Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 182 of 207
Found at i:55656982 original size:25 final size:25
Alignment explanation
Indices: 55656854--55656990 Score: 120
Period size: 25 Copynumber: 5.6 Consensus size: 25
55656844 CGTAAATTAC
* *
55656854 ATAACTTACTTAATTTGCATAATAA
1 ATAACTTACATAATTTACATAATAA
* *
55656879 ATAACTTACATAACTTACATAATAC
1 ATAACTTACATAATTTACATAATAA
* * *
55656904 ATAACTTATATGACTTACATAACT--
1 ATAACTTACATAATTTACATAA-TAA
* * *
55656928 -T-ACATAGCATAATTTTCATAATAC
1 ATAACTTA-CATAATTTACATAATAA
* *
55656952 ACAACTTACATAATTTTCATAATAA
1 ATAACTTACATAATTTACATAATAA
55656977 ATAACTTACATAAT
1 ATAACTTACATAAT
55656991 ACATAACTTA
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
22 5 0.05
23 11 0.12
25 70 0.77
26 5 0.05
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAACTTACATAATTTACATAATAA
Found at i:55662525 original size:66 final size:66
Alignment explanation
Indices: 55662443--55662573 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
55662433 AGGCAACATC
55662443 GAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCAACAACTGAAAGCAGATGCAGCA
1 GAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGCAACAACTGAAAGCAGATGCAGCA
55662507 GT
65 GT
* * * * * *
55662509 GAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTTAAAGTAGATGCGGCAG
1 GAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAACAACTGAAAGCAGATGCAGCAG
55662574 CAAGAAAAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (66 bp):
GAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAACAACTGAAAGCAGATGCAGCAG
T
Found at i:55662584 original size:21 final size:21
Alignment explanation
Indices: 55662558--55662616 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
55662548 GCAGCAGCTT
*
55662558 AAAGTAGATGCGGCAGCAAGA
1 AAAGTAGAGGCGGCAGCAAGA
*
55662579 AAAGTAGAGGCGGCAGCGAGA
1 AAAGTAGAGGCGGCAGCAAGA
* * *
55662600 GAAGTACAGGCTGCAGC
1 AAAGTAGAGGCGGCAGC
55662617 GAGGGAAGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.37, T:0.08
Consensus pattern (21 bp):
AAAGTAGAGGCGGCAGCAAGA
Found at i:55662617 original size:21 final size:21
Alignment explanation
Indices: 55662584--55662671 Score: 122
Period size: 21 Copynumber: 4.2 Consensus size: 21
55662574 CAAGAAAAGT
* * *
55662584 AGAGGCGGCAGCGAGAGAAGT
1 AGAGGCTGCAGCGAGGGAAGC
*
55662605 ACAGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
**
55662626 AGAGGCTAAAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
55662647 AGAGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGC
55662668 AGAG
1 AGAG
55662672 CAGCGTCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.33, C:0.17, G:0.45, T:0.05
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGC
Found at i:55663134 original size:43 final size:42
Alignment explanation
Indices: 55663045--55663231 Score: 191
Period size: 43 Copynumber: 4.4 Consensus size: 42
55663035 ATTTTTGGTA
* **
55663045 AAAGCGCCGCTAAAGATAAGGT-TCTTAGCGGCGTTTGTGGAA
1 AAAGCGCCGCTAAAGATCAGGTCT-TTAGCGGCGTTTGTGGGG
* *
55663087 AAAGCGCCCCTAAAGATCATGGTCTTTCGCGGCGTTTGTGGGG
1 AAAGCGCCGCTAAAGATCA-GGTCTTTAGCGGCGTTTGTGGGG
* * *
55663130 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCG
1 AAAGCGCCGCTAAAGATCAGG-TCTTTAGCGGCGTTTGTGG-GG
* * **
55663174 -AAGCGCCGCTATAGATCAGGGTCTTTTGCGGCGTTT-TAAGG
1 AAAGCGCCGCTAAAGATCA-GGTCTTTAGCGGCGTTTGTGGGG
55663215 AGAAGCGCCGCTAAAGA
1 A-AAGCGCCGCTAAAGA
55663232 CCCTAATCTT
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 20 0.17
43 95 0.79
44 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCAGGTCTTTAGCGGCGTTTGTGGGG
Found at i:55663141 original size:85 final size:85
Alignment explanation
Indices: 55663045--55663231 Score: 250
Period size: 86 Copynumber: 2.2 Consensus size: 85
55663035 ATTTTTGGTA
*
55663045 AAAGCGCCGCTAAAGATAAGGTTC-TTAGCGGCGTTTGTGGAAAAAGCGCCCCTAAAGATCATGG
1 AAAGCGCCGCTAAAGATAAGGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCCCTAAAGATCAGGG
**
55663109 TCTTTCGCGGCGTTTGTGGGG
66 TCTTTCGCGGCGTTT-TAAGG
* * *** * *
55663130 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATAAGGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCCCTAAAGATCAGGG
*
55663195 TCTTTTGCGGCGTTTTAAGG
66 TCTTTCGCGGCGTTTTAAGG
55663215 AGAAGCGCCGCTAAAGA
1 A-AAGCGCCGCTAAAGA
55663232 CCCTAATCTT
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
85 27 0.30
86 62 0.70
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGATAAGGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCCCTAAAGATCAGGG
TCTTTCGCGGCGTTTTAAGG
Found at i:55663267 original size:43 final size:43
Alignment explanation
Indices: 55663220--55663334 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
55663210 TAAGGAGAAG
* * **
55663220 CGCCGCTAAAGACCCTAATCTTTAGCGGCACTTGCCGTAAAAA
1 CGCCGCTAAAGACCCTGATCTATAGCGGCACTTGCCCCAAAAA
* * *
55663263 CGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAAAGACCCTGATCTATAGCGGCACTTGCCCCAAAAA
* *
55663306 CGCCGCAAAAGACCTTGATCTATAGCGGC
1 CGCCGCTAAAGACCCTGATCTATAGCGGC
55663335 GCTTCGACCA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.19
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTATAGCGGCACTTGCCCCAAAAA
Found at i:55663335 original size:43 final size:43
Alignment explanation
Indices: 55663220--55663352 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
55663210 TAAGGAGAAG
* * * * *
55663220 CGCCGCTAAAGACCCTAATCTTTAGCGGCACTT-G-CCGTAAAAA
1 CGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACC--ACAAA
* *
55663263 CGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTC-CCCACAAA
1 CGCCGCAAAAGACCCTGATCTATAGCGGCGC-TTCGACCACAAA
*
55663306 CGCCGCAAAAGACCTTGATCTATAGCGGCGCTTCGACCACAAA
1 CGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAA
55663349 CGCC
1 CGCC
55663353 ACTAAAGGTC
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.04
43 72 0.91
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.18
Consensus pattern (43 bp):
CGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCACAAA
Found at i:55677496 original size:109 final size:109
Alignment explanation
Indices: 55677300--55677527 Score: 429
Period size: 109 Copynumber: 2.1 Consensus size: 109
55677290 TACAAAAAAT
55677300 TATATTCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTA
1 TATA-TCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTA
55677365 CATGATAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAA
65 CATGATAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAA
* *
55677410 TATATCATAAAATTACTTTTAAGTCACAGCCATACTTTGCTAATGTAAAGAAATTTAAAAACTAC
1 TATATCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTAC
55677475 ATGATAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAA
66 ATGATAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAA
55677519 TATATCATA
1 TATATCATA
55677528 TTATCAGTAC
Statistics
Matches: 116, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
109 112 0.97
110 4 0.03
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.28
Consensus pattern (109 bp):
TATATCATAAAATTACTTATAAGTCACAACCATACTTTGCTAATGTAAAGAAATTTAAAAACTAC
ATGATAAGAAACGGTTGTCAACAAAGAACCAAATAAGTCAATAA
Found at i:55684633 original size:26 final size:26
Alignment explanation
Indices: 55684604--55684659 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
55684594 CTTAATAGCC
*
55684604 TAGTGACTTAAAT-AAAATATTTCAAA
1 TAGTGACTTAAATGAAAACA-TTCAAA
* *
55684630 TAGTTATTTAAATGAAAACATTCAAA
1 TAGTGACTTAAATGAAAACATTCAAA
55684656 TAGT
1 TAGT
55684660 TTAATGCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (26 bp):
TAGTGACTTAAATGAAAACATTCAAA
Found at i:55684660 original size:26 final size:26
Alignment explanation
Indices: 55684611--55684660 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
55684601 GCCTAGTGAC
*
55684611 TTAAATAAAATATTTCAAATAGTTAT
1 TTAAATAAAACATTTCAAATAGTTAT
55684637 TTAAATGAAAACA-TTCAAATAGTT
1 TTAAAT-AAAACATTTCAAATAGTT
55684661 TAATGCCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (26 bp):
TTAAATAAAACATTTCAAATAGTTAT
Found at i:55687026 original size:6 final size:6
Alignment explanation
Indices: 55687006--55687048 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
55686996 TTTATCAATC
*
55687006 TCTGAT TCATGAT TCTGAT TCTGAT TCTGAT TCTTAT TCTGAT
1 TCTGAT TC-TGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
55687049 ATGTTTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
TCTGAT
Found at i:55688843 original size:20 final size:20
Alignment explanation
Indices: 55688818--55688855 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
55688808 ACAATTTAAA
55688818 ATATAAATTTATTAATATGT
1 ATATAAATTTATTAATATGT
55688838 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
55688856 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATGT
Found at i:55688995 original size:13 final size:14
Alignment explanation
Indices: 55688967--55689003 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
55688957 CCAAAAAAGT
55688967 AAATCATTTTTCAG
1 AAATCATTTTTCAG
55688981 AAATCATTTTT-AG
1 AAATCATTTTTCAG
*
55688994 AAAACATTTT
1 AAATCATTTT
55689004 ATTGGCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:55695169 original size:40 final size:40
Alignment explanation
Indices: 55695065--55695171 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
55695055 AGCTTTAGTG
* *
55695065 GCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGA
* * *
55695105 GCATTAGCGGCACTATTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGA
* *
55695145 GCATTAGTGGCGCTTTTTGGAAAATGC
1 GCATTAGCGGCGCTTTTTGAAAAATGC
55695172 TGTAAAAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAATGCCGCAATAGATCGA
Found at i:55695252 original size:156 final size:153
Alignment explanation
Indices: 55694971--55695291 Score: 462
Period size: 156 Copynumber: 2.1 Consensus size: 153
55694961 GCGCTTCTAA
* *
55694971 AAAAAAGCTGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCGCAAAAAGTTGAGCAA
1 AAAAAAGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCGAAAAAAGTTGAGCAA
* *
55695036 AACACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAGA
66 AACACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACACCGCAATAGA
55695101 TCGAGCATTAGCGGCACTATTTG
131 TCGAGCATTAGCGGCACTATTTG
* ** * *
55695124 AAAAATGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGGAAAATGCTGTAAAAAAAGTTGAGC
1 AAAAAAGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCG--AAAAAAGTTGAGC
* * *
55695189 AAAACGACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGTGGCTCTTTTTAAAGAACACCGCAAT
64 AAAAC-ACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACACCGCAAT
* * * *
55695254 AGATTGAGCATTAGCGGCGCTTTTTA
128 AGATCGAGCATTAGCGGCACTATTTG
55695280 AAAAAACGCCGC
1 AAAAAA-GCCGC
55695292 AAAAAATTTG
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
153 44 0.30
155 17 0.12
156 81 0.55
157 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (153 bp):
AAAAAAGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCGGAAAATGCCGAAAAAAGTTGAGCAA
AACACGTCGTTTATTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACACCGCAATAGA
TCGAGCATTAGCGGCACTATTTG
Found at i:55695309 original size:116 final size:117
Alignment explanation
Indices: 55695105--55695402 Score: 325
Period size: 116 Copynumber: 2.6 Consensus size: 117
55695095 AATAGATCGA
* ** * * * **
55695105 GCATTAGCGGCACTATTTG--AAAAATGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGGAAA
1 GCATTAGCGGCGCT-TTTGTAAAAAACACCGCAATAGATTGAGCATTAGCGGCGCTTTTTAAAAA
* * * *
55695168 ATGCTGTAAAAAAAGTTGAGCAAAACGACGTCGTTTATTGTTGAGCTTTAGTG
65 ACGCCGTAAAAAAAGTTGAGCAAAACGACATCGTTTATTGTTGAGCATTAGTG
* * *
55695221 GCATTAGTGGCTCTTTT-TAAAGAACACCGCAATAGATTGAGCATTAGCGGCGCTTTTTAAAAAA
1 GCATTAGCGGCGCTTTTGTAAAAAACACCGCAATAGATTGAGCATTAGCGGCGCTTTTT-AAAAA
* * *
55695285 ACGCCG-CAAAAAATTTGAGCAAAACGACATCGTTTGTTGTTGAGCATTAGTG
65 ACGCCGTAAAAAAAGTTGAGCAAAACGACATCGTTTATTGTTGAGCATTAGTG
** * * * * *
55695337 GCATTAGCGGCGCTTTTGTAAAAAATGCCGCAATAGGTTGAGAATTAGCGGTGCTTGTTGAAAAA
1 GCATTAGCGGCGCTTTTGTAAAAAACACCGCAATAGATTGAGCATTAGCGGCGCTTTTTAAAAAA
55695402 C
66 C
55695403 ATCGCTATAG
Statistics
Matches: 151, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
115 3 0.02
116 107 0.71
117 41 0.27
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (117 bp):
GCATTAGCGGCGCTTTTGTAAAAAACACCGCAATAGATTGAGCATTAGCGGCGCTTTTTAAAAAA
CGCCGTAAAAAAAGTTGAGCAAAACGACATCGTTTATTGTTGAGCATTAGTG
Found at i:55695424 original size:40 final size:40
Alignment explanation
Indices: 55695337--55695434 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 40
55695327 AGCATTAGTG
* *
55695337 GCATTAGCGGCGCTTTTGTAAAAAATGCCGCAATAGGTTGA
1 GCATTAGCGGCGCTTTTGTAAAAAAT-CCGCAATAGATCGA
* * *
55695378 GAATTAGCGGTGCTTGTTG-AAAAACAT-CGCTATAGATCGA
1 GCATTAGCGGCGCTT-TTGTAAAAA-ATCCGCAATAGATCGA
*
55695418 GCATTAGTGGCGCTTTT
1 GCATTAGCGGCGCTTTT
55695435 CACAAAACTC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
39 2 0.04
40 22 0.47
41 18 0.38
42 5 0.11
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTGTAAAAAATCCGCAATAGATCGA
Found at i:55695550 original size:21 final size:22
Alignment explanation
Indices: 55695525--55695592 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
55695515 AATCATTTTA
55695525 TTTTAGGGTTTA-GTATTTAAGG
1 TTTTAGGGTTTATG-ATTTAAGG
** *
55695547 -TTTAATGTTTATGGTTTAAGG
1 TTTTAGGGTTTATGATTTAAGG
* *
55695568 TTTTAGGGTTTATGATATAATG
1 TTTTAGGGTTTATGATTTAAGG
55695590 TTT
1 TTT
55695593 ATTATTTTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 16 0.44
22 20 0.56
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (22 bp):
TTTTAGGGTTTATGATTTAAGG
Found at i:55695622 original size:14 final size:14
Alignment explanation
Indices: 55695605--55695648 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
55695595 TATTTTGGGA
55695605 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
55695619 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
*
55695633 TTAAAGTTTATGGT
1 TTAGAGTTTATGGT
55695647 TT
1 TT
55695649 GGGGTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:55695654 original size:21 final size:21
Alignment explanation
Indices: 55695616--55695656 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
55695606 TAGAGTTTTG
*
55695616 AGTTTAGGGTTTATGGTTTAA
1 AGTTTAGGGTTTAGGGTTTAA
* *
55695637 AGTTTATGGTTTGGGGTTTA
1 AGTTTAGGGTTTAGGGTTTA
55695657 TTATATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.49
Consensus pattern (21 bp):
AGTTTAGGGTTTAGGGTTTAA
Found at i:55695655 original size:14 final size:14
Alignment explanation
Indices: 55695617--55695657 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
55695607 AGAGTTTTGA
55695617 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
**
55695631 GTTTAAAGTTTATG
1 GTTTAGGGTTTATG
*
55695645 GTTTGGGGTTTAT
1 GTTTAGGGTTTAT
55695658 TATATTATAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:55695841 original size:19 final size:19
Alignment explanation
Indices: 55695814--55695876 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
55695804 GTAATATATA
*
55695814 TTTAGGGTTTAGGTGTAGG
1 TTTATGGTTTAGGTGTAGG
55695833 TTTATGGTTT-GGTGTAGTG
1 TTTATGGTTTAGGTGTAG-G
*
55695852 TTTATGGTTTATGGTTTAGGG
1 TTTATGGTTTA-GGTGTA-GG
55695873 TTTA
1 TTTA
55695877 GCATTTAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 7 0.18
19 20 0.53
21 10 0.26
22 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (19 bp):
TTTATGGTTTAGGTGTAGG
Found at i:55695932 original size:36 final size:36
Alignment explanation
Indices: 55695886--55695972 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
55695876 AGCATTTAGT
*
55695886 GTTTATAGTTTAAGGGTTAGGAACTTAGGGTTTAAG
1 GTTTAAAGTTTAAGGGTTAGGAACTTAGGGTTTAAG
* * *** *
55695922 GTTTAAAGTTTATGGTTTAGGGGTTTAGGGTTTATG
1 GTTTAAAGTTTAAGGGTTAGGAACTTAGGGTTTAAG
*
55695958 GTTTAATGTTTAAGG
1 GTTTAAAGTTTAAGG
55695973 TCTGATTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (36 bp):
GTTTAAAGTTTAAGGGTTAGGAACTTAGGGTTTAAG
Found at i:55695948 original size:8 final size:7
Alignment explanation
Indices: 55695814--55695962 Score: 74
Period size: 7 Copynumber: 21.6 Consensus size: 7
55695804 GTAATATATA
55695814 TTTAGGG
1 TTTAGGG
55695821 TTTA-GG
1 TTTAGGG
*
55695827 TGTA-GG
1 TTTAGGG
*
55695833 TTTATGG
1 TTTAGGG
55695840 TTT--GG
1 TTTAGGG
* *
55695845 TGTAGTG
1 TTTAGGG
*
55695852 TTTATGG
1 TTTAGGG
*
55695859 TTTATGG
1 TTTAGGG
55695866 TTTAGGG
1 TTTAGGG
**
55695873 TTTAGCA
1 TTTAGGG
*
55695880 TTTAGTG
1 TTTAGGG
**
55695887 TTTATAG
1 TTTAGGG
55695894 TTTAAGGG
1 TTT-AGGG
*
55695902 -TTAGGAA
1 TTTAGG-G
*
55695909 CTTAGGG
1 TTTAGGG
*
55695916 TTTAAGG
1 TTTAGGG
**
55695923 TTTAAAG
1 TTTAGGG
*
55695930 TTTATGG
1 TTTAGGG
55695937 TTTAGGGG
1 TTTA-GGG
55695945 TTTAGGG
1 TTTAGGG
*
55695952 TTTATGG
1 TTTAGGG
55695959 TTTA
1 TTTA
55695963 ATGTTTAAGG
Statistics
Matches: 110, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
5 4 0.04
6 13 0.12
7 80 0.73
8 13 0.12
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:55695948 original size:22 final size:22
Alignment explanation
Indices: 55695921--55695962 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55695911 TAGGGTTTAA
55695921 GGTTTAAAGTTTATGGTTTAGG
1 GGTTTAAAGTTTATGGTTTAGG
**
55695943 GGTTTAGGGTTTATGGTTTA
1 GGTTTAAAGTTTATGGTTTA
55695963 ATGTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (22 bp):
GGTTTAAAGTTTATGGTTTAGG
Found at i:55697154 original size:43 final size:43
Alignment explanation
Indices: 55697100--55697188 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
55697090 GTTTTTTCAT
* *
55697100 AAACGCCGCTAAAGAAC-GGTACTTTTAGCGGTGTTTGTGATAA
1 AAACACCGCTAAAGAACAGGTAC-TTTAGCGGTGTTTGTGAAAA
* * * *
55697143 AAACACCGCTAAAGATCATGTTCTTTAGTGGTGTTTGTGAAAA
1 AAACACCGCTAAAGAACAGGTACTTTAGCGGTGTTTGTGAAAA
55697186 AAA
1 AAA
55697189 AGCCACTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 36 0.92
44 3 0.08
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (43 bp):
AAACACCGCTAAAGAACAGGTACTTTAGCGGTGTTTGTGAAAA
Found at i:55697317 original size:42 final size:43
Alignment explanation
Indices: 55697123--55697392 Score: 269
Period size: 43 Copynumber: 6.3 Consensus size: 43
55697113 GAACGGTACT
* * * *
55697123 TTTAGCGGTGTTTGTGATAAAAACACCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * ** *
55697166 TTTAGTGGTGTTTGTGAAAAAAAAGCCACTAAAGGTCAT-TCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGT-TC
* * ** *
55697209 TATAGCGGCATTTGTGATAAAAATGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
*
55697252 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCAT-TTT
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
55697294 TTTAACGGCGTTTGTGGGT-AAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
55697337 TTTAGCGGCGTGTT-TTATAAAAGCGCCACTAAAGGTCCTGTTC
1 TTTAGCGGCGT-TTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
55697380 TATAGCGGTGTTT
1 TTTAGCGGCGTTT
55697393 TTTCACATAA
Statistics
Matches: 189, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
42 38 0.20
43 149 0.79
44 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:55701359 original size:23 final size:23
Alignment explanation
Indices: 55701295--55701359 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
55701285 TAAAATTTAA
*
55701295 ATTTTGTTATATATATATACATGCAT
1 ATTTT-TTATA-AT-TATACATACAT
55701321 ATATTTTTATAA-TATACATACAT
1 AT-TTTTTATAATTATACATACAT
55701344 ATTTTTTATAATTATA
1 ATTTTTTATAATTATA
55701360 TTTTTTATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 9 0.25
23 16 0.44
25 1 0.03
26 7 0.19
27 3 0.08
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (23 bp):
ATTTTTTATAATTATACATACAT
Found at i:55701374 original size:16 final size:15
Alignment explanation
Indices: 55701342--55701384 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
55701332 ATATACATAC
55701342 ATATTTTTTATAATT
1 ATATTTTTTATAATT
*
55701357 ATATTTTTTATATTTT
1 ATATTTTTTATA-ATT
*
55701373 ATATTTTATATA
1 ATATTTTTTATA
55701385 CCTATCTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTTTTATAATT
Found at i:55701396 original size:12 final size:12
Alignment explanation
Indices: 55701379--55701413 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
55701369 TTTTATATTT
*
55701379 TATATACCTATC
1 TATATACATATC
*
55701391 TATATATATATC
1 TATATACATATC
55701403 TATATACATAT
1 TATATACATAT
55701414 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:55702214 original size:188 final size:186
Alignment explanation
Indices: 55701897--55702272 Score: 463
Period size: 188 Copynumber: 2.0 Consensus size: 186
55701887 TTAAACGATC
* * *
55701897 TTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTTTTTTTTAATCCGAGATA
1 TTGGGAATTAACAAAAGATCGTGTCCTAACTTACGGGGCATGATCCTTTTTTCTAATCCGAGATA
* *
55701962 GCTAAATATCTTTTAAATAAGTAAATTTTTGGCATGCATTTCGCACATCGGGAATTCAAGACATT
66 ACTAAATATCTTTTAAATAAGCAAATTTTTGGCATGCATTTCG-ACATCGGGAATTCAAGACATT
* *
55702027 ATGTCCTAACTTATTG-GATACAATTCTCTTTCTCGATTAACGTGAAATATGCTCTTTT
130 ATGTCCTAACTTA-CGAGATACAATT-TCTTTCTCGATTAACGTGAAATATGCCCTTTT
* *
55702085 TTGGGAATTAACAAAAGATTGTGTTCTAACTTACGGGGCATGATCC-TTTTTCTAGA-CCTGAGA
1 TTGGGAATTAACAAAAGATCGTGTCCTAACTTACGGGGCATGATCCTTTTTTCTA-ATCC-GAGA
* ** ** * *
55702148 TAATTAAATATCTTTTTAAATAAGCAAATTTTTGGCATTTATTTTCG-TGTTGTGAATTCAAGAC
64 TAACTAAATATC-TTTTAAATAAGCAAATTTTTGGCATGCA-TTTCGACATCGGGAATTCAAGAC
* * * * * *
55702212 ATTGTGTCTTAACTTACGAGATGCAATTTTTTTCTTGATTAACGTGAAGTATGCCCTTTT
127 ATTATGTCCTAACTTACGAGATACAATTTCTTTCTCGATTAACGTGAAATATGCCCTTTT
55702272 T
1 T
55702273 CTTTTCAAAT
Statistics
Matches: 161, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
187 39 0.24
188 92 0.57
189 25 0.16
190 5 0.03
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (186 bp):
TTGGGAATTAACAAAAGATCGTGTCCTAACTTACGGGGCATGATCCTTTTTTCTAATCCGAGATA
ACTAAATATCTTTTAAATAAGCAAATTTTTGGCATGCATTTCGACATCGGGAATTCAAGACATTA
TGTCCTAACTTACGAGATACAATTTCTTTCTCGATTAACGTGAAATATGCCCTTTT
Found at i:55703642 original size:221 final size:221
Alignment explanation
Indices: 55703259--55703698 Score: 745
Period size: 221 Copynumber: 2.0 Consensus size: 221
55703249 TTTATTAAGC
* * *
55703259 ATAACAACCTATGTATTCATCAACTATTCAAACATGGTTCTTTATTCACATTTAATATTACAAAC
1 ATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTACAAAC
55703324 TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
66 TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
* * **
55703389 AATGCACATACAAGCTCATCACATAGGACTATCAAAATTCAAGCATTATCAAAAGATCAAAGCTA
131 AATGCACATACAAGCTCACCACATAAGACTATCAAAAGACAAGCATTATCAAAAGATCAAAGCTA
55703454 CCATATCCAAGTAATCATATATGATT
196 CCATATCCAAGTAATCATATATGATT
* * *
55703480 ATAACAACCTATGTATTCATAAATTATTCAAATATGGTTCTTCATTCACATTTAACATTCCAAAC
1 ATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTACAAAC
* * *
55703545 TCAGTCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCTTACCACAATTCCATT
66 TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
* *
55703610 AATGCACATACAAGCTCACCACATAAGACTATCAAAAGACAAGCATTATCTAAATATCAAAGCTA
131 AATGCACATACAAGCTCACCACATAAGACTATCAAAAGACAAGCATTATCAAAAGATCAAAGCTA
55703675 CCATATCCAAGTAATCATATATGA
196 CCATATCCAAGTAATCATATATGA
55703699 GCATAACATT
Statistics
Matches: 204, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
221 204 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (221 bp):
ATAACAACCTATGTATTCATAAACTATTCAAACATGGTTCTTCATTCACATTTAACATTACAAAC
TCAATCAAAACATATTTAAAATATACCATTCAATTGCTTCAAACATATCCTACCACAATGCCATT
AATGCACATACAAGCTCACCACATAAGACTATCAAAAGACAAGCATTATCAAAAGATCAAAGCTA
CCATATCCAAGTAATCATATATGATT
Found at i:55705413 original size:25 final size:25
Alignment explanation
Indices: 55705380--55705432 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
55705370 GTAAAGGGTG
55705380 TTTTCGTCTGGGTTGGGGAAATCAT
1 TTTTCGTCTGGGTTGGGGAAATCAT
55705405 TTTTCGTCTGGGTTGGGGAAATCAT
1 TTTTCGTCTGGGTTGGGGAAATCAT
55705430 TTT
1 TTT
55705433 AACTGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.30, T:0.43
Consensus pattern (25 bp):
TTTTCGTCTGGGTTGGGGAAATCAT
Found at i:55708333 original size:23 final size:23
Alignment explanation
Indices: 55708307--55708397 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
55708297 GTGTTATTGA
*
55708307 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
55708330 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
55708353 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
* *
55708376 GCAGTGGTAGCTTCGACTACAT
1 TCAGTGGTAGCTTCGGCTACAT
55708398 AACAGTGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:55716181 original size:20 final size:19
Alignment explanation
Indices: 55716148--55716194 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
55716138 TCGAGAACCA
*
55716148 TTTTACTTAGTAAATAATGG
1 TTTTATTTAGTAAAT-ATGG
*
55716168 TTTTTATTTA-TAAATCTGG
1 -TTTTATTTAGTAAATATGG
55716187 TTTTATTT
1 TTTTATTT
55716195 GGGAGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 5 0.21
21 8 0.33
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTATTTAGTAAATATGG
Found at i:55721450 original size:38 final size:38
Alignment explanation
Indices: 55721405--55721524 Score: 113
Period size: 38 Copynumber: 3.2 Consensus size: 38
55721395 GATCTTTCGA
**
55721405 GGCGACACCGTGACAACGGTTATCTACTGGTCCTTTGG
1 GGCGACACCGTGACAACGGTTATCTACTGGTCCTTCAG
* * * * *
55721443 GGTGACACTGCGACGACGATTATCTACTGGTCCTTCAG
1 GGCGACACCGTGACAACGGTTATCTACTGGTCCTTCAG
* *
55721481 GGCGACACCGTGTA-AACGG-TATATA--GGTCCTACAG
1 GGCGACACCGTG-ACAACGGTTATCTACTGGTCCTTCAG
*
55721516 GGTGACACC
1 GGCGACACC
55721525 TCAAAAGGGG
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
35 17 0.26
37 5 0.08
38 43 0.65
39 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (38 bp):
GGCGACACCGTGACAACGGTTATCTACTGGTCCTTCAG
Found at i:55723593 original size:16 final size:16
Alignment explanation
Indices: 55723567--55723605 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
55723557 TAGAATTGGG
*
55723567 TTAAGAAAATTATTTAA
1 TTAA-AAAATTAATTAA
55723584 TTAAAAAATTAATTAA
1 TTAAAAAATTAATTAA
55723600 TTAAAA
1 TTAAAA
55723606 TTAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:55723618 original size:14 final size:13
Alignment explanation
Indices: 55723580--55723618 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
55723570 AGAAAATTAT
55723580 TTAATTAA-AAAA
1 TTAATTAATAAAA
55723592 TTAATTAATTAAAA
1 TTAATTAA-TAAAA
55723606 TTAATTTAATAAA
1 TTAA-TTAATAAA
55723619 TAATATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.33
14 12 0.50
15 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAATTAATAAAA
Found at i:55730170 original size:15 final size:15
Alignment explanation
Indices: 55730150--55730206 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
55730140 TTTATGGAAA
55730150 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
55730165 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
55730179 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
55730195 ATCAAAGATATG
1 ATCAAAGATATG
55730207 ACGTAGGCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 4 0.12
15 24 0.75
16 4 0.12
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:55736594 original size:17 final size:19
Alignment explanation
Indices: 55736566--55736606 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
55736556 AAATTTATAA
55736566 TAAAAGTTATATATTTT-T
1 TAAAAGTTATATATTTTAT
*
55736584 TAAAA-TTATATTTTTTAT
1 TAAAAGTTATATATTTTAT
55736602 TAAAA
1 TAAAA
55736607 ATAACAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAAAAGTTATATATTTTAT
Found at i:55737412 original size:17 final size:18
Alignment explanation
Indices: 55737390--55737432 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
55737380 GGAGCTCGCA
55737390 GGTGAGCTCT-CAAGT-TT
1 GGTGAGCTCTGC-AGTCTT
55737407 GGTGAGCT-TGCAGTCTT
1 GGTGAGCTCTGCAGTCTT
55737424 GGTGAGCTC
1 GGTGAGCTC
55737433 GTAATTCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.14, C:0.19, G:0.35, T:0.33
Consensus pattern (18 bp):
GGTGAGCTCTGCAGTCTT
Found at i:55737471 original size:17 final size:17
Alignment explanation
Indices: 55737423--55737471 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
55737413 CTTGCAGTCT
* *
55737423 TGGTGAGCTCGTAATTC
1 TGGTGAGCTCGCAATGC
* * *
55737440 TGGAGAGGTCACAATGC
1 TGGTGAGCTCGCAATGC
55737457 TGGTGAGCTCGCAAT
1 TGGTGAGCTCGCAAT
55737472 TCGCACTATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (17 bp):
TGGTGAGCTCGCAATGC
Found at i:55744901 original size:20 final size:20
Alignment explanation
Indices: 55744876--55744913 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
55744866 TGTTTTAAAG
55744876 TTACGATTTTATGGTAATGC
1 TTACGATTTTATGGTAATGC
55744896 TTACGATTTTATGGTAAT
1 TTACGATTTTATGGTAAT
55744914 ACTCTGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (20 bp):
TTACGATTTTATGGTAATGC
Found at i:55754881 original size:277 final size:277
Alignment explanation
Indices: 55754227--55755052 Score: 1216
Period size: 277 Copynumber: 3.0 Consensus size: 277
55754217 ACGTTACGAT
* ** *
55754227 AAATCGATACGAGGAACACATTGAACGGGACTCAATTTCAAACTCGGGATCAAATTAAAATTTCC
1 AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
* * * *
55754292 AACAAAAGAAGTTGAAGA-TTTTATGAAAAGGAAATAAGTGAATAACAAAAAAAGATGTATTTAA
66 AACAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAA
* * * * * *
55754356 ATAAGGGAAAAGAGAAATTT-TAATTAAGGTTGGAAAGAAGTAAAAATCCACATGTAATTAAGAA
131 AGAAGAGAAAAGAG-AATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAA
* *
55754420 AATGGATTAAATGGTTAGGGTTTCAGAAATTTAAAGGGTTGAATGGTAAAATACTCATTTTTG-T
195 AATGGATTAAAT-GTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGCT
55754484 CGACATT--AAAAAAAAGAG
259 -GACATTGAAAAAAAAAGAG
* *
55754502 AAATTGATACGAGGAACAAATTGAACGGGACTTGGTTTCAAACTCGGGATCAAATTAAAATTTTC
1 AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
* *
55754567 AACAAAAGAATATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGAGGTATTTAA
66 AACAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAA
* *
55754632 AGAAGAGAAAAAAGAATTTCTAATTTGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
131 AGAAGAGAAAAGAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
* * *
55754697 ATGGATTAAATATTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACCCCTTTTTGCTGA
196 ATGGATTAAATGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGCTGA
55754762 CATTGAAAAAAAAAGAG
261 CATTGAAAAAAAAAGAG
* * **
55754779 AAATCAATACGAAGAACGGATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
1 AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
* * *
55754844 AGCAAAAGAAGATGAAGATTTTTATGAAAAAGAAATGAGGGAATAACAGAAAAAGATGCATTTAA
66 AACAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAA
* * * *
55754909 AGAGGAGAAAAGAGAAATTCTAATTAGGGTTGAAAAGGAGTAGAAATGCACATGTAATTAGGAAA
131 AGAAGAGAAAAGAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
* *
55754974 ATGGATTAAATTGTTAGGGTTTAA-AAATTTAAGGGG-TAAATGGTAAAATACTCTTTTTTGCTG
196 ATGGATTAAA-TGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGCTG
55755037 ACATTGAAAAATAAAA
260 ACATTGAAAAA-AAAA
55755053 AGTGGGGGAG
Statistics
Matches: 498, Mismatches: 46, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
275 131 0.26
276 140 0.28
277 215 0.43
278 12 0.02
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (277 bp):
AAATCGATACGAGGAACAAATTGAACGGGACTCGGTTTCAAACTCGGGATCAAATTAAAATTTTC
AACAAAAGAAGATGAAGATTTTTATGAAAAGGAAATGAGGGAATAACAGAAAAAGATGTATTTAA
AGAAGAGAAAAGAGAATTTCTAATTAGGGTTGAAAAGAAGTAGAAATCCACATGTAATTAGGAAA
ATGGATTAAATGTTAGGGTTTAAGAAATTTAAGGGGTTGAATGGTAAAATACTCATTTTTGCTGA
CATTGAAAAAAAAAGAG
Found at i:55755201 original size:14 final size:15
Alignment explanation
Indices: 55755182--55755210 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55755172 CATAGTTGCT
55755182 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
55755196 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
55755211 TAGGTCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:55757898 original size:5 final size:6
Alignment explanation
Indices: 55757881--55757905 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55757871 TTTTATCTCC
55757881 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
55757906 GTCCCAATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:55763150 original size:172 final size:172
Alignment explanation
Indices: 55762823--55763166 Score: 474
Period size: 171 Copynumber: 2.0 Consensus size: 172
55762813 TCACGAAATC
* * *
55762823 TTGTCCATTTAAGGTGACTGCTAAAACTTGTGAACTTTAAGGTGGCTGCGGAATCGAGGGTTGTT
1 TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGGAAACGAAGGTTGTT
* * * * *
55762888 ACAAATGTGGTATAACACATTTGGATCCAGCAACCGGGTCAGATTTGGGGTGTTACACAATATTT
66 ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTT
* * *
55762953 CTCATTTTTTTCTTTTAACATTGTAATACAAGTTTTAAGCTT
131 CCCATTTTTTCCTCTTAACATTGTAATACAAGTTTTAAGCTT
* * *
55762995 TTGTCCATTTAAGTTGGCTGCTAAAACTCGTGAACTTTAAGGTGGCTG-TGAAACGAAGGTTGTT
1 TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGGAAACGAAGGTTGTT
* * ** * *
55763059 ACAAATGTGGTATAATATATTTGAATCAAGCAATTAGGTCAGTTTTGAGGCGTTATACAATATTT
66 ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTT
* *
55763124 CCCCTTTTTTCCCTCTTAATATTGTAATACAAGTTTTAAGCTT
131 CCCATTTTTT-CCTCTTAACATTGTAATACAAGTTTTAAGCTT
55763167 AAAAAAATTG
Statistics
Matches: 149, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
171 75 0.50
172 74 0.50
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (172 bp):
TTGTCCATTTAAGGTGACTGCTAAAACTCGTGAACTTTAAGGTGGCTGCGGAAACGAAGGTTGTT
ACAAATGTGGTATAACACATTTGAATCAAGCAACCAGGTCAGATTTGAGGCGTTACACAATATTT
CCCATTTTTTCCTCTTAACATTGTAATACAAGTTTTAAGCTT
Found at i:55763722 original size:14 final size:14
Alignment explanation
Indices: 55763700--55763733 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55763690 CATTATTCTC
*
55763700 ATTTTAACAAATAT
1 ATTTGAACAAATAT
55763714 ATTTGAACAAATAT
1 ATTTGAACAAATAT
55763728 AGTTTG
1 A-TTTG
55763734 TAATCTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (14 bp):
ATTTGAACAAATAT
Found at i:55766264 original size:13 final size:13
Alignment explanation
Indices: 55766246--55766276 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55766236 TAAACAAAAT
55766246 ATAAAATAAAAGA
1 ATAAAATAAAAGA
55766259 ATAAAATAAAAGA
1 ATAAAATAAAAGA
*
55766272 GTAAA
1 ATAAA
55766277 GAGAATGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (13 bp):
ATAAAATAAAAGA
Found at i:55769044 original size:12 final size:13
Alignment explanation
Indices: 55769011--55769055 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
55769001 TTTAAAAATA
55769011 ATTATT-TGATTT
1 ATTATTATGATTT
*
55769023 ATTTTTATGATTT
1 ATTATTATGATTT
55769036 -TTATTATGATTT
1 ATTATTATGATTT
*
55769048 ATTGTTAT
1 ATTATTAT
55769056 TACTTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (13 bp):
ATTATTATGATTT
Found at i:55771786 original size:30 final size:30
Alignment explanation
Indices: 55771750--55771806 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
55771740 TTCATATCAG
55771750 AAACTAAAAAATTATGACTATAGAAAAATA
1 AAACTAAAAAATTATGACTATAGAAAAATA
*
55771780 AAACTAAAAAATTCTGACTATAGAAAA
1 AAACTAAAAAATTATGACTATAGAAAA
55771807 CTATGTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.23
Consensus pattern (30 bp):
AAACTAAAAAATTATGACTATAGAAAAATA
Found at i:55776463 original size:25 final size:25
Alignment explanation
Indices: 55776433--55776523 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
55776423 TGTAAACACT
* *
55776433 AAGCTCTTTCGAGCTGAATAACGGG
1 AAGCTCATACGAGCTGAATAACGGG
55776458 AAGCTCATACGAGCTGAATAACGGG
1 AAGCTCATACGAGCTGAATAACGGG
* * *
55776483 AAGGTCATGCGAGCT-AAGTATCGGG
1 AAGCTCATACGAGCTGAA-TAACGGG
*
55776508 AAGCTCATAAGAGCTG
1 AAGCTCATACGAGCTG
55776524 TGGTGTGTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
24 2 0.04
25 54 0.96
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.20
Consensus pattern (25 bp):
AAGCTCATACGAGCTGAATAACGGG
Found at i:55776881 original size:30 final size:30
Alignment explanation
Indices: 55776845--55776904 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
55776835 TCAATTCAAT
55776845 ATAATTCATATTCAATTTAGTCCAACACAC
1 ATAATTCATATTCAATTTAGTCCAACACAC
*
55776875 ATAATTCATGTTCAATTTAGTCCAACACAC
1 ATAATTCATATTCAATTTAGTCCAACACAC
55776905 TTTTTTTGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (30 bp):
ATAATTCATATTCAATTTAGTCCAACACAC
Found at i:55779878 original size:33 final size:34
Alignment explanation
Indices: 55779823--55779892 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 34
55779813 GTAATAATGT
* * *
55779823 AGTATCAGTCTGGGCCTGAGCCCTATACAGTGAC
1 AGTATCAGTCTGGGCCTGAGCCCAAAACAGTAAC
* * *
55779857 AGTAT-AGTGTGGGGCTTAGCCCAAAACAGTAAC
1 AGTATCAGTCTGGGCCTGAGCCCAAAACAGTAAC
55779890 AGT
1 AGT
55779893 GTGGGCCTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (34 bp):
AGTATCAGTCTGGGCCTGAGCCCAAAACAGTAAC
Found at i:55779895 original size:28 final size:29
Alignment explanation
Indices: 55779855--55779921 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
55779845 CTATACAGTG
*
55779855 ACAGT-AT-AGTGTGGGGCTTAGCCCAAA
1 ACAGTAATCAGTGTGGGCCTTAGCCCAAA
*
55779882 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATCAGTGTGGGCCTTAGCCCAAA
55779910 ACAGTAATCAGT
1 ACAGTAATCAGT
55779922 TCAGTACAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 5 0.14
28 26 0.74
29 4 0.11
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.22
Consensus pattern (29 bp):
ACAGTAATCAGTGTGGGCCTTAGCCCAAA
Found at i:55780274 original size:27 final size:27
Alignment explanation
Indices: 55780236--55780303 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
55780226 ATCATAAGGC
*
55780236 TATAACGGTCATTTCAT-CTCCTAGGGG
1 TATAACAGTCATTTCATCCT-CTAGGGG
* * *
55780263 TATAACAGTCATTTTATCCTGTGGGGG
1 TATAACAGTCATTTCATCCTCTAGGGG
*
55780290 TATTACAGTCATTT
1 TATAACAGTCATTT
55780304 TACCCTTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
TATAACAGTCATTTCATCCTCTAGGGG
Found at i:55780317 original size:27 final size:27
Alignment explanation
Indices: 55780268--55780497 Score: 268
Period size: 27 Copynumber: 8.5 Consensus size: 27
55780258 AGGGGTATAA
* * *
55780268 CAGTCATTTTATCCTGT-GGGGGTATTA
1 CAGTCATTTTACCCT-TCGAGGGTATTT
55780295 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
** *
55780322 TGGTCATTTT-CCCATTCAAGGGTATTT
1 CAGTCATTTTACCC-TTCGAGGGTATTT
*
55780349 CAGTCATTTTACCTTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
** *
55780376 TGGTCATTGTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
55780403 CGGTCATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
55780430 CAGTCATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
55780457 CAGTCATTTTACCCTTTGAGAGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
55780484 -TGATCATTTTACCC
1 CAG-TCATTTTACCC
55780498 ATTTTCGCCG
Statistics
Matches: 177, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.03
27 170 0.96
28 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:55780328 original size:54 final size:54
Alignment explanation
Indices: 55780270--55780497 Score: 298
Period size: 54 Copynumber: 4.2 Consensus size: 54
55780260 GGGTATAACA
* * *
55780270 GTCATTTTATCCTGT-GGGGGTATTACAGTCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTG
* *
55780324 GTCATTTT-CCCATTCAAGGGTATTTCAGTCATTTTACCTTTCGAGGGTATTTTG
1 GTCATTTTACCC-TTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTG
* * * **
55780378 GTCATTGTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAAGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTG
* * *
55780432 GTCATTTTACCCTTCGAAGGTATTTCAGTCATTTTACCCTTTGAGAGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTG
*
55780486 ATCATTTTACCC
1 GTCATTTTACCC
55780498 ATTTTCGCCG
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
53 3 0.02
54 144 0.96
55 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTG
Found at i:55780353 original size:81 final size:81
Alignment explanation
Indices: 55780268--55780500 Score: 303
Period size: 81 Copynumber: 2.9 Consensus size: 81
55780258 AGGGGTATAA
* *
55780268 CAGTCATTTTATCCTGT-GGGGGTATTACAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTT
1 CAGTCATTTTA-CCT-TCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTT
55780332 -CCCATTC-AAGGGTATTT
64 ACCCATTCGAA-GGTATTT
** * *
55780349 CAGTCATTTTACCTTTCGAGGGTATTTTGGTCATTGTACCCTTCGAGGGTATTTCGGTCATTTTA
1 CAGTCATTTTACC-TTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTA
55780414 CCC-TTCGAAGGTATTT
65 CCCATTCGAAGGTATTT
* * * *
55780430 CAGTCATTTTACCCTTCGAAGGTATTTCAGTCATTTTACCCTTTGAGAGTATTTTGATCATTTTA
1 CAGTCATTTTA-CCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTA
55780495 CCCATT
65 CCCATT
55780501 TTCGCCGATC
Statistics
Matches: 132, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
80 3 0.02
81 120 0.91
82 9 0.07
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (81 bp):
CAGTCATTTTACCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTAC
CCATTCGAAGGTATTT
Found at i:55786553 original size:25 final size:25
Alignment explanation
Indices: 55786497--55786597 Score: 94
Period size: 25 Copynumber: 4.0 Consensus size: 25
55786487 CTCTTCCGAA
* * *
55786497 CTAAATAACGTGAAGCTCATGCAAG
1 CTAAATAACGGGAAGCTCATACGAG
* * *
55786522 TTGAATAACGGAAAGCTCATACGAG
1 CTAAATAACGGGAAGCTCATACGAG
* * *
55786547 CTAAATAATGGGAAGGTCATGCGAG
1 CTAAATAACGGGAAGCTCATACGAG
* * *
55786572 CTAAGTATCGGGAAGCTCATAAGAG
1 CTAAATAACGGGAAGCTCATACGAG
55786597 C
1 C
55786598 CGTGGTGTGT
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (25 bp):
CTAAATAACGGGAAGCTCATACGAG
Found at i:55787278 original size:24 final size:24
Alignment explanation
Indices: 55787221--55787301 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
55787211 AAATTGAAGC
*
55787221 ATACTCATCAAAGGCAAAACCTTA
1 ATACTCATCAATGGCAAAACCTTA
*
55787245 ATAC-CGATCAATGGCAAAACTTTA
1 ATACTC-ATCAATGGCAAAACCTTA
* * *
55787269 ATACTCATCATTGGAAAAACCCTA
1 ATACTCATCAATGGCAAAACCTTA
55787293 ATACTCATC
1 ATACTCATC
55787302 CCCAAGTTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.02
24 47 0.96
25 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (24 bp):
ATACTCATCAATGGCAAAACCTTA
Found at i:55787732 original size:13 final size:13
Alignment explanation
Indices: 55787723--55787748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55787713 AATTTTCTTA
55787723 ACGAAATTTCTGT
1 ACGAAATTTCTGT
55787736 ACGAAATTTCTGT
1 ACGAAATTTCTGT
55787749 CATACTGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
ACGAAATTTCTGT
Found at i:55794747 original size:9 final size:9
Alignment explanation
Indices: 55794733--55794762 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
55794723 ATTAAAGTAT
55794733 TAATTAAAC
1 TAATTAAAC
55794742 TAATTAAAC
1 TAATTAAAC
*
55794751 TAATTAATC
1 TAATTAAAC
55794760 TAA
1 TAA
55794763 ACGAACCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAC
Found at i:55798861 original size:20 final size:21
Alignment explanation
Indices: 55798823--55798861 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
55798813 TTGCTATTTG
* *
55798823 TTTTTGTTTTGTTATTTGAGA
1 TTTTTGTTTTCTTAGTTGAGA
55798844 TTTTT-TTTTCTTAGTTGA
1 TTTTTGTTTTCTTAGTTGA
55798862 TAAAAACCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.13, C:0.03, G:0.15, T:0.69
Consensus pattern (21 bp):
TTTTTGTTTTCTTAGTTGAGA
Found at i:55806609 original size:12 final size:11
Alignment explanation
Indices: 55806585--55806619 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
55806575 TTTCAACAAG
55806585 TTTTCC-TTCA
1 TTTTCCTTTCA
55806595 TTTTCCTTGTCA
1 TTTTCCTT-TCA
55806607 TTTTCCTTTCA
1 TTTTCCTTTCA
55806618 TT
1 TT
55806620 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:55814668 original size:34 final size:35
Alignment explanation
Indices: 55814624--55814691 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
55814614 GCACAGTTGA
* *
55814624 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATTACAGTATCAGTG
*
55814659 ACAGT-TTGGGCCTTAGCCCATTACAGTATCAGT
1 ACAGTCTTGGGCCTAAGCCCATTACAGTATCAGT
55814692 AGCAATAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (35 bp):
ACAGTCTTGGGCCTAAGCCCATTACAGTATCAGTG
Found at i:55820857 original size:49 final size:50
Alignment explanation
Indices: 55820701--55820941 Score: 322
Period size: 50 Copynumber: 4.7 Consensus size: 50
55820691 GATAATAACA
* ** *
55820701 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
55820752 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
55820802 TGCCAACGCCATGTCCCAGACATGGTCTTACA-CGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
55820851 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGCTCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA---TCTC--GG
*
55820906 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
55820942 ATCTCTTTAC
Statistics
Matches: 170, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
49 48 0.28
50 49 0.29
51 33 0.19
53 4 0.02
55 2 0.01
56 34 0.20
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55820874 original size:99 final size:102
Alignment explanation
Indices: 55820700--55820947 Score: 322
Period size: 99 Copynumber: 2.4 Consensus size: 102
55820690 TGATAATAAC
* ** * * *
55820700 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACA-CGGA-CCTCTCATCTCGGTGCCAACGCCATG
*
55820765 TCCCAGACATGGTCTTATAGGGGACCTCTCA-TCTC-GG
64 TCCCAGACATGGTCTTACAGGGGACCTCTCACTCTCAGG
*
55820802 -TGCCAACGCCATGTCCCAGACATGGTCTTACACGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACACGGACCTCTCATCTCGGTGCCAACGCCATGTC
*
55820866 CCAGACATGGTCTTACATGGGACCTCTCATGCTCTCAAGG
66 CCAGACATGGTCTTACAGGGGACCTCTCA--CTCTC-AGG
* * *
55820906 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACACGGACCTCT
55820948 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
99 50 0.39
100 3 0.02
101 31 0.24
102 4 0.03
104 2 0.02
105 38 0.30
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (102 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACACGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCACTCTCAGG
Found at i:55821307 original size:30 final size:30
Alignment explanation
Indices: 55821272--55821329 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55821262 CCTCGACTCT
*
55821272 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
55821302 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
55821330 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:55827486 original size:50 final size:50
Alignment explanation
Indices: 55827371--55827619 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
55827361 GATAATAACA
* **
55827371 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
55827422 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
55827472 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
55827522 TGCCAACGCCATGTCCCAGACATGTTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* * *
55827577 ATGCCAATGCCATGTTCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55827620 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
50 95 0.55
51 33 0.19
53 5 0.03
55 2 0.01
56 38 0.22
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55828007 original size:29 final size:31
Alignment explanation
Indices: 55827957--55828014 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
55827947 CCTCGACTCT
* *
55827957 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTATCATTTTTGCCCCTA
*
55827987 AACTTTTGCATAATTA-CATTTTTGCCCC
1 AACTTTTGCAAAATTATCATTTTTGCCCC
55828015 AAGGCACGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTTTTGCAAAATTATCATTTTTGCCCCTA
Found at i:55830740 original size:18 final size:19
Alignment explanation
Indices: 55830717--55830755 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
55830707 TTTAACCCTT
*
55830717 AATCCC-CAAACTCTCTTA
1 AATCCCTCAAACCCTCTTA
*
55830735 AATCCCTCAGACCCTCTTA
1 AATCCCTCAAACCCTCTTA
55830754 AA
1 AA
55830756 CTCTAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.33, C:0.38, G:0.03, T:0.26
Consensus pattern (19 bp):
AATCCCTCAAACCCTCTTA
Found at i:55832100 original size:18 final size:19
Alignment explanation
Indices: 55832069--55832105 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
55832059 AAAGAGAAGA
55832069 TGAGGAGAATGATG-GGAG
1 TGAGGAGAATGATGAGGAG
55832087 TGAGGAG-ATGGATGAGGAG
1 TGAGGAGAAT-GATGAGGAG
55832106 GACGATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 11 0.65
19 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (19 bp):
TGAGGAGAATGATGAGGAG
Found at i:55838447 original size:25 final size:25
Alignment explanation
Indices: 55838417--55838514 Score: 169
Period size: 25 Copynumber: 3.9 Consensus size: 25
55838407 GGGAGTTTAG
55838417 AGTGCTCTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
*
55838442 AATGCTCTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
*
55838467 AGTGCTTTCTGATTACTAGCACGTC
1 AGTGCTCTCTGATTACTAGCACGTC
*
55838492 AGTGCTCTTTGATTACTAGCACG
1 AGTGCTCTCTGATTACTAGCACG
55838515 CTCTCTATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (25 bp):
AGTGCTCTCTGATTACTAGCACGTC
Found at i:55838539 original size:22 final size:22
Alignment explanation
Indices: 55838514--55838569 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
55838504 TTACTAGCAC
*
55838514 GCTCTCTATTTAGCACATTT-GT
1 GCTCTCTGTTTAGCAC-TTTAGT
*
55838536 GCTCTCTGTATAGCACTTTAGT
1 GCTCTCTGTTTAGCACTTTAGT
55838558 GCTCTCTGTTTA
1 GCTCTCTGTTTA
55838570 ATAGTGCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACTTTAGT
Found at i:55839880 original size:47 final size:48
Alignment explanation
Indices: 55839829--55839948 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 48
55839819 GATTTCCGTA
*
55839829 TAAGACCATAGTTGGGCTATGGCATCGG-TGTGATATGTG-CTACTGTG
1 TAAGACCATAGTTGGGCTATGGCATCGGATGTGATATGTGACTAC-ATG
* * *
55839876 TAAGACCATAGTTGGGCTATGACATCGGTATGTGTTATGTGATTACATG
1 TAAGACCATAGTTGGGCTATGGCATCGG-ATGTGATATGTGACTACATG
*
55839925 TAAGACCATAGTTGGACTATGGCA
1 TAAGACCATAGTTGGGCTATGGCA
55839949 ATGTGAAAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
47 27 0.42
49 34 0.53
50 3 0.05
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (48 bp):
TAAGACCATAGTTGGGCTATGGCATCGGATGTGATATGTGACTACATG
Found at i:55846755 original size:9 final size:9
Alignment explanation
Indices: 55846741--55846777 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
55846731 AATACGAAAT
55846741 AATAATAAA
1 AATAATAAA
55846750 AATAATAAA
1 AATAATAAA
* *
55846759 TATAATAGA
1 AATAATAAA
55846768 AATAATAAA
1 AATAATAAA
55846777 A
1 A
55846778 GTAAAGGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
AATAATAAA
Found at i:55846765 original size:18 final size:19
Alignment explanation
Indices: 55846737--55846776 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
55846727 TAATAATACG
55846737 AAATAATAATAAAAATAAT
1 AAATAATAATAAAAATAAT
*
55846756 AAAT-ATAATAGAAATAAT
1 AAATAATAATAAAAATAAT
55846774 AAA
1 AAA
55846777 AGTAAAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATAATAATAAAAATAAT
Found at i:55855316 original size:60 final size:56
Alignment explanation
Indices: 55855252--55855397 Score: 143
Period size: 60 Copynumber: 2.5 Consensus size: 56
55855242 CGTCAACATG
*
55855252 CCTTTTCATTTTTCGATGGTCGTCACCATCTCTTCTCATAATTTGATAG-CTGAAGCTATC
1 CCTTTTCATATTTCGATGGTCGTCACC-T-T-TTC-CATAATTTGATAGTC-GAAGCTATC
* * * *
55855312 CCTTTTCATAGTTCGATAGCTAAAGTCATCCTTTTCCATAGTTTGATAGTCGAAGCTATC
1 CCTTTTCATATTTCGAT-GGT--CGTCA-CCTTTTCCATAATTTGATAGTCGAAGCTATC
55855372 CCTTTTCATAGTTT-GATGGTCGTCAC
1 CCTTTTCATA-TTTCGATGGTCGTCAC
55855398 TATCCCTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
56 1 0.01
57 4 0.06
59 2 0.03
60 49 0.68
61 8 0.11
62 1 0.01
63 5 0.07
64 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (56 bp):
CCTTTTCATATTTCGATGGTCGTCACCTTTTCCATAATTTGATAGTCGAAGCTATC
Found at i:55855330 original size:30 final size:30
Alignment explanation
Indices: 55855287--55855497 Score: 136
Period size: 30 Copynumber: 7.1 Consensus size: 30
55855277 CCATCTCTTC
* *
55855287 TCATAATTTGATAGCTGAAGCTATCCCTTT
1 TCATAGTTCGATAGCTGAAGCTATCCCTTT
*
55855317 TCATAGTTCGATAGCTAAAG-TCAT-CCTTT
1 TCATAGTTCGATAGCTGAAGCT-ATCCCTTT
*
55855346 TCCATAGTTTGATAG-TCGAAGCTATCCCTTT
1 T-CATAGTTCGATAGCT-GAAGCTATCCCTTT
* * *
55855377 TCATAGTTTGAT-GGTCGTCA-CTATCCCTTT
1 TCATAGTTCGATAGCT-G-AAGCTATCCCTTT
* * * * *
55855407 TCATTGTT-AATGGTCAT-CA-CCATCCCTTT
1 TCATAGTTCGATAG-C-TGAAGCTATCCCTTT
* *
55855436 TCATA-ATCGATAGCGGAAGCTATCCCTTT
1 TCATAGTTCGATAGCTGAAGCTATCCCTTT
* * *
55855465 TCGTA-TTCGATAACTGAAGCTATCCTTTT
1 TCATAGTTCGATAGCTGAAGCTATCCCTTT
55855494 TCAT
1 TCAT
55855498 TTGTCGATGA
Statistics
Matches: 145, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
28 3 0.02
29 65 0.45
30 68 0.47
31 8 0.06
32 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (30 bp):
TCATAGTTCGATAGCTGAAGCTATCCCTTT
Found at i:55855431 original size:29 final size:30
Alignment explanation
Indices: 55855369--55855440 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
55855359 AGTCGAAGCT
* * *
55855369 ATCCCTTTTCATAGTTTGATGGTCGTCACT
1 ATCCCTTTTCATAGTTTAATGGTCATCACC
*
55855399 ATCCCTTTTCATTG-TTAATGGTCATCACC
1 ATCCCTTTTCATAGTTTAATGGTCATCACC
55855428 ATCCCTTTTCATA
1 ATCCCTTTTCATA
55855441 ATCGATAGCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTAATGGTCATCACC
Found at i:55855460 original size:29 final size:29
Alignment explanation
Indices: 55855428--55855497 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
55855418 GGTCATCACC
*
55855428 ATCCCTTTTCATAATCGATAGCGGAAGCT
1 ATCCCTTTTCATAATCGATAACGGAAGCT
* * *
55855457 ATCCCTTTTCGTATTCGATAACTGAAGCT
1 ATCCCTTTTCATAATCGATAACGGAAGCT
*
55855486 ATCCTTTTTCAT
1 ATCCCTTTTCAT
55855498 TTGTCGATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAACGGAAGCT
Found at i:55859785 original size:42 final size:42
Alignment explanation
Indices: 55859738--55859854 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
55859728 TCTTAAACCG
* * * *
55859738 TGTAACTCACTGATTTAGGTCACACGGCTGTGT-CATAGGCCA
1 TGTAACTCACTAACTTAGGTCACACGGCCGTGTGC-TAGACCA
* * *
55859780 TGTAACTCTCTAACTTATGTCACACGGCCGTGTGCTAGACTA
1 TGTAACTCACTAACTTAGGTCACACGGCCGTGTGCTAGACCA
* * *
55859822 TGTAACTCATTGACTTA-ATACACACGGCCGTGT
1 TGTAACTCACTAACTTAGGT-CACACGGCCGTGT
55859855 CTTAGACTGC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (42 bp):
TGTAACTCACTAACTTAGGTCACACGGCCGTGTGCTAGACCA
Found at i:55861323 original size:27 final size:27
Alignment explanation
Indices: 55861290--55861383 Score: 82
Period size: 27 Copynumber: 3.5 Consensus size: 27
55861280 ACATAAGGCC
* *
55861290 ATAACAGTCATTTCATCTCCTAGGGGT
1 ATAACAGTCATTTCACCTCATAGGGGT
* *
55861317 ATAACAGTCATTTTACCTTATAGGGGT
1 ATAACAGTCATTTCACCTCATAGGGGT
** * *
55861344 ATTTCAGTCATTTTACC-CTATGGGGGT
1 ATAACAGTCATTTCACCTC-ATAGGGGT
**
55861371 ATTTCAGTCATTT
1 ATAACAGTCATTT
55861384 TACCCTATGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
ATAACAGTCATTTCACCTCATAGGGGT
Found at i:55861356 original size:54 final size:53
Alignment explanation
Indices: 55861294--55861410 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 53
55861284 AAGGCCATAA
*
55861294 CAGTCATTTCATCTCCTA-GGGGTATAACAGTCATTTTACCTTATAGGGGTATTT
1 CAGTCATTTCA-C-CCTAGGGGGTATAACAGTCATTTTACCCTATAGGGGTATTT
* ** *
55861348 CAGTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTCACCCTA-GGGGGTATAACAGTCATTTTACCCTATAGGGGTATTT
55861402 C-GATCATTT
1 CAG-TCATTT
55861411 TACCTATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
52 4 0.07
53 2 0.04
54 49 0.89
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (53 bp):
CAGTCATTTCACCCTAGGGGGTATAACAGTCATTTTACCCTATAGGGGTATTT
Found at i:55861417 original size:26 final size:27
Alignment explanation
Indices: 55861312--55861414 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
55861302 TCATCTCCTA
** * *
55861312 GGGGTATAACAGTCATTTTACCTTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
55861339 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
55861366 GGGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
55861393 GGGGTATTTC-GATCATTTTACC
1 GGGGTATTTCAG-TCATTTTACC
55861415 TATTTTAGGG
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.01
27 70 0.99
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:55861673 original size:17 final size:18
Alignment explanation
Indices: 55861642--55861677 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
55861632 TTCATTCGTG
*
55861642 TGAGACCCACGAGCCCAT
1 TGAGACCCACAAGCCCAT
55861660 TGAG-CCCACAAGCCCAT
1 TGAGACCCACAAGCCCAT
55861677 T
1 T
55861678 TTGGCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.28, C:0.39, G:0.19, T:0.14
Consensus pattern (18 bp):
TGAGACCCACAAGCCCAT
Found at i:55870811 original size:21 final size:20
Alignment explanation
Indices: 55870779--55870820 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
55870769 GTCTGATGTC
*
55870779 GTGACAATGAAGGTCGGTTTT
1 GTGACAATGAAGG-CAGTTTT
55870800 GTGAC-ATCGAAGGCAGTTTT
1 GTGACAAT-GAAGGCAGTTTT
55870820 G
1 G
55870821 CTCCAGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.12, G:0.33, T:0.31
Consensus pattern (20 bp):
GTGACAATGAAGGCAGTTTT
Found at i:55873170 original size:170 final size:170
Alignment explanation
Indices: 55872882--55873229 Score: 687
Period size: 170 Copynumber: 2.0 Consensus size: 170
55872872 ATTGATCTCT
*
55872882 CAAATCTTGTTACGAATGAAGTAAGTTCCTCCGACTAAGGATGATGTACCTAAACCTTAGCAATT
1 CAAATGTTGTTACGAATGAAGTAAGTTCCTCCGACTAAGGATGATGTACCTAAACCTTAGCAATT
55872947 TGAGTTGAAGTATTAAAGCAAATGGACTAAAGGAAAATATGTTACATCAGAGAGTCTGAGGCTGA
66 TGAGTTGAAGTATTAAAGCAAATGGACTAAAGGAAAATATGTTACATCAGAGAGTCTGAGGCTGA
55873012 TGAAGAAGAGGAAAGATCTGAATCTTGTTCATAATAGAAG
131 TGAAGAAGAGGAAAGATCTGAATCTTGTTCATAATAGAAG
55873052 CAAATGTTGTTACGAATGAAGTAAGTTCCTCCGACTAAGGATGATGTACCTAAACCTTAGCAATT
1 CAAATGTTGTTACGAATGAAGTAAGTTCCTCCGACTAAGGATGATGTACCTAAACCTTAGCAATT
55873117 TGAGTTGAAGTATTAAAGCAAATGGACTAAAGGAAAATATGTTACATCAGAGAGTCTGAGGCTGA
66 TGAGTTGAAGTATTAAAGCAAATGGACTAAAGGAAAATATGTTACATCAGAGAGTCTGAGGCTGA
55873182 TGAAGAAGAGGAAAGATCTGAATCTTGTTCATAATAGAAG
131 TGAAGAAGAGGAAAGATCTGAATCTTGTTCATAATAGAAG
55873222 CAAATGTT
1 CAAATGTT
55873230 CCTCCAGTTC
Statistics
Matches: 177, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 177 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (170 bp):
CAAATGTTGTTACGAATGAAGTAAGTTCCTCCGACTAAGGATGATGTACCTAAACCTTAGCAATT
TGAGTTGAAGTATTAAAGCAAATGGACTAAAGGAAAATATGTTACATCAGAGAGTCTGAGGCTGA
TGAAGAAGAGGAAAGATCTGAATCTTGTTCATAATAGAAG
Found at i:55876585 original size:10 final size:11
Alignment explanation
Indices: 55876553--55876587 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
55876543 ATTTGCAGAC
55876553 AATGAAAGGAA
1 AATGAAAGGAA
55876564 AATGACAAGGAA
1 AATGA-AAGGAA
55876576 AATG-AAGGAA
1 AATGAAAGGAA
55876586 AA
1 AA
55876588 CTTGTTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 5 0.22
12 10 0.43
ACGTcount: A:0.63, C:0.03, G:0.26, T:0.09
Consensus pattern (11 bp):
AATGAAAGGAA
Found at i:55884059 original size:46 final size:43
Alignment explanation
Indices: 55884007--55884240 Score: 226
Period size: 37 Copynumber: 5.6 Consensus size: 43
55883997 TTTGAGTACT
**
55884007 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG---TAGCTACACTTA
55884053 TCTGATCAAGAAACAAAGTGATAAGT-G--GT---TACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
*
55884090 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTTTTAGCTGCACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG---TAGCTACACTTA
55884136 TCTGATCAAGAAACAAAGTGATAA---GT-G--GCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
****
55884173 TCTGATCAAGTGGTAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTAG--TAGCTACACTTA
*
55884218 TCTGATCAAG-GAC-AAGTGATAAG
1 TCTGATCAAGAAACAAAGTGATAAG
55884241 AGGTCATATG
Statistics
Matches: 161, Mismatches: 10, Indels: 37
0.77 0.05 0.18
Matches are distributed among these distances:
37 63 0.39
38 1 0.01
40 4 0.02
41 1 0.01
42 1 0.01
43 14 0.09
44 1 0.01
45 21 0.13
46 55 0.34
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTAGTAGCTACACTTA
Found at i:55884111 original size:83 final size:83
Alignment explanation
Indices: 55884007--55884240 Score: 366
Period size: 83 Copynumber: 2.9 Consensus size: 83
55883997 TTTGAGTACT
55884007 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
*
55884072 GATAAGTGGTTACACTTA
66 GATAAGTGGCTACACTTA
** *
55884090 TCTGATCAAGAAACAAAGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATCAAGAAACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
55884155 GATAAGTGGCTACACTTA
66 GATAAGTGGCTACACTTA
** ** *
55884173 TCTGATCAAGTGGTAAAGTGATAAGTGGTAG-CCTAGCTACACTTATCTGATCAAG-GAC-AAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
55884235 GATAAG
66 GATAAG
55884241 AGGTCATATG
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 10 0.07
81 2 0.01
82 21 0.15
83 106 0.76
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (83 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGAAACAAAGT
GATAAGTGGCTACACTTA
Found at i:55887516 original size:9 final size:9
Alignment explanation
Indices: 55887479--55887508 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
55887469 AAACTAATAA
*
55887479 ATTATTATT
1 ATTAATATT
55887488 ATTAATATT
1 ATTAATATT
55887497 ATTAATATT
1 ATTAATATT
55887506 ATT
1 ATT
55887509 GTTATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTAATATT
Found at i:55891181 original size:42 final size:42
Alignment explanation
Indices: 55891072--55891232 Score: 116
Period size: 42 Copynumber: 3.8 Consensus size: 42
55891062 AAAACTCGTA
* * *
55891072 CAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAATAT
1 CAATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAATAT
* * *
55891114 CGATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAAATAT
1 CAATGCCACTGTCCCAGACATGGTCTTACACGAAATC-AATAT
* * *
55891157 -AATGCCGA-TGTCTCAGACATGGTCTTATACATAAATCTCAA-AT
1 CAATGCC-ACTGTCCCAGACATGGTCTTACAC-GAAA--TCAATAT
* **
55891200 CGATGCCAAC-GTCCCAGATGTGGTCTTACACGA
1 CAATGCC-ACTGTCCCAGACATGGTCTTACACGA
55891233 TAACACATAT
Statistics
Matches: 92, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
41 2 0.02
42 51 0.55
43 12 0.13
44 25 0.27
45 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
CAATGCCACTGTCCCAGACATGGTCTTACACGAAATCAATAT
Found at i:55892190 original size:27 final size:26
Alignment explanation
Indices: 55892135--55892190 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
55892125 TTTTATAATA
** *
55892135 ATAACTTTATAATATAATAAATTATT
1 ATAACTTTATAATATAATAAAAAACT
55892161 ATAACCTTTATAA-ATAATATAAAAACT
1 ATAA-CTTTATAATATAATA-AAAAACT
55892188 ATA
1 ATA
55892191 TATTATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAACTTTATAATATAATAAAAAACT
Found at i:55893113 original size:31 final size:30
Alignment explanation
Indices: 55893057--55893114 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
55893047 GTAAATTCTC
***
55893057 AAAATTTGAAGGGTTAAAGTGTAAATACAA
1 AAAATTTGAAGGACCAAAGTGTAAATACAA
55893087 AAAATTTGAAGGACCAAAGGTGTAAATA
1 AAAATTTGAAGGACCAAA-GTGTAAATA
55893115 TTTTAAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATACAA
Found at i:55894471 original size:28 final size:28
Alignment explanation
Indices: 55894427--55894490 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
55894417 ATATAATAAT
55894427 TATATTTTTTTATTTTTTA-TTTTAAAA
1 TATATTTTTTTATTTTTTATTTTTAAAA
*
55894454 TATATTTTTTTATTTTTTATTTTTTAAA
1 TATATTTTTTTATTTTTTATTTTTAAAA
*
55894482 TAAATTTTT
1 TATATTTTT
55894491 GGTATTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (28 bp):
TATATTTTTTTATTTTTTATTTTTAAAA
Found at i:55897715 original size:18 final size:18
Alignment explanation
Indices: 55897681--55897715 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55897671 TGTTGAAATG
*
55897681 GTATCGATGTTTATTTAA
1 GTATCGATATTTATTTAA
*
55897699 GTATCGATATTTTTTTA
1 GTATCGATATTTATTTA
55897716 TCGATACCAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (18 bp):
GTATCGATATTTATTTAA
Found at i:55901510 original size:24 final size:24
Alignment explanation
Indices: 55901467--55901513 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
55901457 CCATCTGCTT
*
55901467 CTGATATGTATGATATGAGATGAA
1 CTGATATGAATGATATGAGATGAA
55901491 CTGATATGAAGTGATA-GAGATGA
1 CTGATATGAA-TGATATGAGATGA
55901514 GGAGATACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (24 bp):
CTGATATGAATGATATGAGATGAA
Found at i:55903472 original size:33 final size:33
Alignment explanation
Indices: 55903399--55903475 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
55903389 GCTAATGTGC
* *
55903399 TTGATTTCCAACAGCAGATACAATGACAAATTG
1 TTGATTTCCAACAGCAAATACAATGACAAATCG
* *
55903432 TTAATTTCCAACAGCAAATACAATGGCAAACTCG
1 TTGATTTCCAACAGCAAATACAATGACAAA-TCG
55903466 -TGATTTCCAA
1 TTGATTTCCAA
55903476 AAGGAAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 36 0.95
34 2 0.05
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (33 bp):
TTGATTTCCAACAGCAAATACAATGACAAATCG
Found at i:55908479 original size:23 final size:23
Alignment explanation
Indices: 55908452--55908550 Score: 180
Period size: 23 Copynumber: 4.3 Consensus size: 23
55908442 AGTGTTATTG
55908452 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55908475 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55908498 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55908521 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55908544 ATCAGTG
1 ATCAGTG
55908551 TGGCACTTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55908722 original size:38 final size:37
Alignment explanation
Indices: 55908680--55908752 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
55908670 ATGTGTGGAA
* *
55908680 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
55908718 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
55908753 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:55914593 original size:27 final size:27
Alignment explanation
Indices: 55914555--55914682 Score: 161
Period size: 27 Copynumber: 4.7 Consensus size: 27
55914545 GTGAGGTCAA
*
55914555 TAAAATAATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
*
55914582 TAAAATGATCGAAATACCCTTATAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
* * *
55914609 TAAAATAACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCTATAGGG
*
55914636 TAAAATGAGT-GAAATA-CCCTGATATGG
1 TAAAATGA-TCGAAATACCCCT-ATAGGG
*
55914663 TAAAATGACCGAAATACCCC
1 TAAAATGATCGAAATACCCC
55914683 CATAAGTTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
26 3 0.03
27 80 0.93
28 3 0.03
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCTATAGGG
Found at i:55914637 original size:54 final size:54
Alignment explanation
Indices: 55914555--55914695 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
55914545 GTGAGGTCAA
* * *
55914555 TAAAATAATCGAAATACCCCTATAGGGTAAAATGA-TCGAAATACCCTTATAGGG
1 TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGT-GAAATACCCTGATAGGG
*
55914609 TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGTGAAATACCCTGATATGG
1 TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGTGAAATACCCTGATAGGG
* * *
55914663 TAAAATGACCGAAATACCCCCATAAGTTAAAAT
1 TAAAATAACCGAAATACCCCCATAGGGTAAAAT
55914696 AACTGTTATA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (54 bp):
TAAAATAACCGAAATACCCCCATAGGGTAAAATGAGTGAAATACCCTGATAGGG
Found at i:55914925 original size:26 final size:26
Alignment explanation
Indices: 55914872--55914926 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
55914862 TCTGGCACAT
* *
55914872 ATACTGTTACTGGCAGCTTTGTTACG
1 ATACTGATACTGGCAGCTTTGCTACG
*
55914898 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTACG
55914924 ATA
1 ATA
55914927 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTACG
Found at i:55922039 original size:27 final size:27
Alignment explanation
Indices: 55921977--55922053 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
55921967 GTGAGGTTGA
**
55921977 TAAAATGACCGAAATACCCCTATAGGG
1 TAAAATGATTGAAATACCCCTATAGGG
* *
55922004 CAAAATGATTGAAATACCCTTATAGGG
1 TAAAATGATTGAAATACCCCTATAGGG
**
55922031 TAAAATGATTGTTATACCCCTAT
1 TAAAATGATTGAAATACCCCTAT
55922054 GAGATTAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
TAAAATGATTGAAATACCCCTATAGGG
Found at i:55922430 original size:33 final size:34
Alignment explanation
Indices: 55922365--55922435 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
55922355 GCATTATTAC
* * * *
55922365 ACTGTTACTGTATTGGGCTAAGGCCTACACTG-T
1 ACTGATACTGAATAGGGCTAAGGCCCACACTGTT
* *
55922398 ACTGATACTGAATAGGGCTCAGGCCCAGACTGTT
1 ACTGATACTGAATAGGGCTAAGGCCCACACTGTT
55922432 ACTG
1 ACTG
55922436 CATGTTGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGATACTGAATAGGGCTAAGGCCCACACTGTT
Found at i:55929219 original size:13 final size:13
Alignment explanation
Indices: 55929201--55929225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55929191 AATCCAAATT
55929201 TATTTTTATTTTC
1 TATTTTTATTTTC
55929214 TATTTTTATTTT
1 TATTTTTATTTT
55929226 ATTTTATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTATTTTC
Found at i:55931947 original size:19 final size:20
Alignment explanation
Indices: 55931925--55931963 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
55931915 TCTCAATTTT
*
55931925 ATTTC-TTTTTACAATTTCG
1 ATTTCATTTATACAATTTCG
55931944 ATTTCAATTTATACAATTTC
1 ATTTC-ATTTATACAATTTC
55931964 AACCCCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.15, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTCATTTATACAATTTCG
Found at i:55942522 original size:17 final size:17
Alignment explanation
Indices: 55942500--55942544 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
55942490 TTATAACTAT
55942500 TTATATATATCATCTTA
1 TTATATATATCATCTTA
55942517 TTATATATTAT-ATCTTA
1 TTATATA-TATCATCTTA
55942534 TTATATATATC
1 TTATATATATC
55942545 TATATATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATATCATCTTA
Found at i:55942538 original size:34 final size:36
Alignment explanation
Indices: 55942478--55942544 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 36
55942468 ATTGGTCCTA
55942478 TTATTATTACTATTATAACTATTTATATATATCATC
1 TTATTATTACTATTATAACTATTTATATATATCATC
*
55942514 TTATTA-TA-TATTATATCT-TATTATATATATC
1 TTATTATTACTATTATAACTAT-TTATATATATC
55942545 TATATATCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 1 0.03
34 20 0.69
35 2 0.07
36 6 0.21
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (36 bp):
TTATTATTACTATTATAACTATTTATATATATCATC
Found at i:55942710 original size:30 final size:29
Alignment explanation
Indices: 55942675--55942731 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
55942665 TTTTATATAT
*
55942675 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
55942705 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
55942732 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:55946938 original size:10 final size:10
Alignment explanation
Indices: 55946917--55946997 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
55946907 ACAATAGAGG
55946917 CAAAATAAAAA
1 CAAAA-AAAAA
55946928 CAAAAAAAAA
1 CAAAAAAAAA
* *
55946938 CAAAAAAGAG
1 CAAAAAAAAA
* *
55946948 CAAAAAAGAG
1 CAAAAAAAAA
55946958 CAAAAAAACAA
1 CAAAAAAA-AA
55946969 -AAAACAAAAA
1 CAAAA-AAAAA
55946979 -AAATAAAAAA
1 CAAA-AAAAAA
55946989 CAAAAAAAA
1 CAAAAAAAA
55946998 CTCTACCGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
10 49 0.79
11 13 0.21
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:55946942 original size:9 final size:9
Alignment explanation
Indices: 55946923--55946998 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
55946913 GAGGCAAAAT
55946923 AAAAACAAAA
1 AAAAAC-AAA
55946933 AAAAACAAA
1 AAAAACAAA
*
55946942 AAAGAGCAAA
1 AAA-AACAAA
*
55946952 AAAGAGC-AA
1 AAA-AACAAA
55946961 AAAAAC--A
1 AAAAACAAA
55946968 AAAAAC-AA
1 AAAAACAAA
*
55946976 AAAAA-ATA
1 AAAAACAAA
55946984 AAAAACAAA
1 AAAAACAAA
55946993 AAAAAC
1 AAAAAC
55946999 TCTACCGGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
7 7 0.12
8 14 0.24
9 19 0.33
10 18 0.31
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (9 bp):
AAAAACAAA
Found at i:55948000 original size:108 final size:108
Alignment explanation
Indices: 55947811--55948007 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 108
55947801 TCCCATTTTG
* *
55947811 TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGGGCTTTGCTCTCAATAAATTTCCATCT
1 TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
55947876 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
66 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
* *
55947919 TAGCAAAATTTGCTATCTTGATTGATTTATTT-GTTTAGAGCTTTGCTCTCAACAAAATTT-CAT
1 TAGCAAAATTTGCTATCTTGATTAATTT-TTTCATTTAGAGCTTTGCTCTCAA-AAAATTTCCAT
* * *
55947982 CTTGTCCATTTTGCTAATCTTTTTCA
64 CTTATCCATTGTGATAATCTTTTTCA
55948008 AGCGTTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
108 71 0.89
109 9 0.11
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.48
Consensus pattern (108 bp):
TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
Found at i:55948968 original size:46 final size:46
Alignment explanation
Indices: 55948901--55949679 Score: 1052
Period size: 46 Copynumber: 16.9 Consensus size: 46
55948891 TAGAAGCAGC
*
55948901 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* * *
55948947 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAAATTGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* * * * *
55948993 AGAACTTGCCTTCCTGTATTTGGTAGCGAAGTAGATCGAAGATTGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
*
55949039 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* *
55949085 AGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATTA-T
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGA-TAGT
* *
55949131 AGATCTTATCTTCATGTATTTGGCAGC-AGAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATAGT
* *
55949177 AGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* * *
55949223 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCAAAGATTA-C
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGA-TAGT
* * * *
55949269 AGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAATATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* * *
55949315 AGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAAT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
*
55949361 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTA-AGTCGAAGATTA-C
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA-TCGAAGA-TAGT
* * *
55949407 AGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* * *
55949453 AGATCTTGTCTTCTTGTATTTGGCAGTGGAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
* * *
55949499 AGATCTTGTCTTCCTGTATTTGGCAGCAAAGTAGGTCGAAGATTA-C
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGA-TAGT
*
55949545 AGATCTTGTCTTCCTGTATTTGGCAGTGGAA-TAGATCGAAGATAGT
1 AGATCTTGTCTTCCTGTATTTGGCAG-CGAAGTAGATCGAAGATAGT
* *
55949591 AGATCTTGTCTTCCTGTATTTGGCAGC-AGAGCAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATAGT
* * *
55949637 AGGTCTTATCTTCCTATATTTGGCAGCGAAGTAGATCGAAGAT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
55949680 TGCAGATTCT
Statistics
Matches: 653, Mismatches: 64, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.00
45 10 0.02
46 630 0.96
47 12 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (46 bp):
AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGT
Found at i:55949149 original size:138 final size:138
Alignment explanation
Indices: 55948898--55949686 Score: 1179
Period size: 138 Copynumber: 5.7 Consensus size: 138
55948888 GACTAGAAGC
* *
55948898 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * ** * * *
55948963 TATTTGGCAGCGGAGTAGATCGAAAATTGTAGAACTTGCCTTCCTGTATTTGGTAGCGAAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
55949028 TCGAAGAT
131 TCGAAGAT
*
55949036 TGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * * * *
55949101 TATTTGGCAGTGGAGTAGATCGAAGATTATAGATCTTATCTTCATGTATTTGGCAGC-AGAGTAG
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAG
55949165 ATCGAAGAT
130 ATCGAAGAT
* *
55949174 AGTAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * * *
55949239 TATTTGGCAGCGAAGTAGGTCAAAGATTACAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
*
55949304 TCGAATAT
131 TCGAAGAT
* *
55949312 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAATAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* *
55949377 TATTTGGCAGCGAAGTA-AGTCGAAGATTACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAG
66 TATTTGGCAGCGAAGTAGA-TCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAG
55949441 ATCGAAGAT
130 ATCGAAGAT
* *
55949450 AGCAGATCTTGTCTTCTTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * *
55949515 TATTTGGCAGCAAAGTAGGTCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGTGGAA-TAG
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAG-CGAAGTAG
55949579 ATCGAAGAT
130 ATCGAAGAT
* * * * * * *
55949588 AGTAGATCTTGTCTTCCTGTATTTGGCAGCAGAGCAGATCGAAGATAGCAGGTCTTATCTTCCTA
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
*
55949653 TATTTGGCAGCGAAGTAGATCGAAGATTGCAGAT
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGAT
55949687 TCTGTCACCC
Statistics
Matches: 598, Mismatches: 48, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
137 1 0.00
138 595 0.99
139 2 0.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (138 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA
TCGAAGAT
Found at i:55950039 original size:128 final size:128
Alignment explanation
Indices: 55949900--55950586 Score: 1088
Period size: 128 Copynumber: 5.4 Consensus size: 128
55949890 TATTTAAGCC
* *
55949900 ATCAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
* * *
55949965 TTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAGCAGTAGTAGAGCAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
55950028 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
*
55950093 TTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * * * *
55950156 ATCAATCCTATCTCTCTGAAGTTGCAATAGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAA
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
** *
55950221 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAAAGTAATGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * *
55950284 ATCAATCCTATCTCCCTGAAGTTACAGTGGGGCGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
*
55950349 TTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* *
55950412 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTTAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
* * * ** * * *
55950477 TTACAGTAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAC-AGAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGAGTAGACGA-AAGAA
*
55950541 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
55950587 GAATCTCGTC
Statistics
Matches: 517, Mismatches: 40, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
128 454 0.88
129 63 0.12
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (128 bp):
ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
Found at i:55950519 original size:41 final size:41
Alignment explanation
Indices: 55949902--55950532 Score: 194
Period size: 44 Copynumber: 14.8 Consensus size: 41
55949892 TTTAAGCCAT
* * * * * *
55949902 CAGTCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCC
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCACA-TC
* *
55949945 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
1 CAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACATC
* ** * *
55949987 TAGTCTTATCTCCCT-AAGCAGTAGTAGAGCAGA-CGAAAGAAAT-
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-----ACATC
* * * * * * *
55950030 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCACATC
* * *
55950072 ACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATC
1 -CAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACATC
* * * *
55950115 AAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGA--A-AT-
1 CAGTCTTATCTCCCT--GAAGT--TGCAGTAGA-G-CAGATCACATC
* * * * * * * *
55950158 CAATCCTATCTCTCTGAAGTTGCAATAGAGCGGATTAAAACC
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCACATC
* * * *
55950200 ACAGATCTTATCTCTCTAAAATTGCAGTAGAGCAGATCGCATC
1 -CAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACATC
* * * *
55950243 AAGTCTTATCTCCCTAAAAAGTAATGGAGTAGACGAAAGA--A-AT-
1 CAGTCTTATCTCCCT--GAAGT--TGCAGTAGA-G-CAGATCACATC
* * * * * * * * *
55950286 CAATCCTATCTCCCTGAAGTTACAGTGGGGCGGATTAAAACCC
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCACA-TC
* *
55950329 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
1 CAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACATC
* * *
55950371 CAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGA--A-AT-
1 CAGTCTTATCTCCCT--GAAGT--TGCAGTAGA-G-CAGATCACATC
* * * * * * * *
55950414 CAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACC
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCACATC
* * *
55950456 ACAGATCTTATCTCTCTTAAGTTACAGTAGAGCAGATCACATC
1 -CAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACATC
*
55950499 TAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
1 CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
55950533 CAGAAGAAAC
Statistics
Matches: 420, Mismatches: 117, Indels: 104
0.66 0.18 0.16
Matches are distributed among these distances:
37 6 0.01
38 3 0.01
39 19 0.05
40 18 0.04
41 90 0.21
42 13 0.03
43 85 0.20
44 151 0.36
45 23 0.05
46 3 0.01
47 9 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCACATC
Done.