Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 156 of 433
Found at i:48672656 original size:40 final size:40
Alignment explanation
Indices: 48672590--48672756 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
48672580 AAATTGAATG
* * *
48672590 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
48672629 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
48672669 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
48672709 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
48672749 ATATCCGG
1 ATATCCGG
48672757 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:48680696 original size:40 final size:40
Alignment explanation
Indices: 48680594--48680734 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
48680584 AAATTGAATG
* * * * *
48680594 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* ***
48680634 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
48680674 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
*
48680714 CTATCCGGGCTAAGACCCGAA
1 ATATCCGGGCTAAGACCCGAA
48680735 TGTAATATCC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:48682078 original size:46 final size:46
Alignment explanation
Indices: 48682025--48682200 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
48682015 TATTTGGGCA
48682025 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
48682071 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
48682118 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
48682164 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48682201 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:48682180 original size:93 final size:93
Alignment explanation
Indices: 48682021--48682192 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48682011 GGGATATTTG
* *
48682021 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48682086 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
48682114 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48682179 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48682193 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:48686406 original size:40 final size:38
Alignment explanation
Indices: 48686357--48686500 Score: 137
Period size: 40 Copynumber: 3.7 Consensus size: 38
48686347 TGCTGGAAAT
* * *
48686357 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTCG
*
48686396 CTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTC-G
* * *
48686437 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCG
* * *
48686475 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
48686501 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 26 0.30
40 58 0.67
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCG
Found at i:48686527 original size:79 final size:81
Alignment explanation
Indices: 48686358--48686545 Score: 195
Period size: 79 Copynumber: 2.4 Consensus size: 81
48686348 GCTGGAAATT
* * *
48686358 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCA
*
48686423 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * *
48686439 -TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGC
* * * *
48686501 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
48686517 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
48686546 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
78 2 0.02
79 57 0.66
80 28 0.32
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:48694444 original size:124 final size:121
Alignment explanation
Indices: 48694226--48694446 Score: 291
Period size: 124 Copynumber: 1.8 Consensus size: 121
48694216 AATTATGTGG
* * * *
48694226 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
* * * **
48694291 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGAA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
* *
48694347 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAAT-ATACCCGG
*
48694411 GCTAAGCCCCGAAGACAATTATGCTGGAAATTATAA
62 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATAA
48694447 CCGGGTTAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
121 15 0.18
123 29 0.35
124 40 0.48
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (121 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATATACCCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGAA
Found at i:48694491 original size:40 final size:38
Alignment explanation
Indices: 48694442--48694585 Score: 137
Period size: 40 Copynumber: 3.7 Consensus size: 38
48694432 TGCTGGAAAT
* * *
48694442 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AGTCG
*
48694481 CTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTC-G
* * *
48694522 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAATCG
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCG
* * *
48694560 TGATATCCGGGTTAAGTCCCGTAGGC
1 T-ATATCCGGGCTAAGACCCGAAGGC
48694586 CTTGGTGCGG
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 26 0.30
40 58 0.67
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTCG
Found at i:48697918 original size:19 final size:18
Alignment explanation
Indices: 48697896--48697940 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
48697886 CATACACATC
48697896 ATATCATAACATATCATAT
1 ATATCATAACATAT-ATAT
*
48697915 ATATCAT-ATATATATAT
1 ATATCATAACATATATAT
*
48697932 ATATAATAA
1 ATATCATAA
48697941 AATAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATCATAACATATATAT
Found at i:48705069 original size:26 final size:26
Alignment explanation
Indices: 48705033--48705167 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
48705023 CATGAAATTC
48705033 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48705059 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48705085 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
48705111 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
48705137 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
48705162 TTATCA
1 TTATCA
48705168 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 22 0.21
26 85 0.79
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:48710894 original size:26 final size:26
Alignment explanation
Indices: 48710856--48710965 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
48710846 CATGAAATTC
* *
48710856 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
48710882 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
48710908 TTATAATGGAACATTTACCTAACTTA
1 TTATCATGGAACATTTACCTAACCTA
48710934 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
48710960 TTATCA
1 TTATCA
48710966 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:48714316 original size:27 final size:27
Alignment explanation
Indices: 48714256--48714318 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
48714246 CTGACTTTTG
* * *
48714256 TTGGGTGTTGTTTTGCTTTTGTTTGGT
1 TTGGGTTTTGTTCTACTTTTGTTTGGT
48714283 TTGGGTTTTGTTCTACTTTTG-TTGTGT
1 TTGGGTTTTGTTCTACTTTTGTTTG-GT
48714310 TTGGGTTTT
1 TTGGGTTTT
48714319 ATTTGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.02, C:0.05, G:0.30, T:0.63
Consensus pattern (27 bp):
TTGGGTTTTGTTCTACTTTTGTTTGGT
Found at i:48714621 original size:2 final size:2
Alignment explanation
Indices: 48714578--48714607 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
48714568 CTAGTATCAC
*
48714578 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48714608 TAAATCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48718650 original size:49 final size:49
Alignment explanation
Indices: 48718564--48718808 Score: 247
Period size: 49 Copynumber: 4.9 Consensus size: 49
48718554 TAGACAAGGC
* * * * *
48718564 TATCTGGTACGCAGAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * * *
48718613 TATCCTGTACACGTAGTAGTCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * * * * *
48718663 CATCTGATACACATAATAGCCTGCACTTAGTACTACACACGTAATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * ** *
48718714 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
48718763 TATCCGGTACACGTAGTAACCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
48718809 TCACAATAGA
Statistics
Matches: 158, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 78 0.49
50 42 0.27
51 38 0.24
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:48725457 original size:58 final size:58
Alignment explanation
Indices: 48725348--48725517 Score: 209
Period size: 60 Copynumber: 2.9 Consensus size: 58
48725338 TTAATATAAC
* * *
48725348 ATTTGGTACCTGAATTTGACATTTTTTCTAATTTGGTACCTAAACTATTTTT-GGTCCA
1 ATTTGGTACCTAAACTTGACATTTTTTCTAATTTGGTACTTAAACT-TTTTTGGGTCCA
* * * *
48725406 ATTTAGTACCTAAACTTGACACTTTTTCTTAAGTTGGTACTTAAACTTTTTTGGGGTCTA
1 ATTTGGTACCTAAACTTGACATTTTTTC-TAATTTGGTACTTAAACTTTTTT-GGGTCCA
*
48725466 ATTTGGTACCTAAACTTGACTATTTTTTCTAATTTGGTA-TCTAATCTTTTTT
1 ATTTGGTACCTAAACTTGAC-ATTTTTTCTAATTTGGTACT-TAAACTTTTTT
48725518 TTTTTTGATT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
58 29 0.30
59 17 0.18
60 43 0.45
61 7 0.07
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (58 bp):
ATTTGGTACCTAAACTTGACATTTTTTCTAATTTGGTACTTAAACTTTTTTGGGTCCA
Found at i:48727651 original size:18 final size:18
Alignment explanation
Indices: 48727628--48727666 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
48727618 ACGTTATATG
48727628 AAGCTTGAGAAAGATTTA
1 AAGCTTGAGAAAGATTTA
48727646 AAGCTTGAGAAAGATTTA
1 AAGCTTGAGAAAGATTTA
48727664 AAG
1 AAG
48727667 AACTACTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (18 bp):
AAGCTTGAGAAAGATTTA
Found at i:48733783 original size:42 final size:42
Alignment explanation
Indices: 48733736--48733816 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
48733726 CATGTAAGAC
* *
48733736 CATATCTGGGATATGGCACTGGTATGAGACTTTGTATAAAAT
1 CATATCTGGGATATGGCACCGATATGAGACTTTGTATAAAAT
*
48733778 CATATCTGGGATATGGCACCGATATGAGATTTTGTATAA
1 CATATCTGGGATATGGCACCGATATGAGACTTTGTATAA
48733817 GACCATAGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.33
Consensus pattern (42 bp):
CATATCTGGGATATGGCACCGATATGAGACTTTGTATAAAAT
Found at i:48737836 original size:40 final size:41
Alignment explanation
Indices: 48737775--48737996 Score: 348
Period size: 40 Copynumber: 5.6 Consensus size: 41
48737765 AACCCAAGTA
* * *
48737775 CCTTCGGGATTTCG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
48737814 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
48737854 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
48737894 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
48737934 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
48737974 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48737997 CATTCGAATA
Statistics
Matches: 169, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 13 0.08
40 152 0.90
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:48752187 original size:17 final size:17
Alignment explanation
Indices: 48752167--48752207 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
48752157 TTTGAATTTC
48752167 ATAGCTATTTGATACTT
1 ATAGCTATTTGATACTT
48752184 ATAGCTATTTGATACTT
1 ATAGCTATTTGATACTT
48752201 ATAGCTA
1 ATAGCTA
48752208 CTAGAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
ATAGCTATTTGATACTT
Found at i:48755729 original size:79 final size:79
Alignment explanation
Indices: 48755618--48755842 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
48755608 GCTACTCGTT
* * * *
48755618 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
48755683 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
48755698 CCAATGCCTTCGGGCTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
48755761 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * *
48755777 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
48755841 GA
64 GA
48755843 CATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.02
79 68 0.54
80 45 0.35
81 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:48755802 original size:119 final size:120
Alignment explanation
Indices: 48755618--48755841 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
48755608 GCTACTCGTT
*
48755618 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
48755683 ATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
66 ATATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
* * **
48755737 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
*
48755799 CGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
48755842 ACATCATTCG
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
118 6 0.07
119 69 0.76
120 16 0.18
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCA
Found at i:48755842 original size:40 final size:40
Alignment explanation
Indices: 48755599--48755842 Score: 284
Period size: 40 Copynumber: 6.1 Consensus size: 40
48755589 CGGAATTTAA
** *
48755599 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48755639 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48755679 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48755718 CCGGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
48755758 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
48755798 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48755838 CCGGA
1 CCGGA
48755843 CATCATTCGA
Statistics
Matches: 182, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.19
40 135 0.74
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48765722 original size:30 final size:31
Alignment explanation
Indices: 48765686--48765753 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
48765676 ACAGCCAGGG
* *
48765686 ACACGGGCT-TGAACCTAGGCTATGTGAGTC
1 ACACGGGCTGTGAACCCAGGCCATGTGAGTC
*
48765716 ACACGGG-TGTGTACCCAGGCCATGTGAGTC
1 ACACGGGCTGTGAACCCAGGCCATGTGAGTC
48765746 ACACGGGC
1 ACACGGGC
48765754 AAGTACACGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.22, C:0.26, G:0.32, T:0.19
Consensus pattern (31 bp):
ACACGGGCTGTGAACCCAGGCCATGTGAGTC
Found at i:48768874 original size:19 final size:19
Alignment explanation
Indices: 48768842--48768887 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48768832 ACAACATATA
* * *
48768842 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
48768861 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
48768880 ATATATAT
1 ATA-ATAT
48768888 ATACTTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:48777332 original size:62 final size:62
Alignment explanation
Indices: 48777221--48777340 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 62
48777211 ATGGAAGTGT
* *
48777221 GCCCAGGCCGTGTAACTCACTATTTGTGAGATAAGACCACACAGCCAGGGACACGAGCGTGC
1 GCCCAGGCCGTGTAACCCACTATTTGTGAGATAAAACCACACAGCCAGGGACACGAGCGTGC
* * *
48777283 GCCCAGGCCGTGTAACCCACTGTTTGTG-GTATAAAAACCATAC-GGCAGGGACACGAGC
1 GCCCAGGCCGTGTAACCCACTATTTGTGAG-AT-AAAACCACACAGCCAGGGACACGAGC
48777341 ATGTACCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 1 0.02
62 42 0.82
63 8 0.16
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (62 bp):
GCCCAGGCCGTGTAACCCACTATTTGTGAGATAAAACCACACAGCCAGGGACACGAGCGTGC
Found at i:48788559 original size:64 final size:64
Alignment explanation
Indices: 48788476--48788599 Score: 196
Period size: 64 Copynumber: 1.9 Consensus size: 64
48788466 CATTCATAAT
*
48788476 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTTTTTGACATAAGTATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGTATC
* * *
48788540 ACATGTAGTTAGGCA-CATTTGATTCATTTCGATCATAGGATCCTAATTATTTGGCATAAG
1 ACATCTAGTTAGG-AGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAG
48788600 CATAGATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 54 0.98
65 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGTATC
Found at i:48789203 original size:176 final size:175
Alignment explanation
Indices: 48788715--48789307 Score: 814
Period size: 177 Copynumber: 3.4 Consensus size: 175
48788705 AGATTACAAG
* *
48788715 CCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACTAGTCTTATCTTCCTGAAGTTGCAG
1 CCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
* *
48788780 GAAACAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATTGAAAATGGCG
66 GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGA-TCAAAATGGCG
* *
48788845 AGTCTTATCTCCATGTATCCGCTATGGATCAGATTTTAGCCACTAA
130 AGTCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAA
* *
48788891 CCTTATCTCTCTGAAG-TAGCAAGAGAGTAGGTTGAAGATACAAGTCTTATCTTCTTGAAGTTGC
1 CCTTATCTCTCTGAAGTTA-C-AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC
* * *
48788955 AGGAAGCAGACTAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGCAGATCAAAAATGG
64 AGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATC-AAAATGG
* * *
48789020 TGAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTCAGCCACCAA
128 CGAGTCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAA
* *
48789068 CCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGTAG
1 CCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
* * *
48789133 GAAGCAGACTGAAAATAACAGATCTTATTTCCATGTATCGGCTATGGAGTAGGTCAAAGATGGCG
66 GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCAAA-ATGGCG
* * *
48789198 AGTCTTACCTCCATGTA-CCGACTATGGAGCAGATTTTAGCCATCAG
130 AGTCTTATCTCCATGTATCCG-CTATGGAGCAGATTTTAGCCACCAA
* * ** * * ** *
48789244 CTTTGTCTCTCTGAAGTTGTAGTGAAGTAGGTTGAAG-TCACAAACCTGATCTTCCTGAAGTTGC
1 CCTTATCTCTCTGAAGTTACAGAG-AGCAGGTTGAAGAT-ACAAGTCTTATCTTCCTGAAGTTGC
48789308 TGAAAGACTA
Statistics
Matches: 368, Mismatches: 41, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
175 6 0.02
176 171 0.46
177 189 0.51
178 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (175 bp):
CCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAG
GAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCAAAATGGCGA
GTCTTATCTCCATGTATCCGCTATGGAGCAGATTTTAGCCACCAA
Found at i:48793960 original size:62 final size:62
Alignment explanation
Indices: 48793872--48793991 Score: 156
Period size: 62 Copynumber: 1.9 Consensus size: 62
48793862 ATGGAAGTGT
*
48793872 GCCCAGGCCGTGTAACTCACTATTTGTGAG-AT-AAGACCACACAGCCAGGGACACGAGCGTGC
1 GCCCAGGCCGTGTAACTCACTATTTGTG-GTATAAAAACCACAC-GCCAGGGACACGAGCGTGC
* * *
48793934 GCCCAGGCCGTGTAAC-CTACTGTTTGTGGTATAAAAACCATACGGCAGGGACACGAGC
1 GCCCAGGCCGTGTAACTC-ACTATTTGTGGTATAAAAACCACACGCCAGGGACACGAGC
48793992 ATGTACCCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
61 2 0.04
62 41 0.80
63 8 0.16
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (62 bp):
GCCCAGGCCGTGTAACTCACTATTTGTGGTATAAAAACCACACGCCAGGGACACGAGCGTGC
Found at i:48801161 original size:17 final size:17
Alignment explanation
Indices: 48801119--48801161 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
48801109 TAGAAGTACT
*
48801119 AGCTTTGTCTTATTGCG
1 AGCTTTGTTTTATTGCG
48801136 AGCTTTGTTTTATTGCG
1 AGCTTTGTTTTATTGCG
48801153 AGCTTTGTT
1 AGCTTTGTT
48801162 ATATGACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.12, C:0.14, G:0.23, T:0.51
Consensus pattern (17 bp):
AGCTTTGTTTTATTGCG
Found at i:48807258 original size:40 final size:41
Alignment explanation
Indices: 48807181--48807276 Score: 185
Period size: 40 Copynumber: 2.4 Consensus size: 41
48807171 GATACTTGAA
48807181 AACTTGTGTGAGCAGCACCGCATAGCTATGTCTTGACTGAC
1 AACTTGTGTGAGCAGCACCGCATAGCTATGTCTTGACTGAC
48807222 AACTTGTGTGAGCAGCACCGC-TAGCTATGTCTTGACTGAC
1 AACTTGTGTGAGCAGCACCGCATAGCTATGTCTTGACTGAC
48807262 AACTTGTGTGAGCAG
1 AACTTGTGTGAGCAG
48807277 ACCTATTGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 34 0.62
41 21 0.38
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (41 bp):
AACTTGTGTGAGCAGCACCGCATAGCTATGTCTTGACTGAC
Found at i:48808342 original size:15 final size:13
Alignment explanation
Indices: 48808309--48808341 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
48808299 GACACACGGG
48808309 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
48808322 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
48808335 CGTGTGT
1 CGTGTGT
48808342 GACACACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.39, T:0.33
Consensus pattern (13 bp):
CGTGTGTCTAGGC
Found at i:48812325 original size:4 final size:4
Alignment explanation
Indices: 48812316--48812355 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
48812306 AAGCCTAAAT
48812316 TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA
1 TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA TCAA
48812356 CCACAAACTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TCAA
Found at i:48814193 original size:6 final size:6
Alignment explanation
Indices: 48814176--48814204 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
48814166 TAAATAATGG
48814176 ATGCAT -TGCAT ATGCAT ATGCAT ATGCAT
1 ATGCAT ATGCAT ATGCAT ATGCAT ATGCAT
48814205 GGGAGGGGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (6 bp):
ATGCAT
Found at i:48821158 original size:10 final size:10
Alignment explanation
Indices: 48821143--48821185 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
48821133 CAATTCACCA
48821143 ACCAAATCAT
1 ACCAAATCAT
*
48821153 ACCAAATCTAA
1 ACCAAATC-AT
48821164 ACCAAAATCAT
1 ACC-AAATCAT
*
48821175 ACCAAAGCAT
1 ACCAAATCAT
48821185 A
1 A
48821186 TATTTCAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:48823060 original size:28 final size:29
Alignment explanation
Indices: 48822968--48823066 Score: 161
Period size: 28 Copynumber: 3.5 Consensus size: 29
48822958 ATACAGTAAG
48822968 TCGCACACTTAGTGCT-TA-ATATTCAAAC
1 TCGCACACTTAGTGCTATACA-ATTCAAAC
48822996 -CGCACACTTAGTGCTATACAATTCAAAC
1 TCGCACACTTAGTGCTATACAATTCAAAC
48823024 TCGCACACTTAGTGCTATACAATT-AAAC
1 TCGCACACTTAGTGCTATACAATTCAAAC
48823052 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
48823067 CAATCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
27 15 0.22
28 29 0.43
29 24 0.35
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
TCGCACACTTAGTGCTATACAATTCAAAC
Found at i:48830784 original size:28 final size:29
Alignment explanation
Indices: 48830693--48830790 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
48830683 ACAGTAAGTC
48830693 CGCACACTTAGTGCT-TA-ATATTCAAAC-
1 CGCACACTTAGTGCTATACA-ATTCAAACT
48830720 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
48830749 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
48830777 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48830791 CAATCTCATT
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.22
28 29 0.43
29 24 0.35
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:48832675 original size:43 final size:45
Alignment explanation
Indices: 48832576--48832676 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 45
48832566 CTAAACGTGG
* * *
48832576 TCTTACATGT-AATCAAATATCGATGCCACTGTCCTAGATAGGGT
1 TCTTACACGTAAATCAAATATCGATGCCACTGTCCCAGACAGGGT
*
48832620 T-TTACACG-AAATCAAATA-CGATGCCAAC-GTCCCAGACA-TGT
1 TCTTACACGTAAATCAAATATCGATGCC-ACTGTCCCAGACAGGGT
48832661 TCTTACACGTAAATCA
1 TCTTACACGTAAATCA
48832677 TAAGTTGATG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
41 3 0.06
42 22 0.45
43 23 0.47
44 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (45 bp):
TCTTACACGTAAATCAAATATCGATGCCACTGTCCCAGACAGGGT
Found at i:48836135 original size:93 final size:93
Alignment explanation
Indices: 48836007--48836175 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
48835997 GCCCATAAGT
* * *
48836007 GAACTCGGACTCAACTCGACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
48836072 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
48836100 GAACTCGAACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
48836164 ACGAGTTCGGAT
65 ACGAGCTCGGAT
48836176 ACTCAACCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48836169 original size:46 final size:46
Alignment explanation
Indices: 48835999--48836174 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
48835989 TGTAACCCGC
* * *
48835999 CCATAAGTGAACTCGGACTCAACTCGACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA-CATTCGCAT
*
48836045 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
48836091 ACATCTCTCGAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCAT
*
48836138 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
48836175 TACTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:48836193 original size:46 final size:45
Alignment explanation
Indices: 48836050--48836193 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
48836040 CGCATCCATA
* *
48836050 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATACTC-A---ACATC-CT
* * * *
48836099 --CGAACTC-GAACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 AGTGAACTCAG-ACTCAACTCAACGAGTTCGGATACTCAACATCC-T
48836142 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATACTCAACCATCCT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATACTCAA-CATCCT
48836189 AGTGA
1 AGTGA
48836194 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
46 36 0.47
47 28 0.37
48 6 0.08
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (45 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATACTCAACATCCT
Found at i:48842762 original size:23 final size:24
Alignment explanation
Indices: 48842736--48842780 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
48842726 ATATCCCCAC
*
48842736 ATGGAGTATAG-GGTTGGATGGAG
1 ATGGAGTATAGAGGCTGGATGGAG
*
48842759 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTATAGAGGCTGGATGG
48842781 GTAGGACTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.24, C:0.02, G:0.49, T:0.24
Consensus pattern (24 bp):
ATGGAGTATAGAGGCTGGATGGAG
Found at i:48846340 original size:42 final size:42
Alignment explanation
Indices: 48846254--48846345 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
48846244 GATTTATGTT
* * * *
48846254 TAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCGTG
1 TAAGACCATGTCTAGGACAGTGGCATCATATTTGATTACATG
* *
48846296 TAAGACCCTGTCTGGGACAGTGGCATCAATATTTGA-TACATG
1 TAAGACCATGTCTAGGACAGTGGCATC-ATATTTGATTACATG
48846338 TAAGACCA
1 TAAGACCA
48846346 CATCTGGGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 35 0.83
43 7 0.17
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGACCATGTCTAGGACAGTGGCATCATATTTGATTACATG
Found at i:48846352 original size:42 final size:42
Alignment explanation
Indices: 48846205--48846363 Score: 110
Period size: 42 Copynumber: 3.7 Consensus size: 42
48846195 ATGTATTTTG
* * * * *
48846205 CATGTAAGACCACGTCCGAGACATTGGCACTAATATTGAGATT-
1 CATGTAAGACCACGTCTGGGACAGTGGCA-TCATATT-TGATTA
* * * * * *
48846248 TATGTTTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTT
1 CATG--TAAGACCACGTCTGGGACAGTGGCATCATATTTGATTA
*
48846292 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGA-TA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATTTGATTA
*
48846334 CATGTAAGACCACATCTGGGAC-GTTGGCAT
1 CATGTAAGACCACGTCTGGGACAG-TGGCAT
48846364 TGTACAAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
41 1 0.01
42 48 0.52
43 15 0.16
44 7 0.08
45 21 0.23
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATCATATTTGATTA
Found at i:48848945 original size:5 final size:5
Alignment explanation
Indices: 48848937--48848997 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
48848927 TAAGTCTAAG
*
48848937 AAAAT AAAAAT AAACAT AAAA- ATAAAT AAAAGT AAAAAT AAAAT AGAAT
1 AAAAT -AAAAT AAA-AT AAAAT A-AAAT AAAA-T -AAAAT AAAAT AAAAT
48848986 AAAAT -AAAT AAA
1 AAAAT AAAAT AAA
48848998 CTCAAAGGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
4 5 0.11
5 25 0.53
6 13 0.28
7 4 0.09
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:48848946 original size:6 final size:6
Alignment explanation
Indices: 48848937--48848979 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
48848927 TAAGTCTAAG
* *
48848937 AAAATA AAAATA AACATA AAAAT- -AAATA AAAGTA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
48848980 TAGAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
6 27 0.87
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:48848965 original size:16 final size:15
Alignment explanation
Indices: 48848944--48848997 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
48848934 AAGAAAATAA
48848944 AAATAAACATAAAAAT
1 AAATAAA-ATAAAAAT
48848960 AAATAAAAGTAAAAAT
1 AAATAAAA-TAAAAAT
*
48848976 AAAATAGAAT-AAAAT
1 -AAATAAAATAAAAAT
48848991 AAATAAA
1 AAATAAA
48848998 CTCAAAGGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 6 0.18
15 6 0.18
16 15 0.44
17 7 0.21
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:48848965 original size:22 final size:21
Alignment explanation
Indices: 48848938--48848993 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
48848928 AAGTCTAAGA
*
48848938 AAATAAAAATAAACATAAAAAT
1 AAATAAAAATAAAAAT-AAAAT
*
48848960 AAATAAAAGTAAAAATAAAAT
1 AAATAAAAATAAAAATAAAAT
48848981 AGAAT-AAAATAAA
1 A-AATAAAAATAAA
48848994 TAAACTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAAT
Found at i:48854181 original size:12 final size:12
Alignment explanation
Indices: 48854164--48854189 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48854154 GACTGTGCGA
48854164 CATGGCCGTGTG
1 CATGGCCGTGTG
48854176 CATGGCCGTGTG
1 CATGGCCGTGTG
48854188 CA
1 CA
48854190 CCCACATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.27, G:0.38, T:0.23
Consensus pattern (12 bp):
CATGGCCGTGTG
Found at i:48858269 original size:40 final size:40
Alignment explanation
Indices: 48858195--48858340 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
48858185 CCGCACCAAG
* * * * * *
48858195 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
48858235 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
48858275 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
48858315 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
48858341 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:48858355 original size:40 final size:40
Alignment explanation
Indices: 48858227--48858378 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
48858217 ATCACGATTT
* * * * *
48858227 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
48858267 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
48858307 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
48858347 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
48858379 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:48866258 original size:14 final size:15
Alignment explanation
Indices: 48866219--48866262 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
48866209 TAGTAAAACT
48866219 AATAAAGATAA-AATAA
1 AATAAA-ATAATAAT-A
48866235 AATAAAATAATAATA
1 AATAAAATAATAATA
48866250 AAT-AAATAATAAT
1 AATAAAATAATAAT
48866263 GAGAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.37
15 8 0.30
16 9 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
AATAAAATAATAATA
Found at i:48870239 original size:7 final size:6
Alignment explanation
Indices: 48870212--48870262 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
48870202 GAAGAATTAG
* * * *
48870212 AAAACA AAAATT AAATTA AAAATA AAAAT- AAAAT- ACAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
48870258 AAAAT
1 AAAAT
48870263 GGTTAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:48871049 original size:20 final size:20
Alignment explanation
Indices: 48871024--48871063 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48871014 TAAACCGTGT
*
48871024 GTCACACACGGCCTAGACAC
1 GTCACACACGGCCTAAACAC
48871044 GTCACACACGGCCTAAACAC
1 GTCACACACGGCCTAAACAC
48871064 ATGTCCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.40, G:0.17, T:0.10
Consensus pattern (20 bp):
GTCACACACGGCCTAAACAC
Found at i:48872096 original size:48 final size:48
Alignment explanation
Indices: 48872018--48872213 Score: 268
Period size: 48 Copynumber: 4.0 Consensus size: 48
48872008 GAAATCACAT
* *
48872018 TCACATAGTCGGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGA
1 TCACATA-TC-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* * *
48872068 TCACATATCGATGTCAGTGCCATGTCCCAGACATGGTCATACATGGTG-
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GA
* * *
48872116 TCTCATATTGATGCCAATGCCATGTCCCATACATGGTCTTACATGGGA
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
48872164 TCACATATCGATGTCAATGCCATGTCCCAGACACGGTCTTACATGGGA
1 TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
48872212 TC
1 TC
48872214 GTGCATATCT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.01
48 117 0.91
49 3 0.02
50 7 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (48 bp):
TCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
Found at i:48872193 original size:96 final size:96
Alignment explanation
Indices: 48872029--48872209 Score: 308
Period size: 96 Copynumber: 1.9 Consensus size: 96
48872019 CACATAGTCG
* *
48872029 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGTCAGTGCCATGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGTCAATGCCATGTC
*
48872094 CCAGACATGGTCATACATGGTGTCTCATATT
66 CCAGACACGGTCATACATGGTGTCTCATATT
* *
48872125 GATGCCAATGCCATGTCCCATACATGGTCTTACATGGGATCACATATCGATGTCAATGCCATGTC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGTCAATGCCATGTC
*
48872190 CCAGACACGGTCTTACATGG
66 CCAGACACGGTCATACATGG
48872210 GATCGTGCAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (96 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGTCAATGCCATGTC
CCAGACACGGTCATACATGGTGTCTCATATT
Found at i:48875074 original size:24 final size:24
Alignment explanation
Indices: 48875033--48875078 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48875023 GGCTCACTAA
*
48875033 CAGAAAGCTCGTAAGAGCTTAAAT
1 CAGAAAGCTCATAAGAGCTTAAAT
**
48875057 CAGAAAGCTCATGCGAGCTTAA
1 CAGAAAGCTCATAAGAGCTTAA
48875079 TAAGTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (24 bp):
CAGAAAGCTCATAAGAGCTTAAAT
Found at i:48878043 original size:30 final size:31
Alignment explanation
Indices: 48878009--48878069 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
48877999 TGTGTTTGAA
*
48878009 ATAAT-TATTTAAAATATTTTACATATAAAC
1 ATAATATATTTAAAATATTTCACATATAAAC
* *
48878039 ATAATGATATTTGAAATATTTCACCTATAAA
1 ATAAT-ATATTTAAAATATTTCACATATAAA
48878070 AATATTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
32 21 0.81
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
ATAATATATTTAAAATATTTCACATATAAAC
Found at i:48878932 original size:16 final size:18
Alignment explanation
Indices: 48878897--48878934 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48878887 ATCCTTATTT
*
48878897 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
48878915 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
48878931 AAAT
1 AAAT
48878935 CCATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:48883618 original size:23 final size:23
Alignment explanation
Indices: 48883591--48883636 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
48883581 CAATATACCA
*
48883591 CATTTTTATCCAATTTCAATCTC
1 CATTTTTAGCCAATTTCAATCTC
48883614 CATTTTTAGCCAATTTCAATCTC
1 CATTTTTAGCCAATTTCAATCTC
48883637 AAAACATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (23 bp):
CATTTTTAGCCAATTTCAATCTC
Found at i:48884952 original size:43 final size:41
Alignment explanation
Indices: 48884886--48884997 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 41
48884876 TGCCAACATT
* * *
48884886 CCAAACATGTCTTACATGTAATCAAATATCGATGCCATTGTC
1 CCAAACAGGTCTTACATGAAATCAAATA-CGATGCCAATGTC
*
48884928 CCAAACAGGGTCTTACACGAAATCAAATACGATGCCAATGTC
1 CCAAACA-GGTCTTACATGAAATCAAATACGATGCCAATGTC
48884970 CCAAACATGGTCTTACATGTAAATCAAA
1 CCAAACA-GGTCTTACATG-AAATCAAA
48884998 AGTCAATGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
42 36 0.58
43 26 0.42
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (41 bp):
CCAAACAGGTCTTACATGAAATCAAATACGATGCCAATGTC
Found at i:48887096 original size:43 final size:43
Alignment explanation
Indices: 48887035--48887193 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
48887025 GATTTTCGAG
*
48887035 ATGTGATTATGTGTAAGACCATATCTGGGACATTTGCATCATT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTAGCATCATT
* * *
48887078 ATGTGATTATGTGTAAGACCATGTCTAGGACATTAGCATTATT
1 ATGTGATTATGTGTAAGACCATATCTGGGACATTAGCATCATT
* *
48887121 AAT-TAATT-TCGTGTAAGACCATAGT-TGGG-CTATCAGCATCGA-T
1 -ATGTGATTAT-GTGTAAGACCATA-TCTGGGAC-ATTAGCATC-ATT
* **
48887164 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTATGTGTAAGACCATATCTGGGA
48887194 TATGGCATTG
Statistics
Matches: 94, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 5 0.05
43 85 0.90
44 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATATCTGGGACATTAGCATCATT
Found at i:48894488 original size:5 final size:5
Alignment explanation
Indices: 48894478--48894506 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
48894468 TCTGTGTGTT
48894478 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
48894507 CATAGTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:48900230 original size:2 final size:2
Alignment explanation
Indices: 48900223--48900250 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48900213 CGGCTCTTGC
48900223 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48900251 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48901052 original size:40 final size:40
Alignment explanation
Indices: 48900953--48901129 Score: 189
Period size: 40 Copynumber: 4.4 Consensus size: 40
48900943 TTCGAATGAT
* * *
48900953 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
48900994 ATCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
* *
48901035 AT-CGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
48901074 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
48901115 A-CCGGGCTATGTCCC
1 ATCCGGGCTAAGTCCC
48901130 CAAGACAATC
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
39 5 0.04
40 76 0.66
41 34 0.30
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:48901095 original size:80 final size:81
Alignment explanation
Indices: 48900956--48901105 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 81
48900946 GAATGATATC
* * *
48900956 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
48901021 TGCGAGTTACCAAAAT
66 TGCGAGTTACCAAAAT
* * *
48901037 CGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATT
48901100 GTGCGA
65 GTGCGA
48901106 ATCACTATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
79 1 0.02
80 37 0.60
81 24 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
TGCGAGTTACCAAAAT
Found at i:48901129 original size:80 final size:81
Alignment explanation
Indices: 48900955--48901129 Score: 219
Period size: 80 Copynumber: 2.2 Consensus size: 81
48900945 CGAATGATAT
* * *
48900955 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
48901020 GTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAA
* * * *
48901036 TCGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
48901099 TGTGCGAATCACTATAA
65 TGTGCGAATCACCAAAA
*
48901116 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
48901130 CAAGACAATC
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 54 0.68
81 24 0.30
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAA
Found at i:48901146 original size:80 final size:80
Alignment explanation
Indices: 48900989--48901147 Score: 178
Period size: 80 Copynumber: 2.0 Consensus size: 80
48900979 GTGCTAAGTG
* * * * * *
48900989 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAATCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCCAAG
* **
48901054 GCATTTATGCGAGTT
66 ACATCGATGCGAGTT
* * *
48901069 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCCAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCCAA
48901133 GACAATCGA-GCGAGT
65 GAC-ATCGATGCGAGT
48901148 CGCTATATCC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.02
80 61 0.94
81 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCCAAG
ACATCGATGCGAGTT
Found at i:48906047 original size:23 final size:22
Alignment explanation
Indices: 48906015--48906058 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
48906005 ATAGCTATTT
*
48906015 TTTTTTAAAATACCATAAAATTC
1 TTTTTAAAAAT-CCATAAAATTC
*
48906038 TTTTTAAAAATTCATAAAATT
1 TTTTTAAAAATCCATAAAATT
48906059 ATGAGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTTAAAAATCCATAAAATTC
Found at i:48906214 original size:20 final size:21
Alignment explanation
Indices: 48906186--48906226 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48906176 GGGTTTTGTA
* *
48906186 TTGC-TTTTTTATGCTTTTTT
1 TTGCATTTTTAATGATTTTTT
48906206 TTGCATTTTTAATGATTTTTT
1 TTGCATTTTTAATGATTTTTT
48906227 AATTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.12, C:0.07, G:0.10, T:0.71
Consensus pattern (21 bp):
TTGCATTTTTAATGATTTTTT
Found at i:48909486 original size:2 final size:2
Alignment explanation
Indices: 48909479--48909510 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48909469 GCTCTTGCAC
48909479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48909511 GTTTGCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48910281 original size:40 final size:40
Alignment explanation
Indices: 48910224--48910409 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
48910214 TCGAATGATG
* * * *
48910224 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
48910264 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
48910304 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
48910344 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
48910385 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
48910410 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48910416 original size:80 final size:79
Alignment explanation
Indices: 48910277--48910432 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
48910267 GGACTAAGAT
* **
48910277 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
48910341 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
48910357 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
48910420 TATATCCGGTTAA
64 TAAATCCGGTTAA
48910433 ACTCGAAGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:48916683 original size:29 final size:29
Alignment explanation
Indices: 48916643--48916745 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
48916633 GTTGAGAGAT
*
48916643 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
48916672 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
48916701 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
48916730 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48916746 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:48924763 original size:29 final size:29
Alignment explanation
Indices: 48924723--48924825 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
48924713 GTTGAGAGAT
*
48924723 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
48924752 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
48924781 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
48924810 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48924826 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:48927513 original size:29 final size:29
Alignment explanation
Indices: 48927473--48927575 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
48927463 GTTGAGAGAT
*
48927473 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
48927502 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
48927531 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
48927560 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48927576 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:48935586 original size:29 final size:29
Alignment explanation
Indices: 48935549--48935618 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
48935539 GAGAGATTGA
*
48935549 CACTGAGTGTGCGAGCTTGAAATGCATGG
1 CACTAAGTGTGCGAGCTTGAAATGCATGG
48935578 CACTAAGTGTGCGAGCTTGAAATGCATGG
1 CACTAAGTGTGCGAGCTTGAAATGCATGG
48935607 CACTAAGTGTGC
1 CACTAAGTGTGC
48935619 AATTTTAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (29 bp):
CACTAAGTGTGCGAGCTTGAAATGCATGG
Found at i:48939903 original size:40 final size:40
Alignment explanation
Indices: 48939846--48940031 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
48939836 TCGAATGATG
* * *
48939846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
*
48939886 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
48939926 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
** * *
48939966 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
* * *
48940007 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
48940032 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:48940049 original size:80 final size:80
Alignment explanation
Indices: 48939875--48940054 Score: 190
Period size: 80 Copynumber: 2.3 Consensus size: 80
48939865 GCTTTGTGCT
* ** *
48939875 AAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATC
1 AAGTTACTATATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATC
**
48939940 CGAAGGCATTTGTGC
66 CGAAGGCATTTGAAC
* * *
48939955 AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-
1 AAGTTACTATATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGA
*
48940017 TCCCGAAGGTATTTGAAC
64 T-CCGAAGGCATTTGAAC
*
48940035 GAG-TAGCTATATCC-GGTTAA
1 AAGTTA-CTATATCCGGGTTAA
48940055 ACTCAGAAGG
Statistics
Matches: 84, Mismatches: 12, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
79 10 0.12
80 72 0.86
81 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (80 bp):
AAGTTACTATATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATC
CGAAGGCATTTGAAC
Found at i:48943828 original size:46 final size:47
Alignment explanation
Indices: 48943722--48943843 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
48943712 TGTCTTCGAC
** * *
48943722 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
48943772 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
48943818 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
48943844 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:48946143 original size:35 final size:35
Alignment explanation
Indices: 48946097--48946164 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
48946087 TATGAGAAAT
48946097 GTATGTTTAAATGTGTGATAAGTTTGGTAATGCCA
1 GTATGTTTAAATGTGTGATAAGTTTGGTAATGCCA
48946132 GTATGTTTAAATGTGTGATAAGTTTGGTAATGC
1 GTATGTTTAAATGTGTGATAAGTTTGGTAATGC
48946165 TCCATAACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.41
Consensus pattern (35 bp):
GTATGTTTAAATGTGTGATAAGTTTGGTAATGCCA
Found at i:48948185 original size:30 final size:30
Alignment explanation
Indices: 48948151--48948210 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
48948141 TATTTTATTA
48948151 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
48948181 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
48948211 CTTATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:48948699 original size:32 final size:32
Alignment explanation
Indices: 48948663--48948730 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
48948653 TGGAACCATC
48948663 TGCAAATTGTAATGATTAAATGAAAAAATAGT
1 TGCAAATTGTAATGATTAAATGAAAAAATAGT
** * *
48948695 TGCAAATTGTAATGATTGCATGAACAATTAGT
1 TGCAAATTGTAATGATTAAATGAAAAAATAGT
48948727 TGCA
1 TGCA
48948731 TCAATAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (32 bp):
TGCAAATTGTAATGATTAAATGAAAAAATAGT
Found at i:48964215 original size:46 final size:46
Alignment explanation
Indices: 48964155--48964303 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 46
48964145 AGACCACGTT
* * *
48964155 TGGGACATGGCATCGGCATTGAGACG-AGTGCTAGTGTAAGACATGTC
1 TGGGACAT-GCATCGGCATCGAGACGTA-AGCCAGTGTAAGACATGTC
* *
48964202 TGGGATATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTC
1 TGGGACATGCATCGGCATCGAGACGTAAGCCAGTGTAAGACATGTC
* * * * *
48964248 TAGGACATGCGTTGGC-TACGAGATG-ATAGTCAGTGTAAGACCATGTC
1 TGGGACATGCATCGGCAT-CGAGACGTA-AGCCAGTGTAAGA-CATGTC
48964295 TGGGACATG
1 TGGGACATG
48964304 GCTTCTACTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.02
46 62 0.72
47 22 0.26
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (46 bp):
TGGGACATGCATCGGCATCGAGACGTAAGCCAGTGTAAGACATGTC
Found at i:48964318 original size:47 final size:45
Alignment explanation
Indices: 48964232--48964348 Score: 114
Period size: 47 Copynumber: 2.5 Consensus size: 45
48964222 AGACGTAAGC
* **
48964232 CAGTGTAAGA-CATGTCTAGGACATGCGTTGGCTACGAGATGATAGT
1 CAGTGTAAGACCATGTCTGGGACATGCGTT-GCTACGAGAT-ATAAA
48964278 CAGTGTAAGACCATGTCTGGGACATG-GCTT-CTACTTGAGATATAAA
1 CAGTGTAAGACCATGTCTGGGACATGCG-TTGCTAC--GAGATATAAA
* *
48964324 CTAGTGTAAGACCGTGTTTGGGACA
1 C-AGTGTAAGACCATGTCTGGGACA
48964349 CGACATCGGC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
45 4 0.07
46 15 0.25
47 42 0.69
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGCGTTGCTACGAGATATAAA
Found at i:48966416 original size:42 final size:40
Alignment explanation
Indices: 48966335--48966410 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
48966325 ATACGGTACC
* **
48966335 ATTTGGTGTATAGGGTTTGATGGGTTGATTCTATCCACAT
1 ATTTGGTGTATAGGGTTGGATGGGTCAATTCTATCCACAT
* * *
48966375 ATTTGGTGTGTAGGGTTGGGTGGGTCAATTTTATCC
1 ATTTGGTGTATAGGGTTGGATGGGTCAATTCTATCC
48966411 CCACATGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (40 bp):
ATTTGGTGTATAGGGTTGGATGGGTCAATTCTATCCACAT
Found at i:48975011 original size:21 final size:21
Alignment explanation
Indices: 48974987--48975026 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48974977 TTGGAATGTT
48974987 CACACGGCGTGT-TGCCCCTCC
1 CACACGG-GTGTGTGCCCCTCC
48975008 CACACGGGTGTGTGCCCCT
1 CACACGGGTGTGTGCCCCT
48975027 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.42, G:0.28, T:0.20
Consensus pattern (21 bp):
CACACGGGTGTGTGCCCCTCC
Found at i:48983048 original size:24 final size:24
Alignment explanation
Indices: 48982957--48983064 Score: 137
Period size: 25 Copynumber: 4.4 Consensus size: 24
48982947 AGGAAGTGCA
* *
48982957 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
48982981 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
48983007 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
48983032 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
48983055 AAAAGAGGCT
1 AAAAG-GGCT
48983065 AGGCCTCTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.18
25 40 0.53
26 13 0.17
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:48991001 original size:24 final size:24
Alignment explanation
Indices: 48990910--48991017 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
48990900 AGGAAGTGCA
* * *
48990910 AAAAGGGCTATGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
48990934 GAAAAGGGCTTTTGCCCCAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
48990960 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
48990985 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
48991008 AAAAGAGGCT
1 AAAAG-GGCT
48991018 AGGCCTCTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.19
25 40 0.53
26 12 0.16
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:48991264 original size:31 final size:31
Alignment explanation
Indices: 48991226--48991286 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
48991216 CGTTTACAGT
48991226 AAAGGCTTCAGCCCAGTAATATGAAATATGG
1 AAAGGCTTCAGCCCAGTAATATGAAATATGG
* **
48991257 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCAGCCCAGTAATATGAAATATG
48991287 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGG
Found at i:48995788 original size:32 final size:32
Alignment explanation
Indices: 48995745--48995823 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
48995735 TACTCAATTG
* *
48995745 AATTTTTGTACATACATGTACTATATTGTACC
1 AATTTTCGTACATACATGTACCATATTGTACC
48995777 AATTTTCGTACATACATGTACCATATTGTACC
1 AATTTTCGTACATACATGTACCATATTGTACC
* *
48995809 AATTTCCGTAGATAC
1 AATTTTCGTACATAC
48995824 CTATATCATC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (32 bp):
AATTTTCGTACATACATGTACCATATTGTACC
Found at i:48995840 original size:32 final size:32
Alignment explanation
Indices: 48995752--48995843 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 32
48995742 TTGAATTTTT
* * * *
48995752 GTACATACATGTACTATATTGTACCAATTTTC
1 GTACATACATATACCATATCGTACCAATTTCC
* *
48995784 GTACATACATGTACCATATTGTACCAATTTCC
1 GTACATACATATACCATATCGTACCAATTTCC
* * * *
48995816 GTAGATACCTATATCATCTCGTACCAAT
1 GTACATACATATACCATATCGTACCAAT
48995844 CTCATACTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.36
Consensus pattern (32 bp):
GTACATACATATACCATATCGTACCAATTTCC
Found at i:48997685 original size:40 final size:40
Alignment explanation
Indices: 48997589--48997740 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
48997579 CGAATGGTAT
* * * *
48997589 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
48997630 CCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
48997670 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
48997710 CC-GGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
48997741 CGCTATATCC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 24 0.26
40 44 0.47
41 25 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:48999202 original size:56 final size:56
Alignment explanation
Indices: 48999134--48999268 Score: 168
Period size: 56 Copynumber: 2.4 Consensus size: 56
48999124 TGCCATACAT
* *
48999134 GATACCTT-GCACACTAAGTGCC-GTTCTAGATGT-TTCGCACACTAAGTGCCATCCTC
1 GATA-CTTCGCACACTAAGTGCCAG-TCTAGATGTATT-GCACACTAAGTACCATCCCC
* *
48999190 GTTACTTCGCACACTAAGTGCCAGTCTGGATGTATTGCACACTAAGTACCATCCCC
1 GATACTTCGCACACTAAGTGCCAGTCTAGATGTATTGCACACTAAGTACCATCCCC
**
48999246 GATACTTCGCACGTTAAGTGCCA
1 GATACTTCGCACACTAAGTGCCA
48999269 CATATAACTA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
55 3 0.04
56 63 0.91
57 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (56 bp):
GATACTTCGCACACTAAGTGCCAGTCTAGATGTATTGCACACTAAGTACCATCCCC
Found at i:48999257 original size:28 final size:28
Alignment explanation
Indices: 48999134--48999268 Score: 107
Period size: 28 Copynumber: 4.8 Consensus size: 28
48999124 TGCCATACAT
* * *
48999134 GATACCTT-GCACACTAAGTGCCGTTCTA
1 GATA-CTTCGCACACTAAGTGCCATCCTC
**
48999162 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATACTTCGCACACTAAGTGCCATCCTC
* *
48999190 GTTACTTCGCACACTAAGTGCCAGT-CTG
1 GATACTTCGCACACTAAGTGCCA-TCCTC
* *
48999218 GATGTA-TT-GCACACTAAGTACCATCCCC
1 GA--TACTTCGCACACTAAGTGCCATCCTC
**
48999246 GATACTTCGCACGTTAAGTGCCA
1 GATACTTCGCACACTAAGTGCCA
48999269 CATATAACTA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
26 2 0.02
27 5 0.06
28 72 0.86
29 3 0.04
30 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (28 bp):
GATACTTCGCACACTAAGTGCCATCCTC
Found at i:49001085 original size:21 final size:22
Alignment explanation
Indices: 49001044--49001086 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49001034 TGTTGGAATG
* *
49001044 CCCATACGGGTGTGTTGCCCCT
1 CCCACACGGGCGTGTTGCCCCT
49001066 CCCACACGGGCGTG-TGCCCCT
1 CCCACACGGGCGTGTTGCCCCT
49001087 GTGTCAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.09, C:0.42, G:0.28, T:0.21
Consensus pattern (22 bp):
CCCACACGGGCGTGTTGCCCCT
Found at i:49003401 original size:17 final size:18
Alignment explanation
Indices: 49003359--49003407 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49003349 AGTTGAAAAG
49003359 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49003378 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49003395 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49003408 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49004311 original size:40 final size:40
Alignment explanation
Indices: 49004267--49004395 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
49004257 TGCTGGAAAT
* * *
49004267 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* * *
49004307 TATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
49004347 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
49004387 TATATCCGG
1 TATATCCGG
49004396 TTATATTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
39 4 0.05
40 69 0.92
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:49011411 original size:17 final size:18
Alignment explanation
Indices: 49011369--49011417 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49011359 AGTTGAAAAG
49011369 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49011388 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49011405 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49011418 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49012303 original size:40 final size:39
Alignment explanation
Indices: 49012237--49012379 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 39
49012227 AAATTGAATG
* * *
49012237 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAGAAACT
* * ***
49012276 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAG-CCCGAAGGCAATTATGCTAGAAACT
* * **
49012316 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTA-T
1 ATATCCGGGCTAA-GCCCGAAGGCAATT-ATGCTAGAAACT
*
49012355 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGGCA
49012380 TTTGTGCACG
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 38 0.44
40 46 0.53
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTATGCTAGAAACT
Found at i:49012365 original size:39 final size:39
Alignment explanation
Indices: 49012275--49012386 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
49012265 TGCTGGAAAT
* * *
49012275 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGGA
* *
49012315 TATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGT-TA
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGGA
*
49012354 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
49012387 ACGTGATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 31 0.49
40 32 0.51
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGGA
Found at i:49012400 original size:39 final size:40
Alignment explanation
Indices: 49012237--49012401 Score: 151
Period size: 39 Copynumber: 4.2 Consensus size: 40
49012227 AAATTGAATG
* * * **
49012237 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
49012276 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
49012316 ATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
49012355 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
49012395 A-ATCCGG
1 ATATCCGG
49012402 TTATATTCCG
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 52 0.51
40 49 0.48
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:49018979 original size:56 final size:56
Alignment explanation
Indices: 49018893--49019057 Score: 231
Period size: 56 Copynumber: 2.9 Consensus size: 56
49018883 CATGGCATCG
* * *
49018893 ATATATGTGTGCGTGTAAGACCACATTTAATACGTTGGCATCAATATGTGGTTCCA
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCA
* *
49018949 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTAGCATCAATATGTGATTCCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCA
* * * * * *
49019005 GTATATGTGTGCGAGTAAGACCACGTCTAGTATGTTGTCATCGATATGTGATT
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
49019058 ACATGTAAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 97 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCA
Found at i:49020303 original size:36 final size:37
Alignment explanation
Indices: 49020242--49020349 Score: 164
Period size: 36 Copynumber: 2.9 Consensus size: 37
49020232 AGCTCAGATG
* *
49020242 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
49020279 AAAT-TCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
49020315 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
49020350 ATATATTTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 32 0.50
37 32 0.50
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:49020340 original size:37 final size:37
Alignment explanation
Indices: 49020242--49020349 Score: 157
Period size: 37 Copynumber: 2.9 Consensus size: 37
49020232 AGCTCAGATG
*
49020242 AAATCTCCACACG-AAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAA-TCATCGGGTCTTACCCGGACA
* *
49020279 AAAT-TCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAATCATCGGGTCTTACCCGGACA
*
49020315 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAATCATCGGGTCTTACCCGGA
49020350 ATATATTTCC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
36 30 0.48
37 33 0.52
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAATCATCGGGTCTTACCCGGACA
Found at i:49020548 original size:48 final size:48
Alignment explanation
Indices: 49020490--49020635 Score: 238
Period size: 48 Copynumber: 3.0 Consensus size: 48
49020480 ATATACACAC
*
49020490 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
49020538 ATCTCATACATATTTCACACTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
49020586 ATCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
49020634 AT
1 AT
49020636 ATTTATCTTG
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:49027748 original size:24 final size:24
Alignment explanation
Indices: 49027718--49028008 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
49027708 GAATGTGACT
* *
49027718 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
49027742 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49027766 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49027790 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49027814 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49027838 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49027862 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49027886 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49027910 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49027934 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49027958 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49027982 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49028006 ATA
1 ATA
49028009 TGGTCTTTGC
Statistics
Matches: 257, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 257 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:49035805 original size:24 final size:24
Alignment explanation
Indices: 49035775--49036064 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
49035765 GAATGTGACT
* *
49035775 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
49035799 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49035823 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49035847 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49035870 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49035894 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49035918 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49035942 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49035966 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49035990 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
49036014 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49036038 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
49036062 ATA
1 ATA
49036065 TGGTCTTTGC
Statistics
Matches: 257, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 23 0.09
24 234 0.91
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:49043455 original size:24 final size:24
Alignment explanation
Indices: 49043406--49043538 Score: 196
Period size: 24 Copynumber: 5.5 Consensus size: 24
49043396 ACCAAACGTT
* **
49043406 GCACACATAGTGCT-TATTATGTTC
1 GCACACATAGTGCTATAGTA-AATC
*
49043430 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
*
49043454 GCACACTTAGTGCTATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
49043478 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
49043502 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCTATAGTAAATC
*
49043526 ACACACATAGTGC
1 GCACACATAGTGC
49043539 ATTTGAGATT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 96 0.96
25 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCTATAGTAAATC
Found at i:49045480 original size:22 final size:22
Alignment explanation
Indices: 49045461--49045505 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49045451 TGAGATTGAG
49045461 ATGGTTTCGACCATGTATTGGC
1 ATGGTTTCGACCATGTATTGGC
49045483 ATGGTTTCGACCATGTATTGGC
1 ATGGTTTCGACCATGTATTGGC
49045505 A
1 A
49045506 CTTAGGGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (22 bp):
ATGGTTTCGACCATGTATTGGC
Found at i:49053620 original size:30 final size:30
Alignment explanation
Indices: 49053584--49053645 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
49053574 CTTAACAAGA
*
49053584 AAATGCCTCTAAATTAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
* *
49053614 AAATGCCTTTAAAATAATAAAATAATTAAC
1 AAATGCCTCTAAAATAATAAAAAAATTAAC
49053644 AA
1 AA
49053646 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAAC
Found at i:49059000 original size:166 final size:166
Alignment explanation
Indices: 49058725--49059055 Score: 599
Period size: 166 Copynumber: 2.0 Consensus size: 166
49058715 CACACGGGTA
*
49058725 GACACACGGTCAGCCCCATGGGCATGTTGCCCTGCCGTGTGTCCCCTACACTTAAAATTTTAGGT
1 GACACACGGTCAGCCCCATGGGCATGTTGCCCGGCCGTGTGTCCCCTACACTTAAAATTTTAGGT
* *
49058790 CAGTTTGCATGGAAGTAAACACACGGGTAGAGACACGGCCGTGTGTCTCAACCGTGTGGAGGACA
66 CAGTTTGCATGGAAGTAAACACACAGGTAGAGACACGCCCGTGTGTCTCAACCGTGTGGAGGACA
49058855 CAGACTAGCACACGGGCATGTGCTTTGGCCGTGTGC
131 CAGACTAGCACACGGGCATGTGCTTTGGCCGTGTGC
* *
49058891 GACACACGGTCAGCCCCATGGGCATGTTGCCCGGTCGTGTGTCCCCTGCACTTAAAATTTTAGGT
1 GACACACGGTCAGCCCCATGGGCATGTTGCCCGGCCGTGTGTCCCCTACACTTAAAATTTTAGGT
*
49058956 CAGTTTGCATGGAAGTAAACACATAGGTAGAGACACGCCCGTGTGTCTCAACCGTGTGGAGGACA
66 CAGTTTGCATGGAAGTAAACACACAGGTAGAGACACGCCCGTGTGTCTCAACCGTGTGGAGGACA
*
49059021 CGGACTAGCACACGGGCATGTGCTTTGGCCGTGTG
131 CAGACTAGCACACGGGCATGTGCTTTGGCCGTGTG
49059056 TCTCAAAATG
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 158 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (166 bp):
GACACACGGTCAGCCCCATGGGCATGTTGCCCGGCCGTGTGTCCCCTACACTTAAAATTTTAGGT
CAGTTTGCATGGAAGTAAACACACAGGTAGAGACACGCCCGTGTGTCTCAACCGTGTGGAGGACA
CAGACTAGCACACGGGCATGTGCTTTGGCCGTGTGC
Found at i:49061540 original size:8 final size:8
Alignment explanation
Indices: 49061527--49061557 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
49061517 ATTTGTCTTT
49061527 ATTTACCA
1 ATTTACCA
49061535 ATTTACCA
1 ATTTACCA
49061543 ATTTACCA
1 ATTTACCA
49061551 ATTTACC
1 ATTTACC
49061558 CTTTACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTTACCA
Found at i:49062644 original size:11 final size:11
Alignment explanation
Indices: 49062628--49062657 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
49062618 TTTGAATAAC
49062628 TTTAAAAATCA
1 TTTAAAAATCA
49062639 TTT-AAAATCA
1 TTTAAAAATCA
49062649 TTTAAAAAT
1 TTTAAAAAT
49062658 GGTTTGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTAAAAATCA
Found at i:49066630 original size:12 final size:12
Alignment explanation
Indices: 49066613--49066637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49066603 GTGGCTATGC
49066613 AAGGGAAATGAA
1 AAGGGAAATGAA
49066625 AAGGGAAATGAA
1 AAGGGAAATGAA
49066637 A
1 A
49066638 TGTATAGAAA
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:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (12 bp):
AAGGGAAATGAA
Found at i:49068913 original size:21 final size:21
Alignment explanation
Indices: 49068884--49068980 Score: 59
Period size: 21 Copynumber: 4.6 Consensus size: 21
49068874 AAGCCCAAAA
* *
49068884 GCTACACAGAAGCACATAAGT
1 GCTAAACAGAAGCACATAAGG
* *
49068905 GCTAAACAGAAACCCATAAGG
1 GCTAAACAGAAGCACATAAGG
* * ** *
49068926 GTTGAACAGAAGCTTATAAGA
1 GCTAAACAGAAGCACATAAGG
* * * * *
49068947 ACTGAACTGAAACCCATAAGG
1 GCTAAACAGAAGCACATAAGG
*
49068968 GTTAAACAGAAGC
1 GCTAAACAGAAGC
49068981 TCAATAGAGC
Statistics
Matches: 54, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (21 bp):
GCTAAACAGAAGCACATAAGG
Found at i:49068936 original size:42 final size:42
Alignment explanation
Indices: 49068889--49069015 Score: 121
Period size: 42 Copynumber: 3.0 Consensus size: 42
49068879 CAAAAGCTAC
** *
49068889 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCACATAAGAACTAAACAGAAACCCATAAGGGTTAA
** * *
49068931 ACAGAAGCTTATAAGAACTGAACTGAAACCCATAAGGGTTAA
1 ACAGAAGCACATAAGAACTAAACAGAAACCCATAAGGGTTAA
* * * ** *
49068973 ACAGAAGCTCA-ATAGAGCTGAAGGGAAACCCATTAGGGTTAA
1 ACAGAAGCACATA-AGAACTAAACAGAAACCCATAAGGGTTAA
49069015 A
1 A
49069016 TGGAAACTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 1 0.01
42 71 0.99
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (42 bp):
ACAGAAGCACATAAGAACTAAACAGAAACCCATAAGGGTTAA
Found at i:49078747 original size:30 final size:29
Alignment explanation
Indices: 49078711--49078771 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
49078701 AAACAGAAGT
49078711 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
49078741 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
49078770 TT
1 TT
49078772 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:49083791 original size:60 final size:59
Alignment explanation
Indices: 49083715--49083851 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
49083705 AACTATGTTA
* * *
49083715 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAAATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAAATTAAGACTG
* * * *
49083775 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAAGATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAAATTAAGACTG
49083835 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
49083852 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.76
61 15 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAAATTAAGACTG
Found at i:49097592 original size:16 final size:16
Alignment explanation
Indices: 49097561--49097597 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
49097551 ATGTGAATAA
49097561 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
49097577 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
49097593 TATTA
1 TATTA
49097598 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:49097647 original size:22 final size:22
Alignment explanation
Indices: 49097621--49097664 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49097611 CTATTAAATA
49097621 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
49097643 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
49097665 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Done.