Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 153 of 349
Found at i:49246345 original size:27 final size:26
Alignment explanation
Indices: 49246289--49246345 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
49246279 CAACCTTAAC
* * *
49246289 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
49246315 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
49246342 CCTA
1 CCTA
49246346 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:49247611 original size:15 final size:15
Alignment explanation
Indices: 49247577--49247618 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
49247567 GGGGAAAATA
*
49247577 AGAAGAG-AAAGTAG
1 AGAAGAGAAAAGAAG
49247591 ATGAAGAGAAAAGAAG
1 A-GAAGAGAAAAGAAG
49247607 AGAAGAAGAAAA
1 AGAAG-AGAAAA
49247619 AAACTGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 10 0.42
16 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (15 bp):
AGAAGAGAAAAGAAG
Found at i:49251304 original size:20 final size:21
Alignment explanation
Indices: 49251275--49251327 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
49251265 GGGGGAAAAG
* *
49251275 AAGAAGAGAAAAT-AGATGAA
1 AAGAAAAGAAAATGAAATGAA
*
49251295 GAGAAAAG-AAATGAAATGAA
1 AAGAAAAGAAAATGAAATGAA
49251315 AAGAAGAAGAAAA
1 AAGAA-AAGAAAA
49251328 AAACCTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 3 0.12
22 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.08
Consensus pattern (21 bp):
AAGAAAAGAAAATGAAATGAA
Found at i:49251308 original size:15 final size:15
Alignment explanation
Indices: 49251269--49251319 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
49251259 GGCTATGGGG
49251269 GAAAAG-AA-GAAGA
1 GAAAAGAAATGAAGA
* *
49251282 GAAAATAGATGAAGA
1 GAAAAGAAATGAAGA
49251297 GAAAAGAAATGAA-A
1 GAAAAGAAATGAAGA
49251311 TGAAAAGAA
1 -GAAAAGAA
49251320 GAAGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 5 0.16
14 2 0.06
15 24 0.77
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (15 bp):
GAAAAGAAATGAAGA
Found at i:49251786 original size:40 final size:40
Alignment explanation
Indices: 49251499--49251774 Score: 408
Period size: 40 Copynumber: 6.8 Consensus size: 40
49251489 GAGAATTGAG
*
49251499 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGAT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49251539 AGCGATATATCCGGGCTAAGTCCCGAAGAGAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCC---GA-AGAGCATTCGTGCT
*
49251583 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49251623 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49251663 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
49251703 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
49251743 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
49251775 ATCATGCTGG
Statistics
Matches: 215, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 176 0.82
41 2 0.01
43 2 0.01
44 35 0.16
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:49255736 original size:47 final size:47
Alignment explanation
Indices: 49255681--49255952 Score: 490
Period size: 47 Copynumber: 5.8 Consensus size: 47
49255671 ATTTAGGATT
49255681 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
49255728 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
49255775 CGATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
49255822 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
49255869 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
49255916 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49255953 TCCCGAAGGG
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 218 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:49256127 original size:37 final size:37
Alignment explanation
Indices: 49256071--49256149 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
49256061 CCGAGCTCTA
* * *
49256071 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
49256108 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
49256145 AAGAC
1 AAGAC
49256150 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:49257649 original size:40 final size:40
Alignment explanation
Indices: 49257367--49257637 Score: 445
Period size: 40 Copynumber: 6.8 Consensus size: 40
49257357 GAGAATTGAG
*
49257367 AGTGATATATCCGGGCTAAGTCCCGAAGCGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
49257407 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49257447 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49257487 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
49257527 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
49257567 AGTGATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
49257606 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
49257638 ATCATGCTGG
Statistics
Matches: 217, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 33 0.15
40 184 0.85
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:49261531 original size:96 final size:92
Alignment explanation
Indices: 49261463--49261736 Score: 351
Period size: 96 Copynumber: 2.9 Consensus size: 92
49261453 ATTTTGATTT
*
49261463 AGGATTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 AGGATCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * *
49261528 TGTGAAAGTGTATATATGTGATAAGGCCTA
66 TGTGAAAGTG-ATATATAT-ATTATG-ATA
49261558 ATGG--CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 A-GGATCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
49261621 GAATGTGAAAGTG-TATATATA-TGTGATA
63 GAATGTGAAAGTGATATATATATTATGATA
49261649 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 AGG----AT--CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
49261714 GATGAATGTGAAAGTG-TATATAT
60 GATGAATGTGAAAGTGATATATAT
49261737 GTGATAAGGC
Statistics
Matches: 162, Mismatches: 6, Indels: 21
0.86 0.03 0.11
Matches are distributed among these distances:
90 2 0.01
91 3 0.02
92 1 0.01
93 1 0.01
94 28 0.17
95 1 0.01
96 103 0.64
98 23 0.14
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (92 bp):
AGGATCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGATATATATATTATGATA
Found at i:49261610 original size:49 final size:47
Alignment explanation
Indices: 49261469--49261791 Score: 565
Period size: 47 Copynumber: 6.8 Consensus size: 47
49261459 ATTTAGGATT
49261469 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
49261516 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
49261563 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
49261612 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
49261661 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
49261708 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
49261755 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49261792 TCCCGAAGGG
Statistics
Matches: 269, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 173 0.64
49 96 0.36
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:49268343 original size:93 final size:93
Alignment explanation
Indices: 49268231--49268402 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
49268221 CGCCCATAAG
* * *
49268231 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACATTCGCATCCATAAATGAACTCGAACTCAACTC
49268295 AACGAGCTCGGATGCCTAGTTACATTTCA
65 AACGAGCTCGGATGCCTAGTTACATTTCA
* *
49268324 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCA
*
49268389 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
49268403 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:49268399 original size:46 final size:45
Alignment explanation
Indices: 49268232--49268398 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
49268222 GCCCATAAGC
* *
49268232 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCATCCATAAAT
* * * ** *
49268278 GAACTCGAACTCAACTCAACGAGCTCGG-ATGC-CTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--TCCA-TAAAT
* *
49268325 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAAT
*
49268371 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGCTCGG
49268399 ATGCTCAACC
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 57 0.59
47 29 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAAT
Found at i:49271628 original size:46 final size:45
Alignment explanation
Indices: 49271561--49271735 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
49271551 TGTAACCCGC
* * *
49271561 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * *
49271607 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* *** **
49271653 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
49271700 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
49271736 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.64
47 34 0.33
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:49271697 original size:93 final size:93
Alignment explanation
Indices: 49271568--49271740 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
49271558 CGCCCATAAG
* ** *
49271568 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49271633 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
*
49271661 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49271726 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
49271741 CAAATATCCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:49274145 original size:41 final size:42
Alignment explanation
Indices: 49274036--49274186 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
49274026 ACACCAATGG
* * * ** *
49274036 CATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGTC
1 CATATCCCAAACATGGTCTTACACGAAATCTCATAACGATG-C
* * * * * *
49274079 AATAGCCC-ATCTATGGTTTTACACG-ATTCTCATATCGATGC
1 CATATCCCAAAC-ATGGTCTTACACGAAATCTCATAACGATGC
*
49274120 CATGTCCCAAACATGGTCTTACACGAAATCTCATAACGATGC
1 CATATCCCAAACATGGTCTTACACGAAATCTCATAACGATGC
* *
49274162 CATATCCCAGATATGGTCTTACACG
1 CATATCCCAAACATGGTCTTACACG
49274187 TTAACACATA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 18 0.21
42 51 0.59
43 17 0.20
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCCCAAACATGGTCTTACACGAAATCTCATAACGATGC
Found at i:49276255 original size:27 final size:27
Alignment explanation
Indices: 49276216--49276384 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
49276206 AGTTTAACTC
* * *
49276216 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
49276243 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
49276270 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
49276298 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
49276325 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
49276352 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
49276379 AGTGCT
1 AGTGCT
49276385 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:49276353 original size:82 final size:81
Alignment explanation
Indices: 49276228--49276383 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49276218 TGCTATATAA
* *
49276228 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49276293 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49276310 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49276374 CACTTAGTGC
65 CACTTAGTGC
49276384 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:49281671 original size:42 final size:42
Alignment explanation
Indices: 49281610--49281717 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
49281600 TAAACTAGCT
* * *
49281610 ATGGTCTTACACG-ATTCTCATATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAC
* *
49281651 ATGGTCTTACACGAAATCTCATAACGATGCCATATCTCAGAT
1 ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAC
*
49281693 ACGGTCTTACACGTAAA-CTCATAAC
1 ATGGTCTTACACG-AAATCTCATAAC
49281718 CCTAATGTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 13 0.22
42 43 0.73
43 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATAACGATGCCATATCCCAGAC
Found at i:49289834 original size:20 final size:20
Alignment explanation
Indices: 49289777--49289834 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
49289767 TAAGTTTATG
* *
49289777 CTAAGCAAATGGAATGGAAA
1 CTAAGAAAATGGAATGGTAA
* *
49289797 GTAAGTAAATGGAATGGTAA
1 CTAAGAAAATGGAATGGTAA
49289817 CTAAGAAAATGGAATGGT
1 CTAAGAAAATGGAATGGT
49289835 TCTTAAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.47, C:0.05, G:0.28, T:0.21
Consensus pattern (20 bp):
CTAAGAAAATGGAATGGTAA
Found at i:49299467 original size:31 final size:31
Alignment explanation
Indices: 49299429--49299491 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
49299419 CTTTTCAGAC
49299429 TTCATATTTCATAACACTGGGCCAAAGCCTT
1 TTCATATTTCATAACACTGGGCCAAAGCCTT
** *
49299460 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCAAAGCCTT
49299491 T
1 T
49299492 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCAAAGCCTT
Found at i:49299727 original size:25 final size:24
Alignment explanation
Indices: 49299685--49299758 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 24
49299675 GCTTTATCAT
*
49299685 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
49299710 ATAACTGGGGCATAAGCCCTTTATT
1 ATAACTGGGGCATAAGCCCTTT-TA
49299735 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49299759 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
24 9 0.20
25 35 0.80
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49299832 original size:20 final size:20
Alignment explanation
Indices: 49299807--49299873 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
49299797 TTATGAATAC
49299807 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49299827 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
49299847 GTCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49299867 ACCATGT
1 ATCATGT
49299874 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49301655 original size:28 final size:28
Alignment explanation
Indices: 49301614--49301766 Score: 182
Period size: 28 Copynumber: 5.5 Consensus size: 28
49301604 TGTACGATAG
* * **
49301614 TTAGTGTGTGAGATATCAAGTATACCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
*
49301642 TTAGAGTGCGAGATATCGAGTATGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
*
49301670 TTAGTGTGCGAGATAACGAGTATGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
* *
49301698 TTAGTGTGGGAGATATCGAGTGTGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
* * *
49301726 TTAGTG-GCGAAATATTGAATATGGCAC
1 TTAGTGTGCGAGATATCGAGTATGGCAC
* *
49301753 TAAGTGTGTGAGAT
1 TTAGTGTGCGAGAT
49301767 TTAAGTATTC
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 21 0.20
28 85 0.80
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (28 bp):
TTAGTGTGCGAGATATCGAGTATGGCAC
Found at i:49304076 original size:47 final size:47
Alignment explanation
Indices: 49304010--49304365 Score: 542
Period size: 47 Copynumber: 7.5 Consensus size: 47
49304000 TATCACAGTT
* * *
49304010 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
49304057 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
49304106 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
49304153 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
49304198 ATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACAC-T-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
49304249 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
49304296 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--AC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
49304341 ATACGCATGTTCACATTCATCACAT
1 ATACAC-T-TTCACATTCATCACAT
49304366 AAAATCCTAA
Statistics
Matches: 290, Mismatches: 8, Indels: 22
0.91 0.03 0.07
Matches are distributed among these distances:
45 14 0.05
46 2 0.01
47 183 0.63
48 2 0.01
49 81 0.28
50 1 0.00
51 7 0.02
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:49304174 original size:96 final size:95
Alignment explanation
Indices: 49304010--49304365 Score: 537
Period size: 96 Copynumber: 3.7 Consensus size: 95
49304000 TATCACAGTT
* * * *
49304010 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
49304074 TCACATTGGCCATTCGGCCTTATCACATATAC
65 TCACATTGGCCATTCGGCCTTATCACA-ATAC
49304106 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
49304171 CACATTGGCCATTCGGCCTTATCAC---AC
66 CACATTGGCCATTCGGCCTTATCACAATAC
*
49304198 ATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACAT
1 ATACAC-T-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACAT
49304263 TCATCACATTGGCCATTCGGCCTTATCAC-ATAC
62 TCATCACATTGGCCATTCGGCCTTATCACAATAC
*
49304296 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATTC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACAC-T-TTCACATTC
49304359 ATCACAT
64 ATCACAT
49304366 AAAATCCTAA
Statistics
Matches: 244, Mismatches: 7, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
92 14 0.06
93 2 0.01
94 52 0.21
96 166 0.68
97 3 0.01
98 7 0.03
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (95 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACAATAC
Found at i:49304256 original size:143 final size:143
Alignment explanation
Indices: 49304010--49304365 Score: 626
Period size: 143 Copynumber: 2.5 Consensus size: 143
49304000 TATCACAGTT
* * * ***
49304010 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTATCATATATATATACT-TTCACATTC
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACACATACGCA-TGTTCACATTC
49304073 ATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTC
64 ATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTC
49304138 GGCCTTATCACATAC
129 GGCCTTATCACATAC
49304153 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
49304218 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
49304283 CCTTATCACATAC
131 CCTTATCACATAC
49304296 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
49304361 CACAT
66 CACAT
49304366 AAAATCCTAA
Statistics
Matches: 205, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
142 1 0.00
143 202 0.99
144 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (143 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
CCTTATCACATAC
Found at i:49309593 original size:21 final size:21
Alignment explanation
Indices: 49309569--49309609 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49309559 TGCAGCCCAT
* *
49309569 CCCATACCAGCCAGCACACCA
1 CCCATACCAACCAACACACCA
49309590 CCCATACCAACCAACACACC
1 CCCATACCAACCAACACACC
49309610 TGTAGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.54, G:0.05, T:0.05
Consensus pattern (21 bp):
CCCATACCAACCAACACACCA
Found at i:49339064 original size:70 final size:70
Alignment explanation
Indices: 49338931--49339065 Score: 218
Period size: 70 Copynumber: 1.9 Consensus size: 70
49338921 TAGTTTATTA
* ** *
49338931 CTAATTAATTTGCTGCTGTAATGTTGTAAATTATTGGCTGTCCAAATTAGGAAAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGAAAAATTCATGGTG
49338996 CTTAG
66 CTTAG
49339001 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAA-TCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGA-AAAATTCATGGT
49339065 G
65 G
49339066 TTAAGTGCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 56 0.93
71 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGAAAAATTCATGGTG
CTTAG
Found at i:49339897 original size:43 final size:44
Alignment explanation
Indices: 49339839--49340009 Score: 217
Period size: 43 Copynumber: 4.0 Consensus size: 44
49339829 TATCGAAATG
49339839 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCT-GGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCTCGGTGAAA
* *
49339883 TGATATTGGGCTTCGGGCCTAGCAGGCTATAATG-TCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTCGGTGAAA
* * *
49339926 TAATATCGGGCCTCGGGCCTAGCAGGCTATAAT-ATCGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTCGGTGAAA
* ** *
49339969 TGATATCAGGCTTCAAGCCTAGCAGGCGA-AATGC-CGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTCGGTGAA
49340010 TGAATTCAGA
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
42 11 0.10
43 94 0.85
44 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (44 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTCGGTGAAA
Found at i:49342203 original size:29 final size:29
Alignment explanation
Indices: 49342170--49342246 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
49342160 GTGATTACAA
* * *
49342170 TTATCAGGTACTTTGTACTGGTGTTATAT
1 TTATCAGGTACTATGTACCGGTGTTATAC
* * * *
49342199 TTATCAAGCACTCTGTGCCGGTGTTATAC
1 TTATCAGGTACTATGTACCGGTGTTATAC
49342228 TTATCAGGTACTATGTACC
1 TTATCAGGTACTATGTACC
49342247 AGTGGTGGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (29 bp):
TTATCAGGTACTATGTACCGGTGTTATAC
Found at i:49347240 original size:43 final size:43
Alignment explanation
Indices: 49347179--49347436 Score: 340
Period size: 43 Copynumber: 6.0 Consensus size: 43
49347169 TTTATATAGA
* *
49347179 CATCGATATGTGATTACGTGTAACACCACGTCTGGGATGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
*
49347222 CATCGATATGCGATTACGTGTAAG-CCAACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACC-ACGTCTGGGACGTTGG
* *
49347265 CATCGATATGTGATTACGTGTAAGACCATGTCTAGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
*
49347308 CTTCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * * * **
49347351 CATCTATATGCGTTTACGAGTAAGACC-CTGTCTGGGACAATGG
1 CATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGACGTTGG
* * * *
49347394 CGTCGATATGAGATTACATGTAAGACCACGTCAGGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
49347437 TATTGTACCT
Statistics
Matches: 186, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
42 3 0.02
43 180 0.97
44 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
Found at i:49349497 original size:27 final size:26
Alignment explanation
Indices: 49349449--49349500 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49349439 GCGAGACTGC
*
49349449 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49349475 CAGATATATGTGTCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49349501 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49350135 original size:26 final size:27
Alignment explanation
Indices: 49350106--49350159 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
49350096 TCACACAAGT
*
49350106 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
49350132 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
49350159 T
1 T
49350160 TATAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:49350198 original size:27 final size:27
Alignment explanation
Indices: 49350162--49350359 Score: 252
Period size: 27 Copynumber: 7.3 Consensus size: 27
49350152 GGCAAAATTA
* * * *
49350162 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
49350189 TTATTCTACCCTACAAGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
49350216 TATTTCTACCTTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
49350243 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
***
49350270 TAATTCTACCCTACAGGGGTATTTTAA
1 TAATTCTACCCTACAGGGGTATTTCGG
49350297 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
49350324 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
49350351 TAATTCTAC
1 TAATTCTAC
49350360 AACTTGCCCA
Statistics
Matches: 148, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:49350304 original size:81 final size:81
Alignment explanation
Indices: 49350178--49350359 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 81
49350168 TACCCCACAA
* * * * *
49350178 GGGTATCTCGGTTATTCTACCCTACAAGGGTATTTTAGTATTTCTACCTTACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCTACAAGGGTATTTCGG
49350243 TAATTCTATCC-TACAG
66 TAATTCTA-CCTTACAG
* *
49350259 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCTACAAGGGTATTTCGG
49350324 TAATTCTACCTTACAG
66 TAATTCTACCTTACAG
49350340 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCGGTAATTCTAC
49350360 AACTTGCCCA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 2 0.02
81 91 0.98
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCTACAAGGGTATTTCGG
TAATTCTACCTTACAG
Found at i:49356264 original size:27 final size:26
Alignment explanation
Indices: 49356215--49356268 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
49356205 TCACACAAGT
*
49356215 TAGTCATTTACACACGAGGGGCAAAA
1 TAGTCATTTACACACGAGAGGCAAAA
* *
49356241 TAGTCATTTAACACCCTAGAGGCAAAA
1 TAGTCATTT-ACACACGAGAGGCAAAA
49356268 T
1 T
49356269 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (26 bp):
TAGTCATTTACACACGAGAGGCAAAA
Found at i:49356317 original size:27 final size:27
Alignment explanation
Indices: 49356297--49356439 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
49356287 GGGTGTCTCA
49356297 GTAATTCTAACCTACAGGGGTATTTCG
1 GTAATTCTAACCTACAGGGGTATTTCG
* * *
49356324 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTAACCTACAGGGGTATTTCG
* *
49356351 GTAATTCTATCCTACA-GGGTATTTTG
1 GTAATTCTAACCTACAGGGGTATTTCG
* *
49356377 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTAACCTACAGGGGTATTTCG
*
49356404 GTAATT-TTACCTTACAGGGGTATTTCG
1 GTAATTCTAACC-TACAGGGGTATTTCG
49356431 GTAATTCTA
1 GTAATTCTA
49356440 CAACTTATCC
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 27 0.27
27 72 0.72
28 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTCTAACCTACAGGGGTATTTCG
Found at i:49356359 original size:54 final size:54
Alignment explanation
Indices: 49356269--49356440 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 54
49356259 GAGGCAAAAT
* * * *
49356269 GGTAATTTTACCCCACAAGGGTGTCTCAGTAATTCTAACCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACCTACAGGGGTATTTC
* * * *
49356323 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACA-GGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACCTACAGGGGTATTTC
* *
49356376 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT-TTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACC-TACAGGGGTATTTC
49356430 GGTAATTCTAC
1 GGTAATTCTAC
49356441 AACTTATCCA
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
52 3 0.03
53 43 0.42
54 56 0.55
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAACCTACAGGGGTATTTC
Found at i:49365154 original size:43 final size:43
Alignment explanation
Indices: 49365093--49365303 Score: 275
Period size: 43 Copynumber: 4.9 Consensus size: 43
49365083 TATAGACATA
49365093 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
49365136 GATATGTGACTACGTGTAAGACAACGTCTAGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
49365179 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * *
49365222 TATATGTGTTTACGAGTAAGACC-CTGTCTAGGACAG-TGGCATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
** * *
49365265 GATATGAAATTACATGTAAGACCATGT-TAGGGACGTTGG
1 GATATGTGATTACGTGTAAGACCACGTCT-GGGACGTTGG
49365304 AATTGTACCT
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
42 3 0.02
43 141 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:49369546 original size:11 final size:11
Alignment explanation
Indices: 49369530--49369558 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
49369520 AGAAAATAGC
49369530 TGATTTTGGCT
1 TGATTTTGGCT
49369541 TGATTTTGGCT
1 TGATTTTGGCT
49369552 TGATTTT
1 TGATTTT
49369559 TCCCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.59
Consensus pattern (11 bp):
TGATTTTGGCT
Found at i:49371956 original size:43 final size:43
Alignment explanation
Indices: 49371861--49371962 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
49371851 ACCGAGATGT
** * *
49371861 GATTACACCTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTAATGA
*
49371904 GATTACATGTAAGACCATGTCTT-GGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGT-TTGGGACATTGGCATCG-TAATGA
*
49371947 GATTTCATGTAAGACC
1 GATTACATGTAAGACC
49371963 CTATCTGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
43 46 0.90
44 5 0.10
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTAATGA
Found at i:49371980 original size:43 final size:41
Alignment explanation
Indices: 49371903--49372012 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 41
49371893 CATTGTATTG
* * *
49371903 AGATTACATGTAAGACCATGTCTTGGACATTGGCATCGTTAAT
1 AGATTACATGTAAGACCATATC-TGGACAGTGGCAT-GATAAT
* * * *
49371946 CGATTTCATGTAAGACCCTATCTGGTACAGTGGCATGATATT
1 AGATTACATGTAAGACCATATCTGG-ACAGTGGCATGATAAT
49371988 AGA-TAGCATGTAAGACCATATCTGG
1 AGATTA-CATGTAAGACCATATCTGG
49372013 GATATGGCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 27 0.49
43 27 0.49
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
AGATTACATGTAAGACCATATCTGGACAGTGGCATGATAAT
Found at i:49373200 original size:13 final size:13
Alignment explanation
Indices: 49373182--49373206 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49373172 GACACACGGG
49373182 CGTGTCTATTAGC
1 CGTGTCTATTAGC
49373195 CGTGTCTATTAG
1 CGTGTCTATTAG
49373207 TCGGTAATGC
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:0.20, G:0.24, T:0.40
Consensus pattern (13 bp):
CGTGTCTATTAGC
Found at i:49374607 original size:3 final size:3
Alignment explanation
Indices: 49374599--49374640 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
49374589 CAAAACACAA
49374599 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49374641 GGGGTGACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49376619 original size:45 final size:43
Alignment explanation
Indices: 49376506--49376678 Score: 168
Period size: 45 Copynumber: 3.9 Consensus size: 43
49376496 GAATTTGTTG
* * *
49376506 CTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTAATAG
1 CTTCTATCTACTCCACTACAACTTC-AGGAGATAAGATTACTAT
* *
49376550 CTTCCATCTGCTCCACTACAACTTCGAGGAGATAAGATTTACTAT
1 CTTCTATCTACTCCACTACAACTTC-AGGAGATAAGA-TTACTAT
** * *
49376595 CTTCTATCTACTCCACTTTAACTTCAGGGAGTTAAGCTTATCTAT
1 CTTCTATCTACTCCACTACAACTTCA-GGAGATAAGATTA-CTAT
* * *
49376640 CTT-TGATCTACTCCACTGCAATTTTAGGGAGATAAGATT
1 CTTCT-ATCTACTCCACTACAACTTCA-GGAGATAAGATT
49376679 TGTAATTTGC
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
44 39 0.36
45 69 0.64
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (43 bp):
CTTCTATCTACTCCACTACAACTTCAGGAGATAAGATTACTAT
Found at i:49376795 original size:44 final size:44
Alignment explanation
Indices: 49376758--49376859 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
49376748 CACTGTAATC
*
49376758 TCAGAGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACT
1 TCAGAGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACT
* ** * * * *
49376802 TCAGGGAGATAAGGTTTATAGCTTTAATCTGCTCAACTGCAACT
1 TCAGAGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACT
49376846 TCAGAGAGATAAGA
1 TCAGAGAGATAAGA
49376860 TTCGTTATCT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
TCAGAGAGATAAGACTTATAACTTCAACCTGCTCCACTGCAACT
Found at i:49377108 original size:44 final size:44
Alignment explanation
Indices: 49377032--49377160 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 44
49377022 GGCTTGCTAT
* * * *
49377032 CTTCGATCTACTCCATTGCAA-CTCCAAGGAGATAAGATTTGTAA
1 CTTCAATCTGCTCCACTGCAACCT-CAAAGAGATAAGATTTGTAA
* * * **
49377076 CTTCAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGTGG
1 CTTCAATCTGCTCCACTGCAACCTCAAAGAGATAAGATTTGTAA
* *
49377120 CTTCAATCTGCTCCATTGTAACCTCAAAGAGATAAGATTTG
1 CTTCAATCTGCTCCACTGCAACCTCAAAGAGATAAGATTTG
49377161 CCATAATAAC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
44 69 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACCTCAAAGAGATAAGATTTGTAA
Found at i:49383178 original size:40 final size:40
Alignment explanation
Indices: 49383109--49383333 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
49383099 AAACCAAGTA
* * *
49383109 CCTTCGGGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
49383148 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
49383188 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * ** *
49383228 CATTCGAGACTTAGCCCGGGTATAACAACTACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTA--ACTCGCACAAATG
* * *
49383271 CCTTCAGGACTTAGCCCGGATATAGTAACTTGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49383311 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
49383334 CATCCGAATA
Statistics
Matches: 151, Mismatches: 31, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 12 0.08
40 106 0.70
41 1 0.01
42 2 0.01
43 30 0.20
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49383287 original size:83 final size:83
Alignment explanation
Indices: 49383175--49383329 Score: 220
Period size: 83 Copynumber: 1.9 Consensus size: 83
49383165 GGATATAGTA
* * * * *
49383175 ACTCGCACACATGCCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATGCATTCGAGACTT
1 ACTCGAACAAATGCCTTCAGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCATTCGAGACTT
49383240 AGCCCGGGTATAACAACT
66 AGCCCGGGTATAACAACT
* * * * *
49383258 ACTCGAACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTTGCAGAAATGCCTTCGGGACTT
1 ACTCGAACAAATGCCTTCAGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCATTCGAGACTT
49383323 AGCCCGG
66 AGCCCGG
49383330 ATATCATCCG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (83 bp):
ACTCGAACAAATGCCTTCAGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCATTCGAGACTT
AGCCCGGGTATAACAACT
Found at i:49392380 original size:3 final size:3
Alignment explanation
Indices: 49392372--49392410 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
49392362 CAAAACACAA
49392372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49392411 GGGGTGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49396613 original size:22 final size:23
Alignment explanation
Indices: 49396588--49396634 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
49396578 AGATTTAAAT
* *
49396588 AAATATTTATA-TTTATTTTATA
1 AAATATTCATATTTTATGTTATA
49396610 AAATATTCATATTTTATGTTATA
1 AAATATTCATATTTTATGTTATA
49396633 AA
1 AA
49396635 GCACTGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AAATATTCATATTTTATGTTATA
Found at i:49396716 original size:18 final size:18
Alignment explanation
Indices: 49396680--49396715 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
49396670 CTTTTATTGT
*
49396680 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
49396698 TAAAATTATAATATTAAA
1 TAAAATT-TAATATTAAA
49396716 TTTTTTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:49400452 original size:43 final size:42
Alignment explanation
Indices: 49400374--49400482 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 42
49400364 TTGAAATTAT
49400374 GTGTAAGACCATATCTAGGATATGGCACCGATATGAGACTTC
1 GTGTAAGACCATATCTAGGATATGGCACCGATATGAGACTTC
* * * *
49400416 GTGTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGA-TCC
1 GTGTAAGACCATA-TCTAGGATA-TGGCACCGATATGAGACTTC
* * *
49400458 TATGTAAGACCATGTCTGGGATATG
1 -GTGTAAGACCATATCTAGGATATG
49400483 ACATTGGTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATGGCACCGATATGAGACTTC
Found at i:49403160 original size:39 final size:39
Alignment explanation
Indices: 49403103--49403366 Score: 323
Period size: 39 Copynumber: 6.7 Consensus size: 39
49403093 CACCAACACA
* * * * * *
49403103 AAGCCTACGGAACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGCGG-ACCTTAAGTCCGGATATAATTCCAGCACG
* * *
49403143 TAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACG
* *
49403182 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACG
* *
49403221 AAGCCTGCGGGTCTTTAAG-CCTGGATATAATTCCAGCACG
1 AAGCCTGC-GGACCTTAAGTCC-GGATATAATTCCAGCACG
* *
49403261 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAACACG
1 AAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACG
* *
49403300 AAGCCTGCGGACTTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACG
* *
49403339 AATCCTGCGGACCTTAAGCCCGGATATA
1 AAGCCTGCGGACCTTAAGTCCGGATATA
49403367 CATCAAATAT
Statistics
Matches: 197, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 155 0.79
40 42 0.21
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
AAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACG
Found at i:49403317 original size:118 final size:117
Alignment explanation
Indices: 49403103--49403366 Score: 377
Period size: 118 Copynumber: 2.2 Consensus size: 117
49403093 CACCAACACA
* * * *
49403103 AAGCCTACGGAACTTTAAGCCCGGATATAGTACCAGTACGTAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGG-ACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
* * *
49403168 ATAGTACCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
65 ACAATACCAACACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
* * *
49403221 AAGCCTGCGGGTCTTTAAGCCTGGATATAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGC-GGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
*
49403286 ACAATTCCAACACGAAGCCTGCGGA-CTTTAAGTCCGGATACAATTCCAGCACG
65 ACAATACCAACACGAAGCCTGCGGATC-TTAAGTCCGGATACAATTCCAGCACG
* *
49403339 AATCCTGCGGACCTTAAGCCCGGATATA
1 AAGCCTGCGGACTTTAAGCCCGGATATA
49403367 CATCAAATAT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
117 18 0.14
118 109 0.84
119 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (117 bp):
AAGCCTGCGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
CAATACCAACACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
Found at i:49406411 original size:79 final size:80
Alignment explanation
Indices: 49406302--49406483 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 80
49406292 TACTCGTTCA
* *
49406302 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGA
* *
49406366 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* **
49406382 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACCAATGCCTTCGGGCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAT
* *
49406445 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
49406460 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49406484 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 27 0.30
79 49 0.55
80 13 0.15
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:49406414 original size:39 final size:41
Alignment explanation
Indices: 49406302--49406483 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 41
49406292 TACTCGTTCA
* * *
49406302 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACC
* *
49406342 AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACC
49406382 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACC
* * * *
49406421 AATGCCTTCGGG-CTTAGTCCGG-ATATGGTCACTTAGCA-C
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAAC-TCGCACC
*
49406460 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49406484 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.02
39 61 0.49
40 62 0.50
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACC
Found at i:49406483 original size:40 final size:40
Alignment explanation
Indices: 49406300--49406483 Score: 207
Period size: 39 Copynumber: 4.6 Consensus size: 40
49406290 GCTACTCGTT
* *
49406300 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA-
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
* *
49406340 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
49406381 CAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCAC
1 CAAAGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCAC
* * * * *
49406420 CAATGCCTTCGGG-CTTAGTCCGGATATGGTCACTTAGCA-
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCAC
49406459 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
49406484 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 63 0.50
40 60 0.48
41 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
Found at i:49414174 original size:40 final size:39
Alignment explanation
Indices: 49414137--49414358 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 39
49414127 GCTACTCGTT
* *
49414137 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* *
49414177 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
*
49414217 CCAATGCCTTC-GGCTTAG-CCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
*
49414254 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
49414293 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
49414334 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
49414359 CACATCATTC
Statistics
Matches: 161, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
37 29 0.18
38 11 0.07
39 35 0.22
40 76 0.47
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:49414299 original size:76 final size:79
Alignment explanation
Indices: 49414137--49414358 Score: 274
Period size: 76 Copynumber: 2.8 Consensus size: 79
49414127 GCTACTCGTT
* * * * *
49414137 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGTCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
*
49414202 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
49414217 CCAATGCCTTCGG-CTTAG-CCGGA-ATTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGTCCGGATA-TAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
49414278 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
49414293 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGTCCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
49414357 GA
64 GA
49414359 CACATCATTC
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
76 36 0.29
77 29 0.23
78 9 0.07
79 24 0.19
80 26 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGTCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:49414342 original size:116 final size:119
Alignment explanation
Indices: 49414139--49414354 Score: 282
Period size: 116 Copynumber: 1.8 Consensus size: 119
49414129 TACTCGTTCA
*
49414139 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
49414204 TTAGTAACTCGCACCAATGCCTTC-GG-CTTAGCCGGAATTAGTAACTCGCACC
66 ATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCGGAATTAGTAACTCGCACC
* **
49414256 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
49414318 ATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCC
64 ATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCC
49414355 CGGACACATC
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
115 4 0.05
116 56 0.66
117 18 0.21
118 7 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCGGAATTAGTAACTCGCACC
Found at i:49422274 original size:40 final size:40
Alignment explanation
Indices: 49422237--49422417 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
49422227 GCTACTCGTT
*
49422237 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
49422277 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
49422317 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
49422356 C-AATGCCTTC-GG-CTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC-TCGCA
49422394 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49422418 ACATCATTCG
Statistics
Matches: 122, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
37 16 0.13
38 21 0.17
39 26 0.21
40 57 0.47
41 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49425531 original size:16 final size:16
Alignment explanation
Indices: 49425510--49425540 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49425500 TAGCATCACA
49425510 TATATATATGTATATG
1 TATATATATGTATATG
49425526 TATATATATGTATAT
1 TATATATATGTATAT
49425541 ATTTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TATATATATGTATATG
Found at i:49425533 original size:10 final size:10
Alignment explanation
Indices: 49425509--49425542 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
49425499 TTAGCATCAC
*
49425509 ATATATATAT
1 ATATATGTAT
*
49425519 GTATATGTAT
1 ATATATGTAT
49425529 ATATATGTAT
1 ATATATGTAT
49425539 ATAT
1 ATAT
49425543 TTGATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (10 bp):
ATATATGTAT
Found at i:49425713 original size:26 final size:26
Alignment explanation
Indices: 49425674--49425723 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
49425664 GCAAAAATTC
49425674 CTTCTGAAATTAAACCGT-CACATATA
1 CTTCTGAAATTAAA-CGTACACATATA
49425700 CTTCTGAAGA-TAAACGTACACATA
1 CTTCTGAA-ATTAAACGTACACATA
49425724 GAATGCCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.14
26 18 0.82
27 1 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
CTTCTGAAATTAAACGTACACATATA
Found at i:49428437 original size:39 final size:39
Alignment explanation
Indices: 49428365--49428637 Score: 314
Period size: 39 Copynumber: 6.9 Consensus size: 39
49428355 GAATTCAATC
* * * * * *
49428365 ACCAACACAAAGCCTACGGGACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATATAAT
** * * *
49428405 ACCAGTGCGAAGCCTACAGACCTTAAGTCCGGATATAGT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* *
49428444 ACCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* * *
49428483 TCCAGCACGAAGCCTGCGGGTCTTTAAG-CCGGGATATAAT
1 ACCAGCACGAAGCCTGC-GGACCTTAAGTCC-GGATATAAT
* *
49428523 ACCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
* * *
49428562 TCCAGCACGAAGCCTGCGGACCTTAAGTCCGTATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
*
49428601 TCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATA
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATA
49428638 CATCAAATAT
Statistics
Matches: 201, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 156 0.78
40 45 0.22
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAAT
Found at i:49428526 original size:79 final size:78
Alignment explanation
Indices: 49428412--49428635 Score: 333
Period size: 79 Copynumber: 2.9 Consensus size: 78
49428402 AGTACCAGTG
* * * *
49428412 CGAAGCCTACAGACCTTAAGTCCGGATATAGTACCAGCACGAAGCCTGCGGATCTTAAGTCCGGA
1 CGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGA
49428477 TACAATTCCAGCA
66 TACAATTCCAGCA
* * *
49428490 CGAAGCCTGCGGGTCTTTAAG-CCGGGATATAATACCAGCATGAAGCCTGCGGACCTTAAGTCCG
1 CGAAGCCTGC-GGACCTTAAGTCC-GGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCG
49428554 GATACAATTCCAGCA
64 GATACAATTCCAGCA
* * *
49428569 CGAAGCCTGCGGACCTTAAGTCCGTATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGA
1 CGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGA
49428634 TA
66 TA
49428636 TACATCAAAT
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 59 0.45
79 71 0.55
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (78 bp):
CGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGA
TACAATTCCAGCA
Found at i:49428587 original size:118 final size:118
Alignment explanation
Indices: 49428374--49428637 Score: 377
Period size: 118 Copynumber: 2.2 Consensus size: 118
49428364 CACCAACACA
* * **
49428374 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTGCGAAGCCTACAGACCTTAAGTCCGGAT
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTACAGACCTTAAGTCCGGAT
* * *
49428439 ATAGTACCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
66 ACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * * *
49428492 AAGCCTGCGGGTCTTTAAGCCGGGATATAATACCAGCATGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTACAGACCTTAAGTCCGGAT
* *
49428557 ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGTATACAATTCCAGCACG
66 ACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* *
49428610 AAGCCTGC-GGACCTTAAGTCCGGATATA
1 AAGCCTGCGGGACTTTAAGCCCGGATATA
49428638 CATCAAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
117 16 0.12
118 112 0.88
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (118 bp):
AAGCCTGCGGGACTTTAAGCCCGGATATAATACCAGCACGAAGCCTACAGACCTTAAGTCCGGAT
ACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:49438519 original size:18 final size:18
Alignment explanation
Indices: 49438488--49438528 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
49438478 CTTAATCATG
*
49438488 CGAGCTTATAATTCTATA
1 CGAGCCTATAATTCTATA
* *
49438506 CGAGCCTATTATTCTATG
1 CGAGCCTATAATTCTATA
49438524 CGAGC
1 CGAGC
49438529 TTTAAAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (18 bp):
CGAGCCTATAATTCTATA
Found at i:49438576 original size:17 final size:17
Alignment explanation
Indices: 49438554--49438595 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49438544 CCCTGTGATA
*
49438554 TGCAAACAC-TTACATTG
1 TGCAAAC-CTTTACAATG
49438571 TGCAAACCTTTACAATG
1 TGCAAACCTTTACAATG
*
49438588 TGCGAACC
1 TGCAAACC
49438596 CCATATGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (17 bp):
TGCAAACCTTTACAATG
Found at i:49440444 original size:47 final size:47
Alignment explanation
Indices: 49440393--49440829 Score: 634
Period size: 47 Copynumber: 9.2 Consensus size: 47
49440383 CATCCACTTC
* * *
49440393 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
49440440 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
* *
49440489 CATCACATTGGCCATTTGGCCGTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
*
49440538 CATCACATTGGCCATTCGACCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
*
49440585 CATCACATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACAC-T-TTCACATT
49440632 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
*
49440681 CATCACATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACAC-T-TTCACATT
*
49440728 CATCACATTGGCCATTCGACCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
*
49440775 CATCACATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACAC-T-TTCACATT
49440822 CATCACAT
1 CATCACAT
49440830 AAAATCCTCA
Statistics
Matches: 360, Mismatches: 16, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
45 21 0.06
46 3 0.01
47 195 0.54
48 1 0.00
49 132 0.37
50 1 0.00
51 7 0.02
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
Found at i:49440493 original size:27 final size:27
Alignment explanation
Indices: 49440463--49440545 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
49440453 ATTCGGCCTT
49440463 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* ** **
49440490 ATCACAT-TGGC---CA-TTTGGCCGT-
1 ATCACATAT-ACATACACTTTCACATTC
49440512 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
49440539 ATCACAT
1 ATCACAT
49440546 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 8 0.21
23 6 0.15
24 2 0.05
25 2 0.05
26 6 0.15
27 15 0.38
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:49440570 original size:96 final size:95
Alignment explanation
Indices: 49440393--49440829 Score: 693
Period size: 96 Copynumber: 4.6 Consensus size: 95
49440383 CATCCACTTC
* * ***
49440393 CATCACATTGGCCATTCGGCCTTATCATATATATATACT-TTCACATTCATCACATTGGCCATTC
1 CATCACATTGGCCATTCGGCCTTATCACACATACGCA-TGTTCACATTCATCACATTGGCCATTC
*
49440457 GGCCTTATCACATATACATACACTTTCACATT
65 GACCTTATCACA-ATACATACACTTTCACATT
* * * *
49440489 CATCACATTGGCCATTTGGCCGTATCACATATACATACACT-TTCACATTCATCACATTGGCCAT
1 CATCACATTGGCCATTCGGCCTTATCACACATAC--GCA-TGTTCACATTCATCACATTGGCCAT
49440553 TCGACCTTATCAC-ATACATACACTTTCACATT
63 TCGACCTTATCACAATACATACACTTTCACATT
49440585 CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
*
49440650 GCCTTATCACATATACATACACTTTCACATT
66 ACCTTATCACA-ATACATACACTTTCACATT
49440681 CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
49440746 ACCTTATCAC-ATACATACACTTTCACATT
66 ACCTTATCACAATACATACACTTTCACATT
49440775 CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
1 CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
49440830 AAAATCCTCA
Statistics
Matches: 324, Mismatches: 12, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
93 1 0.00
94 111 0.34
96 173 0.53
98 39 0.12
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (95 bp):
CATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
ACCTTATCACAATACATACACTTTCACATT
Found at i:49440695 original size:143 final size:142
Alignment explanation
Indices: 49440393--49440829 Score: 643
Period size: 143 Copynumber: 3.1 Consensus size: 142
49440383 CATCCACTTC
* * *
49440393 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
* * *
49440458 GCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTTGGCCGTATCACATATAC
66 GCCTTATCACACATAC--ACA-TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
49440523 ATACACTTTCACATT
128 ATACACTTTCACATT
*
49440538 CATCACATTGGCCATTCGACCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
*
49440603 GCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
66 GCCTTATCACACATACACAT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAT
49440668 ACACTTTCACATT
130 ACACTTTCACATT
*
49440681 CATCACATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACAC-T-TTCACATTCATCACATTGGCCATT
* *
49440744 CGACCTTATCACATACATACAC-TTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
64 CGGCCTTATCAC--ACATACACATTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
*
49440808 C--GCA-TGTTCACATT
127 CATACACT-TTCACATT
49440822 CATCACAT
1 CATCACAT
49440830 AAAATCCTCA
Statistics
Matches: 272, Mismatches: 14, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
140 1 0.00
141 25 0.09
142 2 0.01
143 160 0.59
144 1 0.00
145 83 0.31
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (142 bp):
CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCG
GCCTTATCACACATACACATTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATA
CACTTTCACATT
Found at i:49444583 original size:40 final size:40
Alignment explanation
Indices: 49444534--49444628 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
49444524 GACTAAGTTC
49444534 GGCAC-AAGTGTGCG-GTTCGAAATAGCTTCAGCTACA-AA
1 GGCACTAAGTGTGCGAGTT-GAAATAGCTTCAGCTACATAA
* * * *
49444572 TGGCACTAAGTGTGCGAGTTGGAATAGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCGAGTTGAAATAGCTTCAGCTACATAA
49444613 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
49444629 TACTGAGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 5 0.10
40 40 0.82
41 4 0.08
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAGTTGAAATAGCTTCAGCTACATAA
Found at i:49456979 original size:68 final size:67
Alignment explanation
Indices: 49456907--49457056 Score: 180
Period size: 67 Copynumber: 2.2 Consensus size: 67
49456897 CATCATGTGT
* * * *
49456907 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
49456969 ATGTAG
62 ATGTAG
* * *
49456975 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
49457040 AG
66 AG
49457042 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
49457057 GATAAACTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 20 0.28
65 7 0.10
66 5 0.07
67 27 0.38
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:49474489 original size:43 final size:42
Alignment explanation
Indices: 49474438--49474587 Score: 117
Period size: 43 Copynumber: 3.5 Consensus size: 42
49474428 CGATGGCAAC
* * *
49474438 GTCCCAGACGTGTTCTTACATGAAATCAGACATCGATG-CTACT
1 GTCCCAGACGTGGTCTTACACGAAATCAGACA-CGATGCCGA-T
* *
49474481 GTCCCAGACAG-GGTCTTACACGAAATTAGATACGATGCCGAT
1 GTCCCAGAC-GTGGTCTTACACGAAATCAGACACGATGCCGAT
* * * * * * *
49474523 GTCCCAGACATGGTCTTATACATAAAGCA-AAAGTCGATGCCAAC
1 GTCCCAGACGTGGTCTTACAC-GAAATCAGACA--CGATGCCGAT
49474567 GTCCCAGACGTGGTCTTACAC
1 GTCCCAGACGTGGTCTTACAC
49474588 AATAACACAT
Statistics
Matches: 86, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 26 0.30
43 32 0.37
44 28 0.33
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGAAATCAGACACGATGCCGAT
Found at i:49478961 original size:16 final size:16
Alignment explanation
Indices: 49478903--49478961 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
49478893 ATGAATCGGC
*
49478903 AAAAGCCGAAATGCTG
1 AAAAGCCAAAATGCTG
* * * *
49478919 AAATGTCGAAATTCTG
1 AAAAGCCAAAATGCTG
**
49478935 AAAAGGTAAAATGCTG
1 AAAAGCCAAAATGCTG
49478951 AAAAGCCAAAA
1 AAAAGCCAAAA
49478962 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (16 bp):
AAAAGCCAAAATGCTG
Found at i:49483929 original size:28 final size:28
Alignment explanation
Indices: 49483898--49483960 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
49483888 TGACCGAGTT
* *
49483898 ACCAGAAACAAATAATTGTGGTAGGGCC
1 ACCAGAAACAAATAATTGTGGTAGAGCA
* *
49483926 ACCAGAAACAGATATTTGTGGTAGAGCA
1 ACCAGAAACAAATAATTGTGGTAGAGCA
49483954 ACCAGAA
1 ACCAGAA
49483961 CGCTTCCTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (28 bp):
ACCAGAAACAAATAATTGTGGTAGAGCA
Found at i:49484123 original size:26 final size:25
Alignment explanation
Indices: 49484067--49484125 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
49484057 ATCAACCCCA
*
49484067 AGGGTATAATGGTCATTTTACACCT
1 AGGGTATAATGGTAATTTTACACCT
* *
49484092 AGGGGTATAATGGTAATTTTCATACTT
1 A-GGGTATAATGGTAATTTT-ACACCT
49484119 AGGGTAT
1 AGGGTAT
49484126 TTTAGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 23 0.79
27 5 0.17
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (25 bp):
AGGGTATAATGGTAATTTTACACCT
Found at i:49486060 original size:15 final size:14
Alignment explanation
Indices: 49486016--49486078 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
49486006 GATAACAAGA
49486016 AAACC-GAATAAAG
1 AAACCAGAATAAAG
**
49486029 AAATCCA-AGATTGAG
1 AAA-CCAGA-ATAAAG
49486044 AAACCGAGAATAAAG
1 AAACC-AGAATAAAG
49486059 AAATCCAGAATAAAG
1 AAA-CCAGAATAAAG
49486074 AAACC
1 AAACC
49486079 CAAGATACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
13 3 0.08
14 7 0.17
15 27 0.68
16 3 0.08
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (14 bp):
AAACCAGAATAAAG
Found at i:49486076 original size:30 final size:30
Alignment explanation
Indices: 49486021--49486078 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
49486011 CAAGAAAACC
**
49486021 GAATAAAGAAATCCAAGATTGAGAAACCGA
1 GAATAAAGAAATCCAAGATAAAGAAACCGA
49486051 GAATAAAGAAATCC-AGAATAAAGAAACC
1 GAATAAAGAAATCCAAG-ATAAAGAAACC
49486079 CAAGATACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCGA
Found at i:49490579 original size:29 final size:29
Alignment explanation
Indices: 49490542--49490608 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
49490532 TGAATGTGAC
*
49490542 TGGGCCTAACGGGCCATATAAATGTAATT
1 TGGGCCTAACGGGCCATATAAAGGTAATT
* * *
49490571 TGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAAGGTAATT
49490600 TGGGCCTAA
1 TGGGCCTAA
49490609 AGGGGCTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAACGGGCCATATAAAGGTAATT
Found at i:49493643 original size:77 final size:77
Alignment explanation
Indices: 49493516--49493667 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
49493506 CACTCAGGGT
49493516 AATCAGATTTAGCATTTTCGACACTGGCAGCAGATGTAGCTGGAGCTTTGAAGTTTGAATGCGAT
1 AATCAGATTTAGCATTTTCGACACTGGCAGCAGATGTAGCTGGAGCTTTGAAGTTTGAATGCGAT
49493581 CTAGCACGATGC
66 CTAGCACGATGC
49493593 AATCAGATTTAGCATTTTCGACACTGGCAGCAGATGTAGCTGGAGCTTTGAAGTTTGAATGCGAT
1 AATCAGATTTAGCATTTTCGACACTGGCAGCAGATGTAGCTGGAGCTTTGAAGTTTGAATGCGAT
49493658 CTAGCACGAT
66 CTAGCACGAT
49493668 CTCTATTCGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (77 bp):
AATCAGATTTAGCATTTTCGACACTGGCAGCAGATGTAGCTGGAGCTTTGAAGTTTGAATGCGAT
CTAGCACGATGC
Found at i:49496200 original size:44 final size:42
Alignment explanation
Indices: 49496051--49496205 Score: 165
Period size: 41 Copynumber: 3.7 Consensus size: 42
49496041 AGCATATACA
* * *
49496051 ATGCCAACGTCCCAGACGT-GTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAGA-ATCG
*
49496093 ATGCCAGTGTCCCAGAC-TGGGTCTTACACG-AATCAG-ATACG
1 ATGCCAATGTCCCAGACGT-GGTCTTACACGTAATCAGAAT-CG
* * *
49496134 ATGCCAATGTCTCAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AATCAGAA-TCG
*
49496178 ATGCCAATGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
49496206 TAATAAAACA
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 21 0.22
43 14 0.15
44 28 0.29
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAGAATCG
Found at i:49501085 original size:38 final size:38
Alignment explanation
Indices: 49501042--49501117 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49501032 TTCATCCTTT
49501042 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
49501080 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
49501118 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:49502400 original size:40 final size:40
Alignment explanation
Indices: 49502306--49502450 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49502296 TACTCGAATG
*
49502306 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
49502347 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
49502387 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
49502427 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49502451 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:49509134 original size:38 final size:38
Alignment explanation
Indices: 49509091--49509166 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49509081 TTCATCCTTT
49509091 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
49509129 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
49509167 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:49510447 original size:40 final size:40
Alignment explanation
Indices: 49510353--49510497 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49510343 TACTCGAATG
*
49510353 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
49510394 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
49510434 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
49510474 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
49510498 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:49513173 original size:17 final size:18
Alignment explanation
Indices: 49513145--49513179 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49513135 TCTTGTCTCT
*
49513145 TTTTTAACGATTTTTATA
1 TTTTTAACGATTGTTATA
49513163 TTTTTAA-GATTGTTATA
1 TTTTTAACGATTGTTATA
49513180 ACTTGATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (18 bp):
TTTTTAACGATTGTTATA
Found at i:49527009 original size:46 final size:46
Alignment explanation
Indices: 49526959--49527087 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
49526949 TGGTTGAGCA
*
49526959 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
49527005 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
49527051 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49527088 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:49533202 original size:14 final size:15
Alignment explanation
Indices: 49533174--49533208 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
49533164 GTTTCTTTGT
49533174 TTTATTCATTTTTTC
1 TTTATTCATTTTTTC
49533189 TTTATTCA-TTTTTC
1 TTTATTCATTTTTTC
49533203 TTTATT
1 TTTATT
49533209 TGATTAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTCATTTTTTC
Found at i:49544589 original size:38 final size:38
Alignment explanation
Indices: 49544535--49544689 Score: 166
Period size: 38 Copynumber: 3.8 Consensus size: 38
49544525 ACATATTGAT
* *
49544535 ACATGTAACGTAGTGCTAAGTGGATAAACCACGGTTAA
1 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAA
*
49544573 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACA
1 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTA-A
* * *
49544612 TATATTGATTCATTAACGTGGTGCTAAGTGGATATAGCACAGTTAA
1 -ACA-TG------TAACGTGGTGCTAAGTGGATATACCACGGTTAA
*
49544658 ACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 ACATGTAACGTGGTGCTAAGTGGATATACCAC
49544690 AATTATACAT
Statistics
Matches: 98, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
38 59 0.60
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 29 0.30
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (38 bp):
ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAA
Found at i:49544668 original size:85 final size:85
Alignment explanation
Indices: 49544457--49544699 Score: 335
Period size: 86 Copynumber: 2.8 Consensus size: 85
49544447 AATAAAAAAT
* * * * *
49544457 CGTGGTGCTAAGTGGATATACCACGATTATACGTGTAACGTGGTGCTAAATGGATATACCATGAT
1 CGTGGTGCTAAGTGGATATACCACG-TTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGAT
49544522 TACACATATTGATACATGTAA
65 TACACATATTGATACATGTAA
* * *
49544543 CGTAGTGCTAAGTGGATAAACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGT
1 CGTGGTGCTAAGTGGATATACCAC-GTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGAT
* *
49544608 TACATATATTGATTCAT-TAA
65 TACACATATTGATACATGTAA
* *
49544628 CGTGGTGCTAAGTGGATATAGCACAGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACAAT
1 CGTGGTGCTAAGTGGATATACCAC-GTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGAT
*
49544693 TATACAT
65 TACACAT
49544700 GTTAATTTGA
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
85 67 0.49
86 70 0.51
87 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (85 bp):
CGTGGTGCTAAGTGGATATACCACGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGATT
ACACATATTGATACATGTAA
Found at i:49544700 original size:38 final size:38
Alignment explanation
Indices: 49544625--49544701 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
49544615 ATTGATTCAT
*
49544625 TAACGTGGTGCTAAGTGGATATAGCACAGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATAGCACAATTAAACATG
*
49544663 TAACGTGGTGCTAAGTGGATAT-GCCACAATTATACATG
1 TAACGTGGTGCTAAGTGGATATAG-CACAATTAAACATG
49544701 T
1 T
49544702 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATAGCACAATTAAACATG
Found at i:49547964 original size:15 final size:15
Alignment explanation
Indices: 49547944--49547984 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
49547934 CTATAAATGA
49547944 GATTTCCTTATCATG
1 GATTTCCTTATCATG
* * *
49547959 GATTTCTTTCTCTTG
1 GATTTCCTTATCATG
49547974 GATTTCCTTAT
1 GATTTCCTTAT
49547985 TCTGGGCTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.54
Consensus pattern (15 bp):
GATTTCCTTATCATG
Found at i:49550716 original size:38 final size:38
Alignment explanation
Indices: 49550661--49550907 Score: 197
Period size: 38 Copynumber: 6.0 Consensus size: 38
49550651 GGAATAAAAA
* *
49550661 AACGTGGTGCTAAGTGGATATACCATGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * **
49550699 AACTTGGTGCTAAGTGGATATAATATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGG-----ATAT-A--CCAC-GGTT-ATACATGT
*
49550747 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
49550785 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * *
49550832 AACGTGGTGCTAAATGGATATACCACGGTTAAACATAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
49550870 AACGTGGTGCTAAGTGGATATGCCACGGTTGTACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
49550908 TAATTTGAAA
Statistics
Matches: 166, Mismatches: 24, Indels: 38
0.73 0.11 0.17
Matches are distributed among these distances:
38 86 0.52
39 2 0.01
40 6 0.04
41 2 0.01
42 1 0.01
43 8 0.05
44 2 0.01
45 3 0.02
46 2 0.01
47 31 0.19
48 23 0.14
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:49550867 original size:85 final size:86
Alignment explanation
Indices: 49550661--49550899 Score: 354
Period size: 86 Copynumber: 2.8 Consensus size: 86
49550651 GGAATAAAAA
* * * * *** *
49550661 AACGTGGTGCTAAGTGGATATACCATGGTTATACGTGTAACTTGGTGCTAAGTGGATATAATATG
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
*
49550726 ATTACACATATTGATACATGT
66 GTTACACATATTGATACATGT
49550747 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
* *
49550812 GTTACATATATTGATTCAT-T
66 GTTACACATATTGATACATGT
* *
49550832 AACGTGGTGCTAAATGGATATACCACGGTTAAACATATAACGTGGTGCTAAGTGGATATGCCACG
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
49550897 GTT
66 GTT
49550900 GTACATGTTA
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 67 0.48
86 73 0.52
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (86 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
GTTACACATATTGATACATGT
Found at i:49555671 original size:14 final size:16
Alignment explanation
Indices: 49555639--49555677 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
49555629 ATTTACATAA
*
49555639 CATATATCACTTATTT
1 CATATATCACTTATGT
49555655 CATATATCAC-T-TGT
1 CATATATCACTTATGT
49555669 CATATATCA
1 CATATATCA
49555678 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (16 bp):
CATATATCACTTATGT
Found at i:49569494 original size:43 final size:43
Alignment explanation
Indices: 49569419--49569540 Score: 127
Period size: 45 Copynumber: 2.8 Consensus size: 43
49569409 TGATACTGAT
* * * * *
49569419 GTCCCAGACATGGTCTTACTCGTAACCGCATATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATCGATGCCAAC
* * *
49569462 GTCCCATACGTGGTCTTACATGAAAACACATATATCGATGCTAAC
1 GTCCCAGACGTGGTCTTACACGAAAACAC--ATATCGATGCCAAC
* * *
49569507 TTCCCAGATGTGGTCTTACACGAAAACATATATC
1 GTCCCAGACGTGGTCTTACACGAAAACACATATC
49569541 AGAATCCTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 27 0.42
45 37 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGAAAACACATATCGATGCCAAC
Found at i:49569512 original size:45 final size:45
Alignment explanation
Indices: 49569448--49569539 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
49569438 TCGTAACCGC
* *
49569448 ATATCGATGCCAACGTCCCATACGTGGTCTTACATGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAT
* * * *
49569493 ATATCGATGCTAACTTCCCAGATGTGGTCTTACACGAAAACATAT
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAT
49569538 AT
1 AT
49569540 CAGAATCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAT
Found at i:49576194 original size:40 final size:39
Alignment explanation
Indices: 49576116--49576331 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 39
49576106 CGAATGATAC
* *
49576116 CCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACTATAT
1 CCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTG-CTATAT
* * *
49576156 TCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGCTATAT
* *
49576196 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCTAGTG-CTATAT
* *
49576236 CCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGATCATAT
1 CCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGCT-ATAT
* * * *
49576276 CCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCTAGT-GCTATAT
49576315 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGAT-CCGAAG
49576332 ATACTTGGGT
Statistics
Matches: 148, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 16 0.11
40 116 0.78
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGCTATAT
Found at i:49576252 original size:80 final size:79
Alignment explanation
Indices: 49576116--49576331 Score: 258
Period size: 80 Copynumber: 2.7 Consensus size: 79
49576106 CGAATGATAC
* * * *
49576116 CCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATTCGGACTAAGAT-CCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAG-TCCCGAAGGCATTT
* *
49576180 GTGCGAGTTGCT-ATAT
64 ATGCGAG-TGATCATAT
*
49576196 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
*
49576261 TGCTAGTGATCATAT
65 TGCGAGTGATCATAT
* * ** *
49576276 CCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAG
49576332 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
78 14 0.12
79 20 0.17
80 85 0.71
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTAT
GCGAGTGATCATAT
Found at i:49584278 original size:40 final size:40
Alignment explanation
Indices: 49584200--49584401 Score: 194
Period size: 40 Copynumber: 5.1 Consensus size: 40
49584190 TCGAATGATA
* * * *
49584200 CCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACTATAT
1 CCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTGGCTATAT
* * *
49584240 CCGGACTAAGATCCGAAGGAATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGGCTATAT
* * * * *
49584280 CTGGGCTAAGACCCAAAGGCATTTGTGCTAGCGGCTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGGCTATAT
* * * *
49584320 CCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACCATAT
1 CCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTGGCTATAT
* * *
49584360 CCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGGCTATAT
49584399 CCG
1 CCG
49584402 ACTAAATCCT
Statistics
Matches: 130, Mismatches: 29, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
39 16 0.12
40 113 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGGCTATAT
Found at i:49584336 original size:80 final size:79
Alignment explanation
Indices: 49584200--49584415 Score: 233
Period size: 80 Copynumber: 2.7 Consensus size: 79
49584190 TCGAATGATA
* * * *
49584200 CCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGAATTTG
1 CCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGGCTATATCCGGACTAAGATCCGAAGGAATTTA
*
49584265 TGCGAGTTG-CTATAT
65 TGCGAG-TGACCATAT
* * * * *
49584280 CTGGGCTAAGACCCAAAGGCATTTGTGCTAGCGGCTATATCCGGGCTAAG-TCCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGGCTATATCCGGACTAAGAT-CCGAAGGAATTT
*
49584344 ATGCTAGTGACCATAT
64 ATGCGAGTGACCATAT
* * *
49584360 CCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GACTAA-ATCCTGAAG
1 CCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGGCTATATCCGGACTAAGATCC-GAAG
49584416 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
77 2 0.02
78 10 0.09
79 20 0.18
80 81 0.72
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGGCTATATCCGGACTAAGATCCGAAGGAATTTAT
GCGAGTGACCATAT
Found at i:49592953 original size:39 final size:39
Alignment explanation
Indices: 49592894--49593051 Score: 244
Period size: 39 Copynumber: 4.1 Consensus size: 39
49592884 TGTGAATATA
* *
49592894 TATACGCGAGAATTATATCCGGACTTCAGGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
49592933 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
49592972 TATATGCGAGAATTATATCCGGAATTCATGTCCGCGGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
49593011 TATATGCGAGAATTATATCCAGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
49593050 TA
1 TA
49593052 CGTGCTGGAC
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:49601124 original size:39 final size:39
Alignment explanation
Indices: 49601065--49601222 Score: 262
Period size: 39 Copynumber: 4.1 Consensus size: 39
49601055 TGTGAATATA
*
49601065 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
49601104 TATAAGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
49601143 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
49601182 TATATGCGAGAATTATATCTGGACTTTAGATCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
49601221 TA
1 TA
49601223 CGTGCTGGAC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:49618968 original size:27 final size:27
Alignment explanation
Indices: 49618938--49619115 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
49618928 ATATTGAGTC
* *
49618938 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49618965 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49618992 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49619020 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
49619047 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
49619074 CGCACACTTGGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
49619101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49619116 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49620533 original size:105 final size:107
Alignment explanation
Indices: 49620337--49620533 Score: 231
Period size: 105 Copynumber: 1.9 Consensus size: 107
49620327 AATATACTAA
* * * **
49620337 CCTTATTAAGCATTCAAATGGCCGAAAGTTCTTTGCCCCTATTCTTTCCTTCACATTCGGCTTAG
1 CCTTATTAAGCATTCAAATGACCGAAAGTTCTTTGCCCCAATTCTTTCCTTCACATCCGGCCAAG
* **
49620402 AAGAAACAAAGATGAACACTTAGTTTTCTTCACCCATCCCCC
66 AAGAAACAAAAAAAAACACTTAGTTTTCTTCACCCATCCCCC
* * * *
49620444 CCTTCTTAAGC-TTCAAGTGACCGAATGTT-TTTGCCCCAATTCTTTCTTTCA-ATCCGGCCAAG
1 CCTTATTAAGCATTCAAATGACCGAAAGTTCTTTGCCCCAATTCTTTCCTTCACATCCGGCCAAG
*
49620506 AAGAACCAAAAAAAACACAACTT-GTTTT
66 AAGAAACAAAAAAAA-AC-ACTTAGTTTT
49620534 TCTTTCTTCC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
104 19 0.25
105 27 0.36
106 19 0.25
107 10 0.13
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (107 bp):
CCTTATTAAGCATTCAAATGACCGAAAGTTCTTTGCCCCAATTCTTTCCTTCACATCCGGCCAAG
AAGAAACAAAAAAAAACACTTAGTTTTCTTCACCCATCCCCC
Found at i:49627163 original size:27 final size:27
Alignment explanation
Indices: 49627133--49627310 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
49627123 ATATTGAGTC
* *
49627133 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
49627160 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
49627187 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
49627215 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
49627242 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
49627269 CGCACACTTGGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
49627296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49627311 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49637656 original size:27 final size:28
Alignment explanation
Indices: 49637600--49637663 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
49637590 ATTTACTAGA
*
49637600 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
49637628 ATACCCCTATGTATGC-AAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
49637655 ATACCCCTA
1 ATACCCCTA
49637664 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:49637870 original size:29 final size:28
Alignment explanation
Indices: 49637769--49637859 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
49637759 AGGAAGCGTC
49637769 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
49637797 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
49637825 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
49637854 CTGGTG
1 CTGGTG
49637860 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:49637884 original size:56 final size:55
Alignment explanation
Indices: 49637769--49637884 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
49637759 AGGAAGCGTC
* *
49637769 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
49637825 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
49637881 CTGG
1 CTGG
49637885 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:49638720 original size:26 final size:27
Alignment explanation
Indices: 49638681--49638736 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
49638671 AAAGTATCTT
49638681 TAAAACAACCAACTAAGTTTTCCAAAC
1 TAAAACAACCAACTAAGTTTTCCAAAC
49638708 TAAAAC-ACCAACTAAGTTTTCCAAAC
1 TAAAACAACCAACTAAGTTTTCCAAAC
49638734 TAA
1 TAA
49638737 GTAATACGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (27 bp):
TAAAACAACCAACTAAGTTTTCCAAAC
Found at i:49647223 original size:27 final size:27
Alignment explanation
Indices: 49647192--49647369 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49647182 TAAATTGTAC
49647192 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49647219 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49647245 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49647273 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49647301 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49647328 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49647355 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49647370 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:49647306 original size:82 final size:81
Alignment explanation
Indices: 49647193--49647348 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49647183 AAATTGTACA
* *
49647193 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49647257 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49647274 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49647339 TGCGAGTTGA
65 TGCGAATTGA
49647349 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:49647360 original size:82 final size:81
Alignment explanation
Indices: 49647189--49647369 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49647179 GATTAAATTG
* *
49647189 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49647254 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49647270 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49647334 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49647352 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49647370 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:49655409 original size:27 final size:27
Alignment explanation
Indices: 49655378--49655555 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49655368 TAAATTGTAC
49655378 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49655405 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49655431 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49655459 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49655487 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49655514 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49655541 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49655556 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:49655492 original size:82 final size:81
Alignment explanation
Indices: 49655379--49655534 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49655369 AAATTGTACA
* *
49655379 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49655443 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49655460 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49655525 TGCGAGTTGA
65 TGCGAATTGA
49655535 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:49655546 original size:82 final size:81
Alignment explanation
Indices: 49655375--49655555 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49655365 GATTAAATTG
* *
49655375 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49655440 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49655456 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49655520 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49655538 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49655556 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
Done.