31 final size:31
Alignment explanation
Indices: 49662359--49662421 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
49662349 TAGATTTTTG
49662359 AAGATTTCCAATCAACAATAACAGAAATCTT
1 AAGATTTCCAATCAACAATAACAGAAATCTT
49662390 AAGATTTCCAATCAACAATAACAGAAATCTT
1 AAGATTTCCAATCAACAATAACAGAAATCTT
49662421 A
1 A
49662422 CTCAAGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.25
Consensus pattern (31 bp):
AAGATTTCCAATCAACAATAACAGAAATCTT
Found at i:49664011 original size:20 final size:20
Alignment explanation
Indices: 49663986--49664026 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
49663976 CTAAAACAAG
49663986 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
49664006 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
49664026 C
1 C
49664027 CACTGTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.44
Consensus pattern (20 bp):
CTCCGCTCATTATTTTACAT
Found at i:49665976 original size:46 final size:46
Alignment explanation
Indices: 49665909--49666084 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 46
49665899 TGTAACCCGC
* * * *
49665909 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGGTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
* ** * *
49665955 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GATTCGCAT
* *** * * *
49666001 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
*
49666048 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49666085 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 68 0.67
47 34 0.33
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
Found at i:49666024 original size:93 final size:93
Alignment explanation
Indices: 49665916--49666088 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
49665906 CGCCCATAAG
****
49665916 CGAACTCAGACTCAACTCAACGAGCTCGGGGTTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49665981 ACAAGCTCGGATGCCTAGTTACATCTCT
66 ACAAGCTCGGATGCCTAGTTACATCTCT
* *
49666009 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
49666074 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
49666089 CAAATATCCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCT
Found at i:49669440 original size:24 final size:25
Alignment explanation
Indices: 49669397--49669466 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 25
49669387 TTGAGTTGAT
**
49669397 GAACAG-AAGCTCTATGGAGCTGGA
1 GAACAGTAAGCTCTAACGAGCTGGA
*
49669421 -AACTGTAAGCTCTAACGAGCT-GA
1 GAACAGTAAGCTCTAACGAGCTGGA
*
49669444 GAACAGTAAGCTCTTACGAGCTG
1 GAACAGTAAGCTCTAACGAGCTG
49669467 ATATATCGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 6 0.16
24 32 0.84
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
GAACAGTAAGCTCTAACGAGCTGGA
Found at i:49674301 original size:20 final size:20
Alignment explanation
Indices: 49674273--49674311 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49674263 CACGCTCGTG
49674273 TGGCCTGGGACATGCCCGTA
1 TGGCCTGGGACATGCCCGTA
* *
49674293 TGGCTTGGGACATGGCCGT
1 TGGCCTGGGACATGCCCGT
49674312 GGGGCCAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.38, T:0.23
Consensus pattern (20 bp):
TGGCCTGGGACATGCCCGTA
Found at i:49681011 original size:50 final size:50
Alignment explanation
Indices: 49680936--49681112 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
49680926 CCATGGCAAC
*
49680936 AAGTGATAAGTGATATCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
49680986 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
*
49681036 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAA-TGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTGA
* * *
49681086 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
49681113 CTGATCAGTG
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
50 94 0.78
51 26 0.22
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
Found at i:49681126 original size:31 final size:31
Alignment explanation
Indices: 49681088--49681174 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
49681078 ACAAATGACA
*
49681088 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
49681119 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
49681150 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
49681175 AAGTGACAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:49681269 original size:47 final size:43
Alignment explanation
Indices: 49681200--49681364 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 43
49681190 AGTGATTTCC
49681200 GTATAAGACCATATCTGGGATATGGCATCGATGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATC-A-GTGATATATG-TA-T
*
49681247 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGATATATGT-A-T
* * *
49681292 CGTGTAAGACCATAGCTGGGCTATGGCATC---GATATATGAATAT
1 -GTATAAGACCATATCTGGGATATGGCATCAGTGATATATG--TAT
* *
49681335 GTGTAAGACCATATCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
49681365 TTATGTGAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
42 28 0.26
43 8 0.08
44 2 0.02
45 12 0.11
46 27 0.25
47 29 0.27
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGATATATGTAT
Found at i:49681353 original size:42 final size:43
Alignment explanation
Indices: 49681203--49681407 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 43
49681193 GATTTCCGTA
* * *
49681203 TAAGACCATATCTGGGATATGGCATCGATGTGATAT-ATGCTACTGTA
1 TAAGACCATATCTGGGCTATGGCATCGAT-T-ATATGA--ATA-TGTG
* * *
49681250 TAAGACCATATCTGGGATATGGCATC-AGTGAGATATGTGAT-TCGTG
1 TAAGACCATATCTGGGCTATGGCATCGA-T--TATATG-AATAT-GTG
*
49681296 TAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTG
1 TAAGACCATATCTGGGCTATGGCATCGATTATATGAATATGTG
* *
49681338 TAAGACCATATCTGGGCTATGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATATCTGGGCTATGGCATCGATTATATGAATATGTG
**
49681380 TAAGACCATAGT-TGAACTATGGCATCGA
1 TAAGACCATA-TCTGGGCTATGGCATCGA
49681408 GAAAACGAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
41 1 0.01
42 64 0.48
43 8 0.06
45 1 0.01
46 27 0.20
47 33 0.25
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAGACCATATCTGGGCTATGGCATCGATTATATGAATATGTG
Found at i:49682729 original size:20 final size:20
Alignment explanation
Indices: 49682704--49682743 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
49682694 CTAAAACAAG
49682704 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
49682724 CTCCGCTCATTATTTTACAT
1 CTCCGCTCATTATTTTACAT
49682744 TCACTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (20 bp):
CTCCGCTCATTATTTTACAT
Found at i:49685402 original size:24 final size:24
Alignment explanation
Indices: 49685332--49685402 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
49685322 TTGAGTTGAT
49685332 GAACAG-AAGCTCTATA-GAGCTG-
1 GAACAGTAAGCTCT-TACGAGCTGA
* *
49685354 GAAACTGTAAGCTCTAACGAGCTGA
1 G-AACAGTAAGCTCTTACGAGCTGA
49685379 GAACAGTAAGCTCTTACGAGCTGA
1 GAACAGTAAGCTCTTACGAGCTGA
49685403 TATATCGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 5 0.12
24 34 0.83
25 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GAACAGTAAGCTCTTACGAGCTGA
Found at i:49691269 original size:26 final size:26
Alignment explanation
Indices: 49691239--49691346 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
49691229 TGAAATTCCC
49691239 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49691265 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
49691291 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
49691317 ATCATGGAACATTTACCTAACCCACT
1 ATCATGGAACATTTACCTAACCCATT
49691343 ATCA
1 ATCA
49691347 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49693303 original size:20 final size:20
Alignment explanation
Indices: 49693278--49693318 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
49693268 AGAGGCACAC
49693278 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
49693298 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
49693318 G
1 G
49693319 GTCATGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:49701195 original size:49 final size:48
Alignment explanation
Indices: 49701032--49701207 Score: 183
Period size: 51 Copynumber: 3.5 Consensus size: 48
49701022 TGAGTACACG
* * *
49701032 TGTGCAGTACTAAGTGCAAGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTTAGGTCGCA
* * * * * * *
49701082 TGTGTAGTACTTAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TTAGGTCGCA
*
49701133 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC--AATGTTAGGTCGCA
49701182 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
49701208 TGCATATCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
49 32 0.31
50 32 0.31
51 37 0.36
52 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTAGGTCGCA
Found at i:49705153 original size:16 final size:16
Alignment explanation
Indices: 49705134--49705176 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
49705124 TTTCAAAATT
49705134 TAAAGTACGGACTAGC
1 TAAAGTACGGACTAGC
*
49705150 TAAAGTACAGACTAGC
1 TAAAGTACGGACTAGC
49705166 TAAAGTACGGA
1 TAAAGTACGGA
49705177 GCAACGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (16 bp):
TAAAGTACGGACTAGC
Found at i:49707697 original size:13 final size:13
Alignment explanation
Indices: 49707679--49707703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49707669 TAATGGTATA
49707679 TTGAATCCATGAC
1 TTGAATCCATGAC
49707692 TTGAATCCATGA
1 TTGAATCCATGA
49707704 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:49708288 original size:27 final size:27
Alignment explanation
Indices: 49708253--49708431 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
49708243 TTAAATTGTA
49708253 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
49708280 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
49708307 -ATGCACTAAGTGTGGGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
49708334 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
49708362 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
49708389 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
49708416 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
49708432 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:49708422 original size:82 final size:81
Alignment explanation
Indices: 49708251--49708431 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
49708241 GATTAAATTG
* *
49708251 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
49708316 GTGTGGGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
49708332 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
49708396 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
49708414 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
49708432 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
81 17 0.21
82 63 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49715602 original size:13 final size:13
Alignment explanation
Indices: 49715584--49715608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49715574 TAATGGTATA
49715584 TTGAATCCATGAC
1 TTGAATCCATGAC
49715597 TTGAATCCATGA
1 TTGAATCCATGA
49715609 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:49716190 original size:27 final size:27
Alignment explanation
Indices: 49716155--49716333 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
49716145 TTAAATTGTA
49716155 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
49716182 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
49716209 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
49716236 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
49716264 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
49716291 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
49716318 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
49716334 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:49716271 original size:82 final size:81
Alignment explanation
Indices: 49716157--49716307 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
49716147 AAATTGTATA
* *
49716157 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49716221 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
49716238 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
49716303 TGCGA
65 TGCGA
49716308 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49716324 original size:82 final size:81
Alignment explanation
Indices: 49716153--49716333 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
49716143 GATTAAATTG
* *
49716153 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49716218 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
49716234 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
49716298 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
49716316 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
49716334 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49730401 original size:29 final size:29
Alignment explanation
Indices: 49730308--49730405 Score: 106
Period size: 29 Copynumber: 3.4 Consensus size: 29
49730298 ACAATATATC
*
49730308 GACGCCCATCGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* * * *
49730337 GACAACCATCAAACATGGAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*** *
49730366 TTTGACCATCGAATATGAAAAGAGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
49730395 GGCGACCATCG
1 GACGACCATCG
49730406 CTTAGCACAC
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:49733234 original size:28 final size:28
Alignment explanation
Indices: 49733161--49733238 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
49733151 CTGTAAAAGT
* **
49733161 GATTGGGCCTAGTGGGCCATATAGATGT
1 GATTGGGCCTTGTGGGCCATATAGATAA
49733189 GATATGGG-CTTAAG-GGGCCATAT-GAATAA
1 GAT-TGGGCCTT--GTGGGCCATATAG-ATAA
49733218 GATTGGGCCTTGTGGGCCATA
1 GATTGGGCCTTGTGGGCCATA
49733239 AGCATGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
27 1 0.02
28 18 0.44
29 21 0.51
30 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTTGTGGGCCATATAGATAA
Found at i:49747418 original size:17 final size:17
Alignment explanation
Indices: 49747393--49747427 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49747383 TTAGGATAAA
*
49747393 TTTTGATTGATTTATCT
1 TTTTGATTGATATATCT
*
49747410 TTTTTATTGATATATCT
1 TTTTGATTGATATATCT
49747427 T
1 T
49747428 GAATTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.09, T:0.66
Consensus pattern (17 bp):
TTTTGATTGATATATCT
Found at i:49749986 original size:43 final size:42
Alignment explanation
Indices: 49749911--49750019 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
49749901 ATCTCGATCA
* * * **
49749911 CATATCCCAGATATGGTCTTAAACGGGATCTCATATTTATGC
1 CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
* *
49749953 CAATAGCCTAGCTATGGTCTTACACGA-AGTCTCATATCGATGC
1 C-ATAGCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGC
*
49749996 CATATCCCAGATATGGTCTTACAC
1 CATAGCCCAGATATGGTCTTACAC
49750020 ATAATTTCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 22 0.40
43 33 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
Found at i:49752917 original size:27 final size:27
Alignment explanation
Indices: 49752887--49753200 Score: 317
Period size: 27 Copynumber: 11.6 Consensus size: 27
49752877 TTAGTTTACC
* * * *
49752887 AAATTACTAAAATACTCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
49752914 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49752941 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
49752968 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
49752995 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49753022 AAATTACCAAAATACCACTTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49753049 AAATTACCAAAACACTCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49753076 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
49753103 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
49753130 AAATTACTGAAATA-CCCTAAGTTTGCA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
49753157 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
49753184 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
49753201 TTGATTTACA
Statistics
Matches: 236, Mismatches: 49, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
26 4 0.02
27 230 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:49752953 original size:54 final size:54
Alignment explanation
Indices: 49752887--49753200 Score: 353
Period size: 54 Copynumber: 5.8 Consensus size: 54
49752877 TTAGTTTACC
* * * *
49752887 AAATTACTAAAATACTCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
*
49752941 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
49752995 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCACTTGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * *
49753049 AAATTACCAAAACACTCC-TGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATAC-CCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * * ** *
49753103 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATA-CCCTAAGTTTGCA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-AGTTTGTA
*** * ** * *
49753157 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
49753201 TTGATTTACA
Statistics
Matches: 222, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
53 6 0.03
54 212 0.95
55 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:49753227 original size:81 final size:81
Alignment explanation
Indices: 49752936--49753254 Score: 199
Period size: 81 Copynumber: 3.9 Consensus size: 81
49752926 TACCCCTGGT
* * * * **
49752936 TTGTAAAATTACCAAAATACCCTTGGTTT-ATAAAATTACCAAAATACCCCTA-ATTTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCTGATTTCA-GAAATTACCGAAATA-CCCTAGATTTACAAAAT
* * *
49752999 TACTAAAATACCCTTTG-T
64 TACTGAAATACCC-TCGAC
* * * * * * **
49753017 TTATAAAATTACCAAAATACCACTTG-TTTGTA-AAATTACCAAAACACTCCT-GGTTTGTAAAA
1 TTGTAAAATTACCAAAATACC-CCTGATTT-CAGAAATTACCGAAATAC-CCTAGATTTACAAAA
* * *
49753079 TTA-TCAAAATACCC-CTAGT
63 TTACT-GAAATACCCTCGA-C
** * *
49753098 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTA-AGTTTGCAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAAATACCCTAGA-TTTACAAAATT
*
49753162 ATTGAAATACCCTCGAC
65 ACTGAAATACCCTCGAC
* * *** *
49753179 TTGTAAAATTACCAAAGTACCCTTGATTTACAG-AATTACCGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTT-CAGAAATTACCGAAATACCCTAGATTTACAAAATT
49753243 ACTGAAATACCC
65 ACTGAAATACCC
49753255 CTGTAGGGTA
Statistics
Matches: 194, Mismatches: 28, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
80 8 0.04
81 176 0.91
82 9 0.05
83 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAAATACCCTAGATTTACAAAATTA
CTGAAATACCCTCGAC
Found at i:49753253 original size:27 final size:27
Alignment explanation
Indices: 49753130--49753254 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 27
49753120 CTGATTTGTG
* *
49753130 AAATTACTGAAATACCCT-AAGTTTGCA
1 AAATTACTGAAATACCCTCGA-TTTACA
* * **
49753157 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTACA
* *
49753184 AAATTAC-CAAAGTACCCTTGATTTACA
1 AAATTACTGAAA-TACCCTCGATTTACA
* * ***
49753211 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTACA
49753238 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
49753255 CTGTAGGGTA
Statistics
Matches: 74, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
26 3 0.04
27 70 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTACA
Found at i:49753359 original size:54 final size:54
Alignment explanation
Indices: 49753246--49753431 Score: 250
Period size: 54 Copynumber: 3.5 Consensus size: 54
49753236 CAAAATTACT
* * *
49753246 GAAATACCCCTGTAGGGTAGAATTATCGCAA-ACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAATACC
* *
49753299 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTTTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAATACC
* *
49753353 GAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTATGGTA-AAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAA-TACC
* * * *
49753407 GAGATACCCTTGTGGGGTAAAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
49753432 CCATTTTCCT
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 33 0.28
54 86 0.72
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAAGGTAGAAATACC
Found at i:49753387 original size:81 final size:80
Alignment explanation
Indices: 49753237--49753429 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 80
49753227 CTCGATTTAC
* * * *
49753237 AAAATTACTGAAATACCCCTGTAGGGTAGAATTATCGCAAACCCCTGTAAGGTAGAATTATCGAA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAAACCCCTGTAAGGTAGAATTATCGAA
49753302 ATACCCCTGTAGGGT
66 ATACCCCTGTAGGGT
* * * * *
49753317 AGAATTATCGAAATACCCCTTTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATTGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAA-ACCCCTGTAAGGTAGAATTATCGA
*
49753382 AATACCCCTGTATGGT
65 AATACCCCTGTAGGGT
* * *
49753398 AAAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAAAT
49753430 TACCATTTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 37 0.39
81 59 0.61
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (80 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAAACCCCTGTAAGGTAGAATTATCGAA
ATACCCCTGTAGGGT
Found at i:49753433 original size:27 final size:27
Alignment explanation
Indices: 49753237--49753433 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
49753227 CTCGATTTAC
*
49753237 AAAATTACTGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
49753264 AGAATTATCGCAA-ACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
49753290 AGAATTATCGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
49753317 AGAATTATCGAAATACCCCTTTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
49753344 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* ** *
49753371 AGAATTATTGAAATACCCCTGTATGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
49753398 AAAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
49753425 AAAATTACC
1 AAAATTACC
49753434 ATTTTCCTTT
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 26 0.18
27 117 0.81
28 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:49753802 original size:73 final size:73
Alignment explanation
Indices: 49753659--49753806 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
49753649 GAGGAAGCGT
* *
49753659 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACTTCG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACCTAG
*
49753724 TCACAATA
66 CCACAATA
* * * *
49753732 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATATCTGTTTTGGTGGCCTAG
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACCTAG
49753797 CCACAATA
66 CCACAATA
49753805 TC
1 TC
49753807 AGTATCTGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (73 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATATATATCTGGTCTGGTGACCTAG
CCACAATA
Found at i:49753985 original size:25 final size:23
Alignment explanation
Indices: 49753957--49754078 Score: 93
Period size: 25 Copynumber: 5.0 Consensus size: 23
49753947 CATTCACATT
49753957 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTTTGATTCTGTT--CTGATA
*
49753982 CTGATTTTGATTCTAATTCTG-TCA
1 CTGATTTTGATTCT-GTTCTGAT-A
* * *
49754006 CCTAATTTTGATTTTGATTCTGATT
1 -CTGATTTTGATTCTG-TTCTGATA
* * *
49754031 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTTTGATTCTGT--TCTGATA
49754056 CTGATTTTGATTCTGATTCTGAT
1 CTGATTTTGATTCTG-TTCTGAT
49754079 TCTAGTTCTG
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
23 2 0.03
24 21 0.27
25 51 0.65
26 4 0.05
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (23 bp):
CTGATTTTGATTCTGTTCTGATA
Found at i:49754001 original size:31 final size:31
Alignment explanation
Indices: 49753966--49754033 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
49753956 TCTGATTTTG
* *
49753966 ATTCTGTTACCTGATACTGATTTTGATTCTA
1 ATTCTGTCACCTAATACTGATTTTGATTCTA
** *
49753997 ATTCTGTCACCTAATTTTGATTTTGATTCTG
1 ATTCTGTCACCTAATACTGATTTTGATTCTA
49754028 ATTCTG
1 ATTCTG
49754034 ATTCTGATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTTTGATTCTA
Done.