Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 280 of 318
Found at i:89518070 original size:42 final size:42
Alignment explanation
Indices: 89518004--89518146 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
89517994 TTAACTCATA
* * * *
89518004 TGAGTTTCTGTTCAACTCTAATGGGTTTCCGTTCAGCTCTTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* *
89518046 TGAGCTTCTGTTTAACCCTTATGGGTTTCTTTTCAGCT-TTT
1 TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
* * *
89518087 AAGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTTA
1 -TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
*
89518130 TGAGCTTCAGTTCAACC
1 TGAGCTTCTGTTCAACC
89518147 TTCGGGCTTC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.03
42 81 0.94
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTCAGCTCTTT
Found at i:89519949 original size:20 final size:19
Alignment explanation
Indices: 89519924--89520032 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 19
89519914 TATTTTTAAA
89519924 TTATATATTATATGATTA-T
1 TTATATATTATAT-ATTATT
89519943 TT-TATATTACTCATATTATT
1 TTATATATTA-T-ATATTATT
89519963 TATATATATTATATATTATT
1 T-TATATATTATATATTATT
* * *
89519983 TTCACATA-TATACTTTTATA
1 TT-ATATATTATA-TATTATT
89520003 TTATATATTATAT-TTATT
1 TTATATATTATATATTATT
89520021 TTATATTATTAT
1 TTATA-TATTAT
89520033 GTCATTTTAT
Statistics
Matches: 76, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
18 16 0.21
19 23 0.30
20 28 0.37
21 2 0.03
22 7 0.09
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.60
Consensus pattern (19 bp):
TTATATATTATATATTATT
Found at i:89519991 original size:22 final size:22
Alignment explanation
Indices: 89519945--89519993 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
89519935 ATGATTATTT
*
89519945 TATATTACTCATATTATTTATA
1 TATATTACTCATATTATTTACA
89519967 TATATTA-T-ATATTATTTTCACA
1 TATATTACTCATATTA-TTT-ACA
89519989 TATAT
1 TATAT
89519994 ACTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 4 0.17
22 14 0.58
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTACTCATATTATTTACA
Found at i:89520042 original size:23 final size:23
Alignment explanation
Indices: 89519907--89520032 Score: 62
Period size: 25 Copynumber: 5.2 Consensus size: 23
89519897 GTTATTTGCT
* *
89519907 TTATTTTTATTTTTAAATTATATA
1 TTATATTTA-TTTTATATTATATA
89519931 TTATATGATTATTTTATATTACTCATA
1 TTATAT--TTATTTTATATTA-T-ATA
*
89519958 -T-TATTTA-TATATATTATATA
1 TTATATTTATTTTATATTATATA
* * *
89519978 TTAT-TTTCACATATATACTTTTATA
1 TTATATTT-A-TTTTATA-TTATATA
*
89520003 TTATATATTATATTTATTTTATATTA
1 TTATAT-TTAT-TTTATATTATA-TA
89520029 TTAT
1 TTAT
89520033 GTCATTTTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
20 3 0.04
21 5 0.06
22 10 0.12
23 3 0.04
24 11 0.14
25 26 0.32
26 17 0.21
27 5 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (23 bp):
TTATATTTATTTTATATTATATA
Found at i:89520042 original size:77 final size:78
Alignment explanation
Indices: 89519917--89520068 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 78
89519907 TTATTTTTAT
* *
89519917 TTTTAAATTATATATTATATGATTATTTTATATTACTCATATTATTTATATATATTATATATTAT
1 TTTTAAATTATATATTATAT-ATTATTTTATATTACTCATATCATTTATA-ATATTAAATATT-T
89519982 TT-TC-ACATATATAC
63 TTATCTACATATATAC
* * * *
89519996 TTTTATATTATATATTATAT-TTATTTTATATTA-TTATGTCATTTTATACTATTAAATATTTTT
1 TTTTAAATTATATATTATATATTATTTTATATTACTCATATCA-TTTATAATATTAAATATTTTT
89520059 ATCTACATAT
65 ATCTACATAT
89520069 TGTTATCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
75 3 0.05
76 17 0.27
77 25 0.39
79 19 0.30
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (78 bp):
TTTTAAATTATATATTATATATTATTTTATATTACTCATATCATTTATAATATTAAATATTTTTA
TCTACATATATAC
Found at i:89539569 original size:43 final size:43
Alignment explanation
Indices: 89539413--89539570 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
89539403 ATGAGTTATT
* *
89539413 GTGTAAGACCAGGTTTGGGACGTTGGCATC-A-ACTTATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATA-TT-TGA-TTAC
* * * **
89539457 GTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTT
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
89539499 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTAC
* * *
89539542 ATGTAAGACCACGTCTGAGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
89539571 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
42 29 0.31
43 34 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTAC
Found at i:89544920 original size:23 final size:24
Alignment explanation
Indices: 89544894--89544939 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
89544884 ATATATCATA
*
89544894 AAAC-AGCACATAAAGAAATAATT
1 AAACAAGCACATAAAAAAATAATT
*
89544917 AAACATAGCATATAAAAAAATAA
1 AAACA-AGCACATAAAAAAATAA
89544940 AACTATGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.65, C:0.11, G:0.07, T:0.17
Consensus pattern (24 bp):
AAACAAGCACATAAAAAAATAATT
Found at i:89545456 original size:22 final size:21
Alignment explanation
Indices: 89545430--89545495 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 21
89545420 TACAAATTAA
89545430 ATCTTCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
89545452 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
* *
89545473 ATC-T-AAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
89545492 ATCT
1 ATCT
89545496 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.44
20 1 0.02
21 9 0.22
22 13 0.32
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:89545482 original size:19 final size:19
Alignment explanation
Indices: 89545447--89545544 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
89545437 AGATTACAAG
89545447 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
89545468 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89545487 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
89545504 ATCATATCTAAGCTTGCAT
1 ATCATATCTAAGATTGCAT
89545523 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89545542 ATC
1 ATC
89545545 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:89545511 original size:36 final size:37
Alignment explanation
Indices: 89545447--89545544 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
89545437 AGATTACAAG
89545447 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
89545487 ATCATATCTAAGATTG-TATCATATCTAAGCTTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
89545523 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
89545545 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:89546755 original size:389 final size:392
Alignment explanation
Indices: 89545967--89546768 Score: 1073
Period size: 389 Copynumber: 2.1 Consensus size: 392
89545957 AGAGATGTCA
89545967 AATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACCAAATCAACTATGTCTTCGATTTGCT
1 AATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACCAAATCAACTATGTCTTCGATTTGCT
* * * **
89546032 CCTTGTAAGCACAAGGATACCAAAACATCCTGGATTTGCTTCAGTCTAATCATCTGAAGGTTAGA
66 CCTTGTAAGCACAAGGATACCAAAACA-CCTGGATCTGCTTCAGTATAATCATATGAAGGCCAGA
* * * *
89546097 TCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATA
130 TCTACTATGTGTCTGCCCTCCGTCAAATATGGAAACGCCAAACTTCAATTTATTCTCTGACAATA
*
89546162 TAGAGATGCCAAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGACAAATCAGCTATGT
195 CAGAGATGCCAAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGACAAATCAGCTATGT
* * * *
89546227 CTTCGATTTGTTCTTGTAAGCACAAGATGCAATCTTGGATCTGCTTCAGTATAAATGAAGGTAGA
260 CTTCGAATTGTTCTTGTAAGCACAAGATGCAATCTTCGATCTGCTTCAGTAAAAATGAAGGCAGA
* * *
89546292 TTCTATGTGTCTGCTCTCGTCGAATATGGAGACGCAAACTTTGATTTGTTCTCTGACAATAGAGA
325 TTCTA-GTGCCTGCTCTCGTCGAATATGGAGACGCAAACTTCGATTTGTTCTCTGACAATACAGA
*
89546357 TGCC
389 AGCC
* * *
89546361 AATCATCTTAGATTTGCTTCATCGTAAGCACGTG-AAACCAAATCAGCTATGTCTTCGATTTGTT
1 AATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACCAAATCAACTATGTCTTCGATTTGCT
* * *
89546425 CCTTGTAAGCACAAGGATGCC-AATCA-CTTGATCTGCTTCAGTATAAT-ATATGAAGGCCAGAT
66 CCTTGTAAGCACAAGGATACCAAAACACCTGGATCTGCTTCAGTATAATCATATGAAGGCCAGAT
* **
89546487 CTACTATGTGTCTGCTCTCCGTCAAATATGGAAACGCCAAACTTTGATTTATTCTCTGACAATAC
131 CTACTATGTGTCTGCCCTCCGTCAAATATGGAAACGCCAAACTTCAATTTATTCTCTGACAATAC
*
89546552 AGAGATGCC-AAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT-AGCTATGTC
196 AGAGATGCCAAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGACAAATCAGCTATGTC
89546615 TTC-AATTGTTCCTTGTAAGCACAAGGATGCCAAATCTCCTTCGATC-GCTT-AGTAAACATATG
261 TTCGAATTGTT-CTTGTAAGCACAA-GATG-C-AA--T-CTTCGATCTGCTTCAGTAAA-A-ATG
*
89546677 -AGGCCAGATCTGCTA-TGCCTGCTCTCCGT-TAATATGGA-ACGCCAAACTTCGA-TTGTT-TC
317 AAGG-CAGAT-T-CTAGTGCCTGCTCT-CGTCGAATATGGAGACG-CAAACTTCGATTTGTTCTC
89546736 T-ACAATACAGAAG-C
377 TGACAATACAGAAGCC
89546750 AATCATCTTAGA-TTGCTTC
1 AATCATCTTAGATTTGCTTC
89546769 GCGTAAACTG
Statistics
Matches: 365, Mismatches: 29, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
386 6 0.02
387 25 0.07
388 55 0.15
389 92 0.25
390 30 0.08
391 8 0.02
392 21 0.06
393 88 0.24
394 37 0.10
395 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (392 bp):
AATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACCAAATCAACTATGTCTTCGATTTGCT
CCTTGTAAGCACAAGGATACCAAAACACCTGGATCTGCTTCAGTATAATCATATGAAGGCCAGAT
CTACTATGTGTCTGCCCTCCGTCAAATATGGAAACGCCAAACTTCAATTTATTCTCTGACAATAC
AGAGATGCCAAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGACAAATCAGCTATGTC
TTCGAATTGTTCTTGTAAGCACAAGATGCAATCTTCGATCTGCTTCAGTAAAAATGAAGGCAGAT
TCTAGTGCCTGCTCTCGTCGAATATGGAGACGCAAACTTCGATTTGTTCTCTGACAATACAGAAG
CC
Found at i:89546932 original size:44 final size:43
Alignment explanation
Indices: 89546884--89547201 Score: 270
Period size: 44 Copynumber: 7.3 Consensus size: 43
89546874 CTCTTCGTGC
*
89546884 ACACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAA
1 ACACAGGGATG-CAGATCTGCTATCTTCGATTTGTTCCCTATAA
* * * * *
89546928 ACACAGGGATGC-CATGCTG-AATCTTCGATCTGCTTCGCTGTAA
1 ACACAGGGATGCAGAT-CTGCTATCTTCGATTTG-TTCCCTATAA
*
89546971 GCACAGGGATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAA
1 ACACAGGGATG-CAGATCTGCTATCTTCGATTTGTTCCCTATAA
* * * *
89547015 ACACGGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 ACACAGGGATG-CAGATCTGCTATCTTCGATTTGTTCCCTATAA
* ** * * *
89547059 ACACAGGGATGC-CATGCTGAAATCTTCAACTCGTTCCCTATAA
1 ACACAGGGATGCAGAT-CTGCTATCTTCGATTTGTTCCCTATAA
** * * * *
89547102 ACACAGGGA--CACGATGCTGAAATCTTTGATCTGCTTCGCTGTAA
1 ACACAGGGATGCA-GAT-CTGCTATCTTCGATTTG-TTCCCTATAA
* *
89547146 GCACA-GGAGTGTCAGATCTACTATCTTCGATTTGTTCCCTATAA
1 ACACAGGGA-TG-CAGATCTGCTATCTTCGATTTGTTCCCTATAA
89547190 ACACAGGGATGC
1 ACACAGGGATGC
89547202 CAAATCTTGT
Statistics
Matches: 221, Mismatches: 39, Indels: 29
0.76 0.13 0.10
Matches are distributed among these distances:
41 1 0.00
42 15 0.07
43 75 0.34
44 97 0.44
45 28 0.13
46 3 0.01
47 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
ACACAGGGATGCAGATCTGCTATCTTCGATTTGTTCCCTATAA
Found at i:89546994 original size:87 final size:88
Alignment explanation
Indices: 89546813--89547203 Score: 402
Period size: 87 Copynumber: 4.6 Consensus size: 88
89546803 CCTGAAGCAA
* * *
89546813 GATGCCAAATC-GCTATCTTCAACTTGTTCCCTAT-AA-ACA-GGATGCCATGCT-AAATCTT-G
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
*
89546872 ATCT-CTTCG-TG-CA-CACAGG
66 ATCTGCTTCGCTGTAAGCACAGG
* *
89546891 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTG-AATCTTCG
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
89546955 ATCTGCTTCGCTGTAAGCACAGG
66 ATCTGCTTCGCTGTAAGCACAGG
* **
89546978 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACGGGGATGCCAAAT-CTGCTATCTT
1 GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTT
* * * *
89547042 C-AACTTG-TTCCCTATAAACACAGG
64 CGATC-TGCTTCGCTGTAAGCACAGG
** * * * ** * *
89547066 GATGCC--ATGCTGAAATCTTCAACTCGTTCCCTATAAACACAGGGACACGATGCTGAAATCTTT
1 GATGCCAGAT-CTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTC
89547129 GATCTGCTTCGCTGTAAGCACA-G
65 GATCTGCTTCGCTGTAAGCACAGG
* *
89547152 GAGTGTCAGATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
1 GA-TGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
89547204 AATCTTGTTT
Statistics
Matches: 252, Mismatches: 40, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
78 8 0.03
79 21 0.08
80 2 0.01
81 3 0.01
82 18 0.07
83 5 0.02
84 5 0.02
85 4 0.02
86 16 0.06
87 101 0.40
88 57 0.23
89 12 0.05
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (88 bp):
GATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
ATCTGCTTCGCTGTAAGCACAGG
Found at i:89547170 original size:131 final size:128
Alignment explanation
Indices: 89546827--89547203 Score: 384
Period size: 131 Copynumber: 3.0 Consensus size: 128
89546817 CCAAATCGCT
*
89546827 ATCTTCAACTTGTTCCCTAT-AA-ACA-GGATGCC-ATGCT-AAATC-TTGATCT-CTTCG-TG-
1 ATCTTCAACTCGTTCCCTATAAACACAGGGA--CCGATGCTGAAATCTTTGATCTGCTTCGCTGT
* *
89546883 CACACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGA
64 AACACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGA
* * * * ** * * *
89546948 ATCTTCGA-TCTGCTTCGCTGTAAGCACAGGGATGCCAGAT-CTGCTATCTTCGATTTG-TTCCC
1 ATCTTCAACTC-G-TTCCCTATAAACACAGGGA--CC-GATGCTGAAATCTTTGATCTGCTTCGC
* * * * * *
89547010 TATAA-ACACGGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAT
61 TGTAACACA-GGAG-TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAT
89547074 GCTGAA
124 GCTG-A
89547080 ATCTTCAACTCGTTCCCTATAAACACAGGGACACGATGCTGAAATCTTTGATCTGCTTCGCTGTA
1 ATCTTCAACTCGTTCCCTATAAACACAGGGAC-CGATGCTGAAATCTTTGATCTGCTTCGCTGTA
*
89547145 AGCACAGGAGTGTCAGATCTACTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
65 A-CACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCA
89547204 AATCTTGTTT
Statistics
Matches: 201, Mismatches: 34, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
120 1 0.00
121 8 0.04
122 6 0.03
123 1 0.00
124 3 0.01
125 7 0.03
126 2 0.01
127 5 0.02
128 8 0.04
129 8 0.04
130 17 0.08
131 118 0.59
132 12 0.06
133 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (128 bp):
ATCTTCAACTCGTTCCCTATAAACACAGGGACCGATGCTGAAATCTTTGATCTGCTTCGCTGTAA
CACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCATGCTGA
Found at i:89553206 original size:24 final size:26
Alignment explanation
Indices: 89553157--89553214 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
89553147 ATATCATAAA
*
89553157 ATAGCACATAAAAGAAATAATTAAAC
1 ATAGCACATAAAAGAAATAATAAAAC
*
89553183 ATAGCATATAAAA-AAA-AATAAAAC
1 ATAGCACATAAAAGAAATAATAAAAC
89553207 -TATGCACA
1 ATA-GCACA
89553215 AATAAGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.07
24 11 0.39
25 3 0.11
26 12 0.43
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.19
Consensus pattern (26 bp):
ATAGCACATAAAAGAAATAATAAAAC
Found at i:89553722 original size:22 final size:21
Alignment explanation
Indices: 89553692--89553776 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 21
89553682 TACAAATTAA
89553692 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
89553714 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
89553735 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
89553754 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
89553773 ATCT
1 ATCT
89553777 AAGATTGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
19 38 0.63
21 10 0.17
22 12 0.20
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:89553744 original size:19 final size:19
Alignment explanation
Indices: 89553709--89553806 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
89553699 AGATTACAAG
89553709 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
89553730 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89553749 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89553768 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
89553785 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89553804 ATC
1 ATC
89553807 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:89560731 original size:27 final size:27
Alignment explanation
Indices: 89560685--89560929 Score: 300
Period size: 27 Copynumber: 9.1 Consensus size: 27
89560675 GCTGAAATGG
89560685 TGACTGAAATA-CCCTCATAGGGTAAAA
1 TGACTGAAATACCCCT-ATAGGGTAAAA
* *
89560712 TAACTAAAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
89560739 TGACTGAAATACCCC-ATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
** *
89560765 TGACCAAAATACCTCC-ATAAGGTAAAA
1 TGACTGAAATACC-CCTATAGGGTAAAA
* *
89560792 TGTCTGAAATACCTCC-ATAGGATAAAA
1 TGACTGAAATACC-CCTATAGGGTAAAA
*
89560819 TGACCGAAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
* *
89560846 TGACTAAAATACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
**
89560873 TGACTTTAATACCCCTATAGGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
* * *
89560900 TGACTGTAGTACCCCTATAAGGTAAAA
1 TGACTGAAATACCCCTATAGGGTAAAA
89560927 TGA
1 TGA
89560930 TTGATTTGCC
Statistics
Matches: 191, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 24 0.13
27 163 0.85
28 4 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (27 bp):
TGACTGAAATACCCCTATAGGGTAAAA
Found at i:89563864 original size:27 final size:27
Alignment explanation
Indices: 89563834--89563993 Score: 205
Period size: 27 Copynumber: 5.9 Consensus size: 27
89563824 AATGGTGATC
*
89563834 GAAATACCCCTATAGGGTAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACT
89563861 GAAATA-CCCTCATAGGGTAAAATGACT
1 GAAATACCCCT-ATAGGGTAAAATGACT
*
89563888 GAAATACCCTTATAGGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* * *
89563915 AAAATACCTCTATAAGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* *
89563942 GTAATACCCCTGTAGGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* * * *
89563969 GTAGTACCCCTGTAAGGTAAAATGA
1 GAAATACCCCTATAGGGTAAAATGA
89563994 TTGATTTGCC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.03
27 111 0.94
28 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAAAATGACT
Found at i:89569534 original size:20 final size:20
Alignment explanation
Indices: 89569509--89569547 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
89569499 GGTTCGAATT
89569509 TTAGACACATTTTTTTGTGC
1 TTAGACACATTTTTTTGTGC
89569529 TTAGACACATTTTTTTGTG
1 TTAGACACATTTTTTTGTG
89569548 TTTTCCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (20 bp):
TTAGACACATTTTTTTGTGC
Found at i:89571879 original size:64 final size:64
Alignment explanation
Indices: 89571799--89571927 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
89571789 CATTCATACC
** * * *
89571799 CTAGTCGTTAATTTCCATAAATGGATAGATAGTTTATCACCATTAACTTATTTTCTTAAATCTT
1 CTAGTCGTTAATTTCCATAAACAGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
* *
89571863 CTAGTCGTTGATTTCCATAAACAGATAGATAGTCTGTCACCATCAACTCATTTTCTTAAATCTT
1 CTAGTCGTTAATTTCCATAAACAGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
89571927 C
1 C
89571928 AAATGTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.40
Consensus pattern (64 bp):
CTAGTCGTTAATTTCCATAAACAGATAGATAGTCTATCACCATCAACTCATTTTCTTAAATCTT
Found at i:89578725 original size:33 final size:33
Alignment explanation
Indices: 89578683--89578748 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
89578673 GAGAGAATAA
89578683 GACCAGTGGCTTATCCACTTATATTACCATCAG
1 GACCAGTGGCTTATCCACTTATATTACCATCAG
89578716 GACCAGTGGCTTATCCACTTATATTACCATCAG
1 GACCAGTGGCTTATCCACTTATATTACCATCAG
89578749 AACTTGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (33 bp):
GACCAGTGGCTTATCCACTTATATTACCATCAG
Found at i:89583274 original size:29 final size:29
Alignment explanation
Indices: 89583232--89583289 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
89583222 GCTGCTTCAT
89583232 ATGCAACTTGCTTGTTAGAGTTTTCGACA
1 ATGCAACTTGCTTGTTAGAGTTTTCGACA
*
89583261 ATGCAAGTTGCTTGTTAGAGTTTTCGACA
1 ATGCAACTTGCTTGTTAGAGTTTTCGACA
89583290 TACATATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (29 bp):
ATGCAACTTGCTTGTTAGAGTTTTCGACA
Found at i:89584930 original size:43 final size:43
Alignment explanation
Indices: 89584883--89585004 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 43
89584873 ATTGTACTGT
* * *
89584883 GATTATGTGTAAGACCATCTTTGGGATATTGGCATCATT-ATAC
1 GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAAT-C
** * *
89584926 GATTACATGTAAGACCATGTCTGGGACATCGGCATCGTTAATC
1 GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAATC
* * * *
89584969 GATTTTGTGTAAAACCCTGTCTGGGACAGT-GGCATC
1 GATTATGTGTAAGACCATCTCTGGGACA-TCGGCATC
89585005 GATATGTGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 62 0.95
44 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTATGTGTAAGACCATCTCTGGGACATCGGCATCATTAATC
Found at i:89584994 original size:86 final size:85
Alignment explanation
Indices: 89584840--89585045 Score: 202
Period size: 86 Copynumber: 2.4 Consensus size: 85
89584830 ACCTAGATGA
* * * * * * *
89584840 GATTACATGTAAGACCATGTCTAGAACATTGGCATTGTACTGTGATTATGTGTAAGACCATCTTT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATCGTAATGCGATTATGTGTAAAACCATCTCT
* *
89584905 GGGATATTGGCATC-ATTATAC
65 GGGACAGTGGCATCGA-TATAC
* * *
89584926 GATTACATGTAAGACCATGTCTGGGACATCGGCATCGTTAAT-CGATTTTGTGTAAAACCCTGTC
1 GATTACATGTAAGACCATGTCTGGGACAT-GGCATCG-TAATGCGATTATGTGTAAAACCATCTC
**
89584990 TGGGACAGTGGCATCGATATGT
64 TGGGACAGTGGCATCGATATAC
* *
89585012 G-TTAACATGTAAGACCATATCTGGGATATGGCAT
1 GATT-ACATGTAAGACCATGTCTGGGACATGGCAT
89585046 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
85 8 0.08
86 88 0.88
87 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATCGTAATGCGATTATGTGTAAAACCATCTCTG
GGACAGTGGCATCGATATAC
Found at i:89591630 original size:278 final size:277
Alignment explanation
Indices: 89591095--89591919 Score: 1035
Period size: 278 Copynumber: 3.0 Consensus size: 277
89591085 TTGTGGAAGG
* * * *
89591095 TTCAAC-CTGTTTTTCCTCTTATAACCCTCAAAGATTGGTTTGGCTTCTTGCATCCATCGAACGA
1 TTCAACTC-GTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGA
* * * * **
89591159 TCCATGTCGAATCGAGTAGCACGTTCTCGCTTAGATGTTGTTTTGTCTTTATCGCTCTCTTTTGT
65 TCCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCAT
* * * ** *
89591224 TTCTGATTCCCTATAAGATATTCCACACTCAGTTTTGAGATCGGAAACTTGTTTGGTTGTAAATC
130 TTTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTGCTTGGTTGTAAATC
* ** ** * *
89591289 ATGACTCGATCGTCCCATCAACACCTTCATTTGTCAGCATAAAACTGTCACTATGTATGGGAAAA
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAA
* *
89591354 ATAGTTTCACCTCATTTTT
260 GTAGTTCCACCTCA-TTTT
* **
89591373 TTCAACTCGTTTTTCCTCTCATAATCTTCAAATATTGGTTCAACTTCTTGCATCCATCGAACGAT
1 TTCAACTCGTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * *
89591438 CCATTTCGAACCGAGTAACACATTCTTGCCTAGATGTGGTTTTGTCTTCATGGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
*
89591503 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTACTTGGTTGTAAATCA
131 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTGCTTGGTTGTAAATCA
* * * * * * *
89591568 CAACTCAATCGTCCCATCGGCACCTTCATTTTTCTGTATCAGGCTATCACTAAGTGTGGGAAAAG
196 CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAAG
89591633 TAGTTCCACCTCATTTT
261 TAGTTCCACCTCATTTT
* * * * * * * *
89591650 TTCAATTCATTTTTCCTCGCAGAATCTTTAAAGATTGATTTGACTTCTTGCAT-CATTGAATGAT
1 TTCAACTCGTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
* * * * *
89591714 CTATTTTGAATCGAGTAGCGCATTCTCACCTAGATGTGGTTTTGTCTTTATTGCTCTCTTTCATT
66 CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
* * * *
89591779 TTTGATTCCTTATAAGATATTCCACACTCGATTCTAAGAT-AGAAAACTTGCTTAGTTGTAAATC
131 TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCA-AAAACTTGCTTGGTTGTAAATC
* * * * *
89591843 ACGACTTGACCGTCCCATTGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGCGAGAAAA
195 ACGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAA
89591908 GTAGTTCCACCT
260 GTAGTTCCACCT
89591920 TGTTTTTCCT
Statistics
Matches: 467, Mismatches: 78, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
275 1 0.00
276 187 0.40
277 48 0.10
278 230 0.49
279 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (277 bp):
TTCAACTCGTTTTTCCTCTCATAATCTTCAAAGATTGGTTTGACTTCTTGCATCCATCGAACGAT
CCATTTCGAATCGAGTAGCACATTCTCGCCTAGATGTGGTTTTGTCTTTATCGCTCTCTTTCATT
TTTGATTCCCTATAAGATATTCCACACTCGGTTCTGAGATCAAAAACTTGCTTGGTTGTAAATCA
CGACTCGATCGTCCCATCGGCACCTTCATTTGTCAGCATAAGGCTGTCACTAAGTGTGGGAAAAG
TAGTTCCACCTCATTTT
Found at i:89616123 original size:22 final size:22
Alignment explanation
Indices: 89616098--89616148 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
89616088 AGGAAGGCAG
89616098 GAAATAAAAATGAAAGGAGACC
1 GAAATAAAAATGAAAGGAGACC
*
89616120 GAAATAAAAATGAAAGGAGAGC
1 GAAATAAAAATGAAAGGAGACC
*
89616142 AAAATAA
1 GAAATAA
89616149 TTTTAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.22, T:0.10
Consensus pattern (22 bp):
GAAATAAAAATGAAAGGAGACC
Found at i:89617985 original size:15 final size:15
Alignment explanation
Indices: 89617963--89617995 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
89617953 AATTTGATTT
*
89617963 TTAAAATTTATA-TA
1 TTAAAAATTATACTA
89617977 TTAAAAATTATACTA
1 TTAAAAATTATACTA
89617992 TTAA
1 TTAA
89617996 GTTAAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATTATACTA
Found at i:89621585 original size:23 final size:24
Alignment explanation
Indices: 89621541--89621585 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
89621531 TGATTTAGTC
89621541 CTATAAAAAATATAAAAATATAGA
1 CTATAAAAAATATAAAAATATAGA
*
89621565 CTATAAAAAAT-TAAAATTATA
1 CTATAAAAAATATAAAAATATA
89621586 TTCGGAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
CTATAAAAAATATAAAAATATAGA
Found at i:89625896 original size:41 final size:41
Alignment explanation
Indices: 89625846--89625928 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
89625836 GTGTTGGAGG
89625846 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
1 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
89625887 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
1 TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
89625928 T
1 T
89625929 TTGCTATAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (41 bp):
TATGTTAAATAAGTTCCGACAAGTATAATAATGTGTTATGA
Found at i:89628650 original size:5 final size:5
Alignment explanation
Indices: 89628640--89628679 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
89628630 TAGGACTTTG
* *
89628640 TATGA TATGA TATGA TCTGA TATAA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
89628680 ATCAATATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:89628669 original size:20 final size:20
Alignment explanation
Indices: 89628644--89628695 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
89628634 ACTTTGTATG
*
89628644 ATATGATATGATCTGATAT-A
1 ATATGATATGATATGA-ATCA
89628664 ATATGATATGATATGAATCA
1 ATATGATATGATATGAATCA
*
89628684 ATATGGTATGAT
1 ATATGATATGAT
89628696 TTATGATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (20 bp):
ATATGATATGATATGAATCA
Found at i:89638353 original size:15 final size:15
Alignment explanation
Indices: 89638333--89638362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89638323 AATTATAAGT
*
89638333 ACATACTCTCAACTA
1 ACATACACTCAACTA
89638348 ACATACACTCAACTA
1 ACATACACTCAACTA
89638363 TCAAAGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
ACATACACTCAACTA
Found at i:89644282 original size:17 final size:18
Alignment explanation
Indices: 89644251--89644286 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
89644241 ACTAAATTTG
89644251 TCATTATACCCTTTTTTT
1 TCATTATACCCTTTTTTT
89644269 TCATTATA-CCTTTTTTT
1 TCATTATACCCTTTTTTT
89644286 T
1 T
89644287 AACTACCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (18 bp):
TCATTATACCCTTTTTTT
Found at i:89644478 original size:20 final size:19
Alignment explanation
Indices: 89644436--89644500 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
89644426 TATTTAAAAA
* *
89644436 TAAAAATACATAAATATTTT
1 TAAAAATACATAAA-AATAT
89644456 TAAAAATACATAAAAACTAT
1 TAAAAATACATAAAAA-TAT
*
89644476 TAAAAAAACCA-AAAAATAT
1 TAAAAATA-CATAAAAATAT
89644495 TAAAAA
1 TAAAAA
89644501 ATATTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 10 0.25
20 28 0.70
21 2 0.05
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (19 bp):
TAAAAATACATAAAAATAT
Found at i:89648384 original size:19 final size:19
Alignment explanation
Indices: 89648312--89648384 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
89648302 GATGAAAACC
*
89648312 ATTAATTAAATTAATTATA-
1 ATTAACTAAATTAATTA-AG
*
89648331 ATTAA-TATATATTATTTAAG
1 ATTAACTA-A-ATTAATTAAG
89648351 -TTAAC--AATTAATTAAG
1 ATTAACTAAATTAATTAAG
89648367 ATTAACTAAATTAATTAA
1 ATTAACTAAATTAATTAA
89648385 ACTTTAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
16 9 0.20
17 6 0.13
18 2 0.04
19 21 0.47
20 7 0.16
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTAACTAAATTAATTAAG
Found at i:89648710 original size:17 final size:17
Alignment explanation
Indices: 89648688--89648722 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
89648678 GAAATTGATA
*
89648688 GTTAATAAGCTTAGATT
1 GTTAATAAGATTAGATT
*
89648705 GTTAATATGATTAGATT
1 GTTAATAAGATTAGATT
89648722 G
1 G
89648723 GAAATTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (17 bp):
GTTAATAAGATTAGATT
Found at i:89658960 original size:36 final size:36
Alignment explanation
Indices: 89658913--89658983 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
89658903 ATAGGCTAAG
89658913 TTAATAAAAATCATCACTAGTTAACCATACAGTTTT
1 TTAATAAAAATCATCACTAGTTAACCATACAGTTTT
89658949 TTAATAAAAATCATCACTAGTTAACCATACAGTTT
1 TTAATAAAAATCATCACTAGTTAACCATACAGTTT
89658984 AATTGCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (36 bp):
TTAATAAAAATCATCACTAGTTAACCATACAGTTTT
Found at i:89668686 original size:40 final size:40
Alignment explanation
Indices: 89668640--89668718 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
89668630 AAATACCATG
89668640 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
* *
89668680 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGT
89668719 GGTACTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.35, C:0.34, G:0.16, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCAAGTA
Found at i:89675904 original size:40 final size:40
Alignment explanation
Indices: 89675826--89675904 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
89675816 ACACACCATG
*
89675826 TGGGGATAAAATCGACCCACCCAGCCCTACAAATCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
* *
89675866 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGT
89675905 GGTACTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACAAACCAAGTA
Found at i:89681897 original size:18 final size:18
Alignment explanation
Indices: 89681876--89681917 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
89681866 TTTAAGTTTA
89681876 TAATATTTT-TATATTATG
1 TAAT-TTTTATATATTATG
89681894 TAATTTTTATATATTATG
1 TAATTTTTATATATTATG
89681912 TAATTT
1 TAATTT
89681918 GTACCAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TAATTTTTATATATTATG
Found at i:89699024 original size:38 final size:38
Alignment explanation
Indices: 89698981--89699053 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
89698971 ATGCAGCACA
89698981 AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
1 AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
89699019 AACTATTTTAAATATATACTTAAAAAAATTAAAAT
1 AACTATTTTAAATATATACTTAAAAAAATTAAAAT
89699054 TATTTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (38 bp):
AACTATTTTAAATATATACTTAAAAAAATTAAAATCAC
Found at i:89700133 original size:20 final size:20
Alignment explanation
Indices: 89700108--89700148 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
89700098 AAAATAAAAA
*
89700108 TAAAAATACATAAATAAATTT
1 TAAAAA-ACAAAAATAAATTT
*
89700129 TAAAAAATAAAAATAAATTT
1 TAAAAAACAAAAATAAATTT
89700149 ATATTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAACAAAAATAAATTT
Found at i:89705319 original size:13 final size:13
Alignment explanation
Indices: 89705301--89705326 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89705291 TTATTTCTTT
89705301 TTATATATATATA
1 TTATATATATATA
89705314 TTATATATATATA
1 TTATATATATATA
89705327 GCAAATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATATATATA
Found at i:89707475 original size:14 final size:14
Alignment explanation
Indices: 89707456--89707485 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89707446 CCTTTTTTGG
89707456 AAAAAAAACCAAGA
1 AAAAAAAACCAAGA
*
89707470 AAAAAAAACGAAGA
1 AAAAAAAACCAAGA
89707484 AA
1 AA
89707486 GACCTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAACCAAGA
Found at i:89712406 original size:22 final size:21
Alignment explanation
Indices: 89712370--89712414 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
89712360 TTTAATAATG
89712370 AATTAAATTATTA-TTATAAGT
1 AATTAAATTATTATTTA-AAGT
*
89712391 AATTAATTATATTATTTAAAGT
1 AATTAAAT-TATTATTTAAAGT
89712413 AA
1 AA
89712415 AAAGATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 11 0.52
23 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTAAATTATTATTTAAAGT
Found at i:89712530 original size:29 final size:27
Alignment explanation
Indices: 89712462--89712530 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
89712452 ACTCAAACGT
* *
89712462 TTATATAATTAATAATTAATTAATTAA
1 TTATATAATTAAAAATTAAATAATTAA
* *
89712489 TAAAATAATATTAAAAATTAAATACTATTAA
1 TTATAT-A-ATTAAAAATTAAATA--ATTAA
89712520 TTATATAATTA
1 TTATATAATTA
89712531 TTTTATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
27 4 0.12
28 1 0.03
29 17 0.53
30 1 0.03
31 9 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TTATATAATTAAAAATTAAATAATTAA
Found at i:89712696 original size:15 final size:15
Alignment explanation
Indices: 89712678--89712707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89712668 TACACCTAAA
*
89712678 TTTATGTTAATTAGC
1 TTTAGGTTAATTAGC
89712693 TTTAGGTTAATTAGC
1 TTTAGGTTAATTAGC
89712708 ACTAAATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (15 bp):
TTTAGGTTAATTAGC
Found at i:89714048 original size:22 final size:22
Alignment explanation
Indices: 89714023--89714064 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89714013 ATTTTAAAAA
*
89714023 TATTTAATTTCTTAACATTTAC
1 TATTTAATTTCTTAAAATTTAC
* *
89714045 TATTTTATTTTTTAAAATTT
1 TATTTAATTTCTTAAAATTT
89714065 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTAATTTCTTAAAATTTAC
Found at i:89723427 original size:20 final size:20
Alignment explanation
Indices: 89723402--89723447 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
89723392 CGGCCTACCA
89723402 TGCGGCCTGGCACACGACCG
1 TGCGGCCTGGCACACGACCG
*
89723422 TGCGGCCTGGCGCACGACCG
1 TGCGGCCTGGCACACGACCG
89723442 TGCGGC
1 TGCGGC
89723448 ATCAATAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.39, G:0.39, T:0.11
Consensus pattern (20 bp):
TGCGGCCTGGCACACGACCG
Found at i:89724994 original size:17 final size:17
Alignment explanation
Indices: 89724957--89724996 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
89724947 TAGGTAGTAG
89724957 AAGAAAAAGAAGAGAGA
1 AAGAAAAAGAAGAGAGA
*
89724974 AAGAAGAAGAAGAG-GA
1 AAGAAAAAGAAGAGAGA
89724990 TAAGAAA
1 -AAGAAA
89724997 TGAAGATGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAGAGAGA
Found at i:89726846 original size:15 final size:15
Alignment explanation
Indices: 89726826--89726856 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89726816 TGCAGTTTGA
89726826 GGGCTACCAAAAGTG
1 GGGCTACCAAAAGTG
*
89726841 GGGCTACTAAAAGTG
1 GGGCTACCAAAAGTG
89726856 G
1 G
89726857 AAAGAGAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (15 bp):
GGGCTACCAAAAGTG
Found at i:89727312 original size:5 final size:5
Alignment explanation
Indices: 89727302--89727342 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
89727292 TCAAATGTAG
89727302 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT A
89727343 ATTTTGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:89731105 original size:27 final size:27
Alignment explanation
Indices: 89731075--89731218 Score: 94
Period size: 27 Copynumber: 5.3 Consensus size: 27
89731065 AGTCCATCGA
* *
89731075 GACATTAAACATGGGGTAGTTCGCTAG
1 GACAATAAACACGGGGTAGTTCGCTAG
* * * *
89731102 GACAACAAACACAGGGTAGTCCG-TCAA
1 GACAATAAACACGGGGTAGTTCGCT-AG
* *
89731129 GACAATAAACACGAGGTAGTTCACTAG
1 GACAATAAACACGGGGTAGTTCGCTAG
* * * *
89731156 GACAATAGATATGGGGTAG-TCTGCTGG
1 GACAATAAACACGGGGTAGTTC-GCTAG
* * * * *
89731183 GACAGTAAAAACGTGGTAGTTCACTAA
1 GACAATAAACACGGGGTAGTTCGCTAG
*
89731210 GATAATAAA
1 GACAATAAA
89731219 AATGGTGTAT
Statistics
Matches: 85, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
26 3 0.04
27 79 0.93
28 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (27 bp):
GACAATAAACACGGGGTAGTTCGCTAG
Found at i:89731324 original size:27 final size:27
Alignment explanation
Indices: 89731264--89731335 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
89731254 AATTCGTTGA
* * *
89731264 GACAGTAAAAATATGGTAGTCTATCGG
1 GACAGTAAAAATAAGGTAGTCCACCGG
*
89731291 GCCAGTAAAAATAAGGTAGTCCACCGG
1 GACAGTAAAAATAAGGTAGTCCACCGG
* * *
89731318 GATAGTAAACACAAGGTA
1 GACAGTAAAAATAAGGTA
89731336 ATCTGTTGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (27 bp):
GACAGTAAAAATAAGGTAGTCCACCGG
Found at i:89731413 original size:27 final size:27
Alignment explanation
Indices: 89731352--89731406 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
89731342 TGGAACAGTT
*
89731352 ACACGGGGTAGTCCATCGAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
*
89731379 ACACGGGGTAGTCTATCAAGACAGTAA
1 ACACGGGGTAGTCCATCAAGACAGTAA
89731406 A
1 A
89731407 ATTGGGGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.16
Consensus pattern (27 bp):
ACACGGGGTAGTCCATCAAGACAGTAA
Found at i:89738991 original size:19 final size:18
Alignment explanation
Indices: 89738933--89739047 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
89738923 TTTCTAGTTC
* *
89738933 TTTTATATATTTTTATAA
1 TTTTATATATTTATATAT
* * *
89738951 ATTTATAAATCTATCA-AT
1 TTTTATATATTTAT-ATAT
*
89738969 TTTTATTTATTATATATAT
1 TTTTATATATT-TATATAT
*
89738988 TTTTATATATTTATAAAT
1 TTTTATATATTTATATAT
* * * *
89739006 CTTCA-ATATTTGTAAAT
1 TTTTATATATTTATATAT
* *
89739023 GTATATATATTT-TATAT
1 TTTTATATATTTATATAT
89739040 TTTTATAT
1 TTTTATAT
89739048 TTTTCAAAAC
Statistics
Matches: 73, Mismatches: 20, Indels: 9
0.72 0.20 0.09
Matches are distributed among these distances:
17 23 0.32
18 34 0.47
19 16 0.22
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTATATATTTATATAT
Found at i:89739000 original size:45 final size:45
Alignment explanation
Indices: 89738936--89739046 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
89738926 CTAGTTCTTT
* * **
89738936 TATATATTTTTATAAATTTATAAATCTATCAATTTTTATTTAT-TA
1 TATATATTTTTATATATTTATAAATCT-TCAATATTTATAAATGTA
*
89738981 TATATATTTTTATATATTTATAAATCTTCAATATTTGTAAATGTA
1 TATATATTTTTATATATTTATAAATCTTCAATATTTATAAATGTA
*
89739026 TATATA-TTTTATATTTTTATA
1 TATATATTTTTATATATTTATA
89739047 TTTTTCAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 25 0.42
45 34 0.58
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (45 bp):
TATATATTTTTATATATTTATAAATCTTCAATATTTATAAATGTA
Found at i:89747344 original size:10 final size:10
Alignment explanation
Indices: 89747331--89747371 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
89747321 TTTATAATTC
89747331 TTTTCTTA-T
1 TTTTCTTATT
89747340 TTTT-TTATT
1 TTTTCTTATT
*
89747349 TTTCCTTATT
1 TTTTCTTATT
*
89747359 TTCTCTTATT
1 TTTTCTTATT
89747369 TTT
1 TTT
89747372 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 3 0.12
9 8 0.31
10 15 0.58
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCTTATT
Found at i:89762522 original size:31 final size:31
Alignment explanation
Indices: 89762479--89762562 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
89762469 TTAGTCTTGA
89762479 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
89762509 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
89762540 CATTTCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
89762563 ACTGTAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:89762633 original size:42 final size:42
Alignment explanation
Indices: 89762586--89762677 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
89762576 TGGCCCATAG
* ** *
89762586 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
89762628 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
89762670 GCCCATTT
1 GCCCATTT
89762678 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:89762840 original size:25 final size:26
Alignment explanation
Indices: 89762810--89762919 Score: 163
Period size: 26 Copynumber: 4.3 Consensus size: 26
89762800 CTGGAGGCCT
* *
89762810 AGCCTTTTTTAAT-AACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
89762834 AGCCCTTTTCAGTAAACTGTGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
89762859 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
89762885 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
89762911 AGCCCTTTT
1 AGCCCTTTT
89762920 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 10 0.13
25 32 0.41
26 36 0.46
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:89762901 original size:51 final size:50
Alignment explanation
Indices: 89762810--89762919 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 50
89762800 CTGGAGGCCT
* * * *
89762810 AGCCTTTTTTAATAACTGGGGCAAAGCCCTTTTCAGTAAACTGTGGCA-A
1 AGCCCTTTTCAATAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
89762859 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAAT-AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATA
89762911 AGCCCTTTT
1 AGCCCTTTT
89762920 GCACTTCCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
49 11 0.20
50 10 0.19
51 23 0.43
52 10 0.19
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
AGCCCTTTTCAATAACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATA
Found at i:89762994 original size:20 final size:20
Alignment explanation
Indices: 89762969--89763055 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
89762959 TTAGGAATAC
89762969 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
89762989 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
89763009 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
89763029 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
89763049 ATCATGT
1 ATCATGT
89763056 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:89763919 original size:27 final size:27
Alignment explanation
Indices: 89763889--89763990 Score: 79
Period size: 27 Copynumber: 3.8 Consensus size: 27
89763879 CAAATCAAGA
**
89763889 GTATTTCTGTAATTTTGTAAATT-AGGG
1 GTATTTCTGTAATTTTACAAATTGA-GG
89763916 GTATTT-TGGTAATTTTACAAATTGAGG
1 GTATTTCT-GTAATTTTACAAATTGAGG
* **
89763943 GTATTTC-GATAATTTCACAAA-CCAGTG
1 GTATTTCTG-TAATTTTACAAATTGAG-G
89763970 GTATTT-TGGTAATTTTACAAA
1 GTATTTCT-GTAATTTTACAAA
89763991 CTAGGGGTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
26 4 0.06
27 56 0.90
28 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (27 bp):
GTATTTCTGTAATTTTACAAATTGAGG
Found at i:89763935 original size:54 final size:54
Alignment explanation
Indices: 89763865--89763990 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 54
89763855 TACAAAGGTG
* * *** **
89763865 TTTTGGTAAATCTACAAATCAAGAGTATTTCTG-TAATTTTGTAAATTAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGAGTATTTC-GATAATTTCACAAACCAGGGGTA
** * *
89763919 TTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGAGTATTTCGATAATTTCACAAACCAGGGGTA
89763973 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
89763991 CTAGGGGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGAGTATTTCGATAATTTCACAAACCAGGGGTA
Found at i:89764116 original size:54 final size:54
Alignment explanation
Indices: 89764042--89764294 Score: 167
Period size: 54 Copynumber: 4.6 Consensus size: 54
89764032 GTAATTTCAC
* * *
89764042 AATCGAGGGTAAAATGGTAATTTTGTAAATCAGGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAGGGGTAAAATAGTAATTTTATA
* *** *
89764096 AATCGAGGGTAAAATAGTAATTCTATAAATC-GAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTATAAATCAG-GGGTAAAATAGTAATTTTATA
** * *** *
89764149 CAAGTCGAGGGT-ATTTCAGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACA
1 -AA-TCGAGGGTAAAAT-AGTAATTTTATAAATCA-GGGGTAAAATAGTAATTTTATA
* *** * * *
89764206 AA-CCAGGGGTATTTTAGTAA-TTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
1 AATCGA-GGGTAAAATAGTAATTTTATAAATCAG-GGGTAAAATAGTAATTTTATA
* * *
89764259 GATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
1 AATCGAGGGTAAAATAGTAATTTTATAAATC-AGGG
89764295 TAGAACGATA
Statistics
Matches: 153, Mismatches: 32, Indels: 27
0.72 0.15 0.13
Matches are distributed among these distances:
52 1 0.01
53 29 0.19
54 66 0.43
55 33 0.22
56 22 0.14
57 2 0.01
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.34
Consensus pattern (54 bp):
AATCGAGGGTAAAATAGTAATTTTATAAATCAGGGGTAAAATAGTAATTTTATA
Found at i:89764160 original size:28 final size:26
Alignment explanation
Indices: 89763914--89764242 Score: 152
Period size: 27 Copynumber: 12.2 Consensus size: 26
89763904 TGTAAATTAG
* *
89763914 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTA-TTTAGTAATTTTACAAATCGA
* * *
89763941 GGGTATTTCGATAATTTCACAAA-CCA
1 GGGTATTTAG-TAATTTTACAAATCGA
* *
89763967 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTA-TTTAGTAATTTTACAAATCGA
* * ** *
89763994 GGGGTGTTTTAGTAATTCTATCCTATAG-
1 -GGGT-ATTTAGTAATTTTA-CAAATCGA
*
89764022 GGGTATTTCAGTAATTTCAC-AATCGA
1 GGGTATTT-AGTAATTTTACAAATCGA
** * **
89764048 GGGTAAAATGGTAATTTTGTAAATC-A
1 GGGT-ATTTAGTAATTTTACAAATCGA
** **
89764074 GGGGTAAAATAGTAATTTTGTAAATCGA
1 -GGGT-ATTTAGTAATTTTACAAATCGA
** * *
89764102 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGT-ATTTAGTAATTTTACAAATCGA
* *
89764129 GGGTACTTTGGTAATTTTTACAAGTCGA
1 GGGTA-TTTAGTAA-TTTTACAAATCGA
*
89764157 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTT-AGTAATTTTACAAATC-GA
*
89764185 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTA-TTTAGTAATTTTACAAATCGA
89764211 GGGGTATTTTAGTAATTTGT--AAATCGA
1 -GGGTA-TTTAGTAATTT-TACAAATCGA
89764238 GGGTA
1 GGGTA
89764243 AAATGGTAAT
Statistics
Matches: 241, Mismatches: 40, Indels: 43
0.74 0.12 0.13
Matches are distributed among these distances:
25 3 0.01
26 31 0.13
27 156 0.65
28 48 0.20
29 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
GGGTATTTAGTAATTTTACAAATCGA
Found at i:89764181 original size:55 final size:53
Alignment explanation
Indices: 89764111--89764242 Score: 133
Period size: 55 Copynumber: 2.4 Consensus size: 53
89764101 AGGGTAAAAT
* * **
89764111 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTTC
1 AGTAATTTTA-AAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTTC
* * *
89764166 AGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AGTAATTTTA-AAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTC
89764221 AGTAATTTGT-AAATCGAGGGTA
1 AGTAATTT-TAAAATCGAGGGTA
89764243 AAATGGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
53 6 0.09
54 5 0.08
55 39 0.60
56 15 0.23
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (53 bp):
AGTAATTTTAAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTTC
Found at i:89764219 original size:190 final size:189
Alignment explanation
Indices: 89763969--89764335 Score: 465
Period size: 190 Copynumber: 1.9 Consensus size: 189
89763959 ACAAACCAGT
** * ** *
89763969 GGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTAGTAATTCTATCCTATAGGGGTATTTCAGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
* * * *
89764034 AATTT-CACAATCGAGGGTAAAATGGTAATTTTGTAAATC-AGGGGTAAAATAGTAATTTTGTAA
66 AATTTGCA-AATCGAGGGTAAAATGGTAATTCTATAAATCGA-GGGTAAAATAGTAATTCTATAA
*
89764097 ATCGAGGGTAAAATAG-TAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
129 ATCGAGGGTAAAA-AGATAATTCTATAAACCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
* *
89764158 GGTATTTCAGTAATTTTACAAA-TCAGGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTT
1 GGTATTTCAGTAATTTTACAAACT-A-GGGGTATTTTAGTAATTCTATCAAA-CAGGGGTATTTC
* * *
89764221 AGTAATTTGTAAATCGAGGGTAAAATGGTAATTCTATAGATCGAGGGTAAAATGGTAATTCTATA
63 AGTAATTTGCAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATA
* * * *
89764286 AATCGAGGGTAGAACGATAATTCTGTAAACCGGGGGTACTTTGGTAATTT
128 AATCGAGGGTAAAAAGATAATTCTATAAACCGAGGGTACTTTGGTAATTT
89764336 GGTAAACTAA
Statistics
Matches: 152, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
188 1 0.01
189 24 0.16
190 125 0.82
191 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (189 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTATCAAACAGGGGTATTTCAGT
AATTTGCAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAAT
CGAGGGTAAAAAGATAATTCTATAAACCGAGGGTACTTTGGTAATTTTTACAAGTCGAG
Found at i:89764263 original size:27 final size:27
Alignment explanation
Indices: 89764222--89764323 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
89764212 GGGTATTTTA
*
89764222 GTAATT-TGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
89764248 GTAATTCTATAGATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
89764275 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
89764302 ATAATTCTGTAAACCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
89764324 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 6 0.09
27 60 0.91
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:89764331 original size:54 final size:53
Alignment explanation
Indices: 89764196--89764335 Score: 127
Period size: 54 Copynumber: 2.6 Consensus size: 53
89764186 GGTATTTTAG
* * * * * * * *
89764196 TAATTTTACAAACCAGGGGTATTTTAGTAATTTGTAAATCGAGGGTAAAATGG
1 TAATTCTATAAACCGGGGGTAATTTGGTAATTTATAAATCGAGGGTAAAACGA
* * * ** *
89764249 TAATTCTATAGATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAACGA
1 TAATTCTATAAACCGGGGGTAATTTGGTAATT-TATAAATCGAGGGTAAAACGA
* *
89764303 TAATTCTGTAAACCGGGGGTACTTTGGTAATTT
1 TAATTCTATAAACCGGGGGTAATTTGGTAATTT
89764336 GGTAAACTAA
Statistics
Matches: 65, Mismatches: 21, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
53 23 0.35
54 42 0.65
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (53 bp):
TAATTCTATAAACCGGGGGTAATTTGGTAATTTATAAATCGAGGGTAAAACGA
Found at i:89768721 original size:3 final size:3
Alignment explanation
Indices: 89768715--89768747 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
89768705 AAATAGGTAT
89768715 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89768748 AAATAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:89769621 original size:18 final size:17
Alignment explanation
Indices: 89769553--89769628 Score: 75
Period size: 18 Copynumber: 4.4 Consensus size: 17
89769543 AGAAAGTGGA
*
89769553 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
89769570 -AA-TGATAATTGAATTG
1 AAAGTGA-AATTGAATTG
* **
89769586 AATTGTGATTTTGAATTG
1 AA-AGTGAAATTGAATTG
89769604 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
89769622 AAAGTGA
1 AAAGTGA
89769629 TTTGAAATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.23
17 9 0.19
18 21 0.45
19 3 0.06
ACGTcount: A:0.41, C:0.01, G:0.22, T:0.36
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:89769633 original size:34 final size:32
Alignment explanation
Indices: 89769553--89769634 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 32
89769543 AGAAAGTGGA
89769553 AAAGTGAATTTGAATTGAATGATAATTGAATTG
1 AAAGTG-ATTTGAATTGAATGATAATTGAATTG
*
89769586 AATTGTGATTTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGA-TTTGAATTG-AA-TGATAATTGA-ATTG
89769622 AAAGTGATTTGAA
1 AAAGTGATTTGAA
89769635 ATGTGAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
33 3 0.07
34 18 0.43
35 12 0.29
36 9 0.21
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (32 bp):
AAAGTGATTTGAATTGAATGATAATTGAATTG
Found at i:89769641 original size:18 final size:17
Alignment explanation
Indices: 89769553--89769641 Score: 53
Period size: 18 Copynumber: 5.1 Consensus size: 17
89769543 AGAAAGTGGA
89769553 AAAGTGAATTTG-AATTG
1 AAAGTG-ATTTGAAATTG
89769570 -AA-TGATAATTG-AATTG
1 AAAGTGAT--TTGAAATTG
*
89769586 AATTGTGATTTTG-AATTG
1 AA-AGTGA-TTTGAAATTG
* *
89769604 AAAGTGAAATTGACATTG
1 AAAGTG-ATTTGAAATTG
89769622 AAAGTGATTTGAAATGTG
1 AAAGTGATTTGAAAT-TG
89769640 AA
1 AA
89769642 TTTGGAGACC
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 10 0.18
17 14 0.25
18 25 0.44
19 3 0.05
20 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.36
Consensus pattern (17 bp):
AAAGTGATTTGAAATTG
Found at i:89774077 original size:43 final size:43
Alignment explanation
Indices: 89774029--89774173 Score: 156
Period size: 43 Copynumber: 3.4 Consensus size: 43
89774019 TATCCTAGAT
* *
89774029 ATGGTCTTACATGTTATCTA-ATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATC-ACATATCGATGCCAATGTCCCAAAC
** *
89774072 ATGGTCTTACACAAAATCATATAAT-GATGCCAA--TCCCAAAC
1 ATGGTCTTACACGTAATCACAT-ATCGATGCCAATGTCCCAAAC
* *
89774113 ATGGTCTTACACGTAATCACAGTA-CAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCACA-TATCGATGCCAATGTCCCAAAC
*
89774156 ATGGTCTTACATGTAATC
1 ATGGTCTTACACGTAATC
89774174 TTATCTCGGT
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
41 34 0.40
42 2 0.02
43 48 0.56
44 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:89781299 original size:40 final size:40
Alignment explanation
Indices: 89781076--89781298 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
89781066 CGGATGATAA
* * *
89781076 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
89781116 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
89781156 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
89781196 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
89781236 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
89781276 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
89781299 GAGCGAATAG
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 167 0.99
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:89786558 original size:27 final size:26
Alignment explanation
Indices: 89786491--89786586 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
89786481 TGGGGGAAGC
* *
89786491 GTTCTGGTGGCTATGCCACAAATATAT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
89786518 GTTCTGGTGGCTCTGCCAAAATATCT
1 GTTCTGGTGGCTCTGCCAAAATATCT
* * * *
89786544 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCAAAATATCT
**
89786571 GTTCTGGCAGCTCTGC
1 GTTCTGGTGGCTCTGC
89786587 TGCAAATTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 19 0.33
27 39 0.67
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCAAAATATCT
Found at i:89788945 original size:18 final size:17
Alignment explanation
Indices: 89788922--89788955 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
89788912 ATTTACCTGT
89788922 TATTATTATTCGTTTATC
1 TATTATTATT-GTTTATC
89788940 TATTATTATTGTTTAT
1 TATTATTATTGTTTAT
89788956 ATTACAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTATTATTGTTTATC
Found at i:89788958 original size:15 final size:17
Alignment explanation
Indices: 89788922--89788959 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
89788912 ATTTACCTGT
89788922 TATTATTATTCGTTTATC
1 TATTATTATTCGTTTA-C
89788940 TATTATTATT-GTTTA-
1 TATTATTATTCGTTTAC
89788955 TATTA
1 TATTA
89788960 CAGGCTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (17 bp):
TATTATTATTCGTTTAC
Found at i:89790957 original size:9 final size:9
Alignment explanation
Indices: 89790945--89790970 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
89790935 TTTGTGAGAT
89790945 TTTTGAGCC
1 TTTTGAGCC
89790954 TTTTGAGCC
1 TTTTGAGCC
89790963 TTTTGAGC
1 TTTTGAGC
89790971 ATCATTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (9 bp):
TTTTGAGCC
Found at i:89792925 original size:34 final size:34
Alignment explanation
Indices: 89792882--89792952 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
89792872 GATTCGGAGC
89792882 TAGAATAACAAGTAAAGTCTAGTGGATTTTTCCT
1 TAGAATAACAAGTAAAGTCTAGTGGATTTTTCCT
89792916 TAGAATAACAAGTAAAGTCTAGTGGATTTTTCCT
1 TAGAATAACAAGTAAAGTCTAGTGGATTTTTCCT
89792950 TAG
1 TAG
89792953 GTATTGTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (34 bp):
TAGAATAACAAGTAAAGTCTAGTGGATTTTTCCT
Found at i:89796947 original size:40 final size:40
Alignment explanation
Indices: 89796829--89797113 Score: 371
Period size: 40 Copynumber: 7.2 Consensus size: 40
89796819 ATTTGAATGA
* *
89796829 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-TT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89796868 TATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
89796907 TATCCGGGTTAAGACCTGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89796947 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
89796987 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * *
89797027 TATCCGGGCTAAGACCCGAAGACATTTGTGCGAGTTG-CTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
89797067 TACCCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89797107 TATCCGG
1 TATCCGG
89797114 CTAAATTCCG
Statistics
Matches: 223, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.05
39 49 0.22
40 159 0.71
41 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:89805365 original size:40 final size:40
Alignment explanation
Indices: 89805307--89805593 Score: 416
Period size: 40 Copynumber: 7.2 Consensus size: 40
89805297 ATTTGAATGA
* *
89805307 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89805347 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89805387 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89805427 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
89805467 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
89805507 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * *
89805547 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
89805587 TATCCGG
1 TATCCGG
89805594 CTAAATTCCG
Statistics
Matches: 232, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 227 0.98
41 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:89829056 original size:23 final size:23
Alignment explanation
Indices: 89829029--89829076 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
89829019 ATTATCAAAG
* *
89829029 ATGC-ATTTTCATGCCATATATAA
1 ATGCAATTATCATG-CATACATAA
89829052 ATGCAATTATCATGCATACATAA
1 ATGCAATTATCATGCATACATAA
89829075 AT
1 AT
89829077 CATGCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATGCAATTATCATGCATACATAA
Found at i:89831540 original size:20 final size:20
Alignment explanation
Indices: 89831515--89831561 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
89831505 GTTCGCTTCT
89831515 CCCACGCCCCTGTATGTAGG
1 CCCACGCCCCTGTATGTAGG
89831535 CCCACGCCCCTGTATGTAGG
1 CCCACGCCCCTGTATGTAGG
89831555 CCCACGC
1 CCCACGC
89831562 TCGTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.45, G:0.23, T:0.17
Consensus pattern (20 bp):
CCCACGCCCCTGTATGTAGG
Found at i:89836801 original size:18 final size:18
Alignment explanation
Indices: 89836778--89836812 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89836768 GTTAAAATTT
89836778 CTTAACCAAATTTTAATA
1 CTTAACCAAATTTTAATA
89836796 CTTAACCAAATTTTAAT
1 CTTAACCAAATTTTAAT
89836813 CGACCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
CTTAACCAAATTTTAATA
Found at i:89841503 original size:17 final size:17
Alignment explanation
Indices: 89841467--89841503 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
89841457 TCTATAATTA
**
89841467 TTTATTTTATTTTTGGT
1 TTTATTTTATTTTTAAT
89841484 TTTATTTTATTTTTAAT
1 TTTATTTTATTTTTAAT
89841501 TTT
1 TTT
89841504 TGGTCTGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTTAAT
Found at i:89863374 original size:2 final size:2
Alignment explanation
Indices: 89863367--89863406 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
89863357 TTGTAAACAG
*
89863367 GT GT GT GT GT GT TT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
89863407 AAAATTGCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
GT
Found at i:89865052 original size:44 final size:44
Alignment explanation
Indices: 89865003--89865087 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
89864993 CATGCATCGC
*
89865003 ATCCATAATGAACTCAGACCAACTCAACGAGCTTGGATGCTCAT
1 ATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCTCAT
**
89865047 ATCCATAATGAACTTGGACCAACTCAACGAGCTCGGATGCT
1 ATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCT
89865088 TCACATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (44 bp):
ATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCTCAT
Found at i:89865178 original size:45 final size:44
Alignment explanation
Indices: 89865012--89865174 Score: 157
Period size: 45 Copynumber: 3.7 Consensus size: 44
89865002 CATCCATAAT
* ** * *
89865012 GAACTCAGACCAACTCAACGAGCTTGGATGCTCATATCCATAAT
1 GAACTCAGACCAACTCAACGAGCTTGGATGCTCACATATATCAC
** *
89865056 GAACTTGGACCAACTCAACGAGCTCGGATGCTTCACATATATCAC
1 GAACTCAGACCAACTCAACGAGCTTGGATGC-TCACATATATCAC
** * * *
89865101 GAACTTGGACCAACTCAACAAG-TTCGAATTTCTCACATATATCAC
1 GAACTCAGACCAACTCAACGAGCTT-GGA-TGCTCACATATATCAC
* *
89865146 GAACTCAGACCAACTTAACGAGGTTGGAT
1 GAACTCAGACCAACTCAACGAGCTTGGAT
89865175 TTCTAAATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
44 30 0.31
45 64 0.65
46 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (44 bp):
GAACTCAGACCAACTCAACGAGCTTGGATGCTCACATATATCAC
Found at i:89871528 original size:506 final size:506
Alignment explanation
Indices: 89870572--89872093 Score: 2594
Period size: 506 Copynumber: 3.0 Consensus size: 506
89870562 TAAATGTTTT
*
89870572 TGGTTGTATAGTAATGCTTTGTAACCCTATTTTGACGACGGACACGGGTTAGGGGTGTTACATTT
1 TGGTTGTATAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
* *
89870637 AGTGGTATTGAAGTTACGATTTAGTCGATTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
66 AGTGGTATTAAAGTTACGATTTAGTCGGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
89870702 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
131 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
89870767 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
196 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
* * *
89870832 TCACGGAGTAGGTTTTAATAGTAGTGGGCTCGTAGCTAAGGGCGACAGAGGTCAGGCTAAAGAAG
261 TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGACAGAGGTCAGGCTAAAGAAG
* * *
89870897 CGTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTTGTAAGAATGAACCCGTTGGCTCAACGA
326 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATGAACCCGTTGGCTCAACGA
* *
89870962 CCTCCACTCCTACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGATCCAATATGTAC
391 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
*
89871027 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCA
456 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
* * *
89871078 TGGTTGTACAGTAGTGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGAGGTGTTACATTT
1 TGGTTGTATAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
*
89871143 AGTGGTATTAAAGTTACTATTTAGTCGGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
66 AGTGGTATTAAAGTTACGATTTAGTCGGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
* * * *
89871208 TACATGTCGCTATATAAACTATGATAGTGTGATAATTCCTGACGCAAATTGAACTATATTTTCAT
131 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
* * * * *
89871273 ATAGATATGATGTCATACAACCAAGGTGATTTCGATGAAGTTGGAAGTAACGCACAAGCCTCCGC
196 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
* * *
89871338 TCATGGAGCAAGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGACAGAGGTTAGGCTAAAGAAG
261 TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGACAGAGGTCAGGCTAAAGAAG
*
89871403 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATGAACCCGTTGGCTCAATGA
326 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATGAACCCGTTGGCTCAACGA
* *
89871468 GCTCCACTCCCACCCGTACCCCAACCTATTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
391 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
89871533 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
456 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
* * * **
89871584 TGGTTGTATAGTAATGCTTTATAACCCTAATTTAACGACAGACACAAGTTAGGGGTGTTACATTT
1 TGGTTGTATAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
* * * *
89871649 AGTGGTATTAAAGTTACGGTTTTGTCTGTTCTTGGACTAAACGTAGCATGTATGGAGTCTAGAAA
66 AGTGGTATTAAAGTTACGATTTAGTCGGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
* *
89871714 TACATGTCGTTATATAGCCTGTGATAGTGTGATAATTCCTAACACAAATTGAACTATATTTTCAT
131 TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
89871779 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
196 ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
* * **
89871844 TTACGGAGCAGGTTTTAATAGTAATGGGCCCGTAGCTGAGGGCGGTAGAGGTCAGGCTAAAGAAG
261 TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGACAGAGGTCAGGCTAAAGAAG
* * *
89871909 CTTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAACGAACCTGTTGGCTCAACGA
326 CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATGAACCCGTTGGCTCAACGA
89871974 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
391 CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
*
89872039 AAGTAATTCTTCAATTGATAAAATCTGAAAATATGGGGCTGAAGAGTTCCG
456 AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
89872090 TGGT
1 TGGT
89872094 ACGGCCGATG
Statistics
Matches: 947, Mismatches: 69, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
506 947 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (506 bp):
TGGTTGTATAGTAATGCTTTGTAACCCTAATTTGACGACGGACACGGGTTAGGGGTGTTACATTT
AGTGGTATTAAAGTTACGATTTAGTCGGTTCTTGGACTAAACATAGCATGTATGGAGTCTAGAAA
TACATGTCGTTATATAACCTGTGATAGTGTGATAATTCCTGACACAAATTGAACTATATTTTCAT
ATAGATATGATGTCATCCAACCGAGGTGATTCCGATGAAGTTGGAAGTAACGCGCAAGCCTCCGT
TCACGGAGCAGGTTTTAATAGTAGTGGGCCCGTAGCTGAGGGCGACAGAGGTCAGGCTAAAGAAG
CCTTCTCCTAGATGATGTCTAAATTGTTTACATAGTTCGTGAGAATGAACCCGTTGGCTCAACGA
CCTCCACTCCCACCCGTACCCCAACCTGTTCCTATTATTCCTTAGGGTTTGGAACCAATATGTAC
AAGTAATTCTTCAATTGATAAAATCTAAAAATATGGGGCTGAAGAGTTCCG
Found at i:89887163 original size:26 final size:26
Alignment explanation
Indices: 89887132--89887195 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
89887122 ATTCCGACTT
89887132 ACAGCTCATGTGAGCAGGTCCATTTC
1 ACAGCTCATGTGAGCAGGTCCATTTC
89887158 ACAGCTCATGTGAGCAGGTCCATTTC
1 ACAGCTCATGTGAGCAGGTCCATTTC
* *
89887184 ATAGCTTATGTG
1 ACAGCTCATGTG
89887196 TGCAATGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (26 bp):
ACAGCTCATGTGAGCAGGTCCATTTC
Found at i:89892780 original size:3 final size:3
Alignment explanation
Indices: 89892774--89892801 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
89892764 TTTCAACTTC
89892774 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
89892802 TCTTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:89905108 original size:15 final size:15
Alignment explanation
Indices: 89905088--89905117 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89905078 GTGAAGAGAA
89905088 ATATGTGAAATAATG
1 ATATGTGAAATAATG
89905103 ATATGTGAAATAATG
1 ATATGTGAAATAATG
89905118 TACAGATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
ATATGTGAAATAATG
Found at i:89905852 original size:26 final size:26
Alignment explanation
Indices: 89905823--89905926 Score: 163
Period size: 26 Copynumber: 4.0 Consensus size: 26
89905813 TGGTACAAAT
*
89905823 TGATAATGGGTTAGGTAAGTATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
89905849 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
89905875 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
89905901 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
89905927 GGATGGGCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:89907567 original size:27 final size:26
Alignment explanation
Indices: 89907525--89907665 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
89907515 AGTAAGCGTC
* *
89907525 CTGGTGGCTATGCCACAATTACCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
89907552 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
89907579 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
89907606 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
89907633 CTAGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
89907660 CTGGTG
1 CTGGTG
89907666 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.10
27 85 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:89907607 original size:54 final size:53
Alignment explanation
Indices: 89907525--89907665 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
89907515 AGTAAGCGTC
*
89907525 CTGGTGGCTATGCCACAATTACCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
*
89907579 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * *
89907633 CTAGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
89907666 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:89920708 original size:42 final size:42
Alignment explanation
Indices: 89920660--89920769 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
89920650 CACGGCAGAG
* *
89920660 ACACGGGCTTGTGTCTCATCCATGTGTACTACACGGCCTAGA
1 ACACGGGCATGTGTCTCAGCCATGTGTACTACACGGCCTAGA
* * * *
89920702 ACACGGGCGTGTGTCTTAGCCGTGTGTGCTACACGGCCTAGA
1 ACACGGGCATGTGTCTCAGCCATGTGTACTACACGGCCTAGA
* *
89920744 ACACGGGCATGTGTCTTAGCCGTGTG
1 ACACGGGCATGTGTCTCAGCCATGTG
89920770 AAGCTTGCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.25
Consensus pattern (42 bp):
ACACGGGCATGTGTCTCAGCCATGTGTACTACACGGCCTAGA
Found at i:89931460 original size:39 final size:41
Alignment explanation
Indices: 89931281--89931460 Score: 124
Period size: 40 Copynumber: 4.5 Consensus size: 41
89931271 CTCGTTCAAG
* * * * *
89931281 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TAC-AA
1 TGCCTTCGGGACTTAGCCCGGATATTGTAACTTAGCACAAA
* * * ** * *
89931320 TGCCTTCGGGACTTAACCTGGATTTTAAAAC-TCGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATTGTAACTTAGCACAAA
* * *
89931360 TGCCTTCGGGACTTAACCCGGA-ATTAGTATC-TCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATT-GTAACTTAGCACAAA
* * *
89931400 TGCCATC-GGATCTTAGTCCGGATATTGTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAGCCCGGATATTGTAACTTAGCACAAA
89931440 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
89931461 CATCATTCAA
Statistics
Matches: 109, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
39 45 0.41
40 56 0.51
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TGCCTTCGGGACTTAGCCCGGATATTGTAACTTAGCACAAA
Found at i:89939236 original size:39 final size:40
Alignment explanation
Indices: 89939193--89939293 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
89939183 CTCGTTCAAG
* * * *
89939193 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
89939232 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
89939272 TGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGA
89939294 ATTAGTATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
39 26 0.48
40 28 0.52
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:89939282 original size:40 final size:40
Alignment explanation
Indices: 89939230--89939320 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
89939220 TAACTCATAC
* *
89939230 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCGCACA
* *
89939270 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
89939310 AATGCCTTCGG
1 AATGCCTTCGG
89939321 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.07
40 43 0.93
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
Found at i:89945955 original size:18 final size:18
Alignment explanation
Indices: 89945928--89945962 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89945918 GATAAATCCT
89945928 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
89945946 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
89945963 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:89947633 original size:16 final size:17
Alignment explanation
Indices: 89947602--89947635 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
89947592 GTATCCTCTC
89947602 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
89947619 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
89947635 T
1 T
89947636 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:89949501 original size:47 final size:48
Alignment explanation
Indices: 89949431--89949698 Score: 270
Period size: 47 Copynumber: 5.7 Consensus size: 48
89949421 TAAGATGTCA
* * *
89949431 ATGCCATGTCCCAGACATAGTCTTATACTGGCTCAT-ATCTC-AAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCG
* *
89949478 ATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCATCTCGAAGCCG
* * * * *
89949526 ATG-CATGTCCCAGACATGTTTTACACTAGCTTAT-GTCTCGAGGCCA
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCG
*
89949572 ATG-CATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTC-AATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA-GCCG
* * * **
89949618 ATGCCATGTCCCAGACATAGTCTTACATTGGCTC-TCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCGAAGCCG
89949666 ATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCA
89949699 CAAACAAATG
Statistics
Matches: 187, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 76 0.41
47 78 0.42
48 30 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAAGCCG
Found at i:89949690 original size:140 final size:141
Alignment explanation
Indices: 89949429--89949696 Score: 373
Period size: 140 Copynumber: 1.9 Consensus size: 141
89949419 GGTAAGATGT
* * *
89949429 CAATGCCATGTCCCAGACATAGTCTTATACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
1 CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
* * *
89949494 ATGGTCTTACACTAACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTTTTACACTAGCTTA
66 ATAGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
89949559 TGTCTCGAGGC
131 TGTCTCGAGGC
*
89949570 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAG
1 CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAG
* ** * *
89949632 ACATAGTCTTACATTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
64 ACATAGTCTTACACTAACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGC
89949696 T
128 T
89949697 CACAAACAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 86 0.77
141 6 0.05
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (141 bp):
CAATGCCATGTCCCAGACATAGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
ATAGTCTTACACTAACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTA
TGTCTCGAGGC
Found at i:89956580 original size:46 final size:46
Alignment explanation
Indices: 89956502--89956725 Score: 249
Period size: 46 Copynumber: 4.8 Consensus size: 46
89956492 TGGGTAAGGT
* * *
89956502 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCATA
* * *
89956550 GCCGATGCATGTCCCAGGCATGTCTTACACTAGCT-TACGTCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC-ATA
*
89956596 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATA
* * * *
89956643 -CCGATGCCATGTCCCAGACATAGTCTTACACCAGCTCTTATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCATA
89956690 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
89956726 ACAAACAAAT
Statistics
Matches: 154, Mismatches: 14, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
45 1 0.01
46 79 0.51
47 44 0.29
48 29 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATA
Found at i:89956696 original size:94 final size:92
Alignment explanation
Indices: 89956502--89956725 Score: 274
Period size: 94 Copynumber: 2.4 Consensus size: 92
89956492 TGGGTAAGGT
* * *
89956502 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGTAGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCATAGCCGATGCATGTCCCAG
* * * *
89956567 GCATGTCTTACACTAGCTTACGTCTCGAG
64 ACATGTCTTACACCAGCTTACGTATAGAG
*
89956596 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATA-CCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTC-ATAGCCGATG-CATGTCCCAG
* *
89956660 ACATAGTCTTACACCAGC-T-CTTATAATATG
64 ACAT-GTCTTACACCAGCTTACGTAT-AGA-G
89956690 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
89956726 ACAAACAAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
92 28 0.24
93 31 0.27
94 56 0.49
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACCAGCTTACGTATAGAG
Found at i:89956883 original size:27 final size:27
Alignment explanation
Indices: 89956851--89956910 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
89956841 TTCATGCTAT
89956851 ATTAACTCAATACAATTCAATACATAC
1 ATTAACTCAATACAATTCAATACATAC
89956878 ATTAACTCAATACAATTCAATACATAC
1 ATTAACTCAATACAATTCAATACATAC
89956905 ATTAAC
1 ATTAAC
89956911 AATGTAGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (27 bp):
ATTAACTCAATACAATTCAATACATAC
Found at i:89970157 original size:41 final size:41
Alignment explanation
Indices: 89970048--89970180 Score: 180
Period size: 41 Copynumber: 3.2 Consensus size: 41
89970038 TCGGGCTTTA
* * * *
89970048 TGCCTAGCAAGCTTTGTGCCGGTGTATAATATCAGGCCTAT
1 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
89970089 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
1 TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
* *
89970130 TGCCTAGCAGGCTCTT-TGCCGGTGTATTATACTAGGCTT-T
1 TGCCTAGCAAGCT-TTATGCCGGTGTATTATATTAGGCTTAT
89970170 ATGCCTAGCAA
1 -TGCCTAGCAA
89970181 ATTTTATGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 80 0.96
42 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (41 bp):
TGCCTAGCAAGCTTTATGCCGGTGTATTATATTAGGCTTAT
Found at i:89974855 original size:27 final size:26
Alignment explanation
Indices: 89974824--89974915 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 26
89974814 TTAGTTTACC
*
89974824 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACT-AAATACCCTCGATTTGTA
* * *
89974851 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACTAAA-TACCCTCGATTTGTA
*
89974878 AAATTACCTAAATATCCTCGATTTGTA
1 AAATTA-CTAAATACCCTCGATTTGTA
89974905 AAATTACTAAA
1 AAATTACTAAA
89974916 ATAAGATAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.15
27 43 0.78
28 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAATTACTAAATACCCTCGATTTGTA
Found at i:89974951 original size:27 final size:27
Alignment explanation
Indices: 89974921--89974984 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
89974911 CTAAAATAAG
89974921 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
89974948 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTT
*
89974975 ATAAAATTAC
1 ATAGAATTAC
89974985 TGAAATACCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.39
Consensus pattern (27 bp):
ATAGAATTACCATTTTACCCTCGATTT
Found at i:89974993 original size:27 final size:27
Alignment explanation
Indices: 89974936--89975049 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
89974926 ATTACCATTT
* **
89974936 TACCCTCGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAAAATTACCCA-AA
**
89974963 TACCCTCGATTTATAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCCAAA
* * *
89974990 TACCCTTGGTTTACAAAATTACCCAAA
1 TACCCTCGATTTATAAAATTACCCAAA
** *
89975017 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCCAAA
89975044 TACCCT
1 TACCCT
89975050 TGTAAGATAG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 69 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCCAAA
Found at i:89975018 original size:100 final size:100
Alignment explanation
Indices: 89974836--89975018 Score: 224
Period size: 100 Copynumber: 1.8 Consensus size: 100
89974826 ATTACTGAAA
* *
89974836 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCTAAATATCCTCGATT
1 TACCCTCGACTTATAAAATTACCAAAGTACCCCCGATTTATAAAATTACCTAAATACCCTCGATT
** *
89974901 TGTAAAATTACTAAAATAAGATAGAATTACCATTT
66 TACAAAATTACCAAAATAAGATAGAATTACCATTT
* * *** * * *
89974936 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTA-CTGAAATACCCTTGGT
1 TACCCTCGACTTATAAAATTACCAAAGTACCCCCGATTTATAAAATTACCT-AAATACCCTCGAT
*
89975000 TTACAAAATTACCCAAATA
65 TTACAAAATTACCAAAATA
89975019 CCCTCGATCA
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
99 2 0.03
100 66 0.97
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (100 bp):
TACCCTCGACTTATAAAATTACCAAAGTACCCCCGATTTATAAAATTACCTAAATACCCTCGATT
TACAAAATTACCAAAATAAGATAGAATTACCATTT
Found at i:89975063 original size:27 final size:27
Alignment explanation
Indices: 89975033--89975255 Score: 241
Period size: 27 Copynumber: 8.3 Consensus size: 27
89975023 CGATCAATAA
* * *
89975033 AATTACCAAAATACCCTTGTAAGATAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
89975060 AATTATCAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
89975087 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
89975114 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* **
89975141 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
89975168 AATTACCGAAATATCCCTGTGGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
89975195 AATTACTAAAATACCCTTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
89975222 AATTACCAAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
89975248 AATTACCA
1 AATTACCA
89975256 TTTTTCCCCT
Statistics
Matches: 171, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
26 18 0.11
27 153 0.89
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:89975091 original size:81 final size:81
Alignment explanation
Indices: 89975006--89975185 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
89974996 TGGTTTACAA
* *
89975006 AATTACCCAAATACCCTCGATCA-ATAAAATTACCAAAATACCCTTGTAAGATAGAATTATCAAA
1 AATTACCGAAATACCCTCGAT-AGATAAAATTACCAAAATACCCCTGTAAGATAGAATTATCAAA
89975070 ATACCCCTATAGGGTAG
65 ATACCCCTATAGGGTAG
* * * * * * * **
89975087 AATTACCGAAATACCC-CTATAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTATCGCA
1 AATTACCGAAATACCCTCGATA-GATAAAATTACCAAAATACCCCTGTAAGATAGAATTATCAAA
*
89975151 ATACCCCTGTAGGGTAG
65 ATACCCCTATAGGGTAG
89975168 AATTACCGAAATATCCCT
1 AATTACCGAAATA-CCCT
89975186 GTGGGGTAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 3 0.04
81 76 0.92
82 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (81 bp):
AATTACCGAAATACCCTCGATAGATAAAATTACCAAAATACCCCTGTAAGATAGAATTATCAAAA
TACCCCTATAGGGTAG
Found at i:89975193 original size:81 final size:81
Alignment explanation
Indices: 89975033--89975236 Score: 266
Period size: 81 Copynumber: 2.5 Consensus size: 81
89975023 CGATCAATAA
* * *
89975033 AATTACCAAAATACCCTTGTAAGATAGAATTATCAAAATACCCCTATAGGGTAGAATTACCGAAA
1 AATTACTAAAATACCCTTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAATTACCGAAA
89975098 TACCCCTATAGGGTAG
66 TACCCCTATAGGGTAG
* * ** *
89975114 AATTA-TCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAA
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAATTACCGAA
* * *
89975178 ATATCCCTGTGGGGTAG
65 ATACCCCTATAGGGTAG
* * *
89975195 AATTACTAAAATACCCTTGTAGGGTGGAATTACCAAGATACC
1 AATTACTAAAATACCCTTGTAGGGTAGAATTATCAAAATACC
89975237 TTGTGGGGTA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
81 102 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTATCAAAATACCCCTATAGGGTAGAATTACCGAAA
TACCCCTATAGGGTAG
Found at i:89975733 original size:22 final size:21
Alignment explanation
Indices: 89975684--89975745 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
89975674 AAGCCTTCTA
* *
89975684 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
89975705 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
89975727 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
89975746 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:89975940 original size:26 final size:27
Alignment explanation
Indices: 89975911--89975976 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
89975901 TAAGTGGCTT
*
89975911 TGCCACATTATCTGT-TCTGGTGGA-TC
1 TGCCACAATATCTGTATCTGGT-GACTC
*
89975937 TGCCACAACATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
89975964 TGTCACAATATCT
1 TGCCACAATATCT
89975977 AATAACTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.44
27 19 0.56
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Done.