Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 36 of 444
Found at i:8831432 original size:11 final size:10
Alignment explanation
Indices: 8831403--8831447 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
8831393 AAAATTATTT
8831403 AAAATTCA-A
1 AAAATTCATA
8831412 AAAATT-ATA
1 AAAATTCATA
8831421 AAAAGTTCATA
1 AAAA-TTCATA
*
8831432 AAAATTTATA
1 AAAATTCATA
8831442 AAAATT
1 AAAATT
8831448 AGCATGAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
8 1 0.03
9 11 0.34
10 13 0.41
11 7 0.22
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTCATA
Found at i:8840475 original size:21 final size:20
Alignment explanation
Indices: 8840451--8840513 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
8840441 AAAATATGTT
8840451 AAAAGAGATGGAGAAATGAAG
1 AAAAGA-ATGGAGAAATGAAG
*
8840472 AAAACAAATGGAGAAA-G-AG
1 AAAA-GAATGGAGAAATGAAG
* *
8840491 AAGAGAATGGA-AAATAAAG
1 AAAAGAATGGAGAAATGAAG
8840510 AAAA
1 AAAA
8840514 AAAAGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 3 0.09
18 6 0.18
19 10 0.29
20 1 0.03
21 13 0.38
22 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.27, T:0.08
Consensus pattern (20 bp):
AAAAGAATGGAGAAATGAAG
Found at i:8851562 original size:12 final size:12
Alignment explanation
Indices: 8851545--8851573 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8851535 ATTTACATAC
8851545 ATTGAATAAGTT
1 ATTGAATAAGTT
8851557 ATTGAATAAGTT
1 ATTGAATAAGTT
8851569 ATTGA
1 ATTGA
8851574 GCCATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (12 bp):
ATTGAATAAGTT
Found at i:8853061 original size:14 final size:14
Alignment explanation
Indices: 8853044--8853074 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8853034 ATAATATAGT
8853044 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
8853058 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
8853072 ATA
1 ATA
8853075 GAAAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:8853129 original size:42 final size:42
Alignment explanation
Indices: 8853083--8853163 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
8853073 TAGAAAAGTT
*
8853083 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
*
8853125 ACAGAGAGCAAACGTGAGAAAGAAAGAAGGAAAGAAAGA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGA
8853164 AAGAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.05
Consensus pattern (42 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:8853986 original size:47 final size:47
Alignment explanation
Indices: 8853922--8854032 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
8853912 GACATTGAGT
*
8853922 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * * * *
8853969 TGATGAAGTACTTTGTGTACTATAATGTTAAAGTTTCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
8854016 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
8854033 CTTATCCCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
47 49 0.92
48 4 0.08
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.37
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:8855321 original size:22 final size:22
Alignment explanation
Indices: 8855279--8855324 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
8855269 TCGATTAAAC
8855279 TGATCTAATTCGATTAATCAGT
1 TGATCTAATTCGATTAATCAGT
8855301 TGAT-TAA-TCGATATAATTCAGT
1 TGATCTAATTCGAT-TAA-TCAGT
8855323 TG
1 TG
8855325 GAGGTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 6 0.27
22 11 0.50
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (22 bp):
TGATCTAATTCGATTAATCAGT
Found at i:8859417 original size:15 final size:15
Alignment explanation
Indices: 8859397--8859453 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
8859387 ATTCAATATT
8859397 AATATTTTAATAATA
1 AATATTTTAATAATA
*
8859412 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
8859431 AATATATTAATAATA
1 AATATTTTAATAATA
8859446 AATATTTT
1 AATATTTT
8859454 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:8860887 original size:3 final size:3
Alignment explanation
Indices: 8860881--8860941 Score: 113
Period size: 3 Copynumber: 20.0 Consensus size: 3
8860871 CAATGATGAA
8860881 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
8860927 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
8860942 GCAATGATAG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8861304 original size:19 final size:20
Alignment explanation
Indices: 8861256--8861312 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
8861246 AAAAATGCAA
8861256 TATTAAAAAATATATACACG
1 TATTAAAAAATATATACACG
* * * *
8861276 TAATATAAAA-ATGTACCCG
1 TATTAAAAAATATATACACG
8861295 TATTAAAAAATATATACA
1 TATTAAAAAATATATACA
8861313 TAATAAAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (20 bp):
TATTAAAAAATATATACACG
Found at i:8861580 original size:3 final size:3
Alignment explanation
Indices: 8861567--8861637 Score: 133
Period size: 3 Copynumber: 23.3 Consensus size: 3
8861557 GTATACATGA
8861567 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8861613 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
8861638 GTAAAATCGA
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8862588 original size:27 final size:27
Alignment explanation
Indices: 8862518--8862588 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 27
8862508 CAAAAAAAAT
** *
8862518 ACTTTCCTTTTTTTTACTCCATTACCA
1 ACTTTCCCCTTTTTTATTCCATTACCA
8862545 ACTTT-CCCTTTTTTATTCCATTACCA
1 ACTTTCCCCTTTTTTATTCCATTACCA
8862571 ACTTTCCCCTTTTTTATT
1 ACTTTCCCCTTTTTTATT
8862589 TTTTATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 23 0.57
27 17 0.43
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.54
Consensus pattern (27 bp):
ACTTTCCCCTTTTTTATTCCATTACCA
Found at i:8863687 original size:31 final size:31
Alignment explanation
Indices: 8863652--8863723 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
8863642 GCTCTGATTC
8863652 ATTCCACTGCGACTACTTGTGGCTTTAACCT
1 ATTCCACTGCGACTACTTGTGGCTTTAACCT
8863683 ATTCCACTGCGACTACTTGTGGCTTTAACCT
1 ATTCCACTGCGACTACTTGTGGCTTTAACCT
8863714 ATTCCACTGC
1 ATTCCACTGC
8863724 AACTTTAGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (31 bp):
ATTCCACTGCGACTACTTGTGGCTTTAACCT
Found at i:8864252 original size:133 final size:132
Alignment explanation
Indices: 8864084--8864550 Score: 410
Period size: 133 Copynumber: 3.5 Consensus size: 132
8864074 GTTCCGCTGT
* * * * *
8864084 AACTTCAAGGAA-ATAAGATTTGCTATATTTGATCTGCTCCACTACAATCTCAGGGAAACAAGAT
1 AACTTC-AGGAAGACAAGATTTGCCATCTTCGATCTGCTCCACTGCAATCTCAGGGAAACAAGAT
8864148 CTACAATCTTCAGCCTACTCCACTACAACTTTAGGAAATTAGGATGATGGCTTAAATCTGCTTCA
65 CTACAATCTTCAGCCTACTCCACTACAACTTTAGGAAA-TAGGATGATGGCTTAAATCTGCTTCA
8864213 CTGC
129 CTGC
* * * * * * *
8864217 AACTTCAGGAAGGCAAGATTTACCGTCTTCAATCTGTTCCACTGTAA-CTTCAGGGAGACAAGAT
1 AACTTCAGGAAGACAAGATTTGCCATCTTCGATCTGCTCCACTGCAATC-TCAGGGAAACAAGAT
* * * * * * * * * * *
8864281 CT---ATTTTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCAATCT
65 CTACAATCTTCAGCCTACTCCACTACAACTTTAG-GAAATAGGA--TG--A--TGGCTTAAATCT
*
8864342 G-TTCCATTGC
123 GCTT-CACTGC
* * * * * *
8864352 AACTTCAGGGAA-ATAAGATTTGCTATATTTGATCTGCTCCACTGCAATCTTAAGGAAACAAGAT
1 AACTTCA-GGAAGACAAGATTTGCCATCTTCGATCTGCTCCACTGCAATCTCAGGGAAACAAGAT
** *
8864416 CTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCA
65 CTACAATCTTCAGCCTACTCCACTACAACTTTA-GGAAATAGGATGATGGCTTAAATCTGCTTCA
8864481 CTGC
129 CTGC
* * * * * *
8864485 AACATCAGGAAGCCTAGATTCGCCATCTTCGATCTGCTCCACTGCAATCTTAGGGAAAAAAGATC
1 AACTTCAGGAAGACAAGATTTGCCATCTTCGATCTGCTCCACTGCAATCTCAGGGAAACAAGATC
8864550 T
66 T
8864551 GTAGAATTGA
Statistics
Matches: 255, Mismatches: 60, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
129 20 0.08
130 8 0.03
131 2 0.01
132 10 0.04
133 114 0.45
134 4 0.02
135 62 0.24
136 5 0.02
137 2 0.01
138 5 0.02
139 22 0.09
140 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (132 bp):
AACTTCAGGAAGACAAGATTTGCCATCTTCGATCTGCTCCACTGCAATCTCAGGGAAACAAGATC
TACAATCTTCAGCCTACTCCACTACAACTTTAGGAAATAGGATGATGGCTTAAATCTGCTTCACT
GC
Found at i:8864387 original size:135 final size:134
Alignment explanation
Indices: 8863988--8864418 Score: 423
Period size: 135 Copynumber: 3.2 Consensus size: 134
8863978 GAATCTGTTT
* * *
8863988 CACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTACTCTACTGTAACTTTAGAGAGATAAGA
1 CACTGCAACTTCAGGGAAACAAGATCTATTTTGATCTACTCTACTGCAACTTTAGAGAGATAAGA
* *
8864053 TCTGTAATTTAGCTTCAATCTGTTCCGCTGTAACTTCAAGGAAATAAGATTTGCTATATTTGATC
66 TCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTC-AGGAAATAAGATTTGCTATATTTGATC
8864118 TGCTC
130 TGCTC
* * * * * * *
8864123 CACTACAA-TCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAG-GAAA
1 CACTGCAACT-TCAGGGAAACAAGATCT---ATTTTGA-TCTACTCTACTGCAACTTTAGAGAGA
* * * ** * ** *
8864186 TTAGGA--TG--A--TGGCTTAAATCTGCTT-CACTGCAACTTCAGGAAGGCAAGATTTACCGTC
61 -TAAGATCTGTAATTTAGCTTCAATCTG-TTCCACTGCAACTTCAGGAA-ATAAGATTTGCTATA
** *
8864244 TTCAATCTGTTC
123 TTTGATCTGCTC
* * * *
8864256 CACTGTAACTTCAGGGAGACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAAACAAGATCTATTTTGATCTACTCTACTGCAACTTTAGAGAGATAAGA
*
8864321 TCTGTAATTTAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATC
66 TCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCA-GGAAATAAGATTTGCTATATTTGATC
8864386 TGCTC
130 TGCTC
*
8864391 CACTGCAATCTT-AAGGAAACAAGATCTA
1 CACTGCAA-CTTCAGGGAAACAAGATCTA
8864419 CAATCTTCAG
Statistics
Matches: 226, Mismatches: 51, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
129 20 0.09
130 8 0.04
131 2 0.01
132 5 0.02
133 62 0.27
134 6 0.03
135 86 0.38
136 7 0.03
137 2 0.01
138 7 0.03
139 21 0.09
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (134 bp):
CACTGCAACTTCAGGGAAACAAGATCTATTTTGATCTACTCTACTGCAACTTTAGAGAGATAAGA
TCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGAAATAAGATTTGCTATATTTGATCT
GCTC
Found at i:8864461 original size:268 final size:268
Alignment explanation
Indices: 8863979--8864550 Score: 885
Period size: 268 Copynumber: 2.1 Consensus size: 268
8863969 TAGTGGCTTG
* * * *
8863979 AATCTGTTTCACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTACTCTACTGTAACTTTAGA
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTACTCTACTGCAACTTCAGA
* *
8864044 GAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCGCTGTAACTTCAAGGAAATAAGATTTGCTA
66 GAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTA
*
8864109 TATTTGATCTGCTCCACTACAATCTCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
131 TATTTGATCTGCTCCACTACAATCTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * *
8864174 AACTTTAGGAAATTAGGATGATGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTA
196 AACTTTAGGAAACTAGGATGATGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCAAGATTCA
*
8864239 CCGTCTTC
261 CCATCTTC
* *
8864247 AATCTGTTCCACTGTAACTTCAGGGAGACAAGATCTATTTTGATCTGCTCTACTGCAACTTCAGA
1 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTACTCTACTGCAACTTCAGA
* *
8864312 GAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTTGCTA
66 GAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTA
* *
8864377 TATTTGATCTGCTCCACTGCAATCTTAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
131 TATTTGATCTGCTCCACTACAATCTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * * *
8864442 AACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGATTCG
196 AACTTTAGGAAACTAGGATGATGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCAAGATTCA
8864507 CCATCTTC
261 CCATCTTC
* * * *
8864515 GATCTGCTCCACTGCAATCTT-AGGGAAAAAAGATCT
1 AATCTGTTCCACTGCAA-CTTCAGGGAGACAAGATCT
8864551 GTAGAATTGA
Statistics
Matches: 275, Mismatches: 28, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
268 272 0.99
269 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (268 bp):
AATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTACTCTACTGCAACTTCAGA
GAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTA
TATTTGATCTGCTCCACTACAATCTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTAC
AACTTTAGGAAACTAGGATGATGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCAAGATTCA
CCATCTTC
Found at i:8868803 original size:44 final size:45
Alignment explanation
Indices: 8868755--8868843 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
8868745 CATGAATTAT
*
8868755 TCCTGTCTCCAATGCCATA-TATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
*
8868799 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA-TTATAATATGGACTTACATGGCTCA
8868844 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (45 bp):
TCCTGTCTCCAAAGCCATATTATAATATGGACTTACATGGCTCAA
Found at i:8878649 original size:42 final size:43
Alignment explanation
Indices: 8878600--8878707 Score: 157
Period size: 42 Copynumber: 2.5 Consensus size: 43
8878590 GTTTATTTGA
*
8878600 AAAAACGCCGTTAAAGATCATGACCTTTAGCGGCGC-TTTCCC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * *
8878642 ACAAACGCCGCTAAAGATCACGACCTTTAGCGGCGCTTTTCTC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
8878685 AAAAACGCCGCTAAA-AGTCATGA
1 AAAAACGCCGCTAAAGA-TCATGA
8878708 AATTCAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 34 0.59
43 24 0.41
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
Found at i:8883908 original size:14 final size:14
Alignment explanation
Indices: 8883888--8883932 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
8883878 CACTAAAAAT
8883888 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
8883902 TACACCCTAAACTA
1 TAAACCCTAAACCA
*
8883916 TAAACCCTAAACTA
1 TAAACCCTAAACCA
8883930 TAA
1 TAA
8883933 TGATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:8883961 original size:19 final size:21
Alignment explanation
Indices: 8883937--8883976 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
8883927 CTATAATGAT
8883937 AATTAAT-TCAATATT-TTAA
1 AATTAATATCAATATTATTAA
*
8883956 AATTAATATTAATATTATTAA
1 AATTAATATCAATATTATTAA
8883977 TATAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTAATATCAATATTATTAA
Found at i:8884403 original size:14 final size:15
Alignment explanation
Indices: 8884384--8884412 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8884374 TTAATTTAAA
8884384 CCCTAAAT-CATAAT
1 CCCTAAATCCATAAT
8884398 CCCTAAATCCATAAT
1 CCCTAAATCCATAAT
8884413 TCATCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
CCCTAAATCCATAAT
Found at i:8884496 original size:18 final size:19
Alignment explanation
Indices: 8884473--8884516 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
8884463 CCGTATATCT
8884473 TAAACCATAG-TT-AACTC
1 TAAACCATAGTTTAAACTC
8884490 ATAAACC-T-GTTTAAACTC
1 -TAAACCATAGTTTAAACTC
8884508 TAAACCATA
1 TAAACCATA
8884517 TATCTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.05
17 9 0.41
18 12 0.55
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAACCATAGTTTAAACTC
Found at i:8884805 original size:41 final size:41
Alignment explanation
Indices: 8884703--8884920 Score: 350
Period size: 41 Copynumber: 5.3 Consensus size: 41
8884693 TTATATAACT
*
8884703 TTTAGCGGCGTTTTACTAAAAGCGCCGCTAATGCTCCGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGTC
*
8884744 TTTA-CGGCGTTTTACCAAAAGCGCCGCTAATGCTCCAGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGTC
8884784 TTTAGCGGCGTTTTACCAAAAGCGCCG-TGAATGCTCCGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCT-AATGCTCCGGTC
*
8884825 TTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCCGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGTC
* * *
8884866 TTTAGCGGCATTTTACCAAAGGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGTC
*
8884907 TTTAGCGGCTTTTT
1 TTTAGCGGCGTTTT
8884921 TTACTAAAAT
Statistics
Matches: 165, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 39 0.24
41 125 0.76
42 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGTC
Found at i:8885230 original size:120 final size:120
Alignment explanation
Indices: 8885075--8885376 Score: 282
Period size: 132 Copynumber: 2.4 Consensus size: 120
8885065 AACCCAACAG
* ** * * * * **
8885075 TAGGGCACGGTTCTTCGAATTTCCAAACGTTGAACATTGTCTCGTTTTGGAAAACGTGAATGAAA
1 TAGGGCACGATTCCCCGAATTGCCAAACGTCGAACATTGTCTCGTTTTAGAAAACATGAACAAAA
* * * * *
8885140 TTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGTAACCCAGCACGA
66 TTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGA
*
8885195 TAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATT-TCCTTCGTCTTAAAAATTTTTTAGAA
1 TAGGGCACGATTCCCCGAATTGCCAAACGTCGAACATTGT-C-TCG-----------TTTTAGAA
* **
8885259 AACATGAACAAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCAGCA
53 AACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCA
8885324 CGA
118 CGA
* * *
8885327 TAGGGCACGATTCCCCGAATTGCTAAACATCGAACATCGTCTCCGTTTTA
1 TAGGGCACGATTCCCCGAATTGCCAAACGTCGAACATTGTCT-CGTTTTA
8885377 AAGAATTTTT
Statistics
Matches: 145, Mismatches: 22, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
119 1 0.01
120 33 0.23
121 8 0.06
131 1 0.01
132 101 0.70
133 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (120 bp):
TAGGGCACGATTCCCCGAATTGCCAAACGTCGAACATTGTCTCGTTTTAGAAAACATGAACAAAA
TTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGA
Found at i:8885361 original size:132 final size:132
Alignment explanation
Indices: 8885119--8885363 Score: 355
Period size: 132 Copynumber: 1.9 Consensus size: 132
8885109 CATTGTCTCG
* * ** * * * * *
8885119 TTTTGGAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGTA
1 TTTTAGAAAACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCA
* *
8885184 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTCTTAAAAA
66 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTCTTAAAAA
8885249 TT
131 TT
* **
8885251 TTTTAGAAAACATGAACAAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCA
1 TTTTAGAAAACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCA
*
8885316 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
66 ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
8885364 CGTCTCCGTT
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 98 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (132 bp):
TTTTAGAAAACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCA
ACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTCTTAAAAA
TT
Found at i:8885676 original size:3 final size:3
Alignment explanation
Indices: 8885670--8885744 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
8885660 CAATGATGAA
*
8885670 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
8885718 AAT AAT ATT AAT AATT AAT AAT AAT AA
1 AAT AAT AAT AAT AA-T AAT AAT AAT AA
8885745 CAATGCAATG
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8886393 original size:3 final size:3
Alignment explanation
Indices: 8886385--8886433 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
8886375 ATATATTAGG
8886385 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8886433 A
1 A
8886434 GTAAAATCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8887384 original size:27 final size:27
Alignment explanation
Indices: 8887314--8887384 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 27
8887304 CAAAAAAAAT
** *
8887314 ACTTTCCTTTTTTTTACTCCATTACCA
1 ACTTTCCCCTTTTTTATTCCATTACCA
8887341 ACTTT-CCCTTTTTTATTCCATTACCA
1 ACTTTCCCCTTTTTTATTCCATTACCA
8887367 ACTTTCCCCTTTTTTATT
1 ACTTTCCCCTTTTTTATT
8887385 TTATTATTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 23 0.57
27 17 0.43
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.54
Consensus pattern (27 bp):
ACTTTCCCCTTTTTTATTCCATTACCA
Found at i:8900171 original size:70 final size:69
Alignment explanation
Indices: 8900074--8900247 Score: 217
Period size: 70 Copynumber: 2.5 Consensus size: 69
8900064 CTTTTCAAGG
*
8900074 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
8900137 GTTTT
65 GTTTT
* ** * *
8900142 CAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
8900207 TGTTTT
64 TGTTTT
** * *
8900213 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
8900248 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 30 0.33
70 53 0.58
71 8 0.09
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:8900366 original size:70 final size:70
Alignment explanation
Indices: 8900267--8900397 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
8900257 TGTTTTTCAA
* *
8900267 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGT
8900332 GTTTT
66 GTTTT
*
8900337 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
8900398 CTGTTTTCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (70 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTTTGT
GTTTT
Found at i:8900640 original size:139 final size:140
Alignment explanation
Indices: 8900337--8901105 Score: 1424
Period size: 139 Copynumber: 5.5 Consensus size: 140
8900327 TTTGTGTTTT
*
8900337 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
8900402 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
8900467 ACTTTTTCAA
131 ACTTTTTCAA
8900477 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
8900542 TTTCAATTTACGTTGTTCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
8900606 ACTTTTTCAA
131 ACTTTTTCAA
8900616 AATCAGCTCATATTGCGAGAGGTGAGTTGAG-CTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
8900680 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGT-GGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
8900744 ACTTTTTCAA
131 ACTTTTTCAA
*
8900754 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTAT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
*
8900818 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
8900883 ACTTTTTCAA
131 ACTTTTTCAA
8900893 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
*
8900958 TTTCAATTTATGTTG-TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
8901022 ACTTTTTCAA
131 ACTTTTTCAA
8901032 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTC
1 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTC
8901096 TGTCTTTCAA
63 TGT-TTTCAA
8901106 AAAAAAATTC
Statistics
Matches: 615, Mismatches: 6, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
138 177 0.29
139 293 0.48
140 116 0.19
141 23 0.04
142 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
ACTTTTTCAA
Found at i:8900820 original size:13 final size:13
Alignment explanation
Indices: 8900802--8900826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8900792 TCACGCTAGG
8900802 TATTTTCAATTTC
1 TATTTTCAATTTC
8900815 TATTTTCAATTT
1 TATTTTCAATTT
8900827 ACGTTGTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:8900866 original size:416 final size:420
Alignment explanation
Indices: 8900337--8901105 Score: 1433
Period size: 416 Copynumber: 1.8 Consensus size: 420
8900327 TTTGTGTTTT
*
8900337 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTAT
*
8900402 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCT
8900467 ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
131 ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
8900532 CAATTTCTGTTTTCAATTTACGTTGTTCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCT
196 CAATTTCTGTTTTCAATTTACGTTG-TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCT
8900596 TTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAG-CTCAGG-TCAC-G
260 TTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACAG
8900658 CTGAGGTATTTTCAATTTCTGT-TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAG
324 CTGAGGTATTTTCAATTTCTGTCTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAG
8900722 GTGGTTGAACCTTTTAATTTCTACTTTTTCAA
389 GTGGTTGAACCTTTTAATTTCTACTTTTTCAA
*
8900754 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT-AGGTATTTTCAATTTCTAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTAT
8900818 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCT
66 TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCT
8900883 ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
131 ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
*
8900948 CAATTTCTGTTTTCAATTTATGTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
196 CAATTTCTGTTTTCAATTTACGTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
8901013 TTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGC
261 TTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA-GC
8901078 TGAGGTATTTTCAATTTCTGTCTTTCAA
325 TGAGGTATTTTCAATTTCTGTCTTTCAA
8901106 AAAAAAATTC
Statistics
Matches: 342, Mismatches: 4, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
415 4 0.01
416 258 0.75
417 51 0.15
419 23 0.07
420 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (420 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTAT
TTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCT
ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
CAATTTCTGTTTTCAATTTACGTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTT
TTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACAGCT
GAGGTATTTTCAATTTCTGTCTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGT
GGTTGAACCTTTTAATTTCTACTTTTTCAA
Found at i:8901201 original size:72 final size:72
Alignment explanation
Indices: 8901025--8901249 Score: 283
Period size: 72 Copynumber: 3.0 Consensus size: 72
8901015 AATTTCTACT
* ** * * *
8901025 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACAT--TGAGGTAATT
8901088 TCAATTTCTG
63 TCAATTTCTG
8901098 TCTTTCAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTA
1 T-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTA
8901163 ATTTCAATTTCTG
60 ATTTCAATTTCTG
* *
8901176 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCA
8901241 ATTTCTG
66 ATTTCTG
8901248 TT
1 TT
8901250 CAAAATGAGT
Statistics
Matches: 136, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
72 67 0.49
73 1 0.01
74 4 0.03
77 4 0.03
78 20 0.15
79 4 0.03
80 35 0.26
81 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCA
ATTTCTG
Found at i:8901260 original size:49 final size:49
Alignment explanation
Indices: 8901203--8901298 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
8901193 ATATTGCGAG
* *
8901203 AAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
8901252 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
8901299 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:8901353 original size:121 final size:121
Alignment explanation
Indices: 8901131--8901370 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
8901121 ATATTGCGAG
*
8901131 AAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
8901196 TTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
8901252 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
8901317 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
8901371 TTTCAAAAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:8901504 original size:75 final size:75
Alignment explanation
Indices: 8901252--8901604 Score: 455
Period size: 75 Copynumber: 4.7 Consensus size: 75
8901242 TTTCTGTTCA
* *
8901252 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
8901314 ATATTGCGAG
66 ATATTGCGAG
* *
8901324 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAATCAA
*
8901389 CTCATATTGTGAG
63 CTCATATTGCGAG
*
8901402 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
8901467 ATATTGCGAG
66 ATATTGCGAG
** * * *
8901477 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTC-AAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* *
8901540 GTATTGTGAG
66 ATATTGCGAG
*** * * *
8901550 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
8901605 TTTCTGCCTT
Statistics
Matches: 251, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
72 42 0.17
73 44 0.18
74 4 0.02
75 86 0.34
76 4 0.02
77 1 0.00
78 70 0.28
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:8901727 original size:76 final size:77
Alignment explanation
Indices: 8901598--8902190 Score: 394
Period size: 88 Copynumber: 7.2 Consensus size: 77
8901588 CAATTTCCGT
**
8901598 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
*
8901663 CACGCGCTGAGCTA
64 CACACGCTGAGCTA
* * *
8901677 TTTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
* *
8901740 ACACACTGAGGTA
65 ACACGCTGAGCTA
* * * * * *
8901753 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
* *
8901818 CACATG-TCGAGGTA
64 CACACGCT-GAGCTA
** *
8901832 TTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
8901897 GCCTTGGCTCACGTGCTGAGCTA
55 GCCTTGGCTCACACGCTGAGCTA
*
8901920 TTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
1 TTTTCAATTTCTG---TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---CT
** * * *
8901985 AATTTCTGCGAGA-GTTGAGTTGA
59 --TGGCT-C-ACACGCTGAGCT-A
* * *
8902008 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAG-
1 -T-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
** *
8902070 TCACA-TATCGAGGTA
63 TCACACGCT-GAGCTA
*
8902085 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTC--AA------TTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
**
8902149 AGCCTTGGCTCACGTGCTGAGCTA
54 AGCCTTGGCTCACACGCTGAGCTA
8902173 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
8902191 AATGTCTGTT
Statistics
Matches: 412, Mismatches: 53, Indels: 101
0.73 0.09 0.18
Matches are distributed among these distances:
75 6 0.01
76 53 0.13
77 22 0.05
78 23 0.06
79 68 0.17
80 11 0.03
81 30 0.07
83 4 0.01
84 33 0.08
85 5 0.01
86 5 0.01
87 18 0.04
88 112 0.27
89 3 0.01
90 12 0.03
91 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (77 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CACGCTGAGCTA
Found at i:8901821 original size:79 final size:76
Alignment explanation
Indices: 8901598--8901979 Score: 280
Period size: 79 Copynumber: 4.7 Consensus size: 76
8901588 CAATTTCCGT
* * *
8901598 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTATG-CTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT
* *
8901663 CACGCGCTGAGCTA
63 CACACACTGAGCTA
* * *
8901677 TTTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTATGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCAC
*
8901742 ACACTGAGGTA
66 ACACTGAGCTA
** * * *
8901753 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTAT-GCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT
** *
8901818 CACA-TGTCGAGGTA
63 CACACACT-GAGCTA
* *** *
8901832 TTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTC--AA------TTT---ATGCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * ***
8901897 GCCTTGGCTCACGTGCTGAGCTA
54 GCCTCGGATCACACACTGAGCTA
* *
8901920 TTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTATG----CTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
8901980 TTTTTAATTT
Statistics
Matches: 245, Mismatches: 36, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
76 51 0.21
77 6 0.02
78 17 0.07
79 68 0.28
80 10 0.04
81 30 0.12
85 3 0.01
86 2 0.01
87 2 0.01
88 55 0.22
89 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (76 bp):
TTTTCAATTTATGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCAC
ACACTGAGCTA
Found at i:8901962 original size:248 final size:240
Alignment explanation
Indices: 8901379--8902190 Score: 928
Period size: 253 Copynumber: 3.3 Consensus size: 240
8901369 TTTTTCAAAA
* * ** * *
8901379 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * *
8901441 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTG
65 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
* * * * * *
8901504 AGGTA-ATTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAG
130 AGGTATTTTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
* * ** * *
8901568 GTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
194 GTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTG--TTTC
* *
8901617 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 ---AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTC
*
8901682 AATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAC
63 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAC
* * *
8901746 TGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGC
128 TGAGGTA-TTTTTCAATTTCT-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
8901811 CTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTCTGTTTTC
190 CTC-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTCTG-TTTC
8901864 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
*
8901928 TTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCT
66 TTCTG---TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC-
* * * *
8901992 GCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGT
122 AC-ACA-CTGAGGT-A-T-TTTTCAATTTCT-TTTTTCAAAAAATCAACTCATATTGCGAGAGGT
* * * * **
8902055 GAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
181 GAGTTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
*
8902116 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
8902181 TTCTGTTTTT
66 TTCTGTTTTT
8902191 AATGTCTGTT
Statistics
Matches: 495, Mismatches: 49, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
241 34 0.07
242 46 0.09
243 90 0.18
244 13 0.03
246 10 0.02
247 20 0.04
248 100 0.20
249 1 0.00
250 8 0.02
251 2 0.00
252 5 0.01
253 139 0.28
254 9 0.02
255 14 0.03
256 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (240 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
GGTATTTTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGT
CACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGTTTC
Found at i:8901997 original size:30 final size:30
Alignment explanation
Indices: 8901961--8902022 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
8901951 CAACTCATAT
8901961 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
8901991 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
8902021 TG
1 TG
8902023 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:8903646 original size:13 final size:13
Alignment explanation
Indices: 8903625--8903654 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8903615 ATATTATTGT
8903625 TGTAAATTTTTTA
1 TGTAAATTTTTTA
*
8903638 TGTATATTTTTTA
1 TGTAAATTTTTTA
8903651 TGTA
1 TGTA
8903655 CGTTTCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (13 bp):
TGTAAATTTTTTA
Found at i:8905667 original size:17 final size:17
Alignment explanation
Indices: 8905645--8905678 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8905635 CTAAGATAAT
8905645 GAATTATGTCTTTGGAC
1 GAATTATGTCTTTGGAC
8905662 GAATTATGTCTTTGGAC
1 GAATTATGTCTTTGGAC
8905679 AGGACCCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
GAATTATGTCTTTGGAC
Found at i:8908844 original size:27 final size:25
Alignment explanation
Indices: 8908790--8908847 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
8908780 CATTAAAGCT
* *
8908790 TAATT-TTATATATTTTAATTATTT
1 TAATTATTATATATTTTAATCATTA
*
8908814 TAATTATTATATATTTTTATACATATA
1 TAATTATTATATATTTTAAT-CAT-TA
8908841 TAATTAT
1 TAATTAT
8908848 AGTATTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.18
25 13 0.46
26 2 0.07
27 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTATTATATATTTTAATCATTA
Found at i:8910352 original size:43 final size:43
Alignment explanation
Indices: 8910294--8910396 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
8910284 ATTAGGATAT
* * *
8910294 TATTATGGGATATTATCTT-TTAGCAATTTGATTCCTAATGGGA
1 TATTATAGGATATTAT-TTCTTAACAATTTGATTCCTAATGAGA
*
8910337 TATTATAGGATATTATTTCTTAACAGTTTGATTCCTAATGAGA
1 TATTATAGGATATTATTTCTTAACAATTTGATTCCTAATGAGA
*
8910380 TATTATAGAATATTATT
1 TATTATAGGATATTATT
8910397 ATGAGATATT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 2 0.04
43 52 0.96
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.46
Consensus pattern (43 bp):
TATTATAGGATATTATTTCTTAACAATTTGATTCCTAATGAGA
Found at i:8912680 original size:156 final size:156
Alignment explanation
Indices: 8912390--8912713 Score: 450
Period size: 156 Copynumber: 2.1 Consensus size: 156
8912380 GCTCTGGAGG
* * * *
8912390 ATAATGACACTTGGTCTGTGGAAACACTTCCTCATAGAAAGAAAACACTAGGTAGTAAGTGGGTG
1 ATAATGACACTTGGTCTATAGAAACACTTCCTCATAGAAAGAAAACACTAGGTAGTAAATAGGTG
* * * *
8912455 TACAAGGTTAAATATAACTCCGATGGAAGTATTAAGAGACTTAAAACTCATCTTGTTGTTTTTAA
66 TACAAGATTAAATATAACTCCGATGGAAGTATGAAGAGAATTAAAACTCATATTGTTGTTTTTAA
*
8912520 TAATCACTAGGTAGAAGGAACTGACT
131 TAATCACTAGGTAGAAGAAACTGACT
* * * * *
8912546 ATAATGACACTTGGTCTATAGAAATACTTCCTCCTGGAAAGATAGCACTAGGTAGTAAATAGGTG
1 ATAATGACACTTGGTCTATAGAAACACTTCCTCATAGAAAGAAAACACTAGGTAGTAAATAGGTG
* * * **
8912611 TACAAGATTAAATATAACTCTGATGGAAGTATGGAGAGAATTAAAACTCTTATTGTTGTTTTTGG
66 TACAAGATTAAATATAACTCCGATGGAAGTATGAAGAGAATTAAAACTCATATTGTTGTTTTTAA
* *
8912676 TAATCACTAGGTGGAAGAAATTGACT
131 TAATCACTAGGTAGAAGAAACTGACT
*
8912702 ATAATGAAACTT
1 ATAATGACACTT
8912714 TTGAACTTGT
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
156 146 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (156 bp):
ATAATGACACTTGGTCTATAGAAACACTTCCTCATAGAAAGAAAACACTAGGTAGTAAATAGGTG
TACAAGATTAAATATAACTCCGATGGAAGTATGAAGAGAATTAAAACTCATATTGTTGTTTTTAA
TAATCACTAGGTAGAAGAAACTGACT
Found at i:8915553 original size:11 final size:11
Alignment explanation
Indices: 8915537--8915566 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8915527 TAACATTAAG
8915537 AATATATATAT
1 AATATATATAT
*
8915548 AATATAAATAT
1 AATATATATAT
8915559 AATATATA
1 AATATATA
8915567 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:8916430 original size:16 final size:16
Alignment explanation
Indices: 8916411--8916445 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8916401 TTGGGGTAAG
8916411 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
8916427 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
8916443 TTT
1 TTT
8916446 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:8917196 original size:88 final size:83
Alignment explanation
Indices: 8917089--8917667 Score: 299
Period size: 88 Copynumber: 7.0 Consensus size: 83
8917079 AACAGACATT
** * *
8917089 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
8917154 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
8917177 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
8917241 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
8917260 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
8917321 ATGAGTTGAATTTTTTTGAAAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
8917344 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
8917409 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * * *
8917432 AAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
8917497 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
8917515 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
8917575 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
8917592 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
8917653 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
8917668 CAGAAATTAA
Statistics
Matches: 385, Mismatches: 70, Indels: 82
0.72 0.13 0.15
Matches are distributed among these distances:
76 9 0.02
77 47 0.12
78 2 0.01
79 58 0.15
80 9 0.02
81 2 0.01
82 14 0.04
83 42 0.11
84 44 0.11
85 12 0.03
86 2 0.01
87 24 0.06
88 114 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:8917293 original size:30 final size:30
Alignment explanation
Indices: 8917257--8917318 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
8917247 TTTTGAAAAA
8917257 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
8917287 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
8917317 CA
1 CA
8917319 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:8917557 original size:79 final size:76
Alignment explanation
Indices: 8917428--8917808 Score: 375
Period size: 79 Copynumber: 5.0 Consensus size: 76
8917418 GAAAACAGAA
* ** * * * *
8917428 TTTGAAAAATAGATTTTGAAAATACCTC-GACATGTAACCCGAGGCTCAACTCACATCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAG-CGTGT-ATCTGAGGCTCAACTCACCTCTCGCAAT
*
8917492 GTGAGTTGATTTT
64 ATGAGTTGATTTT
* * * *
8917505 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTG--AAAATACCTCAGCGTGT-ATCTGAGGCTCAACTCACCTCTCGCAA
8917570 TATGAGTTGATTTT
63 TATGAGTTGATTTT
* * * * ** *
8917584 TTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATG-AGCCAAGGGTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCG--TGTATCTGAGGCTCAACTCACCTCTCGCAAT
*
8917648 ATAAGTTGA-TTT
64 ATGAGTTGATTTT
* * * **
8917660 TTTG-AAAACAGAAATTAAAAATACCTCAACGTGTCT-TGAGGCTCAACTCATTTCTCGCAATAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATCTGAGGCTCAACTCACCTCTCGCAATAT
*
8917723 GAGTTGA--AT
66 GAGTTGATTTT
* * *
8917732 TTTG-AAAACAGAAATTGAAATTACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATCTGAGGCTCAACTCACCTCTCGCAATAT
8917795 GAGTTGATTTT
66 GAGTTGATTTT
8917806 TTT
1 TTT
8917809 TTTAAAGGCA
Statistics
Matches: 252, Mismatches: 43, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
72 63 0.25
73 30 0.12
74 4 0.02
75 22 0.09
76 7 0.03
77 58 0.23
79 67 0.27
80 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (76 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTT
Found at i:8917765 original size:72 final size:73
Alignment explanation
Indices: 8917467--8917994 Score: 423
Period size: 72 Copynumber: 6.8 Consensus size: 73
8917457 ACATGTAACC
* * * *
8917467 CGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATAC
* *
8917532 CTCAGTGTGTGAT
62 CTCAGCGTGT-CT
* * *
8917545 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGC
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACC
*
8917610 TCAGCGCATGAGC-
63 TCAGCG--TG-TCT
* * * *
8917623 CAAGGGTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTAAAAATACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
8917688 ACGTGTCT
66 GCGTGTCT
* ** * *
8917696 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCA
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
*
8917760 GCGTGTCC
66 GCGTGTCT
* *
8917768 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAGGCAGAAATTGAAAAATG
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAA-ACAGAAATTG----A--
** ** *
8917833 GAAATTGAAAATACCTCGACGTGTGAT
56 -AAA-T--ACCT-CAGC---GTGT-CT
* * *
8917860 CTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACAACAGAAATTGAAATTACCT
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCT
8917925 CAGCGTGTC-
64 CAGCGTGTCT
* *
8917934 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAA
8917995 ACGGAAATTG
Statistics
Matches: 364, Mismatches: 58, Indels: 59
0.76 0.12 0.12
Matches are distributed among these distances:
72 65 0.18
73 30 0.08
74 43 0.12
75 31 0.09
76 21 0.06
77 50 0.14
78 5 0.01
79 51 0.14
80 2 0.01
81 1 0.00
82 1 0.00
83 2 0.01
84 2 0.01
85 1 0.00
86 1 0.00
87 2 0.01
88 2 0.01
90 9 0.02
91 12 0.03
92 1 0.00
93 32 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTCT
Found at i:8917956 original size:74 final size:75
Alignment explanation
Indices: 8917833--8917994 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
8917823 TTGAAAAATG
*
8917833 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
8917898 TTTTGACAACA
65 TTTTGACAACA
* * *
8917909 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
8917972 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
8917984 AAAATTGAAAA
1 GAAATTGAAAA
8917995 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:8918120 original size:73 final size:77
Alignment explanation
Indices: 8917988--8918159 Score: 235
Period size: 73 Copynumber: 2.3 Consensus size: 77
8917978 AAGGCAAAAA
* * * *
8917988 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
8918053 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * *
8918065 TTGACA-ACAGAAATTGAAATTACC-CAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
8918127 AGTTGATTTTTT
66 AGTTGATTTTTT
8918139 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
8918160 ACGGAAATTG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
73 33 0.39
74 10 0.12
75 20 0.24
76 16 0.19
77 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:8918125 original size:164 final size:165
Alignment explanation
Indices: 8917664--8918320 Score: 929
Period size: 165 Copynumber: 4.0 Consensus size: 165
8917654 TGATTTTTTG
* * * * ** *
8917664 AAAACAGAAATTAAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
*
8917727 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
8917791 ATATGAGTTGATTTTTTTTTTAAAGGCAGAAATTGA
131 ATATGAGTTGA-TTTTTTTTGAAAGGCAGAAATTGA
* *
8917827 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
8917892 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
8917957 AATATGAGTTGA-TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* * *
8917992 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
8918057 TGATTTTTTTGACAACAGAAATTGAAATTACC-CAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
8918121 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* *
8918157 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *** * * * *
8918222 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGT
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
8918285 AATATGAGTTGA-TTTTTTTGACAA--CAGAAATTGA
130 AATATGAGTTGATTTTTTTTGA-AAGGCAGAAATTGA
8918319 AA
1 AA
8918321 TTACCTCAGC
Statistics
Matches: 453, Mismatches: 33, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
162 12 0.03
163 48 0.11
164 92 0.20
165 232 0.51
167 69 0.15
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:8918158 original size:14 final size:14
Alignment explanation
Indices: 8918139--8918173 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8918129 TTGATTTTTT
*
8918139 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
8918153 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
8918167 TTGAAAA
1 TTGAAAA
8918174 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:8918168 original size:330 final size:326
Alignment explanation
Indices: 8917664--8918585 Score: 1036
Period size: 330 Copynumber: 2.9 Consensus size: 326
8917654 TGATTTTTTG
* *** *
8917664 AAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTG
8917729 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
* * *
8917794 TGAGTTGATTTTTTTTTTAAAGGCAGAAATTGAAAAATGGAAATTGAAAATACCTCGACGTGTGA
131 TGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTGTGA
* ** *** *
8917859 TCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTTTTTGACA-ACAGAAATTGAAATTAC
196 CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA-AATTAAAACATA-A-AAATTGAAAATAC
* * *
8917923 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAA
258 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGGCAAAAA
8917988 TTGA
323 TTGA
* * ** *
8917992 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACAGAAATTAAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGT
* * *
8918057 TGATTTTTTTGACAACAGAAATTGAAATTACC-CAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
64 TGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
8918121 AATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGT
127 AATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGT
*
8918185 GTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATA
192 GTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATA
*
8918250 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTTTTG--A--C----
257 CCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGGCAAAA
8918307 -----
322 ATTGA
* * * * * *
8918307 --AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTG
* * * *
8918370 -ATTTTGAAAA-AG---TAGAAATTA----A----------AAGTTCAACCCACCTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
* * *
8918416 TGAGTTGA----TTCTTGAACA-AC-GTAAATTG-AAAACAGAAATTGAAAATACCTC-A-GCGT
131 TGAGTTGATTTTTTTTTGAA-AGACAG-AAATTGAAAAACGGAAATTGAAAATACCTCGACGTGT
* *
8918472 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACC
194 GACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATACC
*
8918537 TCAGTGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
259 TCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
8918586 GAAAAACAAA
Statistics
Matches: 536, Mismatches: 51, Indels: 57
0.83 0.08 0.09
Matches are distributed among these distances:
285 112 0.21
287 23 0.04
288 15 0.03
289 1 0.00
291 29 0.05
301 1 0.00
304 8 0.01
307 2 0.00
308 8 0.01
311 31 0.06
313 25 0.05
324 1 0.00
326 1 0.00
328 88 0.16
329 6 0.01
330 117 0.22
331 43 0.08
332 25 0.05
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (326 bp):
AAAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTG
AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGACGTGTGA
CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGAAATTAAAACATAAAAATTGAAAATACCTC
AGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTG
A
Found at i:8918442 original size:53 final size:53
Alignment explanation
Indices: 8918343--8918447 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
8918333 GTCCTGAGGC
*
8918343 TCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGT
1 TCAACCCACCTCTCACAATATGAGTTGATTTTGAAAAAGTA-AAATTGAAAAGT
* *
8918396 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCACAATATGAGTTGATT-TTGAA-AAAGTAAAATTGAAAA
8918448 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 33 0.72
54 9 0.20
55 4 0.09
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (53 bp):
TCAACCCACCTCTCACAATATGAGTTGATTTTGAAAAAGTAAAATTGAAAAGT
Found at i:8918595 original size:72 final size:72
Alignment explanation
Indices: 8918149--8918603 Score: 305
Period size: 72 Copynumber: 6.3 Consensus size: 72
8918139 TTGAAAGACA
* * * * *
8918149 GAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCA
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTAGCA
*
8918214 ATACGAGTT
64 ATATGAGTT
* * * *
8918223 GAAATT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAA
8918287 TATGAGTT
65 TATGAGTT
** * * * *
8918295 GATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA-
1 GA---AATTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-AG
8918358 CAATATGAGTT
62 CAATATGAGTT
** * * * *** * ** * *
8918369 GATTTTGAAAAAGTAGAAATT-AAAAGTTCAACC-CA-CCT--CTCGCAATATGAGTTGA-TTCT
1 GAAATTGAAAAA-CAGAAATTGAAAA--T--ACCTCAGCGTGACCCG-AGGCTCAACTCACCTCT
* *
8918428 TG-AACA--ACG-T
60 AGCAATATGA-GTT
* *
8918438 -AAATTG-AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAAT
8918501 ATGAGTT
66 ATGAGTT
* * *
8918508 GAAATT-AAAACACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAA
8918572 TATGAGTT
65 TATGAGTT
** *
8918580 GATTTTGAAAAACAAAAATT-AAAA
1 GAAATTGAAAAACAGAAATTGAAAA
8918604 GGCTTAACTC
Statistics
Matches: 294, Mismatches: 58, Indels: 61
0.71 0.14 0.15
Matches are distributed among these distances:
63 3 0.01
64 2 0.01
65 3 0.01
66 12 0.04
67 14 0.05
68 7 0.02
69 3 0.01
70 3 0.01
71 20 0.07
72 114 0.39
73 20 0.07
74 83 0.28
75 7 0.02
76 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTT
Found at i:8918760 original size:70 final size:71
Alignment explanation
Indices: 8918603--8918865 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
8918593 AAAAATTAAA
* * * * *
8918603 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
8918666 GCCCCG
66 GCCCCG
* *
8918672 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATA-CTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
8918736 GTCTTG
66 GCCCCG
* * *
8918742 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
8918805 TGCCCCG
65 TGCCCCG
*
8918812 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
8918866 GGCTTAACTC
Statistics
Matches: 165, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
68 5 0.03
69 41 0.25
70 85 0.52
71 17 0.10
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:8918828 original size:262 final size:257
Alignment explanation
Indices: 8918441--8919032 Score: 1024
Period size: 262 Copynumber: 2.3 Consensus size: 257
8918431 ACAACGTAAA
* * * * * *
8918441 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
*
8918506 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
8918571 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
8918636 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
8918701 TGATT
253 TGATT
8918706 TTGAAAACAAAAATTAAAAATA-CTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
8918770 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
8918835 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
8918900 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
8918962 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
8919027 TTGATT
66 TTGATT
8919033 TTCCTTGAAA
Statistics
Matches: 317, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
256 81 0.26
257 49 0.15
262 126 0.40
264 41 0.13
265 20 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:8924175 original size:12 final size:12
Alignment explanation
Indices: 8924153--8924189 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8924143 TGGGATATGC
*
8924153 AATGAATGAATG
1 AATGCATGAATG
*
8924165 GATGCATGAATG
1 AATGCATGAATG
8924177 AATGCATGAATG
1 AATGCATGAATG
8924189 A
1 A
8924190 CAAATGAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:8924175 original size:16 final size:17
Alignment explanation
Indices: 8924149--8924189 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
8924139 AGTATGGGAT
8924149 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
*
8924166 ATGC-ATGAATGAATGC
1 ATGCAATGAATGAATGG
8924182 ATG-AATGA
1 ATGCAATGA
8924190 CAAATGAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.24
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:8926439 original size:11 final size:11
Alignment explanation
Indices: 8926423--8926452 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8926413 TAACATTAAG
8926423 AATATATATAT
1 AATATATATAT
*
8926434 AATATAAATAT
1 AATATATATAT
8926445 AATATATA
1 AATATATA
8926453 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:8927314 original size:11 final size:11
Alignment explanation
Indices: 8927294--8927327 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
8927284 TTGGGGTAAG
8927294 TTTTTCTTTTTC
1 TTTTT-TTTTTC
8927306 TTTTTTTTTTC
1 TTTTTTTTTTC
8927317 TTTGTTTTTTT
1 TTT-TTTTTTT
8927328 TTTGGGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:8927316 original size:17 final size:17
Alignment explanation
Indices: 8927294--8927330 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8927284 TTGGGGTAAG
8927294 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
8927311 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
8927328 TTT
1 TTT
8927331 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:8936544 original size:13 final size:13
Alignment explanation
Indices: 8936521--8936563 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
8936511 CTGGTCATAT
8936521 TAAAA-TTTTTTA
1 TAAAATTTTTTTA
**
8936533 TATTATTTTTTTA
1 TAAAATTTTTTTA
*
8936546 TAAAATTTTTTTT
1 TAAAATTTTTTTA
8936559 TAAAA
1 TAAAA
8936564 ATGTAACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 3 0.12
13 22 0.88
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAAAATTTTTTTA
Found at i:8936735 original size:14 final size:14
Alignment explanation
Indices: 8936716--8936748 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8936706 TACGATAATC
8936716 AAATAATAACAATA
1 AAATAATAACAATA
8936730 AAATAATAACAATA
1 AAATAATAACAATA
*
8936744 TAATA
1 AAATA
8936749 GTGAAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:8941850 original size:29 final size:31
Alignment explanation
Indices: 8941803--8941880 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
8941793 TTTTAATTTT
* *
8941803 TAAAAAGTTGAGTGACTAAAACA-AA-AAAA
1 TAAATAGTTGAATGACTAAAACAGAACAAAA
* * *
8941832 TAAATAGTTGAATGTCTAAAATAGAACAAAT
1 TAAATAGTTGAATGACTAAAACAGAACAAAA
8941863 TAAATAGTT-AAGTGACTA
1 TAAATAGTTGAA-TGACTA
8941881 TTCTTGTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 19 0.47
30 4 0.10
31 17 0.43
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (31 bp):
TAAATAGTTGAATGACTAAAACAGAACAAAA
Found at i:8944401 original size:25 final size:25
Alignment explanation
Indices: 8944373--8944424 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
8944363 TATGTAATAT
*
8944373 ATAAATAT-AAAATAATCTTATATGA
1 ATAAATATGAAAATAAT-TTATAAGA
* *
8944398 ATAATTATGTAAATAATTTATAAGA
1 ATAAATATGAAAATAATTTATAAGA
8944423 AT
1 AT
8944425 TGAATCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (25 bp):
ATAAATATGAAAATAATTTATAAGA
Found at i:8951840 original size:32 final size:32
Alignment explanation
Indices: 8951798--8951872 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
8951788 GCTTGCAAAC
*
8951798 GGTTGTCGGCGGTGACGTAAGACGACGAAAGG
1 GGTTGACGGCGGTGACGTAAGACGACGAAAGG
*
8951830 GGTTGACGGCGGTGACGTAAGACGACGAATGG
1 GGTTGACGGCGGTGACGTAAGACGACGAAAGG
*
8951862 GGTTAACGGCG
1 GGTTGACGGCG
8951873 ACAACTTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (32 bp):
GGTTGACGGCGGTGACGTAAGACGACGAAAGG
Found at i:8952412 original size:21 final size:19
Alignment explanation
Indices: 8952368--8952414 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
8952358 AGATAAGACA
8952368 TAAA-TAAAAATTTTCTTT
1 TAAATTAAAAATTTTCTTT
8952386 TAAATTAAAAATATTTCTTT
1 TAAATTAAAAAT-TTTCTTT
8952406 TAGAATTAA
1 TA-AATTAA
8952415 TTTAAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.15
19 7 0.27
20 9 0.35
21 6 0.23
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
TAAATTAAAAATTTTCTTT
Found at i:8953109 original size:24 final size:24
Alignment explanation
Indices: 8953061--8953111 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
8953051 TTTTAAGCAA
*
8953061 TTTAATTTTTTTCTTTTATATTCT
1 TTTAATTTTTTTCTTCTATATTCT
8953085 TTTAACTTTTTTT-TTCTAT-TCTCT
1 TTTAA-TTTTTTTCTTCTATAT-TCT
8953109 TTT
1 TTT
8953112 GCTTCTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 7 0.29
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTAATTTTTTTCTTCTATATTCT
Found at i:8955074 original size:24 final size:23
Alignment explanation
Indices: 8955045--8955108 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
8955035 AAATTTTTTT
8955045 TAATATATAAAGATAAAATATA-AA
1 TAATAT-TAAA-ATAAAATATATAA
* *
8955069 TTATATTAAAATTAAAATGTATAA
1 TAATATTAAAA-TAAAATATATAA
8955093 TAATATTAAAAATAAA
1 TAATATT-AAAATAAA
8955109 GTTTTAATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.03
23 12 0.35
24 17 0.50
25 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (23 bp):
TAATATTAAAATAAAATATATAA
Found at i:8955100 original size:18 final size:17
Alignment explanation
Indices: 8955057--8955103 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
8955047 ATATATAAAG
8955057 ATAAAA-TATAAATTATA
1 ATAAAATTA-AAATTATA
*
8955074 TTAAAATTAAAATGTATA
1 ATAAAATTAAAAT-TATA
*
8955092 ATAATATTAAAA
1 ATAAAATTAAAA
8955104 ATAAAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAAAATTAAAATTATA
Found at i:8966499 original size:46 final size:46
Alignment explanation
Indices: 8966449--8966540 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
8966439 GTGCTAATGA
*
8966449 AACTTAAATTGTATGTTTGTTAGAAATTAAACAATGTTTGTGTATC
1 AACTTAAATTGTATGTTTGTTAGAAATTAAACAATGTTAGTGTATC
8966495 AACTTAAATTGTATGTTTGTTAGAAATTAAACAATGTTAGTGTATC
1 AACTTAAATTGTATGTTTGTTAGAAATTAAACAATGTTAGTGTATC
8966541 TTTGCAGCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (46 bp):
AACTTAAATTGTATGTTTGTTAGAAATTAAACAATGTTAGTGTATC
Found at i:8966524 original size:23 final size:23
Alignment explanation
Indices: 8966447--8966525 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
8966437 ATGTGCTAAT
8966447 GAAACTTAAATTGTATGTTTGTTA
1 GAAA-TTAAATTGTATGTTTGTTA
**
8966471 GAAATTAAA--CAATGTTTGTGTA
1 GAAATTAAATTGTATGTTTGT-TA
* *
8966493 TCAACTTAAATTGTATGTTTGTTA
1 -GAAATTAAATTGTATGTTTGTTA
8966517 GAAATTAAA
1 GAAATTAAA
8966526 CAATGTTAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
21 8 0.19
22 2 0.05
23 19 0.44
24 6 0.14
25 8 0.19
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (23 bp):
GAAATTAAATTGTATGTTTGTTA
Found at i:8979790 original size:16 final size:18
Alignment explanation
Indices: 8979756--8979793 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8979746 ATCCTTATTT
*
8979756 AAATAAAATATAATGGTA
1 AAATAAAATATAATAGTA
8979774 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
8979790 AAAT
1 AAAT
8979794 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:8993093 original size:23 final size:22
Alignment explanation
Indices: 8993046--8993091 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8993036 TAATTTATAC
*
8993046 AATTATTTTTTTAAAGTGATTA
1 AATTATTTTTTTAAAGTAATTA
8993068 AATTAATTTTTTT-AAGTAATTA
1 AATT-ATTTTTTTAAAGTAATTA
8993090 AA
1 AA
8993092 ATAAGATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AATTATTTTTTTAAAGTAATTA
Found at i:8994056 original size:71 final size:68
Alignment explanation
Indices: 8993884--8994087 Score: 282
Period size: 69 Copynumber: 2.9 Consensus size: 68
8993874 GTCGAGTTTC
*
8993884 TTTGCAAGATTACTACTTTCTAGGGACTTAAGTAGTTATTAACTTCAAATGTGTATGTTTTTGTT
1 TTTGCAAGATTACTACTTTCTAGGGACTTAAGTAGTTATTAACTTCAAATTTGTATGTTTTT-TT
8993949 GTGA
65 GTGA
* * * * *
8993953 TTTGCAGGATTACTGCATTCTAGGGACCTAAGTCGTTATTAACTTCAAATTTGTATGTTTTTTTG
1 TTTGCAAGATTACTACTTTCTAGGGACTTAAGTAGTTATTAACTTCAAATTTGTATGTTTTTTTG
8994018 TCGTAA
66 T-G--A
* * * *
8994024 TTTGCAATATTACTACTTTCTAGGGACTTAAGTAGTTATTAACTTCAATTTTGTTTTTTTTTTT
1 TTTGCAAGATTACTACTTTCTAGGGACTTAAGTAGTTATTAACTTCAAATTTGTATGTTTTTTT
8994088 TTTTTTGTTG
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
68 4 0.03
69 57 0.49
71 56 0.48
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.48
Consensus pattern (68 bp):
TTTGCAAGATTACTACTTTCTAGGGACTTAAGTAGTTATTAACTTCAAATTTGTATGTTTTTTTG
TGA
Found at i:8995339 original size:11 final size:11
Alignment explanation
Indices: 8995325--8995352 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8995315 TTTTTCTTGT
8995325 TATTTTCTCCC
1 TATTTTCTCCC
8995336 TATTTTCTCCC
1 TATTTTCTCCC
8995347 TATTTT
1 TATTTT
8995353 ACTATTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTCTCCC
Found at i:8995451 original size:30 final size:30
Alignment explanation
Indices: 8995412--8995474 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
8995402 ACTTATTTTA
* *
8995412 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
*
8995442 TTGTCAATTTTGTTATTATTTTAGAGACAT
1 TTGTCAATTTTGTTATTATTTTAAAGACAT
8995472 TTG
1 TTG
8995475 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTCAATTTTGTTATTATTTTAAAGACAT
Found at i:8995597 original size:19 final size:19
Alignment explanation
Indices: 8995555--8995597 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
8995545 AGGAAATACT
*
8995555 TATTTTGTTGTTTATAGTA
1 TATTTTGATGTTTATAGTA
8995574 T-TTTTGATGTATTATA-TA
1 TATTTTGATGT-TTATAGTA
8995592 TATTTT
1 TATTTT
8995598 AAAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (19 bp):
TATTTTGATGTTTATAGTA
Found at i:8995619 original size:12 final size:12
Alignment explanation
Indices: 8995598--8995631 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8995588 TATATATTTT
*
8995598 AAAATTATATAA
1 AAAATAATATAA
8995610 AAAATAATATAA
1 AAAATAATATAA
*
8995622 AAATTAATAT
1 AAAATAATAT
8995632 GGGCGGGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:9003250 original size:11 final size:11
Alignment explanation
Indices: 9003223--9003266 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
9003213 AAATTCTGTG
*
9003223 TATTTTATTTT
1 TATTTTATTAT
* *
9003234 TCTTTTCTTAT
1 TATTTTATTAT
*
9003245 TATTTTATAAT
1 TATTTTATTAT
9003256 TATTTTATTAT
1 TATTTTATTAT
9003267 AATTATCAAC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:9009783 original size:19 final size:19
Alignment explanation
Indices: 9009759--9009816 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
9009749 ACTTTTAAAA
9009759 TATTGTACTATAATTATTC
1 TATTGTACTATAATTATTC
* *
9009778 TATTGT--GA-AATT-CTC
1 TATTGTACTATAATTATTC
*
9009793 -ATTCTACTATAATTATTC
1 TATTGTACTATAATTATTC
9009811 TATTGT
1 TATTGT
9009817 GAAATTCTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
14 4 0.14
15 2 0.07
16 5 0.18
17 5 0.18
18 2 0.07
19 10 0.36
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (19 bp):
TATTGTACTATAATTATTC
Found at i:9009801 original size:33 final size:33
Alignment explanation
Indices: 9009764--9009826 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
9009754 TAAAATATTG
9009764 TACTATAATTATTCTATTGTGAAATTCTCATTC
1 TACTATAATTATTCTATTGTGAAATTCTCATTC
9009797 TACTATAATTATTCTATTGTGAAATTCTCA
1 TACTATAATTATTCTATTGTGAAATTCTCA
9009827 CTTTTGCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (33 bp):
TACTATAATTATTCTATTGTGAAATTCTCATTC
Found at i:9010272 original size:28 final size:28
Alignment explanation
Indices: 9010241--9010298 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
9010231 TATAAAAGGA
**
9010241 AAAAAATTGTTCAAAATGAAAAAAATAT
1 AAAAAATTACTCAAAATGAAAAAAATAT
*
9010269 AAAAAGTTACTCAAAATGAAAAAAATAT
1 AAAAAATTACTCAAAATGAAAAAAATAT
9010297 AA
1 AA
9010299 GGACCAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (28 bp):
AAAAAATTACTCAAAATGAAAAAAATAT
Found at i:9014761 original size:30 final size:29
Alignment explanation
Indices: 9014693--9014767 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 29
9014683 ATTAATAATT
*
9014693 AAATTTAAATTTTAAAATCTAAAAAATATA
1 AAATTTAAA-TTTAAAAACTAAAAAATATA
*
9014723 AAGA-TTAAATTCTAAAAAGT-AAAAATATA
1 AA-ATTTAAATT-TAAAAACTAAAAAATATA
9014752 ATAATTTAAATTTAAA
1 A-AATTTAAATTTAAA
9014768 TTTATTAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 17 0.44
30 21 0.54
31 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATTTAAATTTAAAAACTAAAAAATATA
Found at i:9014822 original size:2 final size:2
Alignment explanation
Indices: 9014815--9014840 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9014805 GCAATATCAC
9014815 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9014841 TCGTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9020797 original size:60 final size:62
Alignment explanation
Indices: 9020689--9020835 Score: 147
Period size: 60 Copynumber: 2.4 Consensus size: 62
9020679 CCTAAATTTT
* * ** *
9020689 CTAATTTGATACCTAACCTTTTTTTTTGCCCAATTTGGTATCTAAACTTGACAATTT-T-TTC
1 CTAATTTGGTACCTAAAC-TTTTTTGGGCTCAATTTGGTATCTAAACTTGACAATTTGTCTTC
* * * **
9020750 CTAATTTGGTACTTAAACTTTTTTGGGCTCAATTTGGTAGT-TGAACTTGGCTTTTTGTCTTC
1 CTAATTTGGTACCTAAACTTTTTTGGGCTCAATTTGGTA-TCTAAACTTGACAATTTGTCTTC
* *
9020812 TTAATTTGGTACCTAAGCTTTTTT
1 CTAATTTGGTACCTAAACTTTTTT
9020836 TAGGTTCAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
60 29 0.41
61 17 0.24
62 24 0.34
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (62 bp):
CTAATTTGGTACCTAAACTTTTTTGGGCTCAATTTGGTATCTAAACTTGACAATTTGTCTTC
Found at i:9021339 original size:31 final size:32
Alignment explanation
Indices: 9021292--9021363 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
9021282 AAAAGATTAT
* * *
9021292 GTACTAACTTAAG-AAAAAGTGTCAAGTTTAG
1 GTACTAAATTAAGAAAAAAATGTCAAGTTCAG
*
9021323 GTACTAAATTAGGAAAAAAATGTCAAGTTCAG
1 GTACTAAATTAAGAAAAAAATGTCAAGTTCAG
*
9021355 GTATTAAAT
1 GTACTAAAT
9021364 GTTATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 11 0.31
32 24 0.69
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.29
Consensus pattern (32 bp):
GTACTAAATTAAGAAAAAAATGTCAAGTTCAG
Found at i:9021880 original size:2 final size:2
Alignment explanation
Indices: 9021875--9021899 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9021865 TTAAATTTAT
9021875 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9021900 TTAAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9026003 original size:2 final size:2
Alignment explanation
Indices: 9025998--9026024 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9025988 TATGGGTGTT
9025998 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9026025 TAAGTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9027412 original size:24 final size:24
Alignment explanation
Indices: 9027347--9027396 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9027337 GTGAAGGGAG
9027347 ATTGTTGCAAATTCAATTTAAAGC
1 ATTGTTGCAAATTCAATTTAAAGC
9027371 ATTGTTGCAAATTCAATTTAAAGC
1 ATTGTTGCAAATTCAATTTAAAGC
9027395 AT
1 AT
9027397 GTCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
ATTGTTGCAAATTCAATTTAAAGC
Found at i:9030080 original size:7 final size:7
Alignment explanation
Indices: 9030068--9030127 Score: 120
Period size: 7 Copynumber: 8.6 Consensus size: 7
9030058 GGCAACTTAC
9030068 AATATAT
1 AATATAT
9030075 AATATAT
1 AATATAT
9030082 AATATAT
1 AATATAT
9030089 AATATAT
1 AATATAT
9030096 AATATAT
1 AATATAT
9030103 AATATAT
1 AATATAT
9030110 AATATAT
1 AATATAT
9030117 AATATAT
1 AATATAT
9030124 AATA
1 AATA
9030128 CTTTGAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:9030495 original size:24 final size:26
Alignment explanation
Indices: 9030468--9030519 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
9030458 AAACAATTTG
9030468 AGAA-GAATACTAAATAAA-AGTTTA
1 AGAATGAATACTAAATAAAGAGTTTA
*
9030492 AGAATGAATACTATATAAAGTAGTTTA
1 AGAATGAATACTAAATAAAG-AGTTTA
9030519 A
1 A
9030520 ACTAAATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 13 0.54
27 7 0.29
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (26 bp):
AGAATGAATACTAAATAAAGAGTTTA
Found at i:9030630 original size:26 final size:26
Alignment explanation
Indices: 9030601--9030652 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9030591 AAAAACAATA
9030601 TCTAAGGTAGATAATACATAGCAGTT
1 TCTAAGGTAGATAATACATAGCAGTT
9030627 TCTAAGGTAGATAATACATAGCAGTT
1 TCTAAGGTAGATAATACATAGCAGTT
9030653 AATAGTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
TCTAAGGTAGATAATACATAGCAGTT
Found at i:9033141 original size:30 final size:30
Alignment explanation
Indices: 9033107--9033167 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9033097 TCCTTAACTC
9033107 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
9033137 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
9033167 A
1 A
9033168 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:9038069 original size:2 final size:2
Alignment explanation
Indices: 9038062--9038090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9038052 TGGGTGTTTG
9038062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9038091 TTAAGATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9039589 original size:16 final size:16
Alignment explanation
Indices: 9039561--9039600 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
9039551 AATAAATTAT
*
9039561 TAAAATATTTT-AAAA
1 TAAAAAATTTTAAAAA
9039576 TAAAAAATTATTAAAAA
1 TAAAAAATT-TTAAAAA
9039593 TAAAAAAT
1 TAAAAAAT
9039601 CCGATTCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 2 0.09
17 12 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAAATTTTAAAAA
Found at i:9039804 original size:2 final size:2
Alignment explanation
Indices: 9039797--9039828 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9039787 AAACCTTTAA
9039797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9039829 TAATTTAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9044368 original size:12 final size:12
Alignment explanation
Indices: 9044351--9044377 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9044341 TCAAAGGATG
9044351 AAATTAAATAAA
1 AAATTAAATAAA
9044363 AAATTAAATAAA
1 AAATTAAATAAA
9044375 AAA
1 AAA
9044378 AGAAATAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATTAAATAAA
Found at i:9046129 original size:21 final size:20
Alignment explanation
Indices: 9046099--9046138 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9046089 TTTGTTTGCA
*
9046099 AAGATCTCATCTCCAAGTAAC
1 AAGATCTCATATCC-AGTAAC
*
9046120 AAGATGTCATATCCAGTAA
1 AAGATCTCATATCCAGTAA
9046139 GTTAGGACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (20 bp):
AAGATCTCATATCCAGTAAC
Found at i:9046679 original size:88 final size:88
Alignment explanation
Indices: 9046530--9046936 Score: 503
Period size: 88 Copynumber: 4.6 Consensus size: 88
9046520 TGCAACTTCT
* * * * * *
9046530 GGGAGATAAGATTTGTAATTTTTAGCCTGTTACCCTACTACTTAGTGGGTTAAGGCCCTTCGTCT
1 GGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCT
*
9046595 TCGATTTGCTCCACTACTGCTTA
66 TCGATCTGCTCCACTACTGCTTA
* * *
9046618 GGGAGACAAGATTTGTAATTTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCT
1 GGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCT
* *
9046683 TCGATCTGCTTCACTATTGCTTA
66 TCGATCTGCTCCACTACTGCTTA
* * * * * *
9046706 GGGAGACAAGATCTGTAATTTTTAGCCTGTTACCCTATTGCTTAGGGGGTCAAGGCTCACCCTCT
1 GGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCT
* *
9046771 TCGATCTACTCCGCTACTGCTTA
66 TCGATCTGCTCCACTACTGCTTA
* * **
9046794 GGGAGACAAGATCTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCT
1 GGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCT
*
9046859 TCGATCTGTTTCC-CTACTGCTTA
66 TCGATCTG-CTCCACTACTGCTTA
* ** * * * *
9046882 GGGGGTTAAGATCTATAA-ATTCAACCTGTTACCCTATTGCTTAGGGGGTTAAGGC
1 GGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
9046937 TTGTGAATTT
Statistics
Matches: 277, Mismatches: 41, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
87 32 0.12
88 242 0.87
89 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (88 bp):
GGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTCT
TCGATCTGCTCCACTACTGCTTA
Found at i:9046832 original size:44 final size:44
Alignment explanation
Indices: 9046608--9046840 Score: 120
Period size: 44 Copynumber: 5.3 Consensus size: 44
9046598 ATTTGCTCCA
* * *
9046608 CTACTGCTTAGGGAGACAAGATTTGTAATTTTCAGCTTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTACC
* ** ** ** * * *
9046652 CTACTGCTTAGGGGGTTAAGGCCCT-TCGTCTTCGA-TCTGCTT-CA
1 CTACTGCTTAGGGAGACAA-GATCTGTAAT-TTCCAGCCTG-TTACC
* **
9046696 CTATTGCTTAGGGAGACAAGATCTGTAATTTTTAGCCTGTTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTACC
* * * * * * * * **
9046740 CTATTGCTTAGGGGGTCAAG-GCT-CACCCTCTTCGA-TCTACT-CC
1 CTACTGCTTAGGGAGACAAGATCTGTA--AT-TTCCAGCCTGTTACC
9046783 GCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTACC
9046828 CTACTGCTTAGGG
1 CTACTGCTTAGGG
9046841 GTTTAAGGCC
Statistics
Matches: 130, Mismatches: 45, Indels: 28
0.64 0.22 0.14
Matches are distributed among these distances:
42 1 0.01
43 16 0.12
44 98 0.75
45 14 0.11
46 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTACC
Found at i:9046868 original size:44 final size:43
Alignment explanation
Indices: 9046819--9046936 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
9046809 TAATTTCCAG
* ** *
9046819 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCAT-AAATTCAA
* * ** *
9046863 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAA
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATAAATTCAA
*
9046906 CCTGTTACCCTATTGCTTAGGGGGTTAAGGC
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGC
9046937 TTGTGAATTT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
43 31 0.52
44 29 0.48
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (43 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATAAATTCAA
Found at i:9046925 original size:43 final size:43
Alignment explanation
Indices: 9046784--9046934 Score: 140
Period size: 44 Copynumber: 3.5 Consensus size: 43
9046774 ATCTACTCCG
* ** * * *
9046784 CTACTGCTTAGGGAGACAAGATCTGTAATTTCCAGCCTGTTACC
1 CTACTGCTTAGGGGGTTAAGATCTATAAATT-CAACCTGTTACC
* ** * ** * * *
9046828 CTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCC
1 CTACTGCTTAGGGGGTTAAGATCTAT-AAATTCAACCTGTTACC
9046872 CTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTACC
1 CTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTACC
*
9046915 CTATTGCTTAGGGGGTTAAG
1 CTACTGCTTAGGGGGTTAAG
9046935 GCTTGTGAAT
Statistics
Matches: 82, Mismatches: 24, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
43 31 0.38
44 48 0.59
45 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (43 bp):
CTACTGCTTAGGGGGTTAAGATCTATAAATTCAACCTGTTACC
Found at i:9055385 original size:22 final size:22
Alignment explanation
Indices: 9055341--9055385 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9055331 TGCAGAGCTG
* *
9055341 TTTTAAATTCTTCTATCTTCTC
1 TTTTAAATTCTTCGATCTACTC
9055363 TTTT-AATTCTTCGATTCTACTC
1 TTTTAAATTCTTCGA-TCTACTC
9055385 T
1 T
9055386 AACTAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.18, C:0.22, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAATTCTTCGATCTACTC
Found at i:9071349 original size:3 final size:3
Alignment explanation
Indices: 9071341--9071383 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
9071331 CTTTCCACGA
9071341 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
9071384 TTTTAGGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:9074027 original size:14 final size:16
Alignment explanation
Indices: 9074000--9074031 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
9073990 TAATGCAAAT
9074000 AATGCAATGCAATACA
1 AATGCAATGCAATACA
9074016 AATGC-ATG-AATACA
1 AATGCAATGCAATACA
9074030 AA
1 AA
9074032 ACAAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (16 bp):
AATGCAATGCAATACA
Found at i:9076099 original size:18 final size:19
Alignment explanation
Indices: 9076066--9076108 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
9076056 TAATACGTCA
*
9076066 AATAATAAAAATTAATAAT
1 AATAATAAAAAGTAATAAT
*
9076085 AATAAT-AAAAGTAATGAT
1 AATAATAAAAAGTAATAAT
9076103 AATAAT
1 AATAAT
9076109 GAGAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AATAATAAAAAGTAATAAT
Found at i:9076554 original size:24 final size:24
Alignment explanation
Indices: 9076506--9076555 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9076496 AGATATAACA
*
9076506 ATAATATGATATAAAAGTATATAT
1 ATAATATGATATAAAAGTACATAT
*
9076530 ATAATATGATATTAAAAG-ACGTAT
1 ATAATATGATA-TAAAAGTACATAT
9076554 AT
1 AT
9076556 GTATATTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (24 bp):
ATAATATGATATAAAAGTACATAT
Found at i:9080571 original size:2 final size:2
Alignment explanation
Indices: 9080548--9080585 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9080538 AATATGAATG
* *
9080548 TA TA -A TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9080586 GAACAGGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:9082268 original size:24 final size:24
Alignment explanation
Indices: 9082241--9082292 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
9082231 ATATAAAAAG
* *
9082241 AAATAACAAAGATTTTATATTAAT
1 AAATAACAAAGATATTATACTAAT
* * *
9082265 AAATATCAAATATATTATGCTAAT
1 AAATAACAAAGATATTATACTAAT
9082289 AAAT
1 AAAT
9082293 GTTCAATCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:9083676 original size:19 final size:21
Alignment explanation
Indices: 9083647--9083687 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9083637 AAAGTAAATA
9083647 CCAAAATCAAAATT-AAAGTC
1 CCAAAATCAAAATTAAAAGTC
9083667 CCAAAA-CAAAATTAAAAGTC
1 CCAAAATCAAAATTAAAAGTC
9083687 C
1 C
9083688 AAATGTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.56, C:0.22, G:0.05, T:0.17
Consensus pattern (21 bp):
CCAAAATCAAAATTAAAAGTC
Found at i:9087071 original size:23 final size:25
Alignment explanation
Indices: 9087019--9087077 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
9087009 ATATTATAAA
9087019 AATATTAT-TTAATTAAAACATTAT
1 AATATTATATTAATTAAAACATTAT
9087043 AA-ATTATATTAATT-AAA-ATTA-
1 AATATTATATTAATTAAAACATTAT
9087064 AGATATTATATTAA
1 A-ATATTATATTAA
9087078 AGGAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 18 0.56
24 8 0.25
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AATATTATATTAATTAAAACATTAT
Found at i:9087072 original size:30 final size:27
Alignment explanation
Indices: 9087009--9087073 Score: 67
Period size: 30 Copynumber: 2.3 Consensus size: 27
9086999 TTCTTGATTT
*
9087009 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* * *
9087036 ACATTATAAATTATATTAATTAAAATTAAG
1 ATATTATAAA-AATATT-ATT-AAATTAAA
9087066 ATATTATA
1 ATATTATA
9087074 TTAAAGGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 9 0.30
28 5 0.17
29 3 0.10
30 13 0.43
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:9087632 original size:15 final size:14
Alignment explanation
Indices: 9087610--9087662 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 14
9087600 TATTAAATAG
9087610 ATATTTATTATATT
1 ATATTTATTATATT
9087624 -TA-TTATTAT-TT
1 ATATTTATTATATT
*
9087635 A-ATTAATTGATATT
1 ATATTTATT-ATATT
9087649 ATA-TTATTATATT
1 ATATTTATTATATT
9087662 A
1 A
9087663 ATGAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
11 3 0.09
12 11 0.34
13 10 0.31
14 7 0.22
15 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
ATATTTATTATATT
Found at i:9087664 original size:23 final size:21
Alignment explanation
Indices: 9087610--9087661 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 21
9087600 TATTAAATAG
*
9087610 ATATTTATTATATTTATTATT
1 ATATTAATTATATTTATTATT
*
9087631 AT-TTAATTA-ATTGA-TATT
1 ATATTAATTATATTTATTATT
9087649 ATATT-ATTATATT
1 ATATTAATTATATT
9087662 AATGAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 10 0.37
19 9 0.33
20 6 0.22
21 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATATTAATTATATTTATTATT
Done.