Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 160 of 433
Found at i:49830920 original size:28 final size:27
Alignment explanation
Indices: 49830857--49830926 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
49830847 ATAGTGAGTC
49830857 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49830884 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
49830912 CGCACACTTTGTGCT
1 CGCACACTTAGTGCT
49830927 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49832863 original size:18 final size:18
Alignment explanation
Indices: 49832840--49832874 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
49832830 CTACAAGTTT
49832840 CCACACTGAGTTGGAATC
1 CCACACTGAGTTGGAATC
49832858 CCACACTGAGTTGGAAT
1 CCACACTGAGTTGGAAT
49832875 AAATAGAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (18 bp):
CCACACTGAGTTGGAATC
Found at i:49850673 original size:19 final size:19
Alignment explanation
Indices: 49850649--49850686 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49850639 GACAAAGCCC
49850649 AATAAATAATAATGCCTGA
1 AATAAATAATAATGCCTGA
* *
49850668 AATAAATGATAATGTCTGA
1 AATAAATAATAATGCCTGA
49850687 TACATGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (19 bp):
AATAAATAATAATGCCTGA
Found at i:49857470 original size:16 final size:18
Alignment explanation
Indices: 49857444--49857476 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49857434 TTTGATTAAC
49857444 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
49857461 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
49857477 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:49860592 original size:21 final size:21
Alignment explanation
Indices: 49860566--49860612 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
49860556 GTTACACGTC
49860566 CTGGCATATGGGCGTGTGACA
1 CTGGCATATGGGCGTGTGACA
49860587 CTGGCATATGGGCGTGTGACA
1 CTGGCATATGGGCGTGTGACA
49860608 C-GGCA
1 CTGGCA
49860613 ATGTGACCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.21
Consensus pattern (21 bp):
CTGGCATATGGGCGTGTGACA
Found at i:49861926 original size:56 final size:56
Alignment explanation
Indices: 49861813--49861939 Score: 168
Period size: 56 Copynumber: 2.3 Consensus size: 56
49861803 ATCAATTGGG
* * * *
49861813 TTTATTTTATTTAATTTTGAATTTTATTTTTATTTATTGTTTACTATTATTTTATTT
1 TTTA-TTTATTTAATTTTGAATTATATTTTTATTTATTATTTACTACTATTTGATTT
* *
49861870 TTTATTTATTTATTTTTGAATTATATTTTTATTTATTATTTACTACTCTTTGA--T
1 TTTATTTATTTAATTTTGAATTATATTTTTATTTATTATTTACTACTATTTGATTT
*
49861924 TTTATATATTTAATTT
1 TTTATTTATTTAATTT
49861940 CGTATTACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
54 15 0.24
56 43 0.69
57 4 0.06
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.69
Consensus pattern (56 bp):
TTTATTTATTTAATTTTGAATTATATTTTTATTTATTATTTACTACTATTTGATTT
Found at i:49864504 original size:48 final size:48
Alignment explanation
Indices: 49864416--49864544 Score: 134
Period size: 48 Copynumber: 2.7 Consensus size: 48
49864406 ATGTCATTAA
* * * * * * *
49864416 AAGCTTCAATGATTTAGCTTCGGGCCATGATATTAGCACTTCGGGTGC
1 AAGCTTCATTGATTTGGCTTCGGACCATAATATTAACACTTCAGGTAC
* *
49864464 AAGCCTT-ATTGATTTGGCTTTGGACCATAATATTAACACTTCAGGTAT
1 AAG-CTTCATTGATTTGGCTTCGGACCATAATATTAACACTTCAGGTAC
* * *
49864512 GAGCTTCATTGATTTGGCTTCGGGCCATGATAT
1 AAGCTTCATTGATTTGGCTTCGGACCATAATAT
49864545 GGGCACCTAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
47 3 0.05
48 60 0.91
49 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (48 bp):
AAGCTTCATTGATTTGGCTTCGGACCATAATATTAACACTTCAGGTAC
Found at i:49874977 original size:25 final size:25
Alignment explanation
Indices: 49874940--49875011 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
49874930 TCTAACCCAC
*
49874940 AGCTCGTGTGAGCATACCGATTTAT
1 AGCTCATGTGAGCATACCGATTTAT
* * *
49874965 AGCTCATGAGAGCATACCAATCTAT
1 AGCTCATGTGAGCATACCGATTTAT
49874990 AGCTCGA-GTGAGCATACCGATT
1 AGCTC-ATGTGAGCATACCGATT
49875012 CACAACTCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCATGTGAGCATACCGATTTAT
Found at i:49878265 original size:27 final size:28
Alignment explanation
Indices: 49878235--49878334 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
49878225 ATAGTGAGTC
49878235 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
49878262 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
49878290 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
49878321 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49878335 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:49879197 original size:13 final size:13
Alignment explanation
Indices: 49879179--49879203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49879169 CTCATCACCA
49879179 CAACATCAAACAT
1 CAACATCAAACAT
49879192 CAACATCAAACA
1 CAACATCAAACA
49879204 AGAAGACAAC
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:0.56, C:0.32, G:0.00, T:0.12
Consensus pattern (13 bp):
CAACATCAAACAT
Found at i:49897850 original size:17 final size:17
Alignment explanation
Indices: 49897824--49897857 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49897814 CATTATATAT
* *
49897824 ATATATATATATATAAG
1 ATATACATATACATAAG
49897841 ATATACATATACATAAG
1 ATATACATATACATAAG
49897858 CACATGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
ATATACATATACATAAG
Found at i:49899436 original size:38 final size:38
Alignment explanation
Indices: 49899394--49899467 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
49899384 TTTTGAAACA
* *
49899394 AAATTGAACATTAAAATTAAATTTAGGTATCAAATATC
1 AAATTGAACATTAAAATTAAATTTAAGTATAAAATATC
49899432 AAATTGAACATTAAAATTAAATTTAAGTATAAAATA
1 AAATTGAACATTAAAATTAAATTTAAGTATAAAATA
49899468 ATATATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (38 bp):
AAATTGAACATTAAAATTAAATTTAAGTATAAAATATC
Found at i:49899464 original size:18 final size:18
Alignment explanation
Indices: 49899405--49899466 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
49899395 AATTGAACAT
*
49899405 TAAAATTAAATTTAGGTA
1 TAAAATTAAATTTAAGTA
* * *
49899423 TCAAATATCAAATTGAA-CA
1 T-AAA-ATTAAATTTAAGTA
49899442 TTAAAATTAAATTTAAGTA
1 -TAAAATTAAATTTAAGTA
49899461 TAAAAT
1 TAAAAT
49899467 AATATATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
18 16 0.48
19 8 0.24
20 9 0.27
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (18 bp):
TAAAATTAAATTTAAGTA
Found at i:49900411 original size:42 final size:40
Alignment explanation
Indices: 49900362--49900438 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
49900352 ACAAAAATTT
49900362 ATTTATTTATTT-TTTTAATAGATA-AATAAAATAAAATA
1 ATTTATTTATTTATTTTAATAGATACAATAAAATAAAATA
49900400 ATTTATTTATTTATTTTAATAGATACAATAAAATAAAAT
1 ATTTATTTATTTATTTTAATAGATACAATAAAATAAAAT
49900439 CTAACTCTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 12 0.32
39 12 0.32
40 13 0.35
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (40 bp):
ATTTATTTATTTATTTTAATAGATACAATAAAATAAAATA
Found at i:49901000 original size:28 final size:28
Alignment explanation
Indices: 49900910--49901003 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
49900900 ATATGTACTT
*
49900910 AATTAGAAAAAAA-AAAATTCAGATATCA
1 AATTA-AAAAAAAGAAAATTTAGATATCA
* * **
49900938 AATTAAATATTAAAGTTAAATTTAGATATTT
1 AATTAAA-A-AAAAG-AAAATTTAGATATCA
*
49900969 AATTAAAAAAAAGAAAATTTAAATATCA
1 AATTAAAAAAAAGAAAATTTAGATATCA
49900997 AATTAAA
1 AATTAAA
49901004 CATTAAATTC
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
27 2 0.04
28 24 0.46
29 7 0.13
30 1 0.02
31 18 0.35
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (28 bp):
AATTAAAAAAAAGAAAATTTAGATATCA
Found at i:49903551 original size:25 final size:23
Alignment explanation
Indices: 49903512--49903564 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 23
49903502 TCATTTAATC
*
49903512 AAAT-AAATTATTAAAAAAATCATA
1 AAATAAAAATATTAAAAAAAT-A-A
49903536 AAATAAAAATATTAAAAAAATAA
1 AAATAAAAATATTAAAAAAATAA
49903559 AAATAA
1 AAATAA
49903565 TCAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.26
24 5 0.19
25 15 0.56
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
AAATAAAAATATTAAAAAAATAA
Found at i:49912023 original size:12 final size:12
Alignment explanation
Indices: 49912006--49912030 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49911996 CGTCGTAGTT
49912006 ATCATCATAATC
1 ATCATCATAATC
49912018 ATCATCATAATC
1 ATCATCATAATC
49912030 A
1 A
49912031 AGTCCATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCATCATAATC
Found at i:49913438 original size:22 final size:24
Alignment explanation
Indices: 49913401--49913456 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
49913391 TTCTAAATTT
**
49913401 ATATTATAAATCTTAA-AATGC-C
1 ATATTATAAAAATTAATAATGCGC
*
49913423 ATATTATAAAAATTAATCATGCGC
1 ATATTATAAAAATTAATAATGCGC
*
49913447 ATTTTATAAA
1 ATATTATAAA
49913457 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 14 0.50
23 4 0.14
24 10 0.36
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (24 bp):
ATATTATAAAAATTAATAATGCGC
Found at i:49916532 original size:2 final size:2
Alignment explanation
Indices: 49916525--49916563 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
49916515 GATCACTCTT
49916525 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49916564 TTACATACCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49918822 original size:40 final size:40
Alignment explanation
Indices: 49918756--49918906 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
49918746 AAATTGAATG
* * *
49918756 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49918795 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
49918835 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
49918875 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
49918907 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49926826 original size:40 final size:40
Alignment explanation
Indices: 49926760--49926910 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
49926750 AAATTGAATG
* * *
49926760 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49926799 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
49926839 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
49926879 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
49926911 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49932420 original size:39 final size:39
Alignment explanation
Indices: 49932377--49932458 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
49932367 AATTATATTA
* *
49932377 CCAGCACAAAGCCTGTGGGACTTTAGCTCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
49932416 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
49932455 CCAG
1 CCAG
49932459 TGTCTTGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:49934634 original size:2 final size:2
Alignment explanation
Indices: 49934627--49934670 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
49934617 TTCCTTTCAA
49934627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49934669 AT
1 AT
49934671 TGTTATAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49936975 original size:47 final size:47
Alignment explanation
Indices: 49936906--49937390 Score: 745
Period size: 47 Copynumber: 10.3 Consensus size: 47
49936896 CCCTTCGGAA
* * *
49936906 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
49936953 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
49937000 CTTATAACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
49937047 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
49937094 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
49937141 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
49937188 TTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
49937235 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
49937282 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
49937329 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
49937376 CTTATCACACATATA
1 CTTATCACATATATA
49937391 TGTATATCAT
Statistics
Matches: 394, Mismatches: 44, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 394 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:49937067 original size:94 final size:94
Alignment explanation
Indices: 49936906--49937389 Score: 869
Period size: 94 Copynumber: 5.1 Consensus size: 94
49936896 CCCTTCGGAA
** * * * * *
49936906 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49936971 TTTCACATTCATCACATTGGCCACTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
*
49937000 CTTATAACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49937065 TTTCACATTCATCACATTGGCCACTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
49937094 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49937159 TTTCACATTCATCACATTGGCCACTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
*
49937188 TTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49937253 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
49937282 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49937347 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
49937376 CTTATCACACATAT
1 CTTATCACACATAT
49937390 ATGTATATCA
Statistics
Matches: 378, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 378 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCACTCGGC
Found at i:49943270 original size:33 final size:33
Alignment explanation
Indices: 49943225--49943347 Score: 99
Period size: 33 Copynumber: 3.7 Consensus size: 33
49943215 CAGTGTTTAT
* *
49943225 ATGTAAGACCATAGTTGGGCTATGACACT-CTG
1 ATGTAAGACCATAGCTGGGCTATGACAATACTG
* * * *
49943257 ATGATAAGACCATAACTGGGTTATAACATTAC-G
1 ATG-TAAGACCATAGCTGGGCTATGACAATACTG
* * *
49943290 AATGTAAGACCATGGCTGAGCTATGACAATGCATG
1 -ATGTAAGACCATAGCTGGGCTATGACAATAC-TG
* *
49943325 -TGTAAGACCATAGTTGGACTATG
1 ATGTAAGACCATAGCTGGGCTATG
49943348 GCACAAAGAA
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
32 3 0.04
33 62 0.89
34 4 0.06
35 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (33 bp):
ATGTAAGACCATAGCTGGGCTATGACAATACTG
Found at i:49945063 original size:12 final size:12
Alignment explanation
Indices: 49945046--49945083 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
49945036 GATTACTATT
49945046 ACGTCCTCGACC
1 ACGTCCTCGACC
*
49945058 ACGTCCTCCACC
1 ACGTCCTCGACC
*
49945070 ACGTCCACGACC
1 ACGTCCTCGACC
49945082 AC
1 AC
49945084 AGCCGTGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.53, G:0.13, T:0.13
Consensus pattern (12 bp):
ACGTCCTCGACC
Found at i:49945430 original size:26 final size:26
Alignment explanation
Indices: 49945379--49945428 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
49945369 TACTTTAATT
49945379 TTATTATTAATTGATATTTAATTTTG
1 TTATTATTAATTGATATTTAATTTTG
*
49945405 TTATTAATT-ATT-ATATTTATTTTT
1 TTATT-ATTAATTGATATTTAATTTT
49945429 TGAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 8 0.36
27 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (26 bp):
TTATTATTAATTGATATTTAATTTTG
Found at i:49947127 original size:2 final size:2
Alignment explanation
Indices: 49947114--49947159 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
49947104 CCGATTTTAA
* *
49947114 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
49947156 AC AC
1 AC AC
49947160 TATGGTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.46, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:49949399 original size:14 final size:14
Alignment explanation
Indices: 49949358--49949403 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
49949348 TATTTATTAT
49949358 TAAAATATTAAT-A
1 TAAAATATTAATAA
* * *
49949371 GAAATTATTATTAA
1 TAAAATATTAATAA
49949385 TAAAATATTAATAA
1 TAAAATATTAATAA
49949399 TAAAA
1 TAAAA
49949404 AGTATAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATATTAATAA
Found at i:49949450 original size:19 final size:20
Alignment explanation
Indices: 49949388--49949463 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
49949378 TTATTAATAA
*
49949388 AATATTAATAATAAAA-AGT
1 AATATTAATAATAAAATTGT
*
49949407 -ATAATTAATATTAAAATT-T
1 AAT-ATTAATAATAAAATTGT
*
49949426 ATTATTAA-AATAAAATTGT
1 AATATTAATAATAAAATTGT
*
49949445 AATATTAAGTAATTAAATT
1 AATATTAA-TAATAAAATT
49949464 ATAGTAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 10 0.22
19 26 0.58
20 1 0.02
21 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AATATTAATAATAAAATTGT
Found at i:49953553 original size:18 final size:18
Alignment explanation
Indices: 49953513--49953555 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
49953503 ATGCCAAAAA
*
49953513 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
49953530 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
49953549 TACTTAA
1 TACTTAA
49953556 ACTAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:49953569 original size:14 final size:15
Alignment explanation
Indices: 49953546--49953581 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
49953536 AAGACACATT
49953546 AATT-ACTTAAACTA
1 AATTAACTTAAACTA
49953560 AA-TAACTTAAACTA
1 AATTAACTTAAACTA
49953574 AATTAACT
1 AATTAACT
49953582 AATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAACTTAAACTA
Found at i:49955504 original size:19 final size:19
Alignment explanation
Indices: 49955482--49955532 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
49955472 GCTTGCACTA
49955482 TTTTTCTTTTTCAATCTTG
1 TTTTTCTTTTTCAATCTTG
* * *
49955501 TTTTGCTTTTTCTCACTCTTT
1 TTTTTC-TTTT-TCAATCTTG
49955522 TTTTTCTTTTT
1 TTTTTCTTTTT
49955533 TAAATTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.23
20 8 0.31
21 12 0.46
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTTTCAATCTTG
Found at i:49956559 original size:10 final size:10
Alignment explanation
Indices: 49956544--49956583 Score: 80
Period size: 10 Copynumber: 4.0 Consensus size: 10
49956534 GGGAAGGCTG
49956544 AAAAAAGAAA
1 AAAAAAGAAA
49956554 AAAAAAGAAA
1 AAAAAAGAAA
49956564 AAAAAAGAAA
1 AAAAAAGAAA
49956574 AAAAAAGAAA
1 AAAAAAGAAA
49956584 CGCTGAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:49958678 original size:59 final size:58
Alignment explanation
Indices: 49958582--49958713 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
49958572 AAAATTGTAC
49958582 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
49958640 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
49958699 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49958714 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:49958702 original size:88 final size:89
Alignment explanation
Indices: 49958552--49958713 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
49958542 GACAAGATTG
* * *
49958552 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
49958617 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
49958641 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
49958705 AAGTGTGCG
66 AAGTGTGCG
49958714 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:49958725 original size:29 final size:29
Alignment explanation
Indices: 49958582--49958713 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
49958572 AAAATTGTAC
*
49958582 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49958611 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49958640 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
49958670 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
49958699 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49958714 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:49961180 original size:10 final size:10
Alignment explanation
Indices: 49961165--49961207 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
49961155 CAATTCACCA
49961165 ACCAAATCAT
1 ACCAAATCAT
*
49961175 ACCAAATCGAA
1 ACCAAATC-AT
49961186 ACCAAAATCAT
1 ACC-AAATCAT
*
49961197 ACCAAAGCAT
1 ACCAAATCAT
49961207 A
1 A
49961208 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:49962021 original size:42 final size:42
Alignment explanation
Indices: 49961909--49962067 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
49961899 AGCTCGTACA
* * *
49961909 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATA-CG
*
49961952 ACGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATACG
*
49961994 ATGCCAACGTCTCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCA-AA-TACG
*
49962038 ATGCCAACGTCCCAAAAACGTGGTCTTACA
1 ATGCCAACGTCCC--AGACGTGGTCTTACA
49962068 TGATAAAAGA
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 39 0.39
44 17 0.17
45 1 0.01
46 14 0.14
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATACG
Found at i:49964489 original size:18 final size:18
Alignment explanation
Indices: 49964449--49964491 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
49964439 ATGCCGAAAA
*
49964449 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
49964466 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
49964485 TACTTAA
1 TACTTAA
49964492 ACTAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:49964505 original size:14 final size:15
Alignment explanation
Indices: 49964482--49964517 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
49964472 AAGACACATT
49964482 AATT-ACTTAAACTA
1 AATTAACTTAAACTA
49964496 AA-TAACTTAAACTA
1 AATTAACTTAAACTA
49964510 AATTAACT
1 AATTAACT
49964518 AATATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 14 0.70
15 5 0.25
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAACTTAAACTA
Found at i:49975685 original size:14 final size:14
Alignment explanation
Indices: 49975666--49975721 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
49975656 GACCAATTCA
**
49975666 TTCATACCCCTTCG
1 TTCATACCATTTCG
*
49975680 TTCATACCATTTCA
1 TTCATACCATTTCG
*
49975694 TTTATACCATTTCG
1 TTCATACCATTTCG
49975708 TTCATACCATTTCG
1 TTCATACCATTTCG
49975722 ACCATTCCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.21, C:0.30, G:0.05, T:0.43
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:49975700 original size:28 final size:28
Alignment explanation
Indices: 49975657--49975720 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
49975647 ACCTAAACCG
* *
49975657 ACCAATTCATTCATACCCCTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
* *
49975685 ACCATTTCATTTATACCATTTCGTTCAT
1 ACCATTTCATTCATACCACTTCGTTCAT
49975713 ACCATTTC
1 ACCATTTC
49975721 GACCATTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (28 bp):
ACCATTTCATTCATACCACTTCGTTCAT
Found at i:49978287 original size:40 final size:40
Alignment explanation
Indices: 49978204--49978423 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
49978194 ACCCAAGTAT
** * *
49978204 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
49978242 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
49978282 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCGCAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
49978322 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
49978362 CTTCGGATCTTAGTCAGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
49978402 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
49978424 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:49981565 original size:2 final size:2
Alignment explanation
Indices: 49981558--49981587 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
49981548 TCATGAAATT
*
49981558 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49981588 ATCATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:49986260 original size:14 final size:13
Alignment explanation
Indices: 49986240--49986271 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
49986230 AATATTTAAC
49986240 TTGTTCTTAATTA
1 TTGTTCTTAATTA
49986253 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
49986267 TTGTT
1 TTGTT
49986272 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:49987567 original size:72 final size:70
Alignment explanation
Indices: 49987465--49987651 Score: 196
Period size: 72 Copynumber: 2.6 Consensus size: 70
49987455 ATGCCTGCAT
* * * *
49987465 TTGAGCTACTCACGGGTCTGTACACAAAGTCAGCACTCGGACCCCAAAGCATTATCATG-TAATG
1 TTGAGCTACTCAC-GGTTTATACACAAAGTCAGTAC-CGGACCCCAAAGCATTAACATGAT-ATG
49987529 CCCGCTCA
63 CCCGCTCA
* * *
49987537 TTGAGCTACTCACAGGTTTATACACAAAGTCAGTACCTAGACCCCAAGGTATTAACATGATATGC
1 TTGAGCTACTCAC-GGTTTATACACAAAGTCAGTACC-GGACCCCAAAGCATTAACATGATATGC
*
49987602 TCGCTCA
64 CCGCTCA
** * *
49987609 GCGAGTTACTCACGAGTTTATACAAAAAGTCAGTACCCGGACC
1 TTGAGCTACTCACG-GTTTATACACAAAGTCAGTA-CCGGACC
49987652 TACATTACAT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
71 2 0.02
72 92 0.95
73 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (70 bp):
TTGAGCTACTCACGGTTTATACACAAAGTCAGTACCGGACCCCAAAGCATTAACATGATATGCCC
GCTCA
Found at i:49994350 original size:29 final size:29
Alignment explanation
Indices: 49994317--49994376 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
49994307 GAAAACTTGC
49994317 ACATAGTGCTATATACACAGCTAGAACCA
1 ACATAGTGCTATATACACAGCTAGAACCA
49994346 ACATAGTGCTATATACACAGCTAGAACCA
1 ACATAGTGCTATATACACAGCTAGAACCA
49994375 AC
1 AC
49994377 TCATAGCGCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20
Consensus pattern (29 bp):
ACATAGTGCTATATACACAGCTAGAACCA
Found at i:49994548 original size:72 final size:72
Alignment explanation
Indices: 49994472--49994619 Score: 183
Period size: 72 Copynumber: 2.1 Consensus size: 72
49994462 TAGCACTCGA
* *** ** *
49994472 ACCCCAAAGCATTATCATG-TAATGAC-CGCTCATTTAGCTACTCATGGGTTTATACATAAAGTC
1 ACCCCAAAGCATTAACATGAT-ATG-CTCGCTCAGCGAGCTACTCACAGGTTTATACACAAAGTC
49994535 AGTACCCAG
64 AGTACCCAG
*
49994544 ACCCCAAAGCATTAACATGATATGCTCGCTCAGCGAGTTACTCACAGGTTTATACACAAAGTCAG
1 ACCCCAAAGCATTAACATGATATGCTCGCTCAGCGAGCTACTCACAGGTTTATACACAAAGTCAG
*
49994609 TACCCGG
66 TACCCAG
49994616 ACCC
1 ACCC
49994620 ACATTACATT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
71 1 0.02
72 63 0.97
73 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (72 bp):
ACCCCAAAGCATTAACATGATATGCTCGCTCAGCGAGCTACTCACAGGTTTATACACAAAGTCAG
TACCCAG
Found at i:50002131 original size:30 final size:30
Alignment explanation
Indices: 50002089--50002171 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
50002079 CGACCTGGGA
* *
50002089 CATGGCCATGTGGCCATCCCGTGGGGATCC
1 CATGGCCGTGTGGCCAACCCGTGGGGATCC
* * * *
50002119 CATTGCTGTGTGGCCAGCTCGTGGGGATCC
1 CATGGCCGTGTGGCCAACCCGTGGGGATCC
*
50002149 CATGGCCGTATGGCCAACCCGTG
1 CATGGCCGTGTGGCCAACCCGTG
50002172 TGGAATTCTG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.13, C:0.31, G:0.34, T:0.22
Consensus pattern (30 bp):
CATGGCCGTGTGGCCAACCCGTGGGGATCC
Found at i:50003214 original size:33 final size:33
Alignment explanation
Indices: 50003165--50003280 Score: 153
Period size: 33 Copynumber: 3.5 Consensus size: 33
50003155 ATGGACTTTT
* * *
50003165 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* *
50003198 CCTTTTCAAGTGGTACACACGAAGTGCACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
50003231 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
50003264 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
50003281 ATATAGTGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
32 7 0.10
33 65 0.90
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:50003300 original size:32 final size:31
Alignment explanation
Indices: 50003188--50003307 Score: 107
Period size: 33 Copynumber: 3.7 Consensus size: 31
50003178 TACACTCGAG
* *
50003188 GTGCACATTCCCTTTTCAAGTGGTACACACGAA
1 GTGCACATACCCTTTTCAAGT-GTACACA-TAA
*
50003221 GTGCACATACCCTTTTCAATTTGTACAC-TCAAA
1 GTGCACATACCCTTTTCAA-GTGTACACAT--AA
*
50003254 GTGCACATAACCTTTTCAAGTGTACACATATA
1 GTGCACATACCCTTTTCAAGTGTACACATA-A
* ** *
50003286 GTGTACATTTCCTTTACAAGTG
1 GTGCACATACCCTTTTCAAGTG
50003308 GTATACACGT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
31 1 0.01
32 26 0.36
33 45 0.62
34 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (31 bp):
GTGCACATACCCTTTTCAAGTGTACACATAA
Found at i:50003320 original size:23 final size:23
Alignment explanation
Indices: 50003294--50003338 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
50003284 TAGTGTACAT
50003294 TTCCTTTACA-AGTGGTATACACG
1 TTCCTTTACATA-TGGTATACACG
*
50003317 TTCCTTTTCATATGGTATACAC
1 TTCCTTTACATATGGTATACAC
50003339 AAAGTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (23 bp):
TTCCTTTACATATGGTATACACG
Found at i:50004127 original size:21 final size:22
Alignment explanation
Indices: 50004081--50004128 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
50004071 TATAAAAGTG
**
50004081 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAAATTTC
50004103 ATTT-TCTATCAA-AAAATTTC
1 ATTTATCTATCAATAAAATTTC
50004123 AATTTA
1 -ATTTA
50004129 CAGCATATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 12 0.55
22 4 0.18
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAAATTTC
Found at i:50010653 original size:33 final size:33
Alignment explanation
Indices: 50010562--50010677 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
50010552 ATGGACTTTT
* * * **
50010562 CCTTTTCTAGTTGTACACTCAATGCGCACATTC
1 CCTTTTCAAGTTGTACACTCAAAGTGCACAGAC
* * * * *
50010595 CCTTTTCAAGTGGTATACACGAAGTGTACAGAC
1 CCTTTTCAAGTTGTACACTCAAAGTGCACAGAC
* * * *
50010628 CCTTTTCAATTTGTACACTCAAAGTGCATATAA
1 CCTTTTCAAGTTGTACACTCAAAGTGCACAGAC
50010661 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
50010678 ATATAGTGTA
Statistics
Matches: 63, Mismatches: 20, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
32 7 0.11
33 56 0.89
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCAAAGTGCACAGAC
Found at i:50010717 original size:23 final size:23
Alignment explanation
Indices: 50010691--50010735 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50010681 TAGTGTACCT
50010691 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
50010714 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
50010736 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:50010752 original size:33 final size:33
Alignment explanation
Indices: 50010705--50010777 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
50010695 TTTTCAAGTG
*
50010705 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
50010739 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
50010771 GTGTACA
1 GTATACA
50010778 TAAACTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:50014392 original size:33 final size:32
Alignment explanation
Indices: 50014343--50014458 Score: 117
Period size: 33 Copynumber: 3.6 Consensus size: 32
50014333 ATGGACTTTT
* * *
50014343 CCTTTTCTAGTTGTACACTCAATGCGCACATTC
1 CCTTTTCAAGTTGTACACTCAA-GTGCACATAC
* * *
50014376 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACTC-AAGTGCACATAC
* * *
50014409 CCTTTTCAATTTGTACACTCAAAGTGCATATAA
1 CCTTTTCAAGTTGTACACTC-AAGTGCACATAC
50014442 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
50014459 ATATAGTGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
32 7 0.10
33 59 0.87
34 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTTGTACACTCAAGTGCACATAC
Found at i:50014498 original size:23 final size:23
Alignment explanation
Indices: 50014472--50014516 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50014462 TAGTGTACCT
50014472 TTCCTTTTCA-AGTGGTATACACG
1 TTCCTTTTCATA-TGGTATACACG
50014495 TTCCTTTTCATATGGTATACAC
1 TTCCTTTTCATATGGTATACAC
50014517 AAAGTATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (23 bp):
TTCCTTTTCATATGGTATACACG
Found at i:50014533 original size:33 final size:33
Alignment explanation
Indices: 50014486--50014558 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
50014476 TTTTCAAGTG
*
50014486 GTATACACGTTCCTTTTCATA-TGGTATACACAAA
1 GTATACACGTTCCTTTTCA-AGT-GTACACACAAA
*
50014520 GTATAC-CTTTCCTTTTCAAGTGTACACACAAA
1 GTATACACGTTCCTTTTCAAGTGTACACACAAA
*
50014552 GTGTACA
1 GTATACA
50014559 TAAAATTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 16 0.47
33 12 0.35
34 6 0.18
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (33 bp):
GTATACACGTTCCTTTTCAAGTGTACACACAAA
Found at i:50018708 original size:40 final size:40
Alignment explanation
Indices: 50018622--50018735 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 40
50018612 CGACTATGTT
* *
50018622 TGGCAGTTAGTGTGTGATTCGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATA
** * * *
50018662 AAGCACTTAGTGTGCGAATTGGA-ATAGCTTCGGTTATATG
1 TGGCACTTAGTGTGCG-ATTCGAGATAGCTTCGGCTATATA
* * * *
50018702 TGGCACTAAGTGTGTGATACCAAGATAGCTTCGG
1 TGGCACTTAGTGTGCGAT-TCGAGATAGCTTCGG
50018736 TTTAATGTGA
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.04
40 40 0.70
41 15 0.26
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATA
Found at i:50020396 original size:28 final size:28
Alignment explanation
Indices: 50020364--50020419 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
50020354 GATATATGTT
50020364 TTGCAGGGTTCTACTGTTACTGGTCATA
1 TTGCAGGGTTCTACTGTTACTGGTCATA
*
50020392 TTGCAGGGTTCTACTGTTATTGGTCATA
1 TTGCAGGGTTCTACTGTTACTGGTCATA
50020420 CTACAATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (28 bp):
TTGCAGGGTTCTACTGTTACTGGTCATA
Found at i:50022806 original size:29 final size:29
Alignment explanation
Indices: 50022771--50022828 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
50022761 TTAGTCATGT
50022771 AAATTCATATATGAATTAATAATCATGGA
1 AAATTCATATATGAATTAATAATCATGGA
50022800 AAATTCATATATGAATTAATAATCATGGA
1 AAATTCATATATGAATTAATAATCATGGA
50022829 TGAACTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (29 bp):
AAATTCATATATGAATTAATAATCATGGA
Found at i:50023101 original size:25 final size:25
Alignment explanation
Indices: 50023060--50023120 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
50023050 TCTTATACAT
*
50023060 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACAAGCTATGAATCG
*
50023085 GTATGCTC-TCACAAGCTGTGAATCG
1 GTATGCTCAT-ACAAGCTATGAATCG
*
50023110 GTAAGCTCATA
1 GTATGCTCATA
50023121 AGAGCTGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACAAGCTATGAATCG
Found at i:50023126 original size:25 final size:25
Alignment explanation
Indices: 50023064--50023129 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
50023054 ATACATGTAT
* * *
50023064 GCTCATACGAGCTATGAATCGGTAT
1 GCTCATAAGAGCTGTGAATCGGTAA
50023089 GCTC-TCACA-AGCTGTGAATCGGTAA
1 GCTCAT-A-AGAGCTGTGAATCGGTAA
50023114 GCTCATAAGAGCTGTG
1 GCTCATAAGAGCTGTG
50023130 GTGTGTCCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 2 0.06
25 31 0.91
26 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
GCTCATAAGAGCTGTGAATCGGTAA
Found at i:50026156 original size:27 final size:27
Alignment explanation
Indices: 50026126--50026241 Score: 137
Period size: 27 Copynumber: 4.3 Consensus size: 27
50026116 CCCTAATTAA
*
50026126 TAAAATGACTATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* *
50026153 TAAAATGAATGTTTTGCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGAGG
* * *
50026180 TAAAATGATTGTTTTGGCCTTATGTA-G
1 TAAAATGACTATTTTGCCCTTATG-AGG
*
50026207 TAAAATGACTATTTTGCCCTT-TTATGG
1 TAAAATGACTATTTTGCCCTTATGA-GG
50026234 TAAAATGA
1 TAAAATGA
50026242 TTGTTTTACC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 74 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGAGG
Found at i:50026210 original size:54 final size:54
Alignment explanation
Indices: 50026143--50026248 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
50026133 ACTATTTTTC
*
50026143 CCTTATGAGGTAAAATGAATGTTTTGCCCTTATGA-GGTAAAATGATTGTTTTGG
1 CCTTATGAGGTAAAATGAATATTTTGCCCTT-TGATGGTAAAATGATTGTTTTGG
* *
50026197 CCTTATGTA-GTAAAATGACTATTTTGCCCTTTTATGGTAAAATGATTGTTTT
1 CCTTATG-AGGTAAAATGAATATTTTGCCCTTTGATGGTAAAATGATTGTTTT
50026249 ACCCCTACGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
53 2 0.04
54 44 0.94
55 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (54 bp):
CCTTATGAGGTAAAATGAATATTTTGCCCTTTGATGGTAAAATGATTGTTTTGG
Found at i:50026593 original size:18 final size:18
Alignment explanation
Indices: 50026570--50026606 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50026560 GGACTTACAT
50026570 ACTGTTTACTATTACTGC
1 ACTGTTTACTATTACTGC
*
50026588 ACTGTTTACTGTTACTGC
1 ACTGTTTACTATTACTGC
50026606 A
1 A
50026607 TGGGCCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (18 bp):
ACTGTTTACTATTACTGC
Found at i:50028321 original size:21 final size:21
Alignment explanation
Indices: 50028279--50028322 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50028269 TTGCTTGTCC
*
50028279 TTAGGTACATTTAGTAGCATT
1 TTAGGTACATTTACTAGCATT
*
50028300 TTAGG-ACATTTCACTAGTATT
1 TTAGGTACATTT-ACTAGCATT
50028321 TT
1 TT
50028323 TATCATTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (21 bp):
TTAGGTACATTTACTAGCATT
Found at i:50041425 original size:39 final size:39
Alignment explanation
Indices: 50041371--50041607 Score: 375
Period size: 39 Copynumber: 6.1 Consensus size: 39
50041361 AATGAATGTA
50041371 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
50041410 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
** * *
50041449 CGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTGTA
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
50041488 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
** *
50041527 CGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
* * *
50041566 CGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 CGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
50041606 CG
1 CG
50041608 GGTTACCATA
Statistics
Matches: 182, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 165 0.91
40 17 0.09
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
CGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
Found at i:50041507 original size:78 final size:78
Alignment explanation
Indices: 50041378--50041607 Score: 415
Period size: 78 Copynumber: 2.9 Consensus size: 78
50041368 GTACGAATTG
50041378 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
50041443 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
*
50041456 TGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
50041521 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
* *
50041534 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
*
50041599 ATTTGTGCG
65 AATTGTGCG
50041608 GGTTACCATA
Statistics
Matches: 146, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
78 129 0.88
79 17 0.12
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCGAGCTA
Found at i:50041623 original size:40 final size:39
Alignment explanation
Indices: 50041378--50041637 Score: 367
Period size: 39 Copynumber: 6.6 Consensus size: 39
50041368 GTACGAATTG
* *
50041378 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
50041417 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
50041456 TGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
50041495 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
50041534 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
50041573 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
50041613 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
50041638 TGTTTTGAAC
Statistics
Matches: 198, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 158 0.80
40 40 0.20
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:50044912 original size:26 final size:26
Alignment explanation
Indices: 50044874--50044931 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
50044864 CATGAAATTC
50044874 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
50044900 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
50044926 TTATCA
1 TTATCA
50044932 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:50049138 original size:25 final size:26
Alignment explanation
Indices: 50049101--50049152 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
50049091 TCAAACATGC
50049101 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
50049127 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
50049152 A
1 A
50049153 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:50050701 original size:26 final size:26
Alignment explanation
Indices: 50050632--50050714 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
50050622 CATGAAATTC
*
50050632 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
50050658 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
50050683 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
50050709 TTATCA
1 TTATCA
50050715 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:50052562 original size:21 final size:21
Alignment explanation
Indices: 50052538--50052588 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
50052528 ATCAAAATTT
50052538 TATAGATTTATT-ATATAAAAA
1 TATA-ATTTATTCATATAAAAA
** *
50052559 TATAAAATATTCTTATAAAAA
1 TATAATTTATTCATATAAAAA
50052580 TATAATTTA
1 TATAATTTA
50052589 ATTTGTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TATAATTTATTCATATAAAAA
Found at i:50054419 original size:71 final size:71
Alignment explanation
Indices: 50054291--50054431 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 71
50054281 TATACAACTG
*
50054291 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAATTTTCTATGGTGCTAAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCTAAG
50054356 AGAGCA
66 AGAGCA
* * * *
50054362 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACGAAATTTTTTTATGGTGCTGAG
1 TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCTAAG
50054427 AGAGC
66 AGAGC
50054432 TCGTCACAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (71 bp):
TCATTACTCCATATGAAAACACCCTAAATAGGGATGAAACCACAAAAATTTTCTATGGTGCTAAG
AGAGCA
Found at i:50061214 original size:9 final size:9
Alignment explanation
Indices: 50061189--50061235 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
50061179 AAAGAGACGG
50061189 ATAAAACATT
1 ATAAAA-ATT
*
50061199 TTAAAAATT
1 ATAAAAATT
50061208 ATAAAAA-T
1 ATAAAAATT
50061216 AT--AAATT
1 ATAAAAATT
50061223 ATAAAAATT
1 ATAAAAATT
50061232 ATAA
1 ATAA
50061236 TTATAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
6 3 0.09
7 3 0.09
8 3 0.09
9 18 0.56
10 5 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:50061223 original size:15 final size:14
Alignment explanation
Indices: 50061203--50061241 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
50061193 AACATTTTAA
50061203 AAATTATAAAAATAT
1 AAATTATAAAAAT-T
50061218 AAATTATAAAAATT
1 AAATTATAAAAATT
50061232 ATAATTATAA
1 A-AATTATAA
50061242 TTTTACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATTATAAAAATT
Found at i:50076105 original size:30 final size:30
Alignment explanation
Indices: 50076029--50076105 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
50076019 AGAGGAACCT
* *
50076029 GCAGCTCTTTTAATGCCGTTCCATGCACCA
1 GCAGCTCCTTTAATGCTGTTCCATGCACCA
* * *
50076059 GCAACACCTTTAATGCTGTTCCATGCACTA
1 GCAGCTCCTTTAATGCTGTTCCATGCACCA
*
50076089 GTAGCTCCTTTAATGCT
1 GCAGCTCCTTTAATGCT
50076106 CTCCCATTCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (30 bp):
GCAGCTCCTTTAATGCTGTTCCATGCACCA
Found at i:50076163 original size:39 final size:39
Alignment explanation
Indices: 50076114--50076219 Score: 160
Period size: 38 Copynumber: 2.7 Consensus size: 39
50076104 CTCTCCCATT
*
50076114 CATGCTTTCTTTATTACCTGCACATTAAATTCGATCATG
1 CATGCTTTCTTTAATACCTGCACATTAAATTCGATCATG
* *
50076153 CATGCTTTCTTTAATACTTGCACATT-AATTCGGTCATG
1 CATGCTTTCTTTAATACCTGCACATTAAATTCGATCATG
* *
50076191 CATGCTTGCTTTAATGCCTGCACATTAAA
1 CATGCTTTCTTTAATACCTGCACATTAAA
50076220 AATCAACAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 34 0.57
39 26 0.43
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (39 bp):
CATGCTTTCTTTAATACCTGCACATTAAATTCGATCATG
Found at i:50076628 original size:19 final size:20
Alignment explanation
Indices: 50076604--50076641 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
50076594 TTGAGTTGGA
50076604 AATGAGCTGA-ATTAAGCTC
1 AATGAGCTGAGATTAAGCTC
50076623 AATGAGCTGAGATTAAGCT
1 AATGAGCTGAGATTAAGCT
50076642 TCATTTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (20 bp):
AATGAGCTGAGATTAAGCTC
Found at i:50078014 original size:17 final size:17
Alignment explanation
Indices: 50077987--50078019 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50077977 CATTTGTTTA
50077987 TTTTCTTATTT-TTTTG
1 TTTTCTTATTTATTTTG
50078003 TTTTCGTTATTTATTTT
1 TTTTC-TTATTTATTTT
50078020 TATCCCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTCTTATTTATTTTG
Found at i:50083702 original size:25 final size:24
Alignment explanation
Indices: 50083632--50083704 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 24
50083622 TAGGGTTACT
50083632 GATTCTCAGCTCGTATGAGCTTATC
1 GATTCTCAGCTC-TATGAGCTTATC
*
50083657 GATT-TACAACTCT-TGAAAGCTTATC
1 GATTCT-CAGCTCTATG--AGCTTATC
*
50083682 GATTCTTAGCTCATATGAGCTTA
1 GATTCTCAGCTC-TATGAGCTTA
50083705 CTGGTTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 31 0.79
26 2 0.05
27 2 0.05
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (24 bp):
GATTCTCAGCTCTATGAGCTTATC
Found at i:50083713 original size:50 final size:50
Alignment explanation
Indices: 50083632--50083751 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
50083622 TAGGGTTACT
* ** *
50083632 GATTCTCAGCTCGTATGAGCTTATCGATTTACAACTCTTGAAAGCTTATC
1 GATTCTTAGCTCGTATGAGCTTATCGATTTACAACTAATGAAAGCATATC
* * *
50083682 GATTCTTAGCTCATATGAGCTTA-CTGGTTTACAACTAATGAGAGCATATC
1 GATTCTTAGCTCGTATGAGCTTATC-GATTTACAACTAATGAAAGCATATC
*
50083732 GATTCATAGCTCGTATGAGC
1 GATTCTTAGCTCGTATGAGC
50083752 ATACATGTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
49 1 0.02
50 59 0.98
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (50 bp):
GATTCTTAGCTCGTATGAGCTTATCGATTTACAACTAATGAAAGCATATC
Found at i:50090046 original size:12 final size:12
Alignment explanation
Indices: 50090029--50090065 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
50090019 ATATAAGTGA
50090029 TCTTGATGATTT
1 TCTTGATGATTT
50090041 TCTTGATGATTT
1 TCTTGATGATTT
50090053 TCTTGATGATTT
1 TCTTGATGATTT
50090065 T
1 T
50090066 TACATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.59
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:50090895 original size:49 final size:48
Alignment explanation
Indices: 50090830--50091093 Score: 203
Period size: 48 Copynumber: 5.6 Consensus size: 48
50090820 ATTTGTGCTG
50090830 GTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCCA
* * * *
50090878 GTGTAAGACCATGTCTGGGACATGGCATCGGCA--CAGAGATGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGCATAAATGAGAGCCA
* *
50090926 GAGTAAGACATGTTTGGGACATGCATC-G-AC-C-TCAACA-GAGATAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCACGCAT-AA-ATGAG--AGCCA
* * * * * * *
50090973 GTGTATGACCTGTCTGGGACA--CA-CATC-GGC-TAAGA-GTTGTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCAGCACGCATAA-ATG-AGAGCCA
* *
50091017 GTGTAAGACATGTCTGGGACATACATCAGCACGCATATATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCCA
*
50091065 GTGTAAAACCATGTCTGGGACATGGCATC
1 GTGTAAGA-CATGTCTGGGACAT-GCATC
50091094 GGCAATATTT
Statistics
Matches: 168, Mismatches: 29, Indels: 36
0.72 0.12 0.15
Matches are distributed among these distances:
44 24 0.14
45 12 0.07
46 11 0.07
47 37 0.22
48 41 0.24
49 31 0.18
50 12 0.07
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (48 bp):
GTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCCA
Found at i:50090920 original size:48 final size:46
Alignment explanation
Indices: 50090830--50091097 Score: 211
Period size: 47 Copynumber: 5.7 Consensus size: 46
50090820 ATTTGTGCTG
* * *
50090830 GTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCCA
*
50090878 GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGAGCCA
* * * * * *
50090926 GAGTAAGACATGTTTGGGACATGCATCGACCTCAACAGA-GATAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCG-GCAC-AGAGATGAGAGCCA
* * ** * * *
50090973 GTGTATGACCTGTCTGGGACACACATCGGCTA-AGAG-T-TGTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGAGCCA
* * * *
50091017 GTGTAAGACATGTCTGGGACATACATCAGCACGCATATATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAGCCA
*
50091065 GTGTAAAACCATGTCTGGGACATGGCATCGGCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
50091098 ATATTTCCCA
Statistics
Matches: 171, Mismatches: 36, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.17
45 3 0.02
46 9 0.05
47 44 0.26
48 42 0.25
49 28 0.16
50 15 0.09
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGAGCCA
Found at i:50091032 original size:44 final size:44
Alignment explanation
Indices: 50090782--50091043 Score: 136
Period size: 44 Copynumber: 5.7 Consensus size: 44
50090772 TGATTTGTGC
* ** * *
50090782 GCCAGTGTAAGACTTGTCTGGGACACGGATCAGCTAAGATTTGT
1 GCCAGTGTAAGACATGTCTGGGACACACATCGGCTAAGAGTTGT
** * * * *
50090826 GCTGGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAA-A-TGAGA
1 GCCAGTGTAAGACATGTCTGGGACA--CA-CATC-GGC-TAAGAGT-TGT
** *
50090874 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACA-CACATCGGCTA-AGAG-T-TGT
* * ** * * *
50090922 GCCAGAGTAAGACATGTTTGGGACATGCATCGACCTCAACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACACACATCG-GCT--A-AGAGTTGT
* *
50090969 GCCAGTGTATGACCTGTCTGGGACACACATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACACACATCGGCTAAGAGTTGT
* *
50091013 GCTAGTGTAAGACATGTCTGGGACATACATC
1 GCCAGTGTAAGACATGTCTGGGACACACATC
50091044 AGCACGCATA
Statistics
Matches: 165, Mismatches: 37, Indels: 32
0.71 0.16 0.14
Matches are distributed among these distances:
43 5 0.03
44 51 0.31
45 1 0.01
46 12 0.07
47 45 0.27
48 29 0.18
49 16 0.10
50 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACACACATCGGCTAAGAGTTGT
Found at i:50094059 original size:47 final size:47
Alignment explanation
Indices: 50093874--50094239 Score: 534
Period size: 47 Copynumber: 7.7 Consensus size: 47
50093864 GATTTTATGC
* * * *
50093874 GATGAATGTGAATTTGTATATATATGAGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAA--GGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
50093923 GATGAATGTGAAGGTGTATATATATGTAATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
50093972 GATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
50094021 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
50094068 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
50094115 GATGAATGTGAAGGTGTATATATGTGATAAGGCCAAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
50094162 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
50094209 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
50094240 TTCCGAAGGG
Statistics
Matches: 298, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 194 0.65
49 104 0.35
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:50096929 original size:44 final size:44
Alignment explanation
Indices: 50096865--50096953 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
50096855 TTTTTTCACA
50096865 TGTCTATGTTACGACAGTATCGATTTGATCCTTAACATATTATT
1 TGTCTATGTTACGACAGTATCGATTTGATCCTTAACATATTATT
* *
50096909 TGTCTATGTTACGACGGTATCGATTTGATCCTTCACATATTATT
1 TGTCTATGTTACGACAGTATCGATTTGATCCTTAACATATTATT
50096953 T
1 T
50096954 CCCCGACGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (44 bp):
TGTCTATGTTACGACAGTATCGATTTGATCCTTAACATATTATT
Found at i:50098445 original size:49 final size:50
Alignment explanation
Indices: 50098362--50098470 Score: 159
Period size: 49 Copynumber: 2.2 Consensus size: 50
50098352 GTCATTAAGG
* * *
50098362 TTACCGATTCTCAACTCGTATGAGCTTATCAATTTGTAGCTAT-TGAGAGC
1 TTACCGATTCTAAACTCGTATGAGCTTACCAATTTATAGCT-TGTGAGAGC
50098412 TTACCGATTCTAAACTC-TATGAGCTTACCAATTTATAGCTTGTGAGAGC
1 TTACCGATTCTAAACTCGTATGAGCTTACCAATTTATAGCTTGTGAGAGC
*
50098461 ATACCGATTC
1 TTACCGATTC
50098471 ATAGCTCGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
48 1 0.02
49 37 0.69
50 16 0.30
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (50 bp):
TTACCGATTCTAAACTCGTATGAGCTTACCAATTTATAGCTTGTGAGAGC
Found at i:50103538 original size:13 final size:13
Alignment explanation
Indices: 50103516--50103548 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50103506 AAGGGTTTGT
50103516 TTAT-TAAACTAA
1 TTATCTAAACTAA
50103528 TTATCTAAACTAA
1 TTATCTAAACTAA
*
50103541 TTAACTAA
1 TTATCTAA
50103549 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:50106501 original size:4 final size:5
Alignment explanation
Indices: 50106443--50106531 Score: 87
Period size: 5 Copynumber: 17.6 Consensus size: 5
50106433 TATGTATTTC
* *
50106443 AAATA AAAT- -AATA AAATTG AAATGA AAATAA AAATA AAAGA AAA-A
1 AAATA AAATA AAATA AAA-TA AAAT-A AAAT-A AAATA AAATA AAATA
50106488 AAATA AAA-A TAAATA AAATA AAATA AAATA AAATA AGAATA AAA
1 AAATA AAATA -AAATA AAATA AAATA AAATA AAATA A-AATA AAA
50106532 AGATAGGAGG
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
3 3 0.04
4 5 0.07
5 45 0.62
6 19 0.26
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:50109614 original size:31 final size:31
Alignment explanation
Indices: 50109579--50109638 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
50109569 TTTTAACGAG
50109579 AACATCTTTAATAATACCTTTAGGAAATCTA
1 AACATCTTTAATAATACCTTTAGGAAATCTA
*
50109610 AACATCTTTAATAGTACCTTTAGGAAATC
1 AACATCTTTAATAATACCTTTAGGAAATC
50109639 GAACTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (31 bp):
AACATCTTTAATAATACCTTTAGGAAATCTA
Found at i:50111971 original size:13 final size:13
Alignment explanation
Indices: 50111949--50111981 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50111939 AAGGGTTTGT
50111949 TTAT-TAAACTAA
1 TTATCTAAACTAA
50111961 TTATCTAAACTAA
1 TTATCTAAACTAA
*
50111974 TTAACTAA
1 TTATCTAA
50111982 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:50117569 original size:10 final size:11
Alignment explanation
Indices: 50117524--50117578 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
50117514 AAATATTATC
50117524 TTATTAATATT
1 TTATTAATATT
*
50117535 TTGACTTGATA-T
1 TT-A-TTAATATT
*
50117547 TTATTTATATT
1 TTATTAATATT
50117558 TTATTAAT-TT
1 TTATTAATATT
50117568 TTAGTTAATAT
1 TTA-TTAATAT
50117579 ATAAGGAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 10 0.28
11 16 0.44
12 5 0.14
13 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (11 bp):
TTATTAATATT
Found at i:50118098 original size:37 final size:37
Alignment explanation
Indices: 50118048--50118120 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
50118038 TCGTAAAAGA
50118048 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
1 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
50118085 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAA
1 TGTAAAATTTGATCACTATTTGATTTGAGTGATTAA
50118121 ATGATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
TGTAAAATTTGATCACTATTTGATTTGAGTGATTAAT
Found at i:50119311 original size:26 final size:26
Alignment explanation
Indices: 50119243--50119312 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
50119233 ATTCCGACCT
*
50119243 ACAGCTTGTGTGAGCAAACCCATTTC
1 ACAGCTTGTGTGAGCATACCCATTTC
* *
50119269 ACAGCTTTTGTGAGCATACTCATTTC
1 ACAGCTTGTGTGAGCATACCCATTTC
* *
50119295 ATAGCTCGTGTGAGCATA
1 ACAGCTTGTGTGAGCATA
50119313 TATGTACAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (26 bp):
ACAGCTTGTGTGAGCATACCCATTTC
Found at i:50122979 original size:22 final size:22
Alignment explanation
Indices: 50122892--50122985 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
50122882 ACTTTTGCAT
* * *
50122892 TTACTGTTTTGTACTTCGTTGC
1 TTACTGATTTGCACTTCGGTGC
* *
50122914 TTTAC-CATTCTGCACTTCGGTAC
1 -TTACTGATT-TGCACTTCGGTGC
* * *
50122937 CTACTGTTTTGCACTTTGGTGC
1 TTACTGATTTGCACTTCGGTGC
*
50122959 TTAGTGATTTGCACTTCGGTGC
1 TTACTGATTTGCACTTCGGTGC
50122981 TTACT
1 TTACT
50122986 ATTCTATTAG
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
22 38 0.70
23 16 0.30
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (22 bp):
TTACTGATTTGCACTTCGGTGC
Found at i:50124620 original size:40 final size:40
Alignment explanation
Indices: 50124556--50124746 Score: 145
Period size: 39 Copynumber: 4.8 Consensus size: 40
50124546 GCTACTCGTT
* * * ***
50124556 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
** *
50124596 CAAATGCCTTCGGGATTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* * * * * *
50124636 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* * * * * *
50124675 CCATTGCCTTCGGG-CTTAGCCTGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
* * *
50124714 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACATAACCCGGATATCACAA
50124747 TTCGCACATT
Statistics
Matches: 131, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 87 0.66
40 44 0.34
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATATCACAACCCGCA
Found at i:50124673 original size:39 final size:39
Alignment explanation
Indices: 50124592--50124754 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
50124582 TATGGTAACC
* * *
50124592 CGCACAAATGCCTTCGGGATTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
50124632 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
50124671 CGCACCATTGCCTTCGGGCTTAGCCTGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50124710 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
50124749 CGCACA
1 CGCACA
50124755 TTCATACACA
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 94 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50129141 original size:18 final size:18
Alignment explanation
Indices: 50129118--50129152 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50129108 AAGTAATAAA
50129118 TATTCTACAAACAAAACC
1 TATTCTACAAACAAAACC
**
50129136 TATTCTGTAAACAAAAC
1 TATTCTACAAACAAAAC
50129153 TTGCACGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (18 bp):
TATTCTACAAACAAAACC
Found at i:50129278 original size:29 final size:25
Alignment explanation
Indices: 50129226--50129282 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
50129216 TATACTTCTG
50129226 TCTTGCGAACCCAGCTCGCATCTTT
1 TCTTGCGAACCCAGCTCGCATCTTT
* *
50129251 TCTTGCGAACCCAGTTCGCATC-TA
1 TCTTGCGAACCCAGCTCGCATCTTT
50129275 TCTTGCGA
1 TCTTGCGA
50129283 CCCCTACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.32
Consensus pattern (25 bp):
TCTTGCGAACCCAGCTCGCATCTTT
Found at i:50129293 original size:25 final size:25
Alignment explanation
Indices: 50129226--50129294 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
50129216 TATACTTCTG
*
50129226 TCTTGCGAACCCAGC-TCGCATCTTT
1 TCTTGCGAACCCA-CTTCGCATCTTA
*
50129251 TCTTGCGAACCCAGTTCGCATC-TA
1 TCTTGCGAACCCACTTCGCATCTTA
*
50129275 TCTTGCGACCCCTACTTCGC
1 TCTTGCGAACCC-ACTTCGC
50129295 CAAAGTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.16, C:0.38, G:0.16, T:0.30
Consensus pattern (25 bp):
TCTTGCGAACCCACTTCGCATCTTA
Found at i:50131950 original size:52 final size:49
Alignment explanation
Indices: 50131767--50131959 Score: 200
Period size: 47 Copynumber: 4.0 Consensus size: 49
50131757 TGCACATAGT
* ** * *
50131767 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
50131815 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
50131862 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
50131909 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
50131960 ATCACATTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
46 25 0.20
47 54 0.44
48 11 0.09
49 1 0.01
52 31 0.25
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:50144496 original size:26 final size:26
Alignment explanation
Indices: 50144467--50144558 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
50144457 GAAAAAATAA
50144467 TTTAAAGTTTATATAAAAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTT
** *
50144493 TTTAAAAAATTATGTAAGAGTTATTAATTATTTT
1 TTT-AAAGTTTATAT-A-A---A--AATTATTTT
50144527 TTTAAAGTTTATATAAAAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTT
50144553 TTTAAA
1 TTTAAA
50144559 AATTATGTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
26 18 0.35
27 8 0.15
28 2 0.04
29 1 0.02
31 1 0.02
32 2 0.04
33 8 0.15
34 12 0.23
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTAAAGTTTATATAAAAATTATTTT
Found at i:50144550 original size:33 final size:34
Alignment explanation
Indices: 50144484--50144550 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
50144474 TTTATATAAA
* * *
50144484 AATTATTTTTTTAAAAAATTATGTAAGAGTTATT
1 AATTATTTTTTTAAAAAATTATATAAAAATTATT
**
50144518 AATTATTTTTTT-AAAGTTTATATAAAAATTATT
1 AATTATTTTTTTAAAAAATTATATAAAAATTATT
50144551 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (34 bp):
AATTATTTTTTTAAAAAATTATATAAAAATTATT
Found at i:50144582 original size:59 final size:60
Alignment explanation
Indices: 50144467--50144587 Score: 235
Period size: 59 Copynumber: 2.0 Consensus size: 60
50144457 GAAAAAATAA
50144467 TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
50144527 TTTAAAGTTTATATAAAAATTATTTTTTT-AAAAATTATGTAAGAGTTATTAATTATTTT
1 TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
50144586 TT
1 TT
50144588 ATTTACTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 32 0.52
60 29 0.48
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (60 bp):
TTTAAAGTTTATATAAAAATTATTTTTTTAAAAAATTATGTAAGAGTTATTAATTATTTT
Found at i:50149982 original size:41 final size:40
Alignment explanation
Indices: 50149929--50150098 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 40
50149919 AGTCCGACTC
*
50149929 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* *
50149968 TTAGACTACTGGCTCAAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
50150008 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
50150053 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
50150092 GTTAGAC
1 -TTAGAC
50150099 CCCGATTAGC
Statistics
Matches: 109, Mismatches: 8, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 52 0.48
42 20 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:50151874 original size:17 final size:17
Alignment explanation
Indices: 50151852--50151884 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50151842 AACCACTTTT
50151852 CGACTAGGGTCAATTTC
1 CGACTAGGGTCAATTTC
50151869 CGACTAGGGTCAATTT
1 CGACTAGGGTCAATTT
50151885 AGGGCTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (17 bp):
CGACTAGGGTCAATTTC
Found at i:50152002 original size:48 final size:48
Alignment explanation
Indices: 50151948--50152260 Score: 457
Period size: 48 Copynumber: 6.5 Consensus size: 48
50151938 TGATCCCGTA
* * *
50151948 TAAGACCATGTCTGGGACATAGCATCGGCATCGTTATTTGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
50151996 TAAGACCATGTCTGGGACATGGCATCGGCAT-GTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* *
50152043 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAATA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * * *
50152091 TAAGACCATGTTTGGGACATGGAATCGGCATCTTTATGTGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * * *
50152139 TAAGACCATGTCTAGGACTTGGCATCGACATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
* * * *
50152187 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATATTACCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
*
50152235 TAAGACCATGTTTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
50152261 AGTGTGAGGC
Statistics
Matches: 238, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 45 0.19
48 193 0.81
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCGTTATGTGAGCCAGTG
Found at i:50155318 original size:40 final size:39
Alignment explanation
Indices: 50155274--50155455 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
50155264 GTTCAAAACA
* * ** * *
50155274 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
50155314 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
50155354 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
50155393 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
50155432 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
50155456 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:50155385 original size:39 final size:39
Alignment explanation
Indices: 50155304--50155456 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
50155294 TATGGTAACC
* *
50155304 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
50155344 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50155383 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
50155422 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
50155457 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50163374 original size:40 final size:39
Alignment explanation
Indices: 50163330--50163511 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
50163320 GTTCAAAACA
* * ** * *
50163330 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
50163370 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
50163410 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
50163449 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
50163488 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
50163512 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:50163441 original size:39 final size:39
Alignment explanation
Indices: 50163360--50163512 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
50163350 TATGGTAACC
* *
50163360 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
50163400 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50163439 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
50163478 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
50163513 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50169206 original size:3 final size:3
Alignment explanation
Indices: 50169198--50169312 Score: 78
Period size: 3 Copynumber: 38.7 Consensus size: 3
50169188 AAGCATAAAC
* * * *
50169198 AAT AAT AAT AAT GAT GCA- AAT GAT AAT -AT AAGT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
50169243 CAA- AAT AAT AAT -AT AAAT AAT AAT ATT AAT ATT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
50169288 GAT GAT ATT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
50169313 ATAAAAAACT
Statistics
Matches: 88, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
2 9 0.10
3 71 0.81
4 8 0.09
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50170190 original size:21 final size:22
Alignment explanation
Indices: 50170145--50170197 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
50170135 CCTTTTATAC
50170145 TAAAATAAAAAAATAAAACGCA
1 TAAAATAAAAAAATAAAACGCA
* * *
50170167 TAAAATAATAAAA-AAGATGCA
1 TAAAATAAAAAAATAAAACGCA
*
50170188 TAATATAAAA
1 TAAAATAAAA
50170198 GGAAAGAGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.19
Consensus pattern (22 bp):
TAAAATAAAAAAATAAAACGCA
Found at i:50176037 original size:21 final size:20
Alignment explanation
Indices: 50175992--50176040 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
50175982 GTTTATGCAT
*
50175992 GTTTGAATGGTGTTTGAATC
1 GTTTGAATGGTGTTTAAATC
* *
50176012 CTTTGAATGTGTGTTTAAATG
1 GTTTGAATG-GTGTTTAAATC
50176033 GTTTGAAT
1 GTTTGAAT
50176041 AGTTATGCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (20 bp):
GTTTGAATGGTGTTTAAATC
Done.