Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 46 of 297
Found at i:16341348 original size:28 final size:28
Alignment explanation
Indices: 16341266--16341779 Score: 906
Period size: 28 Copynumber: 18.4 Consensus size: 28
16341256 GAGATTGGCG
* * * *
16341266 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
16341295 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341322 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341350 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341378 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341406 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341434 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341462 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341490 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341518 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341546 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341574 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341602 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341630 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341658 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
16341686 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
16341714 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* * *
16341742 CTAGGTGTGCGAG-CTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
16341769 CTGAGTGTGCG
1 CTAAGTGTGCG
16341780 GACTTAATAT
Statistics
Matches: 469, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
27 41 0.09
28 417 0.89
29 11 0.02
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:16351788 original size:16 final size:17
Alignment explanation
Indices: 16351767--16351800 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16351757 TTGAGTTAAA
16351767 TTGAATGAAA-TAAATT
1 TTGAATGAAACTAAATT
*
16351783 TTGAATTAAACTAAATT
1 TTGAATGAAACTAAATT
16351800 T
1 T
16351801 ATCCATATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (17 bp):
TTGAATGAAACTAAATT
Found at i:16352206 original size:25 final size:25
Alignment explanation
Indices: 16352172--16352241 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
16352162 CGTTCCAACC
16352172 TACAGCTCGTGTGAGCATACCGATT
1 TACAGCTCGTGTGAGCATACCGATT
* *
16352197 TACAGTTCGTATGAGCATACCGATT
1 TACAGCTCGTGTGAGCATACCGATT
* *
16352222 CACAGCTCATGTGAGCATAC
1 TACAGCTCGTGTGAGCATAC
16352242 ATGTACAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
TACAGCTCGTGTGAGCATACCGATT
Found at i:16357502 original size:36 final size:35
Alignment explanation
Indices: 16357426--16357518 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 35
16357416 GACTAGCTCT
*
16357426 TATGAGCATTGGTGTG-TTTAGAGGGATTGGATCG
1 TATGAGCATTGGTGTGTTTTGGAGGGATTGGATCG
* *
16357460 TGTGAGCATATGGTGTGTTTTGGAGGGATT-GACTTG
1 TATGAGCAT-TGGTGTGTTTTGGAGGGATTGGA-TCG
*
16357496 TATGAGCATCTGGTGTATTTTGG
1 TATGAGCAT-TGGTGTGTTTTGG
16357519 TTGGACCGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 8 0.16
35 9 0.18
36 33 0.66
ACGTcount: A:0.18, C:0.06, G:0.37, T:0.39
Consensus pattern (35 bp):
TATGAGCATTGGTGTGTTTTGGAGGGATTGGATCG
Found at i:16361468 original size:43 final size:42
Alignment explanation
Indices: 16361420--16361599 Score: 107
Period size: 43 Copynumber: 4.2 Consensus size: 42
16361410 TCCCGGATGT
* * * *
16361420 GGTCTTACATATAAT-TCAATATCGATGCCTCTGTCTCAGACAG
1 GGTCTTACATAAAATCTCAAT-T-GAGGCCTCTGTCCCAGACAC
* *
16361463 GGTCTTACACGAAAATCTCAATTGAGGCCTGTGTCCCAGACAC
1 GGTCTTACA-TAAAATCTCAATTGAGGCCTCTGTCCCAGACAC
* * * ** * *
16361506 GGTCTTACATGAAAT-T-AGATACGACGCCGATGTTCCAGACAT
1 GGTCTTACATAAAATCTCA-AT-TGAGGCCTCTGTCCCAGACAC
* * * * *
16361548 GGCCTTATACGT-AAATCTCAATCGAGGCCTATGTCCCAAACAC
1 GGTC-T-TACATAAAATCTCAATTGAGGCCTCTGTCCCAGACAC
16361591 GGTCTTACA
1 GGTCTTACA
16361600 CGATGTCTCA
Statistics
Matches: 106, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.01
41 6 0.06
42 23 0.22
43 58 0.55
44 12 0.11
45 6 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACATAAAATCTCAATTGAGGCCTCTGTCCCAGACAC
Found at i:16367925 original size:39 final size:39
Alignment explanation
Indices: 16367882--16368009 Score: 150
Period size: 39 Copynumber: 3.3 Consensus size: 39
16367872 TGACATTCAG
* *
16367882 GGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCT
1 GGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCT
*
16367921 GGAATTATATCCGAACTTAAGGTCCGCAGGCTACGTGCT
1 GGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCT
* * * * * *
16367960 GGAAATATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCT
1 GGAATTATATCCGGACTTAAGGT-CCGCAGGCTACGTGCT
*
16367999 GGTATTATATC
1 GGAATTATATC
16368010 GGGTTTAAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
38 5 0.07
39 70 0.93
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
GGAATTATATCCGGACTTAAGGTCCGCAGGCTACGTGCT
Found at i:16376426 original size:43 final size:43
Alignment explanation
Indices: 16376378--16376536 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
16376368 GATTACCGAG
*
16376378 ATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACAT-GGCATCGTAT
* * *
16376422 -TGTGATTACGTGTAAAACCATGTTTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAT
* * * * * *
16376464 ATATGATTTCGTTTAAGACCTTGTCTGGGGCAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAT
* *
16376507 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
16376537 TATTATATTG
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 90 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATGGCATCGTAT
Found at i:16381383 original size:17 final size:16
Alignment explanation
Indices: 16381361--16381398 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
16381351 AAATACGCTC
16381361 TCTCTTTGTTCTCTTAT
1 TCTCTTTGTTCT-TTAT
16381378 TCTCTTTGTTCTTTAT
1 TCTCTTTGTTCTTTAT
16381394 TCTCT
1 TCTCT
16381399 GTCTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.66
Consensus pattern (16 bp):
TCTCTTTGTTCTTTAT
Found at i:16384810 original size:39 final size:39
Alignment explanation
Indices: 16384756--16384838 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
16384746 TTCGTGCTAA
*
16384756 GACATTGGGTGATTTGTGCTAGTGTAAGACCATGTCAGG
1 GACATTGGGTGATTTGTGCTAGTATAAGACCATGTCAGG
**
16384795 GACATTGGGTGATTTGTGCTAGTATAAGACCATGTTTGG
1 GACATTGGGTGATTTGTGCTAGTATAAGACCATGTCAGG
16384834 GACAT
1 GACAT
16384839 GGCATCGACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (39 bp):
GACATTGGGTGATTTGTGCTAGTATAAGACCATGTCAGG
Found at i:16384929 original size:46 final size:44
Alignment explanation
Indices: 16384812--16384980 Score: 119
Period size: 46 Copynumber: 3.7 Consensus size: 44
16384802 GGTGATTTGT
* * *
16384812 GCTAGTATAAGACCATGTTTGGGACATGGCATCGAC-ACAGATATGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTA-AGAGATGA
* * * * *
16384858 GTGTCAGAGTAAGACATGCCAGGGACATGCATCGGCCTCGACAGAGAT-A
1 G-CT-AGTGTAAGACATGTCTGGGACATGCATC-GACT--A-AGAGATGA
* ** * *
16384907 GCTAGTGTAA-ACGTGTCTGGGACACACATCGACTAAGAGTTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGATGA
16384950 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
16384981 AGCATGCATA
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
42 5 0.05
43 11 0.12
44 17 0.18
45 3 0.03
46 21 0.22
47 20 0.21
48 8 0.09
49 2 0.02
50 7 0.07
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTAAGAGATGA
Found at i:16384939 original size:40 final size:43
Alignment explanation
Indices: 16384895--16384974 Score: 103
Period size: 44 Copynumber: 1.9 Consensus size: 43
16384885 TGCATCGGCC
*
16384895 TCGAC-AGAGAT-AGCTAGTGTAA-ACGTGTCTGGGACACACA
1 TCGACAAGAGATGAGCTAGTGTAAGACATGTCTGGGACACACA
* *
16384935 TCGACTAAGAGTTGTGCTAGTGTAAGACATGTCTGGGACA
1 TCGAC-AAGAGATGAGCTAGTGTAAGACATGTCTGGGACA
16384975 TGCATCAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.15
42 5 0.15
43 10 0.30
44 13 0.39
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (43 bp):
TCGACAAGAGATGAGCTAGTGTAAGACATGTCTGGGACACACA
Found at i:16390017 original size:79 final size:81
Alignment explanation
Indices: 16389908--16390090 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
16389898 TACTCGTTCA
* *
16389908 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
16389971 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
16389988 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
16390051 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
16390067 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
16390091 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:16390090 original size:40 final size:40
Alignment explanation
Indices: 16389887--16390090 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
16389877 CGGAATTTAA
** *
16389887 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16389927 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16389967 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16390006 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16390046 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16390086 CCGGA
1 CCGGA
16390091 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16394053 original size:31 final size:31
Alignment explanation
Indices: 16394010--16394091 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
16394000 TCAATCTCAG
16394010 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
16394040 CATATCACTGGGCCAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
16394071 CATATCACTGGGCCGAAGCCT
1 CATATCACTGGGCCGAAGCCT
16394092 CTACTGTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:16394358 original size:26 final size:25
Alignment explanation
Indices: 16394313--16394408 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
16394303 CTCTTTTAAT
*
16394313 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
16394338 AACTGGGGCAAAAGTCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGATA
*
16394364 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * * *
16394389 AAATAGAGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16394409 GTACTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 40 0.65
26 22 0.35
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:16394570 original size:24 final size:24
Alignment explanation
Indices: 16394543--16394588 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16394533 ATAATTAAAC
* **
16394543 CCTAGGGTAAAATGGTCATTTTTA
1 CCTAGGGCAAAACAGTCATTTTTA
16394567 CCTAGGGCAAAACAGTCATTTT
1 CCTAGGGCAAAACAGTCATTTT
16394589 CATACTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (24 bp):
CCTAGGGCAAAACAGTCATTTTTA
Found at i:16401477 original size:55 final size:55
Alignment explanation
Indices: 16401393--16401504 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
16401383 TCTTGTAATA
*
16401393 TAGTTTTTTACATAATGGTGTAGATAAATGTACTTACACTAAATTCACTGATAGG
1 TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCACTGATAGG
*
16401448 TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCGCTGATAGG
1 TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCACTGATAGG
16401503 TA
1 TA
16401505 CAGTGTAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (55 bp):
TAGTTTTTTACATAATGGTGTACATAAATGTACTTACACTAAATTCACTGATAGG
Found at i:16403454 original size:168 final size:168
Alignment explanation
Indices: 16403176--16403514 Score: 633
Period size: 168 Copynumber: 2.0 Consensus size: 168
16403166 AAACAATCCA
16403176 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
1 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
*
16403241 GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACTCTCTAGCAATTTTGTATTGGGGCAAATAGT
66 GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
*
16403306 TCTCTTTGGAAAACATCACACGCACCTTGAAGTCTACT
131 TCTCTTTGGAAAACATCACACGCACCTTAAAGTCTACT
16403344 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
1 ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
*
16403409 GCTTCGTTGTATCCCGAGAGGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
66 GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
* *
16403474 TCTCTTTGGAAAACGTCACCCGCACCTTAAAGTCTACT
131 TCTCTTTGGAAAACATCACACGCACCTTAAAGTCTACT
16403512 ATT
1 ATT
16403515 AAATTCTATA
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 166 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (168 bp):
ATTTCAAAAATTAGAGTAAGAGTTAGGGAATTCCTCGATTTTGCTAATTAAAGGAAATTCAAAAA
GCTTCGTTGTATCCCGAGAAGCATTTGTCTTAACCCTCTAGCAATTTTGTATTGGGGCAAATAGT
TCTCTTTGGAAAACATCACACGCACCTTAAAGTCTACT
Found at i:16408164 original size:14 final size:14
Alignment explanation
Indices: 16408145--16408184 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16408135 ATTGTTTCAC
*
16408145 AGAAAATAATTTTT
1 AGAAAATGATTTTT
*
16408159 AGAAAATGATCTTT
1 AGAAAATGATTTTT
*
16408173 GGAAAATGATTT
1 AGAAAATGATTT
16408185 ATTTTTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (14 bp):
AGAAAATGATTTTT
Found at i:16408689 original size:15 final size:15
Alignment explanation
Indices: 16408634--16408690 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
16408624 TTTATACTAC
16408634 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
16408649 AATACATTTATAATTGT
1 AAAATATTTATTA-T-T
16408666 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
16408683 AAAATATT
1 AAAATATT
16408691 AATATTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 17 0.53
16 2 0.06
17 2 0.06
18 2 0.06
19 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:16408756 original size:15 final size:16
Alignment explanation
Indices: 16408736--16408765 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16408726 GAATATTTAT
16408736 TTAAAA-TTATTATTC
1 TTAAAATTTATTATTC
16408751 TTAAAATTTATTATT
1 TTAAAATTTATTATT
16408766 AAAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAAATTTATTATTC
Found at i:16414628 original size:25 final size:24
Alignment explanation
Indices: 16414457--16414627 Score: 135
Period size: 25 Copynumber: 7.0 Consensus size: 24
16414447 ACAAGCTATG
* * *
16414457 AATCGGTATGCTCTCACGAGTTGCA
1 AATCGGTAAGCTCTTACGAGCTG-A
*
16414482 AATCGGTAAGCTCCTACGAGCTGA
1 AATCGGTAAGCTCTTACGAGCTGA
* **
16414506 GAATCAGTAAGCTCTTACGAGCTCC
1 -AATCGGTAAGCTCTTACGAGCTGA
** * *
16414531 AATTTGTAAGTTCTTACGAGCTGC
1 AATCGGTAAGCTCTTACGAGCTGA
* *
16414555 AATCGGTAAGCTCTTACAAGTTGA
1 AATCGGTAAGCTCTTACGAGCTGA
* * * *
16414579 GAATTGGTATGCTCTCATGAGCTGTA
1 -AATCGGTAAGCTCTTACGAGCTG-A
* *
16414605 AATTGGTAAGCTCATACGAGCTG
1 AATCGGTAAGCTCTTACGAGCTG
16414628 TGGCGTGTTC
Statistics
Matches: 115, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
24 39 0.34
25 75 0.65
26 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AATCGGTAAGCTCTTACGAGCTGA
Found at i:16416840 original size:40 final size:40
Alignment explanation
Indices: 16416771--16416950 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
16416761 GAGTATAACT
* * * *
16416771 AGGGGCACAGAA-TGCAACCAGGGGTACCGAAGTAAAAAC
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
** * *
16416810 AGGGGCACATAAGCACAATCAAGGGTACCGAACTACAAAT
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
* * *
16416850 AGGGGCACGTAAGTGCAATCAAGGGTACTGAAATACAAAC
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
* * *
16416890 AAGGGCACATAAGTGCAACCAGGGGTACCGAAGTACAAAC
1 AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
16416930 AGGGGCACATAAGTGCAATCA
1 AGGGGCACATAAGTGCAATCA
16416951 TTCAATAATT
Statistics
Matches: 118, Mismatches: 22, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
39 11 0.09
40 107 0.91
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.12
Consensus pattern (40 bp):
AGGGGCACATAAGTGCAATCAAGGGTACCGAAGTACAAAC
Found at i:16416932 original size:20 final size:20
Alignment explanation
Indices: 16416789--16416934 Score: 87
Period size: 20 Copynumber: 7.3 Consensus size: 20
16416779 AGAATGCAAC
*
16416789 CAGGGGTACCGAAGTAAAAA
1 CAGGGGTACCGAAGTACAAA
* ** * *
16416809 CAGGGGCACATAAGCACAAT
1 CAGGGGTACCGAAGTACAAA
* *
16416829 CAAGGGTACCGAACTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
16416849 TAGGGGCA-CGTAAGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
* * *
16416869 CAAGGGTACTGAAATACAAA
1 CAGGGGTACCGAAGTACAAA
* * ** * *
16416889 CAAGGGCACATAAGTGCAAC
1 CAGGGGTACCGAAGTACAAA
16416909 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
16416929 CAGGGG
1 CAGGGG
16416935 CACATAAGTG
Statistics
Matches: 86, Mismatches: 38, Indels: 4
0.67 0.30 0.03
Matches are distributed among these distances:
19 2 0.02
20 83 0.97
21 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:16427330 original size:49 final size:49
Alignment explanation
Indices: 16427188--16427330 Score: 147
Period size: 45 Copynumber: 3.0 Consensus size: 49
16427178 CTGGGCTATC
*
16427188 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGCTGGG
1 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
* * * * * *
16427237 -C-T---ATCGGCTTTGATATGTGTGATC-CCATGTAAGACCAT-GTCTGGG
1 ACATGACATTGGCATTGATA--TGAGAACATCGTGTAAGACCATAG-CTGGG
16427282 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
1 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
16427331 CTATCGGCTT
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
44 11 0.15
45 17 0.24
46 6 0.08
47 2 0.03
48 6 0.08
49 17 0.24
50 12 0.17
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (49 bp):
ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGG
Found at i:16427349 original size:94 final size:94
Alignment explanation
Indices: 16427188--16427395 Score: 389
Period size: 94 Copynumber: 2.2 Consensus size: 94
16427178 CTGGGCTATC
16427188 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGCTGGGCTATCGGCTTTGATAT
1 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGCTGGGCTATCGGCTTTGATAT
16427253 GTGTGATCCCATGTAAGACCATGTCTGGG
66 GTGTGATCCCATGTAAGACCATGTCTGGG
*
16427282 ACATGACATTGGCATTGATATGAGAACATCGTGTAAGACCATAGCTGGGCTATCGGCTTTGATAT
1 ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGCTGGGCTATCGGCTTTGATAT
16427347 GTGTGATCCCATGTAAGACCATGTCTGGG
66 GTGTGATCCCATGTAAGACCATGTCTGGG
**
16427376 ACATGGTATTGGCATCGATA
1 ACATGACATTGGCATCGATA
16427396 AGTGGTCCTA
Statistics
Matches: 110, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 110 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (94 bp):
ACATGACATTGGCATCGATATGAGAACATCGTGTAAGACCATAGCTGGGCTATCGGCTTTGATAT
GTGTGATCCCATGTAAGACCATGTCTGGG
Found at i:16427375 original size:45 final size:45
Alignment explanation
Indices: 16427219--16427368 Score: 162
Period size: 45 Copynumber: 3.2 Consensus size: 45
16427209 GAGAACATCG
16427219 TGTAAGACCATAGCTGGGCTATCGGCTTTGATATGTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATCGGCTTTGATATGTGTGATCCCA
* * * * * *
16427264 TGTAAGACCAT-GTCTGGGACATGACATTGGCATTGATA--TGAGAACATCG
1 TGTAAGACCATAG-CTGGG-C-T---ATCGGCTTTGATATGTGTGATC-CCA
16427313 TGTAAGACCATAGCTGGGCTATCGGCTTTGATATGTGTGATCCCA
1 TGTAAGACCATAGCTGGGCTATCGGCTTTGATATGTGTGATCCCA
16427358 TGTAAGACCAT
1 TGTAAGACCAT
16427369 GTCTGGGACA
Statistics
Matches: 83, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
44 12 0.14
45 28 0.34
46 6 0.07
47 2 0.02
48 6 0.07
49 17 0.20
50 12 0.14
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (45 bp):
TGTAAGACCATAGCTGGGCTATCGGCTTTGATATGTGTGATCCCA
Found at i:16427715 original size:157 final size:157
Alignment explanation
Indices: 16427429--16427737 Score: 591
Period size: 157 Copynumber: 2.0 Consensus size: 157
16427419 CCCGAATATG
*
16427429 GCATTGACACCCTACTATATGGATATGATTTCCTAAGTATCCCTTAGTATTCCAAGTGGTTCAAC
1 GCATTGACACCCTACTATATGAATATGATTTCCTAAGTATCCCTTAGTATTCCAAGTGGTTCAAC
16427494 GGGTAGTCCAAGGATTTGTCAAAGAATTGATGAGGTATGATCATGTTGAATGAGTACAGGTATGT
66 GGGTAGTCCAAGGATTTGTCAAAGAATTGATGAGGTATGATCATGTTGAATGAGTACAGGTATGT
16427559 ACGCCAAGCTTGTAGTTATCGATTATA
131 ACGCCAAGCTTGTAGTTATCGATTATA
* *
16427586 GCATTGACACCCTACTATGTGAATATGATTTCCTAAGTATCCTTTAGTATTCCAAGTGGTTCAAC
1 GCATTGACACCCTACTATATGAATATGATTTCCTAAGTATCCCTTAGTATTCCAAGTGGTTCAAC
16427651 GGGTAGTCCAAGGATTTGTCAAAGAATTGATGAGGTATGATCATGTTGAATGAGTACAGGTATGT
66 GGGTAGTCCAAGGATTTGTCAAAGAATTGATGAGGTATGATCATGTTGAATGAGTACAGGTATGT
16427716 ACGCCAAGCTTGTAGTTATCGA
131 ACGCCAAGCTTGTAGTTATCGA
16427738 GATTACGAAA
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 149 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (157 bp):
GCATTGACACCCTACTATATGAATATGATTTCCTAAGTATCCCTTAGTATTCCAAGTGGTTCAAC
GGGTAGTCCAAGGATTTGTCAAAGAATTGATGAGGTATGATCATGTTGAATGAGTACAGGTATGT
ACGCCAAGCTTGTAGTTATCGATTATA
Found at i:16434306 original size:18 final size:18
Alignment explanation
Indices: 16434283--16434319 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16434273 CTACCCTTTA
16434283 TTTGCATTTTTAATGTTC
1 TTTGCATTTTTAATGTTC
*
16434301 TTTGCATTTTTGATGTTC
1 TTTGCATTTTTAATGTTC
16434319 T
1 T
16434320 ACCTTAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.62
Consensus pattern (18 bp):
TTTGCATTTTTAATGTTC
Found at i:16436790 original size:139 final size:139
Alignment explanation
Indices: 16436582--16437463 Score: 1746
Period size: 139 Copynumber: 6.3 Consensus size: 139
16436572 GGCATCGTTA
16436582 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
16436647 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
16436712 TTCGATATG
131 TTCGATATG
16436721 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
16436786 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
16436851 TTCGATATG
131 TTCGATATG
16436860 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
16436925 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
16436990 TTCGATATG
131 TTCGATATG
16436999 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
16437064 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
16437129 TTCGATATG
131 TTCGATATG
16437138 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
16437203 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
16437268 TTCGATATG
131 TTCGATATG
16437277 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
16437342 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
66 ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
16437407 TTCGATATG
131 TTCGATATG
* *
16437416 TGTGATCCCATGTAAGACCATGTCTGGGACATGGTATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATA
16437464 AGTGGTCCTA
Statistics
Matches: 741, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 741 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (139 bp):
TGTGATCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCATCGATATGAGAACATCGTGTAAG
ACCATAGCTGGGCTATCAGCTTCGATATGTGTGATCCTATGTAAGACCATAGCTGGGCTATCGGC
TTCGATATG
Found at i:16438445 original size:35 final size:35
Alignment explanation
Indices: 16438399--16438476 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
16438389 TGACACACGG
*
16438399 CTTGCCCCATGGTCGTGTGTTCTGGCCGTGTGTCC
1 CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
16438434 CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
1 CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
16438469 CTTGCACC
1 CTTGCACC
16438477 CTAATTAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.05, C:0.32, G:0.29, T:0.33
Consensus pattern (35 bp):
CTTGCACCATGGTCGTGTGTTCTGGCCGTGTGTCC
Found at i:16446474 original size:45 final size:45
Alignment explanation
Indices: 16446334--16446631 Score: 296
Period size: 44 Copynumber: 6.8 Consensus size: 45
16446324 TTTTATCAAA
* * *
16446334 TCACCGGCATT-TAGCCTGTTAGGTTTTAAA--CCCGAAT-TCATC
1 TCACCGGCATTATAGCCTGCTAGG-CTCAAAGGCCCGAATATCATC
* * * * *
16446376 -CACCGGCATT-TCGCGTGCTAAGCTCGAA-GCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATCATC
** ** *
16446417 TCACTAGCATTATAGCCTGCTAGGCTTGAAGGCTCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA-TCATC
* *
16446462 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCC-AATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATCATC
* * *
16446506 TCACCGACATTATAGCCTGCTAGGCTCGAAGTCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA-TCATC
* *
16446551 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATCATC
*
16446595 TCACCGGCATTATAGCCTGCTAGGCTCAATGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
16446632 TTAGTACCGT
Statistics
Matches: 209, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
40 5 0.02
41 26 0.12
42 8 0.04
43 16 0.08
44 80 0.38
45 72 0.34
46 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATCATC
Found at i:16446507 original size:89 final size:88
Alignment explanation
Indices: 16446404--16446637 Score: 344
Period size: 89 Copynumber: 2.6 Consensus size: 88
16446394 TAAGCTCGAA
* *
16446404 GCCCGATATCATTTCACTAGCATTATAGCCTGCTAGGCTTGAAGGCTCGAATAGTATCTCACCGG
1 GCCCGATATCATTTCAC-AGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGG
16446469 CATTATAGCCTACTAGGCTCAAAG
65 CATTATAGCCTACTAGGCTCAAAG
* * *
16446493 GCCCAATATCATTTCACCGACATTATAGCCTGCTAGGCTCGAAGTCCCGAATAGTATCTCACCGG
1 GCCCGATATCATTTCACAG-CATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGG
* *
16446558 TATTATAGCCTGCTAGGCTCAAAG
65 CATTATAGCCTACTAGGCTCAAAG
* *
16446582 GCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCTC-AATGGCCCGATTAGTA
1 GCCCGATATCATTTCA-CAGCATTATAGCCTGCTAGGCTCGAA-GGCCCGAATAGTA
16446638 CCGTACAATA
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
88 3 0.02
89 126 0.96
90 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (88 bp):
GCCCGATATCATTTCACAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGC
ATTATAGCCTACTAGGCTCAAAG
Found at i:16452976 original size:28 final size:28
Alignment explanation
Indices: 16452934--16453067 Score: 108
Period size: 28 Copynumber: 4.8 Consensus size: 28
16452924 TAATTATATG
** *
16452934 TGGCACTTAACGTGCAAAGTATCGGGGA
1 TGGCACTTAGTGTGCAAAGTATCGAGGA
* * * *
16452962 TGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGC-AAAGTATCGAGGA
* *
16452990 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGTGTGCAAAGTATCGAGGA
* * * *
16453018 TGGCACTTAGTGTGCGAAGCATCCAGAA
1 TGGCACTTAGTGTGCAAAGTATCGAGGA
* * *
16453046 CGACACTTAGTGTGCAAGGTAT
1 TGGCACTTAGTGTGCAAAGTAT
16453068 AGGATATGGC
Statistics
Matches: 82, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
27 1 0.01
28 79 0.96
29 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (28 bp):
TGGCACTTAGTGTGCAAAGTATCGAGGA
Found at i:16453020 original size:56 final size:56
Alignment explanation
Indices: 16452934--16453062 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 56
16452924 TAATTATATG
** * *
16452934 TGGCACTTAACGTGCAAAGTATCGGGGATGGCACTTAGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCAAAGTAACGAGGATGGCACTTAGTGTGCGA-AGCATCCAGAA
*
16452990 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAGCATCCAGAA
1 TGGCACTTAGTGTGCAAAGTAACGAGGATGGCACTTAGTGTGCGAAGCATCCAGAA
* *
16453046 CGACACTTAGTGTGCAA
1 TGGCACTTAGTGTGCAA
16453063 GGTATAGGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.02
56 63 0.98
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (56 bp):
TGGCACTTAGTGTGCAAAGTAACGAGGATGGCACTTAGTGTGCGAAGCATCCAGAA
Found at i:16453088 original size:56 final size:56
Alignment explanation
Indices: 16452945--16453095 Score: 157
Period size: 56 Copynumber: 2.7 Consensus size: 56
16452935 GGCACTTAAC
* * * * * *
16452945 GTGCAAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAATGGCACTTAGT
1 GTGCGAAGTAACGAGGATGGCACTTAATGTGCGATACATCCAGAACGACACTTAGT
*
16453001 GTGCGAAGTAACGAGGATGGCACTTAGTGTGCGA-AGCATCCAGAACGACACTTAGT
1 GTGCGAAGTAACGAGGATGGCACTTAATGTGCGATA-CATCCAGAACGACACTTAGT
* *
16453057 GTGC-AAGGTATAGGA-TATGGCA-TCTAATGTGCGATACAT
1 GTGCGAA-GTA-ACGAGGATGGCACT-TAATGTGCGATACAT
16453096 TGAATATTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
55 4 0.05
56 74 0.90
57 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (56 bp):
GTGCGAAGTAACGAGGATGGCACTTAATGTGCGATACATCCAGAACGACACTTAGT
Found at i:16453202 original size:32 final size:32
Alignment explanation
Indices: 16453153--16453232 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
16453143 TACGAGATGA
* *
16453153 TACAGGTATCTATGGAAATTAGTACAATATGG
1 TACAGGTATGTACGGAAATTAGTACAATATGG
*
16453185 TACAGGTATGTACGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTAGTACAATATGG
*
16453217 TACATGTATGTACGGA
1 TACAGGTATGTACGGA
16453233 GATTCAATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTAGTACAATATGG
Found at i:16458641 original size:27 final size:27
Alignment explanation
Indices: 16458611--16458788 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16458601 ATATTGAGTC
* * * *
16458611 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16458638 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16458665 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16458693 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16458720 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16458747 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16458774 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16458789 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16458750 original size:82 final size:81
Alignment explanation
Indices: 16458632--16458787 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16458622 TGCTATATAA
* *
16458632 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16458697 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16458714 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16458778 CACTTAGTGC
65 CACTTAGTGC
16458788 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16472594 original size:38 final size:38
Alignment explanation
Indices: 16472551--16472758 Score: 114
Period size: 38 Copynumber: 5.0 Consensus size: 38
16472541 TTTCAAATTA
16472551 ACATGTATAACCTTGTCATATCCACTTAGCACCACGTT
1 ACATGTATAACCTTGTCATATCCACTTAGCACCACGTT
* * *
16472589 ACATGTTTAACCGTGGT-ATATCCACTTAGCACCAAGTTAAT
1 ACATGTATAACC-TTGTCATATCCACTTAGCACCACG-T--T
* * * *
16472630 GAATCAATATATGCAACCGTGGCATATCCACTTAGCACGACGTT
1 --A-C-ATGTAT--AACCTTGTCATATCCACTTAGCACCACGTT
** *
16472674 ACATGTATCAATATGTGTATCGTGATATATCCATTTAGCACCACGTT
1 ACATGTAT-AACCT-TG--TC-----ATATCCACTTAGCACCACGTT
* *
16472721 ACACGTATAACCGTGGT-ATATCCACTTAGCACCACGTT
1 ACATGTATAACC-TTGTCATATCCACTTAGCACCACGTT
16472759 TTTCCATTCT
Statistics
Matches: 128, Mismatches: 22, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
38 49 0.38
39 7 0.05
40 7 0.05
41 2 0.02
42 2 0.02
43 1 0.01
44 3 0.02
45 4 0.03
46 5 0.04
47 48 0.38
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCTTGTCATATCCACTTAGCACCACGTT
Found at i:16472651 original size:47 final size:47
Alignment explanation
Indices: 16472597--16472723 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
16472587 TTACATGTTT
*
16472597 AACCGTGGTATATCCACTTAGCACCAAGTTA-ATGAATCAATATATG
1 AACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
16472643 CAACCGTGGCATATCCACTTAGCACGACGTTACATGTATCAATATGTG
1 -AACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
16472691 TATCGTGATATATCCATTTAGCACCACGTTACA
1 AACCGTGGTATATCCACTTAGCACCACGTTACA
16472724 CGTATAACCG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 55 0.81
48 13 0.19
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (47 bp):
AACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:16472899 original size:23 final size:23
Alignment explanation
Indices: 16472872--16472920 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
16472862 CACAAGTCAC
*
16472872 AAAATAAAATATTA-TTACATAAT
1 AAAATAAAACATTATTTACAT-AT
*
16472895 AAAATAATACATTATTTACATAT
1 AAAATAAAACATTATTTACATAT
16472918 AAA
1 AAA
16472921 CTTACCTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAAAACATTATTTACATAT
Found at i:16477688 original size:64 final size:64
Alignment explanation
Indices: 16477607--16477790 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
16477597 AGACATTTTG
* * *
16477607 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
16477671 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16477736 AA
63 AA
* * *
16477738 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
16477791 CGAACTTTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16485432 original size:12 final size:12
Alignment explanation
Indices: 16485415--16485440 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16485405 GAAAAAAGCC
16485415 ATTTACATATAT
1 ATTTACATATAT
16485427 ATTTACATATAT
1 ATTTACATATAT
16485439 AT
1 AT
16485441 ATAGACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTACATATAT
Found at i:16487660 original size:94 final size:94
Alignment explanation
Indices: 16487499--16487706 Score: 353
Period size: 94 Copynumber: 2.2 Consensus size: 94
16487489 TAGGACCACT
* **
16487499 TATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACACATATTGAAGCCGATAG
1 TATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACACACACAGAAGCCGATAG
*
16487564 CCCAGCTATGATCTTACACGATGTTCTCA
66 CCCAGCTATGATATTACACGATGTTCTCA
* *
16487593 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACACACAGAAGTCGATAG
1 TATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACACACACAGAAGCCGATAG
*
16487658 CCCAGCTATGGTATTACACGATGTTCTCA
66 CCCAGCTATGATATTACACGATGTTCTCA
16487687 TATCGATGCCAATGCCATGT
1 TATCGATGCCAATGCCATGT
16487707 GATAGGGAAA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 107 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (94 bp):
TATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACACACACAGAAGCCGATAG
CCCAGCTATGATATTACACGATGTTCTCA
Found at i:16490666 original size:29 final size:30
Alignment explanation
Indices: 16490624--16490700 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 30
16490614 TTTGCAGAGC
16490624 CACACGTCCGTGTGGGTAGACCGTGTGGTCA
1 CACACG-CCGTGTGGGTAGACCGTGTGGTCA
*
16490655 CACACGCCTGTGTGGGTAGGCCGTGTGGTCA
1 CACACGCC-GTGTGGGTAGACCGTGTGGTCA
16490686 CACACGCCCGTGTGG
1 CACACG-CCGTGTGG
16490701 CTTGGGAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 2 0.05
31 39 0.91
32 2 0.05
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (30 bp):
CACACGCCGTGTGGGTAGACCGTGTGGTCA
Found at i:16492056 original size:94 final size:93
Alignment explanation
Indices: 16491946--16492181 Score: 364
Period size: 94 Copynumber: 2.5 Consensus size: 93
16491936 TAGGACCACT
* **
16491946 TATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGCATCACACATATCGAAGTTGATAG
1 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-ATCACACATATCGAAGCCGATAG
*
16492011 CCCAACTATGGTCTTAAACGATGTTCTCA
65 CCCAACTATAGTCTTAAACGATGTTCTCA
*
16492040 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGGTCACACATATCGAAGCCGATAG
1 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATG-GATCACACATATCGAAGCCGATAG
* *
16492105 CCCAGCTATAGTCTTACACGATGTTCTCA
65 CCCAACTATAGTCTTAAACGATGTTCTCA
* *
16492134 TATCGATGCCAAAGCCATATCCCAGACATGGTCTTACATGGGATCACA
1 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGATCACA
16492182 TAATGACACC
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
94 128 0.98
95 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (93 bp):
TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGATCACACATATCGAAGCCGATAGC
CCAACTATAGTCTTAAACGATGTTCTCA
Found at i:16492074 original size:49 final size:49
Alignment explanation
Indices: 16492018--16492171 Score: 158
Period size: 49 Copynumber: 3.2 Consensus size: 49
16492008 TAGCCCAACT
*
16492018 ATGGTCTTAAACGATGTTCTCATATCGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACACGATGTTCTCATATCGATGCCAATGCCATGTCCCAGAC
* * * * * *
16492067 ATGGTCTTACATGAGGTCACACATATCGAAGCCGAT---A-G-CCCAG-C
1 ATGGTCTTACACGATGT-TCTCATATCGATGCCAATGCCATGTCCCAGAC
* * *
16492111 TATAGTCTTACACGATGTTCTCATATCGATGCCAAAGCCATATCCCAGAC
1 -ATGGTCTTACACGATGTTCTCATATCGATGCCAATGCCATGTCCCAGAC
16492161 ATGGTCTTACA
1 ATGGTCTTACA
16492172 TGGGATCACA
Statistics
Matches: 80, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
44 14 0.17
45 19 0.24
46 1 0.01
47 2 0.03
49 29 0.36
50 15 0.19
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGGTCTTACACGATGTTCTCATATCGATGCCAATGCCATGTCCCAGAC
Found at i:16494288 original size:40 final size:40
Alignment explanation
Indices: 16494244--16494466 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
16494234 GCTCCTCGTT
* *
16494244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
16494284 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
16494324 CAAATGCCTTC-GGCCTTAGACCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
16494363 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
16494402 CAAATGCCTTC-GGATCTTAGTCTGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
16494443 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16494467 CATCATTCAA
Statistics
Matches: 161, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 84 0.52
40 65 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:16494450 original size:78 final size:79
Alignment explanation
Indices: 16494272--16494466 Score: 238
Period size: 79 Copynumber: 2.5 Consensus size: 79
16494262 AGCCCGGTTA
* * * *
16494272 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG
16494337 CCTTAGACCGGAAT
66 CCTTAGACCGGAAT
* *
16494351 TAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGG
1 TAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG
* * *
16494415 ATCTTAGTCTGGATAT
66 -CCTTAGACCGGA-AT
16494431 T-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
1 TAGT-ATC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
16494467 CATCATTCAA
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
78 44 0.43
79 50 0.49
80 9 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
TAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG
CCTTAGACCGGAAT
Found at i:16502058 original size:18 final size:18
Alignment explanation
Indices: 16502035--16502077 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
16502025 GGCAATGGAT
16502035 ACTTGTTCTTGATAGTTA
1 ACTTGTTCTTGATAGTTA
16502053 ACTTGTTCTTGATAGTTA
1 ACTTGTTCTTGATAGTTA
*
16502071 CCTTGTT
1 ACTTGTT
16502078 AAGTTGTCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (18 bp):
ACTTGTTCTTGATAGTTA
Found at i:16509945 original size:68 final size:67
Alignment explanation
Indices: 16509873--16510022 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
16509863 CATCATGTGT
* * * *
16509873 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
16509935 ATGTAG
62 ATGTAG
** * *
16509941 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
16510006 AG
66 AG
16510008 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
16510023 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:16509978 original size:64 final size:64
Alignment explanation
Indices: 16509897--16510080 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
16509887 AGACATTATG
* *
16509897 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
16509961 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16510026 AA
63 AA
* * * *
16510028 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
16510081 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16516096 original size:20 final size:20
Alignment explanation
Indices: 16516071--16516157 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
16516061 GATATGATAT
*
16516071 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
16516091 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
16516111 ACATGATATGTATGAAACGC
1 ACATGATATGTATGAAATGC
*
16516131 ACATGATACGTATGAAATGC
1 ACATGATATGTATGAAATGC
16516151 ACATGAT
1 ACATGAT
16516158 GTATTCATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:16527956 original size:37 final size:37
Alignment explanation
Indices: 16527897--16528003 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 37
16527887 AGCTCGGACG
* *
16527897 AAATCTCCACACGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
*
16527934 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
* * * *
16527971 TACTCTACACACGTAGTCATCGGGTCTCACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
16528004 GAATATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
Found at i:16531100 original size:25 final size:25
Alignment explanation
Indices: 16531054--16531101 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16531044 TTATAGTATG
* * * *
16531054 AAAATGACTATTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
16531079 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
16531102 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:16531162 original size:20 final size:20
Alignment explanation
Indices: 16531137--16531205 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
16531127 GATATGATAT
*
16531137 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
16531157 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
16531177 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
16531197 ACATGATAT
1 ACATGATAT
16531206 ATTCATAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:16531324 original size:25 final size:26
Alignment explanation
Indices: 16531253--16531349 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
16531243 GAGGAAGTGC
*
16531253 AAAAGCGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
16531279 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
16531305 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
16531330 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
16531350 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 31 0.48
26 34 0.52
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:16531333 original size:51 final size:49
Alignment explanation
Indices: 16531253--16531362 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 49
16531243 GAGGAAGTGC
* *
16531253 AAAAGCGCTTATGCCCCAGTTTACTGAAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATT
*
16531304 GAAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
16531353 AAAAGAGGCT
1 AAAAG-GGCT
16531363 AAGCCTCTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 5 0.09
49 9 0.17
50 8 0.15
51 23 0.43
52 9 0.17
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
Found at i:16538495 original size:17 final size:18
Alignment explanation
Indices: 16538467--16538501 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
16538457 AGTGCAAAAG
16538467 TGGTGTTCTAATAGCTAA
1 TGGTGTTCTAATAGCTAA
16538485 TGGTG-TCTAATAGCTAA
1 TGGTGTTCTAATAGCTAA
16538502 GAAACTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
TGGTGTTCTAATAGCTAA
Found at i:16551475 original size:19 final size:19
Alignment explanation
Indices: 16551451--16551512 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
16551441 AATCTTTAAG
16551451 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16551470 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16551489 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
16551510 GAT
1 GAT
16551513 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16554470 original size:19 final size:18
Alignment explanation
Indices: 16554430--16554469 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16554420 GAACTATTTA
*
16554430 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
16554448 TTTTGATGGTTTATA-TAT
1 TTTTGAT-GTTTATAGTAT
16554466 TTTT
1 TTTT
16554470 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:16554501 original size:12 final size:12
Alignment explanation
Indices: 16554471--16554503 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
16554461 TATATTTTTT
16554471 AAAATT-ATATA
1 AAAATTAATATA
16554482 AAAA-TAATATA
1 AAAATTAATATA
16554493 AAAATTAATAT
1 AAAATTAATAT
16554504 GGGCAGGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:16556490 original size:79 final size:81
Alignment explanation
Indices: 16556357--16556534 Score: 306
Period size: 79 Copynumber: 2.2 Consensus size: 81
16556347 GATCCAAAGT
16556357 TTTATGTAAGTTATGATATAATATATATATTTTTTATATTCACTAAATGTTAGAAATTACATTTT
1 TTTATGTAAGTTATGATATAATATATATATTTTTTATATTCACTAAATGTTAGAAATTACATTTT
*
16556422 TTATATTCTTTAAATG
66 TTATACTCTTTAAATG
* **
16556438 TTTATGTAAGTTATGATAT-A-ATATATATTTTTTATATTCTCTAAATGTTAGAAATTGTATTTT
1 TTTATGTAAGTTATGATATAATATATATATTTTTTATATTCACTAAATGTTAGAAATTACATTTT
16556501 TTATACTCTTTAAATG
66 TTATACTCTTTAAATG
16556517 TTTATGTAAGTTATGATA
1 TTTATGTAAGTTATGATA
16556535 ATCATTAACT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 73 0.78
80 1 0.01
81 19 0.20
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.52
Consensus pattern (81 bp):
TTTATGTAAGTTATGATATAATATATATATTTTTTATATTCACTAAATGTTAGAAATTACATTTT
TTATACTCTTTAAATG
Found at i:16557238 original size:24 final size:23
Alignment explanation
Indices: 16557209--16557279 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
16557199 TTTGATAAAT
16557209 TTAAATATCAAATTAGAAAAAAAA
1 TTAAATATCAAATTA-AAAAAAAA
* *
16557233 TTAAATACCAAATTAAAAAAATA
1 TTAAATATCAAATTAAAAAAAAA
*
16557256 TAAAAT-TCAATTATTAAAAAAAAA
1 TTAAATATCAA--ATTAAAAAAAAA
16557280 GAGTATAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.08
23 12 0.30
24 25 0.62
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (23 bp):
TTAAATATCAAATTAAAAAAAAA
Found at i:16559148 original size:77 final size:77
Alignment explanation
Indices: 16558951--16559216 Score: 353
Period size: 77 Copynumber: 3.5 Consensus size: 77
16558941 CGCATATATC
* *
16558951 GGGA-AGGGGGAACTGATTTGGGGAAAAGAAATTGGGGAAAAATGAAAGGGATTTGGGAAAAAAC
1 GGGAGAGGGGGAACTGATTTGGGGAAAAGAAATTGGGGAAAAAAGAAAGGGATCTGGGAAAAAAC
*
16559015 TTTGGGATTTC-
66 TTAGGGATTTCG
* * * *
16559026 GGG-GAGGGGGAATTGATTTAGGGAAAAGGAATTGGGGAAAAAAGAAAGGGGTCTGGGAAAGAAA
1 GGGAGAGGGGGAACTGATTTGGGGAAAAGAAATTGGGGAAAAAAGAAAGGGATCTGGGAAA-AAA
16559090 CTTAGGGATTTCG
65 CTTAGGGATTTCG
* * *
16559103 GGGAGAGGGGGAACTGGTTT-GGGAAAAGAAATTGGGGAAAAAAGAAATGAATCTGGGAAAAACA
1 GGGAGAGGGGGAACTGATTTGGGGAAAAGAAATTGGGGAAAAAAGAAAGGGATCTGGGAAAAA-A
*
16559167 TTTAGGGATTTCG
65 CTTAGGGATTTCG
* * *
16559180 AGGAG-GAGGGAACTAATTTGGGGAAAAGAAATTGGGG
1 GGGAGAGGGGGAACTGATTTGGGGAAAAGAAATTGGGG
16559217 TTTTGGGGCT
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
75 53 0.32
76 27 0.16
77 73 0.44
78 14 0.08
ACGTcount: A:0.38, C:0.04, G:0.39, T:0.19
Consensus pattern (77 bp):
GGGAGAGGGGGAACTGATTTGGGGAAAAGAAATTGGGGAAAAAAGAAAGGGATCTGGGAAAAAAC
TTAGGGATTTCG
Found at i:16565586 original size:41 final size:41
Alignment explanation
Indices: 16565524--16565710 Score: 209
Period size: 41 Copynumber: 4.5 Consensus size: 41
16565514 TGTATCAGTG
*
16565524 ATATTCGGGCTTTATTG-CTAGCAGGCTTTGTGCCGGTGTATA
1 ATATT-GGGCTTTA-TGCCTAGCAGGCTTTGTGCCAGTGTATA
16565566 ATATTGGGCTTTATGCCTAGCAGGCTTTGTGCCAGTGTATA
1 ATATTGGGCTTTATGCCTAGCAGGCTTTGTGCCAGTGTATA
* **
16565607 ATATCGGGCTTTATGCCTAATAGGCTTTGTGCCAGTGTA-A
1 ATATTGGGCTTTATGCCTAGCAGGCTTTGTGCCAGTGTATA
*** * * *
16565647 TATATCAAGC-TTATTGCCTAGCAGGCTCTGTGCCGGTGTATT
1 -ATATTGGGCTTTA-TGCCTAGCAGGCTTTGTGCCAGTGTATA
* *
16565689 ATACTAGGCTTTATGCCTAGCA
1 ATATTGGGCTTTATGCCTAGCA
16565711 AATTTTATGT
Statistics
Matches: 126, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
40 6 0.05
41 112 0.89
42 8 0.06
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
ATATTGGGCTTTATGCCTAGCAGGCTTTGTGCCAGTGTATA
Found at i:16584644 original size:141 final size:141
Alignment explanation
Indices: 16584418--16584690 Score: 519
Period size: 141 Copynumber: 1.9 Consensus size: 141
16584408 ATTGGCTTTA
*
16584418 TAGGTTCGGATCCAAACGGCTAGAAATAATGTTTATGATTATATAGATTTGATCATGATATATGT
1 TAGGTTCGAATCCAAACGGCTAGAAATAATGTTTATGATTATATAGATTTGATCATGATATATGT
16584483 TCATGTGGGGAATTAGGTTTCATGGTACTTATATGAGGTGTGTTTGATATATGAATCAATTTGGA
66 TCATGTGGGGAATTAGGTTTCATGGTACTTATATGAGGTGTGTTTGATATATGAATCAATTTGGA
16584548 AACTGTGTTTT
131 AACTGTGTTTT
*
16584559 TAGGTTCGAATCCAAACGGCTAGAAATGATGTTTATGATTATATAGATTTGATCATGATATATGT
1 TAGGTTCGAATCCAAACGGCTAGAAATAATGTTTATGATTATATAGATTTGATCATGATATATGT
*
16584624 TCATGTGGGGAATTAGGTTTCATGGTACTTATATGAGGTGTGTTTGATATATGAATCAGTTTGGA
66 TCATGTGGGGAATTAGGTTTCATGGTACTTATATGAGGTGTGTTTGATATATGAATCAATTTGGA
16584689 AA
131 AA
16584691 TTGTTTATAA
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 129 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (141 bp):
TAGGTTCGAATCCAAACGGCTAGAAATAATGTTTATGATTATATAGATTTGATCATGATATATGT
TCATGTGGGGAATTAGGTTTCATGGTACTTATATGAGGTGTGTTTGATATATGAATCAATTTGGA
AACTGTGTTTT
Found at i:16585917 original size:125 final size:125
Alignment explanation
Indices: 16585758--16586007 Score: 482
Period size: 125 Copynumber: 2.0 Consensus size: 125
16585748 GTACACAGTG
16585758 TTAGAAATGCTTTTCGGTCAAACAGTATAACAGTCAGTCGCATTCTAAAACAGTCGATAAAATGC
1 TTAGAAATGCTTTTCGGTCAAACAGTATAACAGTCAGTCGCATTCTAAAACAGTCGATAAAATGC
*
16585823 ATATGAGTGCAGTTGAGCTAAAGAAACCCACCCATCCAGCCAACACACCTCTCCGTCCCC
66 ATATGAGTGCAGTTGAGCTAAAGAAACCCACCCACCCAGCCAACACACCTCTCCGTCCCC
*
16585883 TTAGAAATGCTTTTCGGTCAAACAGTATAACAGTCAGTCGCATTCTCAAACAGTCGATAAAATGC
1 TTAGAAATGCTTTTCGGTCAAACAGTATAACAGTCAGTCGCATTCTAAAACAGTCGATAAAATGC
16585948 ATATGAGTGCAGTTGAGCTAAAGAAACCCACCCACCCAGCCAACACACCTCTCCGTCCCC
66 ATATGAGTGCAGTTGAGCTAAAGAAACCCACCCACCCAGCCAACACACCTCTCCGTCCCC
16586008 CATCACACCT
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 123 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (125 bp):
TTAGAAATGCTTTTCGGTCAAACAGTATAACAGTCAGTCGCATTCTAAAACAGTCGATAAAATGC
ATATGAGTGCAGTTGAGCTAAAGAAACCCACCCACCCAGCCAACACACCTCTCCGTCCCC
Found at i:16594708 original size:47 final size:47
Alignment explanation
Indices: 16594639--16594999 Score: 598
Period size: 47 Copynumber: 7.6 Consensus size: 47
16594629 NNNNNNNATG
*
16594639 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
*
16594686 GCCGACGTGATGAATGTGAAAGTGTATATGTGT-ATAGGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
*
16594732 GCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
*
16594779 GCCGATGTGATGAATGTGAAAATGTATATGTATGTGTGATAGGGCCTAATA
1 GCCGATGTGATGAATGTG-AAA-GTGTA--TATGTGTGATAGGGCCTAATA
*
16594830 GCCGATGTGATGAATGTGAAAGTGTATCTGTGTGATAGGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
*
16594877 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
* * *
16594924 GCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
16594971 GCCGATGTGATGAATGTGAAAGTGTATAT
1 GCCGATGTGATGAATGTGAAAGTGTATAT
16595000 ATNNNNNNNN
Statistics
Matches: 297, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 45 0.15
47 199 0.67
48 3 0.01
49 8 0.03
50 3 0.01
51 39 0.13
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATA
Found at i:16597118 original size:20 final size:21
Alignment explanation
Indices: 16597093--16597132 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16597083 AACCACTTAT
16597093 CACACA-AGCAATCACAAATG
1 CACACATAGCAATCACAAATG
* *
16597113 CACACATATCAATCCCAAAT
1 CACACATAGCAATCACAAAT
16597133 CGAAGTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.33, G:0.05, T:0.15
Consensus pattern (21 bp):
CACACATAGCAATCACAAATG
Found at i:16601301 original size:121 final size:121
Alignment explanation
Indices: 16601087--16601323 Score: 393
Period size: 121 Copynumber: 2.0 Consensus size: 121
16601077 TCTCTCCTAC
* * *
16601087 TGTGCAATAGTCCGAATGAAAGGAACTCCCTTACGCAGAAGCTTAGTGAACGGAGCTATGATCAA
1 TGTGCAATAGTCCAAATGAAAGGAACTCCCTTACGCAGAAGCTTAGTCAACGGAGCTACGATCAA
* * *
16601152 GGAGAACCATTCAATGAAATGTCGATAATATCCTGCAGTCTTAGAAAACTATGGAT
66 GGAGAACCATTCAACGAAATGTCGATAATATCCTGCAGCCCTAGAAAACTATGGAT
*
16601208 TGTGCAATAGTCCAAATGAAAGGAACTCCCTTACGCAGAAGCTTAGTCAACGGAGCTGCGATCAA
1 TGTGCAATAGTCCAAATGAAAGGAACTCCCTTACGCAGAAGCTTAGTCAACGGAGCTACGATCAA
* *
16601273 GGAGAACCCTTCTACGAAATGTCGATAATATCCTGCAGCCCTAGAAAACTA
66 GGAGAACCATTCAACGAAATGTCGATAATATCCTGCAGCCCTAGAAAACTA
16601324 ATGATTTCAG
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 107 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (121 bp):
TGTGCAATAGTCCAAATGAAAGGAACTCCCTTACGCAGAAGCTTAGTCAACGGAGCTACGATCAA
GGAGAACCATTCAACGAAATGTCGATAATATCCTGCAGCCCTAGAAAACTATGGAT
Found at i:16611319 original size:49 final size:49
Alignment explanation
Indices: 16611242--16611336 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
16611232 TTATGCTATG
* * * *
16611242 CATTTCTAAACTTGGTCTTCCACTGTCTACACTTTTATCACTATTTATA
1 CATTGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTATA
* *
16611291 CATTGCTAAAATTAGTCTTCCATTGTCTACACTCTTATCATTATTT
1 CATTGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTT
16611337 TTACCTTCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.45
Consensus pattern (49 bp):
CATTGCTAAAATTAGTCTTCCACTGTCTACACTCTTATCACTATTTATA
Found at i:16612676 original size:43 final size:43
Alignment explanation
Indices: 16612628--16612709 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
16612618 ATCTCATTTC
16612628 TCATCTCATATTCATTTCTCATATTT-TCCATTTCAATATTTTA
1 TCATCTCATATTCATTTCTCATATTTGT-CATTTCAATATTTTA
*
16612671 TCATCTCATATTCATTTCTCATCTTTGTCATTTCAATAT
1 TCATCTCATATTCATTTCTCATATTTGTCATTTCAATAT
16612710 CAATCACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.52
Consensus pattern (43 bp):
TCATCTCATATTCATTTCTCATATTTGTCATTTCAATATTTTA
Found at i:16628300 original size:191 final size:191
Alignment explanation
Indices: 16627976--16628357 Score: 755
Period size: 191 Copynumber: 2.0 Consensus size: 191
16627966 TTGGTCATTT
16627976 AGTTAATAAAAGAATAAAAAGGGAAAATCAAGAAAAAATCTTGTCCATCTTCTCCCACCTTATTC
1 AGTTAATAAAAGAATAAAAAGGGAAAATCAAGAAAAAATCTTGTCCATCTTCTCCCACCTTATTC
16628041 AAAATTTGCAAGGGCTCCATAGCTAGGGTTTTCAACATTTCAAGCTTGATTGTAAGTGCTTCCAA
66 AAAATTTGCAAGGGCTCCATAGCTAGGGTTTTCAACATTTCAAGCTTGATTGTAAGTGCTTCCAA
16628106 GTCTCGTTTTTAATGTTCTTTACATTTTTTAAGTTGTCATCAACTGATCTAGCTATTTCTA
131 GTCTCGTTTTTAATGTTCTTTACATTTTTTAAGTTGTCATCAACTGATCTAGCTATTTCTA
*
16628167 AGTTAATAAAAGAATAAAAAGGGAAAATTAAGAAAAAATCTTGTCCATCTTCTCCCACCTTATTC
1 AGTTAATAAAAGAATAAAAAGGGAAAATCAAGAAAAAATCTTGTCCATCTTCTCCCACCTTATTC
16628232 AAAATTTGCAAGGGCTCCATAGCTAGGGTTTTCAACATTTCAAGCTTGATTGTAAGTGCTTCCAA
66 AAAATTTGCAAGGGCTCCATAGCTAGGGTTTTCAACATTTCAAGCTTGATTGTAAGTGCTTCCAA
16628297 GTCTCGTTTTTAATGTTCTTTACATTTTTTAAGTTGTCATCAACTGATCTAGCTATTTCTA
131 GTCTCGTTTTTAATGTTCTTTACATTTTTTAAGTTGTCATCAACTGATCTAGCTATTTCTA
16628358 CCATTAATTT
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
191 190 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (191 bp):
AGTTAATAAAAGAATAAAAAGGGAAAATCAAGAAAAAATCTTGTCCATCTTCTCCCACCTTATTC
AAAATTTGCAAGGGCTCCATAGCTAGGGTTTTCAACATTTCAAGCTTGATTGTAAGTGCTTCCAA
GTCTCGTTTTTAATGTTCTTTACATTTTTTAAGTTGTCATCAACTGATCTAGCTATTTCTA
Found at i:16629179 original size:45 final size:45
Alignment explanation
Indices: 16629122--16629212 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
16629112 GAACTATGTG
*
16629122 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
* * *
16629167 ATCTGAATTCATTGAGTTGTGGTCTAATTTCATGATGTATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
16629212 A
1 A
16629213 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
Found at i:16650924 original size:27 final size:27
Alignment explanation
Indices: 16650861--16650985 Score: 78
Period size: 27 Copynumber: 4.6 Consensus size: 27
16650851 CTCCCTAATC
*
16650861 CTCGTGTTT-ACTATCCCAACAAACTA-
1 CTCGTGTTTAAC-ATCCCATCAAACTAT
* *
16650887 C-CCTGAATTTAACATCCCATCAAAGTAT
1 CTCGTG--TTTAACATCCCATCAAACTAT
* * * *
16650915 CTCGTGTTTAACCTCTCGTCAGACTAT
1 CTCGTGTTTAACATCCCATCAAACTAT
* * * *
16650942 CTCATGTTTAAAAT-CTAGTCACACTAT
1 CTCGTGTTTAACATCCCA-TCAAACTAT
*
16650969 CTCGTGTTTAACGTCCC
1 CTCGTGTTTAACATCCC
16650986 GTTAGACTTC
Statistics
Matches: 72, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
25 3 0.04
26 1 0.01
27 61 0.85
28 4 0.06
29 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (27 bp):
CTCGTGTTTAACATCCCATCAAACTAT
Found at i:16655929 original size:63 final size:61
Alignment explanation
Indices: 16655806--16655986 Score: 215
Period size: 63 Copynumber: 2.9 Consensus size: 61
16655796 ACCCTTGGAA
* * *
16655806 AAGGTG-TGATGCAAGGAATGATTGTG-TGTTATGGTGCTTGTGTAAAATAAACTGGTGCTG
1 AAGGTGTTGATGCAAGGAATGATTGTGCTGTTGT-GTGCTTGTGTAAAATAAATTGGAGCTG
* * *
16655866 AATGTGTTGATGCAAGGAATGATTGTGCATGCTGTAGTGCTAGTGTAAAATAAATTGGAGCTG
1 AAGGTGTTGATGCAAGGAATGATTGTGC-TGTTGT-GTGCTTGTGTAAAATAAATTGGAGCTG
* *
16655929 AAGGTTTTGAT-CTAAGGAATGATTGTGCGTGTTGTGATGCTTGTGTCAAATAAATTGG
1 AAGGTGTTGATGC-AAGGAATGATTGTGC-TGTTGTG-TGCTTGTGTAAAATAAATTGG
16655987 GCTAGAACCA
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
60 5 0.05
61 20 0.19
62 2 0.02
63 76 0.74
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (61 bp):
AAGGTGTTGATGCAAGGAATGATTGTGCTGTTGTGTGCTTGTGTAAAATAAATTGGAGCTG
Found at i:16657301 original size:20 final size:20
Alignment explanation
Indices: 16657276--16657318 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16657266 GGGTAAGCCA
16657276 TGTGGCTCGAGACACGCCCG
1 TGTGGCTCGAGACACGCCCG
* *
16657296 TGTGGCTCGGGACACGCTCG
1 TGTGGCTCGAGACACGCCCG
16657316 TGT
1 TGT
16657319 CCTCAGCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.30, G:0.37, T:0.21
Consensus pattern (20 bp):
TGTGGCTCGAGACACGCCCG
Found at i:16659558 original size:40 final size:40
Alignment explanation
Indices: 16659503--16659729 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
16659493 CACCAACACA
* * * *
16659503 AAGCCTACGGGTCTTTAAGCCCGGATATAATTCCAGCA-T
1 AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCACG
* *
16659542 ATAGCCTGCAGATCTTTAAGCACGGATACAATTCCAGCACG
1 A-AGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCACG
* * *
16659583 AAGCTTGCGGA-CCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCACG
* *
16659622 AAGCCTGCGGA-CCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCACG
* * *
16659661 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATG
1 AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCACG
* *
16659701 AAGCCTGCGGGTCTTTAAGCCCAGATACA
1 AAGCCTGCGGATCTTTAAGCCCGGATACA
16659730 NATTTAATCA
Statistics
Matches: 166, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 74 0.45
40 91 0.55
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCACG
Found at i:16659609 original size:39 final size:39
Alignment explanation
Indices: 16659517--16659710 Score: 239
Period size: 39 Copynumber: 4.9 Consensus size: 39
16659507 CTACGGGTCT
* * * * *
16659517 TTAAGCCCGGATATAATTCCAGCA-TATAGCCTGCAGATCT
1 TTAAGTCCGGATACAATTCCAGCACGA-AGCCTGCGGA-CC
*
16659557 TTAAG-CACGGATACAATTCCAGCACGAAGCTTGCGGACC
1 TTAAGTC-CGGATACAATTCCAGCACGAAGCCTGCGGACC
16659596 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
* *
16659635 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCT
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACC
* * *
16659675 TTAAGCCCGGATATAATTCCAGCATGAAGCCTGCGG
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGG
16659711 GTCTTTAAGC
Statistics
Matches: 139, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 74 0.53
40 64 0.46
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (39 bp):
TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACC
Found at i:16659614 original size:79 final size:78
Alignment explanation
Indices: 16659503--16659721 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 78
16659493 CACCAACACA
* * * *
16659503 AAGCCTACGGGTCTTTAAGCCCGGATATAATTCCAGCATATAGCCTGCAGATCTTTAAGCACGGA
1 AAGCCTGCGGGACCTTAAGCCCGGATATAATTCCAGCATA-AGCCTGCGGATCTTTAAGC-CGGA
16659568 TACAATTCCAGCACG
64 TACAATTCCAGCACG
* * * * *
16659583 AAGCTTGC-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGA-CCTTAAGTCCGGA
1 AAGCCTGCGGGACCTTAAGCCCGGATATAATTCCAGCA-TAAGCCTGCGGATCTTTAAG-CCGGA
16659646 TACAATTCCAGCACG
64 TACAATTCCAGCACG
* * *
16659661 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATGAAGCCTGCGGGTCTTTAAGCC
1 AAGCCTGCGGGACCTTAAGCCCGGATATAATTCCAGCAT-AAGCCTGCGGATCTTTAAGCC
16659722 CAGATACANA
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
78 32 0.27
79 72 0.62
80 13 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (78 bp):
AAGCCTGCGGGACCTTAAGCCCGGATATAATTCCAGCATAAGCCTGCGGATCTTTAAGCCGGATA
CAATTCCAGCACG
Found at i:16659775 original size:28 final size:28
Alignment explanation
Indices: 16659741--16659822 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
16659731 ATTTAATCAT
** *
16659741 TCAATATTTTTCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
16659769 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
16659797 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
16659823 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:16664832 original size:12 final size:12
Alignment explanation
Indices: 16664815--16664840 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16664805 ACCAACAAAG
16664815 AAGTAAATAAAT
1 AAGTAAATAAAT
16664827 AAGTAAATAAAT
1 AAGTAAATAAAT
16664839 AA
1 AA
16664841 AACTAAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAGTAAATAAAT
Found at i:16666860 original size:23 final size:23
Alignment explanation
Indices: 16666797--16666861 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
16666787 AGGCAAATTA
* *
16666797 TTTGTGAAGCCTTTGTGACGTAT
1 TTTGTGAAGCCTTTGTGGCATAT
*
16666820 TCTGTGAAGCCTTTGTGGCATAT
1 TTTGTGAAGCCTTTGTGGCATAT
*
16666843 TTTGTAAAGCCTTTGTGGC
1 TTTGTGAAGCCTTTGTGGC
16666862 TTACTCTGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.42
Consensus pattern (23 bp):
TTTGTGAAGCCTTTGTGGCATAT
Found at i:16666871 original size:23 final size:23
Alignment explanation
Indices: 16666795--16666872 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
16666785 TTAGGCAAAT
* * *
16666795 TATT-TGTGAAGCCTTTGTGACG
1 TATTCTGTAAAGCCTTTGTGGCA
*
16666817 TATTCTGTGAAGCCTTTGTGGCA
1 TATTCTGTAAAGCCTTTGTGGCA
* *
16666840 TATTTTGTAAAGCCTTTGTGGCT
1 TATTCTGTAAAGCCTTTGTGGCA
*
16666863 TACTCTGTAA
1 TATTCTGTAA
16666873 CGTCTAAATG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 4 0.08
23 44 0.92
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.42
Consensus pattern (23 bp):
TATTCTGTAAAGCCTTTGTGGCA
Found at i:16671275 original size:14 final size:15
Alignment explanation
Indices: 16671242--16671277 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
16671232 GGATTATATT
16671242 ATTACAAAAGGAAAG
1 ATTACAAAAGGAAAG
*
16671257 TTTACAAAA-GAAAG
1 ATTACAAAAGGAAAG
16671271 ATTACAA
1 ATTACAA
16671278 GGAGAGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.19
Consensus pattern (15 bp):
ATTACAAAAGGAAAG
Found at i:16673893 original size:14 final size:14
Alignment explanation
Indices: 16673870--16673911 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
16673860 TTGAAATATC
16673870 TTCTTCTTGTAATCT
1 TTCTT-TTGTAATCT
*
16673885 TTCTTTTGTAAACT
1 TTCTTTTGTAATCT
16673899 TTCCTTTTGTAAT
1 TT-CTTTTGTAAT
16673912 AATATAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (14 bp):
TTCTTTTGTAATCT
Found at i:16676236 original size:19 final size:19
Alignment explanation
Indices: 16676212--16676248 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16676202 GAAAACCCAT
16676212 ATTTCTGAACAAAGAGCTA
1 ATTTCTGAACAAAGAGCTA
16676231 ATTTCTGAACAAAGAGCT
1 ATTTCTGAACAAAGAGCT
16676249 CTTACAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
ATTTCTGAACAAAGAGCTA
Found at i:16677849 original size:12 final size:11
Alignment explanation
Indices: 16677821--16677851 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
16677811 AATTTTAATT
16677821 TTTTTAATAAA
1 TTTTTAATAAA
16677832 TTTTTAATAAA
1 TTTTTAATAAA
16677843 TTATTTAAT
1 TT-TTTAAT
16677852 CCAATTGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTTAATAAA
Found at i:16677904 original size:17 final size:17
Alignment explanation
Indices: 16677882--16677915 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16677872 AACCAATTAG
16677882 TCTTTCTAAATAAGGCC
1 TCTTTCTAAATAAGGCC
16677899 TCTTTCTAAATAAGGCC
1 TCTTTCTAAATAAGGCC
16677916 ACGAGACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
TCTTTCTAAATAAGGCC
Found at i:16681471 original size:119 final size:115
Alignment explanation
Indices: 16681122--16681544 Score: 308
Period size: 119 Copynumber: 3.6 Consensus size: 115
16681112 AGAGACATCT
* * * * * *
16681122 CAAACAATGCTACCTTATCTCAAAATCATAAATTTCAAATCTTTACACTTTGAAGTAACAATAAA
1 CAAACACTGGTACCTTATGTCAAAATCATAAA-TTCAAATATTTACATTTTAAAGTAACAATAAA
* * * * * * * *
16681187 AGGAATTTA-TCATTGTACAGACACATATATGTCCTTGGTCTCACAGACACGGAC
65 TGCAA-TTAGTCATAGTACACACACACA-ACGT-CTTGGTCT-ACAGAGACAGAC
* * * *
16681241 CAAACATTGGTACCTTATGTCAAAATGATAAAATTCAAATATTTACATTTTACAGCAACAATAAA
1 CAAACACTGGTACCTTATGTCAAAATCAT-AAATTCAAATATTTACATTTTAAAGTAACAATAAA
* * * *
16681306 TGCAATTTGCCATAGAACACACA-AGCGAATCTGTCTCT-GTCT-CAGAGACAGAT
65 TGCAATTAGTCATAGTACACACACA-C-AA-C-GTCT-TGGTCTACAGAGACAGAC
* * *
16681359 CGAACCCTGGTACCTTATGTCAAAAACCATGAAATTCAAATATTTACATTTTAAAGTAACAATAA
1 CAAACACTGGTACCTTATGTC-AAAATCAT-AAATTCAAATATTTACATTTTAAAGTAACAATAA
* *
16681424 ATGCAATTAGTCATAGTACACAGACACACACGTCTTGGTCTAACAGAG--AGAT
64 ATGCAATTAGTCATAGTACACACACACA-ACGTCTTGGTCT-ACAGAGACAGAC
* * * * * * *
16681476 CAAATATTGGCT-CCTT-TG--AAAATAAAAAATTTCAAATATTTACATCTTAAATTGACAATAA
1 CAAACACTGG-TACCTTATGTCAAAATCATAAA-TTCAAATATTTACATTTTAAAGTAACAATAA
*
16681537 ATGGAATT
64 ATGCAATT
16681545 TGCCATGGTT
Statistics
Matches: 245, Mismatches: 44, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
112 3 0.01
113 40 0.16
116 3 0.01
117 22 0.09
118 32 0.13
119 131 0.53
120 11 0.04
121 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (115 bp):
CAAACACTGGTACCTTATGTCAAAATCATAAATTCAAATATTTACATTTTAAAGTAACAATAAAT
GCAATTAGTCATAGTACACACACACAACGTCTTGGTCTACAGAGACAGAC
Found at i:16689661 original size:2 final size:2
Alignment explanation
Indices: 16689648--16689677 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16689638 CTATATGTAC
*
16689648 AT AT AT AC 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
16689678 GAGAATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16691966 original size:37 final size:37
Alignment explanation
Indices: 16691916--16691994 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
16691906 TTATTACGAA
* * *
16691916 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
16691953 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
16691990 GTCTT
1 GTCTT
16691995 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:16692506 original size:24 final size:23
Alignment explanation
Indices: 16692458--16692515 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
16692448 TAATCAAACA
16692458 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
16692482 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
16692506 TTATT-TTATA
1 TTATTATTATA
16692516 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:16696420 original size:51 final size:51
Alignment explanation
Indices: 16696344--16696444 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
16696334 GATTTTTGCA
16696344 TATTATATGATTATGTCATATTGTAACTTAGATTAGTGAATTAGAAAAGGC
1 TATTATATGATTATGTCATATTGTAACTTAGATTAGTGAATTAGAAAAGGC
*
16696395 TATTATATGATTATGTCTTATTGTAACTTAGATTAGTGAATTAGAAAAGG
1 TATTATATGATTATGTCATATTGTAACTTAGATTAGTGAATTAGAAAAGG
16696445 TCAAATGGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.41
Consensus pattern (51 bp):
TATTATATGATTATGTCATATTGTAACTTAGATTAGTGAATTAGAAAAGGC
Found at i:16698453 original size:15 final size:15
Alignment explanation
Indices: 16698404--16698455 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 15
16698394 GCATTAATTA
16698404 TTTTTTAA-ATC-AT
1 TTTTTTAATATCTAT
*
16698417 TTCTTT-ATATCTAT
1 TTTTTTAATATCTAT
16698431 ATTATTTTAATATCTAT
1 -TT-TTTTAATATCTAT
16698448 TTTTTTAA
1 TTTTTTAA
16698456 AATATCGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 1 0.03
13 8 0.25
14 2 0.06
15 8 0.25
16 5 0.16
17 8 0.25
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAATATCTAT
Found at i:16700476 original size:29 final size:29
Alignment explanation
Indices: 16700434--16700492 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
16700424 TTGACTGTCT
16700434 TAATATTTATTATGTAGGG-TTTTCAATTA
1 TAATATTTATTATGT-GGGATTTTCAATTA
*
16700463 TAATATTTATTATGTGGGATTTTTAATTA
1 TAATATTTATTATGTGGGATTTTCAATTA
16700492 T
1 T
16700493 GTTTCTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (29 bp):
TAATATTTATTATGTGGGATTTTCAATTA
Found at i:16719372 original size:27 final size:27
Alignment explanation
Indices: 16719341--16719518 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16719331 TAAATTGTAC
16719341 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16719368 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16719394 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16719422 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16719450 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16719477 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16719504 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16719519 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16719455 original size:82 final size:81
Alignment explanation
Indices: 16719342--16719497 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16719332 AAATTGTACA
* *
16719342 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16719406 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16719423 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16719488 TGCGAGTTGA
65 TGCGAATTGA
16719498 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16719509 original size:82 final size:81
Alignment explanation
Indices: 16719338--16719518 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
16719328 GATTAAATTG
* *
16719338 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16719403 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16719419 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16719483 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16719501 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16719519 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16727562 original size:27 final size:27
Alignment explanation
Indices: 16727531--16727708 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16727521 TAAATTGTAC
16727531 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16727558 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16727584 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16727612 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16727640 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16727667 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16727694 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16727709 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16727645 original size:82 final size:81
Alignment explanation
Indices: 16727532--16727687 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16727522 AAATTGTACA
* *
16727532 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16727596 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16727613 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
16727678 TGCGAGTTGA
65 TGCGAATTGA
16727688 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16727699 original size:82 final size:81
Alignment explanation
Indices: 16727528--16727708 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
16727518 GATTAAATTG
* *
16727528 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16727593 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16727609 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
16727673 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
16727691 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16727709 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16731230 original size:20 final size:22
Alignment explanation
Indices: 16731190--16731230 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
16731180 TTTCTTTACT
*
16731190 TTTAGTTGATATTCTATTATTG
1 TTTAGTTGATATTCTAATATTG
16731212 TTTAGTTG-T-TTCTAATATT
1 TTTAGTTGATATTCTAATATT
16731231 TTATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.61
Consensus pattern (22 bp):
TTTAGTTGATATTCTAATATTG
Found at i:16732151 original size:15 final size:15
Alignment explanation
Indices: 16732131--16732167 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16732121 CTAACATTAC
16732131 TTAATTACATTTCCA
1 TTAATTACATTTCCA
16732146 TTAATTACATTTCCA
1 TTAATTACATTTCCA
*
16732161 TTCATTA
1 TTAATTA
16732168 AGTTTTCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATTACATTTCCA
Found at i:16735800 original size:20 final size:20
Alignment explanation
Indices: 16735775--16735825 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
16735765 TGGGTAGGGG
16735775 ACACGGGCGTGCCCCAAAGC
1 ACACGGGCGTGCCCCAAAGC
16735795 ACACGGGCGTGCCCCAAAGC
1 ACACGGGCGTGCCCCAAAGC
16735815 ACACGGGCGTG
1 ACACGGGCGTG
16735826 TGCGTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.37, G:0.33, T:0.06
Consensus pattern (20 bp):
ACACGGGCGTGCCCCAAAGC
Found at i:16736230 original size:17 final size:15
Alignment explanation
Indices: 16736206--16736242 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16736196 CAGGCCATGT
*
16736206 GTCACACATAACTGA
1 GTCACACACAACTGA
16736221 GTCACACACAACTGA
1 GTCACACACAACTGA
16736236 GTCACAC
1 GTCACAC
16736243 GCCCGTGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (15 bp):
GTCACACACAACTGA
Found at i:16738475 original size:25 final size:25
Alignment explanation
Indices: 16738447--16738496 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
16738437 ACCATTCAAG
* *
16738447 AACATTCATGGTAAGTCCCTAAACA
1 AACATTCAAGGCAAGTCCCTAAACA
16738472 AACATTCAAGGCAAGTCCCTAAACA
1 AACATTCAAGGCAAGTCCCTAAACA
16738497 TTTAACATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (25 bp):
AACATTCAAGGCAAGTCCCTAAACA
Found at i:16741166 original size:24 final size:25
Alignment explanation
Indices: 16741139--16741190 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
16741129 GCCTAGCCTC
16741139 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
16741163 TTTTAGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
16741188 TTT
1 TTT
16741191 CGCACTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:16741266 original size:21 final size:21
Alignment explanation
Indices: 16741242--16741281 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16741232 ATGAGTATAT
*
16741242 CATAGCATATCATGTGCATCC
1 CATAACATATCATGTGCATCC
16741263 CATAACATATCATGTGCAT
1 CATAACATATCATGTGCAT
16741282 ATTATGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (21 bp):
CATAACATATCATGTGCATCC
Found at i:16743673 original size:47 final size:46
Alignment explanation
Indices: 16743607--16743824 Score: 187
Period size: 47 Copynumber: 4.6 Consensus size: 46
16743597 ATTGTGGGCT
16743607 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-TATGAGAGCC
* * * *
16743653 AGTGTAAGACTATGTCTGGGACATGGCATCGG-CATCGAAACGAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCA-CGATATGAGAGCC
* * * *
16743701 AGTGTAAGACATGTCTGGTACATGCATCGGCTACGATATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATGAGAGCC
* * * *
16743747 AGTGTAAGACCATGTCCT-GGATATGGCATCGACTTGA-GATAT--GAGCA
1 AGTGTAAGA-CATGT-CTGGGACAT-GCATCGGC--CACGATATGAGAGCC
16743794 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
16743825 ACATCCTACC
Statistics
Matches: 141, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
46 35 0.25
47 66 0.47
48 33 0.23
49 6 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATGAGAGCC
Found at i:16743773 original size:94 final size:94
Alignment explanation
Indices: 16743604--16743824 Score: 263
Period size: 94 Copynumber: 2.3 Consensus size: 94
16743594 GTTATTGTGG
*
16743604 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACTATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
16743669 TGGGACATGGCATCGGCATCGAAACGAGT
66 TGGGACATGGCATCGGCATCGAAACGAGT
* * * *
16743698 GCTAGTGTAAGACATGTCTGGTACATGCATCGGCTACGA-TATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATGT
* * * *
16743762 CCT-GGATATGGCATCGAC-TTGAGATATGA--
65 -CTGGGACATGGCATCGGCATCGA-A-ACGAGT
*
16743791 GCAAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
16743825 ACATCCTACC
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
93 14 0.13
94 84 0.76
95 12 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATCGAAACGAGT
Found at i:16745533 original size:43 final size:42
Alignment explanation
Indices: 16745457--16745627 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 42
16745447 ATAGGATTTC
* * *
16745457 CGATATGTGATCTCTGTAAGACCAGGT-TCGGGACATTGGCAT
1 CGATATGTGATTTCAGTAAGACCATGTCT-GGGACATTGGCAT
* *
16745499 CGATATGTGATTTCGAGTAAGACCATGTCTGGGACATCGACAT
1 CGATATGTGATTTC-AGTAAGACCATGTCTGGGACATTGGCAT
* * * * *
16745542 CG-TAATTGTGA-TTCGTGTAAGACCCTATCTGGGATAGTGGCAT
1 CGAT-A-TGTGATTTC-AGTAAGACCATGTCTGGGACATTGGCAT
* * * * *
16745585 CGACATGTGATTACATGTAAGACCACGTATGGGACGTTGGCAT
1 CGATATGTGATTTCA-GTAAGACCATGTCTGGGACATTGGCAT
16745628 TGTACGATAT
Statistics
Matches: 100, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
42 19 0.19
43 75 0.75
44 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
CGATATGTGATTTCAGTAAGACCATGTCTGGGACATTGGCAT
Found at i:16750811 original size:19 final size:19
Alignment explanation
Indices: 16750784--16750849 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
16750774 TATGAGATTG
*
16750784 AATTGAAATCAGGAAACGC
1 AATTCAAATCAGGAAACGC
*** *
16750803 AATTCAAATTCTCAAAATG-
1 AATTCAAA-TCAGGAAACGC
*
16750822 AATTGAAATCAGGAAACGC
1 AATTCAAATCAGGAAACGC
16750841 AATTCAAAT
1 AATTCAAAT
16750850 TCTCAAAATA
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
18 6 0.18
19 22 0.65
20 6 0.18
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.23
Consensus pattern (19 bp):
AATTCAAATCAGGAAACGC
Found at i:16750824 original size:38 final size:38
Alignment explanation
Indices: 16750782--16750858 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
16750772 GATATGAGAT
16750782 TGAATTGAAATCAGGAAACGCAATTCAAATTCTCAAAA
1 TGAATTGAAATCAGGAAACGCAATTCAAATTCTCAAAA
16750820 TGAATTGAAATCAGGAAACGCAATTCAAATTCTCAAAA
1 TGAATTGAAATCAGGAAACGCAATTCAAATTCTCAAAA
16750858 T
1 T
16750859 ATTTATTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.25
Consensus pattern (38 bp):
TGAATTGAAATCAGGAAACGCAATTCAAATTCTCAAAA
Found at i:16751322 original size:14 final size:14
Alignment explanation
Indices: 16751303--16751332 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16751293 GTGTTTATTT
*
16751303 TGTGTGAATTTTCA
1 TGTGTGAAATTTCA
16751317 TGTGTGAAATTTCA
1 TGTGTGAAATTTCA
16751331 TG
1 TG
16751333 AATTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (14 bp):
TGTGTGAAATTTCA
Found at i:16756473 original size:30 final size:30
Alignment explanation
Indices: 16756439--16756499 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16756429 TCCTTAACTC
16756439 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
16756469 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
16756499 A
1 A
16756500 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:16758467 original size:19 final size:19
Alignment explanation
Indices: 16758443--16758482 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16758433 TCTCGGGTAT
16758443 GGGGCGTTACATCGAGTAC
1 GGGGCGTTACATCGAGTAC
*
16758462 GGGGCGTTACATCGGGTAC
1 GGGGCGTTACATCGAGTAC
16758481 GG
1 GG
16758483 ATAAGGGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.42, T:0.20
Consensus pattern (19 bp):
GGGGCGTTACATCGAGTAC
Found at i:16758641 original size:17 final size:15
Alignment explanation
Indices: 16758617--16758653 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
16758607 TAGGCCATGT
*
16758617 GTCACACATAACTGA
1 GTCACACACAACTGA
16758632 GTCACACACAACTGA
1 GTCACACACAACTGA
16758647 GTCACAC
1 GTCACAC
16758654 GCCCGTGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.16
Consensus pattern (15 bp):
GTCACACACAACTGA
Done.