Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 162 of 770
Found at i:47836993 original size:27 final size:27
Alignment explanation
Indices: 47836926--47837005 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
47836916 CTGGTTTGTG
* *
47836926 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTATAGAAATACCCTTG-GTTTAC--A
*
47836955 AAATTATAGAAATACCTTTGGTTTACA
1 AAATTATAGAAATACCCTTGGTTTACA
47836982 AAATTA-ATGAAATACCCTTGGTTT
1 AAATTATA-GAAATACCCTTGGTTT
47837006 GTAGATTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.49
28 3 0.07
29 19 0.42
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (27 bp):
AAATTATAGAAATACCCTTGGTTTACA
Found at i:47837945 original size:25 final size:25
Alignment explanation
Indices: 47837907--47837976 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
47837897 AGGAAGTGCT
* *
47837907 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
47837932 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
47837957 AAAAGGGCTTTACCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
47837977 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:47840345 original size:49 final size:49
Alignment explanation
Indices: 47840268--47840512 Score: 319
Period size: 49 Copynumber: 4.9 Consensus size: 49
47840258 TAGCCGAAGC
* *
47840268 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
47840317 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * ** * *
47840367 CATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
47840418 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
47840467 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
47840513 TCACAATAGC
Statistics
Matches: 167, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 84 0.50
50 46 0.28
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:47840449 original size:101 final size:98
Alignment explanation
Indices: 47840281--47840512 Score: 338
Period size: 100 Copynumber: 2.3 Consensus size: 98
47840271 CTGGTACGCA
* * *
47840281 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
47840346 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* *
47840380 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
* ** *
47840445 TAGTACTACACATGCGACCAATTATCTGGTACACG
64 TAGTACTACACACGCGACCAACCATCTGATACACG
47840480 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
47840513 TCACAATAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
99 30 0.25
100 46 0.39
101 43 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:47844681 original size:40 final size:40
Alignment explanation
Indices: 47844593--47844682 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
47844583 ATGCTGGAAA
*
47844593 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
* * *
47844633 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GCGG
47844673 TTATATCCGG
1 TTATATCCGG
47844683 TTGTATTCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 4 0.10
40 38 0.90
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
Found at i:47852109 original size:124 final size:124
Alignment explanation
Indices: 47851887--47852111 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
47851877 GAATTATGTG
* * * * * * *
47851887 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
47851952 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
47852011 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
47852076 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
47852112 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:47852233 original size:40 final size:40
Alignment explanation
Indices: 47852106--47852235 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
47852096 TTGCTGGAAA
* * *
47852106 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
47852146 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
47852186 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
47852226 TTATATCCGG
1 TTATATCCGG
47852236 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:47853089 original size:31 final size:31
Alignment explanation
Indices: 47853046--47853115 Score: 131
Period size: 31 Copynumber: 2.2 Consensus size: 31
47853036 GTGAATGAGC
47853046 TATGTGAATGAACCTTGATGAGTCTATTTTCA
1 TATG-GAATGAACCTTGATGAGTCTATTTTCA
47853078 TATGGAATGAACCTTGATGAGTCTATTTTCA
1 TATGGAATGAACCTTGATGAGTCTATTTTCA
47853109 TATGGAA
1 TATGGAA
47853116 GAAACGAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (31 bp):
TATGGAATGAACCTTGATGAGTCTATTTTCA
Found at i:47854175 original size:15 final size:15
Alignment explanation
Indices: 47854146--47854184 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
47854136 AACAGAGAAG
47854146 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
47854162 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
47854177 CCATGATA
1 CCAAGATA
47854185 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:47859056 original size:48 final size:48
Alignment explanation
Indices: 47858985--47859090 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
47858975 CAAGATAAAT
* * *
47858985 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47859033 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47859081 ATGTGTATAT
1 ATATGTATAT
47859091 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:47859273 original size:37 final size:37
Alignment explanation
Indices: 47859223--47859294 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
47859213 GAAATATATT
*
47859223 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
47859260 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
47859295 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:47861111 original size:43 final size:43
Alignment explanation
Indices: 47860989--47861116 Score: 211
Period size: 43 Copynumber: 3.0 Consensus size: 43
47860979 CTCGGTAATG
* *
47860989 TGTATTCGGGCCTTCATGCCTAGCAGGCTTCGTGTCGGTGATA
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATA
47861032 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATA
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATA
* **
47861075 TGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCGGTGAT
1 TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGAT
47861117 TCGAGCAAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.32
Consensus pattern (43 bp):
TGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATA
Found at i:47861360 original size:27 final size:28
Alignment explanation
Indices: 47861273--47861372 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
47861263 ATGATTAGAG
* * *
47861273 GCACTGTGTGTGCAAATTCATTAACCGA
1 GCACTATGTGTGCGAGTTCATTAACCGA
* * **
47861301 GCACTATGTGTGCGAGATCAGTAATTGA
1 GCACTATGTGTGCGAGTTCATTAACCGA
*
47861329 GGCACTGTGTGTGCGAGTTC-TTCAA-CGA
1 -GCACTATGTGTGCGAGTTCATT-AACCGA
47861357 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
47861373 ATCGGTCAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
27 15 0.26
28 24 0.41
29 19 0.33
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGTTCATTAACCGA
Found at i:47864842 original size:48 final size:48
Alignment explanation
Indices: 47864771--47864876 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
47864761 TACAAGATAA
* * *
47864771 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
47864819 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
47864867 ATGTGTATAT
1 ATATGTATAT
47864877 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:47865060 original size:37 final size:37
Alignment explanation
Indices: 47865010--47865081 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
47865000 GAAATATATT
*
47865010 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
47865047 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
47865082 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:47866446 original size:49 final size:49
Alignment explanation
Indices: 47866374--47866618 Score: 328
Period size: 49 Copynumber: 4.9 Consensus size: 49
47866364 TAGCCGAAGC
*
47866374 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
47866423 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * ** * *
47866473 CATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
47866524 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
47866573 TATCTGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
47866619 TCACAATAGC
Statistics
Matches: 170, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 85 0.50
50 48 0.28
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:47866557 original size:101 final size:98
Alignment explanation
Indices: 47866375--47866618 Score: 328
Period size: 100 Copynumber: 2.5 Consensus size: 98
47866365 AGCCGAAGCT
* * * * * *
47866375 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
1 ATCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
*
47866440 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACC-AACC
* *
47866474 ATCTGATACA-TGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCAT
1 ATCTGATACACT-TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACAT
* **
47866538 AGTAGCCTGCACTTAGTACTACACATGCGACCAATT
63 AGTAGCCTGCACTTAGTACTACACACGCGACCAACC
*
47866574 ATCTGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGACC
47866619 TCACAATAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
99 39 0.31
100 45 0.35
101 43 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
ATCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCAACC
Found at i:47873935 original size:22 final size:22
Alignment explanation
Indices: 47873893--47873936 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
47873883 AATTATTTAC
* *
47873893 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
47873915 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
47873937 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:47874237 original size:40 final size:40
Alignment explanation
Indices: 47874163--47874378 Score: 328
Period size: 40 Copynumber: 5.4 Consensus size: 40
47874153 AACCTAAGTA
* *
47874163 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
47874202 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
47874242 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
47874282 CCTTTGGGACCTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
47874322 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
47874362 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
47874379 ATATATCATT
Statistics
Matches: 161, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 146 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:47876346 original size:39 final size:39
Alignment explanation
Indices: 47876292--47876435 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
47876282 GAATGTTCGA
47876292 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
47876331 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
47876370 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
47876409 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
47876436 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:47876382 original size:78 final size:79
Alignment explanation
Indices: 47876293--47876475 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
47876283 AATGTTCGAG
47876293 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
47876357 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
47876371 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
47876436 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
47876450 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
47876476 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:47879107 original size:40 final size:40
Alignment explanation
Indices: 47878980--47879109 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
47878970 ATGCTGGAAA
* * *
47878980 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
47879020 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
47879060 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
47879100 TTATATCCGG
1 TTATATCCGG
47879110 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:47889647 original size:71 final size:71
Alignment explanation
Indices: 47889526--47889659 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
47889516 GTTTTCCAAG
* * *
47889526 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
47889591 GTTTCA
66 GTTTCA
* * *
47889597 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
47889660 CTACTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:47889699 original size:160 final size:160
Alignment explanation
Indices: 47889435--47889976 Score: 980
Period size: 160 Copynumber: 3.4 Consensus size: 160
47889425 TTGTTTTTTC
47889435 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
47889500 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
47889565 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
*
47889595 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
*
47889660 CTACTTTTTAATTCATGTTTTCCAACAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
47889725 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
*
47889755 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * *
47889820 CTGCTTTTTAGTTCATG-TTTCCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
47889884 GACACGTTGAGGAAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * *
47889914 C-AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATT
1 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
47889977 CCTATTAAAT
Statistics
Matches: 371, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
158 58 0.16
159 75 0.20
160 238 0.64
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (160 bp):
CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTACTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:47889807 original size:71 final size:71
Alignment explanation
Indices: 47889686--47889819 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
47889676 GTTTTCCAAC
* * *
47889686 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
47889751 GTTTCA
66 GTTTCA
* * *
47889757 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
47889820 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:47889965 original size:70 final size:70
Alignment explanation
Indices: 47889845--47890096 Score: 274
Period size: 74 Copynumber: 3.5 Consensus size: 70
47889835 TGTTTCCAAG
* * * * *
47889845 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGAAATTTCAATT-TA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
47889909 TGTTTC
66 T-TTTC
* * *
47889915 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATT-CT
*
47889980 ATTAAATC
65 ATT--TTC
* * * *
47889988 TAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTC
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTC-AATTC
47890053 TATTTTC
64 TATTTTC
* * *
47890060 AAAAGTTAATTCATATTGTGA-AAGGTGAGTTGAGCCT
1 AAAA-TCAACTCATATTGCGAGAA-GTGAGTTGAGCCT
47890097 TTAATTTTCG
Statistics
Matches: 155, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
70 54 0.35
71 7 0.05
72 31 0.20
73 2 0.01
74 57 0.37
75 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
TTTTC
Found at i:47890153 original size:67 final size:65
Alignment explanation
Indices: 47890042--47890283 Score: 272
Period size: 67 Copynumber: 3.6 Consensus size: 65
47890032 CGCTAAGGTA
* * * * *
47890042 TTTTCAAATTCTATTTTCAAAAGTTAATTCATATTGTGAAAGGTGAGTTGAGCCTTTAATTTTCG
1 TTTTCAAAATCTATTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCG
47890107 T
65 T
47890108 TTTTCAAAATCTACTTTTCAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
1 TTTTCAAAATCTA-TTTTCAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTC
47890173 GT
64 GT
* * *
47890175 TTCTCAAAATCTACTTTTCAAATTATTAACTCATGTTGCGAGAGGTGAGTTGAGCCTTTTAA-TT
1 TTTTCAAAATCTA-TTTTCAAA--ATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTT
*
47890239 TCTGC
62 TC-GT
** *
47890244 TTTT-AATTTCTATGTTTCAAAAATCAACCCATATTGCGAG
1 TTTTCAAAATCTAT-TTTC-AAAATCAACTCATATTGCGAG
47890284 GAATATGTTG
Statistics
Matches: 153, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
66 12 0.08
67 84 0.55
68 45 0.29
69 12 0.08
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (65 bp):
TTTTCAAAATCTATTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCGT
Found at i:47890248 original size:13 final size:13
Alignment explanation
Indices: 47890230--47890254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47890220 TGAGTTGAGC
47890230 CTTTTAATTTCTG
1 CTTTTAATTTCTG
47890243 CTTTTAATTTCT
1 CTTTTAATTTCT
47890255 ATGTTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:47892470 original size:40 final size:40
Alignment explanation
Indices: 47892307--47892472 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
47892297 AAATTGAATG
* * **
47892307 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
47892346 ATATCC-GGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
47892385 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
47892425 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
47892465 ATATCCGG
1 ATATCCGG
47892473 TTATATTCCG
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
38 6 0.06
39 33 0.32
40 61 0.60
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:47895942 original size:40 final size:40
Alignment explanation
Indices: 47895876--47896042 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
47895866 AAATTGAATG
* * *
47895876 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47895915 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47895955 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
47895995 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
47896035 ATATCCGG
1 ATATCCGG
47896043 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47899131 original size:2 final size:2
Alignment explanation
Indices: 47899115--47899150 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
47899105 ATTTGAGTGT
*
47899115 TA TA T- TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47899151 TTCCAATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:47901131 original size:10 final size:9
Alignment explanation
Indices: 47901116--47901190 Score: 62
Period size: 10 Copynumber: 7.8 Consensus size: 9
47901106 CTCTCTCAAC
47901116 AAAAATTACA
1 AAAAATTA-A
47901126 AAAAATTCAA
1 AAAAATT-AA
47901136 AAAAATTAA
1 AAAAATTAA
*
47901145 AAAGA-TAA
1 AAAAATTAA
*
47901153 AAAAATATAT
1 AAAAAT-TAA
*
47901163 AAAAATAAAA
1 AAAAAT-TAA
47901173 AAAAATTTAA
1 AAAAA-TTAA
47901183 AAGAAATT
1 AA-AAATT
47901191 CTAAAAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
8 7 0.13
9 6 0.11
10 36 0.67
11 5 0.09
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:47901139 original size:20 final size:19
Alignment explanation
Indices: 47901111--47901197 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
47901101 TTGGTCTCTC
47901111 TCAACAAAAATTACAAAAAAT
1 TCAA-AAAAATTA-AAAAAAT
*
47901132 TCAAAAAAATTAAAAAGA-
1 TCAAAAAAATTAAAAAAAT
*
47901150 T-AAAAAAATATATAAAAAT
1 TCAAAAAAAT-TAAAAAAAT
**
47901169 AAAAAAAAATTTAAAAGAAAT
1 TCAAAAAAA-TTAAAA-AAAT
47901190 TCTAAAAA
1 TC-AAAAA
47901198 TTTCAAAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.15
18 7 0.13
19 5 0.09
20 19 0.36
21 9 0.17
22 5 0.09
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
TCAAAAAAATTAAAAAAAT
Found at i:47901157 original size:37 final size:37
Alignment explanation
Indices: 47901116--47901186 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
47901106 CTCTCTCAAC
**
47901116 AAAAAT-TACAAAAAATTCAAAAAAATTAAAAAGATAA
1 AAAAATATA-AAAAAATAAAAAAAAATTAAAAAGATAA
* *
47901153 AAAAATATATAAAAATAAAAAAAAATTTAAAAGA
1 AAAAATATAAAAAAATAAAAAAAAATTAAAAAGA
47901187 AATTCTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 27 0.93
38 2 0.07
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (37 bp):
AAAAATATAAAAAAATAAAAAAAAATTAAAAAGATAA
Found at i:47901196 original size:21 final size:22
Alignment explanation
Indices: 47901172--47901219 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
47901162 TAAAAATAAA
47901172 AAAAAATTT-AAAAGAAATTCT
1 AAAAAATTTAAAAAGAAATTCT
47901193 -AAAAATTTCAAAAAGAAATTCT
1 AAAAAATTT-AAAAAGAAATTCT
47901215 AAAAA
1 AAAAA
47901220 GTATATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.33
22 12 0.50
23 4 0.17
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAAAATTTAAAAAGAAATTCT
Found at i:47903058 original size:68 final size:64
Alignment explanation
Indices: 47902948--47903200 Score: 228
Period size: 68 Copynumber: 3.9 Consensus size: 64
47902938 ATACAGATGG
** * * * *
47902948 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCAACGAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
47903011 ATTA
62 A-TA
*
47903015 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
47903080 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
47903145 TA
63 TA
* * *
47903147 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
47903201 CAAAATTATG
Statistics
Matches: 155, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.15
65 3 0.02
66 22 0.14
67 34 0.22
68 51 0.33
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:47904943 original size:29 final size:29
Alignment explanation
Indices: 47904910--47905012 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
47904900 CCTTCGAGCT
** * *
47904910 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
47904939 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47904968 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47904997 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47905013 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47904944 original size:58 final size:58
Alignment explanation
Indices: 47904881--47905012 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
47904871 AATTTAAGCC
* * * * * *
47904881 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
47904939 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
47904997 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
47905013 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:47912232 original size:40 final size:40
Alignment explanation
Indices: 47912177--47912324 Score: 217
Period size: 40 Copynumber: 3.7 Consensus size: 40
47912167 TGAATGATAC
* * *
47912177 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
47912217 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
47912257 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
47912297 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
47912325 TTGTGATTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:47915104 original size:59 final size:60
Alignment explanation
Indices: 47915033--47915149 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 60
47915023 ATCACTTTAA
* * * *
47915033 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTAAATTTAATATTAAATGT
1 TATTAAAATAATAAAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATGT
* *
47915092 TATTAAAATAATAAAATGTTTATCTTGTAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAAAATATTTATC-T-AAGATAAACATTAAATTAAATTTAATATTAA
47915150 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 21 0.43
62 28 0.57
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.43
Consensus pattern (60 bp):
TATTAAAATAATAAAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATGT
Found at i:47919684 original size:5 final size:5
Alignment explanation
Indices: 47919676--47919732 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
47919666 AACCTAAATT
47919676 AATAA AATAA AATAA AATAAA AATAAA AATAAA TAATAA AATAA AAT--
1 AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA -AATAA AATAA AATAA
47919723 AATAA AATAA
1 AATAA AATAA
47919733 TATCTTCCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
3 3 0.06
5 26 0.54
6 16 0.33
7 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:47919700 original size:6 final size:6
Alignment explanation
Indices: 47919679--47919721 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
47919669 CTAAATTAAT
47919679 AAAAT- AAAAT- AAAATA AAAATA AAAATA AATAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA AAAATA AAA
47919722 TAATAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 13 0.37
6 19 0.54
7 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:47919715 original size:13 final size:12
Alignment explanation
Indices: 47919670--47919732 Score: 78
Period size: 12 Copynumber: 5.2 Consensus size: 12
47919660 TAGCCTAACC
47919670 TAAATTAATAAAA
1 TAAA-TAATAAAA
47919683 T-AA-AATAAAA
1 TAAATAATAAAA
47919693 TAAA-AATAAAAA
1 TAAATAAT-AAAA
47919705 TAAATAATAAAA
1 TAAATAATAAAA
47919717 TAAAATAATAAAA
1 T-AAATAATAAAA
47919730 TAA
1 TAA
47919733 TATCTTCCTA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.17
11 5 0.11
12 17 0.37
13 16 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAATAATAAAA
Found at i:47926731 original size:12 final size:12
Alignment explanation
Indices: 47926700--47926732 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
47926690 ATTTATTGAT
*
47926700 TGAATAATTTTG
1 TGAATAATTTCG
47926712 TGAA-AATTTCG
1 TGAATAATTTCG
47926723 TGAATAATTT
1 TGAATAATTT
47926733 TTATGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (12 bp):
TGAATAATTTCG
Found at i:47928148 original size:47 final size:46
Alignment explanation
Indices: 47928096--47928276 Score: 168
Period size: 47 Copynumber: 3.8 Consensus size: 46
47928086 ACTTGACGGT
* *
47928096 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATTGA
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCATAGA
* ** **
47928142 TTAAGGACT-CTATGTAAGACCACATCAAGATTTGGCATTGGCACTAAGA
1 -TAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGGCA-T-AGA
* *** *
47928191 CAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTA-AGA
1 TAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGCATAGA
* *
47928238 TAAGGATATCATGTAAGACCATGCCAAGACATGGCATTG
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTG
47928277 ATAAGTTCTA
Statistics
Matches: 105, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
45 3 0.03
46 8 0.08
47 60 0.57
48 21 0.20
49 8 0.08
50 5 0.05
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (46 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGCATAGA
Found at i:47928266 original size:95 final size:95
Alignment explanation
Indices: 47928097--47928276 Score: 204
Period size: 95 Copynumber: 1.9 Consensus size: 95
47928087 CTTGACGGTT
* *
47928097 AAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATTGATTAAGGACTCTATGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATAGATTAAGGAATCTATGTAAGAC
* **
47928162 CACATCAAGATTTGGCATTGGCACTAAGAC
66 CACACCAAGACATGGCATTGGCACTAAGAC
*** * *
47928192 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTA-AGA-TAAGGATATC-ATGTAA
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCATAGATTAAGGA-ATCTATGTAA
**
47928254 GACCATGCCAAGACATGGCATTG
63 GACCACACCAAGACATGGCATTG
47928277 ATAAGTTCTA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
95 54 0.77
96 12 0.17
97 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (95 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATAGATTAAGGAATCTATGTAAGAC
CACACCAAGACATGGCATTGGCACTAAGAC
Found at i:47928303 original size:54 final size:54
Alignment explanation
Indices: 47928239--47928446 Score: 240
Period size: 54 Copynumber: 3.9 Consensus size: 54
47928229 TTGGTAAGAT
*
47928239 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
47928293 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
47928348 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * * *
47928401 AACGATACCACGTAAAACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
47928447 AAAAAGGAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 3 0.02
53 41 0.31
54 42 0.32
55 42 0.32
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:47928447 original size:53 final size:54
Alignment explanation
Indices: 47928242--47928446 Score: 232
Period size: 55 Copynumber: 3.8 Consensus size: 54
47928232 GTAAGATAAG
* *
47928242 GATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
* * * * *
47928296 GAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGCAAA
* * * * * *
47928351 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAC
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
* * * * *
47928404 GATACCACGTAAAACCATGTCAAGACATGGCAATGGTAAGTTC
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
47928447 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
53 44 0.34
54 39 0.30
55 45 0.35
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGCAAA
Found at i:47934118 original size:9 final size:8
Alignment explanation
Indices: 47934102--47934128 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47934092 CTATGGCCAT
47934102 ATAAAAAA
1 ATAAAAAA
47934110 ATAAAAAA
1 ATAAAAAA
47934118 ATAAAAAA
1 ATAAAAAA
47934126 ATA
1 ATA
47934129 GATACATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:47937140 original size:17 final size:18
Alignment explanation
Indices: 47937113--47937147 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47937103 AATTTCAAAA
*
47937113 TTTTGGGCCCACATGCCC
1 TTTTGGGCCCACACGCCC
47937131 TTTT-GGCCCACACGCCC
1 TTTTGGGCCCACACGCCC
47937148 AAATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.11, C:0.43, G:0.20, T:0.26
Consensus pattern (18 bp):
TTTTGGGCCCACACGCCC
Found at i:47941518 original size:6 final size:6
Alignment explanation
Indices: 47941500--47941588 Score: 67
Period size: 6 Copynumber: 14.3 Consensus size: 6
47941490 AAGAAACATT
*
47941500 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
47941549 ATCAAA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
47941589 GTGAATACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
5 4 0.06
6 48 0.73
7 12 0.18
8 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:47941547 original size:31 final size:31
Alignment explanation
Indices: 47941509--47941588 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
47941499 TATCAGAACT
*
47941509 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
47941540 AGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
47941571 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
47941589 GTGAATACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 34 0.79
32 9 0.21
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:47941766 original size:27 final size:26
Alignment explanation
Indices: 47941728--47941797 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
47941718 CAGTTATCAG
* *
47941728 TATTGTGACAGAGTCACCAGATACAGA
1 TATTGTGGCAGAGCCACCAGA-ACAGA
47941755 TATTGTGGCAGAGCCACCAGAACAGA
1 TATTGTGGCAGAGCCACCAGAACAGA
* *
47941781 TAATGTGGCAAAGCCAC
1 TATTGTGGCAGAGCCAC
47941798 TTAACAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 20 0.51
27 19 0.49
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
TATTGTGGCAGAGCCACCAGAACAGA
Found at i:47941980 original size:22 final size:22
Alignment explanation
Indices: 47941952--47942016 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
47941942 GCAAATACGT
*
47941952 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
47941974 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
47941996 TTAACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
47942017 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:47942500 original size:27 final size:27
Alignment explanation
Indices: 47942443--47942853 Score: 558
Period size: 27 Copynumber: 15.3 Consensus size: 27
47942433 GGGGCAAAAT
* * * *
47942443 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47942469 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47942496 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47942523 GATAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47942550 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47942577 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
47942604 GGTAATTCTACCCTACAGGGGTATCCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47942631 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47942658 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
47942685 AATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47942711 TGGTAATTCTACCCTATAGGGGTA-TTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
47942738 TGGTAATTCTACCCTACAGGGGTATTCC
1 -GGTAATTCTACCCTACAGGGGTATTTC
** *
47942766 AATAATTCTACCCTACAGCGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47942793 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47942820 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
47942847 GGTAATT
1 GGTAATT
47942854 TTATTGATCG
Statistics
Matches: 342, Mismatches: 40, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
26 16 0.05
27 324 0.95
28 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47942894 original size:27 final size:27
Alignment explanation
Indices: 47942835--47942923 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
47942825 TTCTACCCTA
** * **
47942835 CAAGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* **
47942862 CGAGGGTATTTGGGTAATTTTGTAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
47942888 CTAAGGGTATTTCAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
47942916 CAAGGGTA
1 CAAGGGTA
47942924 AAATGGTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:47942932 original size:27 final size:27
Alignment explanation
Indices: 47942902--47942963 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
47942892 GGGTATTTCA
*
47942902 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAATG
* *
47942929 GTAATTCTGTAAATCGATGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAATG
47942956 GTAATTCT
1 GTAATTCT
47942964 ATCTTATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.35
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAATG
Found at i:47942998 original size:27 final size:26
Alignment explanation
Indices: 47942968--47943062 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
47942958 AATTCTATCT
*
47942968 TATTTCAGTAATTTTACAAATCGAGGA
1 TATTT-AGTAATTTTACAAATCGAGGG
* *
47942995 TATTTAGGTAATTTTATAAATCGGGGG
1 TATTTA-GTAATTTTACAAATCGAGGG
* *
47943022 TACTTTGGTAATTTTACAAGTCGAGGG
1 TA-TTTAGTAATTTTACAAATCGAGGG
47943049 TATTTCAGTAATTT
1 TATTT-AGTAATTT
47943063 GGTAAACTAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
26 4 0.07
27 50 0.88
28 3 0.05
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (26 bp):
TATTTAGTAATTTTACAAATCGAGGG
Found at i:47948696 original size:71 final size:70
Alignment explanation
Indices: 47948608--47948770 Score: 317
Period size: 71 Copynumber: 2.3 Consensus size: 70
47948598 GAGATGTATC
47948608 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47948673 AGGACA
66 A-GACA
47948679 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47948744 AGACA
66 AGACA
47948749 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47948771 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 26 0.28
71 66 0.72
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGACA
Found at i:47955784 original size:41 final size:41
Alignment explanation
Indices: 47955739--47955856 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
47955729 TGAAAGATAA
47955739 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
47955780 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47955810 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47955851 ATGTAG
1 ATGTAG
47955857 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:47955795 original size:71 final size:71
Alignment explanation
Indices: 47955707--47955870 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47955697 GAGATGTATC
47955707 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47955772 AGGACA
66 AGGACA
47955778 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47955843 AGGACA
66 AGGACA
47955849 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47955871 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:47960743 original size:36 final size:32
Alignment explanation
Indices: 47960665--47960730 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
47960655 TTTCATAAAG
*
47960665 TAGAGATTGTTTTCCATCCATCCATTACTGAT
1 TAGAGATTTTTTTCCATCCATCCATTACTGAT
47960697 TAGAGATTTTTTTCCATCCATCCATTACTGAT
1 TAGAGATTTTTTTCCATCCATCCATTACTGAT
47960729 TA
1 TA
47960731 AAGAACGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (32 bp):
TAGAGATTTTTTTCCATCCATCCATTACTGAT
Found at i:47962920 original size:2 final size:2
Alignment explanation
Indices: 47962913--47962944 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47962903 GGATCATCTC
47962913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47962945 CACAAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47963869 original size:12 final size:12
Alignment explanation
Indices: 47963852--47963876 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47963842 ACTTAATCAT
47963852 TTTAATATTAAA
1 TTTAATATTAAA
47963864 TTTAATATTAAA
1 TTTAATATTAAA
47963876 T
1 T
47963877 ATTATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:47968291 original size:34 final size:34
Alignment explanation
Indices: 47968253--47968321 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
47968243 GTGAATGATT
47968253 TTTTAAGTTAAAACTTATAAGCTAGCATGAATAG
1 TTTTAAGTTAAAACTTATAAGCTAGCATGAATAG
* *
47968287 TTTTAAGTTCAAGCTTATAAGCTAGCATGAATAG
1 TTTTAAGTTAAAACTTATAAGCTAGCATGAATAG
47968321 T
1 T
47968322 GAATTGAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (34 bp):
TTTTAAGTTAAAACTTATAAGCTAGCATGAATAG
Found at i:47977545 original size:50 final size:52
Alignment explanation
Indices: 47977487--47977605 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
47977477 TTAATAAAGT
* *
47977487 CATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* * *
47977537 CATGCATTATGTAGCTCCCATGTTAGTTAAAGTTTGCATTATTAAATTAAGT
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
47977589 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
47977606 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 26 0.43
51 11 0.18
52 23 0.38
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:47981005 original size:17 final size:17
Alignment explanation
Indices: 47980985--47981017 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47980975 TAGAATTGGA
47980985 TTGAGAAAATAATTTAT
1 TTGAGAAAATAATTTAT
*
47981002 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
47981018 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (17 bp):
TTGAGAAAATAATTTAT
Found at i:47981101 original size:17 final size:18
Alignment explanation
Indices: 47981079--47981113 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47981069 TAGAAACTTG
47981079 TTATAAG-GTTGGATAAA
1 TTATAAGTGTTGGATAAA
47981096 TTATAAGTGTTGGATAAA
1 TTATAAGTGTTGGATAAA
47981114 AATCCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (18 bp):
TTATAAGTGTTGGATAAA
Found at i:47987656 original size:93 final size:93
Alignment explanation
Indices: 47987544--47987714 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47987534 GCCCATAAGT
* *
47987544 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47987609 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47987637 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47987702 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47987715 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47987730 original size:46 final size:46
Alignment explanation
Indices: 47987536--47987716 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
47987526 TGTAACCCGC
* * *
47987536 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
47987582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
47987632 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
47987675 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
47987717 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:47989418 original size:45 final size:46
Alignment explanation
Indices: 47989290--47989594 Score: 400
Period size: 46 Copynumber: 6.7 Consensus size: 46
47989280 CTTTGACATC
* * ** *
47989290 TTCAACTATGGTCTTACTCATTTTC-TGCCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCT
** * * *
47989336 TTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*** *** *
47989382 TTCAACCATGGT-TTATTTATTTCCCGTCATGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
47989427 TTCAACCATGGTCTTACACGTTTCATATCAGG-TGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
* *
47989472 TTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
47989518 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
47989564 TTCAACCATGGTCTTACACATTTCATATCAG
1 TTCAACCATGGTCTTACACATTTCATATCAG
47989595 AGAGCACACT
Statistics
Matches: 236, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 89 0.38
46 147 0.62
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
Found at i:47989442 original size:91 final size:91
Alignment explanation
Indices: 47989318--47989593 Score: 383
Period size: 91 Copynumber: 3.0 Consensus size: 91
47989308 CATTTTCTGC
** *
47989318 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GCTGCCATGGTATCTT
*** * *
47989383 TCAACCATGGT-TTATTTATTTCCCGT
65 TCAACCATGGTCTTACACATTTCACAT
* *
47989409 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGTGCCATGGTATCTTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGCTGCCATGGTATCTTT
* *
47989474 CAACCATGGTCTTACACGTTTCATAT
66 CAACCATGGTCTTACACATTTCACAT
* * *
47989500 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-GCTGCCATGGTATCTT
*
47989565 TCAACCATGGTCTTACACATTTCATAT
65 TCAACCATGGTCTTACACATTTCACAT
47989592 CA
1 CA
47989594 GAGAGCACAC
Statistics
Matches: 166, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
90 26 0.16
91 97 0.58
92 43 0.26
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (91 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGCTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCACAT
Found at i:47990321 original size:2 final size:2
Alignment explanation
Indices: 47990314--47990339 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47990304 TATTATTCTC
47990314 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47990340 TGATAACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47991787 original size:18 final size:20
Alignment explanation
Indices: 47991772--47991808 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47991762 TAATAATAAA
*
47991772 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
47991792 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
47991809 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:47993686 original size:46 final size:46
Alignment explanation
Indices: 47993633--47993808 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
47993623 TGTTTGGGCA
*
47993633 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *** * * ** *
47993679 TCTGAACTCGTTGAGTTAAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
47993726 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
47993772 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47993809 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 69 0.68
47 33 0.32
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47993788 original size:93 final size:93
Alignment explanation
Indices: 47993629--47993800 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
47993619 AGGATGTTTG
* * *
47993629 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
47993694 TTAAGTCCGAGTTCGAGAGATGTAACTA
66 TTAAGTCCAAGTTCGAGAGATGTAACTA
* * *
47993722 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
47993787 TTGAGTCCAAGTTC
66 TTAAGTCCAAGTTC
47993801 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTAAGTCCAAGTTCGAGAGATGTAACTA
Found at i:47995273 original size:27 final size:26
Alignment explanation
Indices: 47995222--47995288 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
47995212 TAGTTGAACT
* *
47995222 ATGGCAAAGTGAAAAGTGTGTCAAAC
1 ATGGCAAAGTGAAAAGTGGGCCAAAC
*
47995248 ATGGCAAAGTGATAAAGTGGGCCAAAT
1 ATGGCAAAGTGA-AAAGTGGGCCAAAC
*
47995275 ATGACAAAGTGAAA
1 ATGGCAAAGTGAAA
47995289 TGTGACAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 14 0.39
27 22 0.61
ACGTcount: A:0.45, C:0.10, G:0.27, T:0.18
Consensus pattern (26 bp):
ATGGCAAAGTGAAAAGTGGGCCAAAC
Found at i:47997132 original size:39 final size:39
Alignment explanation
Indices: 47997051--47997213 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
47997041 TATGGTAACC
* *
47997051 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47997091 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47997130 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
47997169 CGCACAATTGCCTTCGGGCTTAGCCCGAATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47997208 CGCACA
1 CGCACA
47997214 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 98 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48001334 original size:27 final size:28
Alignment explanation
Indices: 48001278--48001347 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
48001268 AAACTTGTAC
48001278 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48001306 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
48001333 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48001348 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48001358 original size:27 final size:27
Alignment explanation
Indices: 48001278--48001359 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
48001268 AAACTTGTAC
* *
48001278 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
48001306 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
48001333 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
48001360 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:48004287 original size:17 final size:18
Alignment explanation
Indices: 48004265--48004299 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48004255 TAAAAAGTTG
48004265 TTATAAG-GTTAGATAAA
1 TTATAAGTGTTAGATAAA
*
48004282 TTATAAGTGTTGGATAAA
1 TTATAAGTGTTAGATAAA
48004300 AGTCTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (18 bp):
TTATAAGTGTTAGATAAA
Found at i:48005044 original size:30 final size:30
Alignment explanation
Indices: 48005008--48005069 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
48004998 TTCATCACTA
48005008 ATAATAACTTCTTAGCATTACAACTCTTTT
1 ATAATAACTTCTTAGCATTACAACTCTTTT
*
48005038 ATAATAACTTCTTAGCGTTACAACTCTTTT
1 ATAATAACTTCTTAGCATTACAACTCTTTT
48005068 AT
1 AT
48005070 TATTTTCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (30 bp):
ATAATAACTTCTTAGCATTACAACTCTTTT
Found at i:48005134 original size:2 final size:2
Alignment explanation
Indices: 48005127--48005159 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48005117 TTTCACTAAT
48005127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48005160 TCTTAACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48010544 original size:25 final size:25
Alignment explanation
Indices: 48010515--48010565 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
48010505 CAAAGGAAAA
**
48010515 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
48010540 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
48010565 T
1 T
48010566 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:48015211 original size:25 final size:25
Alignment explanation
Indices: 48015182--48015232 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
48015172 CAAAGGAAAA
**
48015182 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
48015207 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
48015232 T
1 T
48015233 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:48017187 original size:19 final size:19
Alignment explanation
Indices: 48017141--48017188 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
48017131 GTATATATTT
*
48017141 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGATAGA
*
48017159 TAAATCTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
*
48017178 TAAGTTTTATT
1 TAAATTTTATT
48017189 CATATTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:48017292 original size:42 final size:42
Alignment explanation
Indices: 48017211--48017294 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
48017201 ATATTTTATT
* *
48017211 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATATTTTAATAGTTTATTAGAATAAGGGAACTATTTTCCC
*
48017253 TTATATTTTAATAGTTTATTAGAATAAGGGAATTATTTTCCC
1 TTATATTTTAATAGTTTATTAGAATAAGGGAACTATTTTCCC
48017295 AATTAAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (42 bp):
TTATATTTTAATAGTTTATTAGAATAAGGGAACTATTTTCCC
Found at i:48020136 original size:13 final size:13
Alignment explanation
Indices: 48020118--48020143 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48020108 GAATGAAAGG
48020118 AGGCTATTTTAGA
1 AGGCTATTTTAGA
48020131 AGGCTATTTTAGA
1 AGGCTATTTTAGA
48020144 GGAGATGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
AGGCTATTTTAGA
Found at i:48021795 original size:42 final size:42
Alignment explanation
Indices: 48021714--48021797 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
48021704 ATATTTTATT
*
48021714 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
* *
48021756 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
48021798 AATTAGGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
Found at i:48022153 original size:9 final size:9
Alignment explanation
Indices: 48022141--48022171 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
48022131 GTTAATCGAA
48022141 TCGAATTAT
1 TCGAATTAT
48022150 TCGAATTAT
1 TCGAATTAT
48022159 TCGAATTAT
1 TCGAATTAT
48022168 TCGA
1 TCGA
48022172 GTCAACTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (9 bp):
TCGAATTAT
Found at i:48022345 original size:20 final size:20
Alignment explanation
Indices: 48022322--48022395 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
48022312 AAATTACAAA
*
48022322 AAAAAAATCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
48022342 AAAAAATTGAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
48022362 -TAAAATTCAAAAT-A-TTT
1 AAAAAATTCAAAATAATTTT
48022379 ATAAAAATTCTAAAATA
1 A-AAAAATTC-AAAATA
48022396 TGTATTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.07
18 1 0.02
19 18 0.40
20 23 0.51
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:48022436 original size:18 final size:18
Alignment explanation
Indices: 48022401--48022436 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48022391 AAATATGTAT
*
48022401 TTTTAAAAAAATTATAAA
1 TTTTAAAAAAAATATAAA
*
48022419 TTTTAAAAAAAATCTAAA
1 TTTTAAAAAAAATATAAA
48022437 AAATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTTAAAAAAAATATAAA
Found at i:48022805 original size:21 final size:21
Alignment explanation
Indices: 48022779--48022818 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48022769 ACCTTATCTA
*
48022779 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
48022800 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
48022819 CATTGTTTTA
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:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:48033797 original size:14 final size:14
Alignment explanation
Indices: 48033778--48033805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48033768 TCAATATCAC
48033778 ATGTTTTTCCTTAA
1 ATGTTTTTCCTTAA
48033792 ATGTTTTTCCTTAA
1 ATGTTTTTCCTTAA
48033806 CCTATAGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
ATGTTTTTCCTTAA
Found at i:48037715 original size:20 final size:20
Alignment explanation
Indices: 48037687--48037726 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48037677 CTGATGAGAT
48037687 ATCTCATTATTATATATTGG
1 ATCTCATTATTATATATTGG
*
48037707 ATCTTATTATTATATATTGG
1 ATCTCATTATTATATATTGG
48037727 CTATTGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (20 bp):
ATCTCATTATTATATATTGG
Found at i:48038440 original size:16 final size:16
Alignment explanation
Indices: 48038409--48038453 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
48038399 AAATATCATA
48038409 AATTAATTT-T-AATT
1 AATTAATTTCTCAATT
48038423 AATTAATTTCTCAATT
1 AATTAATTTCTCAATT
*
48038439 AAATAATTTTCTCAA
1 AATTAA-TTTCTCAA
48038454 CCCGATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 9 0.33
17 8 0.30
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTAATTTCTCAATT
Found at i:48038451 original size:17 final size:16
Alignment explanation
Indices: 48038407--48038453 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
48038397 ATAAATATCA
48038407 TAAATTAATTT-T-AAT
1 TAAA-TAATTTCTCAAT
*
48038422 TAATTAATTTCTCAAT
1 TAAATAATTTCTCAAT
48038438 TAAATAATTTTCTCAA
1 TAAATAA-TTTCTCAA
48038454 CCCGATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 9 0.33
17 8 0.30
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATAATTTCTCAAT
Found at i:48040524 original size:27 final size:26
Alignment explanation
Indices: 48040483--48040549 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
48040473 AGAACTGTTT
* *
48040483 CTTCAAAGTTTGCCATATGTACTATTC
1 CTTC-AAGTTCGCCATACGTACTATTC
48040510 CTTCAGAGTTCGCCATACGTACTATTC
1 CTTCA-AGTTCGCCATACGTACTATTC
*
48040537 TTTCAATGTTCGC
1 CTTCAA-GTTCGC
48040550 AACACATATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (26 bp):
CTTCAAGTTCGCCATACGTACTATTC
Found at i:48040922 original size:81 final size:81
Alignment explanation
Indices: 48040720--48040922 Score: 221
Period size: 81 Copynumber: 2.5 Consensus size: 81
48040710 GTGCATCACG
* * * *
48040720 AAGGCATTCT-TTTTCATAGATCGCCACAAAGGCTTTAATTTCATAGATTTCCACAAAGGCTTTA
1 AAGGC-TTCTATTTT-ATAGATTGCCACAAAGGCTTTCATTTCATAGATTGCCACAAAGGCTTCA
* * *
48040784 ATTTTATAAATCTTCACA
64 ACTTCATAAATCTCCACA
* * * * * *
48040802 AATGCTTCTATTTCAGAGATTGTCACAAAGGCTTCCATTTCATAGATTGCCACAAAGGCTTCCAC
1 AAGGCTTCTATTTTATAGATTGCCACAAAGGCTTTCATTTCATAGATTGCCACAAAGGCTTCAAC
*
48040867 TTCATAGAT-TGCCACA
66 TTCATAAATCT-CCACA
* *
48040883 AAGGCTTCTATTTTATAGATTGCCACAGAGACTTTCATTT
1 AAGGCTTCTATTTTATAGATTGCCACAAAGGCTTTCATTT
48040923 TCTAATGTGT
Statistics
Matches: 98, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
80 1 0.01
81 90 0.92
82 7 0.07
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (81 bp):
AAGGCTTCTATTTTATAGATTGCCACAAAGGCTTTCATTTCATAGATTGCCACAAAGGCTTCAAC
TTCATAAATCTCCACA
Found at i:48040923 original size:27 final size:27
Alignment explanation
Indices: 48040731--48040909 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
48040721 AGGCATTCTT
* **
48040731 TTTCATAGATCGCCACAAAGGCTTTAA
1 TTTCATAGATTGCCACAAAGGCTTCCA
* **
48040758 TTTCATAGATTTCCACAAAGGCTTTAA
1 TTTCATAGATTGCCACAAAGGCTTCCA
* * * * *
48040785 TTTTATAAATCT-TCACAAATGCTTCTA
1 TTTCATAGAT-TGCCACAAAGGCTTCCA
* *
48040812 TTTCAGAGATTGTCACAAAGGCTTCCA
1 TTTCATAGATTGCCACAAAGGCTTCCA
48040839 TTTCATAGATTGCCACAAAGGCTTCCA
1 TTTCATAGATTGCCACAAAGGCTTCCA
* *
48040866 CTTCATAGATTGCCACAAAGGCTTCTA
1 TTTCATAGATTGCCACAAAGGCTTCCA
*
48040893 TTTTATAGATTGCCACA
1 TTTCATAGATTGCCACA
48040910 GAGACTTTCA
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 129 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (27 bp):
TTTCATAGATTGCCACAAAGGCTTCCA
Found at i:48044855 original size:19 final size:19
Alignment explanation
Indices: 48044831--48044891 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
48044821 TTGTTTTTTA
48044831 ATTTTGTTTAATATATGTT
1 ATTTTGTTTAATATATGTT
*
48044850 ATTTTGATTAAT-TAAT-TT
1 ATTTTGTTTAATAT-ATGTT
48044868 AATTTTGTTTAATATATGTT
1 -ATTTTGTTTAATATATGTT
48044888 ATTT
1 ATTT
48044892 CAGTTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 3 0.08
19 30 0.83
20 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTGTTTAATATATGTT
Found at i:48044869 original size:38 final size:39
Alignment explanation
Indices: 48044826--48044911 Score: 140
Period size: 38 Copynumber: 2.2 Consensus size: 39
48044816 TTAAATTGTT
*
48044826 TTTTAATTTTGTTTAATATATGTTATTT-TGATTAATTAA
1 TTTTAATTTTGTTTAATATATGTTATTTCAG-TTAATTAA
48044865 -TTTAATTTTGTTTAATATATGTTATTTCAGTTAATTAA
1 TTTTAATTTTGTTTAATATATGTTATTTCAGTTAATTAA
48044903 TTTTAATTT
1 TTTTAATTT
48044912 GGTTCTTCGT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
38 35 0.80
39 9 0.20
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (39 bp):
TTTTAATTTTGTTTAATATATGTTATTTCAGTTAATTAA
Found at i:48049701 original size:40 final size:40
Alignment explanation
Indices: 48049645--48049821 Score: 268
Period size: 40 Copynumber: 4.5 Consensus size: 40
48049635 GGATGATAAT
48049645 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
48049685 CGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
48049725 CGGGCTAAGTCCCGAAGACATTTGTGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
48049765 CGGGCTAAGTCCCGAAGGCAGTTGAGCAAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
*
48049805 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
48049822 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 17 0.13
40 109 0.87
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:48055642 original size:59 final size:57
Alignment explanation
Indices: 48055516--48055651 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 57
48055506 TGCTATAAGG
* * *
48055516 GCTTACCTTTCTATAGTTTTGCCACGAAGGCTATCCTTTAACAGATTCAACACAAAG
1 GCTTACCTTTCTAAAGTTTTACCACGAAGGCTATCCTTTAACAGATTCAACACAAAA
* * * * * *
48055573 GCTTACCTTTCTAAAGTTTTACCA-GAAAGGTTGTCCTCTTTAATAGGTTCACCATAAAA
1 GCTTACCTTTCTAAAGTTTTACCACG-AAGGCTAT-C-CTTTAACAGATTCAACACAAAA
*
48055632 GCTTACCTTTCCAAAGTTTT
1 GCTTACCTTTCTAAAGTTTT
48055652 TCTATAAAGG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
56 1 0.02
57 28 0.42
58 1 0.02
59 36 0.55
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (57 bp):
GCTTACCTTTCTAAAGTTTTACCACGAAGGCTATCCTTTAACAGATTCAACACAAAA
Found at i:48055927 original size:53 final size:52
Alignment explanation
Indices: 48055816--48055968 Score: 159
Period size: 53 Copynumber: 2.9 Consensus size: 52
48055806 AATTTTTTTC
* * * * *
48055816 CCATATGATGCTATGACCCACTAGTTATAGCCTTACACGATATGGTATTATTT
1 CCATATGATGCCATAACCCACTAGTTACAGTCTTACACGATATGGT-CTATTT
* *
48055869 TCATATGATGCCATAACCCACTAGTTACAGTCTTACACAATATGGTCTACTTT
1 CCATATGATGCCATAACCCACTAGTTACAGTCTTACACGATATGGTCTA-TTT
* *
48055922 CCATATGAT-CCTACAACCCA-TCAGTTAC-GATCTTACATGATATGGTC
1 CCATATGATGCC-ATAACCCACT-AGTTACAG-TCTTACACGATATGGTC
48055969 CTTTAGTGCG
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
52 6 0.07
53 79 0.93
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (52 bp):
CCATATGATGCCATAACCCACTAGTTACAGTCTTACACGATATGGTCTATTT
Found at i:48059358 original size:16 final size:16
Alignment explanation
Indices: 48059337--48059368 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48059327 ATGAAATATC
48059337 TTCTTTTGTTTAATTT
1 TTCTTTTGTTTAATTT
48059353 TTCTTTTGTTTAATTT
1 TTCTTTTGTTTAATTT
48059369 GATATTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (16 bp):
TTCTTTTGTTTAATTT
Found at i:48061501 original size:19 final size:19
Alignment explanation
Indices: 48061474--48061510 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48061464 AACTCGAGTT
* *
48061474 TTTATTTTTATTTTTTTAG
1 TTTACTTTTATGTTTTTAG
48061493 TTTACTTTTATGTTTTTA
1 TTTACTTTTATGTTTTTA
48061511 TTCAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTACTTTTATGTTTTTAG
Found at i:48061603 original size:19 final size:19
Alignment explanation
Indices: 48061560--48061617 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
48061550 TATTACTTTT
48061560 TAAAAAATTT-AAAAAAAGA
1 TAAAAAATTTGAAAAAAA-A
*
48061579 -ACAAAATTTTGAAAAAAAA
1 TA-AAAAATTTGAAAAAAAA
*
48061598 TAAAAAATTGGAAAAGAAAA
1 TAAAAAATTTGAAAA-AAAA
48061618 AGAAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.03
19 19 0.59
20 12 0.38
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.19
Consensus pattern (19 bp):
TAAAAAATTTGAAAAAAAA
Found at i:48062987 original size:6 final size:6
Alignment explanation
Indices: 48062978--48063029 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
48062968 TTATTTTTAT
* * * * *
48062978 TTTTTG TTTTTG TTTTTG CTTTTG CTTTTG CTTCTA TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
48063026 TTTT
1 TTTT
48063030 ATTTTATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.02, C:0.08, G:0.13, T:0.77
Consensus pattern (6 bp):
TTTTTG
Found at i:48062993 original size:18 final size:18
Alignment explanation
Indices: 48062972--48063034 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
48062962 TTTATATTAT
48062972 TTTTATTTTTTGTTTTTG
1 TTTTATTTTTTGTTTTTG
* *
48062990 TTTT-TGCTTTTGCTTTTG
1 TTTTAT-TTTTTGTTTTTG
*
48063008 CTTCTA-TTTTTGTTTTTG
1 -TTTTATTTTTTGTTTTTG
48063026 TTTTATTTT
1 TTTTATTTT
48063035 ATTATGCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 5 0.14
18 27 0.77
19 3 0.09
ACGTcount: A:0.05, C:0.06, G:0.11, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTTGTTTTTG
Found at i:48066049 original size:29 final size:29
Alignment explanation
Indices: 48066007--48066067 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
48065997 TTTCCTTTGT
*
48066007 AATGTCGTGGAAACTAAGGAACAATATCA
1 AATGTAGTGGAAACTAAGGAACAATATCA
48066036 AATGTAGTGGAAACTAAGGAACAATATCA
1 AATGTAGTGGAAACTAAGGAACAATATCA
48066065 AAT
1 AAT
48066068 TTTACTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (29 bp):
AATGTAGTGGAAACTAAGGAACAATATCA
Found at i:48067292 original size:21 final size:22
Alignment explanation
Indices: 48067247--48067302 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
48067237 GAGTTGCACA
*
48067247 GGCGTGTGGGGCCCTCCACAAG
1 GGCGTGTGGGGCCATCCACAAG
* *
48067269 GGCGTGTGGGGCGAT-CACACG
1 GGCGTGTGGGGCCATCCACAAG
* *
48067290 GGCATGTGTGGCC
1 GGCGTGTGGGGCC
48067303 TCTATATGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.12, C:0.27, G:0.45, T:0.16
Consensus pattern (22 bp):
GGCGTGTGGGGCCATCCACAAG
Found at i:48075810 original size:52 final size:52
Alignment explanation
Indices: 48075744--48075928 Score: 187
Period size: 52 Copynumber: 3.6 Consensus size: 52
48075734 ACAATGGCAA
* * * * * *
48075744 CATACTGAAAATGCCACAAAGGCTACCACACA-AACTACACTATAAAGGCTAT
1 CATACAGAATATGCCATAAAGGCTATCATACAGAA-TACACCATAAAGGCTAT
* * *
48075796 CATACAAAATATGCCATAAAGTC-ATCATACAGAATA-AGCCAAAAAGGCTAT
1 CATACAGAATATGCCATAAAGGCTATCATACAGAATACA-CCATAAAGGCTAT
* * * * *
48075847 CATACAGAATAAGCCAAAAAGGCTATCATACATAATACACCATAAAGTCTAC
1 CATACAGAATATGCCATAAAGGCTATCATACAGAATACACCATAAAGGCTAT
* *
48075899 CATACAGAATACGCCATAAAAGCTATCATA
1 CATACAGAATATGCCATAAAGGCTATCATA
48075929 TGGAATGCCA
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
50 1 0.01
51 38 0.35
52 69 0.63
53 1 0.01
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (52 bp):
CATACAGAATATGCCATAAAGGCTATCATACAGAATACACCATAAAGGCTAT
Found at i:48075814 original size:26 final size:26
Alignment explanation
Indices: 48075785--48075928 Score: 175
Period size: 26 Copynumber: 5.6 Consensus size: 26
48075775 AAACTACACT
* *
48075785 ATAAAGGCTATCATACAAAATATGCC
1 ATAAAGGCTATCATACAGAATAAGCC
*
48075811 ATAAAGTC-ATCATACAGAATAAGCC
1 ATAAAGGCTATCATACAGAATAAGCC
*
48075836 AAAAAGGCTATCATACAGAATAAGCC
1 ATAAAGGCTATCATACAGAATAAGCC
* *
48075862 AAAAAGGCTATCATACATAATACA-CC
1 ATAAAGGCTATCATACAGAATA-AGCC
* * *
48075888 ATAAAGTCTACCATACAGAATACGCC
1 ATAAAGGCTATCATACAGAATAAGCC
*
48075914 ATAAAAGCTATCATA
1 ATAAAGGCTATCATA
48075929 TGGAATGCCA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
25 21 0.21
26 79 0.78
27 1 0.01
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.20
Consensus pattern (26 bp):
ATAAAGGCTATCATACAGAATAAGCC
Found at i:48075934 original size:26 final size:26
Alignment explanation
Indices: 48075785--48075945 Score: 149
Period size: 26 Copynumber: 6.3 Consensus size: 26
48075775 AAACTACACT
* * *
48075785 ATAAAGGCTATCATACAAAATATGCC
1 ATAAAAGCTATCATACAGAATAAGCC
48075811 AT-AAAG-TCATCATACAGAATAAGCC
1 ATAAAAGCT-ATCATACAGAATAAGCC
48075836 A-AAAAGGCTATCATACAGAATAAGCC
1 ATAAAA-GCTATCATACAGAATAAGCC
*
48075862 A-AAAAGGCTATCATACATAATACA-CC
1 ATAAAA-GCTATCATACAGAATA-AGCC
* *
48075888 AT-AAAGTCTACCATACAGAATACGCC
1 ATAAAAG-CTATCATACAGAATAAGCC
**
48075914 ATAAAAGCTATCATATGGAAT--GCC
1 ATAAAAGCTATCATACAGAATAAGCC
48075938 ATAAAAGC
1 ATAAAAGC
48075946 ACCCCAAGAA
Statistics
Matches: 116, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
24 12 0.10
25 23 0.20
26 75 0.65
27 6 0.05
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.20
Consensus pattern (26 bp):
ATAAAAGCTATCATACAGAATAAGCC
Found at i:48081767 original size:15 final size:16
Alignment explanation
Indices: 48081747--48081779 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
48081737 TATATATTTT
48081747 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
48081762 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
48081779 T
1 T
48081780 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:48081865 original size:22 final size:22
Alignment explanation
Indices: 48081826--48081884 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
48081816 GTTTTAAGAA
*
48081826 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
48081847 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
48081869 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
48081885 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:48081901 original size:26 final size:24
Alignment explanation
Indices: 48081855--48081902 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
48081845 ATTTGTTTTA
*
48081855 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
48081879 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
48081903 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:48081914 original size:25 final size:26
Alignment explanation
Indices: 48081858--48081915 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
48081848 TGTTTTAATA
*
48081858 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* * *
48081883 TTGATTTATTATATTTTT-AATTTTT
1 TTTATTTATTATATTTTTAAATATAT
48081908 TTTATTTA
1 TTTATTTA
48081916 ATGAAATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:48082002 original size:5 final size:5
Alignment explanation
Indices: 48081994--48082027 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
48081984 CCAGCCCGAA
*
48081994 CCCGG CCCGAA CCCGG CCCGG CCCGG CCCGG CCC
1 CCCGG CCCG-G CCCGG CCCGG CCCGG CCCGG CCC
48082028 ATGATCACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.06, C:0.62, G:0.32, T:0.00
Consensus pattern (5 bp):
CCCGG
Done.