Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
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: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 21
Found at i:3768926 original size:117 final size:118
Alignment explanation
Indices: 3768777--3768990 Score: 335
Period size: 117 Copynumber: 1.8 Consensus size: 118
3768767 TCTTTATGTG
*
3768777 ATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTACCTC-TT-CAAATG
1 ATGGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTACCTCATTGCAAA--
*
3768840 AGTTCTTCTCATTATGAACTC-TCCACTGGAAATGTTGATCCACCTTCTTCTGTA
64 AGTTCTTCTCATTATGAACCCTTCCACTGGAAATGTTGATCCACCTTCTTCTGTA
* * *
3768894 ATGGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATTGGACAAG
1 ATGGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTACCTCATTGCAAAAG
*
3768959 TTCTTCTCATTATGAACCCTTCCATTGGAAAT
66 TTCTTCTCATTATGAACCCTTCCACTGGAAAT
3768991 TTTAACTAGT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
117 73 0.83
118 13 0.15
119 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (118 bp):
ATGGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTACCTCATTGCAAAAG
TTCTTCTCATTATGAACCCTTCCACTGGAAATGTTGATCCACCTTCTTCTGTA
Found at i:3770584 original size:55 final size:55
Alignment explanation
Indices: 3770250--3770763 Score: 434
Period size: 54 Copynumber: 9.6 Consensus size: 55
3770240 GAGAAATATT
* * * * * *
3770250 TGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAGA-CATTC-AGAAACCCT
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAAATCA-TCAAGAAACCCC
** * *
3770304 TGAAAATCAGGTTTAGCTTCTTTCAAAATCCATTTGAAGAA--ATCAAGAAACCCC
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTT-AAAAATCATCAAGAAACCCC
* * *
3770358 TAAAAATC-GACTTAGCTTCTTT-AAACATTCATATGAAAA-CATCAAGAAACCCC
1 TGAAAATCAGACTTAGCTTCTTTCAAA-ATTCATTTAAAAATCATCAAGAAACCCC
* * **
3770411 TGAAAATCAG-CTT--C-T-TTT-AAAACTCATTTATAAATCATCAAGAAACTTC
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAAATCATCAAGAAACCCC
* ** * * *
3770460 TAAAAATCAGACTTAATTTCTTTGAAAATTCTTTTGAAAA-CATCAAGAAACCCC
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAAATCATCAAGAAACCCC
* * * * ***
3770514 TGAAATTCAGGCTTAGCTTCTTTGAAAACTCATTTAAAAATCATCAAGAAACTTT
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAAATCATCAAGAAACCCC
* * * * ****
3770569 TGAAAATCAGACTTAGTTTCTTTAAAAAACTCATTTAAAAATCATCAAAAAAATTA
1 TGAAAATCAGACTTAGCTTCTTT-CAAAATTCATTTAAAAATCATCAAGAAACCCC
* **
3770625 TGAAAATC-GATCTTAGCTACTTTCAAAATTCATTTAAAAATCATCAAGAAATTCC
1 TGAAAATCAGA-CTTAGCTTCTTTCAAAATTCATTTAAAAATCATCAAGAAACCCC
* * *
3770680 -AAAAATTAGACTTAGCTTCTTTCAAAATTCATTTGAAAAT-ATCAAGAAACCCC
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAAATCATCAAGAAACCCC
* * *
3770733 TGAAAATCAGGCTTAGTTTC-TTAAAAATTCA
1 TGAAAATCAGACTTAGCTTCTTTCAAAATTCA
3770764 CGTTAGCCGC
Statistics
Matches: 374, Mismatches: 69, Indels: 35
0.78 0.14 0.07
Matches are distributed among these distances:
48 9 0.02
49 27 0.07
50 4 0.01
51 1 0.00
52 6 0.02
53 65 0.17
54 141 0.38
55 75 0.20
56 46 0.12
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (55 bp):
TGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAAATCATCAAGAAACCCC
Found at i:3772129 original size:28 final size:28
Alignment explanation
Indices: 3772089--3772156 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
3772079 GGTAGATAGA
*
3772089 GTGTTTCAGGTTAATTTAGGGAGGTAAC
1 GTGTTTCAGGTTAATTTAGGGAGGCAAC
* *
3772117 GTGTTTCAGGTTAATTTGGGGAGGCAAT
1 GTGTTTCAGGTTAATTTAGGGAGGCAAC
3772145 GTGTTTCAGGTT
1 GTGTTTCAGGTT
3772157 GGTTTCTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.21, C:0.07, G:0.34, T:0.38
Consensus pattern (28 bp):
GTGTTTCAGGTTAATTTAGGGAGGCAAC
Found at i:3772902 original size:23 final size:23
Alignment explanation
Indices: 3772876--3772980 Score: 101
Period size: 23 Copynumber: 4.7 Consensus size: 23
3772866 TCTTGAAGTT
3772876 TTTTTTACTTTCTTTTCTCTCTC
1 TTTTTTACTTTCTTTTCTCTCTC
** *
3772899 TTTTTGGCTTTCTTTTTTCTCTC
1 TTTTTTACTTTCTTTTCTCTCTC
* *
3772922 TTTTTTTCTTTCTTTTCTCTAT-
1 TTTTTTACTTTCTTTTCTCTCTC
* * *
3772944 TTTTTTA-TGTTGTTTTTTCTTTC
1 TTTTTTACT-TTCTTTTCTCTCTC
3772967 TTTTTT-CTTT-TTTT
1 TTTTTTACTTTCTTTT
3772981 GCTATATATT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
21 5 0.07
22 18 0.26
23 45 0.66
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTTTACTTTCTTTTCTCTCTC
Found at i:3772961 original size:46 final size:45
Alignment explanation
Indices: 3772875--3772980 Score: 119
Period size: 46 Copynumber: 2.4 Consensus size: 45
3772865 GTCTTGAAGT
*
3772875 TTTTTTTACTTTCTTTTCTCTCTCTTTTTGGCTTTCTTTTTTCTCTC
1 TTTTTTT-CTTTCTTTTCTCTATCTTTTTGGC-TTCTTTTTTCTCTC
* * * *
3772922 TTTTTTTCTTTCTTTTCTCTATTTTTTTATG-TTGTTTTTTCTTTC
1 TTTTTTTCTTTCTTTTCTCTATCTTTTT-GGCTTCTTTTTTCTCTC
3772967 -TTTTTTCTTT-TTTT
1 TTTTTTTCTTTCTTTT
3772981 GCTATATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
43 4 0.08
44 10 0.19
45 12 0.23
46 19 0.36
47 8 0.15
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.76
Consensus pattern (45 bp):
TTTTTTTCTTTCTTTTCTCTATCTTTTTGGCTTCTTTTTTCTCTC
Found at i:3772970 original size:11 final size:11
Alignment explanation
Indices: 3772876--3772980 Score: 88
Period size: 11 Copynumber: 9.4 Consensus size: 11
3772866 TCTTGAAGTT
3772876 TTTTTTACTTTC
1 TTTTTT-CTTTC
* *
3772888 TTTTCTCTCTC
1 TTTTTTCTTTC
*
3772899 TTTTTGGCTTTC
1 TTTTT-TCTTTC
*
3772911 TTTTTTCTCTC
1 TTTTTTCTTTC
3772922 TTTTTTTCTTTC
1 -TTTTTTCTTTC
* *
3772934 TTTTCTCTAT-
1 TTTTTTCTTTC
* *
3772944 TTTTTTATGTTG
1 TTTTTTCT-TTC
3772956 TTTTTTCTTTC
1 TTTTTTCTTTC
3772967 TTTTTTCTTT-
1 TTTTTTCTTTC
3772977 TTTT
1 TTTT
3772981 GCTATATATT
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
10 10 0.14
11 33 0.45
12 31 0.42
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.76
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:3774500 original size:224 final size:226
Alignment explanation
Indices: 3774109--3774562 Score: 894
Period size: 224 Copynumber: 2.0 Consensus size: 226
3774099 TCTTCGACCC
3774109 CACAAATCTCAATAATGTGCCTCAAACTTCAGACGGCGGTAACATCACGTCTATAGCTCTCAATC
1 CACAAATCTCAATAATGTGCCTCAAACTTCAGACGGCGGTAACATCACGTCTATAGCTCTCAATC
3774174 CTTTTTTATGTACGAATGAGGTGACTTCAATTTACCTCAAAAACTTCTATCACAAGATTCTCCGT
66 CTTTTTTATGTACGAATGAGGTGACTTCAATTTACCTCAAAAACTTCTATCACAAGATTCTCCGT
3774239 GAGTTACTCCCAGGATCCGTGATTAATGCACGTTAAGATGTTATGTATATTATGCCATGTATGAT
131 GAGTTACTCCCAGGATCCGTGATTAATGCACGTTAAGATGTTATGTATATTATGCCATGTATGAT
3774304 GTATAGATGCGAATGTAACGATGCCAAGAT-
196 GTATAGATGCGAATGTAACGATGCCAAGATG
3774334 CACAAATCTCAATAATGTGCCTCAAACTTCAGACGGCGGTAACATCACGTCTATAGCTCTCAATC
1 CACAAATCTCAATAATGTGCCTCAAACTTCAGACGGCGGTAACATCACGTCTATAGCTCTCAATC
3774399 C-TTTTTATGTACGAATGAGGTGACTTCAATTTACCTCAAAAACTTCTATCACAAGATTCTCCGT
66 CTTTTTTATGTACGAATGAGGTGACTTCAATTTACCTCAAAAACTTCTATCACAAGATTCTCCGT
3774463 GAGTTACTCCCAGGATCCGTGATTAATGCACGTTAAGATGTTATGTATATTATGCCATGTATGAT
131 GAGTTACTCCCAGGATCCGTGATTAATGCACGTTAAGATGTTATGTATATTATGCCATGTATGAT
3774528 GTATAGATGCGAATGTAACGATGCCAAGATG
196 GTATAGATGCGAATGTAACGATGCCAAGATG
3774559 CACA
1 CACA
3774563 TAAGAATGCA
Statistics
Matches: 228, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
224 158 0.69
225 70 0.31
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (226 bp):
CACAAATCTCAATAATGTGCCTCAAACTTCAGACGGCGGTAACATCACGTCTATAGCTCTCAATC
CTTTTTTATGTACGAATGAGGTGACTTCAATTTACCTCAAAAACTTCTATCACAAGATTCTCCGT
GAGTTACTCCCAGGATCCGTGATTAATGCACGTTAAGATGTTATGTATATTATGCCATGTATGAT
GTATAGATGCGAATGTAACGATGCCAAGATG
Found at i:3774600 original size:13 final size:14
Alignment explanation
Indices: 3774574--3774602 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3774564 AAGAATGCAA
3774574 AAATACAGAAATGT
1 AAATACAGAAATGT
3774588 AAATACA-AAATGT
1 AAATACAGAAATGT
3774601 AA
1 AA
3774603 GATGCAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.21
Consensus pattern (14 bp):
AAATACAGAAATGT
Found at i:3776883 original size:136 final size:135
Alignment explanation
Indices: 3776635--3776886 Score: 321
Period size: 136 Copynumber: 1.9 Consensus size: 135
3776625 TAACTGAAAT
* * * * *
3776635 TGGAGGCTTTAATATTAACTTACTCGATTTTAATTAATTATGCAATTCGAATAATTAATTGGAAC
1 TGGAGGCTTTAACATTAACCTACTCGATTTTAATCAATTATGCAATTCGAAGAATTAATTAGAAC
* * *
3776700 CTCGAGCAAAAGCGAAGACCAAATCGAAAATTCTCTTAGATTAAAGGACTAGTTTAAATTAAACA
66 CTCGAGCAAAAGCGAAGACAAAATAGAAAAGTCTCTTAGATTAAAGGACTAGTTTAAATTAAACA
3776765 TAAAA
131 TAAAA
* *
3776770 TGGAGGCTTTAAACATTACCCTATTCGATTTTAATCAATTATGCAATTCGAAGAATTAAATTAGA
1 TGGAGGCTTT-AACATTAACCTACTCGATTTTAATCAATTATGCAATTCGAAGAATT-AATTAGA
* * * *
3776835 ACCTTGAGCAAAAGCG-AGAACAAAATTAG-TAAGTGTCTTA-ATTTAAGGACTA
64 ACCTCGAGCAAAAGCGAAG-ACAAAA-TAGAAAAGTCTCTTAGATTAAAGGACTA
3776887 AATATGAAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
135 10 0.10
136 53 0.54
137 34 0.34
138 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (135 bp):
TGGAGGCTTTAACATTAACCTACTCGATTTTAATCAATTATGCAATTCGAAGAATTAATTAGAAC
CTCGAGCAAAAGCGAAGACAAAATAGAAAAGTCTCTTAGATTAAAGGACTAGTTTAAATTAAACA
TAAAA
Found at i:3777047 original size:16 final size:16
Alignment explanation
Indices: 3777026--3777056 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3777016 AAAAGTTTAT
3777026 GGACTAAATTTAAAGG
1 GGACTAAATTTAAAGG
3777042 GGACTAAATTTAAAG
1 GGACTAAATTTAAAG
3777057 ACTAAACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (16 bp):
GGACTAAATTTAAAGG
Found at i:3778420 original size:14 final size:14
Alignment explanation
Indices: 3778401--3778431 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
3778391 GGAAGTCCCC
3778401 TGTTTACAATATGT
1 TGTTTACAATATGT
3778415 TGTTTACAATATGT
1 TGTTTACAATATGT
3778429 TGT
1 TGT
3778432 GGGTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (14 bp):
TGTTTACAATATGT
Found at i:3780536 original size:11 final size:11
Alignment explanation
Indices: 3780522--3780547 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3780512 TATATAAATT
3780522 AATTATAGTAG
1 AATTATAGTAG
3780533 AATTATAGTAG
1 AATTATAGTAG
3780544 AATT
1 AATT
3780548 CAACTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (11 bp):
AATTATAGTAG
Found at i:3780708 original size:18 final size:18
Alignment explanation
Indices: 3780685--3780729 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
3780675 AACATTCCCA
* *
3780685 GTAATCTTATTCTCGCCG
1 GTAATCTTATTCCCACCG
*
3780703 GTAATCTTTTTCCCACCG
1 GTAATCTTATTCCCACCG
3780721 GTAATCTTA
1 GTAATCTTA
3780730 CATTACGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCACCG
Found at i:3784275 original size:54 final size:54
Alignment explanation
Indices: 3784193--3784449 Score: 345
Period size: 54 Copynumber: 4.8 Consensus size: 54
3784183 GCTTTGCACA
* * *
3784193 ATCCACATAGGATGAATTCCGTGAAATACACACTTAGCGCCGAAACAGTTATTC
1 ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACAGTTATTC
* * *
3784247 ATCCACATAGGATGAATTCCGTGAAATACACACTTAGTGTCAAAACGGTTATTC
1 ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACAGTTATTC
* * * **
3784301 GTCCAGATAGGATGAATTCTGTGAAATGCACACTTAGTGCCAAAATGGTTATTC
1 ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACAGTTATTC
* * * * **
3784355 TTCCACATAGGATAAAATT-TGTGAAATGCATACTTAGTGCTGAAACAGTTATTC
1 ATCCACATAGGAT-GAATTCCGTGAAATGCACACTTAGTGCCAAAACAGTTATTC
3784409 ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
1 ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
3784450 TATTTGGTAA
Statistics
Matches: 178, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 4 0.02
54 170 0.96
55 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (54 bp):
ATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAACAGTTATTC
Found at i:3785049 original size:95 final size:94
Alignment explanation
Indices: 3784926--3785127 Score: 230
Period size: 95 Copynumber: 2.1 Consensus size: 94
3784916 TGTCTACATA
* * * * *
3784926 GTATCGATACTACTACCCTGGTACCGATACTTCTATACTATAGTACCGATACCCCCTTTCA-GTA
1 GTATCGATAC-CCTACCATGGTACCGATACTACCATACTATAGTACCGATA-CCCCTTT-ATGGA
* *
3784990 TC-AATACCAAAATTA-AGTTCGATGTTTCATG
63 ACTAATACCAAAATTAGA-TTCGATGTTGCATG
* * *
3785021 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCTTTATGGAAC
1 GTATCGATACCC-TACCATGGTACCGATACTACCATACTATAGTACCGATACCCCTTTATGGAAC
* *
3785086 TAATACCGAAATTAGATTCGATGTTGCTTG
65 TAATACCAAAATTAGATTCGATGTTGCATG
3785116 GTATCGATACCC
1 GTATCGATACCC
3785128 CTGGTCATAG
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
93 1 0.01
94 11 0.12
95 78 0.86
96 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (94 bp):
GTATCGATACCCTACCATGGTACCGATACTACCATACTATAGTACCGATACCCCTTTATGGAACT
AATACCAAAATTAGATTCGATGTTGCATG
Found at i:3785066 original size:22 final size:20
Alignment explanation
Indices: 3785017--3785074 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 20
3785007 TTCGATGTTT
*
3785017 CATGGTATCGATACCCTTAC
1 CATGGTATCGATACCCATAC
3785037 CATGGTATCGATACTACCATAC
1 CATGGTATCGATAC--CCATAC
*
3785059 TATGGTATCGATACCC
1 CATGGTATCGATACCC
3785075 CTTTATGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.47
22 18 0.53
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGGTATCGATACCCATAC
Found at i:3788720 original size:184 final size:184
Alignment explanation
Indices: 3788365--3788732 Score: 663
Period size: 184 Copynumber: 2.0 Consensus size: 184
3788355 GAATATCAGA
*
3788365 TTAAAATAAATTAAAAATAAAAGCTCGGGATTAGAATATTAATTATTAAAACTAAAGGACTAAAT
1 TTAAAATAAATTAAAAAAAAAAGCTCGGGATTAGAATATTAATTATTAAAACTAAAGGACTAAAT
3788430 ACGTATTTCCTAAATATATTATTTAATAGAAAGGACTAAAATAATAAAATTAAAATTAAAGAACC
66 ACGTATTTCCTAAATATATTATTTAATAGAAAGGACTAAAATAATAAAATTAAAATTAAAGAACC
3788495 AAATTAAAAGGATTAAATTTGATTTAGTGACTAGAATGTAAGAGTTAC-AGTTT
131 AAATTAAAAGGATTAAATTTGATTTAGTGACTAGAATGTAAGAGTTACAAGTTT
3788548 TTAAAATAAATTAAAAAAAAAAGCTCGGGATTAGAATATTAATTATT-AAACTAAAGGACTAAAT
1 TTAAAATAAATTAAAAAAAAAAGCTCGGGATTAGAATATTAATTATTAAAACTAAAGGACTAAAT
3788612 ACGTATTTATCCTAAATATA-TATTTAATAGAAAGGACTAAAATAAATAAAATTAAAATTAAAGA
66 ACGTA-TT-TCCTAAATATATTATTTAATAGAAAGGACTAAAAT-AATAAAATTAAAATTAAAGA
3788676 ACCAAATTAAAAGGATTATAA-TTGATTTAGTGACTAGAATGTAAGAGTTACAAGTTT
128 ACCAAATTAAAAGGATTA-AATTTGATTTAGTGACTAGAATGTAAGAGTTACAAGTTT
3788733 GGATGGCTAC
Statistics
Matches: 179, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
182 22 0.12
183 71 0.40
184 79 0.44
185 7 0.04
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (184 bp):
TTAAAATAAATTAAAAAAAAAAGCTCGGGATTAGAATATTAATTATTAAAACTAAAGGACTAAAT
ACGTATTTCCTAAATATATTATTTAATAGAAAGGACTAAAATAATAAAATTAAAATTAAAGAACC
AAATTAAAAGGATTAAATTTGATTTAGTGACTAGAATGTAAGAGTTACAAGTTT
Found at i:3789221 original size:13 final size:13
Alignment explanation
Indices: 3789203--3789229 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3789193 GTTCTTGCTT
3789203 TGTTTTTTTTTTC
1 TGTTTTTTTTTTC
3789216 TGTTTTTTTTTTC
1 TGTTTTTTTTTTC
3789229 T
1 T
3789230 TGTCGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (13 bp):
TGTTTTTTTTTTC
Found at i:3789641 original size:3 final size:3
Alignment explanation
Indices: 3789633--3789744 Score: 152
Period size: 3 Copynumber: 36.7 Consensus size: 3
3789623 TTATTTATTA
* *
3789633 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
3789680 AAT AAT AAT TAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
3789728 TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
3789745 ATTTAAATGA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
3 89 0.94
4 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:3790139 original size:74 final size:76
Alignment explanation
Indices: 3789873--3791025 Score: 2081
Period size: 74 Copynumber: 15.4 Consensus size: 76
3789863 GGAAATGTTT
3789873 GAAA-ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3789937 AAGGCTTTTTG
66 AAGGCTTTTTG
3789948 G-AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790012 AAGGCTTTTTG
66 AAGGCTTTTTG
3790023 GAAACATCATGCACTGAAGGACTTAC-GATGACCCGAAGGCTTTGAAAACATC-AAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790085 AAGGCTTTTTG
66 AAGGCTTTTTG
3790096 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790161 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
3790172 G-AA-ATCATGTACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790235 AAGGCTTTTTG
66 AAGGCTTTTTG
*
3790246 GAAACATCATGCAATGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790310 AAGGCTTTTTG
66 AAGGCTTTTTG
3790321 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790385 AAGGC-TTTTG
66 AAGGCTTTTTG
*
3790395 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790459 AAGGCTTTTTG
66 AAGGCTTTTTG
3790470 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790535 AAGGCTTTTTG
66 AAGGCTTTTTG
*
3790546 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790610 AAGGC-TTTTG
66 AAGGCTTTTTG
3790620 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790685 AAGGCTTTTTG
66 AAGGCTTTTTG
*
3790696 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790761 AAGGCTTTTTG
66 AAGGCTTTTTG
* * *
3790772 GAAACATCATGCACTTAAGGACTTACAGATGACCCAAAGG-ATTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790835 AAGGCTTTTTG
66 AAGGCTTTTTG
3790846 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
3790911 ATGGCTTTTTG
66 AAGGCTTTTTG
3790922 GAAACA-CATGCACTGAAGG-CTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790984 AAGGCTTTTTG
66 AAGGCTTTTTG
*
3790995 GAAACATCATGCACTAAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
3791026 TGAGAAATAG
Statistics
Matches: 1042, Mismatches: 20, Indels: 32
0.95 0.02 0.03
Matches are distributed among these distances:
73 67 0.06
74 352 0.34
75 306 0.29
76 317 0.30
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:3790357 original size:150 final size:152
Alignment explanation
Indices: 3789873--3791025 Score: 2081
Period size: 150 Copynumber: 7.7 Consensus size: 152
3789863 GGAAATGTTT
3789873 GAAA-ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3789937 AAGGCTTTTTGG-AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
3790001 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
3790023 GAAACATCATGCACTGAAGGACTTAC-GATGACCCGAAGGCTTTGAAAACATC-AAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790085 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
3790150 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
* *
3790172 G-AA-ATCATGTACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
3790235 AAGGCTTTTTGGAAACATCATGCAATGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
3790299 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
3790321 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790385 AAGGC-TTTTGGAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
*
3790448 AAAAGCTCCTGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
3790470 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790535 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
*
3790599 AAAAGCTCCTGAAGGC-TTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
3790620 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
3790685 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
3790750 AAAAGCTCCCGAAGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
* * *
3790772 GAAACATCATGCACTTAAGGACTTACAGATGACCCAAAGG-ATTGAAAACATCAAAAAGCT-CCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3790835 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
*
3790900 AAAAGCTCCCGATGGCTTTTTG
131 AAAAGCTCCCGAAGGCTTTTTG
3790922 GAAACA-CATGCACTGAAGG-CTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
3790984 AAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATG
66 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
3791026 TGAGAAATAG
Statistics
Matches: 970, Mismatches: 18, Indels: 31
0.95 0.02 0.03
Matches are distributed among these distances:
147 20 0.02
148 88 0.09
149 268 0.28
150 397 0.41
151 134 0.14
152 63 0.06
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (152 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
AAAAGCTCCCGAAGGCTTTTTG
Found at i:3792220 original size:54 final size:53
Alignment explanation
Indices: 3792113--3792276 Score: 230
Period size: 54 Copynumber: 3.2 Consensus size: 53
3792103 AGAATAGTAG
* ** *
3792113 GTTCGTAAAACATTTGATAGTGCATTC-TCCTTTCCTGTGGCTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACA-AACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
*
3792166 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTTAGAT
1 GTTCGTAAAACATTTGACAA-ACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
3792220 GTTCGTAAAACA-TTGAC-AACA--CATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAAACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
3792269 GTTCGTAA
1 GTTCGTAA
3792277 TTATTGAAGT
Statistics
Matches: 103, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
49 35 0.34
51 3 0.03
52 1 0.01
53 28 0.27
54 36 0.35
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.40
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAAACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
Found at i:3792749 original size:25 final size:25
Alignment explanation
Indices: 3792715--3792762 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3792705 GACGCAAAAA
3792715 TGATGTGAAAAATAGCTTCATAAAC
1 TGATGTGAAAAATAGCTTCATAAAC
3792740 TGATGTGAAAAATAGCTTCATAA
1 TGATGTGAAAAATAGCTTCATAA
3792763 TCTCAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (25 bp):
TGATGTGAAAAATAGCTTCATAAAC
Found at i:3794564 original size:91 final size:91
Alignment explanation
Indices: 3794314--3794647 Score: 539
Period size: 90 Copynumber: 3.7 Consensus size: 91
3794304 TGATTTTAGA
* * * *
3794314 GTTCATACCAAATCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-GT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
* *
3794378 CTTCCAAATTCAATGATTGGTTTGTG
66 CTTCCAAATTCAATAACTGGTTTGTG
* *
3794404 GTTCATACCAAAACAGATCAGAT-ACTCAAAGAACACTTTCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
*
3794468 CTTCCAAATTCAATAACTGGTTTATG
66 CTTCCAAATTCAATAACTGGTTTGTG
3794494 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
3794559 CTTCCAAATTCAATAAACTGGTTCTGTG
66 CTTCCAAATTCAAT-AACTGGTT-TGTG
*
3794587 GTTCATACCAAACCAGA-CAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
3794648 ATTTACTATG
Statistics
Matches: 228, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
89 36 0.16
90 67 0.29
91 54 0.24
92 51 0.22
93 20 0.09
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (91 bp):
GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
CTTCCAAATTCAATAACTGGTTTGTG
Found at i:3802722 original size:17 final size:17
Alignment explanation
Indices: 3802693--3802725 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3802683 ACTTCTTCAT
3802693 GGGAGTCGTGGTAGCAG
1 GGGAGTCGTGGTAGCAG
3802710 GGGA-TCGTCGGTAGCA
1 GGGAGTCGT-GGTAGCA
3802726 TATGGTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.15, G:0.48, T:0.18
Consensus pattern (17 bp):
GGGAGTCGTGGTAGCAG
Found at i:3802931 original size:3 final size:3
Alignment explanation
Indices: 3802923--3803034 Score: 152
Period size: 3 Copynumber: 36.7 Consensus size: 3
3802913 TTATTTATTA
* *
3802923 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
3802970 AAT AAT AAT TAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
3803018 TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
3803035 ATTTAAATGA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
3 89 0.94
4 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:3803336 original size:29 final size:29
Alignment explanation
Indices: 3803291--3803364 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
3803281 TGATATGAAG
3803291 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
*
3803320 TGACATGAGCTATATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
3803349 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
3803365 ACATATGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 6 0.14
29 37 0.86
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:3810169 original size:24 final size:24
Alignment explanation
Indices: 3810125--3810198 Score: 60
Period size: 29 Copynumber: 2.9 Consensus size: 24
3810115 TGATATGAGA
* *
3810125 ACATGAT-ATGAAGTGACATGAGCT
1 ACATGATCAT-AAGAGAAATGAGCT
3810149 ACATGATCATAAGAGAAATGACATGAGCT
1 ACATGATCATAAGAG--A--A-ATGAGCT
*
3810178 ACATGATCACAAGAGAAATGA
1 ACATGATCATAAGAGAAATGA
3810199 CATGAGTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
24 15 0.37
25 3 0.07
26 1 0.02
27 1 0.02
29 21 0.51
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (24 bp):
ACATGATCATAAGAGAAATGAGCT
Found at i:3810180 original size:29 final size:29
Alignment explanation
Indices: 3810138--3810216 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
3810128 TGATATGAAG
3810138 TGACATGAGCTACATGATCATAAGAGAAA
1 TGACATGAGCTACATGATCATAAGAGAAA
*
3810167 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCATAAGAGAAA
*
3810196 TGACATGAG-TACATGAACATA
1 TGACATGAGCTACATGATCATA
3810217 TGAAATATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 10 0.21
29 37 0.79
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (29 bp):
TGACATGAGCTACATGATCATAAGAGAAA
Found at i:3810343 original size:15 final size:15
Alignment explanation
Indices: 3810296--3810358 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
3810286 GAGGGTATAA
3810296 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
* * * *
3810311 TAGTCTTTTGAGATG
1 TAGTCCTTCGGGACG
*
3810326 TAGTCATTCGGGACG
1 TAGTCCTTCGGGACG
*
3810341 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
3810356 TAG
1 TAG
3810359 GAGTCCTACG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:3810356 original size:30 final size:30
Alignment explanation
Indices: 3810296--3810358 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
3810286 GAGGGTATAA
* * *
3810296 TAGTCCTTCGGGACGTAGTCTTTTGAGATG
1 TAGTCATTCGGGACGTAGTCCTTCGAGATG
*
3810326 TAGTCATTCGGGACGTAGTCCTTCGGGATG
1 TAGTCATTCGGGACGTAGTCCTTCGAGATG
3810356 TAG
1 TAG
3810359 GAGTCCTACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.33
Consensus pattern (30 bp):
TAGTCATTCGGGACGTAGTCCTTCGAGATG
Found at i:3812723 original size:19 final size:19
Alignment explanation
Indices: 3812696--3812742 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
3812686 GGTGAGATAA
*
3812696 ATCTGCTCCTCACGTTTTC
1 ATCTGCTCCTCACGTTCTC
*
3812715 ATCTTCTCCTCACGTTCTC
1 ATCTGCTCCTCACGTTCTC
3812734 ATCTGCTCC
1 ATCTGCTCC
3812743 ATTGGCCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.11, C:0.40, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCTGCTCCTCACGTTCTC
Found at i:3821871 original size:21 final size:19
Alignment explanation
Indices: 3821833--3821878 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
3821823 AATTAATCCT
3821833 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
3821853 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
3821874 A-TAAT
1 ACTAAT
3821879 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:3824676 original size:54 final size:54
Alignment explanation
Indices: 3824595--3824858 Score: 420
Period size: 54 Copynumber: 4.9 Consensus size: 54
3824585 TGCCAAAATA
* * * * *
3824595 GTTATTCATCAACATAGGATAAATTCCGTGAAATGTACACTTAGCGCCGAAACA
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* *
3824649 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCTGAAATG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * *
3824703 GTGATTCATCCACATAGGATGAATTCAGTGAAATGCATACTTAGTGCCGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* *
3824757 GTGATTCATCCACATAGGATGAATTCCGTGAAATGCACAATTAGTGCCGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
3824811 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
3824859 TATTTGGTAA
Statistics
Matches: 193, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 193 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (54 bp):
GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
Found at i:3824733 original size:27 final size:27
Alignment explanation
Indices: 3824647--3824733 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 27
3824637 AGCGCCGAAA
*
3824647 CAGTTATTCATCCACATAGGATGAATT
1 CAGTGATTCATCCACATAGGATGAATT
* * * * *
3824674 CCGTGA--AATGCACACTTAGTGCTGAAAT
1 CAGTGATTCAT-C-CACATAG-GATGAATT
*
3824702 -GGTGATTCATCCACATAGGATGAATT
1 CAGTGATTCATCCACATAGGATGAATT
3824728 CAGTGA
1 CAGTGA
3824734 AATGCATACT
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
25 2 0.05
26 7 0.17
27 24 0.57
28 7 0.17
29 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (27 bp):
CAGTGATTCATCCACATAGGATGAATT
Found at i:3825292 original size:20 final size:20
Alignment explanation
Indices: 3825267--3825318 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
3825257 GTTTCATTAG
* *
3825267 ATCGATACCCTTACCATGGT
1 ATCGATACCCATACAATGGT
3825287 ATCGATACTACCATACAATGGT
1 ATCGATAC--CCATACAATGGT
3825309 ATCGATACCC
1 ATCGATACCC
3825319 CCTTCTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.36
22 18 0.64
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (20 bp):
ATCGATACCCATACAATGGT
Found at i:3825342 original size:95 final size:96
Alignment explanation
Indices: 3825218--3825390 Score: 226
Period size: 95 Copynumber: 1.8 Consensus size: 96
3825208 TATGGTACAA
* * *
3825218 ATACCCCCTTCTAGTATTAATACCAAAATTAAATTCGATGTTTCATTAG-ATCGATAC-CCTTAC
1 ATACCCCCTTCTAGTACTAATACCAAAATTAAATTCGATGTTGC-TTAGTATCGATACAACTTAC
3825281 CATGGTATCGATACTACCATACAATGGTATCG
65 CATGGTATCGATACTACCATACAATGGTATCG
** ** * *
3825313 ATACCCCCTTCT-GATACTAATACTGAAATTAGGTTCGATGTTGCTTGGTATCGATACAACTTAT
1 ATACCCCCTTCTAG-TACTAATACCAAAATTAAATTCGATGTTGCTTAGTATCGATACAACTTAC
3825377 CATGGTATCGATAC
65 CATGGTATCGATAC
3825391 CACCTCGTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
94 4 0.06
95 44 0.67
96 18 0.27
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (96 bp):
ATACCCCCTTCTAGTACTAATACCAAAATTAAATTCGATGTTGCTTAGTATCGATACAACTTACC
ATGGTATCGATACTACCATACAATGGTATCG
Found at i:3825815 original size:15 final size:15
Alignment explanation
Indices: 3825790--3825827 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
3825780 CATCTCATTT
3825790 TAAAA-CCCATTTTA
1 TAAAATCCCATTTTA
3825804 TAAAATCCCATTTTA
1 TAAAATCCCATTTTA
3825819 TAAAATCCC
1 TAAAATCCC
3825828 CTTTATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAAATCCCATTTTA
Found at i:3826950 original size:47 final size:48
Alignment explanation
Indices: 3826881--3826977 Score: 178
Period size: 47 Copynumber: 2.0 Consensus size: 48
3826871 ACGAACATAC
3826881 AATATACGTAGCTTGTCCTAAAAGATGTGAAGGTATTGTGTTA-TTTT
1 AATATACGTAGCTTGTCCTAAAAGATGTGAAGGTATTGTGTTACTTTT
*
3826928 AATATATGTAGCTTGTCCTAAAAGATGTGAAGGTATTGTGTTACTTTT
1 AATATACGTAGCTTGTCCTAAAAGATGTGAAGGTATTGTGTTACTTTT
3826976 AA
1 AA
3826978 AATGAGGTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (48 bp):
AATATACGTAGCTTGTCCTAAAAGATGTGAAGGTATTGTGTTACTTTT
Found at i:3828025 original size:16 final size:15
Alignment explanation
Indices: 3827994--3828068 Score: 68
Period size: 17 Copynumber: 5.0 Consensus size: 15
3827984 TTTATTATTT
3827994 TTTTTATA-TTTTTA
1 TTTTTATATTTTTTA
3828008 TTTTTATATTTTTCTA
1 TTTTTATATTTTT-TA
*
3828024 -TTTT-T-TTATTTA
1 TTTTTATATTTTTTA
*
3828036 TTTAATATATTTTTTA
1 TTT-TTATATTTTTTA
3828052 TTATTTTATATTTTTTA
1 -T-TTTTATATTTTTTA
3828069 ACCTTTTGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
12 2 0.04
13 6 0.12
14 10 0.20
15 9 0.18
16 8 0.16
17 12 0.24
18 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATATTTTTTA
Found at i:3828025 original size:22 final size:22
Alignment explanation
Indices: 3827994--3828066 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
3827984 TTTATTATTT
3827994 TTTTTATATTTTTATT-TTTATA
1 TTTTTATATTTTT-TTATTTATA
*
3828016 TTTTTCTATTTTTTTATTTAT-
1 TTTTTATATTTTTTTATTTATA
**
3828037 TTAATATATTTTTTATTATTTTATA
1 TTTTTATA-TTTTT-TTA-TTTATA
3828062 TTTTT
1 TTTTT
3828067 TAACCTTTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
21 7 0.17
22 22 0.55
23 3 0.08
24 5 0.12
25 3 0.08
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTATATTTTTTTATTTATA
Found at i:3828048 original size:19 final size:19
Alignment explanation
Indices: 3828008--3828068 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
3827998 TATATTTTTA
*
3828008 TTTTTATATT-TTT-CTAT
1 TTTTTATATTATTTAATAT
3828025 TTTTT-TATTTATTTAATAT
1 TTTTTATA-TTATTTAATAT
*
3828044 ATTTTT-TATTATTTTATAT
1 -TTTTTATATTATTTAATAT
3828063 TTTTTA
1 TTTTTA
3828069 ACCTTTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.05
17 7 0.19
18 8 0.22
19 13 0.35
20 7 0.19
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTATATTATTTAATAT
Found at i:3828066 original size:8 final size:8
Alignment explanation
Indices: 3827994--3828066 Score: 51
Period size: 8 Copynumber: 8.6 Consensus size: 8
3827984 TTTATTATTT
3827994 TTTTTATA
1 TTTTTATA
3828002 -TTTT-TA
1 TTTTTATA
3828008 TTTTTATA
1 TTTTTATA
*
3828016 TTTTTCTA
1 TTTTTATA
*
3828024 TTTTTTTA
1 TTTTTATA
3828032 TTTATTTAATA
1 -TT-TTT-ATA
*
3828043 TATTTTTTA
1 T-TTTTATA
3828052 TTATTTTATA
1 -T-TTTTATA
3828062 TTTTT
1 TTTTT
3828067 TAACCTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
6 2 0.04
7 8 0.15
8 20 0.38
9 5 0.09
10 15 0.28
11 3 0.06
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:3828068 original size:9 final size:9
Alignment explanation
Indices: 3827983--3828068 Score: 65
Period size: 9 Copynumber: 9.6 Consensus size: 9
3827973 TGATTTATCC
3827983 TTTTATTATT
1 TTTTA-TATT
* *
3827993 TTTTTTATA
1 TTTTATATT
3828002 TTTT-TA-T
1 TTTTATATT
3828009 TTTTATATT
1 TTTTATATT
3828018 TTTCTAT-TT
1 TTT-TATATT
3828027 TTTTAT-TT
1 TTTTATATT
3828035 ATTTAATATATT
1 -TTT--TATATT
*
3828047 TTTTAT-TA
1 TTTTATATT
3828055 TTTTATATT
1 TTTTATATT
3828064 TTTTA
1 TTTTA
3828069 ACCTTTTGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
7 4 0.06
8 16 0.25
9 28 0.44
10 7 0.11
11 6 0.10
12 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTATATT
Found at i:3828081 original size:46 final size:43
Alignment explanation
Indices: 3827998--3828084 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 43
3827988 TTATTTTTTT
** *
3827998 TATATTTTTATTTTTATATTTTTCTATTTTTTTATTTATTTAA
1 TATATTTTTATTTTTATATTTTTCTACCTTTTGATTTATTTAA
3828041 TATATTTTTTATTATTTTATATTTTT-TAACCTTTTGATTTATTT
1 TATA-TTTTTA-T-TTTTATATTTTTCT-ACCTTTTGATTTATTT
3828085 TTATTGTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 4 0.11
44 6 0.16
45 2 0.05
46 25 0.68
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (43 bp):
TATATTTTTATTTTTATATTTTTCTACCTTTTGATTTATTTAA
Found at i:3828143 original size:12 final size:12
Alignment explanation
Indices: 3828126--3828150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3828116 CGATTTATCA
3828126 TTATTCTTTTTT
1 TTATTCTTTTTT
3828138 TTATTCTTTTTT
1 TTATTCTTTTTT
3828150 T
1 T
3828151 CTTCTTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTATTCTTTTTT
Found at i:3830337 original size:20 final size:20
Alignment explanation
Indices: 3830312--3830353 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3830302 AGATTCAGAT
3830312 GAAGAAGACAAAACAAAGAA
1 GAAGAAGACAAAACAAAGAA
*
3830332 GAAGAAGACAAATCAAAGAA
1 GAAGAAGACAAAACAAAGAA
3830352 GA
1 GA
3830354 TGGAGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.21, T:0.02
Consensus pattern (20 bp):
GAAGAAGACAAAACAAAGAA
Found at i:3830998 original size:25 final size:25
Alignment explanation
Indices: 3830970--3831020 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
3830960 GCCAATAAGA
*
3830970 AACCTCTTATGAAG-GAGAGGGATAG
1 AACCTCTTATG-AGCGAGAAGGATAG
3830995 AACCTCTTATGAGCGAGAAGGATAG
1 AACCTCTTATGAGCGAGAAGGATAG
3831020 A
1 A
3831021 GAAATTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (25 bp):
AACCTCTTATGAGCGAGAAGGATAG
Found at i:3832094 original size:95 final size:95
Alignment explanation
Indices: 3831930--3832169 Score: 290
Period size: 95 Copynumber: 2.7 Consensus size: 95
3831920 ATATTATATA
* *
3831930 TATACAATAAAGCTTGAGTTGTCCATCTAGAGAAATTGGTTAAACGCCCCGACTTTATGGATAAT
1 TATACAATAAAGCTTGAGCTGTCCATCTAGAGAAATTGGTTAAACGCCCCGACTTTATGGATAAG
*
3831995 ATTCAGCTAGCCTGATAAAGGTGATTATGC
66 ATTCAGCTAACCTGATAAAGGTGATTATGC
* * * *
3832025 TATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACGGCCCGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGCTGTCCATCTAGA-GAAATTGGTTAAACGCCCCGACTTTATGGATAA
3832089 GATTCAGCTAACCTGATAAAGGTG----T--
65 GATTCAGCTAACCTGATAAAGGTGATTATGC
* * *
3832114 T-TAC-AT--A--TTGAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTATGGAT
1 TATACAATAAAGCTTGAGCTGTCCATCTAGAGAAATTGGTTAAACGCCCCGACTTTATGGAT
3832170 TCAGCTAGCC
Statistics
Matches: 133, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
83 44 0.33
84 1 0.01
85 1 0.01
87 2 0.02
88 3 0.02
89 1 0.01
91 1 0.01
94 1 0.01
95 79 0.59
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGCTGTCCATCTAGAGAAATTGGTTAAACGCCCCGACTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATGC
Found at i:3833426 original size:84 final size:83
Alignment explanation
Indices: 3833307--3834237 Score: 975
Period size: 84 Copynumber: 11.2 Consensus size: 83
3833297 GCTCTAGGAT
* * * * * *
3833307 AGAAGGGTTATCTACCACAAAGAGACCTTTGAGTTCGATTACACTCAACTCAAAGGCACATCATT
1 AGAAGGGTTATCTGCCACCAA-AGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
*
3833372 TGTAGCATAGCTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
* * * *
3833391 AGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCATGGCATATCATT
1 AGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
* *
3833456 TGCATCATAACTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
* * * * *
3833475 AGAAAGATTATCTGCAAACCAAAGACATTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
1 AGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
3833539 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
* * * * * * * *
3833558 AGAAAGGCTATCTG---CCAAAGACCCTCAAGTTCGATTGCACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATCATT
* * ** * *
3833620 TACAGCATAACACAAGGCT
65 TGCAGCATAGCTTAAGTCG
* * * * *
3833639 AGAAGGGTTATTTGTCACCAAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACGA-CAT
1 AGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCAC-ATCAT
*
3833703 TTGCAACATAGCTTAAGTCG
64 TTGCAGCATAGCTTAAGTCG
* * * * * **
3833723 AGAAGGGTTATATACCAACCGAAGACCTTCGAGTTCAATTACGCTCAGCTCCGAGGCATGTCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
*
3833788 TGCAGCATAACTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
* * *
3833807 AGAAGGGTTATATGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
* *
3833872 TACAGTATAGCTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
* * * * *
3833891 AGAAGGATTATCTG---CCAAAGACCCTCGAGTTCGGTTACACTCAGCTTCGAAGGCACATCATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATCATT
* * *
3833953 TGCAGCATAACTTAGGTCA
65 TGCAGCATAGCTTAAGTCG
**
3833972 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
3834037 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
* * * * * * *
3834056 AGAAGGGCTATATG---CCAAAGACCCTCTAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTACGCTCAGC-TCCAAGGCACATCATT
** * * * *
3834118 TATAGCATAACTCAAGGCT
65 TGCAGCATAGCTTAAGTCG
* * * *
3834137 ATAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCATATCAGT
1 AGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATT
3834202 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAGCTTAAGTCG
3834221 AGAAGGGTTATCTGCCA
1 AGAAGGGTTATCTGCCA
3834238 ACTGAAGACC
Statistics
Matches: 689, Mismatches: 137, Indels: 42
0.79 0.16 0.05
Matches are distributed among these distances:
79 25 0.04
80 53 0.08
81 116 0.17
83 41 0.06
84 370 0.54
85 84 0.12
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCG
Found at i:3834001 original size:165 final size:164
Alignment explanation
Indices: 3833307--3834267 Score: 1088
Period size: 165 Copynumber: 5.8 Consensus size: 164
3833297 GCTCTAGGAT
* * * * * * *
3833307 AGAAGGGTTATCTACCACAAAGAGACCTTTGAGTTCGATTACACTCAACTCAAAGGCACATCATT
1 AGAAGGGTTATCTGCCACCAA-AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * *
3833372 TGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTC
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CC-AAAGACCCTCGAGTTCGATTACACTC
* * * * *
3833437 AGC-TCCATGGCATATCATTTGCATCATAACTTAAGTCG
126 AGCTTCGAAGGCACATCATTTGCAGCATAACTTAGGTCG
* * * *
3833475 AGAAAGATTATCTGCAAACCAAAGACATTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
1 AGAAGGGTTATCTGC-CACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
3833539 TGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAGACCCTCAAGTTCGATTGCACTCAGCT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
* * ** *
3833604 TCGAGGGCACATCATTTACAGCATAACACAAGG-CT
130 TCGAAGGCACATCATTTGCAGCATAAC-TTAGGTCG
* * * *
3833639 AGAAGGGTTATTTGTCACCAAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACGA-CAT
1 AGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC-ATCAT
* * * * * * *
3833703 TTGCAACATAGCTTAAGTCGAGAAGGGTTATATACCAACCGAAGACCTTCGAGTTCAATTACGCT
64 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A---AAGACCCTCGAGTTCGATTACACT
* ** *
3833768 CAGCTCCG-AGGCATGTCATTTGCAGCATAACTTAAGTCG
125 CAGCTTCGAAGGCACATCATTTGCAGCATAACTTAGGTCG
* *
3833807 AGAAGGGTTATATGCCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * ** *
3833872 TACAGTATAGCTTAAGTCGAGAAGGATTATCTGCCAAAGACCCTCGAGTTCGGTTACACTCAGCT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
*
3833937 TCGAAGGCACATCATTTGCAGCATAACTTAGGTCA
130 TCGAAGGCACATCATTTGCAGCATAACTTAGGTCG
*
3833972 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
3834037 TGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCTCTAGTTCGATTACACTCAGCT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
* ** * *
3834102 TCGAGGGCACATCATTTATAGCATAACTCAAGG-CT
130 TCGAAGGCACATCATTTGCAGCATAACT-TAGGTCG
* * * * *
3834137 ATAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCATATCAGT
1 AGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
3834202 TGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACTGAAGACCCTTGAGTTCAATTACACTC
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A---AAGACCCTCGAGTTCGATTACACTC
3834267 A
126 A
3834268 ACTCAGAGGC
Statistics
Matches: 673, Mismatches: 100, Indels: 39
0.83 0.12 0.05
Matches are distributed among these distances:
163 27 0.04
164 94 0.14
165 304 0.45
166 6 0.01
167 48 0.07
168 138 0.21
169 56 0.08
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (164 bp):
AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
CGAAGGCACATCATTTGCAGCATAACTTAGGTCG
Found at i:3834224 original size:498 final size:498
Alignment explanation
Indices: 3833307--3834278 Score: 1405
Period size: 498 Copynumber: 1.9 Consensus size: 498
3833297 GCTCTAGGAT
* * *
3833307 AGAAGGGTTATCTACCACAAAGAGACCTTTGAGTTCGATTACACTCAACTCAAAGGCACATCATT
1 AGAAGGGTTATATACCACAAAGAGACCTTCGAGTTCGACTACACTCAACTCAAAGGCACATCATT
** * * *
3833372 TGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCACCAAAAGACCTTCGAGTTCGACTACGCTC
66 TACAGCATAGCTTAAGTCGAGAAGGACTATCTG-C-CCAAAAGACCCTCGAGTTCGACTACACTC
* * * *
3833437 AGCTCCATGGCATATCATTTGCATCATAACTTAAGTCGAGAAAGATTATCTGCAAACCAAAGACA
129 AGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAAGATTATCTGCAAACCAAAGACA
*
3833502 TTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCT
194 TTCGAGTTCGACCACGCTCAGCTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCT
* *
3833567 ATCTGCCAAAGACCCTCAAGTTCGATTGCACTCAGCTTCGAGGGCACATCATTTACAGCATAACA
259 ATATGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACA
* *
3833632 CAAGGCTAGAAGGGTTATTTGTCACCAAAATACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCA
324 CAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCA
*
3833697 CGACATTTGCAACATAGCTTAAGTCGAGAAGGGTTATATACCAACCGAAGA-CCTTCGAGTTCAA
389 CGACAGTTGCAACATAGCTTAAGTCGAGAAGGGTTATATACCAACCGAAGACCCTT-GAGTTCAA
* * *
3833761 TTACGCTCAGCTCCGAGGCATGTCATTTGCAGCATAACTTAAGTCG
453 TTACACTCAACTCAGAGGCATGTCATTTGCAGCATAACTTAAGTCG
* * * * * *
3833807 AGAAGGGTTATATGCCAACCAA-AGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCAT
1 AGAAGGGTTATATACC-ACAAAGAGACCTTCGAGTTCGACTACACTCAACTCAAAGGCACATCAT
* * **
3833871 TTACAGTATAGCTTAAGTCGAGAAGGATTATCTG-CC-AAAGACCCTCGAGTTCGGTTACACTCA
65 TTACAGCATAGCTTAAGTCGAGAAGGACTATCTGCCCAAAAGACCCTCGAGTTCGACTACACTCA
* * * * * *
3833934 GCTTCGAAGGCACATCATTTGCAGCATAACTTAGGTCAAGAAGGGTTATCTGCCAACCAAAGACC
130 GC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAAGATTATCTGCAAACCAAAGACA
*
3833999 TTCGAGTTCGACCACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
194 TTCGAGTTCGACCACGCTCAGCT-CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGC
* *
3834064 TATATGCCAAAGACCCTCTAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATAGCATAAC
258 TATATGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAAC
* * * *
3834129 TCAAGGCTATAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGC
323 ACAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGC
* * * * *
3834194 A-TATCAGTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACTGAAGACCCTTGAGTTCA
388 ACGA-CAGTTGCAACATAGCTTAAGTCGAGAAGGGTTATATACCAACCGAAGACCCTTGAGTTCA
3834258 ATTACACTCAACTCAGAGGCA
452 ATTACACTCAACTCAGAGGCA
3834279 AACCAAATCT
Statistics
Matches: 418, Mismatches: 49, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
496 25 0.06
497 77 0.18
498 229 0.55
499 4 0.01
500 79 0.19
501 4 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (498 bp):
AGAAGGGTTATATACCACAAAGAGACCTTCGAGTTCGACTACACTCAACTCAAAGGCACATCATT
TACAGCATAGCTTAAGTCGAGAAGGACTATCTGCCCAAAAGACCCTCGAGTTCGACTACACTCAG
CTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAAGATTATCTGCAAACCAAAGACATT
CGAGTTCGACCACGCTCAGCTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCTAT
ATGCCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACACA
AGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACG
ACAGTTGCAACATAGCTTAAGTCGAGAAGGGTTATATACCAACCGAAGACCCTTGAGTTCAATTA
CACTCAACTCAGAGGCATGTCATTTGCAGCATAACTTAAGTCG
Found at i:3835709 original size:20 final size:20
Alignment explanation
Indices: 3835686--3835730 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3835676 TTTTAACATC
* *
3835686 TTTTATATT-TTCTTATTGT
1 TTTTTTATTATTCTTATTAT
*
3835705 TTTTTTATTATTTTTATTAT
1 TTTTTTATTATTCTTATTAT
3835725 TTTTTT
1 TTTTTT
3835731 TCCTTTTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTTATTATTCTTATTAT
Found at i:3835724 original size:23 final size:23
Alignment explanation
Indices: 3835688--3835731 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3835678 TTAACATCTT
*
3835688 TTATATTTTCTTATTGTTTTTTTA
1 TTATATTTTATTATT-TTTTTTTA
3835712 TTAT-TTTTATTATTTTTTTT
1 TTATATTTTATTATTTTTTTT
3835732 CCTTTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (23 bp):
TTATATTTTATTATTTTTTTTTA
Found at i:3835729 original size:11 final size:11
Alignment explanation
Indices: 3835686--3835730 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
3835676 TTTTAACATC
3835686 TTTTA-TATTT
1 TTTTATTATTT
* *
3835696 TCTTATTGTTT
1 TTTTATTATTT
3835707 TTTTATTA--T
1 TTTTATTATTT
3835716 TTTTATTATTT
1 TTTTATTATTT
3835727 TTTT
1 TTTT
3835731 TCCTTTTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
9 9 0.32
10 4 0.14
11 15 0.54
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTATTATTT
Found at i:3835819 original size:56 final size:56
Alignment explanation
Indices: 3835739--3835867 Score: 140
Period size: 56 Copynumber: 2.3 Consensus size: 56
3835729 TTTCCTTTTC
* * **
3835739 TCTTATTTTCTATTTATT-C-TTTTTTCC-TCCTTTTGATTTATCCTTTTATTATTATT
1 TCTTATTTTATATTT-TTACATTTTTCCCTTCCTTTTGATTTAT-CTAATA-TATTATT
* *
3835795 T-TTATTTTTATATTTTTACATTTTTCCCTTTCTTTTGATTTATCTAATATATTTTT
1 TCTTA-TTTTATATTTTTACATTTTTCCCTTCCTTTTGATTTATCTAATATATTATT
3835851 TCTTATTTTATATTTTT
1 TCTTATTTTATATTTTT
3835868 TATCCTTTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
55 5 0.08
56 30 0.48
57 14 0.23
58 13 0.21
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (56 bp):
TCTTATTTTATATTTTTACATTTTTCCCTTCCTTTTGATTTATCTAATATATTATT
Found at i:3835869 original size:57 final size:56
Alignment explanation
Indices: 3835734--3835869 Score: 136
Period size: 57 Copynumber: 2.4 Consensus size: 56
3835724 TTTTTTTTCC
* * * **
3835734 TTTTCTCTTATTTTCTATTTATT-CTTTTTTCCTCCTTTTGATTTATCCTTTTATTA
1 TTTTTTCTTATTTT-TATTTTTTACTTTTTCCCTCCTTTTGATTTATCCTAATATTA
* *
3835790 TTATTT-TTATTTTTATATTTTTACATTTTTCCCTTTCTTTTGATTTAT-CTAATA-TA
1 TTTTTTCTTATTTTTAT-TTTTTAC-TTTTTCCC-TCCTTTTGATTTATCCTAATATTA
3835846 TTTTTTCTTATTTTATATTTTTTA
1 TTTTTTCTTATTTT-TATTTTTTA
3835870 TCCTTTTGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
54 3 0.05
55 11 0.17
56 12 0.18
57 24 0.36
58 16 0.24
ACGTcount: A:0.17, C:0.12, G:0.01, T:0.69
Consensus pattern (56 bp):
TTTTTTCTTATTTTTATTTTTTACTTTTTCCCTCCTTTTGATTTATCCTAATATTA
Found at i:3835975 original size:41 final size:40
Alignment explanation
Indices: 3835885--3835986 Score: 100
Period size: 41 Copynumber: 2.5 Consensus size: 40
3835875 TTGATTTTTT
* * * *
3835885 TATTGTTTAATTATTTATTGTTTTTCTTTCGATTTATTATTAT
1 TATTATTT-ATTATTT-TT-TTCTTCTTTCGATTTATTATGAA
3835928 TATTATTTTATTCATTTTTTTCTTCTTT-GATTTATT-TGAA
1 TATTA-TTTATT-ATTTTTTTCTTCTTTCGATTTATTATGAA
3835968 TATTTATTTATTATTTTTT
1 TA-TTATTTATTATTTTTT
3835987 ATCTAACATT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
39 7 0.13
40 10 0.19
41 11 0.21
42 8 0.15
43 9 0.17
44 7 0.13
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (40 bp):
TATTATTTATTATTTTTTTCTTCTTTCGATTTATTATGAA
Found at i:3837349 original size:31 final size:31
Alignment explanation
Indices: 3837314--3837387 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
3837304 TTCAACATCC
* *
3837314 AAGTGACCAAAACTTAATAAAATGATAATGT
1 AAGTGACCAAAACTTAATAAAACGATAACGT
* *
3837345 AAGTGATCAAAACTTAATAAAACGGTAACGT
1 AAGTGACCAAAACTTAATAAAACGATAACGT
3837376 AAGTGACCAAAA
1 AAGTGACCAAAA
3837388 TGTATGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACGATAACGT
Found at i:3838034 original size:20 final size:20
Alignment explanation
Indices: 3837995--3838034 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3837985 GAAAACTGAG
*
3837995 CTGGACTGTTAATCGTTTAC
1 CTGGACTGTTAATCGCTTAC
* *
3838015 CTGGTCTGTTAATTGCTTAC
1 CTGGACTGTTAATCGCTTAC
3838035 ATGACCGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
CTGGACTGTTAATCGCTTAC
Found at i:3842527 original size:130 final size:130
Alignment explanation
Indices: 3842294--3842554 Score: 522
Period size: 130 Copynumber: 2.0 Consensus size: 130
3842284 TGCTTTGAAT
3842294 TTTCGAGGCTTTGTTCTTCTAATAGGTTCGAGTAGAAACATATTCCAAAGAAGCATGTATTATCA
1 TTTCGAGGCTTTGTTCTTCTAATAGGTTCGAGTAGAAACATATTCCAAAGAAGCATGTATTATCA
3842359 TTATGGACTCCGATGCATTTATCATTCCCCCACTTCTCAAAAGGTTTCATCATCGAATTTGAAAA
66 TTATGGACTCCGATGCATTTATCATTCCCCCACTTCTCAAAAGGTTTCATCATCGAATTTGAAAA
3842424 TTTCGAGGCTTTGTTCTTCTAATAGGTTCGAGTAGAAACATATTCCAAAGAAGCATGTATTATCA
1 TTTCGAGGCTTTGTTCTTCTAATAGGTTCGAGTAGAAACATATTCCAAAGAAGCATGTATTATCA
3842489 TTATGGACTCCGATGCATTTATCATTCCCCCACTTCTCAAAAGGTTTCATCATCGAATTTGAAAA
66 TTATGGACTCCGATGCATTTATCATTCCCCCACTTCTCAAAAGGTTTCATCATCGAATTTGAAAA
3842554 T
1 T
3842555 CCAAGAGAAA
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (130 bp):
TTTCGAGGCTTTGTTCTTCTAATAGGTTCGAGTAGAAACATATTCCAAAGAAGCATGTATTATCA
TTATGGACTCCGATGCATTTATCATTCCCCCACTTCTCAAAAGGTTTCATCATCGAATTTGAAAA
Found at i:3853349 original size:19 final size:19
Alignment explanation
Indices: 3853325--3853372 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
3853315 TTCTTAAAGA
3853325 CAAGCTTCAAATCGCAGTT
1 CAAGCTTCAAATCGCAGTT
*
3853344 CAAGCTTCAAATCGTAGTT
1 CAAGCTTCAAATCGCAGTT
3853363 CAAGCATTCA
1 CAAGC-TTCA
3853373 TCCGTAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (19 bp):
CAAGCTTCAAATCGCAGTT
Found at i:3854885 original size:34 final size:34
Alignment explanation
Indices: 3854842--3854910 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
3854832 ATAATTGTAT
3854842 GGAAGATCTTTACAAGATCGCTGTTAAGTTTTGA
1 GGAAGATCTTTACAAGATCGCTGTTAAGTTTTGA
3854876 GGAAGATCTTTACAAGATCGCTGTTAAGTTTTGA
1 GGAAGATCTTTACAAGATCGCTGTTAAGTTTTGA
3854910 G
1 G
3854911 TCCTATAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (34 bp):
GGAAGATCTTTACAAGATCGCTGTTAAGTTTTGA
Found at i:3856196 original size:3 final size:3
Alignment explanation
Indices: 3856188--3856265 Score: 93
Period size: 3 Copynumber: 25.3 Consensus size: 3
3856178 TTCATTTTAA
**
3856188 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
3856236 ATT AAT AGT AAT ATT ATTT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT A-TT ATT A-TT ATT A
3856266 AATATTACAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
3 59 0.91
4 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:3857703 original size:35 final size:35
Alignment explanation
Indices: 3857628--3857712 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 35
3857618 TAATTTAATT
*
3857628 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
3857663 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
3857698 TTTATT-TATTTAATA
1 TTTATTAT-TTTAATA
3857713 ATGTTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:3860598 original size:7 final size:7
Alignment explanation
Indices: 3860563--3860603 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
3860553 TTTTCATACA
3860563 TGCATTT
1 TGCATTT
3860570 T-CATTT
1 TGCATTT
3860576 TGCATCTT
1 TGCAT-TT
3860584 TGCATTT
1 TGCATTT
*
3860591 TTCATTT
1 TGCATTT
3860598 TGCATT
1 TGCATT
3860604 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:3865490 original size:114 final size:114
Alignment explanation
Indices: 3865209--3865546 Score: 577
Period size: 114 Copynumber: 3.0 Consensus size: 114
3865199 TGCCATGTGT
3865209 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
3865274 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATTTGC
66 TTTGGTATGAACCCC-AAAACCAATCATTGGATTTGAAAGATGAATTTGC
3865324 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
3865389 TTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGC
* * * *
3865438 TCATAGTATAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * * * *
3865503 TTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
3865547 CTGCATGATC
Statistics
Matches: 213, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
114 133 0.62
115 80 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGC
Found at i:3868822 original size:76 final size:76
Alignment explanation
Indices: 3868742--3869124 Score: 676
Period size: 76 Copynumber: 5.0 Consensus size: 76
3868732 CTATTTCCCA
* * *
3868742 CATCTGTAAGTCCTTCAGTGCATGATGTTTCAAAAAAACCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3868807 AGCCTTAGGGT
66 AGCCTTAGGGT
*
3868818 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3868883 AGCCTTAGGGT
66 AGCCTTAGGGT
*
3868894 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
3868959 AGCCTTATGGT
66 AGCCTTAGGGT
*
3868970 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
3869035 AGCCTTAGGGT
66 AGCCTTAGGGT
*
3869046 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
3869111 ACCCTCAGGGT
66 AGCCTTAGGGT
3869122 CAT
1 CAT
3869125 TCATAAGACC
Statistics
Matches: 293, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 293 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:3869289 original size:3 final size:3
Alignment explanation
Indices: 3869281--3869346 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
3869271 TTCATTTTAA
** * * *
3869281 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT AAT AGT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3869329 ATT ATTT ATT ATTT ATT A
1 ATT A-TT ATT A-TT ATT A
3869347 AATATTACAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:3870783 original size:35 final size:35
Alignment explanation
Indices: 3870708--3870792 Score: 86
Period size: 35 Copynumber: 2.4 Consensus size: 35
3870698 TAATTTAATT
*
3870708 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
3870743 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
3870778 TTTATT-TATTTAATA
1 TTTATTAT-TTTAATA
3870793 ATGTTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:3871809 original size:19 final size:20
Alignment explanation
Indices: 3871779--3871816 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3871769 CTTTTCTGAA
3871779 TGAGGATGATCTGCAGCTCT
1 TGAGGATGATCTGCAGCTCT
*
3871799 TGAGG-TGATCTGTAGCTC
1 TGAGGATGATCTGCAGCTC
3871817 ATGTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (20 bp):
TGAGGATGATCTGCAGCTCT
Found at i:3873602 original size:3 final size:3
Alignment explanation
Indices: 3873587--3873633 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
3873577 TTATTTAATT
*
3873587 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3873634 AATTACATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3874056 original size:10 final size:10
Alignment explanation
Indices: 3874041--3874066 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3874031 GGCAGAGAGA
3874041 ACCATTGGGG
1 ACCATTGGGG
3874051 ACCATTGGGG
1 ACCATTGGGG
3874061 ACCATT
1 ACCATT
3874067 CGGGTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (10 bp):
ACCATTGGGG
Found at i:3874983 original size:30 final size:30
Alignment explanation
Indices: 3874949--3875110 Score: 145
Period size: 30 Copynumber: 5.4 Consensus size: 30
3874939 TTATAATTAC
*
3874949 TATTTTAGTCCTTTAAGTTTTTGTTTTTAT
1 TATTTTAGTCCTTTAAGTTTCTGTTTTTAT
* *
3874979 TATTTTAG-CTTTATAAGTTTCTG-TTTTAGC
1 TATTTTAGTCCTT-TAAGTTTCTGTTTTTA-T
* * *
3875009 TATTTTGGTCCTTAAACTTTCTG-TTTTAGT
1 TATTTTAGTCCTTTAAGTTTCTGTTTTTA-T
* * *
3875039 TATTTTAGTCCCTTAAATGTCTGTATTTTA-
1 TATTTTAGTCCTTTAAGTTTCTGT-TTTTAT
* * *
3875069 TA-TTTAGTCCCTTAACTTTCTGTTATTAT
1 TATTTTAGTCCTTTAAGTTTCTGTTTTTAT
3875098 TATTTTAGTCCTT
1 TATTTTAGTCCTT
3875111 AGTTTTATGT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
28 4 0.04
29 29 0.27
30 67 0.62
31 3 0.03
32 5 0.05
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.58
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAGTTTCTGTTTTTAT
Found at i:3875121 original size:29 final size:30
Alignment explanation
Indices: 3875038--3875121 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 30
3875028 TCTGTTTTAG
* * *
3875038 TTAT-TTTAGTCCCTTAAATGTCTG-TATT
1 TTATATTTAGTCCCTTAACTTTATGTTATT
*
3875066 TTATATTTAGTCCCTTAACTTTCTGTTATT
1 TTATATTTAGTCCCTTAACTTTATGTTATT
**
3875096 ATTAT-TTTAGT-CCTTAGTTTTATGTT
1 -TTATATTTAGTCCCTTAACTTTATGTT
3875122 TTTGATGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.08
29 30 0.62
30 10 0.21
31 4 0.08
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (30 bp):
TTATATTTAGTCCCTTAACTTTATGTTATT
Found at i:3875929 original size:16 final size:17
Alignment explanation
Indices: 3875892--3875929 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
3875882 ATGCAGACCA
3875892 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
* *
3875909 ATTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
3875925 TTTTT
1 TTTTT
3875930 AAAAGATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:3885345 original size:21 final size:21
Alignment explanation
Indices: 3885302--3885345 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3885292 AGATGAACTA
*
3885302 TGGCTTTGCAAAAGTGTTGCT
1 TGGCTTTGCAAAAGTGTTCCT
*
3885323 TGGCTTTGTAACAAGT-TTCCT
1 TGGCTTTGCAA-AAGTGTTCCT
3885344 TG
1 TG
3885346 ATTTTAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (21 bp):
TGGCTTTGCAAAAGTGTTCCT
Found at i:3897487 original size:18 final size:18
Alignment explanation
Indices: 3897464--3897507 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
3897454 TGAAGGGAAT
3897464 TTTGAAATAGAGTTTACA
1 TTTGAAATAGAGTTTACA
3897482 TTTGAAATAGAGTTTACA
1 TTTGAAATAGAGTTTACA
3897500 TTTGAAAT
1 TTTGAAAT
3897508 TTGAGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTGAAATAGAGTTTACA
Found at i:3898543 original size:18 final size:18
Alignment explanation
Indices: 3898483--3898555 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
3898473 AGGGATTATC
*
3898483 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* * *
3898501 AGTAGTTCTTCGGAACAATT
1 AGTGGTCCTTCGGGAC-A-T
3898521 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
3898539 AGTGGTCATTTGGGACA
1 AGTGGTCCTTCGGGACA
3898556 AATATTCAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 28 0.64
19 2 0.05
20 14 0.32
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:3903963 original size:18 final size:18
Alignment explanation
Indices: 3903940--3904030 Score: 121
Period size: 18 Copynumber: 4.9 Consensus size: 18
3903930 AGGGATTATC
3903940 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCAGGACAT
3903958 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCAGGACAT
*
3903976 AGTGGTTCTTC-GGAACAATT
1 AGTGGTCCTTCAGG-AC-A-T
*
3903996 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCAGGACAT
*
3904014 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCAGGACA
3904031 AATATTCAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
17 2 0.03
18 48 0.72
19 2 0.03
20 13 0.19
21 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:3904000 original size:38 final size:38
Alignment explanation
Indices: 3903940--3904031 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
3903930 AGGGATTATC
3903940 AGTGGTCCTTCAGG-AC-A-TAGTGGTCCTTCAGGACAT
1 AGTGGTCCTTC-GGAACAATTAGTGGTCCTTCAGGACAT
* *
3903976 AGTGGTTCTTCGGAACAATTAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGAACAATTAGTGGTCCTTCAGGACAT
*
3904014 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGAACAA
3904032 ATATTCAGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 2 0.04
36 12 0.24
37 1 0.02
38 34 0.69
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (38 bp):
AGTGGTCCTTCGGAACAATTAGTGGTCCTTCAGGACAT
Found at i:3906232 original size:2 final size:2
Alignment explanation
Indices: 3906225--3906294 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
3906215 TATACCCATA
3906225 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3906267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3906295 GTATGTATGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3907367 original size:4 final size:4
Alignment explanation
Indices: 3907358--3907403 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
3907348 ATACATCAAC
*
3907358 ACAT ACAT ACAT ACAT ATAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
3907404 GATACATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:3907389 original size:18 final size:18
Alignment explanation
Indices: 3907358--3907402 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
3907348 ATACATCAAC
3907358 ACATACAT--ACATACAT
1 ACATACATACACATACAT
*
3907374 ATATACATACACATACAT
1 ACATACATACACATACAT
3907392 ACATACATACA
1 ACATACATACA
3907403 TGATACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
18 18 0.72
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (18 bp):
ACATACATACACATACAT
Found at i:3907390 original size:22 final size:22
Alignment explanation
Indices: 3907362--3907403 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3907352 ATCAACACAT
*
3907362 ACATACATACATATATACATAC
1 ACATACATACATACATACATAC
3907384 ACATACATACATACATACAT
1 ACATACATACATACATACAT
3907404 GATACATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
ACATACATACATACATACATAC
Found at i:3907815 original size:36 final size:37
Alignment explanation
Indices: 3907756--3907828 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
3907746 TAAAAATTTT
*
3907756 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTCTC
1 AAAACAAATTTTCGTCTCGCTTGAGACAATTTCTCTC
* *
3907793 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTTTCTC
1 AAAACAAATTTTCGTCTCGCTTGAGACAATTTCTCTC
3907829 TGAGATACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (37 bp):
AAAACAAATTTTCGTCTCGCTTGAGACAATTTCTCTC
Found at i:3908076 original size:28 final size:28
Alignment explanation
Indices: 3908017--3908123 Score: 103
Period size: 28 Copynumber: 3.8 Consensus size: 28
3908007 CTTGAGACAG
*
3908017 TTTCTCTTT-AAACAAATCTTTGAGTCTA
1 TTTCT-TTTAAAAAAAATCTTTGAGTCTA
* *
3908045 TTTCTTTTAAAAAAAATCTTTGAGTTTG
1 TTTCTTTTAAAAAAAATCTTTGAGTCTA
* * *
3908073 TTTCTATTAACAAAATCATCTTTGAGCCTA
1 TTTCTTTTAA-AAAA-AATCTTTGAGTCTA
3908103 TTTC-TTTAAAAACAAAT-TTTG
1 TTTCTTTTAAAAA-AAATCTTTG
3908124 TCTCTCTTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 7 0.11
28 35 0.54
29 9 0.14
30 14 0.22
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (28 bp):
TTTCTTTTAAAAAAAATCTTTGAGTCTA
Found at i:3908142 original size:66 final size:64
Alignment explanation
Indices: 3908072--3908249 Score: 196
Period size: 67 Copynumber: 2.7 Consensus size: 64
3908062 CTTTGAGTTT
* * * ** *
3908072 GTTTCTATTAACAAAATCATCTTTGAGCCTATTTCTTTAAAAACAAATTTTGTCTCTCTTGAGAT
1 GTTTCTATTGA-AAAA-CATCTTTGAGACTGTTTCTTTGGAAACAAATTTTGTCTCTCTTGAGAC
3908137 A
64 A
* * *
3908138 GTTTCTAATGAAAAACCAACTTTTGAGATTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGA
1 GTTTCTATTGAAAAA-CATC-TTTGAGACTGTTTCTTTGGAAAC-AAATTTTGTCTCTCTTGAGA
3908203 CA
63 CA
* *
3908205 GTTTCTTTTGAGAAAA-ATCTTTGAGTCTGTTTCTTTGGAAACAAA
1 GTTTCTATTGA-AAAACATCTTTGAGACTGTTTCTTTGGAAACAAA
3908250 ATTTACCATC
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
64 3 0.03
65 28 0.30
66 29 0.31
67 30 0.32
68 4 0.04
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (64 bp):
GTTTCTATTGAAAAACATCTTTGAGACTGTTTCTTTGGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:3908210 original size:67 final size:65
Alignment explanation
Indices: 3908090--3908253 Score: 199
Period size: 67 Copynumber: 2.5 Consensus size: 65
3908080 TAACAAAATC
* * ** *
3908090 ATCTTTGAGCCTATTTCTTTAAAAAC-AAATTTTGTCTCTCTTGAGATAGTTTCTAATGAAAAAC
1 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTAATGAAAAA-
3908154 CA
65 -A
** *
3908156 A-CTTTTGAGAT-TGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAGAA
1 ATC-TTTGAG-TCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTAATGAAAA
3908219 AA
64 AA
3908221 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTT
1 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTT
3908254 ACCATCTTTG
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
64 1 0.01
65 31 0.36
66 20 0.24
67 33 0.39
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (65 bp):
ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTAATGAAAAAA
Found at i:3908242 original size:65 final size:65
Alignment explanation
Indices: 3908084--3908253 Score: 202
Period size: 65 Copynumber: 2.6 Consensus size: 65
3908074 TTCTATTAAC
* * * ** *
3908084 AAAATCATCTTTGAGCCTATTTCTTTAAAAAC-AAATTTTGTCTCTCTTGAGATAGTTTCTAATG
1 AAAAACATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTAATG
* *
3908148 AAAAACCAACTTTTGAGAT-TGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTT
1 AAAAA-CATC-TTTGAG-TCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTA
*
3908212 TTG
63 ATG
3908215 AGAAAA-ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTT
1 A-AAAACATCTTTGAGTCTGTTTCTTTGGAAACAAAATTT
3908254 ACCATCTTTG
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
64 5 0.06
65 31 0.34
66 20 0.22
67 30 0.33
68 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (65 bp):
AAAAACATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTAATG
Found at i:3908287 original size:65 final size:65
Alignment explanation
Indices: 3908159--3908287 Score: 147
Period size: 65 Copynumber: 2.0 Consensus size: 65
3908149 AAAACCAACT
** ** *
3908159 TTTGAGATTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAGAAAAATC
1 TTTGAGATTGTTTCTTTGGAAACAAAATTTTACCTCTCTTGAGACAGTTTCCCTTGAAAAAAATC
* *
3908224 TTTGAG-TCTGTTTCTTTGGAAACAAAA-TTTACCATCT-TTGAGTCTGTTTCCCTTGAAACAAA
1 TTTGAGAT-TGTTTCTTTGGAAACAAAATTTTACC-TCTCTTGAGACAGTTTCCCTTGAAA-AAA
3908286 AT
63 AT
3908288 AAACATCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
64 21 0.39
65 33 0.61
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (65 bp):
TTTGAGATTGTTTCTTTGGAAACAAAATTTTACCTCTCTTGAGACAGTTTCCCTTGAAAAAAATC
Found at i:3908308 original size:35 final size:37
Alignment explanation
Indices: 3908221--3908312 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 37
3908211 TTTGAGAAAA
* * *
3908221 ATCTTTGAGTCTGTTT-CTTTGGAAACAAAATTTACC
1 ATCTTTGAGTCTGTTTCCCTTGGAAACAAAATTAAAC
3908257 ATCTTTGAGTCTGTTTCCCTT-GAAACAAAA-TAAAC
1 ATCTTTGAGTCTGTTTCCCTTGGAAACAAAATTAAAC
3908292 ATCTTTGAGATC-GTTTCCCTT
1 ATCTTTGAG-TCTGTTTCCCTT
3908313 TAAATGAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
35 21 0.41
36 27 0.53
37 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCTTTGAGTCTGTTTCCCTTGGAAACAAAATTAAAC
Found at i:3908782 original size:134 final size:135
Alignment explanation
Indices: 3908542--3908821 Score: 352
Period size: 134 Copynumber: 2.1 Consensus size: 135
3908532 AACCAAAATC
* ** *
3908542 CCTAAAGATTG-TCAGCCGTCCTCATCACGTAGGAACTGTGTCATCCCCTAACCAAACCTCCTCA
1 CCTAAAGATGGCTCAGCCGTCCTCATCACGTAGGAACCATGTCATCCCCCAACCAAACCTCCTCA
* * * *
3908606 TCACGTAGAAGCTGTGTCAACCATAGATAACATGTCGTCCTCATCATGTAGGAACCGAGTTATCA
66 TCACATAGAAGCAGTGTCAACCATAGATAACATGCCGTCCTCATCACGTAGGAACCGAGTTATCA
3908671 TCAC-T
131 -CACTT
* * * * *
3908676 CCTAAAGATGGCT-AGCCGTTCTCATCACGTAGGAACCATGTTATCCCCCGACCAGACCTTCTCA
1 CCTAAAGATGGCTCAGCCGTCCTCATCACGTAGGAACCATGTCATCCCCCAACCAAACCTCCTCA
* * * * *
3908740 TCACATAGGAGCAGTGTCACCCCTAGATAACCA-GCCGTCCTCATCGCGTAGGAACTGAGTTATC
66 TCACATAGAAGCAGTGTCAACCATAGATAA-CATGCCGTCCTCATCACGTAGGAACCGAGTTATC
3908804 ACACTT
130 ACACTT
3908810 CCTAAAGATGGC
1 CCTAAAGATGGC
3908822 CAAGAACTCT
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
133 3 0.02
134 119 0.95
135 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (135 bp):
CCTAAAGATGGCTCAGCCGTCCTCATCACGTAGGAACCATGTCATCCCCCAACCAAACCTCCTCA
TCACATAGAAGCAGTGTCAACCATAGATAACATGCCGTCCTCATCACGTAGGAACCGAGTTATCA
CACTT
Found at i:3909130 original size:16 final size:16
Alignment explanation
Indices: 3909111--3909156 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
3909101 TTATTTAATT
*
3909111 TTATTACTATTATTAA
1 TTATTATTATTATTAA
*
3909127 TTATTATTATTATTAG
1 TTATTATTATTATTAA
3909143 TTATTATTATTATT
1 TTATTATTATTATT
3909157 TTTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
TTATTATTATTATTAA
Found at i:3909132 original size:3 final size:3
Alignment explanation
Indices: 3909111--3909163 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
3909101 TTATTTAATT
* *
3909111 TTA TTA CTA TTA TTAA TTA TTA TTA TTA TTA GTTA TTA TTA TTA TTT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
3909158 TTA TTA
1 TTA TTA
3909164 AATTACATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3910641 original size:30 final size:28
Alignment explanation
Indices: 3910574--3910641 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
3910564 TATTTTAGTC
3910574 ATTTTAGTCCCTTAAATATATGTATTTT
1 ATTTTAGTCCCTTAAATATATGTATTTT
* * *
3910602 ATATTTAGTCCCTTAACTTTTTGTTATTATT
1 AT-TTTAGTCCCTTAAATATATG-TATT-TT
3910633 ATTTTAGTC
1 ATTTTAGTC
3910642 TTTAGTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.50
30 11 0.32
31 4 0.12
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (28 bp):
ATTTTAGTCCCTTAAATATATGTATTTT
Found at i:3910655 original size:29 final size:28
Alignment explanation
Indices: 3910619--3910673 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
3910609 GTCCCTTAAC
3910619 TTTTTGTTATTATTATTTTAGTCTTTAG
1 TTTTTGTTATTATTATTTTAGTCTTTAG
* * * *
3910647 TTTTATGTTTTTGTTGTTTTGGTCTTT
1 TTTT-TGTTATTATTATTTTAGTCTTT
3910674 GTAACTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.18
29 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.15, T:0.71
Consensus pattern (28 bp):
TTTTTGTTATTATTATTTTAGTCTTTAG
Found at i:3911471 original size:16 final size:18
Alignment explanation
Indices: 3911432--3911471 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
3911422 TAACTCAAAC
3911432 TATTTTTGTCTTAAAAAT
1 TATTTTTGTCTTAAAAAT
*
3911450 GA-TTTT-TCTT-AAAAT
1 TATTTTTGTCTTAAAAAT
3911465 TATTTTT
1 TATTTTT
3911472 AAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
15 6 0.32
16 8 0.42
17 4 0.21
18 1 0.05
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TATTTTTGTCTTAAAAAT
Found at i:3913855 original size:23 final size:22
Alignment explanation
Indices: 3913827--3913885 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
3913817 AATTTTCTTT
3913827 TATTTTTGTTTTAACATATTAAA
1 TATTTTT-TTTTAACATATTAAA
* *
3913850 TATTTTTTCTTAACTTATTAAA
1 TATTTTTTTTTAACATATTAAA
3913872 TATATTTATTTTTA
1 TAT-TTT-TTTTTA
3913886 TTTTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.52
23 10 0.32
24 5 0.16
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTTTTTTTAACATATTAAA
Found at i:3914217 original size:30 final size:30
Alignment explanation
Indices: 3914183--3914413 Score: 156
Period size: 30 Copynumber: 7.6 Consensus size: 30
3914173 TTAGATAATG
*
3914183 ATAAAATATATTTTTAATTTAAAATAAAAT
1 ATAAAATATATTTTTAAGTTAAAATAAAAT
3914213 ATAAAATATATTTTTAAGTGAAGATAAGAATAAAAT
1 ATAAAATATATTTTTAAGT-----TAA-AATAAAAT
* ***
3914249 ATTTAAATATA-TTTTAAGTTAAAATATTGT
1 A-TAAAATATATTTTTAAGTTAAAATAAAAT
* ** *
3914279 A-AAAATATATTTTTAAGTGATTAT-AAAG
1 ATAAAATATATTTTTAAGTTAAAATAAAAT
3914307 ATAAAATATATATTTTACA-TTAAAATAAAA-
1 ATAAAATATAT-TTTTA-AGTTAAAATAAAAT
* * *
3914337 AT-AAATATATTTAATAAATTAAGAA-AAAAA
1 ATAAAATATATTT-TTAAGTTAA-AATAAAAT
*
3914367 ATAAAATATATTTAATAAGTT-AAATCAAAAT
1 ATAAAATATATTT-TTAAGTTAAAAT-AAAAT
*
3914398 -TAAAATATAATTTTAA
1 ATAAAATATATTTTTAA
3914414 AAATTTAAGA
Statistics
Matches: 161, Mismatches: 21, Indels: 39
0.73 0.10 0.18
Matches are distributed among these distances:
28 11 0.07
29 43 0.27
30 51 0.32
31 28 0.17
35 3 0.02
36 17 0.11
37 8 0.05
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (30 bp):
ATAAAATATATTTTTAAGTTAAAATAAAAT
Found at i:3914293 original size:65 final size:67
Alignment explanation
Indices: 3914186--3914315 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 67
3914176 GATAATGATA
*
3914186 AAATATATTTTTAATTTAAAATAAAATATAAAATATATTTTTAAGTGAAGAT-AAGAATAAAATA
1 AAATATATTTTTAAGTTAAAATAAAATATAAAATATATTTTTAAGTGAAGATAAAG-ATAAAATA
3914250 TTT
65 TTT
*** **
3914253 AAATATA-TTTTAAGTTAAAATATTGTA-AAAATATATTTTTAAGTGATTATAAAGATAAAATAT
1 AAATATATTTTTAAGTTAAAATAAAATATAAAATATATTTTTAAGTGAAGATAAAGATAAAATAT
3914316 ATATTTTACA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 30 0.54
66 19 0.34
67 7 0.12
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (67 bp):
AAATATATTTTTAAGTTAAAATAAAATATAAAATATATTTTTAAGTGAAGATAAAGATAAAATAT
TT
Found at i:3914328 original size:27 final size:26
Alignment explanation
Indices: 3914298--3914349 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
3914288 TTTTTAAGTG
*
3914298 ATTATAAAGATAAAATATATAT-TTTAC
1 ATTA-AAAGA-AAAATAAATATATTTAC
*
3914325 ATTAAAATAAAAATAAATATATTTA
1 ATTAAAAGAAAAATAAATATATTTA
3914350 ATAAATTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 8 0.36
27 4 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
ATTAAAAGAAAAATAAATATATTTAC
Found at i:3914338 original size:65 final size:59
Alignment explanation
Indices: 3914175--3914413 Score: 170
Period size: 59 Copynumber: 3.9 Consensus size: 59
3914165 TTAAAAATTT
*
3914175 AGATAATGATAAAATATAT-TTTTAATTTAAAATAAAATATAAAATATATTTTTAAGTGA
1 AGATAAAGATAAAATATATATTTTAA-TTAAAATAAAATATAAAATATATTTTTAAGTGA
***
3914234 AGAT-AAGAATAAAATATTTAAATATATTTTAAGTTAAAATATTGTA-AAAATATATTTTTAAGT
1 AGATAAAG-AT-AAA-A--T--ATATATTTTAA-TTAAAATAAAATATAAAATATATTTTTAAGT
3914297 GA
58 GA
** * * *
3914299 TTATAAAGATAAAATATATATTTTACATTAAAATAAAA-AT-AAATATATTTAATAAATTA
1 AGATAAAGATAAAATATATATTTTA-ATTAAAATAAAATATAAAATATATTT-TTAAGTGA
* * * *
3914358 AGAAAAAAAATAAAATATAT-TTAATAAGTT-AAATCAAAAT-TAAAATATAATTTTAA
1 AG-ATAAAGATAAAATATATATT-TTAA-TTAAAAT-AAAATATAAAATATATTTTTAA
3914414 AAATTTAAGA
Statistics
Matches: 142, Mismatches: 20, Indels: 35
0.72 0.10 0.18
Matches are distributed among these distances:
58 13 0.09
59 36 0.25
60 31 0.22
61 11 0.08
63 2 0.01
64 3 0.02
65 27 0.19
66 19 0.13
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (59 bp):
AGATAAAGATAAAATATATATTTTAATTAAAATAAAATATAAAATATATTTTTAAGTGA
Found at i:3915773 original size:16 final size:16
Alignment explanation
Indices: 3915752--3915783 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3915742 CTCTCCATCA
3915752 CAATCAAAGGAAAAGG
1 CAATCAAAGGAAAAGG
3915768 CAATCAAAGGAAAAGG
1 CAATCAAAGGAAAAGG
3915784 AACAGCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.25, T:0.06
Consensus pattern (16 bp):
CAATCAAAGGAAAAGG
Found at i:3916067 original size:33 final size:33
Alignment explanation
Indices: 3916026--3916102 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
3916016 TTTTGAATCA
3916026 AACTTTCTTGGGAGATTCTTGTCACAAGTTTTT
1 AACTTTCTTGGGAGATTCTTGTCACAAGTTTTT
3916059 AACTTTCTTGGGAGATTCTTGTCACAAGTTTTT
1 AACTTTCTTGGGAGATTCTTGTCACAAGTTTTT
**
3916092 ATTTTTCTTGG
1 AACTTTCTTGG
3916103 TGGGTTTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.48
Consensus pattern (33 bp):
AACTTTCTTGGGAGATTCTTGTCACAAGTTTTT
Found at i:3916703 original size:56 final size:57
Alignment explanation
Indices: 3916617--3916732 Score: 207
Period size: 56 Copynumber: 2.0 Consensus size: 57
3916607 AATTTTGACT
3916617 TAATATTATATGAATCTATGTTTACTTGGATTCGAA-CGAGTGGTGGATACAACTAC
1 TAATATTATATGAATCTATGTTTACTTGGATTCGAATCGAGTGGTGGATACAACTAC
*
3916673 TAATATTATATGAATCTATGTTTACTTGGATTCGAATTCGAGTGGTGGATACCACTAC
1 TAATATTATATGAATCTATGTTTACTTGGATTCGAA-TCGAGTGGTGGATACAACTAC
3916731 TA
1 TA
3916733 GTAAGTGTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 36 0.63
58 21 0.37
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (57 bp):
TAATATTATATGAATCTATGTTTACTTGGATTCGAATCGAGTGGTGGATACAACTAC
Found at i:3918853 original size:37 final size:37
Alignment explanation
Indices: 3918812--3918886 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
3918802 GATGAGAAAG
*
3918812 ATACGGAGCATGAATGTGTATATTACCATATTAGTTC
1 ATACGAAGCATGAATGTGTATATTACCATATTAGTTC
*
3918849 ATACGAAGCATGAATGTGTATATTATCATATTAGTTC
1 ATACGAAGCATGAATGTGTATATTACCATATTAGTTC
3918886 A
1 A
3918887 CAATAAGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (37 bp):
ATACGAAGCATGAATGTGTATATTACCATATTAGTTC
Found at i:3918902 original size:37 final size:37
Alignment explanation
Indices: 3918821--3918895 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
3918811 GATACGGAGC
* * *
3918821 ATGAATGTGTATATTACCATATTAGTTCATACGAAGC
1 ATGAATGTGTATATTACCATATTAGTTCACAAGAAGA
* *
3918858 ATGAATGTGTATATTATCATATTAGTTCACAATAAGA
1 ATGAATGTGTATATTACCATATTAGTTCACAAGAAGA
3918895 A
1 A
3918896 CTAATGTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGAATGTGTATATTACCATATTAGTTCACAAGAAGA
Found at i:3924915 original size:7 final size:7
Alignment explanation
Indices: 3924903--3924930 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3924893 AAAACCAATT
3924903 GTTCCAG
1 GTTCCAG
3924910 GTTCCAG
1 GTTCCAG
3924917 GTTCCAG
1 GTTCCAG
3924924 GTTCCAG
1 GTTCCAG
3924931 ACATCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
GTTCCAG
Found at i:3926306 original size:29 final size:28
Alignment explanation
Indices: 3926256--3926317 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
3926246 ACTATTTCAT
*
3926256 GAAATAATTTGTCGACTGCATTATTCGA
1 GAAATAATTTGTCGACTACATTATTCGA
* *
3926284 GCAAATAATTTTTTC-ACTACATTATTTGA
1 G-AAATAA-TTTGTCGACTACATTATTCGA
3926313 GAAAT
1 GAAAT
3926318 TCACTCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.17
29 19 0.66
30 5 0.17
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (28 bp):
GAAATAATTTGTCGACTACATTATTCGA
Found at i:3927104 original size:16 final size:17
Alignment explanation
Indices: 3927074--3927106 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3927064 TTCACAAGCT
3927074 TTCAGCAACACACCAAC
1 TTCAGCAACACACCAAC
*
3927091 TTCAGCTACA-ACCAAC
1 TTCAGCAACACACCAAC
3927107 CATAGTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.39, G:0.06, T:0.15
Consensus pattern (17 bp):
TTCAGCAACACACCAAC
Found at i:3931669 original size:27 final size:26
Alignment explanation
Indices: 3931639--3931696 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
3931629 AGCTCAAACA
*
3931639 AACTTCACAAGCTTTCA-GCAACACACC
1 AACTTCAC-AGC-TACATGCAACACACC
3931666 AACTT--CAGCTACATGCAACACACC
1 AACTTCACAGCTACATGCAACACACC
3931690 AACTTCA
1 AACTTCA
3931697 GCTACACGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 1 0.04
27 5 0.19
ACGTcount: A:0.38, C:0.36, G:0.07, T:0.19
Consensus pattern (26 bp):
AACTTCACAGCTACATGCAACACACC
Found at i:3931683 original size:24 final size:24
Alignment explanation
Indices: 3931656--3931702 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
3931646 CAAGCTTTCA
3931656 GCAACACACCAACTTCAGCTACAT
1 GCAACACACCAACTTCAGCTACAT
3931680 GCAACACACCAACTTCAGCTACA
1 GCAACACACCAACTTCAGCTACA
3931703 CGCCAACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.38, G:0.09, T:0.15
Consensus pattern (24 bp):
GCAACACACCAACTTCAGCTACAT
Found at i:3937158 original size:76 final size:75
Alignment explanation
Indices: 3937039--3937182 Score: 234
Period size: 76 Copynumber: 1.9 Consensus size: 75
3937029 CACAAAAACA
*
3937039 TCATTAAATAAAAATTATGTTTAGTGATATTTGGGGCCTTCAAACTTTTAAAAATAATTAGTGTA
1 TCATTAAATAAAAATTATGTTTAGTGATATTTGGGGCCCTCAAACTTTTAAAAATAATTAGTGTA
3937104 GCCAAAAATG
66 GCCAAAAATG
* * * *
3937114 TCATTAAAATAAAAATTATGTTTAGTGGTATTTGTGGCCCTCAAATTTTTGAAAATAATTAGTGT
1 TCATT-AAATAAAAATTATGTTTAGTGATATTTGGGGCCCTCAAACTTTTAAAAATAATTAGTGT
3937179 AGCC
65 AGCC
3937183 CTTATTCTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 5 0.08
76 58 0.92
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (75 bp):
TCATTAAATAAAAATTATGTTTAGTGATATTTGGGGCCCTCAAACTTTTAAAAATAATTAGTGTA
GCCAAAAATG
Found at i:3939283 original size:52 final size:52
Alignment explanation
Indices: 3939221--3939334 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 52
3939211 AAAAATATTT
* *** *
3939221 ACATAATCAAATATTCTTAATGCATTGCATATATTCTGAATTCAACATATCA
1 ACATAATCAAATATTCTTAACGCAAAACATATATTCTGAATCCAACATATCA
* *
3939273 ACATAATCAAATATTCTTAACGCAAAACATATATTGTGAATCCGACATATCA
1 ACATAATCAAATATTCTTAACGCAAAACATATATTCTGAATCCAACATATCA
*
3939325 ATATGAATCA
1 ACAT-AATCA
3939335 CGTGACAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 48 0.91
53 5 0.09
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (52 bp):
ACATAATCAAATATTCTTAACGCAAAACATATATTCTGAATCCAACATATCA
Found at i:3947124 original size:2 final size:2
Alignment explanation
Indices: 3947112--3947165 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
3947102 GCCACAACCG
3947112 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3947153 TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA
3947166 GGTTATAGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3950527 original size:13 final size:13
Alignment explanation
Indices: 3950509--3950540 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3950499 TTGACTTTTT
3950509 AGTCAAAGTCAAC
1 AGTCAAAGTCAAC
3950522 AGTCAAAGTCAAC
1 AGTCAAAGTCAAC
*
3950535 GGTCAA
1 AGTCAA
3950541 TCAAAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.16
Consensus pattern (13 bp):
AGTCAAAGTCAAC
Found at i:3950573 original size:14 final size:14
Alignment explanation
Indices: 3950554--3950589 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3950544 AAGTCAATGG
*
3950554 GTTGACTCAGACGA
1 GTTGACTCAGACAA
*
3950568 GTTGACTTAGACAA
1 GTTGACTCAGACAA
3950582 GTTGACTC
1 GTTGACTC
3950590 GAATGAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (14 bp):
GTTGACTCAGACAA
Found at i:3956846 original size:2 final size:2
Alignment explanation
Indices: 3956809--3956838 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3956799 ATCACACCTC
3956809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3956839 GTTATATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3969318 original size:80 final size:79
Alignment explanation
Indices: 3969170--3969319 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
3969160 CCTACCCTAT
* ** *
3969170 ATTTTGAATATTGTTTATTTGATATCTGATTTACCATATACTTCTGATATGATTTCTGGTTACAG
1 ATTTTGAATATTGCTTATCCGATATCTGATTTACCATATACTTCTGATATGATTTCTGATTACAG
3969235 TATTTTTATACCTG
66 TATTTTTATACCTG
* * *
3969249 ATTTCTGAATATTGCTTATCCGATATCTGATTTACTATATA-TTACTGATTTGATTTCTGATTTC
1 ATTT-TGAATATTGCTTATCCGATATCTGATTTACCATATACTT-CTGATATGATTTCTGATTAC
*
3969313 CGTATTT
64 AGTATTT
3969320 CTGTATATGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 6 0.10
80 55 0.90
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.51
Consensus pattern (79 bp):
ATTTTGAATATTGCTTATCCGATATCTGATTTACCATATACTTCTGATATGATTTCTGATTACAG
TATTTTTATACCTG
Done.