Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 176 of 290
Found at i:57157153 original size:81 final size:81
Alignment explanation
Indices: 57156986--57157164 Score: 202
Period size: 81 Copynumber: 2.2 Consensus size: 81
57156976 AAAAAGTCAA
* ** *
57156986 GGGTATTTCTGTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTGAAGGTATTTCGG
*
57157051 TAATTTTATAAACCAG
66 TAATTCTATAAACCAG
* * * * *
57157067 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT-ACGAGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAACTGAAG-GTATTTC
*
57157130 GGTAATTCTATCATA-CAG
64 GGTAATTCTAT-AAACCAG
*
57157148 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
57157165 CGCAATCGAG
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 3 0.04
81 77 0.94
82 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTGAAGGTATTTCGG
TAATTCTATAAACCAG
Found at i:57157207 original size:27 final size:27
Alignment explanation
Indices: 57157168--57157365 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
57157158 GTAATTTCGC
* * *
57157168 AATCGAGGTTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
57157195 AA-CTGAGGGTAAAATGGTAATTTTTTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
*
57157222 AATCGAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
57157249 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
57157276 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
57157303 AATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * * *
57157330 AATCTAGGGTAAAATGGTAAATCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
57157357 AATCGAGGG
1 AATCGAGGG
57157366 CATTTCAGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:57161574 original size:31 final size:31
Alignment explanation
Indices: 57161496--57161574 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
57161486 TTTAATGGTT
*
57161496 ACTGGGCCAAAGCCTTCTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
57161527 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
57161558 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
57161575 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:57161653 original size:42 final size:42
Alignment explanation
Indices: 57161601--57161688 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
57161591 CCCTTAGGCT
* * ** *
57161601 CATTTCAATATCACATGTAATGTCAATGGATGTATGCAAGCC
1 CATTCCAATATCACATGAAATACCAATGAATGTATGCAAGCC
57161643 CATTCCAATATCACATGAAATACCAATGAATGTATGCAAGCC
1 CATTCCAATATCACATGAAATACCAATGAATGTATGCAAGCC
57161685 CATT
1 CATT
57161689 TGGGGAGACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
CATTCCAATATCACATGAAATACCAATGAATGTATGCAAGCC
Found at i:57161865 original size:25 final size:25
Alignment explanation
Indices: 57161837--57161906 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
57161827 CTCTTTTAAT
57161837 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
57161862 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
57161887 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
57161907 AGCACTTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:57161960 original size:16 final size:16
Alignment explanation
Indices: 57161939--57161969 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57161929 CCCATATCCC
*
57161939 ATGCAATATGTCATGT
1 ATGCAAAATGTCATGT
57161955 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
57161970 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:57162855 original size:27 final size:27
Alignment explanation
Indices: 57162825--57162933 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
57162815 GTAAATCTAC
57162825 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
57162852 AAACCAATGGTATTCCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
57162878 AAAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 ---AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
57162909 AAATCAAAGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
57162934 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 4 0.06
29 3 0.05
30 17 0.26
31 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:57162939 original size:27 final size:26
Alignment explanation
Indices: 57162885--57162985 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 26
57162875 TTTAAAAAAG
*
57162885 TCAAGGGTATTTCT-GTAATTTTGTAAA
1 TCAAGGGTATTT-TGGTAATTTT-CAAA
*
57162912 TCAAAGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTT-CAAA
** *
57162939 TTGAGGGTATTTCGGTAATTTCTCAAA
1 TCAAGGGTATTTTGGTAATTT-TCAAA
*
57162966 -CCAGTGGTATTTTGGTAATT
1 TCAAG-GGTATTTTGGTAATT
57162986 CTATCCTACA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.05
27 57 0.93
28 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (26 bp):
TCAAGGGTATTTTGGTAATTTTCAAA
Found at i:57163055 original size:27 final size:27
Alignment explanation
Indices: 57163017--57163108 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
57163007 GAAATTTCAC
*
57163017 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAAGGTAAAACGGTAATTTTGTA
*
57163044 AA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATC-GAAGGTAAAACGGTAATTTTGTA
* * * *
57163071 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAAGGTAAAACGGTAATTTTGTA
*
57163098 AATCGAGGGTA
1 AATCGAAGGTA
57163109 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAAGGTAAAACGGTAATTTTGTA
Found at i:57168896 original size:27 final size:26
Alignment explanation
Indices: 57168848--57168899 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57168838 GCGAGGCTGC
*
57168848 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
57168874 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
57168900 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57177974 original size:29 final size:29
Alignment explanation
Indices: 57177893--57178005 Score: 129
Period size: 29 Copynumber: 3.9 Consensus size: 29
57177883 ACGAATATAG
* *
57177893 TGTGATTTGGGCCTAACGGGCCACATAAA
1 TGTGATTTGGGCCTAATGGGCCATATAAA
* *
57177922 TGTGATTTTGGCCTAAAGGGCCATATAAA
1 TGTGATTTGGGCCTAATGGGCCATATAAA
* *
57177951 TGTGATTTGGGCCTAATGGGCCATGTGAA
1 TGTGATTTGGGCCTAATGGGCCATATAAA
* * * *
57177980 TAT-AATTGGGTCTAGTGGGCCATATA
1 TGTGATTTGGGCCTAATGGGCCATATA
57178006 CAAGTATGTG
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 18 0.25
29 53 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (29 bp):
TGTGATTTGGGCCTAATGGGCCATATAAA
Found at i:57180862 original size:46 final size:46
Alignment explanation
Indices: 57180808--57180941 Score: 162
Period size: 46 Copynumber: 2.9 Consensus size: 46
57180798 AGGATGTTTG
*
57180808 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGA
* *** * *
57180855 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGA
* *
57180901 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57180942 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
46 37 0.52
47 34 0.48
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACGA
Found at i:57180927 original size:47 final size:47
Alignment explanation
Indices: 57180808--57180932 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
57180798 AGGATGTTTG
** *
57180808 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGGATACGA
* * * *
57180855 -GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACAGATGGATACGA
*
57180901 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTT
57180933 AACTTATGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 33 0.49
47 34 0.51
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACAGATGGATACGA
Found at i:57186267 original size:64 final size:64
Alignment explanation
Indices: 57186187--57186370 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
57186177 AGACATTATG
* * * *
57186187 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTGCGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
57186251 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57186316 AA
63 AA
* * * *
57186318 ACTG--GCTATGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
57186371 CAAAATTATG
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 21 0.21
67 30 0.30
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57198164 original size:16 final size:17
Alignment explanation
Indices: 57198143--57198174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57198133 TTCTAGGGAA
57198143 TGGTTGG-AGGGATTTT
1 TGGTTGGTAGGGATTTT
57198159 TGGTTGGTAGGGATTT
1 TGGTTGGTAGGGATTT
57198175 GGGTGAGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (17 bp):
TGGTTGGTAGGGATTTT
Found at i:57198383 original size:14 final size:15
Alignment explanation
Indices: 57198364--57198396 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
57198354 ATTGTAACCT
*
57198364 TTTTG-TTTTGGTCG
1 TTTTGTTTTTGGTCA
57198378 TTTTGTTTTTGGTCA
1 TTTTGTTTTTGGTCA
57198393 TTTT
1 TTTT
57198397 TGGTCTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.03, C:0.06, G:0.21, T:0.70
Consensus pattern (15 bp):
TTTTGTTTTTGGTCA
Found at i:57206106 original size:27 final size:26
Alignment explanation
Indices: 57206060--57206119 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
57206050 ACGAGGCTGC
57206060 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGA-A
* * *
57206087 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
57206113 CAGATAT
1 CAGATAT
57206120 ATATATGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:57206825 original size:27 final size:27
Alignment explanation
Indices: 57206794--57206990 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
57206784 GGGCAAAATA
* * *
57206794 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
57206821 ATAATTCTATCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
57206848 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
57206875 GTAATTCTATCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
** *
57206902 GTAATTCTACCCTACAGGGGTATGCCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
57206929 ATAATT-TACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
57206955 GTAATTCTACCTTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
57206982 GTAATTCTA
1 GTAATTCTA
57206991 TAACTTGTCC
Statistics
Matches: 141, Mismatches: 28, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
26 22 0.16
27 119 0.84
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:57206977 original size:107 final size:108
Alignment explanation
Indices: 57206794--57206991 Score: 310
Period size: 107 Copynumber: 1.8 Consensus size: 108
57206784 GGGCAAAATA
* * * * *
57206794 GTAATTTTACCCTACAAGGGTATCTCGATAATTCTATCCTACAGGGGTATTTTGGTATTTCTACC
1 GTAATTCTACCCTACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
57206859 CTACAAGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCG
66 CTACAAGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCG
*
57206902 GTAATTCTACCCTACAGGGGTATGC-CAATAATT-TACCCTACAGGGGTATTTCGGTAATTCTAC
1 GTAATTCTACCCTACAAGGGTAT-CTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
57206965 CTTACAAGGGTATTTTGGTAATTCTAT
65 CCTACAAGGGTATTTTGGTAATTCTAT
57206992 AACTTGTCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 53 0.65
108 28 0.34
109 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (108 bp):
GTAATTCTACCCTACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
CTACAAGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCG
Found at i:57213325 original size:39 final size:40
Alignment explanation
Indices: 57213248--57213394 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
57213238 TAGCTCCTCG
* * *
57213248 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
57213288 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
57213327 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
57213367 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
57213395 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:57213343 original size:40 final size:39
Alignment explanation
Indices: 57213291--57213420 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
57213281 TAACTCATTC
* *
57213291 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
57213331 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
57213371 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTTGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
*
57213411 AATACCTTCG
1 AATGCCTTCG
57213421 AATCTTAGTC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:57213353 original size:79 final size:80
Alignment explanation
Indices: 57213254--57213420 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 80
57213244 CTCGTTCAAG
* * ** * *
57213254 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
57213317 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
57213333 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
*
57213398 AATAACTTGCACAAA
66 AATAACTCGCACAAA
*
57213413 TACCTTCG
1 TGCCTTCG
57213421 AATCTTAGTC
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
79 32 0.44
80 41 0.56
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:57213434 original size:80 final size:80
Alignment explanation
Indices: 57213294--57213474 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
57213284 CTCATTCAAT
* * * *
57213294 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGAACTTAACCCGGATA-T
*
57213358 AGT-A-TCTCGCACAAA
65 AGTCACT-TAGCACAAA
* **
57213373 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTTGCACAAATACCTTC-GAATCTTAGTCCGGAT
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGAA-CTTAACCCGGAT
57213436 ATAGTCACTTAGCACAAA
63 ATAGTCACTTAGCACAAA
*
57213454 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
57213475 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 6 0.07
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGAACTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:57213468 original size:40 final size:40
Alignment explanation
Indices: 57213294--57213474 Score: 154
Period size: 40 Copynumber: 4.5 Consensus size: 40
57213284 CTCATTCAAT
* * * * *
57213294 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTAATAACTTGCACAAAG
* * * *
57213334 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTTGCACAAAG
* *
57213374 GCCTTCGGGACTTAACCCGGAATTAATAACTTGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTTGCACAAAG
* * * * *
57213414 ACCTTC-GAATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAATAACTT-GCACAAAG
57213454 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
57213475 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
39 7 0.06
40 101 0.86
41 9 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAATAACTTGCACAAAG
Found at i:57216815 original size:27 final size:26
Alignment explanation
Indices: 57216767--57216818 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57216757 GCGAGGCTGC
*
57216767 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
57216793 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
57216819 TTGCAGCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57217500 original size:27 final size:27
Alignment explanation
Indices: 57217471--57217775 Score: 307
Period size: 27 Copynumber: 11.4 Consensus size: 27
57217461 GGGCAAAATG
* * * *
57217471 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57217498 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
57217525 GTATTTCTACATTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57217551 GATAATTCTATCCTAC-AGAGGTATTTCA
1 G-TAATTCTACCCTACAAG-GGTATTTCA
* *
57217579 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * **
57217606 ATAATTCTATCCTAC-AGGGGATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57217632 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57217659 GTAATTCTATCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
57217685 GATAATTCTACCCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
* * *
57217713 ATAATT-TACCCTACAGGGGTATTTTTA
1 GTAATTCTACCCTACAAGGGTA-TTTCA
* * * *
57217740 -TAATTCTACCATATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
57217766 GTAATTCTAC
1 GTAATTCTAC
57217776 AACTTATCCA
Statistics
Matches: 229, Mismatches: 39, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
26 45 0.20
27 182 0.79
28 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:57217671 original size:107 final size:106
Alignment explanation
Indices: 57217471--57217774 Score: 384
Period size: 107 Copynumber: 2.8 Consensus size: 106
57217461 GGGCAAAATG
* * ** *
57217471 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTA-C
1 GTAATTTTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTATTTCTACC
57217535 ATTACAAGGGTATTTCGATAATTCTATCCTAC-AGAGGTATTTC
66 A-TACAAGGGTATTTCG-TAATTCTATCCTACAAG-GGTATTTC
* * *
57217578 AGTAATTTTACCCTACAGGGGTATTTCAATAATTCTATCCTACAGGGG-ATTTTGGTATTTCTAC
1 -GTAATTTTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTATTTCTAC
*
57217642 CCTACAAGGGTATTTCAGTAATTCTATCCTACAAGGGTATTTC
65 CATACAAGGGTATTTC-GTAATTCTATCCTACAAGGGTATTTC
* *
57217685 GATAATTCTACCCTACAAGGGTATTTCAATAATT-TACCCTACAGGGGTATTTTTA-TAATTCTA
1 G-TAATTTTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTA-TTTTAGTATTTCTA
* *
57217748 CCATATAGGGGTATTTCGGTAATTCTA
64 CCATACAAGGGTATTTC-GTAATTCTA
57217775 CAACTTATCC
Statistics
Matches: 172, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
106 13 0.08
107 110 0.64
108 49 0.28
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (106 bp):
GTAATTTTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTATTTCTACC
ATACAAGGGTATTTCGTAATTCTATCCTACAAGGGTATTTC
Found at i:57217775 original size:80 final size:81
Alignment explanation
Indices: 57217472--57217775 Score: 335
Period size: 80 Copynumber: 3.8 Consensus size: 81
57217462 GGCAAAATGG
* * * * * * * **
57217472 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACAT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCC
57217537 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCGA
* * * *
57217553 TAATTCTATCCTACAGAGGTATTTCAGTAATTTTACCCTACAGGGGTATTTCAATAATTCTATCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCC
* * *
57217618 TAC-AGGGGATTTTGG
66 TACAAGGGTATTTCGA
* * * * *
57217633 TATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTACAAGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCC
*
57217698 TACAAGGGTATTTCAA
66 TACAAGGGTATTTCGA
* * * **
57217714 TAATT-TACCCTACAGGGGTATTTTTA-TAATTCTACCATATAGGGGTATTTCGGTAATTCTAC
1 TAATTCTACCCTACAGGGGTA-TTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTAC
57217776 AACTTATCCA
Statistics
Matches: 184, Mismatches: 37, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
80 113 0.61
81 71 0.39
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCC
TACAAGGGTATTTCGA
Found at i:57218666 original size:6 final size:6
Alignment explanation
Indices: 57218655--57218755 Score: 77
Period size: 6 Copynumber: 16.8 Consensus size: 6
57218645 AACCAAAATG
* *
57218655 AGAATC AGAATC AAAATC AGTAA-C AGAATC AGAATC A-AATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
57218702 AGTAA-C AGAATT AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
57218751 AGAAT
1 AGAAT
57218756 GTGAACGCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 11 0.14
6 58 0.76
7 5 0.07
8 2 0.03
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:57218943 original size:27 final size:27
Alignment explanation
Indices: 57218873--57218954 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
57218863 AGCATGGCTG
* *
57218873 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
57218899 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
*
57218926 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATAATGTGGCAGAGCCA
57218953 CC
1 CC
57218955 TAACAGAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:57219159 original size:22 final size:22
Alignment explanation
Indices: 57219111--57219169 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57219101 GTAAATACGT
*
57219111 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
57219133 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
57219155 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
57219170 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:57219296 original size:27 final size:26
Alignment explanation
Indices: 57219257--57219340 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
57219247 TCAATCGCTC
* *
57219257 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
57219283 ATACAGATATTGTGGCAGACCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
57219310 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
57219337 AACA
1 AACA
57219341 CTTCATACGT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:57219568 original size:27 final size:27
Alignment explanation
Indices: 57219538--57219733 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
57219528 GGGGCAAAAT
* * *
57219538 GGTAATTTTACCCTACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57219565 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57219592 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* ***
57219619 GATAATTCTACCCTATGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57219646 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57219673 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57219700 GGTAATTCTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57219727 AGTAATT
1 GGTAATT
57219734 TCACAATAAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57219615 original size:54 final size:54
Alignment explanation
Indices: 57219538--57219733 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
57219528 GGGGCAAAAT
* * * * *
57219538 GGTAATTTTACCCTACAAAGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * * *
57219592 AGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* **
57219646 GGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
* * * *
57219700 GGTAATTCTACCCTATAGGGGTATTCCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
57219734 TCACAATAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
Found at i:57219682 original size:81 final size:81
Alignment explanation
Indices: 57219557--57219733 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 81
57219547 ACCCTACAAA
* * * *
57219557 GGTATCTCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
*
57219622 AATTCTACCCTATGGG
66 AATTCTACCCTATAGG
* * * * *
57219638 GGTATTTCGGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
57219703 AATTCTACCCTATAGG
66 AATTCTACCCTATAGG
* *
57219719 GGTATTCCAGTAATT
1 GGTATTTCGGTAATT
57219734 TCACAATAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTATAGG
Found at i:57220083 original size:27 final size:27
Alignment explanation
Indices: 57219743--57220066 Score: 395
Period size: 27 Copynumber: 12.0 Consensus size: 27
57219733 TTCACAATAA
* *
57219743 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
57219770 AGGGTAAAACTGTAATTCTGTAAAAT-G
1 AGGGTAAAACGGTAATTCTGT-AAATCG
*
57219797 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
57219824 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
**
57219851 AGGGTAAAATAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
** *
57219878 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
57219905 AGGATAAAATGGTAATTCTGTAAA-CTG
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
57219932 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
57219959 AGGGTAAAACGGCAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** *
57219986 AGGGTAAAATAGTAATTCTGTAAA-CTT
1 AGGGTAAAACGGTAATTCTGTAAATC-G
*
57220013 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
57220040 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
57220067 GGAGTACTTT
Statistics
Matches: 261, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.02
27 248 0.95
28 7 0.03
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:57222086 original size:6 final size:6
Alignment explanation
Indices: 57222075--57222182 Score: 107
Period size: 6 Copynumber: 17.8 Consensus size: 6
57222065 AACCAAAATG
*
57222075 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC AAAATC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC
* * *
57222123 A-ATATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
57222172 AGAATC AGAAT
1 AGAATC AGAAT
57222183 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
5 6 0.07
6 73 0.85
7 5 0.06
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:57222337 original size:27 final size:26
Alignment explanation
Indices: 57222300--57222358 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
57222290 AGCATGGCTG
*
57222300 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
57222326 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
57222353 CCAGAA
1 CCAGAA
57222359 TCAGTAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:57222585 original size:22 final size:22
Alignment explanation
Indices: 57222537--57222595 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57222527 GTAAATACGT
*
57222537 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
57222559 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
57222581 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
57222596 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:57222761 original size:27 final size:26
Alignment explanation
Indices: 57222682--57222764 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
57222672 TCGATCGGTC
* * *
57222682 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
57222708 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
57222735 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
57222762 AAC
1 AAC
57222765 GCTTCCTACG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:57223023 original size:27 final size:26
Alignment explanation
Indices: 57222964--57223143 Score: 186
Period size: 27 Copynumber: 6.9 Consensus size: 26
57222954 GGCAAAATGG
* * * * *
57222964 TAATTTTACCCCACAAGGTATCTCGG
1 TAATTCTACCCTACAGGGTATTTCGA
57222990 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACA-GGGTATTTCGA
*
57223017 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTAC-AGGGTATTTCGA
* * *
57223044 TAATTCTACCCTACGGGGTATTTTGG
1 TAATTCTACCCTACAGGGTATTTCGA
* * *
57223070 TAATTCTA-CCTATAAGGGTTTTTAG-
1 TAATTCTACCCTA-CAGGGTATTTCGA
*
57223095 TAATTCTACCCTATAGGGTATTTCG-
1 TAATTCTACCCTACAGGGTATTTCGA
*
57223120 GAATTCTACCCTACAGGGTATTTC
1 TAATTCTACCCTACAGGGTATTTC
57223144 AGTAATTTCA
Statistics
Matches: 131, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 43 0.33
26 42 0.32
27 45 0.34
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (26 bp):
TAATTCTACCCTACAGGGTATTTCGA
Found at i:57223092 original size:25 final size:27
Alignment explanation
Indices: 57222962--57223150 Score: 203
Period size: 26 Copynumber: 7.3 Consensus size: 27
57222952 AGGGCAAAAT
* * *
57222962 GGTAATTTTACCCCACAA-GGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57222988 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57223015 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57223042 GATAATTCTACCCTAC-GGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57223068 GGTAATTCTA-CCTATAAGGGT-TTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57223093 AGTAATTCTACCCTA-TAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
57223119 GG-AATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57223144 AGTAATT
1 GGTAATT
57223151 TCACAATCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
25 45 0.32
26 48 0.35
27 46 0.33
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57223191 original size:27 final size:27
Alignment explanation
Indices: 57223155--57223520 Score: 380
Period size: 27 Copynumber: 13.9 Consensus size: 27
57223145 GTAATTTCAC
* *
57223155 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57223182 AATCGAGGGT-AAACAGTAA-TCAGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57223207 AAACTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** *
57223235 AATCGAAGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
57223262 AA-CTAAGGGTAAAACGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
57223289 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
57223316 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57223343 AA-CTAAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
57223370 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57223397 AA-CTGAGGCTAAAACGGTAATTCTGCA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
57223424 AATCGAGGGTAAAATGG-AATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
57223450 AATC--GGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
57223475 AAT-GAGGGTAAAA---TAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
57223497 AATCGAGGGTAAAACGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
57223521 AAATCGGGAG
Statistics
Matches: 277, Mismatches: 45, Indels: 34
0.78 0.13 0.10
Matches are distributed among these distances:
22 7 0.03
23 15 0.05
24 9 0.03
25 19 0.07
26 40 0.14
27 177 0.64
28 10 0.04
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:57225528 original size:6 final size:6
Alignment explanation
Indices: 57225517--57225618 Score: 77
Period size: 6 Copynumber: 16.8 Consensus size: 6
57225507 AACCAAAATG
* * *
57225517 AGAATC AGAATC AAAATC AGTAA-C AGAATC AGAATC AAAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
57225565 AGTAA-C AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
57225614 AGAAT
1 AGAAT
57225619 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
5 6 0.08
6 63 0.83
7 5 0.07
8 2 0.03
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:57225553 original size:30 final size:30
Alignment explanation
Indices: 57225517--57225618 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
57225507 AACCAAAATG
*
57225517 AGAATCAGAATCAAAATCAGTAACAGAATC
1 AGAATCAGAATCAAAATTAGTAACAGAATC
* *
57225547 AGAATCAAAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAAAATTAGTAACAGAATC
* * *
57225577 AGAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAAAATTA-GTAACAGAATC
57225608 AGAATCAGAAT
1 AGAATCAGAAT
57225619 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
30 42 0.68
31 20 0.32
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAAAATTAGTAACAGAATC
Found at i:57225773 original size:27 final size:26
Alignment explanation
Indices: 57225736--57225801 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
57225726 AGCATGGCTG
*
57225736 CCAGAATAGATATCGTGACAGAGTCA
1 CCAGAATAGATATCGTGACAGAGCCA
* *
57225762 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ATAGATATCGTGACAGAGCCA
57225789 CCAGAATCAGATA
1 CCAGAAT-AGATA
57225802 ATGTTGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAATAGATATCGTGACAGAGCCA
Found at i:57225814 original size:27 final size:27
Alignment explanation
Indices: 57225760--57225817 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57225750 GTGACAGAGT
* *
57225760 CACCAGATATAGATATTGTGGCAGAGC
1 CACCAGATATAGATAATGTGGCAAAGC
*
57225787 CACCAGA-ATCAGATAATGTTGCAAAGC
1 CACCAGATAT-AGATAATGTGGCAAAGC
57225814 CACC
1 CACC
57225818 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (27 bp):
CACCAGATATAGATAATGTGGCAAAGC
Found at i:57226137 original size:27 final size:27
Alignment explanation
Indices: 57226098--57226179 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
57226088 TCGATCGGTC
* *
57226098 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
57226125 TACAGATATTGTGGCAGACCCACCA-A
1 AACAGATATTGTGGCAGAGCCACCAGA
*
57226151 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATA-TTGTGGCAGAGCCACCAGA
57226179 A
1 A
57226180 CGCTTCCTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
26 8 0.17
27 36 0.78
28 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:57226428 original size:27 final size:27
Alignment explanation
Indices: 57226380--57226574 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
57226370 GGGCAAAATG
* * ** *
57226380 GTAATTTTACCCCACAAAGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57226407 GTAATTCTACCCTACAGGGGTATTT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57226433 GGTATTTCTACCCTACAAGGGTATTTC-
1 -GTAATTCTACCCTACAGGGGTATTTCA
* *
57226460 GATAATTCTACCCTACGGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * * *
57226488 GTAATTCTACCTTATAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57226515 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
57226542 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57226569 GTAATT
1 GTAATT
57226575 TCACAATCAA
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
26 2 0.01
27 139 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:57226445 original size:54 final size:54
Alignment explanation
Indices: 57226379--57226574 Score: 268
Period size: 54 Copynumber: 3.6 Consensus size: 54
57226369 GGGGCAAAAT
* * * * *
57226379 GGTAATTTTACCCCACAAAGGTATCTCAGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
57226433 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * *
57226487 GGTAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
57226541 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
57226575 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:57226523 original size:81 final size:81
Alignment explanation
Indices: 57226398--57226574 Score: 248
Period size: 81 Copynumber: 2.2 Consensus size: 81
57226388 ACCCCACAAA
* * *
57226398 GGTATCTCAGTAATTCTACCCTACAGGGGTATTTAGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCAGTAATTCTACCCTACAAGGGTATTTAGGTAATTCTACCCTACAAGGGTATTTCGAT
*
57226463 AATTCTACCCTACGGG
66 AATTCTACCCTACAGG
* * * * * *
57226479 GGTATTTCGGTAATTCTACCTTATAAGGGTATTTTA-GTAATTCTACCCTATAGGGGTATTTCGG
1 GGTATTTCAGTAATTCTACCCTACAAGGGTA-TTTAGGTAATTCTACCCTACAAGGGTATTTCGA
57226543 TAATTCTACCCTACAGG
65 TAATTCTACCCTACAGG
57226560 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
57226575 TCACAATCAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 80 0.95
82 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTATTTCAGTAATTCTACCCTACAAGGGTATTTAGGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:57226609 original size:27 final size:27
Alignment explanation
Indices: 57226579--57226909 Score: 427
Period size: 27 Copynumber: 12.3 Consensus size: 27
57226569 GTAATTTCAC
* ** *
57226579 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
57226606 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
57226633 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
** *
57226660 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
57226687 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
57226714 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
57226741 AATCGAGGGTAAAACAGTAATTCCGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
**
57226768 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
* * *
57226795 AATCGAGGGTAAAACGGAAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
57226822 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
57226849 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACAGTAATTCTGTA
*
57226876 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
57226903 AATCGAG
1 AATCGAG
57226910 AGTACTTTGG
Statistics
Matches: 271, Mismatches: 25, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
26 4 0.01
27 263 0.97
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:57234395 original size:43 final size:43
Alignment explanation
Indices: 57234313--57234398 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
57234303 CAAATACGAT
* *
57234313 GCCAATGTCACAGACGTGGTCTTACTCGTAACCAAATATCAAA
1 GCCAATATCACAGACGTGGTCTTACTCGTAAACAAATATCAAA
* *
57234356 GCCAATATCCCAGACGTGGTCTTACTCG-AGAACACATATCAAA
1 GCCAATATCACAGACGTGGTCTTACTCGTA-AACAAATATCAAA
57234399 AATCCTATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.03
43 37 0.97
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCAATATCACAGACGTGGTCTTACTCGTAAACAAATATCAAA
Found at i:57237853 original size:28 final size:27
Alignment explanation
Indices: 57237808--57237863 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
57237798 ATCCGATATG
* *
57237808 TGTTTTCGTGTAAGACCACGTCTGGGA
1 TGTTTTCATGTAAAACCACGTCTGGGA
* *
57237835 TGTTTTACATGTAAAACCATGTTTGGGA
1 TGTTTT-CATGTAAAACCACGTCTGGGA
57237863 T
1 T
57237864 ATTGGCATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (27 bp):
TGTTTTCATGTAAAACCACGTCTGGGA
Found at i:57237891 original size:42 final size:43
Alignment explanation
Indices: 57237839--57237956 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 43
57237829 CTGGGATGTT
* *
57237839 TTACATGTAAAACCATGTTTGGGATATTGGCATC-TTATCTGA
1 TTACATGTAAAACCATGTTTGGGACATTGGCATCGATATCTGA
* * * * * *
57237881 TTTCGTGTAAAACCCTGTTTGGGACAGTGGCATCGATGTTTGA
1 TTACATGTAAAACCATGTTTGGGACATTGGCATCGATATCTGA
* *
57237924 TTACATGTAAGACCATGTTTGGGACGTTGGCAT
1 TTACATGTAAAACCATGTTTGGGACATTGGCAT
57237957 TGTATATGTT
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TTACATGTAAAACCATGTTTGGGACATTGGCATCGATATCTGA
Found at i:57248608 original size:50 final size:48
Alignment explanation
Indices: 57248521--57248718 Score: 180
Period size: 50 Copynumber: 4.0 Consensus size: 48
57248511 CGATTATAGA
* ** *
57248521 AAATCAAATATAATATCACATATGTGTATACCTATATGGCCGAATATGC
1 AAATCAAATATAACATCACATATGTACATACC-ATATGGCCGAATATAC
* * * **
57248570 AAGATCAAATTTAACATCAAATATGTACTTACTCATATGGCTAAATATAC
1 AA-ATCAAATATAACATCACATATGTACATAC-CATATGGCCGAATATAC
* * * * *
57248620 AAATTCAAATATAATATCACATTTGTGCATACCTTCATGGCCGAATATTC
1 AAA-TCAAATATAACATCACATATGTACATACCAT-ATGGCCGAATATAC
* * *
57248670 AAAATCCAATATAACATCACATATGTACATACCTATGTGGCTGAATATA
1 -AAATCAAATATAACATCACATATGTACATACC-ATATGGCCGAATATA
57248719 TACATAGTCA
Statistics
Matches: 116, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
49 5 0.04
50 106 0.91
51 5 0.04
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (48 bp):
AAATCAAATATAACATCACATATGTACATACCATATGGCCGAATATAC
Found at i:57248631 original size:100 final size:100
Alignment explanation
Indices: 57248515--57248697 Score: 269
Period size: 100 Copynumber: 1.8 Consensus size: 100
57248505 TTTGGTCGAT
* * *
57248515 TATAGAAAATCAAATATAATATCACATATGTGTATACCTAT-ATGGCCGAATATGCAAGATCAAA
1 TATACAAAATCAAATATAATATCACATATGTGCATACCT-TCATGGCCGAATATGCAAAATCAAA
*
57248579 TTTAACATCAAATATGTACTTACTCATATGGCTAAA
65 TATAACATCAAATATGTACTTACTCATATGGCTAAA
* * * *
57248615 TATACAAATTCAAATATAATATCACATTTGTGCATACCTTCATGGCCGAATATTCAAAATCCAAT
1 TATACAAAATCAAATATAATATCACATATGTGCATACCTTCATGGCCGAATATGCAAAATCAAAT
*
57248680 ATAACATCACATATGTAC
66 ATAACATCAAATATGTAC
57248698 ATACCTATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 1 0.01
100 72 0.99
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (100 bp):
TATACAAAATCAAATATAATATCACATATGTGCATACCTTCATGGCCGAATATGCAAAATCAAAT
ATAACATCAAATATGTACTTACTCATATGGCTAAA
Found at i:57248711 original size:100 final size:100
Alignment explanation
Indices: 57248515--57248718 Score: 268
Period size: 100 Copynumber: 2.0 Consensus size: 100
57248505 TTTGGTCGAT
* * *
57248515 TATAGAAAATCAAATATAATATCACATATGTGTATACCTATATGGCCGAATATGCAAGATCAAAT
1 TATACAAAATCAAATATAATATCACATATGTGCATACCTATATGGCCGAATATGCAAAATCAAAT
* *
57248580 TTAACATCAAATATGTACTTACTCATATGGCTAAA
66 ATAACATCAAATATGTACATACTCATATGGCTAAA
* * * *
57248615 TATACAAATTCAAATATAATATCACATTTGTGCATACCT-TCATGGCCGAATATTCAAAATCCAA
1 TATACAAAATCAAATATAATATCACATATGTGCATACCTAT-ATGGCCGAATATGCAAAATCAAA
* * *
57248679 TATAACATCACATATGTACATAC-CTATGTGGCTGAA
65 TATAACATCAAATATGTACATACTC-ATATGGCTAAA
57248715 TATA
1 TATA
57248719 TACATAGTCA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 2 0.02
100 88 0.98
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (100 bp):
TATACAAAATCAAATATAATATCACATATGTGCATACCTATATGGCCGAATATGCAAAATCAAAT
ATAACATCAAATATGTACATACTCATATGGCTAAA
Found at i:57261112 original size:46 final size:46
Alignment explanation
Indices: 57261045--57261219 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
57261035 TGTAACCCGC
* *
57261045 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
57261091 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * *
57261141 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
57261184 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
57261220 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:57261159 original size:93 final size:93
Alignment explanation
Indices: 57261052--57261223 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
57261042 CGCCCATAAG
* * *
57261052 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57261117 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57261145 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57261210 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57261224 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57268565 original size:15 final size:14
Alignment explanation
Indices: 57268529--57268583 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
57268519 TCTATTGATC
57268529 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
57268543 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
57268557 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
57268572 GAAAGAAAAGAA
1 GAGA-AAAAGAA
57268584 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:57277423 original size:93 final size:93
Alignment explanation
Indices: 57277310--57277481 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57277300 CGCCCATAAG
* *
57277310 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57277375 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57277403 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57277468 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57277482 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57277478 original size:46 final size:46
Alignment explanation
Indices: 57277303--57277478 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57277293 TGTAACCCGC
* * *
57277303 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57277349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57277399 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57277442 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57277479 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57289006 original size:27 final size:26
Alignment explanation
Indices: 57288958--57289017 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
57288948 GCGAGGCTGC
*
57288958 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
57288985 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
57289011 CAAATAT
1 CAGATAT
57289018 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57293052 original size:40 final size:40
Alignment explanation
Indices: 57292964--57293102 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
57292954 AATGATATTT
* *
57292964 GGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTATATCC
*
57293005 GGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTATATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTATATCC
* * *
57293045 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCC
* * *
57293085 AGGTTAAGACCCGAAGGC
1 GGGCTAAGTCCCGAAGGC
57293103 CTTGTGCGAG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.71
41 23 0.27
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTATATCC
Found at i:57296104 original size:41 final size:41
Alignment explanation
Indices: 57296043--57296125 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
57296033 TCAAGAAATG
57296043 TAAGTGGTAGTCAAAAAGGGACAAAAGACACAACTATTAGA
1 TAAGTGGTAGTCAAAAAGGGACAAAAGACACAACTATTAGA
* * * * *
57296084 TAAGTGGTAGTTAGAGAGGGACAAAAGACACAGCTGTTAGA
1 TAAGTGGTAGTCAAAAAGGGACAAAAGACACAACTATTAGA
57296125 T
1 T
57296126 CCAAGGCTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (41 bp):
TAAGTGGTAGTCAAAAAGGGACAAAAGACACAACTATTAGA
Found at i:57308084 original size:17 final size:17
Alignment explanation
Indices: 57308062--57308094 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57308052 ACTTCCCTTC
57308062 TCATCTCTTCTTTTCTT
1 TCATCTCTTCTTTTCTT
*
57308079 TCATCTTTTCTTTTCT
1 TCATCTCTTCTTTTCT
57308095 CCATAGCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (17 bp):
TCATCTCTTCTTTTCTT
Found at i:57308743 original size:16 final size:17
Alignment explanation
Indices: 57308711--57308743 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57308701 TATTTGAGCT
57308711 TAATGGGCCGAAACGGGA
1 TAATGGGCC-AAACGGGA
57308729 TAATGGGCC-AACGGG
1 TAATGGGCCAAACGGG
57308744 CCCAATTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.18, G:0.39, T:0.12
Consensus pattern (17 bp):
TAATGGGCCAAACGGGA
Found at i:57309033 original size:27 final size:27
Alignment explanation
Indices: 57309003--57309055 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
57308993 GAGGAAGCAT
57309003 TCTGGGGGCTCTGCCACAAATATCTGA
1 TCTGGGGGCTCTGCCACAAATATCTGA
*
57309030 TCTGGTGGCTCTGCCACAAATATCTG
1 TCTGGGGGCTCTGCCACAAATATCTG
57309056 TTTCTGTTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (27 bp):
TCTGGGGGCTCTGCCACAAATATCTGA
Found at i:57309071 original size:28 final size:27
Alignment explanation
Indices: 57309003--57309076 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
57308993 GAGGAAGCAT
* *
57309003 TCTGGGGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCCCTGCCACAAATATCTGA
* *
57309030 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCCCTGCCACAAATATCTG-A
*
57309058 TCTGTTGGCCCTGCCACAA
1 TCTGGTGGCCCTGCCACAA
57309077 TTACCTATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (27 bp):
TCTGGTGGCCCTGCCACAAATATCTGA
Found at i:57309089 original size:28 final size:28
Alignment explanation
Indices: 57309003--57309090 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
57308993 GAGGAAGCAT
* * * *
57309003 TCTGGGGGCTCTGCCACAAATATCT-GA
1 TCTGGTGGCCCTGCCACAAATACCTATA
* * * *
57309030 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCCCTGCCACAAATACCTATA
* *
57309058 TCTGTTGGCCCTGCCACAATTACCTATA
1 TCTGGTGGCCCTGCCACAAATACCTATA
57309086 TCTGG
1 TCTGG
57309091 CGACTCTGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 24 0.48
28 26 0.52
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (28 bp):
TCTGGTGGCCCTGCCACAAATACCTATA
Found at i:57315840 original size:17 final size:17
Alignment explanation
Indices: 57315818--57315850 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57315808 TCTTCCCTTC
57315818 TCATCTCTTCTTTTCTT
1 TCATCTCTTCTTTTCTT
*
57315835 TCATCTTTTCTTTTCT
1 TCATCTCTTCTTTTCT
57315851 CCATAGCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (17 bp):
TCATCTCTTCTTTTCTT
Found at i:57316969 original size:27 final size:27
Alignment explanation
Indices: 57316931--57317070 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
57316921 GACGAAGCGT
57316931 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
57316958 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
57316985 TCTAGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
57317013 TCTGTTGCCCCTGCCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * *
57317041 TCTGGTGACTCTGTCAC-AATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
57317067 TCTG
1 TCTG
57317071 ACAGCCATGC
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.04
27 59 0.60
28 35 0.36
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:57319111 original size:25 final size:24
Alignment explanation
Indices: 57319082--57319137 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
57319072 TTTCTCCTAA
*
57319082 ATTTTAATTTTATTTAATTATTTAAT
1 ATTTTAA-TTTATTCAATTA-TTAAT
57319108 -TTTTCAATTTATTCAATTATTAAT
1 ATTTT-AATTTATTCAATTATTAAT
57319132 ATTTTA
1 ATTTTA
57319138 TATTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTAATTTATTCAATTATTAAT
Found at i:57319150 original size:25 final size:25
Alignment explanation
Indices: 57319097--57319150 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
57319087 AATTTTATTT
* *
57319097 AATTATTTAATTTTTCAATTTATTC
1 AATTATTTAATTTTTCAATTAATTA
57319122 AATTA-TTAATATTTT-ATATTAATTA
1 AATTATTTAAT-TTTTCA-ATTAATTA
57319147 AATT
1 AATT
57319151 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
AATTATTTAATTTTTCAATTAATTA
Found at i:57327249 original size:22 final size:22
Alignment explanation
Indices: 57327221--57327265 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
57327211 CTATTTACTC
57327221 ACAACTCCATCACCAAACATCT
1 ACAACTCCATCACCAAACATCT
*
57327243 ACAACTCCATTACCAAACATCT
1 ACAACTCCATCACCAAACATCT
57327265 A
1 A
57327266 TGGTCACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (22 bp):
ACAACTCCATCACCAAACATCT
Found at i:57328781 original size:12 final size:12
Alignment explanation
Indices: 57328764--57328788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57328754 TTATATTATA
57328764 CAATTTCTAATT
1 CAATTTCTAATT
57328776 CAATTTCTAATT
1 CAATTTCTAATT
57328788 C
1 C
57328789 CTCATACATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (12 bp):
CAATTTCTAATT
Found at i:57331382 original size:21 final size:21
Alignment explanation
Indices: 57331358--57331398 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57331348 ACCGATTTGT
57331358 ACATAATATGCCATGATATAC
1 ACATAATATGCCATGATATAC
*
57331379 ACATGATATGCCATGATATA
1 ACATAATATGCCATGATATA
57331399 TATATATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (21 bp):
ACATAATATGCCATGATATAC
Found at i:57331393 original size:10 final size:10
Alignment explanation
Indices: 57331363--57331397 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
57331353 TTTGTACATA
57331363 ATATGCCATG
1 ATATGCCATG
*
57331373 ATATACACATG
1 ATATGC-CATG
57331384 ATATGCCATG
1 ATATGCCATG
57331394 ATAT
1 ATAT
57331398 ATATATATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:57332586 original size:37 final size:37
Alignment explanation
Indices: 57332527--57332632 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
57332517 CTTTAGCTCA
* *
57332527 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
57332564 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
57332601 GACATAATCTCCACACGTAGTCATCGAGTCTT
1 GACATAATCTCCACACGTAGTCATCGGGTCTT
57332633 TAGAGCTCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:57332829 original size:47 final size:47
Alignment explanation
Indices: 57332751--57333408 Score: 1028
Period size: 47 Copynumber: 13.7 Consensus size: 47
57332741 CCCTTCGGGA
* * * * * *
57332751 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57332798 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57332845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57332892 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57332939 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57332986 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57333033 CTTATCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
57333082 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57333129 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57333178 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57333229 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57333278 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57333325 CTTATCACATATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57333374 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
57333409 AGAATTCTAA
Statistics
Matches: 573, Mismatches: 30, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
47 346 0.60
49 180 0.31
51 47 0.08
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57333084 original size:96 final size:96
Alignment explanation
Indices: 57332751--57333408 Score: 1076
Period size: 96 Copynumber: 6.9 Consensus size: 96
57332741 CCCTTCGGGA
* * * * *
57332751 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
57332814 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
57332845 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
57332908 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57332939 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
57333002 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
57333033 CTTATCACATATATAGACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
57333098 ACTTTCACATTCATCATATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
57333129 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----ATAT
57333194 ATACACTTTCACATTCATCACATCGGCCATTAGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
57333229 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
57333294 ACTTTCACATTCATCACATCGGCTATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57333325 CTTATCACATATATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
57333390 ACTTTCACATTCATCACAT
66 ACTTTCACATTCATCACAT
57333409 AGAATTCTAA
Statistics
Matches: 534, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 183 0.34
96 255 0.48
100 95 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57343166 original size:25 final size:25
Alignment explanation
Indices: 57343120--57343170 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
57343110 CCCTTATAAT
* *
57343120 GTGAAAATGACCTTTTTTCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
57343145 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
57343170 G
1 G
57343171 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:57343233 original size:21 final size:21
Alignment explanation
Indices: 57343209--57343248 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57343199 ACTGATTTGT
57343209 ACATAATATACCATAATATGC
1 ACATAATATACCATAATATGC
* * *
57343230 ACATGATATGCCATGATAT
1 ACATAATATACCATAATAT
57343249 ATATATATGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (21 bp):
ACATAATATACCATAATATGC
Found at i:57345426 original size:40 final size:40
Alignment explanation
Indices: 57345250--57345472 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57345240 TCCTCGTTCA
* * * * *
57345250 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
57345289 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
57345329 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
57345369 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
57345409 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
57345449 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57345473 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:57353332 original size:40 final size:40
Alignment explanation
Indices: 57353156--57353378 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
57353146 TCCTCGTTCA
* * * * *
57353156 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
57353195 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
57353235 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
57353275 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
57353315 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
57353355 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57353379 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:57363235 original size:24 final size:25
Alignment explanation
Indices: 57363208--57363293 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 25
57363198 TATGCCGGTC
*
57363208 ATTTTACAC-AAGGGTATTTC-AGTA
1 ATTTTACACTAAGGATATTTCGA-TA
57363232 ATTTTACACTATAAGGATATTTCGATA
1 ATTTTACAC--TAAGGATATTTCGATA
* * * *
57363259 ATTTTACAAATCGAGGGTGTTTCGATA
1 ATTTTAC-ACT-AAGGATATTTCGATA
57363286 ATTTTACA
1 ATTTTACA
57363294 AATTGAGGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
24 9 0.18
26 2 0.04
27 38 0.75
28 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (25 bp):
ATTTTACACTAAGGATATTTCGATA
Found at i:57363423 original size:80 final size:80
Alignment explanation
Indices: 57363218--57363503 Score: 317
Period size: 80 Copynumber: 3.6 Consensus size: 80
57363208 ATTTTACACA
* * *
57363218 AGGGTATTTCAGTAATTTTACACTATA-AGGATATTTC-GATAATTTTACAAATCGAGGGTGTTT
1 AGGGTATTTCGGTAATTTTACA-AATAGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTGTTT
* *
57363281 CGATAATTTTACAAAT-T
64 TGGTAATTTTAC-AATCT
* * ** *
57363298 GAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGCAATTTTACAAATCGAGGGTGTTTT
1 -AGGGTATTTCGGTAATTTTACAAATAGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTT
57363363 GGTAATTTTACAATCT
65 GGTAATTTTACAATCT
* * * ** *
57363379 AGGGTATTTCGGTAATTTTACAAATAGAGGGTGTTTCAGTAATTTCACAAATTGAGGGCATTTTA
1 AGGGTATTTCGGTAATTTTACAAATAGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTTG
* * *
57363444 GTAATTTCATAATCG
66 GTAATTTTACAATCT
* * *
57363459 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCAATAATTT
1 AGGGTATTTCGGTAATTTTACAAATAGAGGGTATTTCAGTAATTT
57363504 CTCTTTATTA
Statistics
Matches: 175, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 112 0.64
81 62 0.35
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACAAATAGAGGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTTG
GTAATTTTACAATCT
Found at i:57363503 original size:27 final size:27
Alignment explanation
Indices: 57363218--57363495 Score: 294
Period size: 27 Copynumber: 10.4 Consensus size: 27
57363208 ATTTTACACA
* * *
57363218 AGGGTATTTCAGTAATTTTACACTAT-A
1 AGGGTATTTCGGTAATTTTACA-AATCG
* *
57363245 AGGATATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
57363272 AGGGTGTTTCGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
57363299 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
57363326 AGGGTATTTTGGCAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
57363353 AGGGTGTTTTGGTAATTTTAC-AATCT
1 AGGGTATTTCGGTAATTTTACAAATCG
*
57363379 AGGGTATTTCGGTAATTTTACAAATAG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
57363406 AGGGTGTTTCAGTAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
57363433 AGGGCATTTTAGTAA-TTT-CATAATCG
1 AGGGTATTTCGGTAATTTTACA-AATCG
*
57363459 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
57363486 AGGGTATTTC
1 AGGGTATTTC
57363496 AATAATTTCT
Statistics
Matches: 214, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.01
26 44 0.21
27 166 0.78
28 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:57363504 original size:53 final size:53
Alignment explanation
Indices: 57363257--57363503 Score: 259
Period size: 53 Copynumber: 4.6 Consensus size: 53
57363247 GATATTTCGA
* * *
57363257 TAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATTGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTCAATAA-TTTACAAATCGAGGGTATTTTGG
* *
57363311 TAATTTTACAAATTGAGGGTATTTTGGCAAT--TTTACAAATCGAGGGTGTTTTGG
1 TAATTTTACAAATCGAGGGTA-TTT--CAATAATTTACAAATCGAGGGTATTTTGG
* ** * * **
57363365 TAATTTTAC-AATCTAGGGTATTTCGGTAATTTTACAAATAGAGGGTGTTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAATAA-TTTACAAATCGAGGGTATTTTGG
* * * * *
57363418 TAATTTCACAAATTGAGGGCATTTTAGTAATTT-CATAATCGAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTCAATAATTTACA-AATCGAGGGTATTTTGG
57363471 TAATTTTACAAATCGAGGGTATTTCAATAATTT
1 TAATTTTACAAATCGAGGGTATTTCAATAATTT
57363504 CTCTTTATTA
Statistics
Matches: 158, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
50 2 0.01
52 5 0.03
53 81 0.51
54 64 0.41
55 3 0.02
57 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
TAATTTTACAAATCGAGGGTATTTCAATAATTTACAAATCGAGGGTATTTTGG
Found at i:57363856 original size:28 final size:28
Alignment explanation
Indices: 57363819--57363910 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
57363809 TGGCCCCTTT
* *
57363819 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
*
57363847 AGGCCCAATCAT-ATTCATATGGCCCATT
1 AGGCCCAATC-TCATTCATATGGCCCATC
*
57363875 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
*
57363903 AAGCCCAA
1 AGGCCCAA
57363911 CTACTTCCCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 55 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCTCATTCATATGGCCCATC
Found at i:57363897 original size:56 final size:57
Alignment explanation
Indices: 57363801--57363910 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 57
57363791 GATCCACACT
* * * * *
57363801 TATTCATTTGGCCCCTTTAGGCCCAATCTCGTTCACATGGCCCATCAGGCCCAATCA
1 TATTCATATGGCCCCATTAGGCCCAATCACATTCACATGGCCCATCAAGCCCAATCA
*
57363858 TATTCATATGG-CCCATTAGGCCCAATCACATTCATATGGCCCATCAAGCCCAA
1 TATTCATATGGCCCCATTAGGCCCAATCACATTCACATGGCCCATCAAGCCCAA
57363911 CTACTTCCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
56 37 0.79
57 10 0.21
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (57 bp):
TATTCATATGGCCCCATTAGGCCCAATCACATTCACATGGCCCATCAAGCCCAATCA
Found at i:57368471 original size:60 final size:60
Alignment explanation
Indices: 57368395--57368538 Score: 168
Period size: 62 Copynumber: 2.4 Consensus size: 60
57368385 TTAGTCTTGA
* * *
57368395 CATAT-ACTGGGCCGAAGCCTTTCGT-TTAACGGTT-ACTAGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCATAATAA--GTTCACTAGGCCGAAGCCTTTTCATAAAT
* *
57368454 CATATCACTGGGCCGAAGCCTTTTCATAAATAATTTCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCC-TTTCAT-AATAAGTTCACTAGGCCGAAGCCTTTTCATAAAT
* *
57368516 CATATCATTGGCCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
57368539 ACTGTAAACG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
59 5 0.07
60 14 0.19
61 10 0.14
62 41 0.56
63 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (60 bp):
CATATCACTGGGCCGAAGCCTTTCATAATAAGTTCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:57368474 original size:31 final size:31
Alignment explanation
Indices: 57368436--57368538 Score: 170
Period size: 31 Copynumber: 3.3 Consensus size: 31
57368426 GTTACTAGGT
57368436 CGAAGCCTTTTCATAAATCATATCACTGGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGGC
* *
57368467 CGAAGCCTTTTCATAAATAATTTCACTGGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGGC
* *
57368498 CGAAGCCTTTTCATAAATCATATCATTGGCC
1 CGAAGCCTTTTCATAAATCATATCACTGGGC
57368529 CGAAGCCTTT
1 CGAAGCCTTT
57368539 ACTGTAAACG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
CGAAGCCTTTTCATAAATCATATCACTGGGC
Found at i:57368793 original size:47 final size:48
Alignment explanation
Indices: 57368736--57368827 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
57368726 GGGCAAAGCC
57368736 CTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCTTA
1 CTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCTTA
*
57368783 CTTTTTGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGC
1 CTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGC
57368828 ATAAGCCCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 19 0.44
48 24 0.56
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (48 bp):
CTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCTTA
Found at i:57368820 original size:26 final size:26
Alignment explanation
Indices: 57368718--57368839 Score: 141
Period size: 25 Copynumber: 5.0 Consensus size: 26
57368708 TAGCCTCTTT
57368718 AATAAA-TGGGGCA-AAGCCCTTTTC
1 AATAAACTGGGGCATAAGCCCTTTTC
**
57368742 GGTAAACTGGGGCA-AAGCCCTTTTC
1 AATAAACTGGGGCATAAGCCCTTTTC
* *
57368767 AATAAACTGGGGC-TTA---CTTTTT
1 AATAAACTGGGGCATAAGCCCTTTTC
**
57368789 GGTAAACTGGGGCATAAGCCCTTTTC
1 AATAAACTGGGGCATAAGCCCTTTTC
57368815 AATAAACTGGGGCATAAGCCCTTTT
1 AATAAACTGGGGCATAAGCCCTTTT
57368840 TCACTTCCTC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
22 16 0.20
23 2 0.03
24 4 0.05
25 30 0.38
26 28 0.35
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AATAAACTGGGGCATAAGCCCTTTTC
Found at i:57368914 original size:20 final size:20
Alignment explanation
Indices: 57368889--57368976 Score: 108
Period size: 20 Copynumber: 4.4 Consensus size: 20
57368879 TTATGAATAC
57368889 ATCATGTACATTTCATACAT
1 ATCATGTACATTTCATACAT
*
57368909 ATCATGTGCATTTCATACAT
1 ATCATGTACATTTCATACAT
* *
57368929 ATCATGTGCATTTTATACAT
1 ATCATGTACATTTCATACAT
*
57368949 ATCATG-AGCATATCATATCA-
1 ATCATGTA-CATTTCATA-CAT
57368969 ATCATGTA
1 ATCATGTA
57368977 TATCATATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTACATTTCATACAT
Found at i:57368935 original size:40 final size:40
Alignment explanation
Indices: 57368889--57368976 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
57368879 TTATGAATAC
* *
57368889 ATCATGTACATTTCATACATATCATGTGCATTTCATA-CA
1 ATCATGTACATTTCATACATATCATGAGCATATCATATCA
* *
57368928 TATCATGTGCATTTTATACATATCATGAGCATATCATATCA
1 -ATCATGTACATTTCATACATATCATGAGCATATCATATCA
57368969 ATCATGTA
1 ATCATGTA
57368977 TATCATATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (40 bp):
ATCATGTACATTTCATACATATCATGAGCATATCATATCA
Found at i:57369711 original size:27 final size:26
Alignment explanation
Indices: 57369681--57369782 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 26
57369671 GGGCATATTC
*
57369681 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACA
* *
57369708 GTCACTTTACCCTACAGGGGCT-TTACA
1 GTCATTTTA-CCTACAAGGG-TATTACA
* * **
57369735 GTCTTTTTACCTATTAAGGGTATTTTA
1 GTCATTTTACCTA-CAAGGGTATTACA
* *
57369762 GTCATTTCATCCCACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
57369783 GTTTTGGTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
26 5 0.09
27 46 0.81
28 6 0.11
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACA
Found at i:57369902 original size:27 final size:27
Alignment explanation
Indices: 57369834--57369985 Score: 144
Period size: 27 Copynumber: 5.6 Consensus size: 27
57369824 GTAAACCAAT
** * *
57369834 GGTATTTTTATAATTTTTAGAAAGTTAAG
1 GGTATTTTGGTAA-TTTTACAAA-TTAGG
* **
57369863 GGTATTTTTGTAATTTTTTAAATTAGG
1 GGTATTTTGGTAATTTTACAAATTAGG
57369890 GGTATTTTGGTAATTTTACAAATT-GAG
1 GGTATTTTGGTAATTTTACAAATTAG-G
* * * ** *
57369917 GGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAATTAGG
*
57369944 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATTAGG
57369971 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
57369986 CTATCCTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 82 0.80
28 8 0.08
29 12 0.12
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATTAGG
Found at i:57369911 original size:110 final size:108
Alignment explanation
Indices: 57369779--57369985 Score: 236
Period size: 110 Copynumber: 1.9 Consensus size: 108
57369769 CATCCCACAA
* *** *
57369779 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTC-AGTAATTTTGTAAACCAATGGTATTTTT
1 GGGTATTTTGGTAAATCTACAAACCAAGGGTATTTCGA-TAATTTCACAAACCAATGGTATTTTG
* * *
57369843 ATAATTTTTAGAAAGTTAAGGGTATTTTTGTAATTTTTTAAATTAG
65 ATAA-TTTTACAAA-CTAAGGGTATTTTGGTAATTTTTTAAATTAG
* * *** * *
57369889 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTCACAAACCAATGGTATTTTGA
*
57369954 TAATTTTACAAACTAGGGGTATTTTGGTAATT
66 TAATTTTACAAACTAAGGGTATTTTGGTAATT
57369986 CTATCCTACA
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
108 17 0.21
109 8 0.10
110 54 0.68
111 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (108 bp):
GGGTATTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTCACAAACCAATGGTATTTTGA
TAATTTTACAAACTAAGGGTATTTTGGTAATTTTTTAAATTAG
Found at i:57370052 original size:27 final size:27
Alignment explanation
Indices: 57370017--57370160 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
57370007 GTAATTTCAC
* * *
57370017 AATCGAGGGTAAAATAATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTCTATA
* *
57370044 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGATAATTCTATA
**
57370071 AATCGAGGGTAAAATGATAATTCTGCA
1 AATCGAGGGTAAAATGATAATTCTATA
* * *
57370098 AATTGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTCTATA
* *
57370125 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGATAATTCTATA
57370152 AATCGAGGG
1 AATCGAGGG
57370161 CATTTCAATA
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTCTATA
Found at i:57377801 original size:30 final size:29
Alignment explanation
Indices: 57377767--57377830 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
57377757 ATAAATCGGA
* *
57377767 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTAGCACTAAGTGTGCGATTT-AACT
57377797 AGCTTTAGCACTAAGTGTGCGATTTAACT
1 AGCTTTAGCACTAAGTGTGCGATTTAACT
57377826 AGCTT
1 AGCTT
57377831 CGGCTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCTTTAGCACTAAGTGTGCGATTTAACT
Found at i:57383942 original size:40 final size:40
Alignment explanation
Indices: 57383784--57383961 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
57383774 CGGATGGTAA
* * *
57383784 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATA-T
*
57383824 CTGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTG-AGCGAGTTACTATAT
* * *
57383864 ACGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
* *
57383904 CCGGGCTAAGTCCCTAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATAT
* *
57383944 CC-AGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57383962 TACTTGGTCT
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
39 15 0.13
40 103 0.87
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
Found at i:57385365 original size:38 final size:38
Alignment explanation
Indices: 57385314--57385450 Score: 202
Period size: 38 Copynumber: 3.6 Consensus size: 38
57385304 ATTACACCCA
*
57385314 CAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * *
57385352 CAGGCTTCGTGCTGGTAATATATCCGAGTTAAATCCCA
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
57385390 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
* * **
57385428 CAGGCCTAGTATTGGTATTATAT
1 CAGGCTTCGTGCTGGTATTATAT
57385451 TCGAGCCTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 88 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (38 bp):
CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
Found at i:57385444 original size:76 final size:76
Alignment explanation
Indices: 57385310--57385455 Score: 229
Period size: 76 Copynumber: 1.9 Consensus size: 76
57385300 GGGCATTACA
* * * *
57385310 CCCACAGGCTTTGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
1 CCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTAATATAT
57385375 CCGAGTTAAAT
66 CCGAGTTAAAT
* *
57385386 CCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTATTGGTATTATAT
1 CCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTAATATAT
*
57385451 TCGAG
66 CCGAG
57385456 CCTTTGAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (76 bp):
CCCACAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACTGGTAATATAT
CCGAGTTAAAT
Found at i:57385532 original size:46 final size:44
Alignment explanation
Indices: 57385448--57385576 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 44
57385438 ATTGGTATTA
* * * *
57385448 TATTCGAGCCTTT-GAGCTTAGCAGACTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-AT
*
57385493 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATACCGGTGAAAT
1 TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
* * *
57385537 GATATCAGGCC--TCGAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TAT-TCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
57385577 TGAATAAAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 11 0.15
43 16 0.22
44 4 0.05
45 19 0.26
46 23 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (44 bp):
TATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
Found at i:57390400 original size:19 final size:19
Alignment explanation
Indices: 57390376--57390415 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57390366 AGCTCCCATG
57390376 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
57390395 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
57390414 TA
1 TA
57390416 TCAACTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:57391677 original size:14 final size:14
Alignment explanation
Indices: 57391658--57391697 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
57391648 AACCGACCAA
*
57391658 TTTGTTCATATCCT
1 TTTGTTCATACCCT
*
57391672 TTTGTTCCTACCCT
1 TTTGTTCATACCCT
*
57391686 TTTGTTCCTACC
1 TTTGTTCATACC
57391698 ATTCCATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.30, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTGTTCATACCCT
Found at i:57395020 original size:19 final size:17
Alignment explanation
Indices: 57394975--57395013 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
57394965 GCTTTTCATC
57394975 CTTTCACTTCTCTCTCA
1 CTTTCACTTCTCTCTCA
57394992 CTTTCACTTCTCTCTCA
1 CTTTCACTTCTCTCTCA
57395009 CTTTC
1 CTTTC
57395014 TCTCTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.41, G:0.00, T:0.49
Consensus pattern (17 bp):
CTTTCACTTCTCTCTCA
Found at i:57406916 original size:27 final size:27
Alignment explanation
Indices: 57406876--57406987 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
57406866 AGGAAGCGTC
*
57406876 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
57406903 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
57406930 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
57406958 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
57406984 CTGG
1 CTGG
57406988 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:57406982 original size:54 final size:54
Alignment explanation
Indices: 57406876--57406987 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
57406866 AGGAAGCGTC
* *
57406876 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
57406930 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
57406984 CTGG
1 CTGG
57406988 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:57411136 original size:30 final size:30
Alignment explanation
Indices: 57411100--57411196 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
57411090 AGCTTACTCC
57411100 TAGCTCATA-TTCAGCTCACGAGCTAAACGT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACGT
* * * *
57411130 TAGCTCAACTTCAGCTTAGGAGTTTAATC-T
1 TAGCTCAACTTCAGCTCACGAG-CTAAACGT
* *
57411160 CAGCTCAACTTTAGCTCACGAGCTAAA-GAT
1 TAGCTCAACTTCAGCTCACGAGCTAAACG-T
57411190 TAGCTCA
1 TAGCTCA
57411197 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
29 4 0.08
30 44 0.85
31 4 0.08
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACGT
Found at i:57412893 original size:13 final size:12
Alignment explanation
Indices: 57412867--57412933 Score: 73
Period size: 13 Copynumber: 5.5 Consensus size: 12
57412857 ATACAAGTAT
57412867 AAAAAAATTC-A
1 AAAAAAATTCAA
57412878 AAAAAAATTCGAA
1 AAAAAAATTC-AA
* *
57412891 AAAAAATTTGAA
1 AAAAAAATTCAA
*
57412903 AAAAGAATTCAA
1 AAAAAAATTCAA
*
57412915 AAAAAAGTTTCAA
1 AAAAAA-ATTCAA
57412928 AAAAAA
1 AAAAAA
57412934 TGATTTGTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 10 0.22
12 16 0.35
13 20 0.43
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:57413874 original size:6 final size:5
Alignment explanation
Indices: 57413850--57413906 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
57413840 AAGAGAAAAT
*
57413850 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA AA-AGA
57413897 AAAGA AAAGA
1 AAAGA AAAGA
57413907 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 24 0.55
6 16 0.36
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:57413899 original size:25 final size:25
Alignment explanation
Indices: 57413854--57413902 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
57413844 GAAAATAAAG
57413854 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
57413880 AAAAGAAAAAGAAATA-AAAAGAA
1 AAAAG-AAAAGAAAAACAAAAGAA
57413903 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:57413986 original size:11 final size:12
Alignment explanation
Indices: 57413954--57413984 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
57413944 TTGAGAGAAC
57413954 TTGAAAAAGCCT
1 TTGAAAAAGCCT
57413966 TTGAAAAAGCCT
1 TTGAAAAAGCCT
57413978 TTGAAAA
1 TTGAAAA
57413985 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:57413995 original size:12 final size:12
Alignment explanation
Indices: 57413987--57414011 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57413977 TTTGAAAAGC
57413987 AAAAAGAAAATG
1 AAAAAGAAAATG
57413999 AAAAAGAAAATG
1 AAAAAGAAAATG
57414011 A
1 A
57414012 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:57414008 original size:18 final size:18
Alignment explanation
Indices: 57413981--57414036 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
57413971 AAAGCCTTTG
57413981 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
57414000 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
57414018 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
57414035 AA
1 AA
57414037 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:57414021 original size:30 final size:31
Alignment explanation
Indices: 57413987--57414068 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
57413977 TTTGAAAAGC
*
57413987 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
57414017 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
57414047 AAAAA-AAAGATGAAAAAGAAAT
1 AAAAAGAAA-ATGAAAAAGAAAT
57414069 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.23
30 24 0.56
31 9 0.21
ACGTcount: A:0.66, C:0.01, G:0.21, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Done.