Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 174 of 335
Found at i:52083526 original size:38 final size:39
Alignment explanation
Indices: 52083413--52083605 Score: 308
Period size: 38 Copynumber: 5.1 Consensus size: 39
52083403 AATTATATTA
*
52083413 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
52083452 CCTGCACGAAGCCT---GGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
52083488 CCAGCACGAAGCCTACGGGACTTTAG-CCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
52083526 CCAGCACGAA-CCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
52083564 -CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
52083602 CCAG
1 CCAG
52083606 TATCTTGCAT
Statistics
Matches: 142, Mismatches: 6, Indels: 12
0.89 0.04 0.08
Matches are distributed among these distances:
36 34 0.24
37 23 0.16
38 61 0.43
39 24 0.17
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:52083568 original size:75 final size:75
Alignment explanation
Indices: 52083413--52083605 Score: 302
Period size: 75 Copynumber: 2.6 Consensus size: 75
52083403 AATTATATTA
* * *
52083413 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCTGCACGAAGCCTGGACTTTAGCCT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGGACTTTAGCCC
52083478 GGATACATTT
66 GGATACATTT
*
52083488 CCAGCACGAAGCCTACGGGACTTTAG-CCGGATACATTTCCAGCACGAA-CCTGCGGGACTTTAG
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCT---GGACTTTAG
52083551 CCCGGATACATTT
63 CCCGGATACATTT
52083564 -CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
52083606 TATCTTGCAT
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
73 3 0.03
74 21 0.19
75 48 0.44
76 37 0.34
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (75 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGGACTTTAGCCC
GGATACATTT
Found at i:52086462 original size:28 final size:28
Alignment explanation
Indices: 52086428--52086582 Score: 141
Period size: 28 Copynumber: 5.5 Consensus size: 28
52086418 AACCGATCTT
*
52086428 GCACACACAGTGCTCGGTTACAGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** **
52086456 GCACACACAGTGCCTCAACAATC-GATGTC
1 GCACACACAGTG-CTCGGTTA-CGGAACTC
52086485 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * * *
52086513 GCACACACAGTGCCTCAACAACCGATCTG
1 GCACACACAGTG-CTCGGTTACGGAACTC
*
52086542 GCACACACAGTGCTAGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
52086570 GCACACACAGTGC
1 GCACACACAGTGC
52086583 CTATGTTCAC
Statistics
Matches: 96, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
27 1 0.01
28 53 0.55
29 41 0.43
30 1 0.01
ACGTcount: A:0.29, C:0.34, G:0.21, T:0.16
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:52086489 original size:57 final size:57
Alignment explanation
Indices: 52086398--52086584 Score: 302
Period size: 57 Copynumber: 3.2 Consensus size: 57
52086388 GATCTCATTT
* *
52086398 CACACACTTAGTGCCTCAACAACCGATCTTGCACACACAGTGCTCGGTTACAGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
52086457 CACACACAGTGCCTCAACAATCGATGTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* *
52086514 CACACACAGTGCCTCAACAACCGATCTGGCACACACAGTGCTAGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
52086571 CACACACAGTGCCT
1 CACACACAGTGCCT
52086585 ATGTTCACTT
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
57 113 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:52086495 original size:29 final size:28
Alignment explanation
Indices: 52086398--52086554 Score: 120
Period size: 29 Copynumber: 5.4 Consensus size: 28
52086388 GATCTCATTT
*
52086398 CACACACTTAGTGCCTCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAA-CGATCTCG
**** *
52086429 CACACACAGTG-CTCGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAAC-GATCTCG
*
52086457 CACACACAGTGCCTCAACAATCGATGTCG
1 CACACACAGTGCCTCAACAA-CGATCTCG
**** *
52086486 CACACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAAC-GATCTCG
*
52086514 CACACACAGTGCCTCAACAACCGATCTGG
1 CACACACAGTGCCTCAACAA-CGATCTCG
52086543 CACACACAGTGC
1 CACACACAGTGC
52086555 TAGGTTACGG
Statistics
Matches: 96, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
27 2 0.02
28 40 0.42
29 45 0.47
30 2 0.02
31 7 0.07
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.17
Consensus pattern (28 bp):
CACACACAGTGCCTCAACAACGATCTCG
Found at i:52088860 original size:39 final size:39
Alignment explanation
Indices: 52088808--52088966 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
52088798 AATTATATTA
* * *
52088808 CCAGCACAAAGCCTGCGGGAATTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* * *
52088847 CCTGCACGAAGCCTACGAGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
*
52088886 CCAGCACGAAGCCTATGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
* *
52088925 CCAGCACGAAGCCTGCGGGACTTTAGCCAGGATACATTT
1 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
52088964 CCA
1 CCA
52088967 ATATCTTGCA
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:52095157 original size:43 final size:42
Alignment explanation
Indices: 52095094--52095205 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
52095084 TATCGTACTA
* *
52095094 ATGCCATACCCCAGATATGGTCTTGCAT-ATAATCTCGTATCG
1 ATGCCATACCCCAGATATGGTCTTACATGA-AATCTCATATCG
* * *
52095136 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATACCCCAGATATGGTCTTACATGAAATCTCATATCG
* *
52095179 ATGCCATATCCCAAATATGGTCTTACA
1 ATGCCATACCCCAGATATGGTCTTACA
52095206 CGTAATCTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 24 0.40
43 35 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATACCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:52098636 original size:94 final size:93
Alignment explanation
Indices: 52098373--52098643 Score: 278
Period size: 94 Copynumber: 2.8 Consensus size: 93
52098363 GGTAAGGTGT
* * * * * *
52098373 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTATTATTCTCGAGGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATT-GC-A-GCCGA-GGCATGTCCCAG
* **
52098438 ACATGGTCTTACACTAGCTCTCGCATATCCGTGC
62 ACAT-GTCTTACACTAGCACTCG-ATATCAATGC
* * * * * * *
52098472 AGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGCAGCTGATGCATATCCCAGACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATTGCAGCCGAGGCATGTCCCAGACA
*
52098536 TGTCTTACACT-GACACTCG-TCTCAATGC
65 TGTCTTACACTAG-CACTCGATATCAATGC
52098564 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGCAGCCGAGGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT--TGCAGCCGAGGCATGTCCCAGAC
52098629 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
52098644 CCACAATAAC
Statistics
Matches: 142, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
91 2 0.01
92 40 0.28
93 1 0.01
94 47 0.33
95 14 0.10
96 4 0.03
97 1 0.01
98 1 0.01
99 31 0.22
100 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTGCAGCCGAGGCATGTCCCAGACAT
GTCTTACACTAGCACTCGATATCAATGC
Found at i:52101076 original size:19 final size:19
Alignment explanation
Indices: 52101052--52101089 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
52101042 ATTCACAGAA
52101052 AAAAAGAAAGGGGAGAGAG
1 AAAAAGAAAGGGGAGAGAG
52101071 AAAAAGAAAGGGGAGAGAG
1 AAAAAGAAAGGGGAGAGAG
52101090 TTTTTTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGGGGAGAGAG
Found at i:52121353 original size:27 final size:27
Alignment explanation
Indices: 52121315--52121369 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
52121305 GGTTTGAAAG
52121315 AAATTAACAATCCTAACACTGATTATC
1 AAATTAACAATCCTAACACTGATTATC
52121342 AAATTAACAATCCTAACACTGATTATC
1 AAATTAACAATCCTAACACTGATTATC
52121369 A
1 A
52121370 TGGTGTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (27 bp):
AAATTAACAATCCTAACACTGATTATC
Found at i:52126309 original size:40 final size:41
Alignment explanation
Indices: 52126187--52126313 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 41
52126177 AAATTGAATG
* * **
52126187 ATATCCGGGCTAAG-CCCGAAGACAATTATGCT-G-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCG-GCTT
*
52126226 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTT
* *
52126266 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CATGCTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGC-GGCTT
52126306 ATATCCGG
1 ATATCCGG
52126314 TTATATTCCG
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 16 0.21
40 56 0.75
41 1 0.01
42 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGGCTT
Found at i:52134259 original size:38 final size:38
Alignment explanation
Indices: 52134167--52134316 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 38
52134157 AAATTGAATG
* * * *
52134167 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGG---CT
*
52134207 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGGCT
* *
52134245 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGGC--T
* *
52134285 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
52134317 ACATGCTTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
37 3 0.03
38 31 0.33
40 57 0.60
41 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGGCT
Found at i:52134307 original size:40 final size:37
Alignment explanation
Indices: 52134206--52134316 Score: 141
Period size: 38 Copynumber: 2.9 Consensus size: 37
52134196 TGCTGGAAAT
* *
52134206 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGGC
*
52134244 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGGC
*
52134282 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 --TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
52134317 ACATGCTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
37 3 0.05
38 31 0.48
40 29 0.45
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (37 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGGC
Found at i:52134330 original size:40 final size:38
Alignment explanation
Indices: 52134205--52134332 Score: 150
Period size: 40 Copynumber: 3.3 Consensus size: 38
52134195 ATGCTGGAAA
* * *
52134205 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCA-GC
* *
52134244 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAG-C
*
52134282 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-CA-GC
52134323 TTATATCCGG
1 TTATATCCGG
52134333 TTATATTCCG
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 32 0.42
40 40 0.53
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGC
Found at i:52136526 original size:25 final size:26
Alignment explanation
Indices: 52136471--52136531 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
52136461 CATAGCTCGT
* * *
52136471 GTGAGCATACCGATTTATAGTTTGTA
1 GTGAGCATACCGACTTACAGCTTGTA
*
52136497 -AGAGCATACCGACTTACAGCTTG-A
1 GTGAGCATACCGACTTACAGCTTGTA
52136521 GTGAGCATACC
1 GTGAGCATACC
52136532 AATTCACGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
GTGAGCATACCGACTTACAGCTTGTA
Found at i:52153292 original size:12 final size:12
Alignment explanation
Indices: 52153277--52153307 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52153267 CTCCAGTTTT
*
52153277 CACACAGCCTAG
1 CACACAGCCTAA
52153289 CACACAGCCTAA
1 CACACAGCCTAA
52153301 CACACAG
1 CACACAG
52153308 GTGTATGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.42, G:0.13, T:0.06
Consensus pattern (12 bp):
CACACAGCCTAA
Found at i:52154906 original size:46 final size:46
Alignment explanation
Indices: 52154839--52155013 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
52154829 TGTAACCCGC
* *
52154839 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
52154885 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
52154935 -C-TCA-CGAACTCGGACTCAACTCAACGAGTCCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
52154978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
52155014 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:52154959 original size:93 final size:93
Alignment explanation
Indices: 52154846--52155017 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
52154836 CGCCCATAAG
* * *
52154846 CGAACTTGGACTCAACTCAACGAG-CTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTC-CGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
52154910 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
52154939 CGAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52155004 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
52155018 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 74 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:52155033 original size:46 final size:46
Alignment explanation
Indices: 52154888--52155026 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
52154878 TTCGCATCCA
52154888 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * * *
52154936 TCA-CGAACTCGGACTCAACTCAACGAGTCCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
52154981 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
52155027 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 27 0.37
47 29 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:52159645 original size:11 final size:11
Alignment explanation
Indices: 52159629--52159653 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52159619 AAAATTATAA
52159629 AAACTAATATT
1 AAACTAATATT
52159640 AAACTAATATT
1 AAACTAATATT
52159651 AAA
1 AAA
52159654 GGAAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
AAACTAATATT
Found at i:52162330 original size:17 final size:18
Alignment explanation
Indices: 52162297--52162330 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52162287 ATGGCGTGGT
52162297 CTTGGTTTATCGTGTCTC
1 CTTGGTTTATCGTGTCTC
52162315 CTTGGTTTAT-GTGTCT
1 CTTGGTTTATCGTGTCT
52162331 GCCATTCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.06, C:0.18, G:0.24, T:0.53
Consensus pattern (18 bp):
CTTGGTTTATCGTGTCTC
Found at i:52165036 original size:13 final size:13
Alignment explanation
Indices: 52165018--52165047 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
52165008 TCTAGTCTAG
52165018 ACTAGTTAACTAA
1 ACTAGTTAACTAA
52165031 ACTAGTTAACTAA
1 ACTAGTTAACTAA
52165044 ACTA
1 ACTA
52165048 AGAGTGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTAGTTAACTAA
Found at i:52168351 original size:40 final size:40
Alignment explanation
Indices: 52168263--52168400 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
52168253 AAACCAAGTA
* * ** *
52168263 CCTTCGGGATTTAG-CCGGATATAGCT-ACTTGTTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
52168302 TCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52168342 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52168382 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52168401 TTGTCATCCG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.14
40 74 0.86
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52176189 original size:40 final size:40
Alignment explanation
Indices: 52176159--52176335 Score: 347
Period size: 40 Copynumber: 4.5 Consensus size: 40
52176149 GTTCAACTGT
52176159 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
52176199 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
52176239 CTTCGGGACTTAGCCCGGATATAGTAACTC-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
52176278 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
52176318 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
52176336 TTGTCATCCG
Statistics
Matches: 136, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
39 39 0.29
40 97 0.71
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:52176290 original size:79 final size:80
Alignment explanation
Indices: 52176159--52176335 Score: 347
Period size: 79 Copynumber: 2.2 Consensus size: 80
52176149 GTTCAACTGT
52176159 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
52176224 AACTCGCACAAATGC
66 AACTCGCACAAATGC
52176239 CTTCGGGACTTAGCCCGGATATAGTAACTC-CACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
52176303 AACTCGCACAAATGC
66 AACTCGCACAAATGC
52176318 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
52176336 TTGTCATCCG
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 67 0.69
80 30 0.31
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATGC
Found at i:52185958 original size:20 final size:20
Alignment explanation
Indices: 52185933--52185999 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
52185923 TTATGAATTC
*
52185933 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
52185953 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
52185973 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
52185993 ATCATGT
1 ATCATGT
52186000 ATATTATATC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52185964 original size:11 final size:11
Alignment explanation
Indices: 52185933--52185988 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52185923 TTATGAATTC
52185933 ATCATGTGCAT
1 ATCATGTGCAT
* *
52185944 TTCA--TACAT
1 ATCATGTGCAT
52185953 ATCATGTGCAT
1 ATCATGTGCAT
*
52185964 ATCA--TACAT
1 ATCATGTGCAT
52185973 ATCATGTGCAT
1 ATCATGTGCAT
52185984 ATCAT
1 ATCAT
52185989 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:52192617 original size:28 final size:28
Alignment explanation
Indices: 52192569--52192637 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
52192559 ATTTAAACCC
*
52192569 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
52192596 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
52192624 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52192638 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:52194415 original size:12 final size:12
Alignment explanation
Indices: 52194400--52194424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52194390 ACAGTAAATA
52194400 ATAAAAATTTTC
1 ATAAAAATTTTC
52194412 ATAAAAATTTTC
1 ATAAAAATTTTC
52194424 A
1 A
52194425 AACATACATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:52197087 original size:25 final size:26
Alignment explanation
Indices: 52197059--52197155 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
52197049 CCTCTTTAAT
*
52197059 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
52197084 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
52197109 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
52197135 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
52197156 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 32 0.48
26 34 0.52
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:52197130 original size:51 final size:51
Alignment explanation
Indices: 52197059--52197155 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
52197049 CCTCTTTAAT
52197059 AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
52197109 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
52197156 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 9 0.20
51 25 0.57
52 10 0.23
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (51 bp):
AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:52197238 original size:11 final size:11
Alignment explanation
Indices: 52197222--52197260 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
52197212 CCATTTCATA
52197222 CATATCATGTG
1 CATATCATGTG
*
52197233 CATATCA--TA
1 CATATCATGTG
52197242 CATATCATGTG
1 CATATCATGTG
52197253 CATATCAT
1 CATATCAT
52197261 ATCAATCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:52197240 original size:20 final size:20
Alignment explanation
Indices: 52197217--52197279 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
52197207 GATGTCCATT
52197217 TCATACATATCATGTGCATA
1 TCATACATATCATGTGCATA
52197237 TCATACATATCATGTGCATA
1 TCATACATATCATGTGCATA
52197257 TCATATCA-ATCATGT--ATA
1 TCATA-CATATCATGTGCATA
52197275 TCATA
1 TCATA
52197280 TCCCACGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.19
20 32 0.76
21 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.37
Consensus pattern (20 bp):
TCATACATATCATGTGCATA
Found at i:52197277 original size:9 final size:10
Alignment explanation
Indices: 52197222--52197278 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
52197212 CCATTTCATA
52197222 CATATCATGT
1 CATATCATGT
*
52197232 GCATATCAT-A
1 -CATATCATGT
52197242 CATATCATGT
1 CATATCATGT
*
52197252 GCATATCATAT
1 -CATATCATGT
52197263 CA-ATCATGT
1 CATATCATGT
52197272 -ATATCAT
1 CATATCAT
52197279 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:52197335 original size:25 final size:25
Alignment explanation
Indices: 52197307--52197354 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
52197297 ATAATTAAAC
* * *
52197307 CCTAGAGGTATAATGGTCATTTTTA
1 CCTAGAGGCAAAATAGTCATTTTTA
*
52197332 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGAGGCAAAATAGTCATTTT
52197355 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (25 bp):
CCTAGAGGCAAAATAGTCATTTTTA
Found at i:52202656 original size:2 final size:2
Alignment explanation
Indices: 52202649--52202687 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
52202639 TCATGACATG
52202649 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
52202688 GACTAGTCTC
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:52214599 original size:13 final size:13
Alignment explanation
Indices: 52214581--52214609 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52214571 GGTTGTTTAT
52214581 TAAACTAATTAAC
1 TAAACTAATTAAC
52214594 TAAACTAATTAAC
1 TAAACTAATTAAC
52214607 TAA
1 TAA
52214610 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:52221329 original size:61 final size:61
Alignment explanation
Indices: 52221210--52221358 Score: 162
Period size: 60 Copynumber: 2.5 Consensus size: 61
52221200 CTATTCAGAA
* *
52221210 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTAC-AGT
1 ATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAGT
* * * *
52221271 ATCAGAGTATACTGGGCCTAGCCCATGTCAGTATCAATCTGGGCCTTAGCCTTATTACAAGT
1 ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCC-CATTACAAGT
* * *
52221333 -TGAGA-TATATTGGGCCTTGCCCATAT
1 ATCAGAGTATACTGGGCCTAGCCCATAT
52221359 TAACACAGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
60 47 0.63
61 24 0.32
62 4 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (61 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAAGT
Found at i:52221376 original size:20 final size:19
Alignment explanation
Indices: 52221351--52221394 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
52221341 ATTGGGCCTT
52221351 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
52221371 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
52221390 GCCCA
1 GCCCA
52221395 GAATAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:52226028 original size:93 final size:93
Alignment explanation
Indices: 52225916--52226087 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52225906 GCCCATAAGT
* *
52225916 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52225981 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52226009 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52226074 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52226088 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52226083 original size:46 final size:46
Alignment explanation
Indices: 52225908--52226083 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52225898 TGTAACCCGC
* * *
52225908 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52225954 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52226004 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52226047 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52226084 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52228510 original size:30 final size:30
Alignment explanation
Indices: 52228466--52228554 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
52228456 CAAAGATAAC
*
52228466 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
52228495 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
52228525 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
52228555 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:52228514 original size:15 final size:14
Alignment explanation
Indices: 52228466--52228548 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
52228456 CAAAGATAAC
*
52228466 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
52228480 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
52228495 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
52228510 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
52228525 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
52228540 AAGAAACCC
1 AAGAAACCC
52228549 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:52228554 original size:15 final size:15
Alignment explanation
Indices: 52228477--52228554 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
52228467 AGAAAACCGA
52228477 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
52228492 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
52228506 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52228521 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52228537 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52228552 ATA
1 ATA
52228555 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52231613 original size:93 final size:93
Alignment explanation
Indices: 52231501--52231672 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52231491 GCCCATAAGT
* *
52231501 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52231566 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52231594 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52231659 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
52231673 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52231668 original size:46 final size:46
Alignment explanation
Indices: 52231493--52231668 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52231483 TGTAACCCGC
* * *
52231493 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52231539 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52231589 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
52231632 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52231669 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52234414 original size:61 final size:61
Alignment explanation
Indices: 52234332--52234494 Score: 158
Period size: 60 Copynumber: 2.7 Consensus size: 61
52234322 ACTTGGCCTA
* * *
52234332 AGCCCTATTA-AGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTAGGCCAT
1 AGCCCTATTACAG-TATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAATATAGGCCAT
* * * *
52234394 AGCCCT-TTACAGTATCAGAGTATACTGGGCCTAGCCCATGTCAGTATCAATATGGGCCTT
1 AGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATATAGGCCAT
* *
52234454 AGCCCTATTACA--AGTCGAGAG-ATATTGGGCCTTGCCCATAT
1 AGCCCTATTACAGTA-TC-AGAGTATACTGGGCCTAGCCCATAT
52234495 TAACACAGTT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
59 1 0.01
60 48 0.56
61 28 0.33
62 9 0.10
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (61 bp):
AGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATATAGGCCAT
Found at i:52234530 original size:19 final size:20
Alignment explanation
Indices: 52234487--52234532 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
52234477 ATTGGGCCTT
52234487 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
52234507 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
52234526 GCCCATA
1 GCCCATA
52234533 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:52236034 original size:25 final size:22
Alignment explanation
Indices: 52235980--52236034 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
52235970 TTTAGGCTAG
52235980 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
52236002 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
52236027 AGGAAGAA
1 A-GAAGAA
52236035 TTCGAGACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:52252857 original size:13 final size:13
Alignment explanation
Indices: 52252841--52252870 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
52252831 GGTTTTCTCA
*
52252841 TTTTCTTTTCTTG
1 TTTTCTTCTCTTG
52252854 TTTTCTTCTCTTG
1 TTTTCTTCTCTTG
52252867 TTTT
1 TTTT
52252871 ACTGTTGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTCTTCTCTTG
Found at i:52254262 original size:26 final size:26
Alignment explanation
Indices: 52254233--52254318 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
52254223 CCTCAGTTTC
*
52254233 TAAAATGACCGAATACCCTTGTAGGG
1 TAAAATGACCGAATACCCCTGTAGGG
* * *
52254259 TAAAATGACCATAATTCCCCTATAGGG
1 TAAAATGACC-GAATACCCCTGTAGGG
*
52254286 TAAAATGACCGTAATACCCCTGTATGG
1 TAAAATGACCG-AATACCCCTGTAGGG
52254313 TAAAAT
1 TAAAAT
52254319 AACGATTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (26 bp):
TAAAATGACCGAATACCCCTGTAGGG
Found at i:52257186 original size:30 final size:29
Alignment explanation
Indices: 52257150--52257210 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
52257140 AAATGAAAGT
* *
52257150 TTTGGCACTGAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAATGTGCGATTT-AACTAGC
52257180 TTTGGCACTAAATGTGCGATTTAACTAGC
1 TTTGGCACTAAATGTGCGATTTAACTAGC
52257209 TT
1 TT
52257211 CGGCTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAATGTGCGATTTAACTAGC
Found at i:52257570 original size:19 final size:19
Alignment explanation
Indices: 52257546--52257592 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
52257536 TTTTGTGTAT
52257546 GAGCTTACTAAGCTTTTGA
1 GAGCTTACTAAGCTTTTGA
52257565 GAGCTTACTAAGCTTTTGA
1 GAGCTTACTAAGCTTTTGA
*
52257584 AAGCTTACT
1 GAGCTTACT
52257593 CTATGTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (19 bp):
GAGCTTACTAAGCTTTTGA
Found at i:52264246 original size:30 final size:29
Alignment explanation
Indices: 52264210--52264270 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
52264200 AAATGGAAGT
52264210 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
52264240 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
52264269 TT
1 TT
52264271 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:52270678 original size:30 final size:30
Alignment explanation
Indices: 52270604--52270743 Score: 111
Period size: 30 Copynumber: 4.7 Consensus size: 30
52270594 TTAACAATCG
* * * * *
52270604 ATAGCCGAAGCTAACTCATTTCATAATTCA
1 ATAGCCGAACCTATCCCTTTTCATAATTTA
* * ** *
52270634 ATAGTCGAAGCTATCATTTTTCATAATTTG
1 ATAGCCGAACCTATCCCTTTTCATAATTTA
* *
52270664 ATAGCCGAACCTATCCCTTTGCATAGTTTA
1 ATAGCCGAACCTATCCCTTTTCATAATTTA
** * *
52270694 ATATTCGTCACC-ATCCCTTTTCATAATTTG
1 ATAGCCG-AACCTATCCCTTTTCATAATTTA
*
52270724 ATAGCTGAACCTATCCCTTT
1 ATAGCCGAACCTATCCCTTT
52270744 CATTGTTCGA
Statistics
Matches: 84, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
29 3 0.04
30 78 0.93
31 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (30 bp):
ATAGCCGAACCTATCCCTTTTCATAATTTA
Found at i:52270719 original size:60 final size:59
Alignment explanation
Indices: 52270651--52270863 Score: 248
Period size: 60 Copynumber: 3.6 Consensus size: 59
52270641 AAGCTATCAT
* ** **
52270651 TTTTCATAATTTGATAGCCGAACCTATCCCTTTGCATAGTTTAATATTCGTCACCATCCC
1 TTTTCATAATTTGATAGCCGAACCTATCCCTTT-CATTGTTCGATGGTCGTCACCATCCC
*
52270711 TTTTCATAATTTGATAGCTGAACCTATCCCTTTCATTGTTCGATGGTCGTCACCATCCC
1 TTTTCATAATTTGATAGCCGAACCTATCCCTTTCATTGTTCGATGGTCGTCACCATCCC
** * * * * * *
52270770 TTTTCATTGTTTGATGGTCGTCACC-ATCCCTTTTCATTGTTCGGTGGTAGGCACCATCCC
1 TTTTCATAATTTGATAGCCG-AACCTATCCC-TTTCATTGTTCGATGGTCGTCACCATCCC
* *
52270830 TTTTCATAATTTGATAGCCGAAGCTATCCATTTC
1 TTTTCATAATTTGATAGCCGAACCTATCCCTTTC
52270864 CATTAGTTGA
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
59 47 0.37
60 81 0.63
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (59 bp):
TTTTCATAATTTGATAGCCGAACCTATCCCTTTCATTGTTCGATGGTCGTCACCATCCC
Found at i:52270777 original size:30 final size:30
Alignment explanation
Indices: 52270736--52270836 Score: 159
Period size: 30 Copynumber: 3.4 Consensus size: 30
52270726 AGCTGAACCT
52270736 ATCCC-TTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTGTTCGATGGTCGTCACC
*
52270765 ATCCCTTTTCATTGTTTGATGGTCGTCACC
1 ATCCCTTTTCATTGTTCGATGGTCGTCACC
* * *
52270795 ATCCCTTTTCATTGTTCGGTGGTAGGCACC
1 ATCCCTTTTCATTGTTCGATGGTCGTCACC
52270825 ATCCCTTTTCAT
1 ATCCCTTTTCAT
52270837 AATTTGATAG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 5 0.08
30 61 0.92
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATTGTTCGATGGTCGTCACC
Found at i:52273953 original size:39 final size:39
Alignment explanation
Indices: 52273899--52274042 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
52273889 GAATGTTCAA
*
52273899 GTGATATCCGGGCTAAGCCCGAAGGCAATTATGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
52273938 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
52273977 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
52274016 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
52274043 CTTTGTGCGG
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 85 0.90
40 9 0.10
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:52276026 original size:28 final size:28
Alignment explanation
Indices: 52275980--52276075 Score: 160
Period size: 28 Copynumber: 3.5 Consensus size: 28
52275970 TTTAAAACCC
*
52275980 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
52276007 TAGGGGTAATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52276035 TAGGGGTAATTTCGGTAATTTTGCTC-T
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52276062 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52276076 TGATCTACGC
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 22 0.34
28 43 0.66
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:52277714 original size:20 final size:20
Alignment explanation
Indices: 52277691--52277728 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52277681 CACATCCAAA
*
52277691 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52277711 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52277729 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52284024 original size:28 final size:28
Alignment explanation
Indices: 52283977--52284070 Score: 151
Period size: 28 Copynumber: 3.5 Consensus size: 28
52283967 TTTAAAACCC
*
52283977 TAGGGGT-ATATC-GTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52284003 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52284031 TAGGGGTAATTTCGGTAATTTTGCTC-T
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52284058 TA-GGGTAATTTCG
1 TAGGGGTAATTTCG
52284071 TGATCTACGC
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
26 18 0.28
27 7 0.11
28 40 0.62
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:52285701 original size:20 final size:20
Alignment explanation
Indices: 52285678--52285715 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52285668 CACATCCAAA
*
52285678 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52285698 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52285716 GCGAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52289382 original size:79 final size:82
Alignment explanation
Indices: 52289242--52289426 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
52289232 TCGAATGATG
* * *
52289242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
52289306 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
52289322 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
52289384 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
52289402 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52289427 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:52289434 original size:40 final size:40
Alignment explanation
Indices: 52289243--52289434 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
52289233 CGAATGATGT
* * * * *
52289243 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
52289283 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
52289323 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
52289362 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
52289402 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
52289435 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:52289457 original size:79 final size:79
Alignment explanation
Indices: 52289242--52289459 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
52289232 TCGAATGATG
* * * * ** *
52289242 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
52289305 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
52289322 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
52289387 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
52289402 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
52289460 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:52294858 original size:27 final size:28
Alignment explanation
Indices: 52294817--52294887 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
52294807 TATATATATA
* *
52294817 TGGCCCACTAAGCCCACTCT-C-TTTATG
1 TGGCCCATTAGGCCCA-TCTACATTTATG
*
52294844 TGGCCCATTAGGCCCATTTACATTTATG
1 TGGCCCATTAGGCCCATCTACATTTATG
52294872 TGGCCCATTAGGCCCA
1 TGGCCCATTAGGCCCA
52294888 AATCACATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.05
27 15 0.38
28 22 0.56
ACGTcount: A:0.20, C:0.32, G:0.18, T:0.30
Consensus pattern (28 bp):
TGGCCCATTAGGCCCATCTACATTTATG
Found at i:52295153 original size:8 final size:8
Alignment explanation
Indices: 52295139--52295181 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
52295129 GTAGCCTAAC
52295139 TTTCGGCT
1 TTTCGGCT
*
52295147 CTTCGGCT
1 TTTCGGCT
52295155 TTTCGGCT
1 TTTCGGCT
*
52295163 TTTCGGCA
1 TTTCGGCT
*
52295171 TTTCGACT
1 TTTCGGCT
52295179 TTT
1 TTT
52295182 GCCGATTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.05, C:0.26, G:0.21, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:52302697 original size:16 final size:16
Alignment explanation
Indices: 52302672--52302714 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
52302662 GTAGCCCAAC
*
52302672 TTTCAACTTTTCGACA
1 TTTCAGCTTTTCGACA
*
52302688 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
*
52302704 TTTCGGCTTTT
1 TTTCAGCTTTT
52302715 GCCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:52304930 original size:22 final size:22
Alignment explanation
Indices: 52304878--52304954 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
52304868 TACGGCCTTT
*
52304878 AGCCGTCCTATCTACGATGTTG
1 AGCCGTCCTATCTACGACGTTG
*
52304900 AGTCGTCCTATCTAC-AGCGTTG
1 AGCCGTCCTATCTACGA-CGTTG
* * * * *
52304922 AGCCATCCTGTCTATGGCATTG
1 AGCCGTCCTATCTACGACGTTG
*
52304944 AGCTGTCCTAT
1 AGCCGTCCTAT
52304955 TGACTTAGTG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 1 0.02
22 41 0.98
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.32
Consensus pattern (22 bp):
AGCCGTCCTATCTACGACGTTG
Found at i:52305140 original size:27 final size:27
Alignment explanation
Indices: 52305102--52305177 Score: 152
Period size: 27 Copynumber: 2.8 Consensus size: 27
52305092 ATACTGATTC
52305102 TGTACTGGGCTTAGGCCCACCTCATTT
1 TGTACTGGGCTTAGGCCCACCTCATTT
52305129 TGTACTGGGCTTAGGCCCACCTCATTT
1 TGTACTGGGCTTAGGCCCACCTCATTT
52305156 TGTACTGGGCTTAGGCCCACCT
1 TGTACTGGGCTTAGGCCCACCT
52305178 GATTCTGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (27 bp):
TGTACTGGGCTTAGGCCCACCTCATTT
Found at i:52305197 original size:27 final size:27
Alignment explanation
Indices: 52305098--52305194 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
52305088 TTTGATACTG
52305098 ATTCTGTACTGGGCTTAGGCCCACCTC
1 ATTCTGTACTGGGCTTAGGCCCACCTC
*
52305125 ATTTTGTACTGGGCTTAGGCCCACCTC
1 ATTCTGTACTGGGCTTAGGCCCACCTC
* *
52305152 ATTTTGTACTGGGCTTAGGCCCACCTG
1 ATTCTGTACTGGGCTTAGGCCCACCTC
*
52305179 ATTCTGTTAATGGGCT
1 ATTCTG-TACTGGGCT
52305195 AGGACCAACT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 57 0.88
28 8 0.12
ACGTcount: A:0.15, C:0.27, G:0.24, T:0.34
Consensus pattern (27 bp):
ATTCTGTACTGGGCTTAGGCCCACCTC
Found at i:52308832 original size:39 final size:40
Alignment explanation
Indices: 52308742--52308918 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
52308732 AAACCAAGTA
* * *
52308742 CCTTCGGGATTTAG-CTGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
52308781 CCTTCGGAACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
52308821 CCTT-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52308860 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
52308900 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52308919 TTATCATCCG
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 50 0.40
40 75 0.60
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:52308889 original size:79 final size:80
Alignment explanation
Indices: 52308758--52308918 Score: 265
Period size: 79 Copynumber: 2.0 Consensus size: 80
52308748 GGATTTAGCT
* *
52308758 GGATATAGCTACTCGCTCAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCACAAATGCC
1 GGATATAGCTACTCGCACAAATGCCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATGCC
52308823 -TTGGGACTTAGCCC
66 TTTGGGACTTAGCCC
52308837 GGATATAG-TAACTCGCACAAATGCCTTCAGG-ACTTAGCCCGGATATAGTAACTCGCACAAATG
1 GGATATAGCT-ACTCGCACAAATGCCTTC-GGAACTTAGCCCGGATATAGTAACTCGCACAAATG
52308900 CCTTTGGGACTTAGCCC
64 CCTTTGGGACTTAGCCC
52308917 GG
1 GG
52308919 TTATCATCCG
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
78 1 0.01
79 58 0.75
80 18 0.23
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
GGATATAGCTACTCGCACAAATGCCTTCGGAACTTAGCCCGGATATAGTAACTCGCACAAATGCC
TTTGGGACTTAGCCC
Found at i:52310894 original size:39 final size:39
Alignment explanation
Indices: 52310850--52310993 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
52310840 GGCTGTCACA
* *
52310850 CAGGCTATGTGCTGGAATTATATCAGGACTTAGGGTCCG
1 CAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCG
52310889 CAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCG
1 CAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCG
* * *
52310928 CAGGCTTTGTGCTGGAATTATAACCGGACTTAAGGTCTG
1 CAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCG
* * *
52310967 CAGGCTACGTGCTGGAAATATGTCCGG
1 CAGGCTATGTGCTGGAATTATATCCGG
52310994 GCTAAAGTCC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (39 bp):
CAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCG
Found at i:52311020 original size:78 final size:78
Alignment explanation
Indices: 52310860--52311031 Score: 179
Period size: 78 Copynumber: 2.2 Consensus size: 78
52310850 CAGGCTATGT
* * * * * *
52310860 GCTGGAATTATATCAGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT
* * * *
52310925 CCGCAGGCTTTGT
66 CCCCAGACTTCGA
* * *
52310938 GCTGGAATTATAACCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT
52311002 CCCTCCA-ACTTCGA
66 -CC-CCAGACTTCGA
*
52311016 GCTGGTATTAT-ACCGG
1 GCTGGAATTATAACCGG
52311032 GTTTAAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
77 10 0.13
78 66 0.85
79 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT
CCCCAGACTTCGA
Found at i:52314389 original size:40 final size:40
Alignment explanation
Indices: 52314293--52314476 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
52314283 TCGAATGATG
* * *
52314293 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
52314333 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52314372 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
52314412 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52314453 -CCGGGC-ATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52314477 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 43 0.33
40 86 0.66
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52314469 original size:79 final size:79
Alignment explanation
Indices: 52314293--52314476 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 79
52314283 TCGAATGATG
*
52314293 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGACTAAGATCCGAAGGCATTT
1 TCCGGGC-AAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTT
52314357 GTGCGAGTTACTAAA
65 GTGCGAGTTACTAAA
* * * **
52314372 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGG-CAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCC-GACTAAGAT-CCGAAGGCAT
52314435 TTGTGCGAGTTACTATAA
63 TTGTGCGAGTTACTA-AA
*
52314453 -CCGGGCATGTCCCGAAGGCATTTG
1 TCCGGGCAAGTCCCGAAGGCATTTG
52314477 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 48 0.52
80 42 0.46
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:52322472 original size:40 final size:40
Alignment explanation
Indices: 52322389--52322533 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
52322379 TCGAATGATG
* * *
52322389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
52322429 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
52322469 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52322510 -CCGGGC-ATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52322534 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
39 17 0.19
40 64 0.70
41 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52330082 original size:39 final size:39
Alignment explanation
Indices: 52330022--52330170 Score: 208
Period size: 39 Copynumber: 3.8 Consensus size: 39
52330012 CAGTGATGTT
*
52330022 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * *
52330061 TATCAGGACTTAGGGTTCGCAGGCTATGTGCTGAAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
52330100 TATCCGGACTTAAGGTCCGCAGGCTATCTACTAGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
52330139 TAACCGGACTTAAGGTCCGCAGGCTACGTGCT
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCT
52330171 AGAAATATGT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:52330198 original size:78 final size:78
Alignment explanation
Indices: 52330022--52330202 Score: 204
Period size: 78 Copynumber: 2.3 Consensus size: 78
52330012 CAGTGATGTT
** * * * * * *
52330022 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCAGGACTTAGGGTTCGCAGGCTA
1 TATCCGGACTTAAAGTCCGCAGGCTATCTACTAGAATTATAACAGGACTTAAGGTCCGCAGGCTA
*
52330087 TGTGCTGAAATTA
66 CGTGCTGAAATTA
* *
52330100 TATCCGGACTTAAGGTCCGCAGGCTATCTACTAGAATTATAACCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAAAGTCCGCAGGCTATCTACTAGAATTATAACAGGACTTAAGGTCCGCAGGCTA
52330165 CGTGCTAGAAA-TA
66 CGTGCT-GAAATTA
* * *
52330178 TGTCTGGGC-TAAAGTCCCGCAGGCT
1 TATCCGGACTTAAAGT-CCGCAGGCT
52330203 TCGAACTGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
77 5 0.06
78 79 0.90
79 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (78 bp):
TATCCGGACTTAAAGTCCGCAGGCTATCTACTAGAATTATAACAGGACTTAAGGTCCGCAGGCTA
CGTGCTGAAATTA
Found at i:52333009 original size:26 final size:26
Alignment explanation
Indices: 52332948--52333030 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 26
52332938 GCCAACACAC
* * *
52332948 CAATATCGTAGCAAAGATGCCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
* * *
52332974 TAATATCGCAGCAAAGCTACCAGTAA
1 CAATAACGCAGCAAAGCTGCCAGTAA
* * *
52333000 CAGTAACGCAGCAGAGCTGCCAGTAT
1 CAATAACGCAGCAAAGCTGCCAGTAA
52333026 CAATA
1 CAATA
52333031 TATGTGGCAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTGCCAGTAA
Found at i:52341018 original size:48 final size:48
Alignment explanation
Indices: 52340947--52341323 Score: 313
Period size: 48 Copynumber: 7.9 Consensus size: 48
52340937 ATGACATTTG
*
52340947 GTTGATATGTGTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGA
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
* * ** *
52340995 GTTGATATGTGTGCTAGTGTAAGACAATGTCTGGGGTATGGCATCGGCC
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-A
* * * * * * *
52341044 G--CATTATGAGAGCCAGTGTAAGACCATCTTTAGGACATGGCATCGGC
1 GTTGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
** * * *
52341091 G-ACATTATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC--A
1 GTTGA-TATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
* *
52341137 GTAATGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA
1 GT--TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--A
** * ** * *
52341189 CAT--TATGAGAACCAGTGTAAGACCATGTCTGTGACATGGCATCAGA
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
* * * *
52341235 GTTAATATGTGTGCTAGTATAAGACCATGTCTGGGACATGGCATTGGCA
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-A
* *
52341284 -TTGATATGTGTACTAGTGTAAGACCATGTCTAGGG-CATGG
1 GTTGATATGTGTGCCAGTGTAAGACCATGTCT-GGGACATGG
52341324 TATCAGTAAT
Statistics
Matches: 267, Mismatches: 48, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
46 3 0.01
47 3 0.01
48 253 0.95
49 6 0.02
50 1 0.00
52 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (48 bp):
GTTGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGA
Found at i:52341225 original size:144 final size:143
Alignment explanation
Indices: 52340959--52341323 Score: 448
Period size: 144 Copynumber: 2.5 Consensus size: 143
52340949 TGATATGTGT
* *
52340959 GCCAGTGTAAGAACATGTCTGGGACATGGCATCGGAGT-TGATATGTGTGCTAGTGTAAGACAAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC--AGTATGATATGTGTGCTAGTGTAAGACCAT
** * * *
52341023 GTCTGGGGTATGGCATCGGCCGCATTATGAGAGCCAGTGTAAGACCATCTTTAGGACATGGCATC
64 GTCTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATCTCTAGGACATGGCATC
* * *
52341088 GGCGACATTATGAGA
129 AGAGACAATATGAGA
*
52341103 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAGTAATGATATGTGTGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGT-ATGATATGTGTGCTAGTGTAAGACCATG
* *
52341168 TTTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT-GTGACATGGCATC
65 TCTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATCTCTAG-GACATGGCATC
** * *
52341232 AGAGTTAATATGTGT
129 AGAGACAATATGAGA
* * ** * *
52341247 GCTAGTATAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGTACTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTA-TGATATGTGTGCTAGTGTAAGACCATG
52341312 TCTAGGG-CATGG
65 TCT-GGGACATGG
52341324 TATCAGTAAT
Statistics
Matches: 191, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
142 3 0.02
143 2 0.01
144 183 0.96
145 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (143 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTATGATATGTGTGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATCTCTAGGACATGGCATCAG
AGACAATATGAGA
Found at i:52341243 original size:96 final size:96
Alignment explanation
Indices: 52341058--52341333 Score: 353
Period size: 96 Copynumber: 2.9 Consensus size: 96
52341048 TATGAGAGCC
* * * *
52341058 AGTGTAAGACCATCTTTAGGACATGGCATCGGCGACATTATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT
*
52341123 AGGACATGGCATCAGTAATGATATGTGTGCT
66 AGGACATGGCATCAGTAATAATATGTGTGCT
52341154 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT
*
52341219 -GTGACATGGCATCAG-AGTTAATATGTGTGCT
66 AG-GACATGGCATCAGTA-ATAATATGTGTGCT
* * * * * * *
52341250 AGTATAAGACCATGTCTGGGACATGGCATTGG-CA-TTGATATGTGTACTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAT--TATGAGAACCAGTGTAAGACCATGT
* *
52341313 CTAGGGCATGGTATCAGTAAT
64 CTAGGACATGGCATCAGTAAT
52341334 TGACGTTCTT
Statistics
Matches: 158, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
94 1 0.01
95 4 0.03
96 151 0.96
97 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAACCAGTGTAAGACCATGTCT
AGGACATGGCATCAGTAATAATATGTGTGCT
Found at i:52348923 original size:96 final size:96
Alignment explanation
Indices: 52348755--52349017 Score: 323
Period size: 96 Copynumber: 2.8 Consensus size: 96
52348745 ATGTGTGCTT
* ** * * * * * *
52348755 GTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCCAATGTAAGATCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGTGTGCTAGTGTAAGACCATGTTTG
* * *
52348820 GGTCATGGAATCA-GCCACATTTTGAGAGCCA
66 GGACATGGAAT-AGGCCACAGTATGAGAGCCA
*
52348851 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGTGTGCTAGTGTAAGACCATGTGTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGTGTGCTAGTGTAAGACCATGTTTG
* * *
52348916 GAACATGGCATAGGCCAGAGTATGAGAGCCA
66 GGACATGGAATAGGCCACAGTATGAGAGCCA
* * * *
52348947 GTGTAAGACCATG-CTGGGACATGGCATCAGTGTTGATATGTGTGCTAGTGTAAGACGATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGTGTGCTAGTGTAAGACCATGTTTG
52349011 GGACATG
66 GGACATG
52349018 CCATCAGCGT
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
95 53 0.37
96 91 0.63
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGTGTGCTAGTGTAAGACCATGTTTG
GGACATGGAATAGGCCACAGTATGAGAGCCA
Found at i:52349023 original size:48 final size:48
Alignment explanation
Indices: 52348739--52349066 Score: 274
Period size: 48 Copynumber: 6.9 Consensus size: 48
52348729 ATGACATTTG
*
52348739 GTTGATATGTGTGCTTGTGTAAGACCATGTCTGGGACATGGCATC-GAC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-C
** * * * * * * * *
52348787 CAT-ATTATGAGAGCCAATGTAAGATCATGTTTGGGTCATGGAATCAGC
1 GTTGA-TATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
*** * * * * *
52348835 -CACATTTTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTTGA-TATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
* * *
52348883 GTTAATATGTGTGCTAGTGTAAGACCATGTGTGGAACATGGCAT-AG-
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
** * * * *
52348929 GCCAGAGTATGAGAGCCAGTGTAAGACCATG-CTGGGACATGGCATCAGT
1 G-TTGA-TATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
* * *
52348978 GTTGATATGTGTGCTAGTGTAAGACGATGTTTGGGACATGCCATCAGC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
*
52349026 GTTGATATGTTTGCTAGTGTAAGACCATGTCT-GGACATGGC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGC
52349067 GTCGACAATT
Statistics
Matches: 220, Mismatches: 51, Indels: 19
0.76 0.18 0.07
Matches are distributed among these distances:
46 1 0.00
47 43 0.20
48 173 0.79
49 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC
Found at i:52349066 original size:95 final size:96
Alignment explanation
Indices: 52348842--52349021 Score: 290
Period size: 95 Copynumber: 1.9 Consensus size: 96
52348832 AGCCACATTT
*
52348842 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTAATATGTGTGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTAATATGTGTGCTAGTGTAAGA
*
52348907 CCATGTGTGGAACATGGCATAGGCCAGAGTA
66 CCATGTGTGGAACATGCCATAGGCCAGAGTA
* *
52348938 TGAGAGCCAGTGTAAGACCATG-CTGGGACATGGCATCAGTGTTGATATGTGTGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTAATATGTGTGCTAGTGTAAGA
* * *
52349002 CGATGTTTGGGACATGCCAT
66 CCATGTGTGGAACATGCCAT
52349022 CAGCGTTGAT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 55 0.71
96 22 0.29
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTAATATGTGTGCTAGTGTAAGA
CCATGTGTGGAACATGCCATAGGCCAGAGTA
Found at i:52361658 original size:13 final size:13
Alignment explanation
Indices: 52361640--52361664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52361630 GTGTGTATGG
52361640 CACACGGCCATGT
1 CACACGGCCATGT
52361653 CACACGGCCATG
1 CACACGGCCATG
52361665 CCTAGCTTTG
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:0.24, C:0.40, G:0.24, T:0.12
Consensus pattern (13 bp):
CACACGGCCATGT
Found at i:52373077 original size:14 final size:14
Alignment explanation
Indices: 52373058--52373085 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52373048 AAAGGAGGGT
52373058 TATCTTCTTCAACC
1 TATCTTCTTCAACC
52373072 TATCTTCTTCAACC
1 TATCTTCTTCAACC
52373086 GACGTGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
TATCTTCTTCAACC
Found at i:52375113 original size:20 final size:20
Alignment explanation
Indices: 52375083--52375136 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
52375073 AACAGAGGTC
*
52375083 ACACACCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
52375103 ACAGGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
52375123 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
52375137 GTAGGCCGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:52379686 original size:93 final size:93
Alignment explanation
Indices: 52379573--52379745 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
52379563 CGCCCATAAG
* * * * *
52379573 CGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
52379638 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
52379666 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
*
52379731 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
52379746 CAAATATCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:52379741 original size:46 final size:46
Alignment explanation
Indices: 52379566--52379741 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
52379556 TGTAACCCGC
* * * *
52379566 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
* * *
52379612 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-C---TCACAT
* *
52379662 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
* * *
52379705 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
52379742 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 64 0.59
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
Found at i:52379760 original size:46 final size:45
Alignment explanation
Indices: 52379617--52379760 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 45
52379607 CGCATCCATA
* * *
52379617 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * *
52379665 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-ACATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
52379710 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
52379756 AGTGA
1 AGTGA
52379761 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 5 0.06
45 1 0.01
46 36 0.46
47 30 0.38
48 6 0.08
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:52382018 original size:12 final size:14
Alignment explanation
Indices: 52382001--52382037 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
52381991 TGGTGATATT
52382001 TATATATGT-ATA-
1 TATATATGTGATAC
52382013 TATATATGTGATAC
1 TATATATGTGATAC
52382027 TATAT-TGTGAT
1 TATATATGTGAT
52382038 TTTCGAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 9 0.39
14 5 0.22
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (14 bp):
TATATATGTGATAC
Found at i:52385327 original size:39 final size:40
Alignment explanation
Indices: 52385225--52385409 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
52385215 TCGAATGATG
* *
52385225 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
52385264 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52385305 TCCGGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
52385344 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
52385383 AACCGGGCTATGTCCCAAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
52385410 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:52385361 original size:79 final size:80
Alignment explanation
Indices: 52385225--52385409 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
52385215 TCGAATGATG
*
52385225 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
52385290 GTGCGAGTTACTAAT
66 ATGCGAGTTACTAAT
* * * **
52385305 TCCGGGCTAAG-CTCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
52385367 TTATGCGAGTTACT-AT
64 TTATGCGAGTTACTAAT
* * *
52385383 AACCGGGCTATGTCCCAAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGC-TTTG
52385410 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGTTACTAAT
Found at i:52385431 original size:79 final size:78
Alignment explanation
Indices: 52385259--52385432 Score: 192
Period size: 79 Copynumber: 2.2 Consensus size: 78
52385249 GTGCTAAGTG
* * * * *
52385259 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCTCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCAAAGG
**
52385324 CATTTGTGCGAGTT
65 CATTTGAACGAGTT
* *
52385338 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCAA
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCAA
52385401 AGGCATTTGAACGAG-T
62 AGGCATTTGAACGAGTT
52385417 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
52385433 ATTTCGAAGG
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.04
79 52 0.65
80 25 0.31
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCAAAGGC
ATTTGAACGAGTT
Found at i:52391913 original size:40 final size:40
Alignment explanation
Indices: 52391855--52392047 Score: 148
Period size: 40 Copynumber: 4.8 Consensus size: 40
52391845 AGATATAGCG
* * * *
52391855 ACTCGCTCGATTGTCTTCGGGACATT-GCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCGGTT-TAGTA
52391895 A-TCCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAGTA
1 ACT-CGCACAATTGCCTTCGGGACATTAGCCCGG-TTTAGTA
* *
52391935 ACTCGCACGAA-TGCCTTCGGGAC-TTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATTAGCCCGG-TTTAGTA
* * * * *
52391975 ACTCGCACAAATGCCTTCGGGAC-TTAACCTGATTTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATTAGCCCG-GTTTAGTA
* **
52392015 ACTTAGCACAAAAGCCTTCGGGAC-TTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATTAGCCCGG
52392048 ACACCATTCG
Statistics
Matches: 128, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
39 6 0.05
40 92 0.72
41 30 0.23
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGCACAATTGCCTTCGGGACATTAGCCCGGTTTAGTA
Found at i:52391967 original size:80 final size:80
Alignment explanation
Indices: 52391855--52392047 Score: 194
Period size: 80 Copynumber: 2.4 Consensus size: 80
52391845 AGATATAGCG
* * * * *
52391855 ACTCGCTCGATTGTCTTCGGGACATT-GCCCGGTTATAGTGA-TCCGCACAATTGCCTTCGGGAA
1 ACTCGCACGAATGCCTTCGGGAC-TTAGCCCGGTTATAGTAACT-CGCACAAATGCCTTCGGGAA
*
52391918 TTAGCCCGGA-TTTAGTA
64 TTA-ACCGGATTTTAGTA
* * * *
52391935 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
52392000 AACCTGATTTTAGTC
66 AACCGGATTTTAGTA
* * *
52392015 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
52392048 ACACCATTCG
Statistics
Matches: 93, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 6 0.06
80 60 0.65
81 27 0.29
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
AACCGGATTTTAGTA
Found at i:52392771 original size:10 final size:10
Alignment explanation
Indices: 52392756--52392785 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
52392746 TCATGTGCAA
52392756 ACATATATAT
1 ACATATATAT
52392766 ACATATATAT
1 ACATATATAT
*
52392776 ATATATATAT
1 ACATATATAT
52392786 GCTAGAGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
ACATATATAT
Found at i:52396778 original size:79 final size:81
Alignment explanation
Indices: 52396642--52396826 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 81
52396632 TCGAATGATG
* *
52396642 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
*
52396706 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * ** *
52396721 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGCCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCAT
52396784 TTATGCGAGTTACTATA
65 TTATGCGAGTTACTATA
* *
52396801 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52396827 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 59 0.64
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGACCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:52396833 original size:40 final size:39
Alignment explanation
Indices: 52396643--52396826 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
52396633 CGAATGATGT
* * *
52396643 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
52396683 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
52396723 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
52396761 TCCGGGTTAAGCCCCGAAGGCATTTATGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
52396802 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52396827 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52396848 original size:79 final size:79
Alignment explanation
Indices: 52396643--52396849 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 79
52396633 CGAATGATGT
* * *
52396643 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGACCCGAAGGCATT
* *
52396706 TGTGCGAGTTACTAATT
63 TATGCGAGTTACTAATA
* *
52396723 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGCCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGACCCGAAGGCATTT
52396786 ATGCGAGTTACT-ATAA
64 ATGCGAGTTACTAAT-A
* **
52396802 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
52396850 ATTCCGAAGG
Statistics
Matches: 109, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
78 2 0.02
79 62 0.57
80 45 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGACCCGAAGGCATTTAT
GCGAGTTACTAATA
Found at i:52413835 original size:7 final size:7
Alignment explanation
Indices: 52413825--52413851 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
52413815 AATGATGAAT
52413825 GATGAGG
1 GATGAGG
52413832 GATGAGG
1 GATGAGG
52413839 GATGAGG
1 GATGAGG
52413846 GATGAG
1 GATGAG
52413852 TAGAAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GATGAGG
Found at i:52415807 original size:27 final size:27
Alignment explanation
Indices: 52415759--52415914 Score: 151
Period size: 27 Copynumber: 5.8 Consensus size: 27
52415749 GCGAGGCTGC
* *
52415759 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
52415786 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
52415812 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
52415839 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
52415866 CAGATATATGTGGCAGAGCTACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
52415893 CAGATAATTGTAGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
52415915 TAGGACGCTT
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
26 9 0.08
27 93 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:52415920 original size:54 final size:54
Alignment explanation
Indices: 52415777--52415920 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
52415767 GTGACGAAGT
* * *
52415777 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
52415831 CACTAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* * *
52415885 TACCAGATCAGATAATTGTAGCATAGCCACTAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
52415921 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 4 0.05
54 77 0.95
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:52419024 original size:40 final size:40
Alignment explanation
Indices: 52418918--52419101 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
52418908 TGCTGGAAAT
* * * * * **
52418918 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
52418958 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
52418998 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
52419036 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
52419077 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
52419102 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:52427053 original size:39 final size:40
Alignment explanation
Indices: 52426999--52427103 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
52426989 TGCTGGAAAT
* * * **
52426999 TATAACCGGGTTAAGACCCGAAGGCAAT-GTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
* *
52427038 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
*
52427078 TCTATCCGGGCTAAGACCCGAAGGCA
1 TATATCCGGGCTAAGACCCGAAGGCA
52427104 TTTGTGCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 25 0.44
40 32 0.56
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.20
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
Found at i:52427094 original size:40 final size:39
Alignment explanation
Indices: 52426999--52427204 Score: 141
Period size: 39 Copynumber: 5.2 Consensus size: 39
52426989 TGCTGGAAAT
* * * * **
52426999 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
52427038 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
52427078 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * * *
52427116 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * * **
52427157 CATA-CCGGGCTATGTCCCGAAGGCGATTGAACGAGT-AGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCA-C
52427196 TATATCCGG
1 TATATCCGG
52427205 TTAACTCCGA
Statistics
Matches: 130, Mismatches: 28, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
38 4 0.03
39 78 0.60
40 46 0.35
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:52427122 original size:79 final size:79
Alignment explanation
Indices: 52427004--52427150 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
52426994 GAAATTATAA
* * *
52427004 CCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCGT
52427069 GCGAGTCATTCTAT
66 GCGAGTCATTCTAT
* * * * * *
52427083 CCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCA-ATGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
52427146 GTGCG
64 GTGCG
52427151 GGTTACCATA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.02
79 51 0.89
80 5 0.09
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTCATTCTAT
Found at i:52432791 original size:29 final size:29
Alignment explanation
Indices: 52432758--52432831 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
52432748 GTGACGAGAT
52432758 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52432787 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52432816 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52432832 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:52432847 original size:29 final size:29
Alignment explanation
Indices: 52432815--52432890 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52432805 CTGGAAATAT
* *
52432815 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
52432844 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
52432873 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
52432891 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:52432858 original size:58 final size:58
Alignment explanation
Indices: 52432758--52432890 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
52432748 GTGACGAGAT
* * * * * *
52432758 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
52432816 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
52432874 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
52432891 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:52440670 original size:29 final size:29
Alignment explanation
Indices: 52440637--52440710 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
52440627 GTGACGAGAT
52440637 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52440666 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52440695 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52440711 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:52440726 original size:29 final size:29
Alignment explanation
Indices: 52440694--52440769 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52440684 CTGGAAATAT
* *
52440694 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
52440723 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
52440752 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
52440770 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:52440737 original size:58 final size:58
Alignment explanation
Indices: 52440637--52440769 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
52440627 GTGACGAGAT
* * * * * *
52440637 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
52440695 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
52440753 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
52440770 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:52448552 original size:29 final size:29
Alignment explanation
Indices: 52448519--52448592 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
52448509 GTGACGAGAT
52448519 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52448548 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52448577 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52448593 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:52448608 original size:29 final size:29
Alignment explanation
Indices: 52448576--52448651 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52448566 CTGGAAATAT
* *
52448576 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
52448605 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
52448634 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
52448652 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:52448619 original size:58 final size:58
Alignment explanation
Indices: 52448519--52448651 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
52448509 GTGACGAGAT
* * * * * *
52448519 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
52448577 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
52448635 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
52448652 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:52450717 original size:14 final size:14
Alignment explanation
Indices: 52450698--52450725 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52450688 CTCGAACTCC
52450698 ATTGACCGTACTTA
1 ATTGACCGTACTTA
52450712 ATTGACCGTACTTA
1 ATTGACCGTACTTA
52450726 CCCCGGCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
ATTGACCGTACTTA
Done.