Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 379 of 425
Found at i:116526822 original size:25 final size:25
Alignment explanation
Indices: 116526794--116526841 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
116526784 ATATATAAAC
* * *
116526794 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
116526819 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
116526842 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:116542764 original size:40 final size:39
Alignment explanation
Indices: 116542581--116542764 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
116542571 ACGACTCGCT
** * **
116542581 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
116542621 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
116542661 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
116542699 CGAATGTCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
116542740 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
116542765 CATCATTCGA
Statistics
Matches: 113, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 24 0.21
39 19 0.17
40 61 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:116550553 original size:49 final size:49
Alignment explanation
Indices: 116550481--116550624 Score: 200
Period size: 49 Copynumber: 2.9 Consensus size: 49
116550471 GCCGAAGCTA
116550481 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG-
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAGT
* * * *
116550530 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG--T
* *
116550581 TCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
116550625 TCACAATAGA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
48 4 0.05
49 40 0.49
51 38 0.46
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCACAGT
Found at i:116552808 original size:15 final size:15
Alignment explanation
Indices: 116552753--116552816 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
116552743 TAAAGATAAC
*
116552753 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
116552767 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
116552782 GA-AAACCCAGAATA
1 AAGAAATCCAGAATA
116552796 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
116552811 AAGAAA
1 AAGAAA
116552817 CCCAAGATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
14 19 0.46
15 22 0.54
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:116555926 original size:50 final size:49
Alignment explanation
Indices: 116555820--116555946 Score: 166
Period size: 50 Copynumber: 2.6 Consensus size: 49
116555810 CTGGTTCGCA
* * * **
116555820 TAGTAGCCTACACTTAGTACTACTCATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACG
* *
116555869 TAGTAGCCTGCACTTAGTACTACACACGGGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTCTAATACACG
116555919 TAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
116555947 TGATCACAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
49 27 0.39
50 38 0.55
51 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAATACACG
Found at i:116558749 original size:6 final size:6
Alignment explanation
Indices: 116558728--116558837 Score: 82
Period size: 6 Copynumber: 17.8 Consensus size: 6
116558718 TATTAGAACT
* * * *
116558728 AGAATC AAAATG AGAATC AGAATC AGAATC AGGTGAT- AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * *
116558777 AGAATC AGAATT AGGTGAT- AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
116558827 AGAATC AGAAT
1 AGAATC AGAAT
116558838 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 18
0.73 0.12 0.16
Matches are distributed among these distances:
5 6 0.07
6 64 0.78
7 7 0.09
8 5 0.06
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:116558770 original size:19 final size:19
Alignment explanation
Indices: 116558746--116558809 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
116558736 AATGAGAATC
116558746 AGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGGTGAT
116558765 AGAATCAG-A--A--T--T
1 AGAATCAGAATCAGGTGAT
*
116558777 AGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGGTGAT
116558796 AGAATCAGAATCAG
1 AGAATCAGAATCAG
116558810 TATCAGGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
12 9 0.24
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 22 0.59
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (19 bp):
AGAATCAGAATCAGGTGAT
Found at i:116558773 original size:25 final size:25
Alignment explanation
Indices: 116558740--116558837 Score: 106
Period size: 25 Copynumber: 3.7 Consensus size: 25
116558730 AATCAAAATG
116558740 AGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGGTGAT
*
116558765 AGAATCAGAATTAGAATCAGAATTAGGTGAT
1 AGAATC------AGAATCAGAATCAGGTGAT
* * *
116558796 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAT
116558821 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
116558838 GTGAATGCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 37 0.61
31 24 0.39
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAT
Found at i:116558781 original size:31 final size:31
Alignment explanation
Indices: 116558740--116558815 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
116558730 AATCAAAATG
116558740 AGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGTGATAGAATC
* *
116558771 AGAATTAGAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGTGATAGAATC
*
116558802 AGAATCAGTATCAG
1 AGAATCAGAATCAG
116558816 GTAACAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGATAGAATC
Found at i:116558831 original size:31 final size:29
Alignment explanation
Indices: 116558740--116558837 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 29
116558730 AATCAAAATG
116558740 AGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGT-A-AGAATC
* *
116558771 AGAATTAGAATCAGAATTAGGT--G-AT-
1 AGAATCAGAATCAGAATCAGGTAAGAATC
*
116558796 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGT-A-AGAATC
116558827 AGAATCAGAAT
1 AGAATCAGAAT
116558838 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 19 0.34
26 2 0.04
27 1 0.02
29 1 0.02
30 2 0.04
31 31 0.55
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.21
Consensus pattern (29 bp):
AGAATCAGAATCAGAATCAGGTAAGAATC
Found at i:116559024 original size:27 final size:27
Alignment explanation
Indices: 116558989--116559062 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
116558979 CACCAAATAC
*
116558989 AGATATTGTGGCAAAGCCTCCAG-AAT
1 AGATATTGTGGCAAAGCCACCAGAAAT
*
116559015 AGATATTTGTGGCATAGCCACCAGAAAT
1 AGATA-TTGTGGCAAAGCCACCAGAAAT
*
116559043 AGATAATGTGGCAAAGCCAC
1 AGATATTGTGGCAAAGCCAC
116559063 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 29 0.69
28 8 0.19
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
AGATATTGTGGCAAAGCCACCAGAAAT
Found at i:116559217 original size:22 final size:23
Alignment explanation
Indices: 116559189--116559250 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
116559179 GCAAATACGT
*
116559189 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
116559211 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
116559233 TTGGCGCAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
116559251 TAAAATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:116559689 original size:27 final size:27
Alignment explanation
Indices: 116559659--116559748 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
116559649 TACCTCGCAA
* *
116559659 GGGTATCTCGGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
116559686 GGGTGTTTCGGTAATTCTATCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
116559713 GGGTATTTTGATAATTCTACCTTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
116559740 GGGTATTTC
1 GGGTATTTC
116559749 TATAATTTGG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:116559906 original size:81 final size:81
Alignment explanation
Indices: 116559787--116559990 Score: 257
Period size: 81 Copynumber: 2.5 Consensus size: 81
116559777 GTAATTATAT
* * ** *** *
116559787 AAATTAGGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAGGTCGAGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTCAGTAATTTTACAAACCAAGGG
116559851 TATTTTAGTAATTTCAC
65 TATTTTAGTAATTTCAC
** * *
116559868 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTTATTTTATAAACCAAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTACAAACCAAGGGT
*
116559933 ATTTTAGTAATTTTAC
66 ATTTTAGTAATTTCAC
* *
116559949 AAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
116559991 TGGTGATTTG
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 106 0.99
82 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTCAGTAATTTTACAAACCAAGGGT
ATTTTAGTAATTTCAC
Found at i:116559991 original size:81 final size:81
Alignment explanation
Indices: 116559847--116559999 Score: 270
Period size: 81 Copynumber: 1.9 Consensus size: 81
116559837 TTACAGGTCG
* *
116559847 AGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
*
116559912 GTTATTTTATAAACCA
66 GTGATTTTATAAACCA
*
116559928 AGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
116559993 GTGATTT
66 GTGATTT
116560000 GGTAAACTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
GTGATTTTATAAACCA
Found at i:116560006 original size:27 final size:27
Alignment explanation
Indices: 116559792--116559999 Score: 231
Period size: 27 Copynumber: 7.7 Consensus size: 27
116559782 TATATAAATT
* **
116559792 AGGGGTACTTTGGTAATTTTACAAGTC
1 AGGGGTATTTTGGTAATTTTACAAACC
** ***
116559819 -GAGGGTATTTCAGTAATTTTACAGGTC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* * *
116559846 -GAGGGTATTTTAGTAATTTCACAAATC
1 AG-GGGTATTTTGGTAATTTTACAAACC
116559873 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
116559900 AGGGGTATTTTGGTTATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
116559927 AAGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
116559954 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
116559981 AGGGGTATTTTGGTGATTT
1 AGGGGTATTTTGGTAATTT
116560000 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:116561700 original size:18 final size:18
Alignment explanation
Indices: 116561677--116561711 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
116561667 CCCTTGTCCT
* *
116561677 CTAAGGGGAAACAGAAAG
1 CTAAGGGAAAAAAGAAAG
116561695 CTAAGGGAAAAAAGAAA
1 CTAAGGGAAAAAAGAAA
116561712 TCGACTAAGT
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:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (18 bp):
CTAAGGGAAAAAAGAAAG
Found at i:116565718 original size:40 final size:40
Alignment explanation
Indices: 116565639--116565815 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
116565629 CGGATGATAA
* * * * *
116565639 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
116565679 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
116565719 CCGAGCTAAGACCCGAAGGCATTTGTG-TGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
*
116565759 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
116565799 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
116565816 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 97 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:116565777 original size:80 final size:79
Alignment explanation
Indices: 116565639--116565815 Score: 241
Period size: 80 Copynumber: 2.2 Consensus size: 79
116565629 CGGATGATAA
* * *
116565639 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
116565704 TGCTAG-TGATTATAT
65 TGCGAGTTG-TTATAT
* * *
116565719 CCGAGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCG-GCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
116565784 TGCGAGTTGTTATAT
65 TGCGAGTTGTTATAT
116565799 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGA-CCCGAAG
116565816 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 71 0.82
81 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCGAGTTGTTATAT
Found at i:116574048 original size:29 final size:29
Alignment explanation
Indices: 116574015--116574073 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
116574005 TCCTAATTAC
116574015 CCTCACTGATGATTATCCAAGGGTTGAGA
1 CCTCACTGATGATTATCCAAGGGTTGAGA
116574044 CCTCACTGATGATTATCCAAGGGTTGAGA
1 CCTCACTGATGATTATCCAAGGGTTGAGA
116574073 C
1 C
116574074 ATACAGACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (29 bp):
CCTCACTGATGATTATCCAAGGGTTGAGA
Found at i:116590538 original size:48 final size:48
Alignment explanation
Indices: 116590486--116590581 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
116590476 TACTATCATG
116590486 CCAAATTTATAGTGAATAAAATCAACCTATATACATACTCCTAACCAA
1 CCAAATTTATAGTGAATAAAATCAACCTATATACATACTCCTAACCAA
116590534 CCAAATTTATAGTGAATAAAATCAACCTATATACATACTCCTAACCAA
1 CCAAATTTATAGTGAATAAAATCAACCTATATACATACTCCTAACCAA
116590582 TCACTTGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (48 bp):
CCAAATTTATAGTGAATAAAATCAACCTATATACATACTCCTAACCAA
Found at i:116595279 original size:39 final size:39
Alignment explanation
Indices: 116595236--116595395 Score: 266
Period size: 39 Copynumber: 4.1 Consensus size: 39
116595226 ATGCAAGATA
*
116595236 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
116595275 CTGGAAATGTATCTGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
116595314 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
116595353 CAGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
116595392 CTGG
1 CTGG
116595396 TAATATAATT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:116598752 original size:55 final size:56
Alignment explanation
Indices: 116598692--116598817 Score: 200
Period size: 55 Copynumber: 2.3 Consensus size: 56
116598682 TAGGCTTAAG
* * *
116598692 GACTAAATTGAATAAAAGTAAATTTTTAGGGGTAATTTTGT-AAAAATATTAAAAT
1 GACTAAATTGCATAAAAGTAAATTTTTAAGGGCAATTTTGTAAAAAATATTAAAAT
* *
116598747 GACTAAATTGCATAAAGGTAAATTTTTAAGGGCAATTTTGTAAAAAATGTTAAAAT
1 GACTAAATTGCATAAAAGTAAATTTTTAAGGGCAATTTTGTAAAAAATATTAAAAT
116598803 GACTAAATTGCATAA
1 GACTAAATTGCATAA
116598818 GATACATTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
55 37 0.57
56 28 0.43
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (56 bp):
GACTAAATTGCATAAAAGTAAATTTTTAAGGGCAATTTTGTAAAAAATATTAAAAT
Found at i:116599342 original size:26 final size:26
Alignment explanation
Indices: 116599278--116599354 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
116599268 TGAGCAGGCC
* **
116599278 CATTTCCTAGCTCAGGTAAGCATATG
1 CATTTCATAGCTTGGGTAAGCATATG
* * *
116599304 CATTTAACAGCTTGGGTAAGCATATT
1 CATTTCATAGCTTGGGTAAGCATATG
* *
116599330 CATTTCATAGCTTGTGTGAGCATAT
1 CATTTCATAGCTTGGGTAAGCATAT
116599355 ATGTACAGGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (26 bp):
CATTTCATAGCTTGGGTAAGCATATG
Found at i:116606478 original size:27 final size:26
Alignment explanation
Indices: 116606430--116606489 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
116606420 GCGATGCTGC
*
116606430 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
116606457 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
116606483 CAGATAT
1 CAGATAT
116606490 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:116606578 original size:26 final size:27
Alignment explanation
Indices: 116606534--116606587 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
116606524 GCGAGGCTAC
116606534 CAGATATTGTGACGAAGTC-ACCAGAA
1 CAGATATTGTGACGAAGTCTACCAGAA
* *
116606560 CAGATATATGTGGCG-AGTCTGCCAGAA
1 CAGATAT-TGTGACGAAGTCTACCAGAA
116606587 C
1 C
116606588 GCTTCCTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGACGAAGTCTACCAGAA
Found at i:116616512 original size:40 final size:40
Alignment explanation
Indices: 116616457--116616666 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
116616447 AACATTGGAA
116616457 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
116616497 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
116616537 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
116616577 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
116616616 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
116616657 CTATATCCGG
1 ATATATCCGG
116616667 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:116624647 original size:40 final size:40
Alignment explanation
Indices: 116624592--116624801 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
116624582 AACATTGGAA
116624592 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
116624632 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
116624672 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
116624712 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
116624751 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
116624792 CTATATCCGG
1 ATATATCCGG
116624802 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:116626161 original size:16 final size:16
Alignment explanation
Indices: 116626137--116626170 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
116626127 GACGGTCTCG
116626137 GGTTCGGGGTGTTACA
1 GGTTCGGGGTGTTACA
*
116626153 GGTTTGGGGTGTTACA
1 GGTTCGGGGTGTTACA
116626169 GG
1 GG
116626171 AACTCAGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.47, T:0.32
Consensus pattern (16 bp):
GGTTCGGGGTGTTACA
Found at i:116629811 original size:25 final size:25
Alignment explanation
Indices: 116629777--116629825 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
116629767 CATGGCCCAT
116629777 AGCCAAATCAAGGTAGCTCCTCTAG
1 AGCCAAATCAAGGTAGCTCCTCTAG
116629802 AGCCAAATCAAGGTAGCTCCTCTA
1 AGCCAAATCAAGGTAGCTCCTCTA
116629826 AAAATACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (25 bp):
AGCCAAATCAAGGTAGCTCCTCTAG
Found at i:116630739 original size:13 final size:13
Alignment explanation
Indices: 116630721--116630747 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116630711 GTTGGCCGTG
116630721 TGGGACACACAGT
1 TGGGACACACAGT
116630734 TGGGACACACAGT
1 TGGGACACACAGT
116630747 T
1 T
116630748 ATTGGTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (13 bp):
TGGGACACACAGT
Found at i:116636940 original size:47 final size:47
Alignment explanation
Indices: 116636887--116637058 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 47
116636877 ACGAAACTTA
*
116636887 GCCGATGCATGTCCCAGACACGTCTTACACTGACTACCATCATTGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTACCATCATTGAG
* * *
116636934 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-ACTCATC-TCT-AC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTAC-CATCAT-TGAG
* * * * * * * *
116636980 ACCAATGCCATGTCCCAGACATGGTCTTACACAGGCTATCGT-AATGTG
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTACCATCATTGAG
* *
116637028 GCTGATGCATGTCCCAGACACATCTTACACT
1 GCCGATGCATGTCCCAGACACGTCTTACACT
116637059 AGCCCTAGTC
Statistics
Matches: 98, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
46 17 0.17
47 63 0.64
48 17 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCTACCATCATTGAG
Found at i:116659809 original size:2 final size:2
Alignment explanation
Indices: 116659802--116659827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
116659792 TTCTTGCTTC
116659802 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
116659828 TTCATATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:116661922 original size:11 final size:11
Alignment explanation
Indices: 116661906--116661938 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
116661896 TGACAATACT
116661906 GAAAGGAAAGA
1 GAAAGGAAAGA
116661917 GAAAGGAAAGA
1 GAAAGGAAAGA
116661928 GAAAGGAAAGA
1 GAAAGGAAAGA
116661939 AAGTAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (11 bp):
GAAAGGAAAGA
Found at i:116662337 original size:49 final size:49
Alignment explanation
Indices: 116662228--116662359 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 49
116662218 GGTTAAGTTA
* * *
116662228 CTGATGCCATGTCCCAGACATGGTCTTACATTGGCTATCTTCATCGAGC
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCAAGC
* * *
116662277 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTGT-AT-AAGC
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-T-TCATCAAGC
116662326 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 -CTGATGCCATGTCCCAGACATGGTCTTACACTAGC
116662360 ATGAAGCTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
48 13 0.18
49 50 0.69
50 8 0.11
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (49 bp):
CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCAAGC
Found at i:116662385 original size:44 final size:46
Alignment explanation
Indices: 116662329--116662451 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 46
116662319 TATAAGCGCT
* *
116662329 GATGCATGTCCCAGACATGTCTTACACTAGCATGA-AGC-TTA-GTC
1 GATGCATGTCCCAGACACGTCTTACACTAGCAT-ACAGCATTAGGCC
* * *
116662373 GATGCATGTCCCAGACACATCTTACACTAAC-TACCATCATTTAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTAGCATA-CAGCA-TTAGGCC
116662420 GATGCATGTCCCAGACACGTCTTACACTAGCA
1 GATGCATGTCCCAGACACGTCTTACACTAGCA
116662452 CTCATCTCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 1 0.02
43 1 0.02
44 30 0.45
46 3 0.05
47 31 0.47
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (46 bp):
GATGCATGTCCCAGACACGTCTTACACTAGCATACAGCATTAGGCC
Found at i:116662475 original size:47 final size:47
Alignment explanation
Indices: 116662376--116662544 Score: 128
Period size: 47 Copynumber: 3.6 Consensus size: 47
116662366 CTTAGTCGAT
* * * * *
116662376 GCATGTCCCAGACACATCTTACACTAACTACCATCATTTAGGCCGAT
1 GCATGTCCCAGACACGTCTTACACTAGCTACCATCATCTAGGCCAAG
*
116662423 GCATGTCCCAGACACGTCTTACACTAGC-ACTCATC-TCTATGCCAAG
1 GCATGTCCCAGACACGTCTTACACTAGCTAC-CATCATCTAGGCCAAG
* * * *** * * ** *
116662469 GCCATGTCCTAAACATGGTCTTACACTAGCTATTGTAATGT-GGCTGAT
1 G-CATGTCCCAGACA-CGTCTTACACTAGCTACCATCATCTAGGCCAAG
*
116662517 GCATGTCCCAGACACATCTTACACTAGC
1 GCATGTCCCAGACACGTCTTACACTAGC
116662545 CCTCGTCTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
46 22 0.23
47 52 0.55
48 18 0.19
49 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (47 bp):
GCATGTCCCAGACACGTCTTACACTAGCTACCATCATCTAGGCCAAG
Found at i:116662527 original size:94 final size:92
Alignment explanation
Indices: 116662282--116662544 Score: 246
Period size: 94 Copynumber: 2.8 Consensus size: 92
116662272 CGAGCCCGAT
* * *
116662282 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTGTATAAG-CGCTGATGCATGTCCCAGACA
1 GCCATGTCCTAGACATGGTCTTACACTAGCTAT--TGTA-ATGTGGCTGATGCATGTCCCAGACA
* * * *
116662346 TGTCTTACACTAGCATGAAGCTTAGTCGAT
63 CGTCTTACACTAGCATGAAGCTTAGCCAAG
* ** * *** * * *
116662376 G-CATGTCCCAGACA-CATCTTACACTAACTACCATCATTTAGGCCGATGCATGTCCCAGACACG
1 GCCATGTCCTAGACATGGTCTTACACTAGCTATTGTAATGT-GGCTGATGCATGTCCCAGACACG
* *
116662439 TCTTACACTAGCACT-CATCTCTATGCCAAG
65 TCTTACACTAGCA-TGAAGCT-TA-GCCAAG
* *
116662469 GCCATGTCCTAAACATGGTCTTACACTAGCTATTGTAATGTGGCTGATGCATGTCCCAGACACAT
1 GCCATGTCCTAGACATGGTCTTACACTAGCTATTGTAATGTGGCTGATGCATGTCCCAGACACGT
116662534 CTTACACTAGC
66 CTTACACTAGC
116662545 CCTCGTCTTA
Statistics
Matches: 131, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
89 1 0.01
90 1 0.01
91 36 0.27
92 15 0.11
93 16 0.12
94 45 0.34
95 17 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (92 bp):
GCCATGTCCTAGACATGGTCTTACACTAGCTATTGTAATGTGGCTGATGCATGTCCCAGACACGT
CTTACACTAGCATGAAGCTTAGCCAAG
Found at i:116664682 original size:2 final size:2
Alignment explanation
Indices: 116664664--116664699 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
116664654 ACCCTCAAAC
* *
116664664 AT AT GT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116664700 CATTCATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:116665332 original size:24 final size:26
Alignment explanation
Indices: 116665304--116665368 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 26
116665294 CTCAACCGAT
116665304 TTCGCACACATAGTGCTAAT-C-AAA
1 TTCGCACACATAGTGCTAATGCTAAA
*
116665328 TTCGCACACATAGTGC-CATGCTAAA
1 TTCGCACACATAGTGCTAATGCTAAA
*
116665353 -CCGCACACATAGTGCT
1 TTCGCACACATAGTGCT
116665369 TTAGAAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 31 0.86
25 3 0.08
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (26 bp):
TTCGCACACATAGTGCTAATGCTAAA
Found at i:116676411 original size:2 final size:2
Alignment explanation
Indices: 116676399--116676432 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
116676389 ACTTTAACAC
*
116676399 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116676433 CCCTTTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:116682381 original size:25 final size:25
Alignment explanation
Indices: 116682347--116682397 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
116682337 ACAAGATTTC
116682347 TTCAGTAGAAACATACTCTCGAGCA
1 TTCAGTAGAAACATACTCTCGAGCA
116682372 TTCAGTAGAAACATACTCTCGAGCA
1 TTCAGTAGAAACATACTCTCGAGCA
116682397 T
1 T
116682398 ACTTGCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (25 bp):
TTCAGTAGAAACATACTCTCGAGCA
Found at i:116684707 original size:13 final size:13
Alignment explanation
Indices: 116684689--116684719 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
116684679 GAGGTTGTTC
116684689 ACTAAACTAATTA
1 ACTAAACTAATTA
116684702 ACTAAACTAATTA
1 ACTAAACTAATTA
116684715 ACTAA
1 ACTAA
116684720 TTAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:116687244 original size:34 final size:34
Alignment explanation
Indices: 116687191--116687266 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
116687181 GTTAGGTTTC
*
116687191 ATGTTCATGCTAATGTTCACCCTCCACACTTAAG
1 ATGTACATGCTAATGTTCACCCTCCACACTTAAG
*
116687225 ATGTACATGTTAATGTTCACCCTCCACACTTAAG
1 ATGTACATGCTAATGTTCACCCTCCACACTTAAG
116687259 ATGTACAT
1 ATGTACAT
116687267 TGCCCCCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (34 bp):
ATGTACATGCTAATGTTCACCCTCCACACTTAAG
Found at i:116694184 original size:10 final size:11
Alignment explanation
Indices: 116694147--116694183 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
116694137 ATTTTGTCCC
116694147 TTTTTGGCTCG
1 TTTTTGGCTCG
116694158 TTTTTGGCTCG
1 TTTTTGGCTCG
*
116694169 TTTTTGGCTCC
1 TTTTTGGCTCG
116694180 TTTT
1 TTTT
116694184 GACTCTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.22, T:0.59
Consensus pattern (11 bp):
TTTTTGGCTCG
Found at i:116697351 original size:29 final size:30
Alignment explanation
Indices: 116697295--116697370 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 30
116697285 AGCCGAAGCT
* *
116697295 ATCCCTTTTCACAATTTAATGGTGGTCACC
1 ATCCCTTTTCATAATTTAATGGTCGTCACC
*
116697325 ATCCCTTTTCATTA-TTAATGGTCGTCACC
1 ATCCCTTTTCATAATTTAATGGTCGTCACC
*
116697354 ATCCTTTTTCATAATTT
1 ATCCCTTTTCATAATTT
116697371 GATAGTTGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTAATGGTCGTCACC
Found at i:116697423 original size:30 final size:30
Alignment explanation
Indices: 116697352--116697426 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
116697342 ATGGTCGTCA
** *
116697352 CCATCCTTTTTCATAATTTGATAGTTGGAG
1 CCATCCTTTTTCATAATTTGATAGCCGAAG
* *
116697382 CTATCCCTTTTCA-AGATTTGATAGCCGAAG
1 CCATCCTTTTTCATA-ATTTGATAGCCGAAG
116697412 CCATCCTTTTTCATA
1 CCATCCTTTTTCATA
116697427 GTTCGATGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.03
30 34 0.94
31 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (30 bp):
CCATCCTTTTTCATAATTTGATAGCCGAAG
Found at i:116699612 original size:29 final size:29
Alignment explanation
Indices: 116699564--116699650 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
116699554 TATATACATG
* *
116699564 CATATAGCCCATCT-GACCCAGTTCATATT
1 CATATGGCCCAT-TAGACCCAATTCATATT
* * *
116699593 CTTATGGCCCATTAGGCCCAATTCACATT
1 CATATGGCCCATTAGACCCAATTCATATT
*
116699622 CATATGGCCCATTAGACCCAAATCATATT
1 CATATGGCCCATTAGACCCAATTCATATT
116699651 ATACTCATGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 1 0.02
29 47 0.98
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (29 bp):
CATATGGCCCATTAGACCCAATTCATATT
Found at i:116700042 original size:13 final size:13
Alignment explanation
Indices: 116700024--116700087 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
116700014 AGTTTGGCAA
116700024 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
116700037 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
116700050 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
116700063 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
116700076 TGCTTTGGAAAA
1 TGCTTTTGAAAA
116700088 ATTTAAGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:116701868 original size:16 final size:16
Alignment explanation
Indices: 116701849--116701881 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
116701839 AAAATTTTAA
*
116701849 GATTTTGAGATTTTTG
1 GATTTCGAGATTTTTG
116701865 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
116701881 G
1 G
116701882 GGCGTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.27, T:0.52
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:116709776 original size:6 final size:6
Alignment explanation
Indices: 116709746--116709870 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
116709736 AAGAAACATT
* * * *
116709746 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACATA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
116709795 ATCAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGAGAGA ATCAAA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
116709844 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
116709871 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 73 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:116709804 original size:31 final size:31
Alignment explanation
Indices: 116709767--116709870 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 31
116709757 AATCAAAATG
*
116709767 AGAATCAGAATCAGAATCAGGTGACATAATC
1 AGAATCAGAATCAGAATCAGGTAACATAATC
* * * ** * *
116709798 AGAATCAGAATCAAAATCAGAATTAGGTGA-G
1 AGAATCAGAATCAGAATCAG-GTAACATAATC
* * *
116709829 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACATAATC
116709860 AGAATCAGAAT
1 AGAATCAGAAT
116709871 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
30 3 0.06
31 46 0.87
32 4 0.08
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACATAATC
Found at i:116709808 original size:37 final size:37
Alignment explanation
Indices: 116709755--116709861 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
116709745 TATCAGAACT
*
116709755 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * * * *
116709792 ATAATCAGAATCAGAATCAAAATCAGAATTAGGTGAG
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
116709829 AGAATCAAAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAG
116709862 AATCAGAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
37 47 0.82
38 8 0.14
39 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:116709832 original size:25 final size:25
Alignment explanation
Indices: 116709803--116709870 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
116709793 TAATCAGAAT
* *
116709803 CAGAATCAAAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGGTAA
* *
116709828 GAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
*
116709853 CAGAATCAGAATCAGAAT
1 CAGAATCAAAATCAGAAT
116709871 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAAAATCAGAATCAGGTAA
Found at i:116710036 original size:27 final size:26
Alignment explanation
Indices: 116709990--116710095 Score: 113
Period size: 27 Copynumber: 4.0 Consensus size: 26
116709980 CATGGCTGCT
* * *
116709990 AGAAAAGATATTGTGACAGAGTCACC
1 AGAACAGATATTGTGGCAGAGCCACC
*
116710016 AGATACAGATATTGTGGCAGAGGCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
* *
116710043 AGAACAGATATTTGTGGCATAGCCACG
1 AGAACAGATA-TTGTGGCAGAGCCACC
* *
116710070 AGAAACAGATAATGTGGCAAAGCCAC
1 AG-AACAGATATTGTGGCAGAGCCAC
116710096 TTAATAGAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.14
27 51 0.74
28 8 0.12
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:116710901 original size:27 final size:27
Alignment explanation
Indices: 116710706--116710894 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 27
116710696 GGGGCAAAAT
* * *
116710706 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
116710733 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
116710760 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
116710787 GATAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
116710814 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
116710841 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
116710868 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
116710895 AATAATTTTG
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 139 0.99
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:116718124 original size:18 final size:18
Alignment explanation
Indices: 116718092--116718130 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
116718082 AATAAGAAAT
*
116718092 ATTCAAATCTAAATAT-C
1 ATTCAAATATAAATATAC
116718109 ATTCATAATATAAATATAC
1 ATTCA-AATATAAATATAC
116718128 ATT
1 ATT
116718131 TACAGCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 10 0.53
19 4 0.21
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTCAAATATAAATATAC
Found at i:116723242 original size:31 final size:31
Alignment explanation
Indices: 116723199--116723273 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
116723189 ACGGTTACTG
116723199 GGCCGAAGCCTTTTAATAAATCAAATCACTA
1 GGCCGAAGCCTTTTAATAAATCAAATCACTA
* * * *
116723230 GGCCGAATCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTAATAAATCAAATCACTA
116723261 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
116723274 ATTGTAAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTAATAAATCAAATCACTA
Found at i:116723357 original size:42 final size:42
Alignment explanation
Indices: 116723297--116723388 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
116723287 TGGCCCATAG
*
116723297 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
116723339 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
116723381 GCCCATTT
1 GCCCATTT
116723389 GGGGAGACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:116723610 original size:26 final size:26
Alignment explanation
Indices: 116723537--116723655 Score: 161
Period size: 26 Copynumber: 4.7 Consensus size: 26
116723527 TTTAATAACA
**
116723537 GGGGCA-AAGCCCTTTTCGGTAAACT
1 GGGGCATAAGCCCTTTTCAATAAACT
116723562 GGGGCA-AAGCCCTTTTCAATAAACT
1 GGGGCATAAGCCCTTTTCAATAAACT
* * ** *
116723587 AGGGCATAAACCCTTTTCGGTAAATT
1 GGGGCATAAGCCCTTTTCAATAAACT
116723613 GGGGCATAAGCCCTTTTCAATAAACT
1 GGGGCATAAGCCCTTTTCAATAAACT
116723639 GGGGCATAAGCCCTTTT
1 GGGGCATAAGCCCTTTT
116723656 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 28 0.35
26 53 0.65
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
GGGGCATAAGCCCTTTTCAATAAACT
Found at i:116723644 original size:52 final size:51
Alignment explanation
Indices: 116723537--116723655 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 51
116723527 TTTAATAACA
116723537 GGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACT
1 GGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACT
* * *
116723587 AGGGCATAAACCCTTTTCGGTAAATTGGGGCATAAGCCCTTTTCAATAAACT
1 GGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACT
116723639 GGGGCATAAGCCCTTTT
1 GGGGCATAAGCCCTTTT
116723656 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 5 0.08
51 23 0.37
52 34 0.55
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
GGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACT
Found at i:116723736 original size:11 final size:11
Alignment explanation
Indices: 116723705--116723760 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
116723695 TTATGAATTC
116723705 ATCATGTGCAT
1 ATCATGTGCAT
* *
116723716 TTCA--TACAT
1 ATCATGTGCAT
116723725 ATCATGTGCAT
1 ATCATGTGCAT
116723736 ATCA--TGCAT
1 ATCATGTGCAT
116723745 ATCATGTGCAT
1 ATCATGTGCAT
116723756 ATCAT
1 ATCAT
116723761 ATCAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:116723771 original size:20 final size:20
Alignment explanation
Indices: 116723705--116723761 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
116723695 TTATGAATTC
*
116723705 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
116723725 ATCATGTGCATATCATGCAT
1 ATCATGTGCATATCATACAT
116723745 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
116723762 TCAATAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:116723835 original size:25 final size:25
Alignment explanation
Indices: 116723807--116723854 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
116723797 ATAATTAAAC
116723807 CCTAGGGGCAAAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
116723832 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
116723855 CACATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:116724578 original size:27 final size:27
Alignment explanation
Indices: 116724478--116724561 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
116724468 GGGCATATTC
* * * *
116724478 GTCATTTTACCATACAAGGGTATTACG
1 GTCACTTTACCCTACAGGGGCATTACG
*
116724505 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCATTACG
116724532 GTCACTTTACCCTACAGGGGCATTACG
1 GTCACTTTACCCTACAGGGGCATTACG
116724559 GTC
1 GTC
116724562 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCATTACG
Found at i:116724653 original size:27 final size:27
Alignment explanation
Indices: 116724623--116724674 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
116724613 GTAAATCTAC
116724623 AAACCAAAGGTATTT-TAGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
116724650 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
116724675 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:116724736 original size:27 final size:27
Alignment explanation
Indices: 116724706--116724893 Score: 170
Period size: 27 Copynumber: 7.0 Consensus size: 27
116724696 GTAACTTTGT
116724706 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
116724733 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
116724760 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
*
116724787 AAA-CTAGGGATATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* * **
116724814 AAGTC-GAAGGTATTTCAGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
** *
116724841 AAATC-GAGGGTATTTCAGTATTTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
*
116724868 AAA-CTAAGGGTATTTTGGTAATTTTA
1 AAATC-AGGGGTATTTTGGTAATTTTA
116724894 GTAAACTAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.03
27 126 0.95
28 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:116724772 original size:54 final size:53
Alignment explanation
Indices: 116724685--116724893 Score: 213
Period size: 54 Copynumber: 3.9 Consensus size: 53
116724675 TAGAAAGTCA
* * ** *
116724685 AGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTACAAATTG
* *
116724739 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACT-
1 AGGGTATTTCGGTAATTTTACAAACCAG-GGTATTTTGGTAATTTTACAAATTG
* * * * ** *
116724792 AGGGATATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCG
1 AGGG-TATTTCGGTAATTTTACAA-ACCAGGGTATTTTGGTAATTTTACAAATTG
* * *
116724847 AGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTTGGTAATTTTA
1 AGGGTATTTCGGTAATTTTACAAAC-CAGGGTATTTTGGTAATTTTA
116724894 GTAAACTAAA
Statistics
Matches: 126, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 6 0.05
54 114 0.90
55 6 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAATTG
Found at i:116724811 original size:81 final size:81
Alignment explanation
Indices: 116724713--116724893 Score: 249
Period size: 81 Copynumber: 2.2 Consensus size: 81
116724703 TGTAAATCAG
* * * **
116724713 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAG-GGTATTTCA
116724777 GTAATTTTACAAACT-A
65 GTAATTTTACAAACTAA
* * *
116724793 GGGATATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 GGG-TATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAGGGTATTTCA
*
116724858 GTATTTTTACAAACTAA
65 GTAATTTTACAAACTAA
116724875 GGGTATTTTGGTAATTTTA
1 GGGTATTTTGGTAATTTTA
116724894 GTAAACTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.03
81 79 0.89
82 7 0.08
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAGGGTATTTCAG
TAATTTTACAAACTAA
Found at i:116724908 original size:81 final size:80
Alignment explanation
Indices: 116724620--116724908 Score: 228
Period size: 81 Copynumber: 3.5 Consensus size: 80
116724610 TTGGTAAATC
* * * ** * *
116724620 TACAAACCAAAGGTATTTTAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTC
1 TACAAACTAAGGGTATTTTGGTAATTTTACAAACTAA-GGTATTTC-AGTAA-TTTTACAAA-TC
* *
116724684 AAGGGTATTTCTGTAACTTTG
62 AAGGGTATTTCAGT-A-TTTT
* * * * * * *
116724705 TA-AATC-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CCAG
1 TACAAACTAAGGGTATTTTGGTAATTTTACAAACT-AAGGTATTTCAGTAATTTTACAAATCAAG
** *
116724767 TGGTATTTTGGTAATTT
65 -GGTATTTCAGTATTTT
* * *
116724784 TACAAACT-AGGGATATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGA
1 TACAAACTAAGGG-TATTTTGGTAATTTTACAA-ACTAAGGTATTTCAGTAATTTTACAAATCAA
116724848 GGGTATTTCAGTATTTT
64 GGGTATTTCAGTATTTT
* *
116724865 TACAAACTAAGGGTATTTTGGTAATTTTAGTAAACTAAAGTATT
1 TACAAACTAAGGGTATTTTGGTAATTTTA-CAAACTAAGGTATT
116724909 CTAAACAGGG
Statistics
Matches: 161, Mismatches: 33, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
79 4 0.02
80 10 0.06
81 94 0.58
82 16 0.10
83 31 0.19
84 4 0.02
85 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (80 bp):
TACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGTATTTCAGTAATTTTACAAATCAAGG
GTATTTCAGTATTTT
Found at i:116727769 original size:3 final size:3
Alignment explanation
Indices: 116727761--116727826 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
116727751 CCTTCATCTC
* *
116727761 ATT ATT ATT TTT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
116727809 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
116727827 TAGCATGAGC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:116729577 original size:2 final size:2
Alignment explanation
Indices: 116729570--116729620 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
116729560 TAGAGCAATT
116729570 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
116729612 AC AC AC AC A
1 AC AC AC AC A
116729621 TATATATATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:116744942 original size:2 final size:2
Alignment explanation
Indices: 116744894--116744929 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
116744884 CACACACGTG
116744894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116744930 GCATTCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:116745172 original size:30 final size:30
Alignment explanation
Indices: 116745132--116745191 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
116745122 GACAATGCAT
* **
116745132 AATTTGACAAAAT-ACCTATTTCGCCCCTAG
1 AATTTCACAAAATGACC-ATTTAACCCCTAG
116745162 AATTTCACAAAATGACCATTTAACCCCTAG
1 AATTTCACAAAATGACCATTTAACCCCTAG
116745192 GTCTGGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.28
Consensus pattern (30 bp):
AATTTCACAAAATGACCATTTAACCCCTAG
Found at i:116751625 original size:26 final size:27
Alignment explanation
Indices: 116751571--116751624 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
116751561 ATAACCGAAA
*
116751571 TACCCCTATATGGTAAAGTGACTATTT
1 TACCCCTAGATGGTAAAGTGACTATTT
*
116751598 TACCCCTCGATGGTAAA-TGACTGATTT
1 TACCCCTAGATGGTAAAGTGACT-ATTT
116751625 ATGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
TACCCCTAGATGGTAAAGTGACTATTT
Found at i:116756968 original size:19 final size:20
Alignment explanation
Indices: 116756931--116756968 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
116756921 ATAAGGTGGT
116756931 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
116756951 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
116756969 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:116764159 original size:46 final size:46
Alignment explanation
Indices: 116764109--116764281 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
116764099 TGGTTGAGCA
116764109 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
116764155 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
116764200 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
116764248 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
116764282 GGGGGGTTAC
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:116764265 original size:93 final size:93
Alignment explanation
Indices: 116764106--116764276 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
116764096 GGATGGTTGA
* *
116764106 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116764171 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
116764199 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116764264 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
116764277 ACTTAGGGGG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:116764540 original size:19 final size:20
Alignment explanation
Indices: 116764503--116764540 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
116764493 ATAAGGTGGT
116764503 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
116764523 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
116764541 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:116766470 original size:24 final size:24
Alignment explanation
Indices: 116766443--116766527 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
116766433 TGTTTCCTTA
*
116766443 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCCATATAATCTCG
* * * *
116766467 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCCATATA-ATCTCG
** *
116766492 CACACATAGTGCCGCATAACCTCG
1 CACACATAGTGCCATATAATCTCG
116766516 CACACATAGTGC
1 CACACATAGTGC
116766528 TGAAATTTCT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
24 30 0.62
25 18 0.38
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (24 bp):
CACACATAGTGCCATATAATCTCG
Found at i:116766496 original size:49 final size:47
Alignment explanation
Indices: 116766393--116766527 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 47
116766383 TTAAAGGTCC
* * *
116766393 GCACACATAGTGCTCT-TACTCATTCGCACACATAGTTCCGTGTTTCCTT
1 GCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGTGTTT-CTT
*
116766442 ACACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-TT
1 GCACACATAGTGCTATATAATCTCGCACACATAGTGCC--GT-GTTTCTT
*** *
116766491 GCACACATAGTGCCGCATAACCTCGCACACATAGTGC
1 GCACACATAGTGCTATATAATCTCGCACACATAGTGC
116766528 TGAAATTTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
48 15 0.21
49 48 0.66
50 6 0.08
51 4 0.05
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (47 bp):
GCACACATAGTGCTATATAATCTCGCACACATAGTGCCGTGTTTCTT
Found at i:116772400 original size:17 final size:18
Alignment explanation
Indices: 116772367--116772401 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
116772357 GATGGGCCAA
116772367 AATGGGCCGTGTGGGCCC
1 AATGGGCCGTGTGGGCCC
*
116772385 AATGGGCTGT-TGGGCCC
1 AATGGGCCGTGTGGGCCC
116772402 CGCACAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.26, G:0.43, T:0.20
Consensus pattern (18 bp):
AATGGGCCGTGTGGGCCC
Found at i:116772868 original size:26 final size:26
Alignment explanation
Indices: 116772837--116772907 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
116772827 TATATATTGA
* *
116772837 TACTGGCAGCTTTGCTGCGTTACTGT
1 TACTGGCAGCTTTGCTGCGCTACTAT
* * * *
116772863 TACTGGCAGCGTTGCTACACTAGTAT
1 TACTGGCAGCTTTGCTGCGCTACTAT
*
116772889 TACTGGTAGCTTTGCTGCG
1 TACTGGCAGCTTTGCTGCG
116772908 ATATTGGTGT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGCTACTAT
Found at i:116776748 original size:42 final size:43
Alignment explanation
Indices: 116776694--116776786 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
116776684 GATTTATGTA
** * *
116776694 TAAGACCATGTCTAGGACATCGGCATC-ATATTTGATTTCGTG
1 TAAGACCATGTCTAGGACAGAGGCATCGATATTTGATTACATG
* * *
116776736 TAAGACCCTGTCTGGGATAGAGGCATCGATATTTGATTACATG
1 TAAGACCATGTCTAGGACAGAGGCATCGATATTTGATTACATG
116776779 TAAGACCA
1 TAAGACCA
116776787 CGTCCGAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 22 0.52
43 20 0.48
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACAGAGGCATCGATATTTGATTACATG
Found at i:116776804 original size:43 final size:42
Alignment explanation
Indices: 116776709--116776804 Score: 95
Period size: 43 Copynumber: 2.3 Consensus size: 42
116776699 CCATGTCTAG
* * * * *
116776709 GACATCGGCATCATATTTGATTTCGTGTAAGACCCTGTCTGG
1 GACATAGGCATCATATTTGATTACATGTAAGACCCTGTCCGA
* *
116776751 GATAGAGGCATCGATATTTGATTACATGTAAGACCAC-GTCCGA
1 GACATAGGCATC-ATATTTGATTACATGTAAGACC-CTGTCCGA
*
116776794 GACATTGGCAT
1 GACATAGGCAT
116776805 TGTACGAGCT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
42 9 0.21
43 32 0.76
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
GACATAGGCATCATATTTGATTACATGTAAGACCCTGTCCGA
Found at i:116780657 original size:44 final size:44
Alignment explanation
Indices: 116780594--116780683 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
116780584 ATATATCAAG
116780594 CATATCACTCAAAAAGAATATCCAACCACAATTTCACATCATAC
1 CATATCACTCAAAAAGAATATCCAACCACAATTTCACATCATAC
116780638 CATATCACTCAAAAAGAATATCCAACCACAATTTCACATCATAC
1 CATATCACTCAAAAAGAATATCCAACCACAATTTCACATCATAC
116780682 CA
1 CA
116780684 AATATACCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (44 bp):
CATATCACTCAAAAAGAATATCCAACCACAATTTCACATCATAC
Found at i:116781653 original size:43 final size:41
Alignment explanation
Indices: 116781589--116781750 Score: 132
Period size: 43 Copynumber: 3.9 Consensus size: 41
116781579 TACAATGTCA
* * *
116781589 ATGTCCCAGAC-GTCGTATTACATGTAATCACATATTGATGCC
1 ATGTCCCAGACAG-GGTCTTACACGTAATCACATA-TGATGCC
* * *
116781631 ACTATCCCAGACAGGGTCTTACACG-AATCAAATACGATGCC
1 A-TGTCCCAGACAGGGTCTTACACGTAATCACATATGATGCC
* * *
116781672 GATGTCCCAAACATGGTCTTACACGTTATCACATAGTGATGCC
1 -ATGTCCCAGACAGGGTCTTACACGTAATCACATA-TGATGCC
* * *
116781715 AGTGTCCTAGAC-GTGGTCTTACACGAAAACACATAT
1 A-TGTCCCAGACAG-GGTCTTACACGTAATCACATAT
116781751 CAAAAATCCT
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.27
42 19 0.20
43 49 0.52
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGTCCCAGACAGGGTCTTACACGTAATCACATATGATGCC
Found at i:116781690 original size:41 final size:42
Alignment explanation
Indices: 116781625--116781741 Score: 121
Period size: 41 Copynumber: 2.8 Consensus size: 42
116781615 ATCACATATT
* * *
116781625 GATGCCACTATCCCAGACAGGGTCTTACACGAATCAAATA-C
1 GATGCCAGTGTCCCAGACATGGTCTTACACGAATCAAATAGC
* * * *
116781666 GATGCC-GATGTCCCAAACATGGTCTTACACGTTATCACATAGT
1 GATGCCAG-TGTCCCAGACATGGTCTTACACG-AATCAAATAGC
* *
116781709 GATGCCAGTGTCCTAGACGTGGTCTTACACGAA
1 GATGCCAGTGTCCCAGACATGGTCTTACACGAA
116781742 AACACATATC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 26 0.43
42 8 0.13
43 26 0.43
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
GATGCCAGTGTCCCAGACATGGTCTTACACGAATCAAATAGC
Found at i:116794174 original size:27 final size:27
Alignment explanation
Indices: 116794123--116794227 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
116794113 AGGAAGCGTC
* * *
116794123 CTGGTGGCTATGCCACAATTCTCTGAT
1 CTGGTGGCTCTGCCACGATTATCTGAT
* *
116794150 CTGGTGGCTCTGCGAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACGAT-TATCTGAT
116794177 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACGATTATCTG-AT
* *
116794205 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACGATTATCT
116794228 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.03
27 48 0.72
28 17 0.25
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACGATTATCTGAT
Found at i:116794227 original size:54 final size:54
Alignment explanation
Indices: 116794123--116794234 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
116794113 AGGAAGCGTC
* * *
116794123 CTGGTGGCTATGCCACAATTCTCTGATCTGGTGGCTCTGCGACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCGACATATATCTATT
* *
116794177 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTC-ACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTG-CGACATATATCTATT
116794231 CTGG
1 CTGG
116794235 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 33 0.65
55 17 0.33
56 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCGACATATATCTATT
Found at i:116795678 original size:40 final size:40
Alignment explanation
Indices: 116795595--116795747 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
116795585 TCGAATGATG
* *
116795595 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
116795635 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
116795675 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
116795716 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
116795748 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:116804145 original size:40 final size:40
Alignment explanation
Indices: 116804100--116804266 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
116804090 CGGAATATAA
116804100 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116804140 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116804180 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
116804220 CCGGATATAATTTCCAGCATAATTGTCTT-GGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116804259 CCGGATAT
1 CCGGATAT
116804267 TATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 17 0.16
40 89 0.84
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116807072 original size:2 final size:2
Alignment explanation
Indices: 116807065--116807098 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
116807055 CGGCTCTAGC
*
116807065 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116807099 GCTTGCACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:116815638 original size:16 final size:15
Alignment explanation
Indices: 116815612--116815643 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
116815602 ACTAGATAGG
116815612 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
116815627 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
116815643 C
1 C
116815644 GGTATCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:116816073 original size:27 final size:25
Alignment explanation
Indices: 116816042--116816119 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 25
116816032 CTCGTGGCTA
116816042 TGCCACAAGTATCTGATCTGGTGGATC
1 TGCCAC-A-TATCTGATCTGGTGGATC
* *
116816069 TGCCACATATACTTGTTCTGGTGGCTC
1 TGCCACATAT-C-TGATCTGGTGGATC
116816096 TGCCACGATTATCTGTATCTGGTG
1 TGCCAC-A-TATCTG-ATCTGGTG
116816120 ACTCTATCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
25 3 0.07
26 2 0.05
27 26 0.60
28 9 0.21
29 3 0.07
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (25 bp):
TGCCACATATCTGATCTGGTGGATC
Found at i:116816140 original size:54 final size:54
Alignment explanation
Indices: 116816035--116816143 Score: 125
Period size: 54 Copynumber: 2.0 Consensus size: 54
116816025 AAGCGTCCTC
*
116816035 GTGGCTATGCCACAAGTATCTGATCTGGTGGATCTGCCACATATACTTGTTCTG
1 GTGGCTATGCCACAAGTATCTGATCTGGTGGATCTACCACATATACTTGTTCTG
* * * *
116816089 GTGGCTCTGCCACGATTATCTGTATCTGGT-GACTCTATCACAT-TA-TCTGTTCTG
1 GTGGCTATGCCACAAGTATCTG-ATCTGGTGGA-TCTACCACATATACT-TGTTCTG
116816143 G
1 G
116816144 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
53 1 0.02
54 31 0.66
55 15 0.32
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTGGCTATGCCACAAGTATCTGATCTGGTGGATCTACCACATATACTTGTTCTG
Found at i:116831132 original size:46 final size:46
Alignment explanation
Indices: 116831082--116831252 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
116831072 TGGTTGAGCA
116831082 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
116831128 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
116831173 CATCCGAACT-ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
116831220 -CTC-AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
116831253 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 10, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 4 0.04
45 28 0.27
46 48 0.46
47 11 0.11
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:116838630 original size:46 final size:45
Alignment explanation
Indices: 116838580--116838752 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 45
116838570 TGGTTGAGCA
* *
116838580 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * *
116838626 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* * *
116838671 CATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATACGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* *
116838719 CCCGAGCTCGA-TGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTC-ATTGAGTTGAGTCCGAGTTCACTTA
116838753 GGGCGGGTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.54
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:116838736 original size:93 final size:93
Alignment explanation
Indices: 116838577--116838747 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
116838567 GGATGGTTGA
* * * * * *
116838577 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCAAACTCATTAAGTTGAGTCCGAGTTCACTTATAGATACGAACGCCCGAACTCATTGAGT
116838642 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
116838670 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATACGAACGCCCGAGCTCGA-TGAG
1 GCATCCAAACTCATTAAGTTGAGTCCGAGTTCACTTATAGATACGAACGCCCGAACTC-ATTGAG
116838734 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
116838748 ACTTAGGGCG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCATTAAGTTGAGTCCGAGTTCACTTATAGATACGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:116840879 original size:113 final size:113
Alignment explanation
Indices: 116840681--116840912 Score: 403
Period size: 113 Copynumber: 2.1 Consensus size: 113
116840671 AGGTTATGAA
116840681 TTAAAAAGGAAAACAACCAGAAAAATCTAGGGAAGCTGATGTAATAGAAGACTACAATGAGGGTG
1 TTAAAAAGGAAAACAACCAGAAAAATCTAGGGAAGCTGATGTAATAGAAGACTACAATGAGGGTG
* *
116840746 AACTCTAAATTACTTCTATCGACAACTCTAAAGTAATCGAGGATTGGT
66 AACTCCAAATTACTTCTATCGACAACTCTAAAGTAAGCGAGGATTGGT
**
116840794 TTAAAAAGGAAAACAACTGGAAAAATCT-GGGAAAGCTGATGTAATAGAAGACTACAATGAGGGT
1 TTAAAAAGGAAAACAACCAGAAAAATCTAGGG-AAGCTGATGTAATAGAAGACTACAATGAGGGT
*
116840858 GAACTCCGAATTACTTCTATCGACAACTCTAAAGTAAGCGAGGATTGGT
65 GAACTCCAAATTACTTCTATCGACAACTCTAAAGTAAGCGAGGATTGGT
116840907 TTAAAA
1 TTAAAA
116840913 TATATGAAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
112 3 0.03
113 110 0.97
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (113 bp):
TTAAAAAGGAAAACAACCAGAAAAATCTAGGGAAGCTGATGTAATAGAAGACTACAATGAGGGTG
AACTCCAAATTACTTCTATCGACAACTCTAAAGTAAGCGAGGATTGGT
Found at i:116842376 original size:21 final size:20
Alignment explanation
Indices: 116842342--116842382 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
116842332 ATAGGCATGC
*
116842342 ATTTTAATGATTGATTATAG
1 ATTTTAATGATTGATGATAG
*
116842362 ATTTTGAATGTTTGATGATAG
1 ATTTT-AATGATTGATGATAG
116842383 TTACACAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (20 bp):
ATTTTAATGATTGATGATAG
Found at i:116849083 original size:29 final size:29
Alignment explanation
Indices: 116849041--116849106 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
116849031 GGGGACACAT
*
116849041 GCCCGTGTGACCTGGCCGTGTGAAGACAA
1 GCCCGTGTGACCTGACCGTGTGAAGACAA
* *
116849070 GCCCGTGTGGCCTGACCGTGTGAAGACAC
1 GCCCGTGTGACCTGACCGTGTGAAGACAA
116849099 GCCCGTGT
1 GCCCGTGT
116849107 CACAGGCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.18
Consensus pattern (29 bp):
GCCCGTGTGACCTGACCGTGTGAAGACAA
Found at i:116857123 original size:44 final size:44
Alignment explanation
Indices: 116857073--116857159 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
116857063 AGTGGCAGAT
*
116857073 GGAGAGATCCTACTAAGGTAACAACTAGTTTATAGAATAGAGAA
1 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGAA
116857117 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGA
1 GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGA
116857160 GCTCAAAGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (44 bp):
GGAGAGATCCTACTAAGGTAACAACTAGTTGATAGAATAGAGAA
Found at i:116858409 original size:23 final size:23
Alignment explanation
Indices: 116858383--116858459 Score: 77
Period size: 22 Copynumber: 3.3 Consensus size: 23
116858373 CAGCACATTG
116858383 GAGCTTACCAATTCAGCTCGAA-A
1 GAGCTTACCAATTCAGCTC-AATA
*
116858406 GAGCTTA-CTATTCAGCTCAATA
1 GAGCTTACCAATTCAGCTCAATA
*** *
116858428 GAGCTTACTGTTTGTAGCTCAATA
1 GAGCTTACCAATT-CAGCTCAATA
116858452 GAGCTTAC
1 GAGCTTAC
116858460 TGTTCATCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.04
22 18 0.39
23 9 0.20
24 17 0.37
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (23 bp):
GAGCTTACCAATTCAGCTCAATA
Found at i:116858421 original size:22 final size:22
Alignment explanation
Indices: 116858359--116858465 Score: 90
Period size: 23 Copynumber: 4.7 Consensus size: 22
116858349 ACAGCTCGTA
* * *
116858359 AGAGCTTACTGTTTCAGCACATT
1 AGAGCTTACT-ATTCAGCTCAAT
* *
116858382 GGAGCTTACCAATTCAGCTCGAA-
1 AGAGCTTA-CTATTCAGCTC-AAT
116858405 AGAGCTTACTATTCAGCTCAAT
1 AGAGCTTACTATTCAGCTCAAT
* *
116858427 AGAGCTTACTGTTTGTAGCTCAAT
1 AGAGCTTACT-ATT-CAGCTCAAT
*
116858451 AGAGCTTACTGTTCA
1 AGAGCTTACTATTCA
116858466 TCAGCTCAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.03
22 21 0.31
23 25 0.37
24 20 0.29
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (22 bp):
AGAGCTTACTATTCAGCTCAAT
Found at i:116858451 original size:24 final size:25
Alignment explanation
Indices: 116858417--116858487 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
116858407 AGCTTACTAT
**
116858417 TCAGCTCAATAGAGCTTACTGTTTG
1 TCAGCTCAATAGAGCTTACTGTTCA
116858442 T-AGCTCAATAGAGCTTACTGTTCA
1 TCAGCTCAATAGAGCTTACTGTTCA
*
116858466 TCAGCTCAAGAGGAGCTTACTG
1 TCAGCTCAATA-GAGCTTACTG
116858488 ACCATGTCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 22 0.54
25 9 0.22
26 10 0.24
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TCAGCTCAATAGAGCTTACTGTTCA
Found at i:116858685 original size:50 final size:50
Alignment explanation
Indices: 116858610--116858709 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
116858600 ATTTTGTATA
* *
116858610 GATGGTAAGTTTAATTTTGAATTATACAGGCTTACTAAGCTGTAAAGCTT
1 GATGGTAAGTTTAATTCTGAATTATACAGGCTTACTAAGCTATAAAGCTT
*
116858660 GATGGTAAGTTTAATTCTGAATTATACGGGCTTACTAAGCTATAAAGCTT
1 GATGGTAAGTTTAATTCTGAATTATACAGGCTTACTAAGCTATAAAGCTT
116858710 ACTCTGTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (50 bp):
GATGGTAAGTTTAATTCTGAATTATACAGGCTTACTAAGCTATAAAGCTT
Found at i:116864143 original size:22 final size:23
Alignment explanation
Indices: 116864080--116864186 Score: 98
Period size: 23 Copynumber: 4.7 Consensus size: 23
116864070 ATAGCTCGTA
*
116864080 AGAGCTTACT-ATTTCAGCTCATT
1 AGAGCTTACTGA-TTCAGCTCAAT
* * *
116864103 GGAGCTTACCGATTCAGCTTGAA-
1 AGAGCTTACTGATTCAGC-TCAAT
116864126 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGATTCAGCTCAAT
*
116864148 AGAGCTTACT-ATTTTCAACTCAAT
1 AGAGCTTACTGA--TTCAGCTCAAT
116864172 AGAGCTTACTG-TTCA
1 AGAGCTTACTGATTCA
116864187 TCAGCTCAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
21 3 0.04
22 20 0.29
23 23 0.33
24 23 0.33
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:116867239 original size:40 final size:39
Alignment explanation
Indices: 116867157--116867339 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
116867147 GAATGATGTT
* *
116867157 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TC
*
116867197 CGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTC
* * * *
116867237 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
116867276 CGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAAC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
116867316 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
116867340 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:116867291 original size:79 final size:81
Alignment explanation
Indices: 116867157--116867337 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
116867147 GAATGATGTT
* * *
116867157 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
116867221 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * *
116867237 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGCTATG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
116867299 GTGTGAGTTACTATAAC
65 GTGCGAGTTACTATAAC
*
116867316 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
116867338 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.67
80 28 0.32
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAAC
Found at i:116867370 original size:79 final size:78
Alignment explanation
Indices: 116867189--116867372 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 78
116867179 GTGCTAAGTG
*
116867189 ACTATATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAG
1 ACTATATCCGG-CTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAG
**
116867253 GCATTGGTGCGAGTC
64 GCATTGGAACGAGTC
* ** * * *
116867268 ACTAAATCCGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
116867332 GGCATTTGAACGAGT-
63 GGCATTGGAACGAGTC
*
116867347 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGCTAAATTCCGAAGG
116867373 TACGTGATTC
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.66
80 27 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTC
Found at i:116872913 original size:40 final size:39
Alignment explanation
Indices: 116872831--116873013 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
116872821 GAATGATGTT
* *
116872831 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TC
*
116872871 CGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTC
* * * *
116872911 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
116872950 CGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAAC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
116872990 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
116873014 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:116872965 original size:79 final size:81
Alignment explanation
Indices: 116872831--116873011 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
116872821 GAATGATGTT
* * *
116872831 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
116872895 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * *
116872911 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGCTATG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
116872973 GTGTGAGTTACTATAAC
65 GTGCGAGTTACTATAAC
*
116872990 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
116873012 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.67
80 28 0.32
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAAC
Found at i:116873044 original size:79 final size:78
Alignment explanation
Indices: 116872863--116873046 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 78
116872853 GTGCTAAGTG
*
116872863 ACTATATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAG
1 ACTATATCCGG-CTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAG
**
116872927 GCATTGGTGCGAGTC
64 GCATTGGAACGAGTC
* ** * * *
116872942 ACTAAATCCGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
116873006 GGCATTTGAACGAGT-
63 GGCATTGGAACGAGTC
*
116873021 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGCTAAATTCCGAAGG
116873047 TACGTGATTC
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.66
80 27 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTC
Found at i:116878578 original size:40 final size:39
Alignment explanation
Indices: 116878496--116878678 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
116878486 GAATGATGTT
* *
116878496 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TC
*
116878536 CGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTC
* * * *
116878576 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
116878615 CGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAAC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
116878655 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
116878679 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:116878630 original size:79 final size:81
Alignment explanation
Indices: 116878496--116878676 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
116878486 GAATGATGTT
* * *
116878496 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
116878560 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * *
116878576 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGCTATG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
116878638 GTGTGAGTTACTATAAC
65 GTGCGAGTTACTATAAC
*
116878655 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
116878677 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.67
80 28 0.32
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAAC
Found at i:116878709 original size:79 final size:78
Alignment explanation
Indices: 116878528--116878711 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 78
116878518 GTGCTAAGTG
*
116878528 ACTATATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAG
1 ACTATATCCGG-CTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAG
**
116878592 GCATTGGTGCGAGTC
64 GCATTGGAACGAGTC
* ** * * *
116878607 ACTAAATCCGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
116878671 GGCATTTGAACGAGT-
63 GGCATTGGAACGAGTC
*
116878686 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGCTAAATTCCGAAGG
116878712 TACGTGATTC
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.66
80 27 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTC
Found at i:116884253 original size:40 final size:39
Alignment explanation
Indices: 116884171--116884353 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
116884161 GAATGATGTT
* *
116884171 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT-TC
*
116884211 CGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTC
* * * *
116884251 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTCACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
* * *
116884290 CGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAAC
1 CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
116884330 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
116884354 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:116884305 original size:79 final size:81
Alignment explanation
Indices: 116884171--116884351 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
116884161 GAATGATGTT
* * *
116884171 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
116884235 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * *
116884251 CGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGCTATG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTT
*
116884313 GTGTGAGTTACTATAAC
65 GTGCGAGTTACTATAAC
*
116884330 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
116884352 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.67
80 28 0.32
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAAC
Found at i:116884384 original size:79 final size:78
Alignment explanation
Indices: 116884203--116884386 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 78
116884193 GTGCTAAGTG
*
116884203 ACTATATCCGGACTAAGA-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAG
1 ACTATATCCGG-CTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAG
**
116884267 GCATTGGTGCGAGTC
64 GCATTGGAACGAGTC
* ** * * *
116884282 ACTAAATCCGGGCTATGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
116884346 GGCATTTGAACGAGT-
63 GGCATTGGAACGAGTC
*
116884361 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGCTAAATTCCGAAGG
116884387 TACGTGATTC
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.66
80 27 0.32
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGCTAAATTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTC
Done.