Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 164 of 325
Found at i:53011586 original size:17 final size:17
Alignment explanation
Indices: 53011564--53011596 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53011554 ATCTGACAAA
*
53011564 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
53011581 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
53011597 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:53012841 original size:48 final size:48
Alignment explanation
Indices: 53012787--53012983 Score: 358
Period size: 48 Copynumber: 4.1 Consensus size: 48
53012777 ACACATCGCC
*
53012787 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
53012835 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
53012883 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
53012931 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
53012979 TACAT
1 TACAT
53012984 CAATTTCCGC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:53023458 original size:27 final size:27
Alignment explanation
Indices: 53023356--53023459 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
53023346 AATACTTTAG
*
53023356 TTTACCAAATTATTGAAATACCCTCGA
1 TTTACAAAATTATTGAAATACCCTCGA
* ** ** *
53023383 CTTGTAAAATTA-ACAAAGTACCCCCGA
1 TTTACAAAATTATTGAAA-TACCCTCGA
** *** *
53023410 TTTACAAAATTACCGTTTTACCATCGA
1 TTTACAAAATTATTGAAATACCCTCGA
53023437 TTTACAAAATTATTGAAATACCC
1 TTTACAAAATTATTGAAATACCC
53023460 CTGTAGGGTA
Statistics
Matches: 52, Mismatches: 23, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
26 3 0.06
27 49 0.94
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTATTGAAATACCCTCGA
Found at i:53023480 original size:27 final size:27
Alignment explanation
Indices: 53023444--53023584 Score: 142
Period size: 27 Copynumber: 5.2 Consensus size: 27
53023434 CGATTTACAA
*
53023444 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53023471 AGTTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
53023498 AATTA-TCGAAATACCCTTGTAGGGCAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* **
53023525 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
53023552 AATTA-TCGAGATACCCTTGTGGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
53023579 AATTAC
1 AATTAC
53023585 CATTTTGCCC
Statistics
Matches: 91, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 90 0.99
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:53023509 original size:54 final size:54
Alignment explanation
Indices: 53023444--53023586 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 54
53023434 CGATTTACAA
* * ** **
53023444 AATTATTGAAATACCCCTGTAGGGTAGAGTTACTGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAG
* *
53023498 AATTATCGAAATACCCTTGTAGGGCAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAG
* *
53023552 AATTATCGAGATACCCTTGTGGGGTA-AAATTACCA
1 AATTATCGAAATACCCTTGTAGGGTAGAAA-TACCA
53023587 TTTTGCCCCT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 3 0.04
54 74 0.96
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAG
Found at i:53024148 original size:27 final size:26
Alignment explanation
Indices: 53024077--53024206 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 26
53024067 TGGAGGAAGC
*
53024077 GTTCTGGTGGCAATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
53024104 GTTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
53024132 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
53024158 GTTTCTGGTGACTCTATCACAATATCT
1 G-TTCTGGTGGCTATGCCACAATATCT
* * *
53024185 GTTCTGGTAGCCATGCTACAAT
1 GTTCTGGTGGCTATGCCACAAT
53024207 TTCTATGGTG
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.25
27 41 0.46
28 26 0.29
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:53024179 original size:54 final size:54
Alignment explanation
Indices: 53024077--53024192 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
53024067 TGGAGGAAGC
* *
53024077 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATACCAC-AATATCT
** * *
53024132 GTTCTGGTGGCTCTGCCAC-AATATCTGTTTCTGGTGACTCTATCACAATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATACCACAATATCT
53024185 GTTCTGGT
1 GTTCTGGT
53024193 AGCCATGCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 15 0.27
54 23 0.42
55 17 0.31
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGACTATACCACAATATCT
Found at i:53024206 original size:53 final size:54
Alignment explanation
Indices: 53024077--53024206 Score: 165
Period size: 53 Copynumber: 2.4 Consensus size: 54
53024067 TGGAGGAAGC
* * *
53024077 GTTCTGGTGGCAATGCCACAAATATCTGTTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCCATGCCAC-AATATCTGTTTCTGGTGACTATACCACAAATATCT
* *
53024132 GTTCTGGTGGCTC-TGCCACAATATCTGTTTCTGGTGACTCTATCAC-AATATCT
1 GTTCTGGTGGC-CATGCCACAATATCTGTTTCTGGTGACTATACCACAAATATCT
* *
53024185 GTTCTGGTAGCCATGCTACAAT
1 GTTCTGGTGGCCATGCCACAAT
53024207 TTCTATGGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
52 1 0.02
53 25 0.38
54 23 0.35
55 17 0.26
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCCATGCCACAATATCTGTTTCTGGTGACTATACCACAAATATCT
Found at i:53049555 original size:19 final size:21
Alignment explanation
Indices: 53049527--53049569 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
53049517 TTTGTTTTTC
*
53049527 TTTCTTTTCTTC-CTGC-CAA
1 TTTCTATTCTTCTCTGCACAA
53049546 TTTCTATTCTTCTCTGCACAA
1 TTTCTATTCTTCTCTGCACAA
53049567 TTT
1 TTT
53049570 TCTTTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 4 0.19
21 6 0.29
ACGTcount: A:0.14, C:0.28, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTCTATTCTTCTCTGCACAA
Found at i:53050211 original size:24 final size:24
Alignment explanation
Indices: 53050177--53050227 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
53050167 ATGTATCGAA
*
53050177 AAAAGCTGAAATGCCAAAAAGCCG
1 AAAAGCGGAAATGCCAAAAAGCCG
* *
53050201 AAAAGCGGAAATGCCGAAAAGCTG
1 AAAAGCGGAAATGCCAAAAAGCCG
53050225 AAA
1 AAA
53050228 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.18, G:0.24, T:0.08
Consensus pattern (24 bp):
AAAAGCGGAAATGCCAAAAAGCCG
Found at i:53050216 original size:16 final size:16
Alignment explanation
Indices: 53050197--53050227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53050187 ATGCCAAAAA
53050197 GCCGAAAAGCGGAAAT
1 GCCGAAAAGCGGAAAT
*
53050213 GCCGAAAAGCTGAAA
1 GCCGAAAAGCGGAAA
53050228 GTTTGGCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.29, T:0.06
Consensus pattern (16 bp):
GCCGAAAAGCGGAAAT
Found at i:53050485 original size:28 final size:28
Alignment explanation
Indices: 53050438--53050522 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
53050428 GTGAGCATGA
*
53050438 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
53050466 AT-TTAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
53050494 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
53050522 A
1 A
53050523 AATACAGGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 8 0.16
28 35 0.70
29 7 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:53060767 original size:19 final size:19
Alignment explanation
Indices: 53060730--53060773 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
53060720 AATTTAGGGA
**
53060730 TTATTTTTTTCCTTTAATT
1 TTATTTTTTTCCTAAAATT
53060749 TTATTTTTTTCCTAAAATT
1 TTATTTTTTTCCTAAAATT
*
53060768 CTATTT
1 TTATTT
53060774 CCCGTTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTTTCCTAAAATT
Found at i:53065546 original size:43 final size:43
Alignment explanation
Indices: 53065490--53065705 Score: 224
Period size: 43 Copynumber: 5.0 Consensus size: 43
53065480 CATAGGATTT
* *
53065490 TCGATATGTGATTTCGTGCAAGACCATGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * * *
53065533 TCGACT-TATGATTTACATGTAAGATCATGTCTGGGACATCGGCA
1 TCGA-TATTTGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCA
*
53065577 TCG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * * * *
53065619 TCGATATTTGATTTTGTGTAAGACCCTATTTGGGATAG-TGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGA-CGTTGGCA
* * *
53065662 TCGATATTTGATTACATGTAAGACCAAGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
53065705 T
1 T
53065706 TGTATGAGCT
Statistics
Matches: 142, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.20
43 86 0.61
44 28 0.20
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:53067591 original size:33 final size:33
Alignment explanation
Indices: 53067517--53067579 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
53067507 TCTCTGTTTG
*
53067517 GTGTGTTGGTTGGACTAGCTCTTATAAGCACTA
1 GTGTGTTGGTTGGACTAGCTCTTATAAACACTA
* *
53067550 GTGTGTTGGTTGGATTAGCTCTTCTAAACA
1 GTGTGTTGGTTGGACTAGCTCTTATAAACA
53067580 TTGATGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (33 bp):
GTGTGTTGGTTGGACTAGCTCTTATAAACACTA
Found at i:53076535 original size:5 final size:5
Alignment explanation
Indices: 53076527--53076576 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
53076517 CCTTAATACT
53076527 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
53076577 TCATGAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:53079584 original size:48 final size:48
Alignment explanation
Indices: 53079529--53079759 Score: 268
Period size: 48 Copynumber: 4.8 Consensus size: 48
53079519 GACATCGTGC
*
53079529 TATATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCAGCGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * *
53079577 TATATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * * **
53079625 TATGTATGCCAGTGTAAGACCATGTCTGGGACATGGCATCAATGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
* * **
53079673 TATGTGTGCCGGTCAAAGACCATGTCTGGGACATGGCATC-GACGATGA
1 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAG-CGATGA
* ** * *
53079721 TCTATG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 TATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
53079760 TAGTACTTTA
Statistics
Matches: 158, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
47 1 0.01
48 157 0.99
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGA
Found at i:53081180 original size:21 final size:19
Alignment explanation
Indices: 53081151--53081190 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
53081141 ATTATGTTCC
53081151 TTAACTATTTTGGTACAATTT
1 TTAACTATTTT--TACAATTT
*
53081172 TTAATTATTTTTACAATTT
1 TTAACTATTTTTACAATTT
53081191 AGAACAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAACTATTTTTACAATTT
Found at i:53081752 original size:38 final size:38
Alignment explanation
Indices: 53081709--53081870 Score: 198
Period size: 38 Copynumber: 4.0 Consensus size: 38
53081699 TTTTCAAATA
*
53081709 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
53081747 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
53081785 ACATGTATCGATATGTGTAAACGTGGTATATTCACTTAGCACCACGTT
1 AC----AT-G-TA----TAACCGTGGTATATCCACTTAGCACCACGTT
53081833 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
53081871 TTTCCATTCC
Statistics
Matches: 107, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
38 67 0.63
42 4 0.04
43 2 0.02
44 3 0.03
48 31 0.29
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:53081814 original size:48 final size:48
Alignment explanation
Indices: 53081749--53081840 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
53081739 ACCACGTTAC
* *
53081749 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCGAT
1 ATGTGTAAACGTGGTATATCCACTTAGCACCACGTTACATGTATCGAT
*
53081797 ATGTGTAAACGTGGTATATTCACTTAGCACCACGTTACATGTAT
1 ATGTGTAAACGTGGTATATCCACTTAGCACCACGTTACATGTAT
53081841 AACCGTGGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (48 bp):
ATGTGTAAACGTGGTATATCCACTTAGCACCACGTTACATGTATCGAT
Found at i:53081829 original size:86 final size:86
Alignment explanation
Indices: 53081711--53081870 Score: 275
Period size: 86 Copynumber: 1.9 Consensus size: 86
53081701 TTCAAATAAC
* *
53081711 ATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
1 ATGTATAAACGTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
53081776 CACCACGTTACATGTATCGAT
66 CACCACGTTACATGTATCGAT
* * *
53081797 ATGTGTAAACGTGGTATATTCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
1 ATGTATAAACGTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
53081862 CACCACGTT
66 CACCACGTT
53081871 TTTCCATTCC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (86 bp):
ATGTATAAACGTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAG
CACCACGTTACATGTATCGAT
Found at i:53082030 original size:23 final size:24
Alignment explanation
Indices: 53081967--53082030 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 24
53081957 ATACTAAAAC
* *
53081967 TTATTTCACATGTAACAAAATAAA
1 TTATTTAACATATAACAAAATAAA
* * *
53081991 TTATTATAACATAATAAGACAATACA
1 TTATT-TAACAT-ATAACAAAATAAA
53082017 TTATTT-ACATATAA
1 TTATTTAACATATAA
53082031 ACTTACCTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 4 0.12
24 9 0.27
25 6 0.18
26 14 0.42
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (24 bp):
TTATTTAACATATAACAAAATAAA
Found at i:53088819 original size:38 final size:38
Alignment explanation
Indices: 53088776--53088984 Score: 184
Period size: 38 Copynumber: 5.0 Consensus size: 38
53088766 TTTTCAAATA
*
53088776 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
53088814 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
53088855 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
53088899 ACATGTATCGATATGTGTAAACGTGGTATATTCACTTAGCACCACGTT
1 AC----AT-G-TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
53088947 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
53088985 TTTCCATTCC
Statistics
Matches: 142, Mismatches: 13, Indels: 32
0.76 0.07 0.17
Matches are distributed among these distances:
38 63 0.44
39 1 0.01
41 2 0.01
42 3 0.02
43 2 0.01
44 5 0.04
45 3 0.02
46 3 0.02
47 28 0.20
48 32 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:53088937 original size:48 final size:48
Alignment explanation
Indices: 53088816--53088954 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
53088806 ACCACGTTAC
* *
53088816 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
53088863 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
53088911 ATGTGTAAACGTGGTATATTCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
53088955 AACCGTGGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 34 0.42
48 47 0.58
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:53093617 original size:31 final size:30
Alignment explanation
Indices: 53093582--53093643 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
53093572 TCCTTAACTC
53093582 AAACTTTTGAAAAAATTACAATTTTGCCCCT
1 AAACTTTTG-AAAAATTACAATTTTGCCCCT
* * * *
53093613 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
53093643 A
1 A
53093644 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:53096363 original size:47 final size:47
Alignment explanation
Indices: 53096285--53096539 Score: 393
Period size: 47 Copynumber: 5.3 Consensus size: 47
53096275 CCCTTCGGGA
* * * * * *
53096285 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53096332 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53096379 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53096426 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53096475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53096524 CTTATCACATATATAC
1 CTTATCACATATATAC
53096540 TTATCACATA
Statistics
Matches: 194, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 98 0.51
49 96 0.49
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53096459 original size:49 final size:49
Alignment explanation
Indices: 53096285--53096660 Score: 446
Period size: 49 Copynumber: 7.6 Consensus size: 49
53096275 CCCTTCGGGA
* * * * *
53096285 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53096332 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53096379 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53096426 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53096475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
53096524 CTTATCACATATATACTTATCACATATATACACTTTCA-CATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATA--TA-CAC-T-T-T-CACATTCATCA--CAT--C--GGCCA-TTAGGC
*
53096586 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53096635 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
53096661 CACAATTATC
Statistics
Matches: 290, Mismatches: 20, Indels: 38
0.83 0.06 0.11
Matches are distributed among these distances:
46 1 0.00
47 95 0.33
49 127 0.44
50 2 0.01
51 2 0.01
52 4 0.01
53 1 0.00
54 4 0.01
55 10 0.03
56 10 0.03
57 4 0.01
58 1 0.00
59 4 0.01
60 2 0.01
61 2 0.01
62 21 0.07
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53096558 original size:17 final size:15
Alignment explanation
Indices: 53096524--53096554 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53096514 GCCATTAGGC
53096524 CTTATCACATATATA
1 CTTATCACATATATA
53096539 CTTATCACATATATA
1 CTTATCACATATATA
53096554 C
1 C
53096555 ACTTTCACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (15 bp):
CTTATCACATATATA
Found at i:53096561 original size:111 final size:112
Alignment explanation
Indices: 53096426--53096649 Score: 423
Period size: 111 Copynumber: 2.0 Consensus size: 112
53096416 GCCATTAGGC
53096426 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
53096491 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
65 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
53096539 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
*
53096603 CACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATA
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
53096650 TACATTCACA
Statistics
Matches: 110, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
111 102 0.93
113 8 0.07
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (112 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:53096594 original size:31 final size:31
Alignment explanation
Indices: 53096497--53096595 Score: 91
Period size: 31 Copynumber: 3.2 Consensus size: 31
53096487 ATATACACTT
53096497 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
* **
53096528 TCACATAT-AT-ACTTATC--ACATATATACACTT-
1 TCACAT-TCATCAC--ATCGGCCAT-TAGGC-CTTA
53096559 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
53096590 TCACAT
1 TCACAT
53096596 ATATATACAC
Statistics
Matches: 52, Mismatches: 6, Indels: 20
0.67 0.08 0.26
Matches are distributed among these distances:
30 12 0.23
31 28 0.54
32 12 0.23
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:53096603 original size:64 final size:63
Alignment explanation
Indices: 53096475--53096600 Score: 236
Period size: 62 Copynumber: 2.0 Consensus size: 63
53096465 GCCATTAGGC
53096475 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
53096539 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
53096601 TACACTTTCA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 54 0.87
64 8 0.13
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (63 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:53104392 original size:44 final size:44
Alignment explanation
Indices: 53104318--53104403 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
53104308 TACATGTATT
* *
53104318 GCATCCATAATGAACCCAGAACAACTCAACGAGCTCGGATGCTC
1 GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGCTC
*** *
53104362 GCATCCATAATGAACTTGGACCAACCCAACGAGCTCAGATGC
1 GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGC
53104404 CTCATACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (44 bp):
GCATCCATAATGAACCCAGAACAACCCAACGAGCTCAGATGCTC
Found at i:53111144 original size:27 final size:27
Alignment explanation
Indices: 53111114--53111403 Score: 249
Period size: 27 Copynumber: 10.7 Consensus size: 27
53111104 TATAGGATAG
* *
53111114 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
53111141 AATTACCAAAATACCCATGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
53111168 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
53111195 AATTACCGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
53111222 AATTATCGAAATA-CCTTCAATTTGTAA
1 AATTACCAAAATACCCTT-GATTTGTAA
* *
53111249 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * **
53111276 AATTATAAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
53111303 AATTACAAAAATGCCCTTGAATTTCAAA
1 AATTACCAAAATACCCTTG-ATTTGTAA
* * * *
53111331 AATTACTAAAATACCATTGGTTTGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * * *
53111358 AATTATCGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
53111385 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
53111404 TAGGGTGAAA
Statistics
Matches: 213, Mismatches: 47, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
26 3 0.01
27 185 0.87
28 25 0.12
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:53111875 original size:22 final size:22
Alignment explanation
Indices: 53111823--53111887 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
53111813 GCCCATTATT
* *
53111823 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
53111845 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
53111867 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
53111888 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:53112115 original size:22 final size:22
Alignment explanation
Indices: 53112097--53112161 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
53112087 CGTTGCTGCT
* *
53112097 ATGTTTACGGCTATGTGCTATC
1 ATGTTTACGGCTATGTGCTGTA
53112119 ATGTTTACGGCTATGTGCTGTA
1 ATGTTTACGGCTATGTGCTGTA
*
53112141 ATGTTTATGGCTATGTGCTGT
1 ATGTTTACGGCTATGTGCTGT
53112162 CCTGTCTACG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (22 bp):
ATGTTTACGGCTATGTGCTGTA
Found at i:53116051 original size:182 final size:181
Alignment explanation
Indices: 53115736--53116098 Score: 557
Period size: 182 Copynumber: 2.0 Consensus size: 181
53115726 TAGCTTCTCC
**
53115736 GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGTGGACTAATAAATGCCAATAGAGTTTTG
1 GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTTG
* * * **
53115801 ATAGATTAAAAGCTTTATTGACAGAAGCACCAGTGTTAGTTCAACCAGAATTGGGTGAGGAATTT
66 ATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAACCGGGTGAGGAATTT
*
53115866 ACAGTTTAGAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
131 ACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
* *
53115917 GATGACTCGTTTATTGCAAAAAAGATGTAAAATTTGAGCAGACTAATAAATTCCAATAGAGTTTT
1 GATGACTCGTTTAATGC-AAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTT
** * *
53115982 GATAGATGAAAAGCTTTATTGATTGAAACAACAGTGTTAGTTCAGCCAGAACCGGGT-ATGAAGT
65 GATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAACCGGGTGAGGAA-T
* *
53116046 TTACAGTTTACAGTGATGTGTCATTGAATGGTTTAGGCTGTGTTTTGATGCAA
129 TTACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
53116099 TATGGTAAAG
Statistics
Matches: 164, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
181 20 0.12
182 144 0.88
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (181 bp):
GATGACTCGTTTAATGCAAAAAGATGTAAAATTTGAGCAGACTAATAAATGCCAATAGAGTTTTG
ATAGATGAAAAGCTTTATTGACAGAAACAACAGTGTTAGTTCAACCAGAACCGGGTGAGGAATTT
ACAGTTTACAGTGATGCGTCATTGAATGGTTTAAGCTGTGTTTTGATGCAA
Found at i:53119489 original size:49 final size:50
Alignment explanation
Indices: 53119358--53119598 Score: 270
Period size: 51 Copynumber: 4.8 Consensus size: 50
53119348 TCTATTGTGA
* * *
53119358 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGAAAA-TGT
* * * * * * *
53119409 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAAT-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGAAAATGT
* * *
53119458 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAAATGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCGGAAAATGT
* * * * * **
53119509 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAT-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGAAAATGT
53119558 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
53119599 AGATAGCTTC
Statistics
Matches: 154, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 70 0.45
50 13 0.08
51 71 0.46
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGAAAATGT
Found at i:53119531 original size:100 final size:100
Alignment explanation
Indices: 53119358--53119598 Score: 410
Period size: 100 Copynumber: 2.4 Consensus size: 100
53119348 TCTATTGTGA
* *
53119358 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAAATGTGATCACGTGTGTAG
* *
53119423 TACTAAGTGTAGGCTACTACGTGTACCGGATAATT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
53119458 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAAATGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAAATGTGATCACGTGTGTAG
* *
53119523 TACTAAGTGCAGGCTACTATGTGTACCAGATTATT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
53119558 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACC
53119599 AGATAGCTTC
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 132 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (100 bp):
GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAAATGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:53119599 original size:49 final size:50
Alignment explanation
Indices: 53119358--53119603 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
53119348 TCTATTGTGA
* * * *
53119358 GGTCGGATGTGTAGTACTAAATGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TGT
* * * * * * *
53119409 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAAT-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATGT
* * * *
53119458 GGTCGCATGTGTAGTACTAAATGCAGACTACTATGCGTACCCGAAAAATGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-ATAATGT
* * * * *
53119509 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTAT-T
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATGT
53119558 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
53119604 GCTTCGGCTA
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 77 0.48
50 8 0.05
51 74 0.47
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (50 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATGT
Found at i:53124519 original size:43 final size:43
Alignment explanation
Indices: 53124458--53124544 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
53124448 GTTACATGTA
* * *
53124458 TCGCATCCATTATGAACTCGGACCAGTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGGACAACTCAACGAGCTCAGATGC
* *
53124501 TCGCATTCATAATGAACTCGGACAACTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGGACAACTCAACGAGCTCAGATGC
53124544 T
1 T
53124545 ACATATATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACAACTCAACGAGCTCAGATGC
Found at i:53124615 original size:42 final size:42
Alignment explanation
Indices: 53124515--53124621 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 42
53124505 ATTCATAATG
** *
53124515 AACTCGGACAACTCAATGAGCTCAGATGCTACATATATCACT
1 AACTCGGACAACTCAACAAGCTCAGATGCTACATATATCACA
** * * * *
53124557 AACTTAGACTAGTCAACAAGTTCAGATTCTCACATAT-TCACA
1 AACTCGGACAACTCAACAAGCTCAGATGCT-ACATATATCACA
* *
53124599 AACTCGGACCACTCAACGAGCTC
1 AACTCGGACAACTCAACAAGCTC
53124622 GGATTTCTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
42 43 0.88
43 6 0.12
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (42 bp):
AACTCGGACAACTCAACAAGCTCAGATGCTACATATATCACA
Found at i:53126312 original size:29 final size:29
Alignment explanation
Indices: 53126280--53126337 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
53126270 ATATGATAAT
*
53126280 GACTTGAAAGAATATTGCTTGATGAGCTC
1 GACTTGAAAGAATATTGCTCGATGAGCTC
*
53126309 GACTTGAAATAATATTGCTCGATGAGCTC
1 GACTTGAAAGAATATTGCTCGATGAGCTC
53126338 ATCTATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (29 bp):
GACTTGAAAGAATATTGCTCGATGAGCTC
Found at i:53130047 original size:40 final size:40
Alignment explanation
Indices: 53129826--53130043 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
53129816 AAACCAAGTA
* * *
53129826 CCTTCGGGATTTAG-CAGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
53129865 CCTTCGGGATTTAGCCTGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53129905 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53129945 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53129985 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53130025 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53130044 TTATCATCCG
Statistics
Matches: 168, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53137947 original size:40 final size:40
Alignment explanation
Indices: 53137866--53138127 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
53137856 AAACCAAGTA
* ** *
53137866 CCTTCGGGATTTAG-CCGGAAATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
53137905 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
53137945 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
53137985 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
53138025 CCTTCGGGACTTAGCCCGGTTATAGTAACTCAG-ACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTC-GCACAAATG
* *
53138065 CCTCCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
53138105 CCTTCGGGACTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGGTTAT
53138128 CATCCGAATA
Statistics
Matches: 206, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.08
40 189 0.92
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:53140098 original size:40 final size:40
Alignment explanation
Indices: 53140024--53140248 Score: 280
Period size: 40 Copynumber: 5.6 Consensus size: 40
53140014 AACCCAAGTA
* * *
53140024 CCTTCGGGATTTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
53140063 CCTTC-GGATCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATG
*
53140103 CCTTCGGGACTTAGCCTAGG-TATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCC-CGGATATAGTC-ACTA---GCACAAATG
*
53140146 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
53140186 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
53140226 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
53140249 CATCGAATAA
Statistics
Matches: 165, Mismatches: 10, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.02
39 10 0.06
40 110 0.67
41 6 0.04
42 2 0.01
43 33 0.20
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:53140144 original size:83 final size:80
Alignment explanation
Indices: 53140024--53140248 Score: 330
Period size: 83 Copynumber: 2.8 Consensus size: 80
53140014 AACCCAAGTA
* * *
53140024 CCTTCGGGATTTAG-CTGGATATAGCAACTCGCACAAATGCCTTC-GGATCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCAGGATATAGAAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATA
53140087 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
*
53140103 CCTTCGGGACTTAGCCTAGG-TATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGAT
1 CCTTCGGGACTTAGCC-AGGATATAG-AA--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
53140167 ATAGTCACTAGCACAAATG
62 ATAGTCACTAGCACAAATG
* *
53140186 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCAGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
53140249 CATCGAATAA
Statistics
Matches: 132, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
79 13 0.10
80 41 0.31
81 3 0.02
82 3 0.02
83 69 0.52
84 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCAGGATATAGAAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:53148974 original size:37 final size:37
Alignment explanation
Indices: 53148923--53149002 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
53148913 CTTATTACAA
* * *
53148923 AGTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
* *
53148960 GGTCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
53148997 AGTCTT
1 AGTCTT
53149003 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
Found at i:53149199 original size:47 final size:47
Alignment explanation
Indices: 53149121--53149439 Score: 487
Period size: 47 Copynumber: 6.7 Consensus size: 47
53149111 CCCTTCGGGA
* * * * * *
53149121 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53149168 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53149215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53149262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53149309 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53149356 CTTATAACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53149405 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
53149440 AGAATCCTAA
Statistics
Matches: 252, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 207 0.82
49 44 0.17
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53153138 original size:40 final size:40
Alignment explanation
Indices: 53152970--53153152 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
53152960 CCAGCATGAT
* * * *
53152970 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
53153010 TGCTCTTCGGGACCTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
53153050 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
* *
53153090 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATAT-ATCAC-TAGCACGAA
* *
53153131 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
53153153 CATCATTCAA
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
40 116 0.89
41 8 0.06
42 6 0.05
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
Found at i:53153497 original size:29 final size:29
Alignment explanation
Indices: 53153458--53153536 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53153448 CTTAATAATC
*
53153458 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
53153488 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
53153517 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53153537 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:53153579 original size:43 final size:43
Alignment explanation
Indices: 53153518--53153620 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
53153508 TGCATTTCAA
53153518 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
53153561 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
53153604 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
53153621 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:53155588 original size:36 final size:36
Alignment explanation
Indices: 53155485--53155598 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 36
53155475 TTATTACGAA
* * *
53155485 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
53155522 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAAT-CCCACACGTAGTCATCGG
53155559 GTCTTACCCGGACAAAATCCCACACGTAGTCATC-G
1 GTCTTACCCGGACAAAATCCCACACGTAGTCATCGG
53155594 GTCTT
1 GTCTT
53155599 TAGAGCTCGG
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
35 6 0.08
36 16 0.22
37 50 0.68
38 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCACACGTAGTCATCGG
Found at i:53155795 original size:47 final size:47
Alignment explanation
Indices: 53155717--53155988 Score: 402
Period size: 47 Copynumber: 5.7 Consensus size: 47
53155707 CCCTTCGGGA
* * * * * *
53155717 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53155764 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53155811 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53155858 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53155905 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
53155954 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
53155989 AGAATCCTAA
Statistics
Matches: 207, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 160 0.77
49 46 0.22
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53162059 original size:30 final size:32
Alignment explanation
Indices: 53162005--53162065 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
53161995 GCCACATTAG
53162005 ATATTTAGCAGTAGGTTGAAA-TTTTCCATCT
1 ATATTTAGCAGTAGGTTGAAATTTTTCCATCT
53162036 ATATTTAGCAGTAGGTT-AAATTTTTCCATC
1 ATATTTAGCAGTAGGTTGAAATTTTTCCATC
53162066 CATTTTGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (32 bp):
ATATTTAGCAGTAGGTTGAAATTTTTCCATCT
Found at i:53162347 original size:31 final size:31
Alignment explanation
Indices: 53162307--53162373 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
53162297 GTTACAAAAT
* *
53162307 AGTCGTTGAATTATTTAAAAATTTTCATTTA
1 AGTCATTGAATTATTCAAAAATTTTCATTTA
* *
53162338 AGTCATTGAATTATTCAAATATTTTTATTTA
1 AGTCATTGAATTATTCAAAAATTTTCATTTA
53162369 AGTCA
1 AGTCA
53162374 CTAGGTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (31 bp):
AGTCATTGAATTATTCAAAAATTTTCATTTA
Found at i:53166366 original size:13 final size:13
Alignment explanation
Indices: 53166334--53166358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53166324 TTAAAAATAT
53166334 ATTATATAATAAA
1 ATTATATAATAAA
53166347 ATTATATAATAA
1 ATTATATAATAA
53166359 TTTAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATATAATAAA
Found at i:53167764 original size:16 final size:16
Alignment explanation
Indices: 53167735--53167793 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
53167725 GGAAGAGAAG
* *
53167735 AGGCGTAAAGATCGAA
1 AGGCGTTAACATCGAA
*
53167751 AGGCGTTATCATCGAA
1 AGGCGTTAACATCGAA
** *
53167767 AAACGTTAACACCGAA
1 AGGCGTTAACATCGAA
53167783 AGGCGTTAACA
1 AGGCGTTAACA
53167794 CAATTACATC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.17
Consensus pattern (16 bp):
AGGCGTTAACATCGAA
Found at i:53173087 original size:36 final size:36
Alignment explanation
Indices: 53173035--53173106 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
53173025 CCCAGAAGAG
* *
53173035 AAAACAATCGATAGAAAGAGTAATGGGGAGAAAGTA
1 AAAACAATCGACAGAAACAGTAATGGGGAGAAAGTA
*
53173071 AAAACAGTCGACAGAAACAGTAATGGGGAGAAAGTA
1 AAAACAATCGACAGAAACAGTAATGGGGAGAAAGTA
53173107 CCATCCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.08, G:0.28, T:0.12
Consensus pattern (36 bp):
AAAACAATCGACAGAAACAGTAATGGGGAGAAAGTA
Found at i:53181226 original size:23 final size:24
Alignment explanation
Indices: 53181140--53181289 Score: 91
Period size: 23 Copynumber: 6.3 Consensus size: 24
53181130 AAGCTCCTTC
53181140 TGAGCTGATGAACAGTAAGCTCTAT-
1 TGAGCTGAT-AACAGTAAGCT-TATA
* * *
53181165 TGAGCAGA-AACGGTAATCTCTAT-
1 TGAGCTGATAACAGTAAGCT-TATA
* * *
53181188 CGAGTTG--AACAATAAGCTTATA
1 TGAGCTGATAACAGTAAGCTTATA
**
53181210 TGAGCTGA-AATGGTAAGCTTCA-A
1 TGAGCTGATAACAGTAAGCTT-ATA
53181233 TGAGCTGATAACAGTAAGCTCT-TA
1 TGAGCTGATAACAGTAAGCT-TATA
*
53181257 TGAGCTGATATATCAGTAAGCTCATA
1 TGAGCTGATA-A-CAGTAAGCTTATA
*
53181283 CGAGCTG
1 TGAGCTG
53181290 TGGTGAGTCC
Statistics
Matches: 98, Mismatches: 18, Indels: 17
0.74 0.14 0.13
Matches are distributed among these distances:
21 3 0.03
22 13 0.13
23 35 0.36
24 21 0.21
25 9 0.09
26 17 0.17
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (24 bp):
TGAGCTGATAACAGTAAGCTTATA
Found at i:53185223 original size:50 final size:50
Alignment explanation
Indices: 53185157--53185389 Score: 231
Period size: 50 Copynumber: 4.6 Consensus size: 50
53185147 TCAATTGTGA
* *
53185157 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAGATTGATAG
* * * * * *
53185207 GTCGCATGTGTAGTACTAAGTACAGGCTACT--ATGCATACTCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTA-AC-AGATTGA--TAG
* * * * * * *
53185258 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAGATTGATAG
* * *
53185308 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGT-TCTAGATTTATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAAC-AGATTGATAG
53185358 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
53185390 TGGGTACCAG
Statistics
Matches: 147, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
48 4 0.03
49 7 0.05
50 101 0.69
51 30 0.20
52 2 0.01
53 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTAACAGATTGATAG
Found at i:53185334 original size:101 final size:101
Alignment explanation
Indices: 53185158--53185339 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
53185148 CAATTGTGAG
* * *
53185158 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATGGATAAGTCACATGTGTAGTAC
53185223 TAAGTACAGGCTACTATGCATACTCGTTAACTTCGA
66 TAAGTACAGGCTACTATGCATACTCGTTAACTTCGA
* * * * *
53185259 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATGGATAAGTCACATGTGTAGTAC
*
53185324 TAAGTGCAGGCTACTA
66 TAAGTACAGGCTACTA
53185340 CATGTTCTAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTAACAAATGGATAAGTCACATGTGTAGTAC
TAAGTACAGGCTACTATGCATACTCGTTAACTTCGA
Found at i:53190568 original size:20 final size:20
Alignment explanation
Indices: 53190545--53190588 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
53190535 TGGGCAAGGA
53190545 ACACGGGCGCGTCCCAAGCC
1 ACACGGGCGCGTCCCAAGCC
*
53190565 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGCGTCCCAAGCC
53190585 ACAC
1 ACAC
53190589 ACGCGTATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (20 bp):
ACACGGGCGCGTCCCAAGCC
Found at i:53190594 original size:20 final size:20
Alignment explanation
Indices: 53190555--53190594 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53190545 ACACGGGCGC
**
53190555 GTCCCAAGCCACACGGGCGT
1 GTCCCAAGCCACACACGCGT
53190575 GTCCCAAGCCACACACGCGT
1 GTCCCAAGCCACACACGCGT
53190595 ATGGGATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.25, T:0.10
Consensus pattern (20 bp):
GTCCCAAGCCACACACGCGT
Found at i:53192860 original size:23 final size:24
Alignment explanation
Indices: 53192812--53192860 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
53192802 AAGGTTAGGG
*
53192812 TTTAATATTTAAGGTTTAAGGTTT
1 TTTAATATTTAAGGTTTAAGGATT
53192836 TTTAAT-TTTAAGTGTTT-AGGATT
1 TTTAATATTTAAG-GTTTAAGGATT
53192859 TT
1 TT
53192861 AGGGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (24 bp):
TTTAATATTTAAGGTTTAAGGATT
Found at i:53194130 original size:22 final size:22
Alignment explanation
Indices: 53194102--53194146 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
53194092 AATACACGAC
53194102 CCCTACGACGATATGATGTACT
1 CCCTACGACGATATGATGTACT
53194124 CCCTACGACGATATGATGTACT
1 CCCTACGACGATATGATGTACT
53194146 C
1 C
53194147 ATTCGTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (22 bp):
CCCTACGACGATATGATGTACT
Found at i:53196682 original size:15 final size:15
Alignment explanation
Indices: 53196641--53196682 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
53196631 TGGCATTGAA
53196641 TTGAGTATTGAAATGG
1 TTGA-TATTGAAATGG
*
53196657 TTGATAATGAAATGG
1 TTGATATTGAAATGG
53196672 TATGA-ATTGAA
1 T-TGATATTGAA
53196683 TATTGGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (15 bp):
TTGATATTGAAATGG
Found at i:53217726 original size:19 final size:20
Alignment explanation
Indices: 53217696--53217744 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
53217686 TCAATCAGTG
53217696 AAAATGGGCCCA-A-AGCCCA
1 AAAAT-GGCCCACATAGCCCA
*
53217715 TAATATGGCCCACATAGCCCA
1 -AAAATGGCCCACATAGCCCA
53217736 AAAATGGCC
1 AAAATGGCC
53217745 TTAGCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 13 0.52
21 6 0.24
ACGTcount: A:0.39, C:0.31, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATGGCCCACATAGCCCA
Found at i:53224043 original size:46 final size:46
Alignment explanation
Indices: 53223975--53224240 Score: 179
Period size: 46 Copynumber: 5.7 Consensus size: 46
53223965 TGTAACCCGC
* *
53223975 CCATAAGCGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * * *
53224021 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * * *
53224071 -C-TCA-CGAACTCAGACTCAACTGAACGAGTTCAGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * * *
53224114 CCATAAGTGAACTCGAACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * ***
53224164 --ATCA-CGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
53224207 CCATAAGTGAACTCGGACTCAACTCAATGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
53224241 AGATGCCCAA
Statistics
Matches: 165, Mismatches: 37, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 2 0.01
45 5 0.03
46 80 0.48
47 48 0.29
48 6 0.04
49 3 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:53224097 original size:93 final size:93
Alignment explanation
Indices: 53223982--53224247 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 93
53223972 CGCCCATAAG
* * * * *
53223982 CGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
53224047 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ATGAGTTCGGATGCCTAGTTACATATCA
* * *
53224075 CGAACTCAGACTCAACTGAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
**
53224140 ACAAGTTCGGATGCCTAGTTACATATCA
66 ATGAGTTCGGATGCCTAGTTACATATCA
*
53224168 CGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
53224233 ATGAGTTCAGATGCC
66 ATGAGTTCGGATGCC
53224248 CAAATATCTA
Statistics
Matches: 154, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 154 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ATGAGTTCGGATGCCTAGTTACATATCA
Found at i:53224183 original size:47 final size:47
Alignment explanation
Indices: 53224029--53224199 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 47
53224019 ATCCATAAGT
* * * *
53224029 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
* * * * * * * *
53224076 GAACTCAGACTCAACTGAACGAGTTCAGACG-TTCGCATCCATA--AGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATATCA-C
*
53224122 GAACTC-GAACTCAACTCAACAAGTTCGGATGCCTAGTTACATATCAC
1 GAACTCAG-ACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
53224169 GAACTCAGACTCAACTCAACGAGTTCGGATG
1 GAACTCAGACTCAACTCAACGAGTTCGGATG
53224200 TTCGCATCCA
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
45 2 0.02
46 32 0.34
47 59 0.62
48 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATATCAC
Found at i:53227012 original size:30 final size:29
Alignment explanation
Indices: 53226970--53227026 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
53226960 AAAGATAACA
53226970 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAATCCAAGATTG
*
53226999 AGAAACCCAGAATAAAGAAATCCAAGAT
1 AGAAAACC-GAATAAAGAAATCCAAGAT
53227027 ACGATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATTG
Found at i:53229682 original size:46 final size:45
Alignment explanation
Indices: 53229614--53229781 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 45
53229604 GTAACCTGCC
* *
53229614 CATAAGCGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
53229659 CTATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 C-ATAAGCGAACTCAGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * * * * * *
53229709 C-TCA-CGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
53229752 CCTAAGTGAACTCAGACTCAACTCAACGAG
1 CATAAGCGAACTCAGACTCAACTCAACGAG
53229782 TTCAGATGCC
Statistics
Matches: 97, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 22 0.23
46 31 0.32
47 24 0.25
48 3 0.03
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:53229732 original size:47 final size:47
Alignment explanation
Indices: 53229667--53229836 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 47
53229657 ATCTATAAGT
*
53229667 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * *
53229714 GAACTCGGACTCAACTCAATGAGTTC--A-GAC--GTTCGCATCCTAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-CTCA-C
* *
53229759 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTTAAATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
53229806 GAACT-AGGACTCAACTCAACGAGTTCGGATG
1 GAACTCA-GACTCAACTCAACGAGTTCGGATG
53229837 TTCGCATCCA
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 5 0.05
45 25 0.25
46 1 0.01
47 52 0.53
48 5 0.05
49 2 0.02
50 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53229780 original size:92 final size:92
Alignment explanation
Indices: 53229620--53229884 Score: 395
Period size: 92 Copynumber: 2.9 Consensus size: 92
53229610 TGCCCATAAG
* * * * *
53229620 CGAACTCGGATTCAACTCAACGAGCTCGGGCATTCGCATCTATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATC-CTAAGTGAACTCAGACTCAACTCA
* *
53229685 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTAAATCTCA
* *
53229713 CGAACTCGGACTCAACTCAATGAGTTCAGACGTTCGCATCCTAAGTGAACTCAGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCTAAGTGAACTCAGACTCAACTCAA
*
53229778 CGAGTTCAGATGCCTAGTTAAATCTCA
66 CGAGTTCGGATGCCTAGTTAAATCTCA
* * *
53229805 CGAACTAGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCC-TAAGTGAACTCAGACTCAACTCA
53229870 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
53229885 CAAATATCTG
Statistics
Matches: 155, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
92 85 0.55
93 70 0.45
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCTAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTAAATCTCA
Found at i:53232820 original size:40 final size:42
Alignment explanation
Indices: 53232762--53232848 Score: 101
Period size: 40 Copynumber: 2.1 Consensus size: 42
53232752 AGAAATAGGG
* *
53232762 GAGAGAGAGAGGACGGGAGGGGGGAG-GGGAG-AGGGGAGAGA
1 GAGAGAGAGAGGACGGGA-GAGGGAGTGGGAGAAAGGGAGAGA
*
53232803 -AGAGAGTGAGAGA-GGGAGAGGGAGTGGGAGAAAGGGAGAGA
1 GAGAGAGAGAG-GACGGGAGAGGGAGTGGGAGAAAGGGAGAGA
53232844 GAGAG
1 GAGAG
53232849 GGGGGAGGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
39 6 0.15
40 18 0.46
41 11 0.28
42 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.61, T:0.02
Consensus pattern (42 bp):
GAGAGAGAGAGGACGGGAGAGGGAGTGGGAGAAAGGGAGAGA
Found at i:53232833 original size:20 final size:19
Alignment explanation
Indices: 53232783--53232863 Score: 60
Period size: 20 Copynumber: 4.1 Consensus size: 19
53232773 GACGGGAGGG
53232783 GGGAGGGGAGAG-GGGAGA
1 GGGAGGGGAGAGAGGGAGA
* *
53232801 GAAGAGAGTGAGAGAGGGAGA
1 G-GGAG-GGGAGAGAGGGAGA
*
53232822 GGGAGTGGGAGAAAGGGAGA
1 GGGAG-GGGAGAGAGGGAGA
53232842 GAGAGAGGGG-G-GAGGGAAGA
1 G-G-GAGGGGAGAGAGGG-AGA
53232862 GG
1 GG
53232864 TAATTCCAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 1 0.02
19 8 0.16
20 27 0.54
21 11 0.22
22 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.63, T:0.02
Consensus pattern (19 bp):
GGGAGGGGAGAGAGGGAGA
Found at i:53236469 original size:37 final size:37
Alignment explanation
Indices: 53236410--53236518 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
53236400 AGCTCAGACG
* *
53236410 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
53236447 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
53236484 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
53236519 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:53236777 original size:47 final size:47
Alignment explanation
Indices: 53236725--53236871 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
53236715 CATACATATT
* * * * *
53236725 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
53236772 TCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
53236819 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
53236866 TCACAT
1 TCACAT
53236872 AAAATCCTAA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:53244141 original size:93 final size:93
Alignment explanation
Indices: 53244031--53244201 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
53244021 GCCCCTAAGT
* * * *
53244031 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCAAATCCATAAATGAACTTGGACTCAAATCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAATGAACTCGGACTCAAATCAA
53244096 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *** * *
53244124 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAATGAACTCGGACTCAAATCAA
53244189 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53244202 TCAACCATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCAAATCCATAAATGAACTCGGACTCAAATCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53244217 original size:46 final size:45
Alignment explanation
Indices: 53244025--53244206 Score: 122
Period size: 46 Copynumber: 4.0 Consensus size: 45
53244015 TAACCCGCCC
* * ** *
53244025 CTAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCAA-AT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
* * *
53244069 CCATAAATGAACTTGGACTCAAATCAACGAGTTCGGATGC-CTAGTTACAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * * ***
53244119 CTCA-CGAACTCGGACTCAACTCAACGAGTTCAGA--CATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACAT
53244162 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAAC
53244207 CATCCTAGTG
Statistics
Matches: 102, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.05
46 58 0.57
47 28 0.27
48 3 0.03
49 2 0.02
50 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:53246404 original size:17 final size:17
Alignment explanation
Indices: 53246384--53246419 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
53246374 TCCGAGACAG
53246384 GAAGAA-GGTAGAGAAAA
1 GAAGAACGG-AGAGAAAA
53246401 GAAGAACGGAGAGAAAA
1 GAAGAACGGAGAGAAAA
53246418 GA
1 GA
53246420 GATATTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.58, C:0.03, G:0.36, T:0.03
Consensus pattern (17 bp):
GAAGAACGGAGAGAAAA
Found at i:53257337 original size:166 final size:162
Alignment explanation
Indices: 53257058--53257387 Score: 552
Period size: 166 Copynumber: 2.0 Consensus size: 162
53257048 ATTCTCTTTC
*
53257058 AACTCACTATATTGTGTTTAAACAAACCATTACCCTATTTTTGTAGTTAAGCCCTTTACTTCATC
1 AACTCACTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAGTTAAGCCCTTTACTTCATC
*
53257123 CGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCGAAGATATTACAG
66 CGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCAAAGATATTACAG
*
53257188 CAGCTTAATGTGCTCCATGCTCTTTAACCAAA
131 CAGCTTAATGTGCTCCATGCACTTTAACCAAA
*
53257220 AACTCATTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAGTTTAATAAGCCCTTTACTT
1 AACTCACTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAG--T--TAAGCCCTTTACTT
* *
53257285 CATCCGGAGATATTACAGCTAAACAGTCATGTTTACAAGCTGCATGCACTTCATCCAAAGATATT
62 CATCCGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCAAAGATATT
* *
53257350 ACAGCAGCTTCATGTGCTGCATGCACTTTAACCAAA
127 ACAGCAGCTTAATGTGCTCCATGCACTTTAACCAAA
53257386 AA
1 AA
53257388 TATCACAGCA
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
162 44 0.28
164 1 0.01
166 111 0.71
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (162 bp):
AACTCACTATATTGTGTTTAAACAAACCATTAACCTATTTTTGTAGTTAAGCCCTTTACTTCATC
CGGAGATATTACAGCTAAACAGCCATGTTTACAAGCTGCATACACTTCATCCAAAGATATTACAG
CAGCTTAATGTGCTCCATGCACTTTAACCAAA
Found at i:53263356 original size:12 final size:12
Alignment explanation
Indices: 53263339--53263364 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53263329 GTCACACATG
53263339 GCTGAGACAAAT
1 GCTGAGACAAAT
53263351 GCTGAGACAAAT
1 GCTGAGACAAAT
53263363 GC
1 GC
53263365 CAGTGTGGAC
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:0.38, C:0.19, G:0.27, T:0.15
Consensus pattern (12 bp):
GCTGAGACAAAT
Found at i:53272218 original size:630 final size:625
Alignment explanation
Indices: 53270997--53272635 Score: 2741
Period size: 630 Copynumber: 2.6 Consensus size: 625
53270987 AACCAAAAAT
* *
53270997 AAAAAATTATTTTATTTTATTTTATGGTTGGCATCATGATAGGAAGGTCACATGAAAATTTTGGT
1 AAAAAATAATTTT-TTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGGT
* * * * *
53271062 ATGAAATTTTTACCGATTGTGTATTTAATTAAGGAAAAGACTAAATTGTATAAAATGCATAAGTT
65 ATGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAGTT
* * *
53271127 GGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTTAAAACTTAAGGTCCTTTTATGGTAG
130 GGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGTAA
* *
53271192 TTAGACTATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAAGGG
195 TTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATGG
*
53271257 TAGGGAATAAATTGAAAATAAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATCT
260 TAGGGAATAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATCT
*
53271322 ATTATCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCAA
325 ATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCAA
53271387 GCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTAAATCGGGATAGC
390 GCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTAAATCGGGATAGC
*
53271452 CTAATCTTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGATG
455 CTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGATG
53271517 AATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCTA
520 AATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCTA
*
53271582 TGAAGTAGGAACAGTGGTTTCTAGATCACAAATCCGAGTTAAAA
585 TGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTT---A
*
53271626 ACAAAAATAATTTTGTTTTATTTTATGGTTGGCATCTTGATAGGAATGTCACATGAAAATTTTGG
1 A-AAAAATAATTTT-TTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGG
*
53271691 TACGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAGT
64 TATGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAGT
*
53271756 TGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGGAATTCAAAACTTAAGGTCCTTATATGGTA
129 TGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGTA
*
53271821 ATTAAACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATG
194 ATTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATG
53271886 GTAGGGAATAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATC
259 GTAGGGAATAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATC
*
53271951 TATTTTCATATCATTTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCA
324 TATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCA
*
53272016 AGCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTGAATCGGGATAG
389 AGCTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTAAATCGGGATAG
53272081 CCTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGAT
454 CCTAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGAT
53272146 GAATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTC-
519 GAATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCT
53272210 AGTGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTTA
584 A-TGAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTTA
* * *
53272253 AAAAAA-GATTTTTTTTATTTTATGGTTGGCATCTTGATAGAAAGGTCACATGAAAATTTTGATA
1 AAAAAATAATTTTTTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGGTA
* * *
53272317 TAAAAATTTTA-TCGATTGTTTGGTTAATT-AGGTAAAGGACTAAATTGTATAAAATGCAAAAGT
66 TGAAAATTTTACT-GATTGTGTGTTTAATTAAGG-AAAGGACTAAATTGTATAAAATGCAAAAGT
*
53272380 TGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGCCCTTATATGGTA
129 TGGGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGTA
* *
53272445 ATTAGACCATTGAAGTGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATT-TAAAATG
194 ATTAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATG
* * * * * * * *
53272509 GCAAGGGACTAAATTGGAAATCACTAAAATTAAAAGATGGA-AATTAAATAAAAAGAAATATTCA
259 G-TAGGGAATAAATTGAAAATCAATAAAATTAATAGAT-GATAATTAATTAAAAAGAAAAAATCA
* ** * *
53272573 TCTAATTTCATATCATCTTCCCCAAAATTTCTATGGAAACCCTAGGAGAGAGGAGGACAACTT
322 TCTATTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTT
53272636 ACCAAACTTA
Statistics
Matches: 954, Mismatches: 50, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
623 11 0.01
624 328 0.34
625 7 0.01
626 5 0.01
627 2 0.00
629 2 0.00
630 599 0.63
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (625 bp):
AAAAAATAATTTTTTTTATTTTATGGTTGGCATCTTGATAGGAAGGTCACATGAAAATTTTGGTA
TGAAAATTTTACTGATTGTGTGTTTAATTAAGGAAAGGACTAAATTGTATAAAATGCAAAAGTTG
GGTTCTAGTAGCTATAGGTATCAAATAGCTATGAAATTCAAAACTTAAGGTCCTTATATGGTAAT
TAGACCATTGAAGAGTAGTTAGTAGATATTTTAATGACTCATCCATGGAAAAATTAGAAAATGGT
AGGGAATAAATTGAAAATCAATAAAATTAATAGATGATAATTAATTAAAAAGAAAAAATCATCTA
TTTTCATATCATCTTCCCCAATTTTTCTATGGAAACCCTAGGAGAGAGGAAGAAAACTTTTCAAG
CTTAATAAGGTATGAAATCAAGTCCCGTTTTTAGTAATTTCTATATTTTTTAAATCGGGATAGCC
TAATCGTTCTATTTAGGGGATTTATTTGAAAAGTTATCAAGGTATGAAATTTGGGTCATGGATGA
ATATGCTAAAATTTTGAAATTTATGGTAGAAAATGAACAGTTATTTGTAACAGCCCAATTTCTAT
GAAGTAGGAACAGTGGTTTCGAGATCACAAATCCGAGTTA
Found at i:53274656 original size:47 final size:43
Alignment explanation
Indices: 53274546--53274670 Score: 124
Period size: 47 Copynumber: 2.7 Consensus size: 43
53274536 TTATTTGTGT
* *
53274546 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCAT---CAACATTACGAGA
*
53274592 GCCCGTGTAAGACCATGTCTAGGACATGGCATCAACATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAACATT---ACGAGA
* * *
53274640 GCTAGTGTAAGACATGTTTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTAGGACATGCATC
53274671 GGCTACGAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 6 0.09
46 16 0.24
47 26 0.39
48 19 0.28
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (43 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCAACATTACGAGA
Found at i:53275570 original size:49 final size:50
Alignment explanation
Indices: 53275500--53275737 Score: 273
Period size: 49 Copynumber: 4.8 Consensus size: 50
53275490 TGAGGTCATG
* *
53275500 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * * * *
53275549 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TTAGGTCACA
* * ** *
53275600 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* * ** * *
53275650 TGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
* *
53275699 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
53275738 GCTTTGGCTA
Statistics
Matches: 158, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
49 75 0.47
50 45 0.28
51 38 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTAGGTCACA
Found at i:53275689 original size:101 final size:98
Alignment explanation
Indices: 53275499--53275737 Score: 280
Period size: 100 Copynumber: 2.4 Consensus size: 98
53275489 GTGAGGTCAT
* * * *
53275499 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGAGTAGTACTAAGT
* **
53275564 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 ACAGGCTACTACACGTACCCGATAA-TT-GATCAC
* ** *
53275599 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGAGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGAGTAGTACTAAG
* * * *
53275664 TACAGGCTACTACATGTACCGGATAATTGGTCGC
65 TACAGGCTACTACACGTACCCGATAATTGATCAC
* * * *
53275698 ATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
53275738 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 38 0.32
100 40 0.34
101 39 0.33
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGAGTAGTACTAAGT
ACAGGCTACTACACGTACCCGATAATTGATCAC
Found at i:53275767 original size:150 final size:150
Alignment explanation
Indices: 53275492--53275775 Score: 401
Period size: 150 Copynumber: 1.9 Consensus size: 150
53275482 ATCTATTGTG
* * * **
53275492 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
* * * * *
53275557 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCAAGTGTGTAGAAATAAGTGCAGGCA
53275622 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
53275642 AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
* * * * *
53275707 ACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG-A-AAATATGTGCAGG
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAAC-TTCGAT-CAAGTGTGTAGAAATAAGTGCAGG
53275770 CAACTA
129 CAACTA
53275776 AGTATCAGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 105 0.90
151 5 0.04
152 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGAGTAGTACTAAGTACAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCAAGTGTGTAGAAATAAGTGCAGGCA
ACTACGTGTATCAGATGGTT
Found at i:53279349 original size:59 final size:57
Alignment explanation
Indices: 53279268--53279403 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 57
53279258 TGCAGATAGA
* ** *
53279268 ATTTAGCCCAGATAGGTAATTCTAATGTAAGCCCT-TCTGAGGTAGTTTATAAATTGG
1 ATTTACCCCAGACGGGTAATTCTAATGTAAGCCCTCT-TGAGGTAGGTTATAAATTGG
* *
53279325 ATTTTTCCTCCAGACGGGTAATTCTAATGTAAGCCCTCTTGAGTTAGGTTATAAATTGG
1 A-TTTACC-CCAGACGGGTAATTCTAATGTAAGCCCTCTTGAGGTAGGTTATAAATTGG
*
53279384 ATTTAGCCCAGACGGGTAAT
1 ATTTACCCCAGACGGGTAAT
53279404 CCATATTAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
57 14 0.21
58 8 0.12
59 45 0.66
60 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (57 bp):
ATTTACCCCAGACGGGTAATTCTAATGTAAGCCCTCTTGAGGTAGGTTATAAATTGG
Found at i:53281121 original size:43 final size:42
Alignment explanation
Indices: 53281070--53281217 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
53281060 CAATGCCAAC
* * *
53281070 GTCCCAGACGTAGTCTTACATGTAATCAAATATCAATGCCTTT
1 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCC-AT
* * *
53281113 GTCCCAGACAG-GGTCTTACACGAAATCAAATA-CGATGCCAA
1 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCAT
* *
53281154 CTCCTAGACGTGGTCTTACATGTAACTCAAA-AGTCGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGTAA-TCAAATA-TCGATGCC-AT
53281198 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
53281218 CGATAACACA
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 20 0.23
42 11 0.13
43 34 0.40
44 20 0.23
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCAT
Found at i:53281205 original size:85 final size:85
Alignment explanation
Indices: 53281062--53281220 Score: 225
Period size: 85 Copynumber: 1.9 Consensus size: 85
53281052 AGCTCGTACA
**
53281062 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATATCAATGCCTTTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATATCAATGCCAATGTCCCAGAC-GTGG
53281126 TCTTACACGAAATCAAATACG
65 TCTTACACGAAATCAAATACG
* * *
53281147 ATGCCAAC-TCCTAGACGTGGTCTTACATGTAACTCAAA-AGTCGATGCCAATGTCCCAGACGTG
1 ATGCCAACGTCCCAGACGTAGTCTTACATGTAA-TCAAATA-TCAATGCCAATGTCCCAGACGTG
53281210 GTCTTACACGA
64 GTCTTACACGA
53281221 TAACACATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
84 24 0.36
85 42 0.64
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGTAGTCTTACATGTAATCAAATATCAATGCCAATGTCCCAGACGTGGT
CTTACACGAAATCAAATACG
Found at i:53281386 original size:28 final size:30
Alignment explanation
Indices: 53281338--53281400 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 30
53281328 CATTCTCAAC
* *
53281338 ACATATAATCATTCAACATTC-TTCAAAA-
1 ACATATAATCAATCAAAATTCATTCAAAAT
53281366 ACATATAATCAAT-AATAATTCAATTCAAAAT
1 ACATATAATCAATCAA-AATTC-ATTCAAAAT
53281397 ACAT
1 ACAT
53281401 TTATTTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 2 0.07
28 16 0.55
30 7 0.24
31 4 0.14
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (30 bp):
ACATATAATCAATCAAAATTCATTCAAAAT
Found at i:53289123 original size:52 final size:52
Alignment explanation
Indices: 53289045--53289151 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
53289035 TTTATGAGTT
* *
53289045 TCATGTTTTTGAGATCCTTGTATCTTAATTTAGCCAACCTGCATGTCTAGTC
1 TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
53289097 TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
1 TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
53289149 TCA
1 TCA
53289152 AAATTCTTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.40
Consensus pattern (52 bp):
TCATGTTTTTGAGATCCTTGTATCTTAATATAGCCAACCTGCATGCCTAGTC
Found at i:53292645 original size:35 final size:35
Alignment explanation
Indices: 53292599--53292670 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
53292589 GGCTAAATTG
*
53292599 CCTAATCACATACATTCAATCGAACATGTTAGTCA
1 CCTAATCACATACATTCAATCAAACATGTTAGTCA
53292634 CCTAATCACATACATTCAATCAAACATGTTAGTCA
1 CCTAATCACATACATTCAATCAAACATGTTAGTCA
53292669 CC
1 CC
53292671 AAAATCTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (35 bp):
CCTAATCACATACATTCAATCAAACATGTTAGTCA
Found at i:53293626 original size:20 final size:20
Alignment explanation
Indices: 53293585--53293626 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
53293575 AGCACATGTA
* *
53293585 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAAGTT
*
53293605 TTCATCAAATTTTACAAGTT
1 TTCATAAAATTTTACAAGTT
53293625 TT
1 TT
53293627 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (20 bp):
TTCATAAAATTTTACAAGTT
Found at i:53319036 original size:37 final size:36
Alignment explanation
Indices: 53318987--53319058 Score: 135
Period size: 37 Copynumber: 2.0 Consensus size: 36
53318977 TATTAAATAG
53318987 TTTATTTGCTTATGACTTACTAGGCTACAAAAGCTA
1 TTTATTTGCTTATGACTTACTAGGCTACAAAAGCTA
53319023 TTTATTTTGCTTATGACTTACTAGGCTACAAAAGCT
1 TTTA-TTTGCTTATGACTTACTAGGCTACAAAAGCT
53319059 TACTTTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 4 0.11
37 31 0.89
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTATTTGCTTATGACTTACTAGGCTACAAAAGCTA
Found at i:53322766 original size:21 final size:21
Alignment explanation
Indices: 53322740--53322779 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53322730 CACTTGACAT
*
53322740 AGGGGCACATGCCCGTGTGAA
1 AGGGGCACACGCCCGTGTGAA
*
53322761 AGGGGCACACGTCCGTGTG
1 AGGGGCACACGCCCGTGTG
53322780 GCCAATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGAA
Found at i:53325672 original size:47 final size:47
Alignment explanation
Indices: 53325565--53325783 Score: 154
Period size: 47 Copynumber: 4.7 Consensus size: 47
53325555 GGTAAGGTGC
*
53325565 CGATGCCATGTCCCAGACACGGTCTTACACT-AGCTCATAGCTCATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATAGCTCATGT
* * * * *
53325612 CAATGCCACGTCCCAGACATGGTCTTACCCTGACT-ATCATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-AGCTCAT-GT
* *
53325660 CGATG-CATGTCCCAGACAT-GTCTTACACTGACT--TACGTCTTGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATA-G-C-TCATGT
* * * * *
53325706 CGATG-TATATCCTAAACAT-GTCTTACACTAGCACTCGT--CTCGATG-
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATAGCTC-ATGT
53325751 CTGATGCCATGTCCCAGACATGGTCTTACACTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTG
53325784 GCTCTCATAA
Statistics
Matches: 135, Mismatches: 23, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 50 0.37
47 60 0.44
48 20 0.15
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATAGCTCATGT
Found at i:53325691 original size:46 final size:47
Alignment explanation
Indices: 53325565--53325783 Score: 145
Period size: 46 Copynumber: 4.7 Consensus size: 47
53325555 GGTAAGGTGC
* * *
53325565 CGATGCCATGTCCCAGACACGGTCTTACACT-AGCTCAT-AGCTCAT-GT
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGA-CT-ATCATCTCGTAGT
* * *
53325612 CAATGCCACGTCCCAGACATGGTCTTACCCTGACTATCATCTCGTAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGTAGT
* *
53325660 CGATG-CATGTCCCAGACATGTCTTACACTGACT-TACGTCTTG-AGGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGTA-GT
* * * * *
53325706 CGATG-TATATCCTAAACATGTCTTACACT-AGC-ACTCGTCTCG-A-T
1 CGATGCCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGTAGT
53325750 GCTGATGCCATGTCCCAGACATGGTCTTACACTG
1 -C-GATGCCATGTCCCAGACAT-GTCTTACACTG
53325784 GCTCTCATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 59 0.43
47 57 0.41
48 17 0.12
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCGTAGT
Found at i:53338341 original size:43 final size:43
Alignment explanation
Indices: 53338243--53338342 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
53338233 TTACCGAATG
* *
53338243 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCTATA
1 TGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
* * *
53338286 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATA
1 TGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
*
53338329 TGATAACATGTAAG
1 TGATTACATGTAAG
53338343 GCTATATCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATA
Found at i:53338353 original size:43 final size:42
Alignment explanation
Indices: 53338243--53338363 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
53338233 TTACCGAATG
*
53338243 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGCTATA
1 TGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGATATA
* * *
53338286 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATA
1 TGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGATATA
* * * * *
53338329 TGATAACATGTAAGGCTATATCTGGGATATGGCAT
1 TGATTACATGTAAGACCATGTCTGGGACATGGCAT
53338364 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 6 0.09
43 59 0.91
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATGGCATCGATATA
Found at i:53345455 original size:40 final size:40
Alignment explanation
Indices: 53345323--53345572 Score: 321
Period size: 40 Copynumber: 6.3 Consensus size: 40
53345313 CATTTGAATG
*
53345323 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
53345363 TTATCCGGG-TAAGACCCGAAGGCATTTATGCTA-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
53345401 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
53345441 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
53345481 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
53345521 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
53345561 ATATCC-GGCTAA
1 ATATCCGGGCTAA
53345573 ATTCCGAAGA
Statistics
Matches: 190, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
38 14 0.07
39 52 0.27
40 121 0.64
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:53352753 original size:40 final size:40
Alignment explanation
Indices: 53352621--53352843 Score: 285
Period size: 40 Copynumber: 5.6 Consensus size: 40
53352611 ATTTGAATGA
*
53352621 TATCCGGGCTAAGTCCCG-AGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
53352660 TATCCGGGTTAAGACCCGAA-GCATTTATGCTA-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
53352698 TATCCGGGTTGAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCT-AAGACCCGAAGGCATTTGTGCTAGTGATTT
*
53352739 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGATTT
* * *
53352780 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* *
53352820 TACCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCA
53352844 AGGCTTGTGG
Statistics
Matches: 168, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 16 0.10
39 37 0.22
40 63 0.38
41 49 0.29
42 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:53370542 original size:42 final size:41
Alignment explanation
Indices: 53370496--53370597 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 41
53370486 TCCCAGATGG
* **
53370496 GGTCTTACACGAAATCAGATA-TGATGCCGATGTCCCAAACAT
1 GGTCTTACACGAAA-CAGA-AGTGATGCCAACATCCCAAACAT
* *
53370538 GGTCTTACACGTAAACAGAAGTTGATGCCAACATCCCAGACGT
1 GGTCTTACACG-AAACAGAAG-TGATGCCAACATCCCAAACAT
53370581 GGTCTTACACGATAACA
1 GGTCTTACACGA-AACA
53370598 TGTATCAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 16 0.31
43 34 0.67
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
GGTCTTACACGAAACAGAAGTGATGCCAACATCCCAAACAT
Found at i:53377165 original size:13 final size:13
Alignment explanation
Indices: 53377147--53377171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53377137 GTGTGGGTTC
53377147 ACACGGCCGTGTG
1 ACACGGCCGTGTG
53377160 ACACGGCCGTGT
1 ACACGGCCGTGT
53377172 CTAGCTTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (13 bp):
ACACGGCCGTGTG
Found at i:53385553 original size:23 final size:23
Alignment explanation
Indices: 53385527--53385572 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
53385517 GACTCATTCA
53385527 CTCAGAACTACCGATATCAAAGT
1 CTCAGAACTACCGATATCAAAGT
*
53385550 CTCAGAACTACCGATATGAAAGT
1 CTCAGAACTACCGATATCAAAGT
53385573 TTTCCACCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (23 bp):
CTCAGAACTACCGATATCAAAGT
Found at i:53387631 original size:43 final size:42
Alignment explanation
Indices: 53387562--53387670 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
53387552 AATACCAACA
*
53387562 TCCCAGAC-GTGGTCTTACATGTAATCAAACATCGATGCC-ACTT
1 TCCCAGACAG-GGTCTTACATGTAATCAAACA-CGATGCCGA-TG
* *
53387605 TCCCAGACAGGGTCTTACAT-TAAATCAGATACGATGCCGATG
1 TCCCAGACAGGGTCTTACATGT-AATCAAACACGATGCCGATG
* * *
53387647 TCCTAGACATGGTCTTACACGTAA
1 TCCCAGACAGGGTCTTACATGTAA
53387671 AACAGAAGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
42 28 0.50
43 27 0.48
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGTAATCAAACACGATGCCGATG
Found at i:53387694 original size:44 final size:42
Alignment explanation
Indices: 53387566--53387711 Score: 125
Period size: 44 Copynumber: 3.4 Consensus size: 42
53387556 CCAACATCCC
* * * * * *
53387566 AGACGTGGTCTTACATGTAATCAA-ACATCGATGCCACTTTCCC
1 AGACATGGTCTTACACGTAA--AACAGATCGATGCCAATGTCCT
* * * *
53387609 AGACAGGGTCTTACA-TTAAATCAGATACGATGCCGATGTCCT
1 AGACATGGTCTTACACGTAAAACAGAT-CGATGCCAATGTCCT
53387651 AGACATGGTCTTACACGTAAAACAGAAGTCGATGCCAATGTCCT
1 AGACATGGTCTTACACGTAAAACAG-A-TCGATGCCAATGTCCT
**
53387695 AGATGTGGTCTTACACG
1 AGACATGGTCTTACACG
53387712 ATAACACTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 28 0.34
43 20 0.24
44 30 0.36
45 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
AGACATGGTCTTACACGTAAAACAGATCGATGCCAATGTCCT
Found at i:53390670 original size:11 final size:11
Alignment explanation
Indices: 53390654--53390679 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53390644 ATTGCATGTA
53390654 TGATATTATTG
1 TGATATTATTG
53390665 TGATATTATTG
1 TGATATTATTG
53390676 TGAT
1 TGAT
53390680 GTGGGCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:53396959 original size:43 final size:43
Alignment explanation
Indices: 53396861--53396965 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
53396851 GTTATCGAGA
* * *
53396861 TGTGATTACATGTAACACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATTGTAT
*
53396904 TGAGATTACGTGTAAGACCATGTCTGAGACATTGGC-TTCGTAT
1 TGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATT-GTAT
*
53396947 TGTGATTTCGTGTAAGACC
1 TGTGATTACGTGTAAGACC
53396966 CTCTCTGGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGAGACATTGGCATTGTAT
Found at i:53403465 original size:40 final size:38
Alignment explanation
Indices: 53403347--53403468 Score: 154
Period size: 38 Copynumber: 3.2 Consensus size: 38
53403337 TTCATATGGA
* * *
53403347 GCTGGTATCATATTCGGGTTAAATCCCACAGGCTTCGT
1 GCTGGTATTATATTCGGGTTAAATCCCGCAGGCTTAGT
*
53403385 GCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGT
1 GCTGGTATTATATTCGGGTTAAATCCCGCAGGCTTAGT
* * * *
53403423 GCTGGTATTATATTCAAGCTTAAAGTCCCGCAGGTTTTGT
1 GCTGGTATTATATTC-GGGTTAAA-TCCCGCAGGCTTAGT
53403463 GCTGGT
1 GCTGGT
53403469 GACTGGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 48 0.66
39 6 0.08
40 19 0.26
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (38 bp):
GCTGGTATTATATTCGGGTTAAATCCCGCAGGCTTAGT
Found at i:53404773 original size:18 final size:20
Alignment explanation
Indices: 53404740--53404778 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
53404730 AACTGATTGA
53404740 ATGATTGATAGTTTTAAAAT
1 ATGATTGATAGTTTTAAAAT
53404760 ATGATT-AT-GTTTTAAAAT
1 ATGATTGATAGTTTTAAAAT
53404778 A
1 A
53404779 ATATATGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 2 0.11
20 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (20 bp):
ATGATTGATAGTTTTAAAAT
Found at i:53406686 original size:43 final size:43
Alignment explanation
Indices: 53406649--53406797 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
53406639 TATGTGTTCT
* * *
53406649 CGTGTGAGACCACGTTTAGGACATTGGCATCGATATGTGATTA
1 CGTGTAAGACCACGTCTAGGACATCGGCATCGATATGTGATTA
* *
53406692 CGTGTAAGACCATGTCTAGGACATCGGCATCG-TATTTGATT-
1 CGTGTAAGACCACGTCTAGGACATCGGCATCGATATGTGATTA
* * ** *
53406733 CGTGTAAGACC-CTGTCTGGGATAGGGGCATCCATATGTGA-TA
1 CGTGTAAGACCAC-GTCTAGGACATCGGCATCGATATGTGATTA
* * *
53406775 GCATGTAAGACCACATCTGGGAC
1 -CGTGTAAGACCACGTCTAGGAC
53406798 GTTGGCATTG
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 26 0.30
42 14 0.16
43 45 0.52
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACATCGGCATCGATATGTGATTA
Found at i:53411068 original size:46 final size:45
Alignment explanation
Indices: 53411018--53411191 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
53411008 TGGTTGAGCA
53411018 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
53411064 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
53411111 TCCGAGCTCGTTGAGTTGTGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
53411157 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
53411192 AGGCGGGTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:53411174 original size:93 final size:93
Alignment explanation
Indices: 53411015--53411185 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53411005 GGATGGTTGA
* *
53411015 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53411080 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
53411108 GCATCCGAGCTCGTTGAGTTGTGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53411173 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53411186 ACTTATAGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:53414216 original size:29 final size:29
Alignment explanation
Indices: 53414130--53414213 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
53414120 CATAGTATCG
* * * *
53414130 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
53414160 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
53414189 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
53414214 TCTTGTTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.10
29 23 0.48
30 20 0.42
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:53414217 original size:14 final size:15
Alignment explanation
Indices: 53414139--53414217 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
53414129 GTATCTTGGG
*
53414139 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
53414154 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53414169 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
53414183 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
53414198 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
53414212 TTTCTT
1 TTTCTT
53414218 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53417264 original size:118 final size:119
Alignment explanation
Indices: 53417083--53417304 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
53417073 TCCTCGTTCA
*
53417083 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
53417148 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
53417202 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
53417264 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
53417305 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:53417304 original size:40 final size:40
Alignment explanation
Indices: 53417081--53417304 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
53417071 GCTCCTCGTT
* *
53417081 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53417121 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53417161 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
53417201 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
53417239 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
53417280 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53417305 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53425100 original size:40 final size:40
Alignment explanation
Indices: 53425012--53425196 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
53425002 TAACTCATTC
* * *
53425012 AATGCCTTCGGGACTTAACCCGGATTTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA--ATTAGTAACTCGCACA
*
53425053 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACA
* *
53425093 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACA
* ** * *
53425133 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACA
*
53425174 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
53425197 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 8 0.07
40 79 0.65
41 35 0.29
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACA
Done.