Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 174 of 349
Found at i:56522711 original size:28 final size:28
Alignment explanation
Indices: 56522654--56522711 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
56522644 TTTTACTTTG
* *
56522654 TTTTTATTTATGTAATTATTTTGAAGTT
1 TTTTTATATATGTAATTATTTTGAAATT
56522682 TTTTTATATAT-TATATTATTTT-AACATT
1 TTTTTATATATGTA-ATTATTTTGAA-ATT
56522710 TT
1 TT
56522712 GCATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTTTATATATGTAATTATTTTGAAATT
Found at i:56528269 original size:21 final size:21
Alignment explanation
Indices: 56528229--56528269 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56528219 TTGAGCATTT
***
56528229 AAAAAAGATCATTTTTAAAAA
1 AAAAAAGATCATTCAAAAAAA
56528250 AAAAAAGATCATTCAAAAAA
1 AAAAAAGATCATTCAAAAAA
56528270 GATCATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAAAGATCATTCAAAAAAA
Found at i:56528280 original size:16 final size:14
Alignment explanation
Indices: 56528250--56528276 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56528240 TTTTTAAAAA
56528250 AAAAAAGATCATTC
1 AAAAAAGATCATTC
56528264 AAAAAAGATCATT
1 AAAAAAGATCATT
56528277 TTCATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAAAAGATCATTC
Found at i:56528378 original size:64 final size:64
Alignment explanation
Indices: 56528310--56528546 Score: 307
Period size: 62 Copynumber: 3.9 Consensus size: 64
56528300 TTCATAACAT
*
56528310 GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGATATCAGCATTACATCTA
1 GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATCAGCATTACATCTA
* * * *
56528374 GTTAGAAGCATTTG----A---T--TCATAGCATCCTAATTATTTGACATAAGCATCACATTTA
1 GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATCAGCATTACATCTA
* *
56528429 GTTAGGAGCACTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCA-T-CATCTA
1 GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATCAGCATTACATCTA
* * *
56528491 GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTAGTTGGCATAAGCAT
1 GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATCAGCAT
56528547 GATACATGAA
Statistics
Matches: 147, Mismatches: 16, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
55 47 0.32
57 1 0.01
59 1 0.01
60 1 0.01
62 55 0.37
64 42 0.29
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (64 bp):
GTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATCAGCATTACATCTA
Found at i:56528411 original size:55 final size:54
Alignment explanation
Indices: 56528330--56528506 Score: 196
Period size: 55 Copynumber: 3.1 Consensus size: 54
56528320 TTTGATTCAT
*
56528330 TTTGATCATAGCATCCTAATTATTTGATATCAGCATTACATCTAGTTAGAAGCA
1 TTTGATCATAGCATCCTAATTATTTGACATCAGCATTACATCTAGTTAGAAGCA
* * *
56528384 TTTGATTCATAGCATCCTAATTATTTGACATAAGCATCACATTTAGTTAGGAGCACTTGATTCA
1 TTTGA-TCATAGCATCCTAATTATTTGACATCAGCATTACATCTAGTTA-GA--A---G---CA
*
56528448 TTTCGATCATAGCATCCTAATTATTTGACATCAGCA-T-CATCTAGTTAGGAGCA
1 TTT-GATCATAGCATCCTAATTATTTGACATCAGCATTACATCTAGTTAGAAGCA
56528501 TTTGAT
1 TTTGAT
56528507 TCATTTTGAT
Statistics
Matches: 104, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
52 3 0.03
53 5 0.05
54 5 0.05
55 39 0.38
56 3 0.03
58 1 0.01
59 1 0.01
61 2 0.02
62 9 0.09
64 34 0.33
65 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (54 bp):
TTTGATCATAGCATCCTAATTATTTGACATCAGCATTACATCTAGTTAGAAGCA
Found at i:56529015 original size:44 final size:46
Alignment explanation
Indices: 56528950--56529045 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 46
56528940 AACCACTGAC
* **
56528950 CTTATC-TCTCTGAGTTAGCAA-GAGAGCAGGTTGAAGA-TGATAG-T
1 CTTATCTTCTCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGA-AGAT
*
56528994 CTTATCTTC-CTGAGGTGGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
56529039 CTTATCT
1 CTTATCT
56529046 CCCTAAGCAG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
44 29 0.66
45 15 0.34
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CTTATCTTCTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
Found at i:56529110 original size:177 final size:177
Alignment explanation
Indices: 56528813--56529220 Score: 558
Period size: 177 Copynumber: 2.3 Consensus size: 177
56528803 AATCATAACA
* * *
56528813 AGTCTTATCTCCCTGAGGTTA-C-AGTGGAGTAGACTGAAGATTGAAAGATCTTATCTCCCTAAG
1 AGTCTTATCTTCCTGAGG-TAGCAAG-GAAGCAGACTGAAGATTG-AAGATCTTATCTCCCTAAG
56528876 CAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTA
63 CAGTAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTA
* *
56528941 ACCACTGACCTTATCTCTCTGAGTTAGCAAGAGAGCAGGTT-G-AAGATGAT
128 ACCACTGACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGGCAA-ATG-T
*
56528991 AGTCTTATCTTCCTGAGGTGGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
* * * * * * *
56529056 TAGTGGAGCGGATCGAGGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCT
66 TAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTAACC
* * *
56529121 ATTGACCTTATCTCTCTAAGGTAGTAAGAGAGCAGGTTGGCAATTGT
131 ACTGACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGGCAAATGT
*
56529168 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACT-AA-ATGTGGAAGATCTTAT
1 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT-T-GAAGATCTTAT
56529221 TTCTCTCAAC
Statistics
Matches: 206, Mismatches: 18, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
175 2 0.01
176 3 0.01
177 160 0.78
178 37 0.18
179 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (177 bp):
AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAG
TAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTAACC
ACTGACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGGCAAATGT
Found at i:56529536 original size:179 final size:175
Alignment explanation
Indices: 56529333--56529651 Score: 414
Period size: 179 Copynumber: 1.8 Consensus size: 175
56529323 AACAAATCGC
* * *
56529333 AGATGGTGAACCTTATCTCCATGTATCGGCAAT-GAGGCAGAGTTTAGCCACCAG-CCTTATTTC
1 AGATGGTGAACCTTATCTCCATGTATCGGCAATGGA-ACAAAGTTTAGCCA-CAGACCTTATCTC
* *
56529396 TCTGAGGTAGCAAGAGAGTAG-G-TTGAAGAATGAGTCTTATCTTCCTGAGATAGCAAGGAAGCA
64 TCTGAGGTAGCAAAAGAGCAGCGATT---G--T-AGTCTTATCTTCCTGAGATAGCAAGGAAGCA
*
56529459 GACT-GAGAATTGAAGATTTTATCTCCCTGAGATTACAGTGGAGAGATCTTCAT
123 GACTAAAG-ATTGAAGATTTTATCTCCCTGAGATTACAGTGGAGAGATCTTCAT
* * * * *
56529512 AGATGGTGAATCTTATCTCCATGTATTGGCAATGGAACAAATTTTAGCCACTGACTTTATCTCTC
1 AGATGGTGAACCTTATCTCCATGTATCGGCAATGGAACAAAGTTTAGCCACAGACCTTATCTCTC
*
56529577 TGAGGTAGCAAAAGAGCAGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAG
66 TGAGGTAGCAAAAGAGCAGCGATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTAAAG
56529642 ATTGAAGATT
131 ATTGAAGATT
56529652 GGAGGATGCA
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
175 44 0.36
176 3 0.02
178 3 0.02
179 68 0.55
180 3 0.02
181 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (175 bp):
AGATGGTGAACCTTATCTCCATGTATCGGCAATGGAACAAAGTTTAGCCACAGACCTTATCTCTC
TGAGGTAGCAAAAGAGCAGCGATTGTAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTAAAG
ATTGAAGATTTTATCTCCCTGAGATTACAGTGGAGAGATCTTCAT
Found at i:56529782 original size:148 final size:142
Alignment explanation
Indices: 56529520--56529798 Score: 396
Period size: 148 Copynumber: 1.9 Consensus size: 142
56529510 ATAGATGGTG
* * * * *
56529520 AATCTTATCTCCATGTATTGGCAATGGAACAAATTTTAGCCACTGACTTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGAACTGGCAATGGAACAAATTTAAGCCACAGACCTTATCTCTCTGAGGTAG
56529585 CAAAAGAGCAGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGA
66 CAAAAGAGCAGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGA
56529650 TTGGAGGATGCA
131 TTGGAGGATGCA
* * * *
56529662 AATCTTATCTCTATGAACTGGCAATGGAGCAGATTTAAGCCTCAAGACCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATGAACTGGCAATGGAACAAATTTAAGCCAC-AGACCTTATCTCTCTGAGGTA
* * *
56529727 GCAAGAGAGCAAGTTGAAAATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
65 GCAAAAGAGC-AG-CG---ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGAT
56529792 TGAAGAT
125 TGAAGAT
56529799 CTATTTCCCT
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
142 36 0.30
143 28 0.24
144 2 0.02
145 1 0.01
148 52 0.44
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (142 bp):
AATCTTATCTCCATGAACTGGCAATGGAACAAATTTAAGCCACAGACCTTATCTCTCTGAGGTAG
CAAAAGAGCAGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTGAAGA
TTGGAGGATGCA
Found at i:56531409 original size:25 final size:24
Alignment explanation
Indices: 56531381--56531427 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
56531371 TTGAAGTTTT
* *
56531381 TTTTATATATTATATTATTTTAACA
1 TTTTATATAATAT-TTAGTTTAACA
*
56531406 TTTTGTATAATATTTAGTTTAA
1 TTTTATATAATATTTAGTTTAA
56531428 TTTTCTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTATATAATATTTAGTTTAACA
Found at i:56534660 original size:15 final size:15
Alignment explanation
Indices: 56534640--56534674 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
56534630 ATGAATATGG
56534640 TGTCTAATAAGAGTT
1 TGTCTAATAAGAGTT
56534655 TGTCTAATAAGAGTT
1 TGTCTAATAAGAGTT
56534670 TGTCT
1 TGTCT
56534675 GTTGACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (15 bp):
TGTCTAATAAGAGTT
Found at i:56535097 original size:9 final size:9
Alignment explanation
Indices: 56535083--56535120 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
56535073 TGGCTCTGAC
56535083 AGAGTTGAA
1 AGAGTTGAA
56535092 AGAGTTGAA
1 AGAGTTGAA
56535101 AGAGTTGAA
1 AGAGTTGAA
*
56535110 AAAGTTGAA
1 AGAGTTGAA
56535119 AG
1 AG
56535121 CTCAGTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:56537985 original size:43 final size:42
Alignment explanation
Indices: 56537917--56538030 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
56537907 AAGCTCCTAC
* * * *
56537917 AATGCCAACGTCCCAGACGTTGTCTTACATGTAATCAAATAT
1 AATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAT
* * * * *
56537959 CGATGCCACTGTCCCAGAC-TGGGTCTTACGTGAAATTATATAT
1 -AATGCCAATGTCCCAGACAT-GGTCTTACATGAAATCAAATAT
56538002 AATGCCAATGTCCCAGACATGGTCTTACA
1 AATGCCAATGTCCCAGACATGGTCTTACA
56538031 CATAAATCAC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
AATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATAT
Found at i:56542479 original size:23 final size:23
Alignment explanation
Indices: 56542412--56542482 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
56542402 GAAAATGCAT
56542412 ATGATGTTATAATTCTGATTCTA
1 ATGATGTTATAATTCTGATTCTA
*
56542435 ATGATTGTT-T-CTT-T-ATTCTA
1 ATGA-TGTTATAATTCTGATTCTA
56542455 ATGATGTTATAATTCTGATTCTA
1 ATGATGTTATAATTCTGATTCTA
56542478 ATGAT
1 ATGAT
56542483 TGTCTTTGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
19 4 0.10
20 11 0.27
21 3 0.07
22 3 0.07
23 16 0.39
24 4 0.10
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (23 bp):
ATGATGTTATAATTCTGATTCTA
Found at i:56545242 original size:48 final size:49
Alignment explanation
Indices: 56545126--56545255 Score: 163
Period size: 48 Copynumber: 2.7 Consensus size: 49
56545116 ATGAGATCCC
* *
56545126 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCCGAGATGAGAGCTA
1 GTGTAATACCATGTCTGGGACATGGCATCGGCATCAGAGATGAGAGCTA
* * ** * * *
56545175 GTGTAATACCATGTTTGGGACATGGTATCGGTGT-AGATATGTGTGCTA
1 GTGTAATACCATGTCTGGGACATGGCATCGGCATCAGAGATGAGAGCTA
*
56545223 GTGTAATACCATGCCTGGGACATGGCATCGGCA
1 GTGTAATACCATGTCTGGGACATGGCATCGGCA
56545256 CCAATATGTG
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
48 38 0.57
49 29 0.43
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.26
Consensus pattern (49 bp):
GTGTAATACCATGTCTGGGACATGGCATCGGCATCAGAGATGAGAGCTA
Found at i:56545296 original size:48 final size:48
Alignment explanation
Indices: 56545239--56545438 Score: 130
Period size: 48 Copynumber: 4.3 Consensus size: 48
56545229 TACCATGCCT
* * *
56545239 GGGACATGGCATCGGCACCAATATGTGATCATGTATAAGACCACATCA
1 GGGATATGGCATCGGCACCAATATGAGATCTTGTATAAGACCACATCA
* * * * * * ** *
56545287 GGGATATGGCTTCGGTATCATTAAGTGAT-TTCGTATAAGACCATGTCT
1 GGGATATGGCATCGGCACCAATATGAGATCTT-GTATAAGACCACATCA
* * * * * *
56545335 GGGACATGGCATC-G-----ATATGAGGTCCTATATAAGACCACGTCT
1 GGGATATGGCATCGGCACCAATATGAGATCTTGTATAAGACCACATCA
* *
56545377 GGGATATGGCATCGGCACCGATATGAGA-CTTTGTATAAGACCAAATCTA
1 GGGATATGGCATCGGCACCAATATGAGATC-TTGTATAAGACCACATC-A
56545426 -GGATATGGCATCG
1 GGGATATGGCATCG
56545439 TTATATAGTC
Statistics
Matches: 116, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
42 31 0.27
43 2 0.02
47 3 0.03
48 80 0.69
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
GGGATATGGCATCGGCACCAATATGAGATCTTGTATAAGACCACATCA
Found at i:56547780 original size:19 final size:19
Alignment explanation
Indices: 56547753--56547826 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
56547743 TAATTGTACC
56547753 AATACTTTTTTATAGTAATT
1 AATA-TTTTTTATAGTAATT
*
56547773 ATTATTTTTTAAATTATGTAAATT
1 AATATTTTTT--A-TA-GT-AATT
* *
56547797 AATATTGTATATAGTAATT
1 AATATTTTTTATAGTAATT
56547816 AATATTTTTTA
1 AATATTTTTTA
56547827 ATTTAACTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
19 19 0.44
20 5 0.12
21 3 0.07
22 3 0.07
23 2 0.05
24 11 0.26
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.55
Consensus pattern (19 bp):
AATATTTTTTATAGTAATT
Found at i:56549947 original size:34 final size:34
Alignment explanation
Indices: 56549904--56549971 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
56549894 CTTCCAAATC
56549904 AAACTTCCTTCTTATAACACCCCTTACCCGTGTT
1 AAACTTCCTTCTTATAACACCCCTTACCCGTGTT
*
56549938 AAACTTCCTTCTTGTAACACCCCTTACCCGTGTT
1 AAACTTCCTTCTTATAACACCCCTTACCCGTGTT
56549972 CAACACCGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.35, G:0.07, T:0.35
Consensus pattern (34 bp):
AAACTTCCTTCTTATAACACCCCTTACCCGTGTT
Found at i:56550654 original size:41 final size:41
Alignment explanation
Indices: 56550609--56550692 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
56550599 GAGTAAGCTA
56550609 TATAGCTTAGTAAGTTGGTATGTAAATAGTAAGAAATTTAT
1 TATAGCTTAGTAAGTTGGTATGTAAATAGTAAGAAATTTAT
56550650 TATAGCTTAGTAAGTTGGTATGTAAATAGTAAGAAATTTAT
1 TATAGCTTAGTAAGTTGGTATGTAAATAGTAAGAAATTTAT
56550691 TA
1 TA
56550693 ACATGCTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.39
Consensus pattern (41 bp):
TATAGCTTAGTAAGTTGGTATGTAAATAGTAAGAAATTTAT
Found at i:56551654 original size:50 final size:51
Alignment explanation
Indices: 56551520--56551713 Score: 284
Period size: 51 Copynumber: 3.8 Consensus size: 51
56551510 TACACGGCGA
* *
56551520 CCTTCACATAGTACCACCCTTGTAG-CCAAAGATATTTTATTCACAAAGTGG
1 CCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAGTGG
* * *
56551571 CCTTCACACAGTACCAAACTTGTATCCAAAGCTATTTTATTCACAAAGTGG
1 CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGG
*
56551622 CCTT-ACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGG
1 CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGG
* * *
56551672 CCTCCACATAGTACCACACTCGTGTCCAAAGTTATTTTATTC
1 CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
56551714 CTAAGGTTCA
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 45 0.35
51 83 0.65
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (51 bp):
CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGG
Found at i:56551700 original size:101 final size:102
Alignment explanation
Indices: 56551520--56551713 Score: 284
Period size: 101 Copynumber: 1.9 Consensus size: 102
56551510 TACACGGCGA
* * *
56551520 CCTTCACATAGTACCACCCTTGTAGCCAAAGATATTTTATTCACAAAGTGGCCTTCACACAGTAC
1 CCTTCACATAGTACCACACTTGTAGCCAAAGATATTATATTCACAAAGTGGCCTCCACACAGTAC
*
56551585 CAAACTTGTATCCAAAGCTATTTTATTCACAAAGTGG
66 CAAACTCGTATCCAAAGCTATTTTATTCACAAAGTGG
* *
56551622 CCTT-ACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAAGTGGCCTCCACATAGTA
1 CCTTCACATAGTACCACACTTGTAG-CCAAAGATATTATATTCACAAAGTGGCCTCCACACAGTA
* * *
56551685 CCACACTCGTGTCCAAAGTTATTTTATTC
65 CCAAACTCGTATCCAAAGCTATTTTATTC
56551714 CTAAGGTTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 1 0.01
101 77 0.94
102 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (102 bp):
CCTTCACATAGTACCACACTTGTAGCCAAAGATATTATATTCACAAAGTGGCCTCCACACAGTAC
CAAACTCGTATCCAAAGCTATTTTATTCACAAAGTGG
Found at i:56553917 original size:34 final size:34
Alignment explanation
Indices: 56553844--56553918 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
56553834 CGTGCAGTGT
**
56553844 AATA-CAGTCTGGGCCTAAGCCCATATCAGTCGC
1 AATATCAGTCTGGGCCTAAGCCCATATCAGTAAC
* *
56553877 AATATCAGTGTGGGCCTTAGCCCA-ATACAGTAAC
1 AATATCAGTCTGGGCCTAAGCCCATAT-CAGTAAC
*
56553911 AGTATCAG
1 AATATCAG
56553919 GCATGCATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (34 bp):
AATATCAGTCTGGGCCTAAGCCCATATCAGTAAC
Found at i:56566301 original size:29 final size:28
Alignment explanation
Indices: 56566268--56566324 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
56566258 CAAGGGATAC
*
56566268 TGATTTGGCTTCGAGGCAAGCATATCAGG
1 TGATTTGGCTTCGAGCCAAG-ATATCAGG
*
56566297 TGATTTGGCTTCGAGCCATGATATCAGG
1 TGATTTGGCTTCGAGCCAAGATATCAGG
56566325 ATTTCGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
TGATTTGGCTTCGAGCCAAGATATCAGG
Found at i:56567545 original size:43 final size:43
Alignment explanation
Indices: 56567486--56567770 Score: 240
Period size: 43 Copynumber: 6.7 Consensus size: 43
56567476 ACAAAAGTTC
* *
56567486 GCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTA
1 GCGGCGCTTTTAAAAAAAGCGCCGCTAAAGACCAGGACCTTTA
* * *
56567529 ACGGCGCTCTTAAAAAAAG-GCCGCCAAAGACCAGGACCTTTA
1 GCGGCGCTTTTAAAAAAAGCGCCGCTAAAGACCAGGACCTTTA
* * * * *
56567571 GCGGCGTTTTTTATAAAAGTGCCGCTAAAGACTAGGACCTTTA
1 GCGGCGCTTTTAAAAAAAGCGCCGCTAAAGACCAGGACCTTTA
* * * * *
56567614 GCGGCACTTTTATAAAAAA-CGCCGCTATAGACCTGTACTTTTA
1 GCGGCGCTTTTA-AAAAAAGCGCCGCTAAAGACCAGGACCTTTA
* * * * *
56567657 GCGGCGCTTTTGTAAAAAA-CGCCGCTATAGACCTGTACTTTTA
1 GCGGCGCTTTT-AAAAAAAGCGCCGCTAAAGACCAGGACCTTTA
* * * * *
56567700 GCGGCGCTTTTGTAAAAAA-TGCCGCTATAGACCTA-TACTTTTA
1 GCGGCGCTTTT-AAAAAAAGCGCCGCTAAAGACC-AGGACCTTTA
* *
56567743 GCAGCGCTTTTTTAAAAAA-CGCCGCTAA
1 GCGGCGC-TTTTAAAAAAAGCGCCGCTAA
56567771 TTTGCCCAGA
Statistics
Matches: 208, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
42 36 0.17
43 163 0.78
44 9 0.04
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (43 bp):
GCGGCGCTTTTAAAAAAAGCGCCGCTAAAGACCAGGACCTTTA
Found at i:56567682 original size:86 final size:85
Alignment explanation
Indices: 56567486--56567770 Score: 331
Period size: 86 Copynumber: 3.3 Consensus size: 85
56567476 ACAAAAGTTC
* * * *
56567486 GCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAACGGCGCTCTTA-AAAAAAGGC
1 GCGGCGTTTTTTAAAAAA-CGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
* * * * *
56567550 CGCCAAAGACCAGGACCTTTA
65 CGCTATAGACCTGTACTTTTA
** *
56567571 GCGGCGTTTTTTATAAAAGTGCCGCTAAAGACTAGGACCTTTAGCGGCACTTTTATAAAAAACGC
1 GCGGCGTTTTTTA-AAAAACGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTATAAAAAACGC
56567636 CGCTATAGACCTGTACTTTTA
65 CGCTATAGACCTGTACTTTTA
* * * * * *
56567657 GCGGCGCTTTTGTAAAAAACGCCGCTATAGACCT-GTACTTTTAGCGGCGCTTTTGTAAAAAATG
1 GCGGCG-TTTTTTAAAAAACGCCGCTAAAGA-CTAGGACCTTTAGCGGCGCTTTTATAAAAAACG
*
56567721 CCGCTATAGACCTATACTTTTA
64 CCGCTATAGACCTGTACTTTTA
*
56567743 GCAGCGCTTTTTTAAAAAACGCCGCTAA
1 GCGGCG-TTTTTTAAAAAACGCCGCTAA
56567771 TTTGCCCAGA
Statistics
Matches: 171, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
85 44 0.26
86 119 0.70
87 8 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (85 bp):
GCGGCGTTTTTTAAAAAACGCCGCTAAAGACTAGGACCTTTAGCGGCGCTTTTATAAAAAACGCC
GCTATAGACCTGTACTTTTA
Found at i:56567725 original size:129 final size:128
Alignment explanation
Indices: 56567492--56567770 Score: 319
Period size: 129 Copynumber: 2.2 Consensus size: 128
56567482 GTTCGCGGCG
*
56567492 TTTTTTAAAAAAGCGCCGCTAAAGACCAGGACCTTTAACGGCGCTCTTAAAAAAAGGCCGCCAAA
1 TTTTTTAAAAAA-CGCCGCTAAAGACCAGGACCTTTAACGGCGCTCTTAAAAAAACGCCGCCAAA
* * *
56567557 GACCAGGACCTTTAGCGGCGTTTTTTATAAAAGTGCCGCTAAAGA-CTAGGACCTTTAGCGGCAC
65 GACCAGGACCTTTAGCGGCGTTTTGTATAAAAATGCCGCTAAAGACCTA-GACCTTTAGCAGCAC
* * * * * * * * * *
56567621 TTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAACGCCGCTATA
1 TTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAACGGCGCTCTT-AAAAAAACGCCGCCAAA
* * * * * * *
56567686 GACCTGTACTTTTAGCGGCGCTTTTGTA-AAAAATGCCGCTATAGACCTATACTTTTAGCAGCGC
65 GACCAGGACCTTTAGCGGCG-TTTTGTATAAAAATGCCGCTAAAGACCTAGACCTTTAGCAGCAC
56567750 TTTTTTAAAAAACGCCGCTAA
1 TTTTTTAAAAAACGCCGCTAA
56567771 TTTGCCCAGA
Statistics
Matches: 124, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
128 29 0.23
129 86 0.69
130 9 0.07
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (128 bp):
TTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAACGGCGCTCTTAAAAAAACGCCGCCAAAG
ACCAGGACCTTTAGCGGCGTTTTGTATAAAAATGCCGCTAAAGACCTAGACCTTTAGCAGCAC
Found at i:56568681 original size:18 final size:18
Alignment explanation
Indices: 56568649--56568686 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
56568639 TACAATATAG
56568649 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
56568668 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
56568685 TA
1 TA
56568687 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:56574232 original size:21 final size:21
Alignment explanation
Indices: 56574208--56574247 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
56574198 AAATTAATTC
*
56574208 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
56574229 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
56574248 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:56576546 original size:133 final size:133
Alignment explanation
Indices: 56576308--56576559 Score: 459
Period size: 133 Copynumber: 1.9 Consensus size: 133
56576298 GAATTCAACA
* *
56576308 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATAAATCTATGTCCACACTAAACACA
1 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATAAATCTAAGTCCACACTAAACACA
56576373 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
56576438 ATT
131 ATT
* * *
56576441 ATATAAAATGTAAGCAACAAGACAGCATTAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATAAATCTAAGTCCACACTAAACACA
56576506 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAAT
56576560 GGAATCACCA
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 114 1.00
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.21
Consensus pattern (133 bp):
ATATAAAACGTAAGCAACAAGACAGCAATAAACTCTTAAATAAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:56579960 original size:10 final size:11
Alignment explanation
Indices: 56579939--56579989 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
56579929 CTAAACCACT
56579939 TTTTCATATATA
1 TTTT-ATATATA
56579951 TATTTATATATA
1 T-TTTATATATA
*
56579963 TTTTAAAATAATA
1 TTTT-ATAT-ATA
56579976 TTTTATATATA
1 TTTTATATATA
56579987 TTT
1 TTT
56579990 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:56579998 original size:15 final size:15
Alignment explanation
Indices: 56579978--56580009 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56579968 AAATAATATT
*
56579978 TTATATATATTTATC
1 TTATATACATTTATC
56579993 TTATATACATTTATC
1 TTATATACATTTATC
56580008 TT
1 TT
56580010 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:56580894 original size:14 final size:14
Alignment explanation
Indices: 56580875--56580914 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56580865 ATTAAACCTG
* *
56580875 CTTAAACCATATAT
1 CTTAAACCATAAAC
56580889 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
56580903 CTTAAACTATAA
1 CTTAAACCATAA
56580915 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:56581129 original size:41 final size:41
Alignment explanation
Indices: 56581072--56581292 Score: 293
Period size: 41 Copynumber: 5.4 Consensus size: 41
56581062 GGTTATGGGA
*
56581072 TTTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
56581113 TTTTTAGCGGCGTTTTACCCAAAGCGACGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * * * *
56581154 TTTTTAGCGGCATTTTACCGAAAGCACCGCTAATGCCCT-A
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * * *
56581194 TTTTTAGCGTCGTTTTA-TAGAAAGCGCCGCTAATTCTCTGT
1 TTTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGG
* *
56581235 TTTTTACCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
56581276 TTTTTAGCGGCGTTTTA
1 TTTTTAGCGGCGTTTTA
56581293 GTAAAAAACG
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 31 0.20
41 123 0.80
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:56581233 original size:81 final size:82
Alignment explanation
Indices: 56581072--56581292 Score: 300
Period size: 81 Copynumber: 2.7 Consensus size: 82
56581062 GGTTATGGGA
* *
56581072 TTTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACACAAAG
56581137 CGACGCTAATGCTCTGG
66 CGACGCTAATGCTCTGG
* * * * * * * *
56581154 TTTTTAGCGGCATTTTACCGAAAGCACCGCTAATGCCCT-ATTTTTAGCGTCGTTTTATAGAAAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACACAAAG
* * *
56581218 CGCCGCTAATTCTCTGT
66 CGACGCTAATGCTCTGG
* *
56581235 TTTTTACCGGCGTTTTACCTAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA
56581293 GTAAAAAACG
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
81 68 0.58
82 50 0.42
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (82 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACACAAAG
CGACGCTAATGCTCTGG
Found at i:56581260 original size:122 final size:122
Alignment explanation
Indices: 56581071--56581292 Score: 347
Period size: 122 Copynumber: 1.8 Consensus size: 122
56581061 GGGTTATGGG
* *
56581071 ATTTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAA
1 ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTACCGGCGTTTTACCCAAA
56581136 GCGACGCTAATGCTCTGGTTTTTAGCGGCATTTTACCGAAAGCACCGCTAATGCCCT
66 GCGACGCTAATGCTCTGGTTTTTAGCGGCATTTTACCGAAAGCACCGCTAATGCCCT
* * * * *
56581193 ATTTTTAGCGTCGTTTTA-TAGAAAGCGCCGCTAATTCTCTGTTTTTTACCGGCGTTTTACCTAA
1 ATTTTTAGCGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGGTTTTTACCGGCGTTTTACCCAA
* *
56581257 AGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA
65 AGCGACGCTAATGCTCTGGTTTTTAGCGGCATTTTA
56581293 GTAAAAAACG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 1 0.01
122 89 0.99
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (122 bp):
ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTACCGGCGTTTTACCCAAA
GCGACGCTAATGCTCTGGTTTTTAGCGGCATTTTACCGAAAGCACCGCTAATGCCCT
Found at i:56582965 original size:27 final size:27
Alignment explanation
Indices: 56582935--56583221 Score: 394
Period size: 27 Copynumber: 10.6 Consensus size: 27
56582925 TTAGTTTACC
56582935 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
56582962 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
56582989 AAATCACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
56583016 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
56583043 AAATTTCCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
56583070 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
56583097 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
56583124 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
56583151 AAATTATCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
56583178 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
56583205 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
56583222 TCGACCTGTA
Statistics
Matches: 225, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 225 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:56583232 original size:54 final size:54
Alignment explanation
Indices: 56582935--56583282 Score: 360
Period size: 54 Copynumber: 6.4 Consensus size: 54
56582925 TTAGTTTACC
* * * *
56582935 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTATA
* * * * *
56582989 AAATCACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTATA
* * * * *
56583043 AAATTTCCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTATA
* *
56583097 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTATA
* * * * *
56583151 AAATTATCAAAATA-CCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTATA
* ** *** ** *
56583205 AAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCT-GGTTTATA
* *
56583259 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
56583283 ACAGAATTAC
Statistics
Matches: 254, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
53 8 0.03
54 242 0.95
55 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTATA
Found at i:56583232 original size:81 final size:80
Alignment explanation
Indices: 56582935--56583275 Score: 398
Period size: 81 Copynumber: 4.2 Consensus size: 80
56582925 TTAGTTTACC
* * * * * *
56582935 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
*
56583000 ATACCACTGGTTTGTA
66 ATACC-CTAGTTTGTA
* ** *
56583016 AAATTACCAAAATACCCTTGGTTTACAAAATTTCCAAAATACCCCTGGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-AA
* *
56583080 AATACCCTTTGTTTATA
65 AATACCC-TAGTTTGTA
56583097 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
56583162 ATACCCTTAGTTTGTA
66 ATACCC-TAGTTTGTA
* * * *** **
56583178 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTATCAA
* *
56583242 AATACCCTCGACTTGTA
65 AATACCCTAG-TTTGTA
*
56583259 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
56583276 TTGATTTACA
Statistics
Matches: 227, Mismatches: 28, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
80 8 0.04
81 218 0.96
82 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
ATACCCTAGTTTGTA
Found at i:56583235 original size:27 final size:27
Alignment explanation
Indices: 56582935--56583282 Score: 289
Period size: 27 Copynumber: 12.9 Consensus size: 27
56582925 TTAGTTTACC
*
56582935 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * * *
56582962 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
56582989 AAATCACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGATTTGTA
* * **
56583016 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
56583043 AAATTTCCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
56583070 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
*
56583097 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
56583124 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
56583151 AAATTATCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
56583178 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
56583205 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
56583232 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
56583259 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
56583283 ACAGAATTAC
Statistics
Matches: 269, Mismatches: 39, Indels: 26
0.81 0.12 0.08
Matches are distributed among these distances:
26 3 0.01
27 261 0.97
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:56583328 original size:27 final size:27
Alignment explanation
Indices: 56583205--56583329 Score: 90
Period size: 27 Copynumber: 4.6 Consensus size: 27
56583195 CTGATTTGTG
* * **
56583205 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* **
56583232 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
56583259 AAATTAC-CAAAGTACCCTTGATTTACA
1 AAATTACTGAAA-TACCCTCGACTTACA
* * *** *
56583286 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGACTTACA
56583313 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
56583330 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 3 0.04
27 73 0.96
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:56583344 original size:27 final size:27
Alignment explanation
Indices: 56583314--56583489 Score: 248
Period size: 27 Copynumber: 6.5 Consensus size: 27
56583304 CGATTTACAA
56583314 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
56583341 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
56583368 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
56583395 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
56583422 AATTATTGCAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
56583449 AATTA-TCGAAATATCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
56583476 AATTACTAAAATAC
1 AATTACTGAAATAC
56583490 TAAGTTTGAC
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 129 0.98
28 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:56583372 original size:54 final size:54
Alignment explanation
Indices: 56583314--56583489 Score: 273
Period size: 54 Copynumber: 3.3 Consensus size: 54
56583304 CGATTTACAA
*
56583314 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
56583368 AATTA-TCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
56583422 AATTATTGCAATACCCCTGTAGGGTAGAATTATCGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
56583476 AATTACTAAAATAC
1 AATTACTGAAATAC
56583490 TAAGTTTGAC
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:56583488 original size:81 final size:81
Alignment explanation
Indices: 56583314--56583489 Score: 282
Period size: 81 Copynumber: 2.2 Consensus size: 81
56583304 CGATTTACAA
56583314 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAA
56583379 TACCCTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* ****
56583395 AATTACCGAAATACCCCTGTAGGGTAGAATTATTGCAATACCCCTGTAGGGTAGAATTATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAA
56583460 TATCCC-TGTAGGGTAG
66 TA-CCCTTGTAGGGTAG
*
56583476 AATTACTAAAATAC
1 AATTACTGAAATAC
56583490 TAAGTTTGAC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 84 0.97
82 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCGAAA
TACCCTTGTAGGGTAG
Found at i:56583977 original size:15 final size:13
Alignment explanation
Indices: 56583939--56583980 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
56583929 ACCTCTTGTA
*
56583939 AAAAGAAAATGAG
1 AAAAGAAAAAGAG
56583952 AAAAGAAAAAGATG
1 AAAAGAAAAAGA-G
56583966 AAAAGCAAAAAGAG
1 AAAAG-AAAAAGAG
56583980 A
1 A
56583981 TCAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.05
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:56583991 original size:15 final size:15
Alignment explanation
Indices: 56583952--56583995 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
56583942 AGAAAATGAG
*
56583952 AAAAGAAAA-AGATG
1 AAAAGAAAAGAGATC
56583966 AAAAGCAAAAAGAGATC
1 AAAAG--AAAAGAGATC
56583983 AAAAGAAAAGAGA
1 AAAAGAAAAGAGA
56583996 GGCAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.19
15 8 0.31
16 4 0.15
17 9 0.35
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAGAGATC
Found at i:56592951 original size:42 final size:41
Alignment explanation
Indices: 56592891--56592999 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 41
56592881 TCGATGTGTC
* * *
56592891 TGTCCCAGATAGGGTCTTACACGAAA-TCAGATACGATGCC-G
1 TGTCCCAGACACGGTCTTACACGAAACTCA-AT-CGAGGCCTG
* * *
56592932 ATGTCCCAGACATGATCTTATACGTAAATCTCAATCGAGGCCTG
1 -TGTCCCAGACACGGTCTTACACG-AAA-CTCAATCGAGGCCTG
56592976 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
56593000 TGTCTCAGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
42 20 0.36
43 29 0.53
44 3 0.05
45 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
TGTCCCAGACACGGTCTTACACGAAACTCAATCGAGGCCTG
Found at i:56595328 original size:26 final size:26
Alignment explanation
Indices: 56595292--56595401 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
56595282 TGATACAAAT
56595292 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
56595318 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
56595344 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
56595370 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
56595396 TGATAA
1 TGATAA
56595402 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:56603291 original size:42 final size:43
Alignment explanation
Indices: 56603214--56603315 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
56603204 TCTCGGACGT
* * **
56603214 GGTCTTACATGTAACTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
*
56603257 GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
* *
56603299 GATCTTATACGTAAATC
1 GGTCTTACACGTAAATC
56603316 TCAATAGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.64
43 18 0.36
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:56607027 original size:12 final size:14
Alignment explanation
Indices: 56607012--56607043 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56607002 GTGAGAACAC
56607012 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
56607024 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
56607038 ATGTGT
1 ATGTGT
56607044 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:56607118 original size:49 final size:49
Alignment explanation
Indices: 56607055--56607245 Score: 177
Period size: 51 Copynumber: 3.8 Consensus size: 49
56607045 TAAAATGGTT
* *
56607055 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCCACTCATGTACCAGAT-GG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCCACT-ATGTACCAGATAGC
* * * *
56607104 TTAGGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCATACCCGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCCACTATG--TACCAGATAGC
* * * **
56607155 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCCACTA--TGTACCAGATAGC
* * * * * *
56607206 TTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCCACTATGTA
56607246 AAGAAGATAG
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
48 3 0.03
49 35 0.30
50 7 0.06
51 69 0.59
53 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCCACTATGTACCAGATAGC
Found at i:56607204 original size:51 final size:50
Alignment explanation
Indices: 56607060--56607284 Score: 161
Period size: 51 Copynumber: 4.5 Consensus size: 50
56607050 TGGTTTTAGG
* * ** * * *
56607060 TCACGTGTGTAGTACTAAGTGCAGGCCACTCA-TGTACCAGAT-GGTTAGG
1 TCACATGTGTGGTACTAAGTGCAGGCCACT-ATTGTAAAAGATAGCTTTGA
* * * * *** *
56607109 TCGCATGTGTAGTTCTAAGTGCAGGCTACTA-TGCATACCCGATAGCTTCGA
1 TCACATGTGTGGTACTAAGTGCAGGCCACTATTG--TAAAAGATAGCTTTGA
*
56607160 TCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGG
1 TCACATGTGTGGTACTAAGTGCAGGCCACTAT-TGTAAAAGATAGCTTTGA
* * *
56607211 TCACAAGTGTGGTACTATGTGAAGGCCACT-TTGTAAAGAAGATAGCTTTGA
1 TCACATGTGTGGTACTAAGTGCAGGCCACTATTGT-AA-AAGATAGCTTTGA
* * * *
56607262 TTACAAGGGTGGTACTATGTGCA
1 TCACATGTGTGGTACTAAGTGCA
56607285 AGTCATCGGG
Statistics
Matches: 145, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.02
49 29 0.20
50 10 0.07
51 101 0.70
53 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TCACATGTGTGGTACTAAGTGCAGGCCACTATTGTAAAAGATAGCTTTGA
Found at i:56609807 original size:29 final size:29
Alignment explanation
Indices: 56609770--56609865 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
56609760 TGAATGTTAC
*
56609770 TGGGCCTAACAGGCCATATAAATGTGATT
1 TGGGCCTAATAGGCCATATAAATGTGATT
* * *
56609799 TGGGCCTAATAGGCCATATAGAGGCGATT
1 TGGGCCTAATAGGCCATATAAATGTGATT
* * *
56609828 TGGGCCTAATGGGCCATATGAATATG-TT
1 TGGGCCTAATAGGCCATATAAATGTGATT
*
56609856 TGGGCTTAAT
1 TGGGCCTAAT
56609866 GGGCTAGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 11 0.20
29 45 0.80
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATAAATGTGATT
Found at i:56610182 original size:25 final size:25
Alignment explanation
Indices: 56610150--56610202 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
56610140 ACCGTAATTA
* * *
56610150 AGGG-AAAATTACCGAAATGCCCCT
1 AGGGAAAAATGACCAAAATACCCCT
56610174 AGGGCAAAAATGACCAAAATACCCCT
1 AGGG-AAAAATGACCAAAATACCCCT
56610200 AGG
1 AGG
56610203 TGTAGAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.13
Consensus pattern (25 bp):
AGGGAAAAATGACCAAAATACCCCT
Found at i:56620214 original size:27 final size:26
Alignment explanation
Indices: 56620184--56620279 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
56620174 TAGCCTACAA
* *
56620184 GGGTATTTTGGTAATCCTACCATATAG
1 GGGTATTTCGATAATCCTACC-TATAG
*
56620211 GGGTATTTCGATAATCCTACTCTATAA
1 GGGTATTTCGATAATCCTAC-CTATAG
*
56620238 GGGTATTTCGATAATCCTACCCTACAG
1 GGGTATTTCGATAATCCTA-CCTATAG
*
56620265 GGGTATTTCAATAAT
1 GGGTATTTCGATAAT
56620280 TTTATAACCC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 59 0.97
28 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (26 bp):
GGGTATTTCGATAATCCTACCTATAG
Found at i:56620320 original size:26 final size:26
Alignment explanation
Indices: 56620266--56620320 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
56620256 ACCCTACAGG
* *
56620266 GGTATTTCAATAATTTTATAACCCAA
1 GGTATTTCAATAATTTTACAAACCAA
* *
56620292 GGTATTTCAGTAATTTTACAAACCGA
1 GGTATTTCAATAATTTTACAAACCAA
56620318 GGT
1 GGT
56620321 CTTAACGACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (26 bp):
GGTATTTCAATAATTTTACAAACCAA
Found at i:56628392 original size:38 final size:38
Alignment explanation
Indices: 56628350--56628430 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
56628340 TAGGCTGAAG
*
56628350 AGGCCACCACGTGCCTTTTCATAAACTTAGGCCGTTAT
1 AGGCCACCACGTGCCTTTTCATAAACTTAGGCCATTAT
* *
56628388 AGGCCACCACGTGCGTTTTCATAGACTTAGGCCATTAT
1 AGGCCACCACGTGCCTTTTCATAAACTTAGGCCATTAT
56628426 AGGCC
1 AGGCC
56628431 TCGATGGGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (38 bp):
AGGCCACCACGTGCCTTTTCATAAACTTAGGCCATTAT
Found at i:56630358 original size:34 final size:34
Alignment explanation
Indices: 56630310--56630378 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
56630300 GAGATAAGGC
*
56630310 AGAGTATGCTGAACACTTGAGAACTATTTTGCAG
1 AGAGCATGCTGAACACTTGAGAACTATTTTGCAG
* * *
56630344 AGAGCATGTTGAACACTTGATAACTGTTTTGCAG
1 AGAGCATGCTGAACACTTGAGAACTATTTTGCAG
56630378 A
1 A
56630379 CTTTGAGAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (34 bp):
AGAGCATGCTGAACACTTGAGAACTATTTTGCAG
Found at i:56634947 original size:47 final size:47
Alignment explanation
Indices: 56634876--56635394 Score: 542
Period size: 47 Copynumber: 10.6 Consensus size: 47
56634866 CCCTTCGGGA
* * * * * *
56634876 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56634923 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56634970 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56635017 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56635064 CTTATCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56635111 CTTATCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *** *
56635158 CTTATCACATATATACACTTTCACATTCA-CATATATACACTTTCA--C
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-CATT-AGGC
* * ** **
56635204 ATTCATCACATCGGCTATTAGGC-CTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 CTT-ATCACAT---ATA-TA--CACTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA-
56635268 TTAGGC
45 ---GGC
56635274 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56635321 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56635368 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56635395 TATTCAAATA
Statistics
Matches: 410, Mismatches: 33, Indels: 58
0.82 0.07 0.12
Matches are distributed among these distances:
46 8 0.02
47 338 0.82
48 1 0.00
50 2 0.00
51 2 0.00
52 3 0.01
53 5 0.01
54 3 0.01
55 5 0.01
56 6 0.01
57 2 0.00
59 2 0.00
60 1 0.00
61 5 0.01
62 5 0.01
63 5 0.01
64 3 0.01
65 2 0.00
66 2 0.00
69 7 0.02
70 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56634954 original size:25 final size:25
Alignment explanation
Indices: 56634926--56635004 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
56634916 ACTCGGCCCT
56634926 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
56634951 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
56634973 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
56634998 ATCACAT
1 ATCACAT
56635005 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:56635130 original size:141 final size:141
Alignment explanation
Indices: 56634876--56635394 Score: 619
Period size: 141 Copynumber: 3.5 Consensus size: 141
56634866 CCCTTCGGGA
* * * * * * * *
56634876 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* *
56634941 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56635006 GGCCATTAGGC
131 GGCCATTAGGC
56635017 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* * *
56635082 TTTCACATTCGTCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
56635147 GGCTATTAGGC
131 GGCCATTAGGC
* * * *
56635158 CTTATCACATATATACACTTTCACATTCACATATATACACTTTC-ACATTCATCACATCGGCTAT
1 CTTATCACATATATACACTTTCACATT--C----AT-CAC-ATCGGC--T-AT----TAGGC-CT
* * *
56635222 TAGGC-CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
50 TA-TCACATAT-AT------ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
56635286 ATACACTTTCACATTCATCACATCGGCCATTAGGC
107 ATACACTTTCACATTCATCACATCGGCCATTAGGC
56635321 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
56635386 TTTCACATT
66 TTTCACATT
56635395 TATTCAAATA
Statistics
Matches: 320, Mismatches: 32, Indels: 52
0.79 0.08 0.13
Matches are distributed among these distances:
141 167 0.52
143 1 0.00
147 4 0.01
148 11 0.03
149 6 0.02
150 1 0.00
151 2 0.01
153 2 0.01
154 1 0.00
155 6 0.02
156 11 0.03
157 4 0.01
161 1 0.00
163 103 0.32
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:56635187 original size:22 final size:22
Alignment explanation
Indices: 56635162--56635208 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
56635152 TTAGGCCTTA
56635162 TCACATATATACACTTTCACAT
1 TCACATATATACACTTTCACAT
56635184 TCACATATATACACTTTCACAT
1 TCACATATATACACTTTCACAT
56635206 TCA
1 TCA
56635209 TCACATCGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (22 bp):
TCACATATATACACTTTCACAT
Found at i:56635193 original size:116 final size:116
Alignment explanation
Indices: 56635068--56635302 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 116
56635058 TTAGGCCTTA
*
56635068 TCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
* *
56635133 ACATTCGTCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
56635184 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
56635249 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
56635300 TCA
1 TCA
56635303 TCACATCGGC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (116 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
Found at i:56635194 original size:163 final size:163
Alignment explanation
Indices: 56635021--56635349 Score: 622
Period size: 163 Copynumber: 2.0 Consensus size: 163
56635011 TTAGGCCTTA
56635021 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
* * * *
56635086 ACATTCGTCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
56635151 ATTAGGCCTTATCACATATATACACTTTCACAT
131 ATTAGGCCTTATCACATATATACACTTTCACAT
56635184 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
56635249 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
56635314 ATTAGGCCTTATCACATATATACACTTTCACAT
131 ATTAGGCCTTATCACATATATACACTTTCACAT
56635347 TCA
1 TCA
56635350 TCACATCGGC
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (163 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATATACACTTTCACAT
Found at i:56635250 original size:69 final size:69
Alignment explanation
Indices: 56635115--56635255 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 69
56635105 TTAGGCCTTA
*
56635115 TCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
56635180 ACAT
66 ACAT
56635184 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
56635249 ACAT
66 ACAT
56635253 TCA
1 TCA
56635256 TCACATCGGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (69 bp):
TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
ACAT
Found at i:56635320 original size:210 final size:210
Alignment explanation
Indices: 56634974--56635394 Score: 797
Period size: 210 Copynumber: 2.0 Consensus size: 210
56634964 TTCGGCCTTA
56634974 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* * *
56635039 ACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATCGGCT
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
*
56635104 ATTAGGCCTTATCACATATATACACTTTCACATTCGTCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
56635169 TATACACTTTCACAT
196 TATACACTTTCACAT
*
56635184 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
56635249 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
56635314 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
131 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
56635379 TATACACTTTCACAT
196 TATACACTTTCACAT
56635394 T
1 T
56635395 TATTCAAATA
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 206 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (210 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
TATACACTTTCACAT
Found at i:56643436 original size:48 final size:48
Alignment explanation
Indices: 56643343--56643459 Score: 128
Period size: 48 Copynumber: 2.4 Consensus size: 48
56643333 AGGGGATACA
* * * * *
56643343 TTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTATAC
1 TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGATACAAGTTA-AC
* * * *
56643392 -TGATTTGGCTTCGGGCCATGATATCAGTACTTTGGATATAAGTTACC
1 TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGATACAAGTTAAC
*
56643439 TTGATTTGGCTTCGAGCCATG
1 TTGATTTGGCTTCGGGCCATG
56643460 GTATAGGTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 56 0.98
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (48 bp):
TTGATTTGGCTTCGGGCCATGATATCAGCACTTCGGATACAAGTTAAC
Found at i:56645455 original size:13 final size:13
Alignment explanation
Indices: 56645434--56645465 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56645424 CATCCATATC
56645434 TCAAACACATGTA
1 TCAAACACATGTA
*
56645447 TCAACCACATGTA
1 TCAAACACATGTA
56645460 TCAAAC
1 TCAAAC
56645466 TTACCCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (13 bp):
TCAAACACATGTA
Found at i:56646205 original size:43 final size:43
Alignment explanation
Indices: 56646156--56646270 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
56646146 CCAAACGTGA
**
56646156 TCTTACATGTAATCACATATCGATGCCTCTATCCCAGACAGGG
1 TCTTACATGTAATCACATATCGATGCCAATATCCCAGACAGGG
** * * *
56646199 TCTTACA-CAAACTCATATAT-GATGCCAATGTCCCAGACATGG
1 TCTTACATGTAA-TCACATATCGATGCCAATATCCCAGACAGGG
*
56646241 TCTTACATGTAAATCACAAATCGATGCCAA
1 TCTTACATGT-AATCACATATCGATGCCAA
56646271 CGTCTCAAAC
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 27 0.47
43 20 0.35
44 10 0.18
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
TCTTACATGTAATCACATATCGATGCCAATATCCCAGACAGGG
Found at i:56647287 original size:24 final size:25
Alignment explanation
Indices: 56647255--56647336 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
56647245 CTGGAGACCT
*
56647255 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTAATAAACTGGGGCAA
*
56647279 AGCCC-TTTTGATAAACTGGGGCAA
1 AGCCCTTTTTAATAAACTGGGGCAA
* * *
56647303 AGCCCTTTTCAGTAAACTGGGGCAT
1 AGCCCTTTTTAATAAACTGGGGCAA
56647328 AGCCCTTTT
1 AGCCCTTTT
56647337 AGCACTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 6 0.12
24 20 0.40
25 24 0.48
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTTAATAAACTGGGGCAA
Found at i:56647569 original size:27 final size:27
Alignment explanation
Indices: 56647539--56647755 Score: 258
Period size: 27 Copynumber: 8.0 Consensus size: 27
56647529 GGGGCAAAAT
* *
56647539 GGTAATTTTACCCCACAAGGGT-TTCTC
1 GGTAATTCTACCCTACAAGGGTATT-TC
* * *
56647566 GGTAGTTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56647593 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56647620 GATAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
56647647 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56647674 GGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
56647701 AGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56647728 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
56647755 G
1 G
56647756 ATATTTTACA
Statistics
Matches: 166, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.02
27 157 0.95
28 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56647605 original size:54 final size:54
Alignment explanation
Indices: 56647543--56647754 Score: 284
Period size: 54 Copynumber: 3.9 Consensus size: 54
56647533 CAAAATGGTA
* * * *
56647543 ATTT-TACCCCACAAGGGT-TTCTCGGTAGTTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATT-TCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
56647596 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGATATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * *
56647650 AATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* * * *
56647704 AATTCTACCCTACAGGGGTACTTCGGTAATTCTATCCTACAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
56647755 GATATTTTAC
Statistics
Matches: 143, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 4 0.03
54 137 0.96
55 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:56647676 original size:81 final size:81
Alignment explanation
Indices: 56647571--56647761 Score: 285
Period size: 81 Copynumber: 2.4 Consensus size: 81
56647561 TTCTCGGTAG
* *
56647571 TTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTA
1 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCATACAAGGGTATTTCAG-TAATTCTACCCTA
*
56647635 CAGGGATATTTCAGTAA
65 CAGGGATACTTCAGTAA
* *
56647652 TTCTACCCTACAGGGGTATTTCGGTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTAC
1 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCATACAAGGGTATTTCAGTAATTCTACCCTAC
* *
56647717 AGGGGTACTTCGGTAA
66 AGGGATACTTCAGTAA
* *
56647733 TTCTATCCTACAGGGGTATTTCGATATTT
1 TTCTACCCTACAGGGGTATTTCGGTATTT
56647762 TACAAATCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 98 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
TTCTACCCTACAGGGGTATTTCGGTATTTCTACCATACAAGGGTATTTCAGTAATTCTACCCTAC
AGGGATACTTCAGTAA
Found at i:56647953 original size:27 final size:27
Alignment explanation
Indices: 56647797--56647949 Score: 182
Period size: 27 Copynumber: 5.7 Consensus size: 27
56647787 TTCGCAAATT
*
56647797 GGTAATTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
56647824 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
56647851 GGTATTTTAGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*** *
56647878 GGTATTTTGGTAATTTTATTGA-TCGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
** * *
56647905 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACTAGG
**
56647932 GGTATTTCAGTAATTTTA
1 GGTATTTTGGTAATTTTA
56647950 TAAATCGAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 106 0.98
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:56647970 original size:81 final size:81
Alignment explanation
Indices: 56647823--56647973 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
56647813 TACAAACTAG
* * * * * ***
56647823 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACGAGGAGTAAAATGG
56647888 TAATTTTATTGATCGA
66 TAATTTTATTGATCGA
** *
56647904 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATAAATCGA-GAGTAAAATG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAA-CGAGGAGTAAAATG
56647968 GTAATT
65 GTAATT
56647974 CTGTAAATCA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 56 0.97
82 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACGAGGAGTAAAATGG
TAATTTTATTGATCGA
Found at i:56648243 original size:27 final size:27
Alignment explanation
Indices: 56647941--56648232 Score: 449
Period size: 27 Copynumber: 10.8 Consensus size: 27
56647931 GGGTATTTCA
* * *
56647941 GTAATTTTATAAATCGAGAGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
56647968 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56647995 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56648022 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
56648049 GTAATTCTATAAGTCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
56648076 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56648103 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
56648130 GTAATTCTATAAATCGATGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56648157 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
56648184 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
56648211 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
56648233 CTTTGGTAAT
Statistics
Matches: 241, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 241 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:56650146 original size:13 final size:13
Alignment explanation
Indices: 56650128--56650152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56650118 ACAAACGATA
56650128 AAATTTTCACACG
1 AAATTTTCACACG
56650141 AAATTTTCACAC
1 AAATTTTCACAC
56650153 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:56653819 original size:47 final size:47
Alignment explanation
Indices: 56653756--56654054 Score: 440
Period size: 47 Copynumber: 6.4 Consensus size: 47
56653746 CCCTTCGGGA
* *
56653756 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
56653803 CTTATCACATATATACAGC-TTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACA-CTTTCACATTCATCACATTGGCCATTCGGC
* * * *
56653850 CTTATCTCATATATGCATTTTCACATT-ATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56653896 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56653943 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56653990 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
56654037 CTTATCACATATACACAC
1 CTTATCACATATATACAC
56654055 CTTGTACATC
Statistics
Matches: 226, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
46 39 0.17
47 186 0.82
48 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56654012 original size:140 final size:141
Alignment explanation
Indices: 56653756--56654054 Score: 440
Period size: 140 Copynumber: 2.1 Consensus size: 141
56653746 CCCTTCGGGA
* *
56653756 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAG
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAG
* * * * *
56653821 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATGCATTTTCACATT-ATCACATT
66 CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
56653885 GGCCATTCGAC
131 GGCCATTAGAC
* *
56653896 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATATACA-
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAG
* * *
56653960 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 C-TTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
56654025 CGGCCATTAGGC
130 CGGCCATTAGAC
*
56654037 CTTATCACATATACACAC
1 CTTATCACATATATACAC
56654055 CTTGTACATC
Statistics
Matches: 142, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
139 1 0.01
140 108 0.76
141 33 0.23
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAG
CTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGAC
Found at i:56657685 original size:40 final size:40
Alignment explanation
Indices: 56657616--56657929 Score: 495
Period size: 40 Copynumber: 7.9 Consensus size: 40
56657606 ATTTTGTCCA
* * *
56657616 AGCAAGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
**
56657655 AGCACGAATGCTCTTTAGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * *
56657695 AGCACGAATGCTCTTCGGGACTTAGCCTGGATACATCAGC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
*
56657735 AGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
56657775 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
*
56657815 AGCACGGATGCTCTTCGGGACTTAGCCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * * *
56657855 AGCACGAATGCTCTTCGGGGCCTAGTCCGGATTTATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
56657895 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
56657930 ACATACTGAA
Statistics
Matches: 249, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 10 0.04
40 239 0.96
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
Found at i:56659841 original size:47 final size:47
Alignment explanation
Indices: 56659778--56660075 Score: 456
Period size: 47 Copynumber: 6.4 Consensus size: 47
56659768 CCCTTCGGGA
* *
56659778 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
56659825 CTTATCACATATATACAC-TTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
56659871 CTTATCTCATATATGCACTTTCACATT-ATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56659917 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56659964 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56660011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
56660058 CTTATCACATATACACAC
1 CTTATCACATATATACAC
56660076 CTTGTACATC
Statistics
Matches: 228, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 81 0.36
47 147 0.64
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56660070 original size:139 final size:137
Alignment explanation
Indices: 56659778--56660073 Score: 430
Period size: 139 Copynumber: 2.1 Consensus size: 137
56659768 CCCTTCGGGA
*
56659778 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACA--TATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
* * * *
56659843 TTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATGCACTTTCACATTATCACATTGG
64 TTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTATCACATCGG
*
56659908 CCATTCGAC
129 CCATTAGAC
* *
56659917 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCAC--ATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
* * *
56659982 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
64 -TTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT-ATCACATC
*
56660047 GGCCATTAGGC
127 GGCCATTAGAC
56660058 CTTATCACATATACAC
1 CTTATCACATATACAC
56660074 ACCTTGTACA
Statistics
Matches: 141, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
139 67 0.48
140 49 0.35
141 25 0.18
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (137 bp):
CTTATCACATATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACACTT
CACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTATCACATCGGCC
ATTAGAC
Found at i:56663479 original size:24 final size:24
Alignment explanation
Indices: 56663452--56663520 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
56663442 AAGGCTGTCA
* * *
56663452 GGAGAAGATTTCCTAGCTGATAAG
1 GGAGAGGATTTACGAGCTGATAAG
*
56663476 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTACGAGCTGATAAG
* *
56663500 GGGGAGGATTTAGGAGCTGAT
1 GGAGAGGATTTACGAGCTGAT
56663521 TAGGAGAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.39, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTACGAGCTGATAAG
Found at i:56664547 original size:16 final size:15
Alignment explanation
Indices: 56664521--56664550 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56664511 ACTAGATCAG
56664521 CGAAAGCCGAAAAGC
1 CGAAAGCCGAAAAGC
56664536 CGAAATGCCGAAAAG
1 CGAAA-GCCGAAAAG
56664551 TCAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.23, G:0.27, T:0.03
Consensus pattern (15 bp):
CGAAAGCCGAAAAGC
Found at i:56666664 original size:40 final size:40
Alignment explanation
Indices: 56666609--56666832 Score: 238
Period size: 40 Copynumber: 5.5 Consensus size: 40
56666599 TATTCGGATG
56666609 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
56666649 ATATCCGGGATAAGTCCCGATA-GCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGA-AGGCATTTGTG-CA--AGTTACT
* * * *
56666692 ATACCCGGGCTAAGTCCCGAAGTCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
56666732 ATATCCAGGCTAAGTCCCGAAGGCA-TTGATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG-TGCAAGTTACT
* * ** *
56666772 ATATCCGGGCTAAGACCCAAAGGCATTTGTGTGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
56666812 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
56666833 ATACTTGGGT
Statistics
Matches: 154, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 15 0.10
40 101 0.66
41 5 0.03
42 1 0.01
43 32 0.21
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:56666758 original size:83 final size:79
Alignment explanation
Indices: 56666613--56666832 Score: 241
Period size: 83 Copynumber: 2.7 Consensus size: 79
56666603 CGGATGATAT
* * *
56666613 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGATAAGTCCCGATA-GCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGA-AGGCA-TT
* *
56666677 GTGTGAGTAGTTG-CTATAC
63 G-ATG-CTAG-TGACTATAC
*
56666696 CCGGGCTAAGTCCCGAAGTCATTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATTGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTGA
*
56666761 TGCTAGTGACTATAT
65 TGCTAGTGACTATAC
* * *
56666776 CCGGGCTAAGACCCAAAGGCATTTGTG-TGAGTTG-CTATATCCGGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACTATATCCGGCTAAGTCCCGAAG
56666833 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
79 17 0.14
80 42 0.35
81 4 0.03
82 4 0.03
83 54 0.45
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCATTGAT
GCTAGTGACTATAC
Found at i:56668436 original size:27 final size:26
Alignment explanation
Indices: 56668396--56668500 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
56668386 AGGAAGCGTC
56668396 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGAT
*
56668423 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGAT
* * *
56668450 CTGGTGGCTCTGCCACAATTATTTGGT
1 CTGGTGGCACTGCCAC-ATTATCTGAT
* **
56668477 CTGGTGACACTATCACATTATCTG
1 CTGGTGGCACTGCCACATTATCTG
56668501 TCCTGGTAGC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 10 0.15
27 54 0.82
28 2 0.03
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGAT
Found at i:56668480 original size:54 final size:53
Alignment explanation
Indices: 56668393--56668507 Score: 158
Period size: 54 Copynumber: 2.2 Consensus size: 53
56668383 TGGAGGAAGC
* *
56668393 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACAT-TATCT
* * * * *
56668447 GTTCTGGTGGCTCTGCCACAATTATTTGGTCTGGTGACACTATCACATTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACATTATCT
56668500 GTCCTGGT
1 GTCCTGGT
56668508 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTACCACATTATCT
Found at i:56668688 original size:32 final size:32
Alignment explanation
Indices: 56668644--56668724 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 32
56668634 ATATGTTCTG
*
56668644 TTCTGTTATGGGCCTATGGGCTTTATTCTAAC
1 TTCTGTTCTGGGCCTATGGGCTTTATTCTAAC
*
56668676 TTCTGTTCTGGGCTGGCCTATGGGCTTTATTCTGAC
1 TTCTGTTCT--G--GGCCTATGGGCTTTATTCTAAC
*
56668712 TTCTATTCTGGGC
1 TTCTGTTCTGGGC
56668725 TAAGGCCAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
32 11 0.26
34 2 0.05
36 29 0.69
ACGTcount: A:0.11, C:0.21, G:0.25, T:0.43
Consensus pattern (32 bp):
TTCTGTTCTGGGCCTATGGGCTTTATTCTAAC
Found at i:56668701 original size:36 final size:36
Alignment explanation
Indices: 56668654--56668725 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
56668644 TTCTGTTATG
*
56668654 GGCCTATGGGCTTTATTCTAACTTCTGTTCTGGGCT
1 GGCCTATGGGCTTTATTCTAACTTCTATTCTGGGCT
*
56668690 GGCCTATGGGCTTTATTCTGACTTCTATTCTGGGCT
1 GGCCTATGGGCTTTATTCTAACTTCTATTCTGGGCT
56668726 AAGGCCAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.42
Consensus pattern (36 bp):
GGCCTATGGGCTTTATTCTAACTTCTATTCTGGGCT
Found at i:56674793 original size:24 final size:24
Alignment explanation
Indices: 56674766--56674819 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
56674756 AAGGCTGTCA
56674766 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
56674790 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
56674814 GGAGAA
1 GGAGAA
56674820 TAGTGTTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:56677151 original size:39 final size:39
Alignment explanation
Indices: 56677097--56677187 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
56677087 ATGATACTTG
56677097 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
*
56677136 GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
*
56677175 GAAATATATCCGG
1 GAAACATATCCGG
56677188 GCTTAAAGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
Found at i:56677217 original size:40 final size:39
Alignment explanation
Indices: 56677097--56677219 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
56677087 ATGATACTTG
* * * *
56677097 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
1 GAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGCTA
* * *
56677136 GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
1 GAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGCTA
* * *
56677175 GAAATATATCCGGGCTTAAAGTCCCGTAGGCTTTGTGCTA
1 GAAATATATCCGGACTTAAAGT-CCGCAGGCTATGTGCTA
56677215 GAAAT
1 GAAAT
56677220 TGGACTCGGG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 56 0.74
40 20 0.26
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACTTAAAGTCCGCAGGCTATGTGCTA
Found at i:56685128 original size:40 final size:39
Alignment explanation
Indices: 56685005--56685126 Score: 172
Period size: 39 Copynumber: 3.1 Consensus size: 39
56684995 ATGATACTTG
*
56685005 GAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTA
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
*
56685044 GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTG
1 GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
* * * * *
56685083 GAAATATATCCGGGCTTAAAGTCCCGCAGGCTTTGTGCTA
1 GAAACATATCCGGACTTGAGGT-CCGCAGGCTATGTGCTA
56685123 GAAA
1 GAAA
56685127 TAGGACTCGA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 55 0.74
40 19 0.26
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
GAAACATATCCGGACTTGAGGTCCGCAGGCTATGTGCTA
Found at i:56687318 original size:27 final size:26
Alignment explanation
Indices: 56687278--56687388 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 26
56687268 AGGAAGCGTC
*
56687278 CTGGTGGCTA-TGCCATAATTATCTGAT
1 CTGGTGGC-ACTGCCA-AATTATCTGTT
*
56687305 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCAAAT-TATCTGTT
*
56687332 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCA-AATTATCTGTT
* * *
56687359 CTGGTGACACTG-TAACATTATCTGTC
1 CTGGTGGCACTGCCAA-ATTATCTGTT
56687385 CTGG
1 CTGG
56687389 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
25 1 0.01
26 17 0.24
27 52 0.72
28 2 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCACTGCCAAATTATCTGTT
Found at i:56687362 original size:54 final size:53
Alignment explanation
Indices: 56687275--56687388 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
56687265 TGGAGGAAGC
* * *
56687275 GTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCACTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCAACAT-TATCT
* * * *
56687329 GTTCTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACACTGTAACATTATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCAACATTATCT
56687382 GTCCTGG
1 GTCCTGG
56687389 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 11 0.21
54 41 0.79
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACACTGCAACATTATCT
Found at i:56689755 original size:27 final size:26
Alignment explanation
Indices: 56689715--56689807 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
56689705 AGGAAGCGTC
*
56689715 CTGGTGGCTA-TGCCATAATTATCTGAT
1 CTGGTGGC-ACTGCCA-AATTATCTGTT
*
56689742 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCAAAT-TATCTGTT
*
56689769 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCA-AATTATCTGTT
*
56689796 CTGGTGACACTG
1 CTGGTGGCACTG
56689808 TAACATTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.05
27 52 0.91
28 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (26 bp):
CTGGTGGCACTGCCAAATTATCTGTT
Found at i:56692166 original size:55 final size:54
Alignment explanation
Indices: 56692016--56692229 Score: 218
Period size: 55 Copynumber: 4.0 Consensus size: 54
56692006 TTACTCGGGA
* * * * * * *
56692016 ACCTTTTCCTTTTTGAACTTACCATTGCCATGTCTGGACATGGTCTTACGTGGT
1 ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
* * * *
56692070 ATCC-TTGCTTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGG
1 A-CCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
* * *
56692123 ACCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATT
1 ACCTTTGCCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GT
* * * *
56692179 TCCTTT-CCTTATAGAACTTATCAATGTCATGCCTTGGCATGGTCTTACATG
1 ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATG
56692230 ATATCCTTAT
Statistics
Matches: 134, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.01
53 42 0.31
54 42 0.31
55 43 0.32
56 5 0.04
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
Found at i:56692221 original size:54 final size:54
Alignment explanation
Indices: 56692020--56692237 Score: 235
Period size: 54 Copynumber: 4.0 Consensus size: 54
56692010 TCGGGAACCT
* * * * * * *
56692020 TTTCCTTTTTGAACTTACCATTGCCATGTC-TGGACATGGTCTTACGTGGTATCC
1 TTTCCTTATAGAACTTATCAATGCCATGCCTTGG-CATGGTCTTACATGATATCC
* * * * **
56692074 TTGCTTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CC
1 TTTCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
* * *
56692126 TTTGCCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC
1 TTT-CCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
*
56692182 TTTCCTTATAGAACTTATCAATGTCATGCCTTGGCATGGTCTTACATGATATCC
1 TTTCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
56692236 TT
1 TT
56692238 ATCTTACCAA
Statistics
Matches: 138, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 37 0.27
54 51 0.37
55 41 0.30
56 5 0.04
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (54 bp):
TTTCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC
Found at i:56692229 original size:109 final size:108
Alignment explanation
Indices: 56692031--56692229 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
56692021 TTCCTTTTTG
* * * *
56692031 AACTTACCATTGCCATGTCTGGACATGGTCTTACGTGGTATCCTTGCTTTATGAACTCACCAATG
1 AACTTACCAATGCCATGTCTGGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
56692096 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
56692139 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAAT
1 AACTTACCAATGCCATGTCTGGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAAT
*
56692204 GTCATGCCTTGGCATGGTCTTACATG
65 GCCATGCCTTGGCATGGTCTTACATG
56692230 ATATCCTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 44 0.56
109 35 0.44
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (108 bp):
AACTTACCAATGCCATGTCTGGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:56692269 original size:47 final size:47
Alignment explanation
Indices: 56692216--56692337 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
56692206 CATGCCTTGG
* * * * *
56692216 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCGTGTTTCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
56692263 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
56692310 TATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
56692338 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:56692404 original size:47 final size:47
Alignment explanation
Indices: 56692311--56692472 Score: 145
Period size: 47 Copynumber: 3.5 Consensus size: 47
56692301 TGTTCCAAAT
* *
56692311 ATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTGAT
1 ATGGTCTTACATGGTATCCTTATC-TAGTGCCAATGCCACATCTTGAC
* * **
56692359 GTGGTCTTACATGG-AGTCCTTAATC-AGTGCCGATGCCATGTCTTGAC
1 ATGGTCTTACATGGTA-TCCTT-ATCTAGTGCCAATGCCACATCTTGAC
* ** * **
56692406 ATGGTCTTACATGGGATCCTTGCCTTACTG---ATGCCATGTCTTGAC
1 ATGGTCTTACATGGTATCCTTATC-TAGTGCCAATGCCACATCTTGAC
56692451 ATGGTCTTACATGGTATCCTTA
1 ATGGTCTTACATGGTATCCTTA
56692473 ACCGTCAATT
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
45 35 0.36
46 1 0.01
47 37 0.38
48 22 0.23
49 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTATCTAGTGCCAATGCCACATCTTGAC
Found at i:56696274 original size:53 final size:53
Alignment explanation
Indices: 56696077--56696280 Score: 165
Period size: 53 Copynumber: 3.8 Consensus size: 53
56696067 AGGGTTTAAG
* * * * * * * *
56696077 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGTCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAG-TTCATAAGGCAAA
* * * * * * * * *
56696131 GAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACGATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGT-AAGTTC-ATAAGGCAAA
* * * * *
56696186 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
* *
56696239 GATACCATGTAAGACCATGTCAAGACATGTAAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTT
56696281 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 34 0.29
55 38 0.32
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGAAATGGTAAGTTCATAAGGCAAA
Found at i:56707562 original size:43 final size:42
Alignment explanation
Indices: 56707514--56707629 Score: 108
Period size: 42 Copynumber: 2.7 Consensus size: 42
56707504 CCTAGACGTT
** * *
56707514 GTCTTACATGTAATCACATATCGATGCCTCTGTCCCAGACAGG
1 GTCTTACA-GTAATCACATATCGATGCCAATGTCCCAAACAGA
* * * *
56707557 GTCTTACA-CAAACTCATATACGATGCCAATGTCCCAAACATA
1 GTCTTACAGTAATCACATAT-CGATGCCAATGTCCCAAACAGA
*
56707599 GTCTTACACGTAAATCACAAATCGATGCCAA
1 GTCTTACA-GT-AATCACATATCGATGCCAA
56707630 CGCCCCAGAT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
41 8 0.14
42 25 0.44
43 8 0.14
44 9 0.16
45 7 0.12
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.25
Consensus pattern (42 bp):
GTCTTACAGTAATCACATATCGATGCCAATGTCCCAAACAGA
Found at i:56710449 original size:140 final size:142
Alignment explanation
Indices: 56710194--56710460 Score: 330
Period size: 140 Copynumber: 1.9 Consensus size: 142
56710184 CTATCATCTT
* *
56710194 CGAGGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACTGTGCTGATACCAT
1 CGAGGCCGATGTCATGTCCCAGACATGGCCTTACACTAGCACTCACATAACTGTGCTGATACCAT
* * * * *
56710259 GTCCCAGGCATGGTTTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACATGTCTTATAC
66 GTCCCAGACATGGTCTTACACAGACACATCTAATAGCCAATGCATGTCCCAGACATGTCTTATAC
56710324 TGGCTTATGTCC
131 TGGCTTATGTCC
* ** *
56710336 CGAGGCTGATG-CATGTCCCAGACAT-GCCTTACACTAGCACTCGTATCAA-TGT-C-GATGCCA
1 CGAGGCCGATGTCATGTCCCAGACATGGCCTTACACTAGCACTCACAT-AACTGTGCTGATACCA
* * *
56710396 TGTCCCAGACATGGTCTTACACAGGCTC-TCATAATGTGGCCAATGCATGTCCCAGACATGTCTT
65 TGTCCCAGACATGGTCTTACACAGACACATC-TAA--TAGCCAATGCATGTCCCAGACATGTCTT
56710460 A
127 A
56710461 CACTAGCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
137 2 0.02
138 31 0.29
139 1 0.01
140 47 0.44
141 16 0.15
142 10 0.09
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (142 bp):
CGAGGCCGATGTCATGTCCCAGACATGGCCTTACACTAGCACTCACATAACTGTGCTGATACCAT
GTCCCAGACATGGTCTTACACAGACACATCTAATAGCCAATGCATGTCCCAGACATGTCTTATAC
TGGCTTATGTCC
Found at i:56720802 original size:46 final size:48
Alignment explanation
Indices: 56720606--56720876 Score: 185
Period size: 46 Copynumber: 5.8 Consensus size: 48
56720596 ATGGGTAAAG
* **
56720606 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCCCT-AA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAA
* * * *
56720653 CCGTACCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC-G
1 ---TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAA
* * * * * *
56720701 TAGCCGATG-CATGTCCCAAACAT-GTCTTATACTGGC-TTACGTCCCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACT-CGTCTCAA
* * *
56720748 GGCTGATG-CATGTCTCAGACAT-GTCTTACACTAGCACTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAA
* * *
56720794 TGCCGATGCCATGTCCCACACATGGTCTTACAC-CG-GCTC-TCAT-AA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTC-TCAA
56720839 TGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 --T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
56720877 TTACACAAAT
Statistics
Matches: 175, Mismatches: 31, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.05
45 19 0.11
46 64 0.37
47 29 0.17
48 20 0.11
49 1 0.01
50 33 0.19
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAA
Found at i:56720853 original size:94 final size:94
Alignment explanation
Indices: 56720606--56720876 Score: 277
Period size: 94 Copynumber: 2.9 Consensus size: 94
56720596 ATGGGTAAAG
* * * *
56720606 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCCCTAACCGT-ACCGATGCCATGT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CCATAA-CGTGGCCGATG-CATGT
*
56720670 CCCAGACATGGTCTTACACT-G-ACACATCTCG
63 CCCAGACAT-GTCTTACACTAGCACACATCTCA
* * * ** * * *
56720701 TAGCCGATG-CATGTCCCAAACAT-GTCTTATACTGGCT-TACGTCCCGAGGCTGATGCATGTCT
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCCATAACGTGGCCGATGCATGTCC
* *
56720763 CAGACATGTCTTACACTAGCACTCGTCTCAA
65 CAGACATGTCTTACACTAGCACACATCTC-A
* * *
56720794 TGCCGATGCCATGTCCCACACATGGTCTTACACCGGCTCT-CATAATGTGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCCATAACGTGGCCGATGCATGTCCC
56720858 AGACATGTCTTACACTAGC
66 AGACATGTCTTACACTAGC
56720877 TTACACAAAT
Statistics
Matches: 144, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
90 10 0.07
91 16 0.11
92 21 0.15
93 15 0.10
94 60 0.42
95 15 0.10
96 7 0.05
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCCATAACGTGGCCGATGCATGTCCC
AGACATGTCTTACACTAGCACACATCTCA
Found at i:56725299 original size:20 final size:20
Alignment explanation
Indices: 56725274--56725320 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
56725264 AGGGACTAAA
* *
56725274 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
56725294 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
56725314 ATGAAAA
1 ATGAAAA
56725321 CATGTGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:56726183 original size:52 final size:53
Alignment explanation
Indices: 56726102--56726206 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 53
56726092 GTGTACTACT
* * *
56726102 TAAGCATCCATTGGAATTTAATGATTCAACAGACATATAACTCTAGACATGGC
1 TAAGCATCCATTCGAACTCAATGATTCAACAGACATATAACTCTAGACATGGC
56726155 TAAGCATCCA-TCGAACTCAATGATTCAACAGACATATAACTCTAGACATGGC
1 TAAGCATCCATTCGAACTCAATGATTCAACAGACATATAACTCTAGACATGGC
56726207 ATGAGAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 39 0.80
53 10 0.20
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (53 bp):
TAAGCATCCATTCGAACTCAATGATTCAACAGACATATAACTCTAGACATGGC
Found at i:56727132 original size:18 final size:18
Alignment explanation
Indices: 56727088--56727133 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
56727078 TGGCCCATTA
*
56727088 CAGTAACAATAAACAGTG
1 CAGTAACAGTAAACAGTG
*
56727106 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAAACAGTG
56727124 CAGTAACAGT
1 CAGTAACAGT
56727134 TTAAACAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:56730776 original size:27 final size:27
Alignment explanation
Indices: 56730746--56730923 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 27
56730736 ATATTGAGCC
*
56730746 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
** *
56730773 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
* *
56730800 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
** ** *
56730828 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* **
56730855 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * *
56730882 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTATATAATC-AACT
*
56730909 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
56730924 GTACAATTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 101 0.80
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56730885 original size:82 final size:81
Alignment explanation
Indices: 56730767--56730922 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
56730757 TGCTATATAA
* *
56730767 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56730832 CACTTAGTGCCGTATGG
65 CACTTAGTGCCGTATGG
* * ** *
56730849 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
56730913 CCCTTAGTGC
65 CACTTAGTGC
56730923 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGTATGG
Found at i:56738752 original size:27 final size:27
Alignment explanation
Indices: 56738721--56738898 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56738711 TATATTGAGC
* * * *
56738721 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56738748 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56738775 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56738803 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56738830 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56738857 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56738884 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56738899 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56738860 original size:82 final size:81
Alignment explanation
Indices: 56738742--56738897 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56738732 TGCTATATAA
* *
56738742 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56738807 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56738824 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56738888 CACTTAGTGC
65 CACTTAGTGC
56738898 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56743042 original size:29 final size:29
Alignment explanation
Indices: 56743009--56743066 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
56742999 GTGCAGGCTA
56743009 CTACGTGTATCAGATAGTTAGGTCACGTG
1 CTACGTGTATCAGATAGTTAGGTCACGTG
56743038 CTACGTGTATCAGATAGTTAGGTCACGTG
1 CTACGTGTATCAGATAGTTAGGTCACGTG
56743067 TGTAGTACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (29 bp):
CTACGTGTATCAGATAGTTAGGTCACGTG
Found at i:56753402 original size:29 final size:27
Alignment explanation
Indices: 56753311--56753417 Score: 90
Period size: 29 Copynumber: 3.8 Consensus size: 27
56753301 TACATAGATG
* *
56753311 CATATAGCCCATTAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAAT-TTATT
* * *
56753339 CAAATGGCCCATCT-GGCCCAGTTCAGATT
1 CATATGGCCCA-CTAGGCCCAATT--TATT
*
56753368 CTTATGGCCCACTAGGCCCAATTTACCTT
1 CATATGGCCCACTAGGCCCAATTTA--TT
*
56753397 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
56753418 ATCATATTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.03
28 18 0.29
29 42 0.68
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
CATATGGCCCACTAGGCCCAATTTATT
Found at i:56755165 original size:42 final size:42
Alignment explanation
Indices: 56755063--56755176 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
56755053 AACGGGTACA
** *
56755063 ATGCCGATGTCCCAGACATGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACATGGTCTTACA-CAAAATCAGTATCG
** *
56755106 ATGCCTCTGTCCCAGACAGGGTCTTACACAAAATCAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACAAAATCAGTAT-CG
*
56755148 ATGCCGATGTCCTAGACATGGTCTTACAC
1 ATGCCGATGTCCCAGACATGGTCTTACAC
56755177 GACATCTCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 33 0.55
43 25 0.42
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACAAAATCAGTATCG
Found at i:56762841 original size:25 final size:25
Alignment explanation
Indices: 56762807--56762857 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
56762797 CAGAGTAAGC
56762807 TTATAGCTTAGTAAGCCCATATAAT
1 TTATAGCTTAGTAAGCCCATATAAT
*
56762832 TTATAGCTTAGTAAGCCCGTATAAT
1 TTATAGCTTAGTAAGCCCATATAAT
56762857 T
1 T
56762858 CAAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (25 bp):
TTATAGCTTAGTAAGCCCATATAAT
Found at i:56770144 original size:39 final size:40
Alignment explanation
Indices: 56770043--56770227 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
56770033 TCGAATGATG
** * *
56770043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAT
* *
56770082 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56770123 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56770162 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56770201 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56770228 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56770249 original size:79 final size:79
Alignment explanation
Indices: 56770096--56770260 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
56770086 GGACTAAGAT
* **
56770096 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
56770161 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
56770175 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
56770238 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56770254 CCGAAGG
1 CCGAAGG
56770261 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56771870 original size:15 final size:15
Alignment explanation
Indices: 56771850--56771878 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56771840 CTAAACATAC
56771850 AAAATAATAATAATA
1 AAAATAATAATAATA
56771865 AAAATAATAATAAT
1 AAAATAATAATAAT
56771879 GATAACATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATAATAATA
Done.