Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 118 of 325
Found at i:35432539 original size:18 final size:18
Alignment explanation
Indices: 35432512--35432552 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35432502 CAGTTATAAA
35432512 CCAAAATAAA-TAAAAAT
1 CCAAAATAAAGTAAAAAT
*
35432529 CTCAAATTAAAGTAAAAAT
1 C-CAAAATAAAGTAAAAAT
35432548 CCAAA
1 CCAAA
35432553 GAGGCCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 12 0.57
19 8 0.38
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.20
Consensus pattern (18 bp):
CCAAAATAAAGTAAAAAT
Found at i:35440216 original size:40 final size:39
Alignment explanation
Indices: 35440051--35440234 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35440041 GAAATTGATG
* * *
35440051 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35440091 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35440131 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35440171 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35440210 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35440235 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35440259 original size:80 final size:81
Alignment explanation
Indices: 35440091--35440279 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35440081 GCTGGAAATT
* * * *
35440091 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35440156 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35440172 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35440235 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35440251 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35440280 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35443673 original size:29 final size:28
Alignment explanation
Indices: 35443611--35443711 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
35443601 GTGACGAGAT
* * *
35443611 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-GATATA
* *
35443640 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGA-TATA
* *
35443669 TGGCACTATGTGTGCGGGCTT-GA-ATCA
1 TGGCACTAAGTGTGCGAGCTTGGATAT-A
35443696 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35443712 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 3 0.05
29 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGGATATA
Found at i:35443718 original size:27 final size:27
Alignment explanation
Indices: 35443641--35443718 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
35443631 TGTAATGTAC
*
35443641 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGATT-GAC-ATAT
* * *
35443670 GGCACTATGTGTGCGGGCTTGA-ATCAT
1 GGCACTAAGTGTGCGAGATTGACAT-AT
*
35443697 GGCACTAAGTGTGCGTGATTGA
1 GGCACTAAGTGTGCGAGATTGA
35443719 GTATTAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 2 0.05
29 17 0.40
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (27 bp):
GGCACTAAGTGTGCGAGATTGACATAT
Found at i:35451635 original size:29 final size:29
Alignment explanation
Indices: 35451573--35451675 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
35451563 GTGACGAGAT
* * *
35451573 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
35451602 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
35451631 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
35451660 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35451676 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:35454977 original size:21 final size:21
Alignment explanation
Indices: 35454926--35454975 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
35454916 CTTGAGTATT
*
35454926 TAAATGTTTAATGATAGATTA
1 TAAAAGTTTAATGATAGATTA
*
35454947 TAAACGTTTAATGATAGA-TA
1 TAAAAGTTTAATGATAGATTA
35454967 TAAAAGTTT
1 TAAAAGTTT
35454976 TACAAAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (21 bp):
TAAAAGTTTAATGATAGATTA
Found at i:35455596 original size:23 final size:23
Alignment explanation
Indices: 35455566--35455692 Score: 114
Period size: 23 Copynumber: 5.4 Consensus size: 23
35455556 ACAGCTCGTA
* *
35455566 AGAGCTTACTGTTTCATCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* * *
35455589 AGAGCTTACCGATTCAGGTCGAA-
1 AGAGCTTACTGTTTCAGCTC-AAT
35455612 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* **
35455634 AGAGCTTACATTTTTCATATCAAT
1 AGAGCTTAC-TGTTTCAGCTCAAT
*
35455658 AGAGCTTACTGTTTATCAGCTCAAG
1 AGAGCTTACTG-TT-TCAGCTCAAT
35455683 AGAAGCTTAC
1 AG-AGCTTAC
35455693 CGACCATGAC
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 28 0.34
24 21 0.25
25 9 0.11
26 7 0.08
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:35458055 original size:18 final size:18
Alignment explanation
Indices: 35458032--35458066 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35458022 AACTCGCATG
35458032 TTAGTAGATTCATTGGCT
1 TTAGTAGATTCATTGGCT
*
35458050 TTAGTAGATTCTTTGGC
1 TTAGTAGATTCATTGGC
35458067 AATCATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.46
Consensus pattern (18 bp):
TTAGTAGATTCATTGGCT
Found at i:35458452 original size:35 final size:35
Alignment explanation
Indices: 35458384--35458555 Score: 139
Period size: 35 Copynumber: 4.9 Consensus size: 35
35458374 TCAATCCCTT
* * *
35458384 CAAATCACACCAGATGCTCACAAGAGCA-GGTCCAAC
1 CAAAACACACCA-ATGCTCATAAGAG-ATAGTCCAAC
* * *
35458420 CAAAACACGCCAATACTCATAAGAGAAAGTCCAAC
1 CAAAACACACCAATGCTCATAAGAGATAGTCCAAC
**** * *
35458455 TGGTACATACCAATGCTCATAAGAGATTGTCCAAC
1 CAAAACACACCAATGCTCATAAGAGATAGTCCAAC
* *
35458490 CAAAACACACCAATGCTCATATGAGCTAGTCCAAC
1 CAAAACACACCAATGCTCATAAGAGATAGTCCAAC
** ** * *
35458525 TGAAACACGTCAATGCTCATACGAGCTAGTC
1 CAAAACACACCAATGCTCATAAGAGATAGTC
35458556 TCTTCGAAAC
Statistics
Matches: 108, Mismatches: 27, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
34 1 0.01
35 97 0.90
36 10 0.09
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.17
Consensus pattern (35 bp):
CAAAACACACCAATGCTCATAAGAGATAGTCCAAC
Found at i:35458539 original size:70 final size:70
Alignment explanation
Indices: 35458389--35458545 Score: 181
Period size: 70 Copynumber: 2.2 Consensus size: 70
35458379 CCCTTCAAAT
* * *
35458389 CACACCAGATGCTCACAAGAGCA-GGTCCAACCAAAACACGCCAATACTCATAAGAGAAAGTCCA
1 CACACCA-ATGCTCATAAGAG-ATTGTCCAACCAAAACACACCAATACTCATAAGAGAAAGTCCA
**
35458453 ACTGGTA
64 ACTGAAA
* * * **
35458460 CATACCAATGCTCATAAGAGATTGTCCAACCAAAACACACCAATGCTCATATGAGCTAGTCCAAC
1 CACACCAATGCTCATAAGAGATTGTCCAACCAAAACACACCAATACTCATAAGAGAAAGTCCAAC
35458525 TGAAA
66 TGAAA
**
35458530 CACGTCAATGCTCATA
1 CACACCAATGCTCATA
35458546 CGAGCTAGTC
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
69 1 0.01
70 65 0.90
71 6 0.08
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.17
Consensus pattern (70 bp):
CACACCAATGCTCATAAGAGATTGTCCAACCAAAACACACCAATACTCATAAGAGAAAGTCCAAC
TGAAA
Found at i:35464573 original size:40 final size:39
Alignment explanation
Indices: 35464529--35464636 Score: 132
Period size: 39 Copynumber: 2.7 Consensus size: 39
35464519 GAAATTATAA
*
35464529 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTGTGC-AGT--CATACTAT
*
35464569 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAGTCATACTAT
*
35464608 CCGGGCTAAGACCCGAAGGCATTTGTGCA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCA
35464637 AATCGTGATA
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 33 0.54
40 25 0.41
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAGTCATACTAT
Found at i:35472229 original size:40 final size:39
Alignment explanation
Indices: 35472064--35472247 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35472054 AAATTGAATG
* * *
35472064 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35472104 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35472144 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35472184 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35472223 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35472248 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35472272 original size:80 final size:81
Alignment explanation
Indices: 35472104--35472292 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35472094 GCTGGAAATT
* * * *
35472104 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35472169 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35472185 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35472248 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35472264 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35472293 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35479736 original size:40 final size:39
Alignment explanation
Indices: 35479571--35479754 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
35479561 AAATTGAATG
* * *
35479571 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
35479611 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
35479651 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
35479691 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
35479730 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35479755 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:35479779 original size:80 final size:81
Alignment explanation
Indices: 35479611--35479799 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
35479601 GCTGGAAATT
* * * *
35479611 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
35479676 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
35479692 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
35479755 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
35479771 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
35479800 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:35484152 original size:29 final size:28
Alignment explanation
Indices: 35484058--35484152 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 28
35484048 TGACATAGTA
* *
35484058 TCAGTACAATCTGGGCCAAAGCCCT-AT
1 TCAGTACAATATGGGCCTAAGCCCTAAT
*
35484085 TCAGTAACAATACAGTCTGGGCCTTAGCCCTTAA-
1 TCAGT-ACAAT--A---TGGGCCTAAGCCC-TAAT
*
35484119 ACAGTAGCAATATGGGCCTAAGCCCTAAT
1 TCAGTA-CAATATGGGCCTAAGCCCTAAT
35484148 TCAGT
1 TCAGT
35484153 CTCGATATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
27 5 0.10
28 8 0.15
29 16 0.31
32 1 0.02
33 12 0.23
34 9 0.17
35 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (28 bp):
TCAGTACAATATGGGCCTAAGCCCTAAT
Found at i:35484201 original size:31 final size:31
Alignment explanation
Indices: 35484159--35484240 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
35484149 CAGTCTCGAT
35484159 ATAT-ACTGGGCCGAAGCCTTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
*
35484189 ATATCACTGGGCCGAAGCATTTTCATAAATC
1 ATATCACTGGGCCGAAGCCTTTTCATAAATC
35484220 ATATCACT-GGCCGAAGCCTTT
1 ATATCACTGGGCCGAAGCCTTT
35484241 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 16 0.33
31 33 0.67
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTTCATAAATC
Found at i:35484497 original size:25 final size:25
Alignment explanation
Indices: 35484460--35484529 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
35484450 CTCTTTTAAT
* *
35484460 AACTGGGGGAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35484485 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
35484510 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35484530 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35484656 original size:16 final size:16
Alignment explanation
Indices: 35484635--35484665 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35484625 TTCATATCAC
35484635 CAACCACACAGTCCAT
1 CAACCACACAGTCCAT
35484651 CAACCACACAGTCCA
1 CAACCACACAGTCCA
35484666 AGTCAGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.45, G:0.06, T:0.10
Consensus pattern (16 bp):
CAACCACACAGTCCAT
Found at i:35485389 original size:27 final size:26
Alignment explanation
Indices: 35485328--35485392 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
35485318 GGGCATATTC
*
35485328 GTCATTTTACCATACAGGGTATTACG
1 GTCATTTTACCTTACAGGGTATTACG
*
35485354 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACA-GGG-TATTACG
*
35485381 GTCTTTTTACCT
1 GTCATTTTACCT
35485393 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.42
27 18 0.55
28 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTTACAGGGTATTACG
Found at i:35485475 original size:27 final size:27
Alignment explanation
Indices: 35485445--35485552 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
35485435 GTAAATCTAC
*
35485445 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* *
35485472 AAACCAATGGTATTTTAATAATTCTTAG-
1 AAACCAAGGGTATTTTAGTAATT-TT-GT
* *
35485500 AAAGTCAAGGGTATTTTTGTAATTTTGT
1 AAA-CCAAGGGTATTTTAGTAATTTTGT
* * *
35485528 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTTAGTAATTTT
35485553 ACAAGTTGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
27 41 0.60
28 10 0.15
29 17 0.25
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:35485540 original size:56 final size:54
Alignment explanation
Indices: 35485449--35485578 Score: 152
Period size: 56 Copynumber: 2.4 Consensus size: 54
35485439 ATCTACAAAC
* *
35485449 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTAATAATTCTTAGAAAGT
1 CAAGGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTTAATAATT-TTA-AAAGT
* * * ** *
35485505 CAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTTAATAATTTTAAAAGT
**
35485559 TGAGGGTATTTTAGTAATTT
1 CAAGGGTATTTTAGTAATTT
35485579 CACAAACCAG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 21 0.33
55 3 0.05
56 39 0.62
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTGTAAACCAAGGGTATTTTAATAATTTTAAAAGT
Found at i:35485565 original size:27 final size:25
Alignment explanation
Indices: 35485507--35485664 Score: 109
Period size: 27 Copynumber: 5.9 Consensus size: 25
35485497 TAGAAAGTCA
* **
35485507 AGGGTATTTTTGTAATTTTGTAAAT
1 AGGGTATTTTGGTAATTTTACAAAT
*
35485532 CAGGGGTATTTTGGTAATTTTACAAGTT
1 -A-GGGTATTTTGGTAATTTTACAA-AT
* * *
35485560 GAGGGTATTTTAGTAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAA-T
*
35485587 AGTGGTATTTCGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAA-T
* **
35485614 AGGGGTATTTTGGTAATTCTACCCTAT
1 A-GGGTATTTTGGTAATTTTA-CAAAT
* *
35485641 AGGCGTATTTTAGTAATTTCACAA
1 AGG-GTATTTTGGTAATTTTACAA
35485665 TCGAGGGTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
26 6 0.06
27 92 0.89
28 5 0.05
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (25 bp):
AGGGTATTTTGGTAATTTTACAAAT
Found at i:35485594 original size:54 final size:54
Alignment explanation
Indices: 35485430--35485610 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
35485420 TACAAGGGTG
* * ** * *
35485430 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTGTAAACCAGTGGTA
** * * * *
35485484 TTTTAATAATTCTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTA
1 TTTTGGTAATT-TTA-CAAGTCAAGGGTATTTTAGTAATTTTGTAAACCAGTGGTA
** ***
35485540 TTTTGGTAATTTTACAAGTTGAGGGTATTTTAGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTGTAAACCAGTGGTA
*
35485594 TTTCGGTAATTTTACAA
1 TTTTGGTAATTTTACAA
35485611 ACTAGGGGTA
Statistics
Matches: 101, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
54 55 0.54
55 5 0.05
56 41 0.41
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTGTAAACCAGTGGTA
Found at i:35485620 original size:54 final size:54
Alignment explanation
Indices: 35485395--35485631 Score: 181
Period size: 54 Copynumber: 4.4 Consensus size: 54
35485385 TTTTACCTAT
* * * * * *
35485395 TAGGGGTATTTTAGTCATTTCATACTACAAG-GGTGTTTTGGTAAATCTACAAAC
1 TAGGGGTATTTTAGTAATTTCATA-AACCAGTGGTATTTTGGTAATTTTACAAAC
* * * ** * ** * *
35485449 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTAATAATTCTTAGAAAG
1 TAGGGGTATTTTAGTAATTTCATAAACCAGTGGTATTTTGGTAATT-TTACAAAC
* * ** * * *
35485504 TCAAGGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAC-AAG
1 T-AGGGGTATTTTAGTAATTTCATAAACCAGTGGTATTTTGGTAATTTTACAAAC
* * *
35485558 TTGAGGGTATTTTAGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAAC
1 TAG-GGGTATTTTAGTAATTTCATAAACCAGTGGTATTTTGGTAATTTTACAAAC
*
35485613 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTAGTAATT
35485632 CTACCCTATA
Statistics
Matches: 141, Mismatches: 37, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
53 3 0.02
54 88 0.62
55 12 0.09
56 38 0.27
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTAGTAATTTCATAAACCAGTGGTATTTTGGTAATTTTACAAAC
Found at i:35485682 original size:26 final size:25
Alignment explanation
Indices: 35485652--35485754 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 25
35485642 GGCGTATTTT
*
35485652 AGTAATTTCACAATCGAGGGTAAAAT
1 AGTAATTTCA-AATCGAGGGTAAAAC
*
35485678 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAA-TTT-CAAATCGAGGGTAAAAC
* *
35485705 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATT-T-CAAATCGAGGGTAAAAC
*
35485732 AGTAATTCTATAAATCGAGGGTA
1 AGTAATT-T-CAAATCGAGGGTA
35485755 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
26 7 0.10
27 61 0.88
28 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (25 bp):
AGTAATTTCAAATCGAGGGTAAAAC
Found at i:35485765 original size:27 final size:27
Alignment explanation
Indices: 35485663--35485754 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
35485653 GTAATTTCAC
* * *
35485663 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
35485690 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
35485717 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
35485744 AATCGAGGGTA
1 AATCGAGGGTA
35485755 CTTTGGTAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:35488533 original size:149 final size:149
Alignment explanation
Indices: 35488263--35488561 Score: 528
Period size: 149 Copynumber: 2.0 Consensus size: 149
35488253 TAACCCCTTC
35488263 ATATGAGAGAAGGTAAGTTGAATACCTTTCTTGTTTACTAACTAAGCAATCATGCTTAATGCATC
1 ATATGAGAGAAGGTAAGTTGAATACCTTTCTTGTTTACTAACTAAGCAATCATGCTTAATGCATC
* * *
35488328 ATTATTTCTTATGCGTAGATAGTTTATGGATCATGAGAGCTCTTTATCATACGGGAGGACCATCA
66 AGTATTTCTTATGCGTAGATAGTTTATGGATCATGAGAGCCCTTTATCATACGGGAGGACCACCA
35488393 CCTTAACAAAGCCTTTACA
131 CCTTAACAAAGCCTTTACA
35488412 ATATGAGAGAAGGTAAGTTGAATACC-TTCATTGTTTACTAACTAAGCAATCATGCTTAATGCAT
1 ATATGAGAGAAGGTAAGTTGAATACCTTTC-TTGTTTACTAACTAAGCAATCATGCTTAATGCAT
* * *
35488476 CGGTATTTCTTATGCGTAGATAGTTTATGGATCATGAGATCCCTTTATCATATGGGAGGACCACC
65 CAGTATTTCTTATGCGTAGATAGTTTATGGATCATGAGAGCCCTTTATCATACGGGAGGACCACC
35488541 ACCTTAACAAAGCCTTTACA
130 ACCTTAACAAAGCCTTTACA
35488561 A
1 A
35488562 CAAGCCTTAC
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 3 0.02
149 140 0.98
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (149 bp):
ATATGAGAGAAGGTAAGTTGAATACCTTTCTTGTTTACTAACTAAGCAATCATGCTTAATGCATC
AGTATTTCTTATGCGTAGATAGTTTATGGATCATGAGAGCCCTTTATCATACGGGAGGACCACCA
CCTTAACAAAGCCTTTACA
Found at i:35493212 original size:25 final size:25
Alignment explanation
Indices: 35493178--35493227 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35493168 TAAAATCTGA
35493178 TCCCGTATCAGCTTCACACTACTTT
1 TCCCGTATCAGCTTCACACTACTTT
35493203 TCCCGTATCAGCTTCACACTACTTT
1 TCCCGTATCAGCTTCACACTACTTT
35493228 CTCTTGGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.36, G:0.08, T:0.36
Consensus pattern (25 bp):
TCCCGTATCAGCTTCACACTACTTT
Found at i:35496164 original size:41 final size:41
Alignment explanation
Indices: 35496119--35496215 Score: 94
Period size: 38 Copynumber: 2.4 Consensus size: 41
35496109 CCTCGAGTCA
* **
35496119 ATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAGATTCG
1 ATGAGACACTGGGTGTCACCAAATTTACTTCGGATAG-GCCG
** * *
35496160 ATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAGGCCG
1 ATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGGCCG
35496198 ATGAGACACTGGGTGTCA
1 ATGAGACACTGGGTGTCA
35496216 ATTAATACTT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
38 17 0.40
39 13 0.30
40 4 0.09
41 9 0.21
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
ATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGGCCG
Found at i:35496379 original size:18 final size:18
Alignment explanation
Indices: 35496356--35496396 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35496346 ATAAAAAAAA
35496356 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
35496374 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
35496392 AGAAA
1 AGAAA
35496397 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:35496906 original size:20 final size:20
Alignment explanation
Indices: 35496883--35496920 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35496873 GTTATTAAGT
35496883 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
35496903 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
35496921 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:35502961 original size:46 final size:46
Alignment explanation
Indices: 35502894--35502985 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
35502884 AAGGGGAGTA
35502894 AGCATAAAGCTTAGTAAGTTGCACATAAATAAATATTCAACATAAC
1 AGCATAAAGCTTAGTAAGTTGCACATAAATAAATATTCAACATAAC
35502940 AGCATAAAGCTTAGTAAGTTGCACATAAATAAATATTCAACATAAC
1 AGCATAAAGCTTAGTAAGTTGCACATAAATAAATATTCAACATAAC
35502986 TTTACCATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (46 bp):
AGCATAAAGCTTAGTAAGTTGCACATAAATAAATATTCAACATAAC
Found at i:35503380 original size:47 final size:44
Alignment explanation
Indices: 35503225--35503533 Score: 219
Period size: 46 Copynumber: 6.7 Consensus size: 44
35503215 GGTCAGGTGA
* * * *
35503225 CGATGCCATGTCCCAGACATGATCTTACACTGACACATCTC-GTAGC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCGTCTCAAT-GC
* * * * ** *
35503271 CGATGCATGTCCCAAACATTTCTTACATTGGTTTACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGG-CT-CGTCTCAATGC
* *
35503317 CGAAGCATGTCCCAGACATGTCTTACACTGGTACTCATCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGG--CTCGTCTCAATGC
* *
35503363 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-T-CGTCTCAATGC
* * * * *
35503411 CAAAGTATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCAATGC
* *
35503457 CGAAGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCAT-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTC-TCAA--T-GC
*
35503505 CGATGCATGTCCCAGACATGCCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
35503534 ATCTCACACA
Statistics
Matches: 208, Mismatches: 39, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
44 9 0.04
45 17 0.08
46 84 0.40
47 58 0.28
48 40 0.19
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCAATGC
Found at i:35503404 original size:94 final size:92
Alignment explanation
Indices: 35503231--35503533 Score: 344
Period size: 94 Copynumber: 3.3 Consensus size: 92
35503221 GTGACGATGC
* * * *
35503231 CATGTCCCAGACATGATCTTACACTGACACATCTC-GTAGCCGATG-CATGTCCCAAACAT-TTC
1 CATGTCCCAGACATG-TCTTACACTGACTCATCTCAAT-GCCGATGCCATGTCCCAGACATGGTC
* *
35503293 TTACATTGGTTTACGTCTTGAGGCCGAAG
64 TTACACTGGCTTACGTCTTGAGGCCGAAG
35503322 CATGTCCCAGACATGTCTTACACTGGTACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACT-G-ACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
* *
35503387 TTACACTGGCTTACGTCTCGAGGCCAAAG
64 TTACACTGGCTTACGTCTTGAGGCCGAAG
* * * * *
35503416 TATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAATGCCGAAGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGTCTTACACT-G-ACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTC
* ** * *
35503481 TTACACTGGCTCT-CATAATGTGGCCGATG
64 TTACACTGGCT-TACGTCTTGAGGCCGAAG
*
35503510 CATGTCCCAGACATGCCTTACACT
1 CATGTCCCAGACATGTCTTACACT
35503534 ATCTCACACA
Statistics
Matches: 182, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
90 9 0.05
91 16 0.09
92 15 0.08
93 14 0.08
94 127 0.70
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCTT
ACACTGGCTTACGTCTTGAGGCCGAAG
Found at i:35503507 original size:48 final size:44
Alignment explanation
Indices: 35503314--35503533 Score: 162
Period size: 47 Copynumber: 4.7 Consensus size: 44
35503304 TACGTCTTGA
35503314 GGCCGAAGCATGTCCCAGACATGTCTTACACTGG-TACTCATCTCAAT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCT-CTCA--T-AAT
* *
35503361 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTC-TCGA-
1 GGCCGAAG-CATGTCCCAGACAT-GTCTTACACTGGC-T-C-TCAT-AAT
* * * **
35503408 GGCCAAAGTATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAAT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACT-G-GCTC-TCATAAT
*
35503455 -GCCGAAGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGT
1 GGCCGAAG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAA--T
* *
35503502 GGCCGATGCATGTCCCAGACATGCCTTACACT
1 GGCCGAAGCATGTCCCAGACATGTCTTACACT
35503534 ATCTCACACA
Statistics
Matches: 141, Mismatches: 17, Indels: 31
0.75 0.09 0.16
Matches are distributed among these distances:
45 4 0.03
46 39 0.28
47 56 0.40
48 37 0.26
50 3 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (44 bp):
GGCCGAAGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT
Found at i:35519242 original size:93 final size:93
Alignment explanation
Indices: 35519130--35519301 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
35519120 CGCCCATAAG
* *
35519130 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
35519195 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* **
35519223 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
35519288 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
35519302 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:35519298 original size:46 final size:46
Alignment explanation
Indices: 35519123--35519298 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
35519113 TGTAACCCGC
* * *
35519123 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
* *
35519169 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTACAT
* *
35519219 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
* *
35519262 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
35519299 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTACAT
Found at i:35519317 original size:46 final size:45
Alignment explanation
Indices: 35519131--35519317 Score: 152
Period size: 46 Copynumber: 4.0 Consensus size: 45
35519121 GCCCATAAGC
** *
35519131 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-ACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T-AGT
*
35519177 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACATC-CTAGT
* ***
35519224 GAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGC-TCAACATCC-T-AGT
*
35519270 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAA-CATCCTAGT
35519316 GA
1 GA
35519318 CATGTCACTT
Statistics
Matches: 114, Mismatches: 12, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 2 0.02
46 63 0.55
47 30 0.26
48 6 0.05
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCCTAGT
Found at i:35521068 original size:29 final size:29
Alignment explanation
Indices: 35521029--35521116 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
35521019 CAAAGATAAC
*
35521029 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
35521058 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
35521087 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
35521117 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:35521087 original size:15 final size:15
Alignment explanation
Indices: 35521029--35521107 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
35521019 CAAAGATAAC
*
35521029 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35521043 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35521058 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
35521072 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35521087 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35521102 AAGAAA
1 AAGAAA
35521108 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35521116 original size:15 final size:15
Alignment explanation
Indices: 35521040--35521116 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
35521030 AGAAAACCGA
35521040 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
35521055 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
35521069 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
35521083 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35521099 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35521114 ATA
1 ATA
35521117 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35524089 original size:93 final size:93
Alignment explanation
Indices: 35523977--35524148 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35523967 CGCCCATAAG
* *
35523977 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35524042 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
35524070 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
35524135 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
35524149 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:35524145 original size:46 final size:46
Alignment explanation
Indices: 35523970--35524145 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
35523960 TGTAACCCGC
* * *
35523970 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
35524016 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
*
35524066 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
35524109 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
35524146 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:35524164 original size:46 final size:46
Alignment explanation
Indices: 35523978--35524164 Score: 131
Period size: 46 Copynumber: 4.0 Consensus size: 46
35523968 GCCCATAAGC
** * *
35523978 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T-AGT
*
35524024 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CTAGT
* * * *
35524071 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCT-CAACCATCCTAGT
*
35524117 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
35524163 GA
1 GA
35524165 CATGTCACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 62 0.55
47 30 0.27
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
Found at i:35539411 original size:20 final size:21
Alignment explanation
Indices: 35539373--35539413 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
35539363 ACTCCCTCAA
35539373 CCCTTAAAACTTTTTATTTTC
1 CCCTTAAAACTTTTTATTTTC
35539394 CCCTT-AAA-TTTTTAATTTTC
1 CCCTTAAAACTTTTT-ATTTTC
35539414 ACTCTTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (21 bp):
CCCTTAAAACTTTTTATTTTC
Found at i:35539933 original size:22 final size:22
Alignment explanation
Indices: 35539898--35539947 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
35539888 TTACAAATCA
*
35539898 ATACACAT-CATTTA-GCATAC
1 ATACTCATACATTTATGCATAC
*
35539918 ATAACTCATACATTTATGCATTC
1 AT-ACTCATACATTTATGCATAC
35539941 ATACTCA
1 ATACTCA
35539948 AATACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 5 0.20
22 11 0.44
23 7 0.28
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (22 bp):
ATACTCATACATTTATGCATAC
Found at i:35540393 original size:30 final size:30
Alignment explanation
Indices: 35540358--35540435 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
35540348 TCACCAAGGG
*
35540358 ACACACGGCCGTATAC-CATGACCGTGTGTC
1 ACACACGGCCG-AGACACATGACCGTGTGTC
* * *
35540388 ACACACGACTGAGACACATGCCCGTGTGTC
1 ACACACGGCCGAGACACATGACCGTGTGTC
*
35540418 ACACACGGCTGAGACACA
1 ACACACGGCCGAGACACA
35540436 AGCCCATGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 3 0.07
30 39 0.93
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.15
Consensus pattern (30 bp):
ACACACGGCCGAGACACATGACCGTGTGTC
Found at i:35540445 original size:28 final size:29
Alignment explanation
Indices: 35540384--35540445 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
35540374 CATGACCGTG
* *
35540384 TGTCACACACGACTGAGACACATGCCCGTG
1 TGTCACACACGACTGAGACACAAGCCCG-A
*
35540414 TGTCACACACGGCTGAGACACAAGCCC-A
1 TGTCACACACGACTGAGACACAAGCCCGA
35540442 TGTC
1 TGTC
35540446 TTCGCCCGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.14
30 25 0.86
ACGTcount: A:0.27, C:0.34, G:0.23, T:0.16
Consensus pattern (29 bp):
TGTCACACACGACTGAGACACAAGCCCGA
Found at i:35544625 original size:28 final size:28
Alignment explanation
Indices: 35544585--35544663 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
35544575 GCAATAAAAT
* * *
35544585 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
35544613 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
35544641 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
35544664 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:35546659 original size:28 final size:28
Alignment explanation
Indices: 35546627--35546863 Score: 228
Period size: 28 Copynumber: 8.5 Consensus size: 28
35546617 TTGAACATAG
* *
35546627 GCACTATGTGTGTGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * * ****
35546655 GCACTATGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
35546683 GGCACTGTGTGTGCGAGTT-CGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
35546711 GCACTGTGTGTGCGAGATCAGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
*
35546739 GGCACTGTGTGTACGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
* ****
35546768 GCACTGTGTGTGCGAGAT-CGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
35546795 GGC-CTGTGTGTGCGAGTTCCGTAACCGA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
*
35546823 GCACTGTGTGTGCGAGTTTCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
35546851 GCACTGTGTGTGC
1 GCACTGTGTGTGC
35546864 AAGATCGGTT
Statistics
Matches: 164, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
27 38 0.23
28 89 0.54
29 37 0.23
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:35546697 original size:29 final size:28
Alignment explanation
Indices: 35546655--35546810 Score: 156
Period size: 29 Copynumber: 5.6 Consensus size: 28
35546645 CCGTAACCGA
*
35546655 GCACTATGTGTGCGAGATCAGTTGTTGAG
1 GCACTGTGTGTGCGAGATC-GTTGTTGAG
* ****
35546684 GCACTGTGTGTGCGAGTTCGTAACCGA-
1 GCACTGTGTGTGCGAGATCGTTGTTGAG
35546711 GCACTGTGTGTGCGAGATCAGTTGTTGAG
1 GCACTGTGTGTGCGAGATC-GTTGTTGAG
* * ****
35546740 GCACTGTGTGTACGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGAT-CGTTGTTGAG
35546768 GCACTGTGTGTGCGAGATCGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGTTGTTGAG
35546796 GC-CTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
35546811 TTCCGTAACC
Statistics
Matches: 100, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
27 36 0.36
28 26 0.26
29 37 0.37
30 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGATCGTTGTTGAG
Found at i:35546772 original size:84 final size:83
Alignment explanation
Indices: 35546684--35546870 Score: 223
Period size: 83 Copynumber: 2.2 Consensus size: 83
35546674 AGTTGTTGAG
* ****
35546684 GCACTGTGTGTGCGAGTTCGTAACCGA-GCACTGTGTGTGCGAGATCAGTTGTTGAGGCACTGTG
1 GCACTGTGTGTGCGAGATCGTAACCGAGGC-CTGTGTGTGCGAGATCAGTAACCGA-GCACTGTG
35546748 TGTACGAGTTCCGTAACCGA
64 TGTACGAGTTCCGTAACCGA
**** * *
35546768 GCACTGTGTGTGCGAGATCGTTGTTGAGGCCTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTG
1 GCACTGTGTGTGCGAGATCGTAACCGAGGCCTGTGTGTGCGAGATCAGTAACCGAGCACTGTGTG
* *
35546833 TGCGAGTTTCGTAACCGA
66 TACGAGTTCCGTAACCGA
*
35546851 GCACTGTGTGTGCAAGATCG
1 GCACTGTGTGTGCGAGATCG
35546871 GTTGTTGGGG
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
83 45 0.51
84 41 0.47
85 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (83 bp):
GCACTGTGTGTGCGAGATCGTAACCGAGGCCTGTGTGTGCGAGATCAGTAACCGAGCACTGTGTG
TACGAGTTCCGTAACCGA
Found at i:35546811 original size:55 final size:57
Alignment explanation
Indices: 35546625--35546838 Score: 371
Period size: 56 Copynumber: 3.8 Consensus size: 57
35546615 AATTGAACAT
* * *
35546625 AGGCACTATGTGTGTGAGTTCCGTAACCGAGCACTATGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
35546682 AGGCACTGTGTGTGCGAGTT-CGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
*
35546738 AGGCACTGTGTGTACGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATC-GTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
35546794 AGGC-CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAG
35546839 TTTCGTAACC
Statistics
Matches: 151, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
55 40 0.26
56 65 0.43
57 46 0.30
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.28
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCAGTTGTTG
Found at i:35549909 original size:40 final size:39
Alignment explanation
Indices: 35549741--35549911 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
35549731 AGAAATTGAA
* *
35549741 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
35549781 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
35549821 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
35549861 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
35549901 TGATATCCGGG
1 TGATATCCGGG
35549912 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:35553722 original size:28 final size:28
Alignment explanation
Indices: 35553682--35553760 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
35553672 GCAATCAAAT
* * *
35553682 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
35553710 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
35553738 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
35553761 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:35559155 original size:46 final size:45
Alignment explanation
Indices: 35559105--35559275 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 45
35559095 TGGTTGAGCA
35559105 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* * * *
35559151 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-T--G
*
35559196 CATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
* *
35559243 CCCGAGCTCGTTGAGTTGAGTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTA
35559276 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 34 0.32
46 36 0.34
47 24 0.23
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
Found at i:35559260 original size:92 final size:92
Alignment explanation
Indices: 35559102--35559270 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
35559092 GGATGGTTGA
* *
35559102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35559167 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGT-CGAGTTCGTGAAATGTAACTAG
*
35559195 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35559259 TGAGTCGAGTTC
66 TGAGTCGAGTTC
35559271 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 7 0.10
92 42 0.58
93 24 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAAATGTAACTAG
Found at i:35566703 original size:46 final size:46
Alignment explanation
Indices: 35566653--35566824 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
35566643 TGGTTGAGCA
35566653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
35566699 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35566744 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35566791 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35566825 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 22 0.21
46 48 0.46
47 24 0.23
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35566808 original size:92 final size:93
Alignment explanation
Indices: 35566650--35566819 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
35566640 GGATGGTTGA
* *
35566650 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35566715 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
35566743 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35566807 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35566820 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 50 0.68
93 24 0.32
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:35569568 original size:22 final size:22
Alignment explanation
Indices: 35569533--35569582 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
35569523 TTACCGATCA
*
35569533 ATACACAT-CATTTA-GCATAC
1 ATACTCATACATTTATGCATAC
*
35569553 ATAACTCATACATTTATGCATTC
1 AT-ACTCATACATTTATGCATAC
35569576 ATACTCA
1 ATACTCA
35569583 AATACCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 5 0.20
22 11 0.44
23 7 0.28
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (22 bp):
ATACTCATACATTTATGCATAC
Found at i:35574002 original size:23 final size:23
Alignment explanation
Indices: 35573972--35574019 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
35573962 CTCCAATGGA
35573972 AAATCAAAATCAATAAAAAGATT
1 AAATCAAAATCAATAAAAAGATT
35573995 AAATCAAAATCAATAAAAAGATT
1 AAATCAAAATCAATAAAAAGATT
35574018 AA
1 AA
35574020 CTTCCAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (23 bp):
AAATCAAAATCAATAAAAAGATT
Found at i:35581275 original size:46 final size:46
Alignment explanation
Indices: 35581208--35581381 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
35581198 TGTAACCCGC
*
35581208 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
35581254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
35581304 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
35581347 CCATAAGTGAAC-CGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
35581382 ATGCCCAAAT
Statistics
Matches: 108, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 24 0.22
46 39 0.36
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:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:35581328 original size:93 final size:92
Alignment explanation
Indices: 35581216--35581386 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
35581206 GCCCATAAGT
** *
35581216 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGTGAAC-CGGACTCAACTCAA
35581281 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35581309 GAACTCGGACTCAACTCAACGAGTTCGAACGCTCGCATCCATAAGTGAACCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGTGAACCGGACTCAACTCAAC
35581374 GAGTTCGGATGCC
66 GAGTTCGGATGCC
35581387 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 28 0.38
93 46 0.62
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGTGAACCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35581401 original size:45 final size:45
Alignment explanation
Indices: 35581213--35581401 Score: 134
Period size: 46 Copynumber: 4.1 Consensus size: 45
35581203 CCCGCCCATA
* ** ** * *
35581213 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
* *
35581259 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
35581307 A-CGAACTCGGACTCAACTCAACGAGTTCGAACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
35581352 AGTGAAC-CGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
35581397 AGTGA
1 AGTGA
35581402 CATGTCACTT
Statistics
Matches: 110, Mismatches: 24, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
43 4 0.04
45 32 0.29
46 35 0.32
47 34 0.31
48 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:35586160 original size:46 final size:46
Alignment explanation
Indices: 35586108--35586286 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 46
35586098 TCACTTGTGT
*
35586108 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCATATGATGA
*
35586154 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATAGGCCATATGATGA
*
35586199 TGAGCGATAGTGTAAGACATGTCTGGGACATGCATCA-GCC-TCAAGATGTA
1 -GAGC--TAGTGTAAGACATGTCTGGGACATGCAT-AGGCCAT-ATGATG-A
* * * *
35586249 -AGCCAGCGTAAGACATGTTTGGGACATGCATCGGCCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCAT
35586287 GAAATATGTC
Statistics
Matches: 112, Mismatches: 8, Indels: 25
0.77 0.06 0.17
Matches are distributed among these distances:
45 2 0.02
46 54 0.48
47 33 0.29
48 21 0.19
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATAGGCCATATGATGA
Found at i:35588381 original size:40 final size:40
Alignment explanation
Indices: 35588322--35588427 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
35588312 ATTGAATGAT
* * * * *
35588322 ATCCGGGCTAAGTCTCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
* * * *
35588362 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
35588402 ATCCGGGCTAAGACCCGAAGGCATTT
1 ATCCGGGCTAAGACCCGAAGGCATTT
35588428 GTACAAATTG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACTAC
Found at i:35598387 original size:44 final size:45
Alignment explanation
Indices: 35598336--35598647 Score: 195
Period size: 44 Copynumber: 6.6 Consensus size: 45
35598326 CAAGAGTTAC
* *
35598336 TGTAAGA-CATGTCTGGAACATGCATCGGCTACGAGATGTATCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTGTCAG
* * *
35598380 TGTAAGA-CATGTCTGGTACATGCATCGGGTACGAGATGTGTTAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTGTCAG
* * * * *
35598424 TGTATGACCATGTTTGGGACATGGCACCAGC-ACGTATAGAGGTGTCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCTACG---AGATGTGTCAG
* * *
35598472 TGTAAGACCATGTCTGGGACATGACATCGG-TATGGATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATG-CATCGGCTA-CGAGATGT--G-TC-AG
* ** * *
35598522 TGTAAGACCATGTCTAGGACATGCCATCGGCCT-CGATTTCTATAGTCAA
1 TGTAAGACCATGTCTGGGACATG-CATCGG-CTACGA--GATGT-GTCAG
* * * * *
35598571 TGTACGACCATGTCTGGGACATGGCATCGACT-TGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCTACGA--GATGTGTCAG
*
35598618 CGTAAGACCATGTCTGGGACATGTCATCGG
1 TGTAAGACCATGTCTGGGACATG-CATCGG
35598648 TATTATACCT
Statistics
Matches: 209, Mismatches: 41, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
44 46 0.22
45 15 0.07
46 10 0.05
47 29 0.14
48 41 0.20
49 28 0.13
50 34 0.16
51 2 0.01
52 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTGTCAG
Found at i:35598532 original size:50 final size:50
Alignment explanation
Indices: 35598470--35598650 Score: 151
Period size: 50 Copynumber: 3.7 Consensus size: 50
35598460 TAGAGGTGTC
*
35598470 AGTGTAAGACCATGTCTGGGACATGACATCGGTATGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCGGTATCGATATGTGAGAGCT
* * ** * * *
35598520 AGTGTAAGACCATGTCTAGGACATGCCATCGGCCTCGATTTCT-ATAG-T
1 AGTGTAAGACCATGTCTGGGACATGACATCGGTATCGATATGTGAGAGCT
* * * * *
35598568 CAATGTACGACCATGTCTGGGACATGGCATC-G-A-C-TTGATG-GATGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGACATCGGTATCGAT-ATGTGA-GAGCT
* *
35598616 AGCGTAAGACCATGTCTGGGACATGTCATCGGTAT
1 AGTGTAAGACCATGTCTGGGACATGACATCGGTAT
35598651 TATACCTTAT
Statistics
Matches: 101, Mismatches: 22, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 28 0.28
48 3 0.03
49 30 0.30
50 36 0.36
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGTATCGATATGTGAGAGCT
Found at i:35601568 original size:40 final size:40
Alignment explanation
Indices: 35601466--35601570 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 40
35601456 CTCGGTATCA
* *
35601466 CACACTTAGTGCCTCATATAG-CTGAAGCTATTCCAACTCG
1 CACACTTAGTGCCTAATATAGTC-AAAGCTATTCCAACTCG
* * *
35601506 CACACTTAGTGCC-ATTTGTAGTCAAAGCTATTTCGAACT-G
1 CACACTTAGTGCCTA-ATATAGTCAAAGCTA-TTCCAACTCG
*
35601546 CACATTTAGTGCCTAATATAGTCAA
1 CACACTTAGTGCCTAATATAGTCAA
35601571 TTATCATCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
40 44 0.83
41 9 0.17
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (40 bp):
CACACTTAGTGCCTAATATAGTCAAAGCTATTCCAACTCG
Found at i:35609272 original size:20 final size:20
Alignment explanation
Indices: 35609247--35609284 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
35609237 TGTAAGCATG
35609247 TTAGATTATTTTTCTGCACA
1 TTAGATTATTTTTCTGCACA
35609267 TTAGATTATTTTTCTGCA
1 TTAGATTATTTTTCTGCA
35609285 ATATTTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.53
Consensus pattern (20 bp):
TTAGATTATTTTTCTGCACA
Found at i:35612977 original size:35 final size:35
Alignment explanation
Indices: 35612937--35613095 Score: 156
Period size: 35 Copynumber: 4.5 Consensus size: 35
35612927 GTATGTACAT
*
35612937 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
* * * *
35612972 ATGTGATGTTATATTAAACTTGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
* * * * * ** *
35613007 ATGTAATGTTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
* * *
35613042 ATATGATGATATATTGTACTTGTATATTTGACCAT
1 ATGTGATGATATATTGAACTTGTATATTTGACCAC
* *
35613077 ACGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
35613096 CTTGAGTATT
Statistics
Matches: 96, Mismatches: 28, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 96 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGACCAC
Found at i:35613883 original size:2 final size:2
Alignment explanation
Indices: 35613876--35613906 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35613866 ATGAACAAAG
35613876 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 T
35613907 GAAATTGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35620750 original size:35 final size:35
Alignment explanation
Indices: 35620710--35620868 Score: 165
Period size: 35 Copynumber: 4.5 Consensus size: 35
35620700 GCATGTACAT
*
35620710 ATGTGATCATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
35620745 ATGTGATGTTATATTAAACATGAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
35620780 ATGTGATGTTTTATTGAGCTTGTATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * *
35620815 ATATGATGATATATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
35620850 ATGTGATGATATAATGAAC
1 ATGTGATGATATATTGAAC
35620869 CTTGAGTATT
Statistics
Matches: 97, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 97 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:35620854 original size:70 final size:70
Alignment explanation
Indices: 35620707--35620884 Score: 178
Period size: 70 Copynumber: 2.5 Consensus size: 70
35620697 TAGGCATGTA
* * * *
35620707 CATATGTGATCATATATTGAACTTGTATATTTGGCCACATGTGATGTTATATTAAACATGAATAT
1 CATATGTGATGATATATTGAACTTGTATATTCGGCCACATATGATGATATATTAAACATGAATAT
35620772 TTGAC
66 TTGAC
* * * * * * * ** * *
35620777 TACATGTGATGTTTTATTGAGCTTGTATATTCGGTCATATATGATGATATATTGTACTTGTATAT
1 CATATGTGATGATATATTGAACTTGTATATTCGGCCACATATGATGATATATTAAACATGAATAT
*
35620842 TTGGC
66 TTGAC
*
35620847 CATATGTGATGATATAATGAACCTTG-AGTATTCGGCCA
1 CATATGTGATGATATATTGAA-CTTGTA-TATTCGGCCA
35620885 TACAAGTAAG
Statistics
Matches: 83, Mismatches: 23, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
70 70 0.84
71 13 0.16
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (70 bp):
CATATGTGATGATATATTGAACTTGTATATTCGGCCACATATGATGATATATTAAACATGAATAT
TTGAC
Found at i:35622636 original size:79 final size:81
Alignment explanation
Indices: 35622535--35622719 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
35622525 ACGACTCGCT
** * *
35622535 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
35622598 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* * **
35622615 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCTGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
35622679 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
35622695 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35622720 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 54 0.60
80 34 0.38
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:35622719 original size:40 final size:39
Alignment explanation
Indices: 35622528--35622719 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 39
35622518 GGATATAACG
* ** * *
35622528 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
35622568 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
35622608 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
35622647 ACTCGCACGAATGCCTTC-TGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
35622687 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
35622720 CATCATTCGA
Statistics
Matches: 119, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
39 30 0.25
40 79 0.66
41 9 0.08
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:35624703 original size:40 final size:40
Alignment explanation
Indices: 35624563--35624717 Score: 179
Period size: 40 Copynumber: 3.9 Consensus size: 40
35624553 TGTGTATGAA
* *
35624563 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * *
35624602 TGTGCGAGCTATGATATCCGGGATAA-ACTCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGTC-CCGAAGGCAAT
* * *
35624642 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
* * * *
35624682 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGG
35624718 TGTTTGAACA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 23 0.23
40 74 0.76
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (40 bp):
TGTGCGAGTTATGATATCCGGGCTAAGTCCCGAAGGCAAT
Found at i:35631196 original size:29 final size:31
Alignment explanation
Indices: 35631138--35631225 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 31
35631128 TGAAAAGGTA
* *
35631138 TGTGTATATATAATATAT-ATGTATAGGAG-TT
1 TGTGT-TAT-TAATATATAATATATATGAGTTT
*
35631169 T-TGTTATTTATATATAATATATATGAGTTT
1 TGTGTTATTAATATATAATATATATGAGTTT
35631199 TGGTGTTATTAATATAATAATATATAT
1 T-GTGTTATTAATAT-ATAATATATAT
35631226 ATGCATGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
28 7 0.15
29 12 0.25
30 6 0.12
31 1 0.02
32 11 0.23
33 11 0.23
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (31 bp):
TGTGTTATTAATATATAATATATATGAGTTT
Found at i:35631224 original size:35 final size:32
Alignment explanation
Indices: 35631145--35631228 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 32
35631135 GTATGTGTAT
* * *
35631145 ATATAATATATATGTATAGGAGTTTTGTTATTT
1 ATATAATA-ATATATATATGAGTTTTGTTATTA
35631178 ATAT-AT-A-ATATATATGAGTTTTGGTGTTATTA
1 ATATAATAATATATATATGAG-TTT--TGTTATTA
35631210 ATATAATAATATATATATG
1 ATATAATAATATATATATG
35631229 CATGCATGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
29 9 0.21
30 4 0.10
32 13 0.31
33 6 0.14
34 1 0.02
35 9 0.21
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (32 bp):
ATATAATAATATATATATGAGTTTTGTTATTA
Found at i:35631322 original size:33 final size:31
Alignment explanation
Indices: 35631177--35631322 Score: 81
Period size: 33 Copynumber: 4.5 Consensus size: 31
35631167 TTTTGTTATT
35631177 TATATATAATATATATGAGT-TT-TGGTGTTATTA
1 TATATATAATATATAT-A-TATTGTGG-GTT-TTA
*
35631210 -ATATAATAATATATATATGCA-TGCATGGGTGTTA
1 TATAT-ATAATATATATAT--ATTG--TGGGTTTTA
* *
35631244 TATATATAATATAT-T-TA-AGTGGGTCTGTA
1 TATATATAATATATATATATTGTGGGT-TTTA
* * *
35631273 TATACATAGTACATATATATGTGTGGGTTTTA
1 TATATATAATATATATATAT-TGTGGGTTTTA
35631305 GTATATATAATATATATA
1 -TATATATAATATATATA
35631323 CTGTAACACC
Statistics
Matches: 87, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
28 5 0.06
29 13 0.15
30 3 0.03
31 3 0.03
32 9 0.10
33 33 0.38
34 12 0.14
35 6 0.07
36 3 0.03
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (31 bp):
TATATATAATATATATATATTGTGGGTTTTA
Found at i:35632788 original size:28 final size:29
Alignment explanation
Indices: 35632721--35632821 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
35632711 ATAGTGAATC
*
35632721 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
35632750 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
35632778 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
35632808 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35632822 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:35640850 original size:28 final size:29
Alignment explanation
Indices: 35640783--35640883 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
35640773 ATAGTGAATC
*
35640783 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
35640812 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
35640840 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
35640870 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35640884 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:35642467 original size:28 final size:28
Alignment explanation
Indices: 35642412--35642567 Score: 138
Period size: 29 Copynumber: 5.5 Consensus size: 28
35642402 AATTTAAGCC
* *** *
35642412 CGCACACACAGTGCCATACCCTCGAGCT
1 CGCACACTCAGTGCCATATTTTCCAGCT
*
35642440 CGCACACCCAGTGCCATATTTTCCAGCT
1 CGCACACTCAGTGCCATATTTTCCAGCT
*
35642468 CGCACA--CAGTGCCGTATTTTTCCAGCAT
1 CGCACACTCAGTGCCATA-TTTTCCAGC-T
* * *
35642496 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTCAGTGCCATAT-TTTCCAGCT
* *
35642524 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTCAGTGCCATAT-TTTCCAGCT
*
35642553 CGCACACTTAGTGCC
1 CGCACACTCAGTGCC
35642568 GAATCTCGTC
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.08
27 14 0.12
28 31 0.28
29 58 0.52
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (28 bp):
CGCACACTCAGTGCCATATTTTCCAGCT
Found at i:35642518 original size:29 final size:29
Alignment explanation
Indices: 35642440--35642567 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
35642430 CCCTCGAGCT
** *
35642440 CGCACACCCAGTGCCATAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
35642468 CGCACAC--AGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
35642495 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35642524 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
35642553 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
35642568 GAATCTCGTC
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 9 0.10
27 14 0.16
28 7 0.08
29 60 0.67
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:35643392 original size:141 final size:141
Alignment explanation
Indices: 35643204--35643497 Score: 556
Period size: 141 Copynumber: 2.1 Consensus size: 141
35643194 AAATTCTATA
35643204 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
35643269 TGTTAAACATTCGAACT-ACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
35643333 G-AAACAACAT
131 GAAAACAACAT
35643343 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
35643408 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
35643473 AGGAAAACAACAT
129 AGGAAAACAACAT
35643486 GCATGGCCGAAT
1 GCATGGCCGAAT
35643498 TTAACTCACC
Statistics
Matches: 151, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
139 19 0.13
141 63 0.42
142 48 0.32
143 21 0.14
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.22
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:35650404 original size:29 final size:29
Alignment explanation
Indices: 35650372--35650444 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
35650362 CTTCGAGCTC
*
35650372 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
35650401 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
35650430 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
35650445 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:35655400 original size:29 final size:28
Alignment explanation
Indices: 35655368--35655470 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
35655358 GTGACGAGAT
* *
35655368 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
35655397 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
35655426 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
35655455 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35655471 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:35663186 original size:29 final size:28
Alignment explanation
Indices: 35663154--35663255 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
35663144 GTGACGAGAT
* *
35663154 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
35663183 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACT-AGTGTGCGAGCTTGGAATATA
* *
35663212 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTA-GTGTGCGAGCTTGGAAT-ATA
35663241 TGGCA-TAAGTGTGCG
1 TGGCACT-AGTGTGCG
35663256 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.20
29 49 0.80
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAGTGTGCGAGCTTGGAATATA
Found at i:35669706 original size:10 final size:11
Alignment explanation
Indices: 35669691--35669736 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
35669681 ATTTTGATAT
*
35669691 ACATGATTTG-
1 ACATGATATGC
35669701 ACATGATATGC
1 ACATGATATGC
35669712 ACATGATATG-
1 ACATGATATGC
*
35669722 -TATGATATGC
1 ACATGATATGC
35669732 ACATG
1 ACATG
35669737 TTATATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:35669717 original size:11 final size:10
Alignment explanation
Indices: 35669685--35669736 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 10
35669675 CATGAGATTT
35669685 TGATAT-ACA
1 TGATATGACA
*
35669694 TGATTTGACA
1 TGATATGACA
35669704 TGATATGCACA
1 TGATATG-ACA
*
35669715 TGATATG-TA
1 TGATATGACA
35669724 TGATATGCACA
1 TGATATG-ACA
35669735 TG
1 TG
35669737 TTATATTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 13 0.37
10 9 0.26
11 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:35673596 original size:35 final size:35
Alignment explanation
Indices: 35673546--35673615 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
35673536 ACTTTTGGAG
35673546 TGGTTTGGGAATAAACCGATAACTTAAGAAACTTT
1 TGGTTTGGGAATAAACCGATAACTTAAGAAACTTT
* *
35673581 TGGTTTGGGACTAAACCGATAATTTAAGAAACTTT
1 TGGTTTGGGAATAAACCGATAACTTAAGAAACTTT
35673616 CACCAACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (35 bp):
TGGTTTGGGAATAAACCGATAACTTAAGAAACTTT
Found at i:35673856 original size:12 final size:12
Alignment explanation
Indices: 35673839--35673864 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35673829 CTACACACGC
35673839 CCGTGTGCTAGG
1 CCGTGTGCTAGG
35673851 CCGTGTGCTAGG
1 CCGTGTGCTAGG
35673863 CC
1 CC
35673865 ATGCCAAACC
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:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:35685036 original size:43 final size:42
Alignment explanation
Indices: 35684970--35685096 Score: 139
Period size: 43 Copynumber: 3.0 Consensus size: 42
35684960 TATAGCTCGT
* * *
35684970 ACAATGCCATATG-CCAGATATGGTTTTACAAGTTATCACATA
1 ACAATGCCA-ATGTCCAGACATGGTCTTACAAGTAATCACATA
* * * *
35685012 TCAATGCCAATGTTCCAGACATGGTCTTACACGAAATCATATA
1 ACAATGCCAATG-TCCAGACATGGTCTTACAAGTAATCACATA
* *
35685055 ACGATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ACAATGCCAATGTCC-AGACATGGTCTTACAAGTAATCACAT
35685097 CTCGGTAATC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 3 0.04
42 11 0.16
43 56 0.80
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (42 bp):
ACAATGCCAATGTCCAGACATGGTCTTACAAGTAATCACATA
Found at i:35687068 original size:28 final size:28
Alignment explanation
Indices: 35687036--35687096 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
35687026 TATATTGAAA
35687036 ATGCCCATAAAATGTGAAAGTATGATTT
1 ATGCCCATAAAATGTGAAAGTATGATTT
35687064 ATGCCCATAAAATGTGAAAGTATGATTT
1 ATGCCCATAAAATGTGAAAGTATGATTT
35687092 ATGCC
1 ATGCC
35687097 TATGTATGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (28 bp):
ATGCCCATAAAATGTGAAAGTATGATTT
Found at i:35688161 original size:15 final size:15
Alignment explanation
Indices: 35688143--35688172 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35688133 ATACATTTTC
35688143 ATAAACATCATTTAA
1 ATAAACATCATTTAA
*
35688158 ATAAATATCATTTAA
1 ATAAACATCATTTAA
35688173 GTCTAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAACATCATTTAA
Found at i:35691572 original size:28 final size:28
Alignment explanation
Indices: 35691490--35691579 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
35691480 TGAGCATGAC
35691490 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
35691519 TATAAATGTGATTTGGGCTTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
35691548 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
35691576 TATA
1 TATA
35691580 CAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:35696223 original size:23 final size:23
Alignment explanation
Indices: 35696194--35696405 Score: 252
Period size: 23 Copynumber: 9.2 Consensus size: 23
35696184 GAAATCTATA
35696194 GGCTACAATATAGTGGTAGCTAT-
1 GGCTACAATATAGTGGTAGCT-TC
* *
35696217 GGTTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAATAT-AGTGGTAGCTTC
*
35696240 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
*
35696263 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAATAT-AGTGGTAGCTTC
* *
35696286 GGCTACAATACAGTGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
*
35696309 GGCTAC-ATCTCAGTGGTAGCTTC
1 GGCTACAATAT-AGTGGTAGCTTC
*
35696332 GGCTACAATATAGTGGTAGCTTT
1 GGCTACAATATAGTGGTAGCTTC
*
35696355 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
** *
35696378 GGCTACGTTATAGTGATAGCTTC
1 GGCTACAATATAGTGGTAGCTTC
35696401 GGCTA
1 GGCTA
35696406 TATTACAGTA
Statistics
Matches: 161, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.05
23 146 0.91
24 7 0.04
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (23 bp):
GGCTACAATATAGTGGTAGCTTC
Found at i:35696270 original size:46 final size:46
Alignment explanation
Indices: 35696194--35696405 Score: 311
Period size: 46 Copynumber: 4.6 Consensus size: 46
35696184 GAAATCTATA
*
35696194 GGCTACAATATAGTGGTAGCTAT-GGTTACATCTCAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCT-TCGGCTACATCTCAGTGGTAGCTTC
*
35696240 GGCTACAATACAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTC
* *
35696286 GGCTACAATACAGTGGTAGCTTTGGCTACATCTCAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTC
* *
35696332 GGCTACAATATAGTGGTAGCTTTGGCTACAAT-ACAGTGGTAGCTTC
1 GGCTACAATATAGTGGTAGCTTCGGCTAC-ATCTCAGTGGTAGCTTC
** *
35696378 GGCTACGTTATAGTGATAGCTTCGGCTA
1 GGCTACAATATAGTGGTAGCTTCGGCTA
35696406 TATTACAGTA
Statistics
Matches: 155, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 152 0.98
47 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
GGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAGCTTC
Found at i:35698444 original size:49 final size:49
Alignment explanation
Indices: 35698380--35698606 Score: 249
Period size: 49 Copynumber: 4.6 Consensus size: 49
35698370 CTGGTACGTA
*
35698380 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACG
* * ** ** * *
35698429 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCAGTACACG
* * * *** *
35698479 TAGTAGCTTGCACTTAGTACTACACACGTG-ATCGAAGTTATTGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCAGTACACG
* *
35698530 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACG
35698579 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
35698607 TGACCTCACA
Statistics
Matches: 141, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
49 68 0.48
50 40 0.28
51 32 0.23
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCAGTACACG
Found at i:35698550 original size:101 final size:98
Alignment explanation
Indices: 35698380--35698609 Score: 282
Period size: 100 Copynumber: 2.3 Consensus size: 98
35698370 CTGGTACGTA
* *
35698380 TAGTAGCCTGCACTTAGTACTACACA-TGCAACCAATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACAGTG-AACCAATTATCCGGTACACATAGTAGCCTACACTT
* * *
35698444 AGTACTACATACGTGACCTAACCATCTAATACACG
65 AGTACTACACACGCGACC-AACCATCCAATACACG
* * * **
35698479 TAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACACATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACA-GTGAACCAA-TTATCCGGTACACATAGTAGCCTACACT
* ** *
35698544 TAGTACTACACATGCGACCAATTATCCAGTACACG
64 TAGTACTACACACGCGACCAACCATCCAATACACG
35698579 TAGTAGCCTGCACTTAGTACTACACATGTGA
1 TAGTAGCCTGCACTTAGTACTACACA-GTGA
35698610 CCTCACAATA
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 25 0.22
100 45 0.40
101 42 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACAGTGAACCAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCAACCATCCAATACACG
Found at i:35701427 original size:100 final size:99
Alignment explanation
Indices: 35701299--35701524 Score: 294
Period size: 100 Copynumber: 2.3 Consensus size: 99
35701289 GTAAGGTCAT
*
35701299 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGGTCACATGTGTAGTACTAAG
* *
35701363 TGCAGGCTACTATGCGTTCTC-AATAACTTCGATCAC
66 TGCAGGCTACTACGCGTAC-CGAATAA-TT-GATCAC
* ** * *
35701399 GTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTGCTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGGTCACATGTGTAGTACTAAG
* * *
35701464 TGCAGGCTACTACGTGTACCGGATAATTGGTCAC
66 TGCAGGCTACTACGCGTACCGAATAATTGATCAC
* *
35701498 ATGTGTAGTACTAAGTGCATGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
35701525 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
99 30 0.27
100 43 0.39
101 38 0.34
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTAGGTCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCGAATAATTGATCAC
Found at i:35701532 original size:49 final size:50
Alignment explanation
Indices: 35701300--35701537 Score: 275
Period size: 49 Copynumber: 4.8 Consensus size: 50
35701290 TAAGGTCATG
* *
35701300 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * *
35701349 TGTGTAGTACTAAGTGCAGGCTACTATGCGTTCTCA-ATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAA-TTAGGTCACA
* * ** *
35701400 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* *
35701450 TGTGTAGTGCTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * *
35701499 TGTGTAGTACTAAGTGCATGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
35701538 GCTTTGGCTA
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 73 0.46
50 50 0.32
51 34 0.22
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:35712173 original size:49 final size:50
Alignment explanation
Indices: 35712024--35712193 Score: 177
Period size: 49 Copynumber: 3.5 Consensus size: 50
35712014 AGATGCTGAC
** * *
35712024 GCCATGTCCCGGACATGGTCTTACACTGGCTCACA-C-ATCAAAGTCAAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTATCGAAGTCAAT
* * * * * * *
35712072 GCCATGTCCCAGACATGGTCTTACATTGACTCTTATATATCGAAGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTATCGAAGTCAAT
* **
35712122 GCCAT-TCCCAAACATGGTCTTACACTGGCTCTCATCTGTCGGTGTCAAT
1 GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTATCGAAGTCAAT
35712171 GCCATGT-CCAAGACATGGTCTTA
1 GCCATGTCCCAA-ACATGGTCTTA
35712194 TACTAGATTT
Statistics
Matches: 99, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
48 30 0.30
49 43 0.43
50 26 0.26
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTATCGAAGTCAAT
Found at i:35716389 original size:46 final size:44
Alignment explanation
Indices: 35716322--35716591 Score: 234
Period size: 46 Copynumber: 5.9 Consensus size: 44
35716312 TGTAACCCGC
*
35716322 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGAGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGA-TTCGTAT
* *
35716368 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGTA--T
* *** * * * * *
35716414 ACATCTCTCAAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTC-G-GATTCGTAT
* *
35716461 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGTA--T
* *** * *
35716507 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGTAT
* *
35716554 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
35716592 GCCTAAATAT
Statistics
Matches: 176, Mismatches: 38, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
44 10 0.06
45 4 0.02
46 93 0.53
47 60 0.34
48 1 0.01
49 8 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGTAT
Found at i:35716438 original size:93 final size:93
Alignment explanation
Indices: 35716331--35716596 Score: 444
Period size: 93 Copynumber: 2.9 Consensus size: 93
35716321 CCCATAAGTG
* * *
35716331 AACTCAGACTCAACTCAACGAGCTCGGGA-GTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCAGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35716395 CGAGCTCGGATGCCTAGTTACATCTCTCA
65 CGAGCTCGGATGCCTAGTTACATCTCTCA
*
35716424 AACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
35716489 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* *
35716517 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
35716582 GAGTTCGGATGCCTA
66 GAGCTCGGATGCCTA
35716597 AATATCCTAG
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 2 0.01
93 161 0.99
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:35716445 original size:47 final size:47
Alignment explanation
Indices: 35716377--35716544 Score: 186
Period size: 47 Copynumber: 3.6 Consensus size: 47
35716367 TCCATAAGTG
35716377 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCA
* * * * *
35716424 AACTCAGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATC-CATAA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTC-TCA
*
35716467 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCG
1 ---AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCA
*
35716517 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGCTCGGA
35716545 CATTCGCATC
Statistics
Matches: 98, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 2 0.02
45 1 0.01
46 23 0.23
47 50 0.51
48 1 0.01
49 2 0.02
50 6 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:35720068 original size:15 final size:15
Alignment explanation
Indices: 35720050--35720079 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35720040 ATACATTTTC
35720050 ATAAACATCATTTAA
1 ATAAACATCATTTAA
*
35720065 ATAAATATCATTTAA
1 ATAAACATCATTTAA
35720080 GTCTAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAACATCATTTAA
Found at i:35720857 original size:20 final size:18
Alignment explanation
Indices: 35720832--35720869 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35720822 AATACCACAT
35720832 ATACACACAAACTTTAAC
1 ATACACACAAACTTTAAC
35720850 ATACACACAAACTTTAAC
1 ATACACACAAACTTTAAC
35720868 AT
1 AT
35720870 TACAATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
ATACACACAAACTTTAAC
Found at i:35729023 original size:46 final size:46
Alignment explanation
Indices: 35728924--35729140 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 46
35728914 GTTATTGTTG
* * * **
35728924 GCTAGTGTAAGATATGTCGGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* *
35728970 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGAAGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
* * *
35729016 GCTAGTGTAAGACATGTCTGGAACATGCATTGG-CTACAA-ATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGAGA
* * ** *
35729061 G-TCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGAGATGTGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGA
* *
35729108 GCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
35729141 AGTGTGACAG
Statistics
Matches: 143, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.01
45 15 0.10
46 84 0.59
47 42 0.29
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:35729086 original size:92 final size:93
Alignment explanation
Indices: 35728924--35729094 Score: 238
Period size: 92 Copynumber: 1.8 Consensus size: 93
35728914 GTTATTGTTG
* * *
35728924 GCTAGTGTAAGATATGTCGGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCGGGAACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACATGTCT
*
35728989 GGGACAT-GCATCGGCCTCAAGAAGTAA
66 AGGACATGGCATCGGCCTCAAGAAGTAA
* * * * *
35729016 GCTAGTGTAAGACATGTCTGGAACATGCATTGGCTACA-AATGATAGTCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCGGGAACATGCATCGGCCACATAATGAGAGCCAGTGTAAGA-CATGTC
35729080 TAGGACATGGCATCG
65 TAGGACATGGCATCG
35729095 ACTTGAGATG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
91 16 0.24
92 46 0.68
93 6 0.09
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCGGGAACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACATGTCT
AGGACATGGCATCGGCCTCAAGAAGTAA
Found at i:35729115 original size:92 final size:91
Alignment explanation
Indices: 35728927--35729140 Score: 225
Period size: 92 Copynumber: 2.3 Consensus size: 91
35728917 ATTGTTGGCT
* * * *
35728927 AGTGTAAGATATGTCGGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTC-TGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACATGTCTAGG
* *
35728992 ACATGCATCGGCCTCAAGAAGTAAGCT
65 ACATGCATCGGACTCAAGAAGTAAGCC
* * * *
35729019 AGTGTAAGACATGTCTGGAACATGCATTGGCTACA-AATGATAGTCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGG-ACATGCATCGGCCACATAATGAGAGCCAGTGTAAGA-CATGTCTAG
** * *
35729083 GACATGGCATC-GACTTGAGATGTGAGCC
64 GACAT-GCATCGGACTCAAGAAGTAAGCC
35729111 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCT-GGACAT-GCATC
35729141 AGTGTGACAG
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
91 18 0.18
92 61 0.60
93 16 0.16
94 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACATGTCTAGGA
CATGCATCGGACTCAAGAAGTAAGCC
Found at i:35729517 original size:17 final size:17
Alignment explanation
Indices: 35729491--35729524 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35729481 TATATATTTG
*
35729491 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
35729508 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
35729525 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:35730877 original size:24 final size:24
Alignment explanation
Indices: 35730845--35730979 Score: 164
Period size: 24 Copynumber: 5.6 Consensus size: 24
35730835 GAAATGACAT
*
35730845 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
35730869 TGGCACTATGTGTGCAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
35730893 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
35730917 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * * *
35730942 -GGCACTATATGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
35730965 TGGTACTATGTGTGC
1 TGGCACTATGTGTGC
35730980 AAATTTCCTT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 1 0.01
24 93 0.97
25 2 0.02
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:35730973 original size:72 final size:72
Alignment explanation
Indices: 35730845--35730979 Score: 182
Period size: 72 Copynumber: 1.9 Consensus size: 72
35730835 GAAATGACAT
* * * *
35730845 TGGCACTATGTGTGTGGATTTGAATGGCACTATGTGTGCAGATTTGAATGGCACTATGTGTGCGG
1 TGGCACTACGTGTGTGGATTAGAATGGCACTATATGTGCAGATTAGAATGGCACTATGTGTGCGG
35730910 ATTTGAA
66 ATTTGAA
* * * *
35730917 TGGCACTACGTGTGTGGATTAGCAA-GGCACTATATGTGCGGGTTAGCATGGTACTATGTGTGC
1 TGGCACTACGTGTGTGGATTAG-AATGGCACTATATGTGCAGATTAGAATGGCACTATGTGTGC
35730980 AAATTTCCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
72 52 0.96
73 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (72 bp):
TGGCACTACGTGTGTGGATTAGAATGGCACTATATGTGCAGATTAGAATGGCACTATGTGTGCGG
ATTTGAA
Found at i:35737670 original size:40 final size:40
Alignment explanation
Indices: 35737625--35737792 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
35737615 CGGAATATAA
35737625 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
35737665 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
35737705 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35737745 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
35737785 CCGGATAT
1 CCGGATAT
35737793 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35742988 original size:49 final size:49
Alignment explanation
Indices: 35742931--35743155 Score: 272
Period size: 49 Copynumber: 4.5 Consensus size: 49
35742921 CTGGTATGCA
* * *
35742931 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCTGTACACG
*
35742980 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCTGTACACG
* **
35743029 TAGCAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCTG-TACACG
* * *** ** *
35743079 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCTGTACACG
35743130 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
35743156 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
49 79 0.52
50 40 0.26
51 32 0.21
52 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCTGTACACG
Found at i:35743105 original size:99 final size:100
Alignment explanation
Indices: 35742929--35743162 Score: 294
Period size: 99 Copynumber: 2.4 Consensus size: 100
35742919 ATCTGGTATG
* * * **
35742929 CATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCTGTACACGTAGTAGCCTGCACT
1 CATAGCAGCCTGCACTTAGTACTACACACGCGACCAACCATCCTGTACACGTAGTAGCCTGCACT
35742994 TAGTACTACACACGTGA-C-CAATTATCCGGTACA
66 TAGTACTACACACGTGATCACAATTATCCGGTACA
* *
35743027 CGTAGCAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACACGTAGTAGCCTGCA
1 CATAGCAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCTG-TACACGTAGTAGCCTGCA
* * ** **
35743091 CTTAGTACTACACACGTGATCACAGTTTTTGGGTATG
64 CTTAGTACTACACACGTGATCACAATTATCCGGTACA
* *
35743128 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGCAGCCTGCACTTAGTACTACACACGCGACC
35743163 TCACAATAGA
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
98 33 0.29
99 41 0.36
100 1 0.01
101 40 0.35
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (100 bp):
CATAGCAGCCTGCACTTAGTACTACACACGCGACCAACCATCCTGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGATCACAATTATCCGGTACA
Found at i:35744908 original size:24 final size:24
Alignment explanation
Indices: 35744881--35745015 Score: 146
Period size: 24 Copynumber: 5.6 Consensus size: 24
35744871 GAAATGACAT
* *
35744881 TGGCACTATATGCGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
35744905 TGGCACAATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
35744929 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
35744953 TGGCACTACGTGTGTGGATTAGTAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * * **
35744978 -GGCACTATGTGTACGGGTTAGCG
1 TGGCACTATGTGTGCGGATTTGAA
35745001 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
35745016 AAATTTCCTT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 91 0.98
25 2 0.02
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Done.