Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 87 of 145
Found at i:29614921 original size:17 final size:18
Alignment explanation
Indices: 29614882--29614922 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
29614872 AATCTTTAAA
29614882 ATAAT-ATTAAAAGAAAT
1 ATAATAATTAAAAGAAAT
* *
29614899 AAAATAATTAAAA-AATT
1 ATAATAATTAAAAGAAAT
29614916 ATAATAA
1 ATAATAA
29614923 ACAGCACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAATAATTAAAAGAAAT
Found at i:29619332 original size:18 final size:18
Alignment explanation
Indices: 29619311--29619353 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
29619301 TTCAATTGAA
**
29619311 GAAGAAGATGTCGGTGAG
1 GAAGAAGATGTAAGTGAG
29619329 GAAGAAGATGTAAGTGAG
1 GAAGAAGATGTAAGTGAG
29619347 GAAGAAG
1 GAAGAAG
29619354 GGGCAGTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.42, T:0.14
Consensus pattern (18 bp):
GAAGAAGATGTAAGTGAG
Found at i:29624489 original size:29 final size:31
Alignment explanation
Indices: 29624456--29624529 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 31
29624446 TTAAAGTTAT
* *
29624456 AAAAATTATTAAACTTTAATAAAAA-TA-TA
1 AAAAATTATTAAAATTTAATAAAAATTAGAA
*
29624485 AAAAA-TATTTAAAATTTACTAAAAATTAGAA
1 AAAAATTA-TTAAAATTTAATAAAAATTAGAA
29624516 AAAAATTA-TAAAAT
1 AAAAATTATTAAAAT
29624530 GCATAAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.05
29 20 0.53
30 8 0.21
31 6 0.16
32 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (31 bp):
AAAAATTATTAAAATTTAATAAAAATTAGAA
Found at i:29624536 original size:29 final size:28
Alignment explanation
Indices: 29624474--29624538 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
29624464 TTAAACTTTA
* **
29624474 ATAAAAATATAAAAAATATTTAAAATTT
1 ATAAAAATATAAAAAAAATTTAAAATGC
29624502 ACTAAAAAT-TAGAAAAAAATTATAAAATGC
1 A-TAAAAATATA-AAAAAAATT-TAAAATGC
29624532 ATAAAAA
1 ATAAAAA
29624539 GGTGATACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 21 0.68
30 7 0.23
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (28 bp):
ATAAAAATATAAAAAAAATTTAAAATGC
Found at i:29624785 original size:24 final size:26
Alignment explanation
Indices: 29624736--29624799 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
29624726 AAGAAGGGCT
*
29624736 GAAATTGGCTAAGTGAAATGATGATG
1 GAAATTGGCTAAGTGAAATGAGGATG
*
29624762 GAAA-TGGCTAGGTG-AATGAGGATG
1 GAAATTGGCTAAGTGAAATGAGGATG
*
29624786 GAGATTCGGCTAAG
1 GAAATT-GGCTAAG
29624800 GCTTTGAGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 12 0.38
25 10 0.31
26 10 0.31
ACGTcount: A:0.34, C:0.06, G:0.36, T:0.23
Consensus pattern (26 bp):
GAAATTGGCTAAGTGAAATGAGGATG
Found at i:29629080 original size:21 final size:22
Alignment explanation
Indices: 29629055--29629114 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 22
29629045 TTATGATAAG
29629055 TTTTATAATTCTTTTACGA-AT
1 TTTTATAATTCTTTTACGATAT
*
29629076 TTTTATAATTC-TTTAC-ATTT
1 TTTTATAATTCTTTTACGATAT
29629096 TTTTATAATT-TTCTTACGA
1 TTTTATAATTCTT-TTACGA
29629115 CTTTATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 1 0.03
20 17 0.50
21 15 0.44
22 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (22 bp):
TTTTATAATTCTTTTACGATAT
Found at i:29629131 original size:29 final size:29
Alignment explanation
Indices: 29629096--29629192 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
29629086 CTTTACATTT
29629096 TTTTATAATTTTCTTACGACTTTATAAAA
1 TTTTATAATTTTCTTACGACTTTATAAAA
* * *
29629125 TTATAT-ATATTTC-TAC-ACTTT-TCTATA
1 TTTTATAAT-TTTCTTACGACTTTAT-AAAA
*
29629152 TTTTATAATTTT-TTACGATTTTTATAAAA
1 TTTTATAATTTTCTTACGA-CTTTATAAAA
*
29629181 TTTTACAATTTT
1 TTTTATAATTTT
29629193 TATAAAAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
26 1 0.02
27 18 0.34
28 8 0.15
29 25 0.47
30 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTATAATTTTCTTACGACTTTATAAAA
Found at i:29629174 original size:19 final size:19
Alignment explanation
Indices: 29629152--29629199 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
29629142 CTTTTCTATA
** *
29629152 TTTTATAATTTTTTACGAT
1 TTTTATAAAATTTTACAAT
29629171 TTTTATAAAATTTTACAAT
1 TTTTATAAAATTTTACAAT
29629190 TTTTATAAAA
1 TTTTATAAAA
29629200 ATTAAGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTATAAAATTTTACAAT
Found at i:29629239 original size:9 final size:9
Alignment explanation
Indices: 29629227--29629259 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
29629217 TTTTTAATTA
29629227 AAATTTAAT
1 AAATTTAAT
29629236 AAATTTAAT
1 AAATTTAAT
29629245 AAATTTAAT
1 AAATTTAAT
29629254 AAATTT
1 AAATTT
29629260 TATTGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AAATTTAAT
Found at i:29630578 original size:18 final size:18
Alignment explanation
Indices: 29630524--29630579 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
29630514 TTTATTTTTC
29630524 TAAAA-TTTTAA-AAATAT
1 TAAAATTTTTAATAAAT-T
*
29630541 TAAAATTTTT-ATAAGTTT
1 TAAAATTTTTAATAA-ATT
*
29630559 TATAATTTTTAATAAATT
1 TAAAATTTTTAATAAATT
29630577 TAA
1 TAA
29630580 TGATCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 6 0.19
18 20 0.65
19 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TAAAATTTTTAATAAATT
Found at i:29635078 original size:14 final size:12
Alignment explanation
Indices: 29635047--29635089 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
29635037 ACTTTTAATA
*
29635047 ATTTTTGTTTTT
1 ATTTTTTTTTTT
29635059 ATTTTTATTTTTT
1 ATTTTT-TTTTTT
29635072 ATATTTTTTTGTTT
1 AT-TTTTTTT-TTT
29635086 ATTT
1 ATTT
29635090 ATTTCTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.22
13 12 0.44
14 9 0.33
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (12 bp):
ATTTTTTTTTTT
Found at i:29635822 original size:44 final size:44
Alignment explanation
Indices: 29635556--29636933 Score: 245
Period size: 44 Copynumber: 31.7 Consensus size: 44
29635546 TTTGAATCCG
* * **
29635556 CTCCACTGCAACTTCAGAGAAATGGGATTACTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
*** ** * *
29635600 CTCCACTGCAAAC-TCAGGGAGATAAGATTCACCATCTCCAGTCTG
1 CTCCACTGC-AACTTCAGGGAGATAAGATT-ACTGGCTTTAATCTA
* * * * * ** * * *
29635645 CCCCACTTCAACTTCGGGGGGATAAGACTTGCTTTC-TCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTACTGGCTTTAATCTA
* * * * * *** *
29635689 CTCCGCTGCAACCTCAAGGAGATAAGA--CCT-GATGCGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* * * ** **
29635730 CTCTACTGCAACTTCAGAGAGATAGGATCTA-T-TATTTGAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TACTGGCTTT-AATCTA
*
29635774 CTCCACTGCAACTTCAGGGAGATGAGATTACTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* *** * * *
29635818 CTCCACTGTAAAC-TCAGGGAGATAAGATTCACAATCTTCATTCTG
1 CTCCACTG-CAACTTCAGGGAGATAAGATT-ACTGGCTTTAATCTA
* * * * ** *
29635863 CCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTC-TTAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTACTGGCTTTAATCTA
* * * * * * *
29635907 CTCCGCTGCAACCTCAGGGAAATAAG---ACTTGATGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* * ** * **
29635948 CTCTACTGCAACTTCAGAGAGATAAGATCTA-T-TATTAAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TACTGGCTTTAATCTA
**
29635991 CTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* **** * *
29636035 CTCCACTGTAAAC-TCAGGGAGATAAGATTCACCATTTTTAGTCTG
1 CTCCACTG-CAACTTCAGGGAGATAAGATT-ACTGGCTTTAATCTA
* ** * ** * * *
29636080 CCCCACTTTAACTTCAAGGG-GATAAGACTTGCTTTC-TCAGTCTG
1 CTCCACTGCAACTTC-AGGGAGATAAGA-TTACTGGCTTTAATCTA
* * * ***
29636124 CTCCACTGCAACCTCAGGGAGATAAGA--CCT-GATGCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* * * * **
29636165 CTCTACTGCAACTTCAGAGACATAAGA-T-CTGTTGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTG--GCTTTAATCTA
* * * *
29636209 CTCCACTGCAACTTCAGAGAGATAGGATTAAC-GGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-ACTGGCTTTAATCTA
* * * *
29636253 CTCCACTGCAACCTCA-GGAGATAAGATT--TGCCATCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGC-T-TT-AATCTA
** * * ** * * *
29636297 CTCTGCTTCAACTTCAGAGG-GATAAGACTTGCTTTC-TCAGTCTG
1 CTCCACTGCAACTTCAG-GGAGATAAGA-TTACTGGCTTTAATCTA
* * * * * * * *
29636341 CTCCGCTGCAACCTCAAGGAGATAAGA--CCT-GATGTGATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* * * ** **
29636382 CTCTACTGCAACTTCAGAGAGATAGGATCTA-T-TATTTGAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TACTGGCTTT-AATCTA
* **
29636426 CTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* *** * *
29636470 CTCCACTGCAAAC-TCAGGAAGATAAGATTCACCATCTTTAGTCTG
1 CTCCACTGC-AACTTCAGGGAGATAAGATT-ACTGGCTTTAATCTA
* * * ** * *
29636515 CCCCACTTCAACTTCAGGGGGATAA-A--ACTTGTTTTCTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAC-TGGCTT-T-AATCTA
* ** * * * ***
29636559 CTTCACTATAACCTCAGGGAGATAAGA--CCT-GATGCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* * * * *
29636600 CTCTATTGCAACTTCAGAGAGATAAGA-TA-TGTTGTTTTAAT-TCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTG--GCTTTAATCT-A
* * * *
29636644 CTCCACTGCAACTTCAGAGAGATAGGATTAGC-GGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-CTGGCTTTAATCTA
* * * * * * *
29636688 CTCTACTACAACCTCAGGGAGATAAAATT--TGCCATCTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGC-T-TT-AATCTA
* * * * ***
29636733 CTCCACTACTACTT-AGGGAGATAAGATATGCT-TCTTCGGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TACTGGCTTTAATCTA
* * * ***
29636776 CTCCGCTGCAACTTCAGGGAGATAAGA--CCT-GATGCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
* * * ** **
29636817 CTCTACTGCAACTTCAGAGAGATAATA-T-CTGTTATTTAAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTG-GCTTT-AATCTA
* * * * * * * *
29636861 CTCCACTACAACTTCAAGAAGATAGGATTATTGGCATCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
*
29636905 CTCCACTGCAACCTT-AGGGAGATAGGATT
1 CTCCACTGCAA-CTTCAGGGAGATAAGATT
29636934 TTCCATCTTC
Statistics
Matches: 956, Mismatches: 294, Indels: 168
0.67 0.21 0.12
Matches are distributed among these distances:
40 3 0.00
41 170 0.18
42 8 0.01
43 79 0.08
44 503 0.53
45 170 0.18
46 19 0.02
47 2 0.00
48 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTACTGGCTTTAATCTA
Found at i:29636095 original size:217 final size:218
Alignment explanation
Indices: 29635421--29636942 Score: 2002
Period size: 218 Copynumber: 7.0 Consensus size: 218
29635411 GTAAGATCCC
* *
29635421 AGTCTGCCCCA-TTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCTGTTGCAACCT
1 AGTCTGCCCCACTT-CAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCT
* * * * * * *
29635485 CAAGGAAATAAGACCTGATGTGATCCACTCTACTGCGACTTCATAGAGATAAAATCTATTATTTG
65 CAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTG
* *
29635550 AATCCGCTCCACTGCAACTTCAGAGAAATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTC
130 AATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTC
**
29635615 AGGGAGATAAGATTCACCATCTCC
195 AGGGAGATAAGATTCACCATCTTT
*
29635639 AGTCTGCCCCACTTCAACTTCGGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTC
1 AGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTC
* * *
29635704 AAGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAGGATCTATTATTTGA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGA
* *
29635769 ATCCGCTCCACTGCAACTTCAGGGAGATGAGATTACTGGCTTTAATCTACTCCACTGTAAACTCA
131 ATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCA
* *
29635834 GGGAGATAAGATTCACAATCTTC
196 GGGAGATAAGATTCACCATCTTT
* * *
29635857 ATTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTTAGTCTACTCCGCTGCAACCTC
1 AGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTC
* * * *
29635922 AGGGAAATAAGACTTGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTA-TTAA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGA
*
29635986 ATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGTAAACTCA
131 ATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCA
*
29636051 GGGAGATAAGATTCACCATTTTT
196 GGGAGATAAGATTCACCATCTTT
* * *
29636074 AGTCTGCCCCACTTTAACTTCAAGGGGATAAGACTTGCTTTCTCAGTCTGCTCCACTGCAACCTC
1 AGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTC
* * * *
29636139 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGACATAAGATCTGTTGTTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGA
* * * * *
29636204 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAAC-GGCTTCAATCTGCTCCACTGCAACCTC
131 ATCCGCTCCACTGCAACTTCAGGGAGATGGGATT-ACTGGCTTTAATCTACTCCACTGCAAACTC
**
29636268 A-GGAGATAAGATTTGCCATC-TT
195 AGGGAGATAAGATTCACCATCTTT
* * ** *
29636290 CGATCTGCTCTGCTTCAACTTCAGAGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCT
1 AG-TCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCT
* * * *
29636355 CAAGGAGATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAGGATCTATTATTTG
65 CAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTG
*
29636420 AATCCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTC
130 AATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTC
*
29636485 AGGAAGATAAGATTCACCATCTTT
195 AGGGAGATAAGATTCACCATCTTT
* * * * **
29636509 AGTCTGCCCCACTTCAACTTCAGGGGGATAAAACTTGTTTTCTCAGTCTGCTTCACTATAACCTC
1 AGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTC
* * * * *
29636574 AGGGAGATAAGACCTGATGCGATCTACTCTATTGCAACTTCAGAGAGATAAGATATGTTGTTTTA
66 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGA
* * * * * * * *
29636639 ATTCGCTCCACTGCAACTTCAGAGAGATAGGATTAGC-GGCTTCAATCTGCTCTACTACAACCTC
131 ATCCGCTCCACTGCAACTTCAGGGAGATGGGATTA-CTGGCTTTAATCTACTCCACTGCAAACTC
* **
29636703 AGGGAGATAAAATTTGCCATC-TT
195 AGGGAGATAAGATTCACCATCTTT
* * * * * * *
29636726 CGATCTGCTCCACTACTACTT-AGGGAGATAAGA-TATGC-TTCTTCGGTCTACTCCGCTGCAAC
1 AG-TCTGCCCCACTTCAACTTCAGGGGGATAAGACT-TGCTTTC-TCAGTCTGCTCCGCTGCAAC
* * *
29636788 TTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAATATCTGTTATT
63 CTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATT
* * * * * * * * * *
29636853 TAAATCCGCTCCACTACAACTTCAAGAAGATAGGATTATTGGCATCAATCTGCTCCACTGCAACC
128 TGAATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAAC
* * **
29636918 TTAGGGAGATAGGATTTTCCATCTT
193 TCAGGGAGATAAGATTCACCATCTT
29636943 CGATCTACTC
Statistics
Matches: 1149, Mismatches: 142, Indels: 26
0.87 0.11 0.02
Matches are distributed among these distances:
216 9 0.01
217 547 0.48
218 585 0.51
219 8 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (218 bp):
AGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTC
AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGA
ATCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCA
GGGAGATAAGATTCACCATCTTT
Found at i:29636259 original size:435 final size:436
Alignment explanation
Indices: 29635423--29636942 Score: 2176
Period size: 435 Copynumber: 3.5 Consensus size: 436
29635413 AAGATCCCAG
* * *
29635423 TCTGCCCCA-TTGCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTGCTCTGTTGCAACCTCA
1 TCTGCCCCACTT-CAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTACTCCGCTGCAACCTCA
* * * *
29635487 AGGAAATAAGACCTGATGTGATCCACTCTACTGCGACTTCATAGAGATAAAATCTATTATTTGAA
65 AGGAAATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTAAA
* * *
29635552 TCCGCTCCACTGCAACTTCAGAGAAATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCAG
** *
29635617 GGAGATAAGATTCACCATCTCCAGTCTGCCCCACTTCAACTTCGGGGGGATAAGACTTGCTTTCT
195 GGAGATAAGATTCACCATCTTTAGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCT
* * *
29635682 CAGTCTGCTCCGCTGCAACCTCAAGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAG
260 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAG
* * * * *
29635747 AGAGATAGGATCTATTATTTGAATCCGCTCCACTGCAACTTCAGGGAGAT-GAGATT-ACTGGCT
325 AGAGATAAGATCTGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG-GATTAAC-GGCT
* * * * ** *
29635810 TTAATCTACTCCACTGTAAACTCAGGGAGATAAGATTCACAATCTTC-A
388 TCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA
*
29635858 TTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTTAGTCTACTCCGCTGCAACCTCA
1 -TCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTACTCCGCTGCAACCTCA
* * *
29635923 GGGAAATAAGACTTGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTA-TTAAA
65 AGGAAATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTAAA
* *
29635987 TCCGCTCCACTGCAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGTAAACTCAG
130 TCCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCAG
* * *
29636052 GGAGATAAGATTCACCATTTTTAGTCTGCCCCACTTTAACTTCAAGGGGATAAGACTTGCTTTCT
195 GGAGATAAGATTCACCATCTTTAGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCT
29636117 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAG
260 CAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAG
*
29636182 AGACATAAGATCTGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAACGGCTTC
325 AGAGATAAGATCTGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAACGGCTTC
29636247 AATCTGCTCCACTGCAACCTCA-GGAGATAAGATTTGCCATCTTCGA
390 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA
* ** * *
29636293 TCTGCTCTGCTTCAACTTCAGAGGGATAAGACTTGCTTTCTCAGTCTGCTCCGCTGCAACCTCAA
1 TCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTACTCCGCTGCAACCTCAA
* * *
29636358 GGAGATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAGGATCTATTATTTGAAT
66 GGAAATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTAAAT
29636423 CCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCAGG
131 CCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCAGG
* * *
29636488 AAGATAAGATTCACCATCTTTAGTCTGCCCCACTTCAACTTCAGGGGGATAAAACTTGTTTTCTC
196 GAGATAAGATTCACCATCTTTAGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTC
* ** *
29636553 AGTCTGCTTCACTATAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTATTGCAACTTCAGA
261 AGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGA
* * *
29636618 GAGATAAGATATGTTGTTTTAATTCGCTCCACTGCAACTTCAGAGAGATAGGATTAGCGGCTTCA
326 GAGATAAGATCTGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAACGGCTTCA
* * *
29636683 ATCTGCTCTACTACAACCTCAGGGAGATAAAATTTGCCATCTTCGA
391 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA
* * * * * *
29636729 TCTGCTCCACTACTACTT-AGGGAGATAAGA-TATGC-TTCTTCGGTCTACTCCGCTGCAACTTC
1 TCTGCCCCACTTCAACTTCAGGGGGATAAGACT-TGCTTTC-TCAGTCTACTCCGCTGCAACCTC
* * * * * *
29636791 AGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAATATCTGTTATTTAA
64 AAGGAAATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTAA
* * * * * * * * *
29636856 ATCCGCTCCACTACAACTTCAAGAAGATAGGATTATTGGCATCAATCTGCTCCACTGCAACCTTA
129 ATCCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCA
* **
29636921 GGGAGATAGGATTTTCCATCTT
194 GGGAGATAAGATTCACCATCTT
29636943 CGATCTACTC
Statistics
Matches: 980, Mismatches: 96, Indels: 17
0.90 0.09 0.02
Matches are distributed among these distances:
434 135 0.14
435 693 0.71
436 150 0.15
437 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (436 bp):
TCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTCAGTCTACTCCGCTGCAACCTCAA
GGAAATAAGACCTGATGTGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTAAAT
CCGCTCCACTACAACTTCAGGGAGATGGGATTACTGGCTTTAATCTACTCCACTGCAAACTCAGG
GAGATAAGATTCACCATCTTTAGTCTGCCCCACTTCAACTTCAGGGGGATAAGACTTGCTTTCTC
AGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGA
GAGATAAGATCTGTTGTTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAACGGCTTCA
ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA
Found at i:29640869 original size:21 final size:20
Alignment explanation
Indices: 29640831--29640869 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29640821 CTTGAGTTGA
*
29640831 AATTTTCTCAATCTTGAAAT
1 AATTTTCTCAAACTTGAAAT
29640851 AATTTTCTCAAGACTTGAA
1 AATTTTCTCAA-ACTTGAA
29640870 CATGTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
AATTTTCTCAAACTTGAAAT
Found at i:29647833 original size:26 final size:25
Alignment explanation
Indices: 29647791--29647848 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
29647781 GCAAAATATC
*
29647791 AACAAAACAAAAACAAGTC-AGTAT
1 AACAAAACAAAAACAAGGCAAGTAT
*
29647815 AACACAACAAAAATTCAAGGCAAGTAT
1 AACAAAACAAAAA--CAAGGCAAGTAT
*
29647842 AAGAAAA
1 AACAAAA
29647849 TCAAGCACCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
26 5 0.19
27 10 0.37
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.12
Consensus pattern (25 bp):
AACAAAACAAAAACAAGGCAAGTAT
Found at i:29650217 original size:619 final size:619
Alignment explanation
Indices: 29649024--29650264 Score: 2091
Period size: 619 Copynumber: 2.0 Consensus size: 619
29649014 CTCGAGAACT
29649024 CATAAACACCAAGCCCGTTTTAGGAATTTTAAATAAAATGATTATCATGCTTTAATGAAATGCAA
1 CATAAACACCAAGCCCGTTTTAGGAATTTTAAATAAAATGATTATCATGCTTTAATGAAATGCAA
29649089 TTTTTACAAACAACATAATTTGAATAGCAATATATAAAGCAGGTGATGAATAACAAACCAAGTTT
66 TTTTTACAAACAACATAATTTGAATAGCAATATATAAAGCAGGTGATGAATAACAAACCAAGTTT
29649154 ACAATATGCAGCAACCAAACATATAATACATCAACACTAATAATTAAGTATCTAATAAATCAATA
131 ACAATATGCAGCAACCAAACATATAATACATCAACACTAATAATTAAGTATCTAATAAATCAATA
29649219 ATCAATCTCATAAAGATATTTTTGAAAAAAGATATTTAGAAATAATTTAATAAAAAATAATTAAA
196 ATCAATCTCATAAAGATATTTTTGAAAAAAGATATTTAGAAATAATTTAATAAAAAATAATTAAA
* * * *
29649284 CTAAAGCAAGCAAAATAAATAACTTTCTTTGAGAGATAAGATACTTGTGTATGAAAAGCGTATAA
261 CTAAAGCAAGCAAAATAAATAACTTCCTTTAAGAAATAAGATACTTATGTATGAAAAGCGTATAA
* *
29649349 AATTTTATAAGTTGAAATCTATTATACTTTATATTTTTTTATATACCAAAACAATTCCATATAAA
326 AATTTTATAAGTTGAAATCTATTATACTTTACATTTATTTATATACCAAAACAATTCCATATAAA
* ** * * * *
29649414 TTATACATGTAGATATGGCAATCGCGAAATATCATGGTGAAAATAAAATTTGGGACTATATTCTA
391 TTATACATATAGATATAACAATCACGAAATATCACGGTGAAAATAAAATTTAGAACTATATTCTA
* * *
29649479 AAATACATTATTGAGAAATATAAAGTAATATGTCAAATTCTAAAAATATATATATTAAGGTGATA
456 AAATACATTATTGAGAAATATAAAGTAACATATCAAATTCTAAAAATAAATATATTAAGGTGATA
*
29649544 AAATAAATAATAGTGTATCAAATTGAAAAATAAAATAAAAGTATATATAA-TTTTTTTAAAAAAA
521 AAATAAATAATAATGTATCAAATT--AAAATAAAATAAAAGTATATATAATTTTTTTTAAAAAAA
29649608 AT-TGTAAATTTAAAACATATTGATAATAATTTTAA
584 ATCTGTAAATTTAAAACATATTGATAATAATTTTAA
29649643 CATAAACACCAAGCCCGTTTTAGGAATTTTAAATAAAATGATTATCATGCTTTAATGAAATGCAA
1 CATAAACACCAAGCCCGTTTTAGGAATTTTAAATAAAATGATTATCATGCTTTAATGAAATGCAA
29649708 TTTTTACAAACAACATAATTTGAATAGCAATATATAAAGCAGGTGATGAATAACAAACCAAGTTT
66 TTTTTACAAACAACATAATTTGAATAGCAATATATAAAGCAGGTGATGAATAACAAACCAAGTTT
29649773 ACAATATGCAGCAACCAAACATATAATACATCAACACTAATAATTAAGTATCTAATAAATCAATA
131 ACAATATGCAGCAACCAAACATATAATACATCAACACTAATAATTAAGTATCTAATAAATCAATA
*
29649838 ATCAATCTCATAAAGATATTTTTGAAAAAAGATATTTAGAAATAATTTAATAATAAATAATTAAA
196 ATCAATCTCATAAAGATATTTTTGAAAAAAGATATTTAGAAATAATTTAATAAAAAATAATTAAA
*
29649903 CTAAAGCAAGCAAAATAAATAACTTCCTTTAAGAAATAAGATACTTATGTATGAAACGCGTATAA
261 CTAAAGCAAGCAAAATAAATAACTTCCTTTAAGAAATAAGATACTTATGTATGAAAAGCGTATAA
*
29649968 AATTTTATAAGTTGAAATCTATTATACTTTACATTTATTTATATA-CACCAACAATTCCATATAA
326 AATTTTATAAGTTGAAATCTATTATACTTTACATTTATTTATATACCA-AAACAATTCCATATAA
* * * *
29650032 ATTATACATATAGATATAATAGTCACGAGATATCACGGTGAAAATAAGATTTAGAACTATATTCT
390 ATTATACATATAGATATAACAATCACGAAATATCACGGTGAAAATAAAATTTAGAACTATATTCT
**
29650097 AAAATACATTATTGAGAAATATAAAGTAACATATCAAATTCTTAAATTCTTAAAATATATTAAGT
455 AAAATACATTATTGAGAAATATAAAGTAACATATCAAATTC-TAAA--AAT-AAATATATTAAG-
*
29650162 GTGATAAAATAAATAATAATGTATCAAA-T-CAA-AAAA-AAAAGTATATATAAATTTTTTTTTA
515 GTGATAAAATAAATAATAATGTATCAAATTAAAATAAAATAAAAGTATATAT-AA-TTTTTTTTA
*
29650223 AAAAAAGTCTGTAAATTTAAAACATATTGATAATAATTTTAA
578 AAAAAAATCTGTAAATTTAAAACATATTGATAATAATTTTAA
29650265 AAGAATAGTG
Statistics
Matches: 584, Mismatches: 28, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
618 14 0.02
619 476 0.82
620 6 0.01
621 15 0.03
622 34 0.06
623 12 0.02
624 27 0.05
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (619 bp):
CATAAACACCAAGCCCGTTTTAGGAATTTTAAATAAAATGATTATCATGCTTTAATGAAATGCAA
TTTTTACAAACAACATAATTTGAATAGCAATATATAAAGCAGGTGATGAATAACAAACCAAGTTT
ACAATATGCAGCAACCAAACATATAATACATCAACACTAATAATTAAGTATCTAATAAATCAATA
ATCAATCTCATAAAGATATTTTTGAAAAAAGATATTTAGAAATAATTTAATAAAAAATAATTAAA
CTAAAGCAAGCAAAATAAATAACTTCCTTTAAGAAATAAGATACTTATGTATGAAAAGCGTATAA
AATTTTATAAGTTGAAATCTATTATACTTTACATTTATTTATATACCAAAACAATTCCATATAAA
TTATACATATAGATATAACAATCACGAAATATCACGGTGAAAATAAAATTTAGAACTATATTCTA
AAATACATTATTGAGAAATATAAAGTAACATATCAAATTCTAAAAATAAATATATTAAGGTGATA
AAATAAATAATAATGTATCAAATTAAAATAAAATAAAAGTATATATAATTTTTTTTAAAAAAAAT
CTGTAAATTTAAAACATATTGATAATAATTTTAA
Found at i:29651878 original size:14 final size:13
Alignment explanation
Indices: 29651853--29651895 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
29651843 CTTTTAATAA
*
29651853 TTTTTGTTTTTAT
1 TTTTTTTTTTTAT
29651866 TTTTATTTTTTTAT
1 TTTT-TTTTTTTAT
*
29651880 ATTTTTTTGTTTAT
1 -TTTTTTTTTTTAT
29651894 TT
1 TT
29651896 ATTTCTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTAT
Found at i:29655312 original size:20 final size:20
Alignment explanation
Indices: 29655276--29655314 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29655266 TATGACTTAT
29655276 AAACATTTAAAAGTAATTTA
1 AAACATTTAAAAGTAATTTA
29655296 AAACACTTTAAAA-TAATTT
1 AAACA-TTTAAAAGTAATTT
29655315 TTAATTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
AAACATTTAAAAGTAATTTA
Found at i:29657630 original size:26 final size:26
Alignment explanation
Indices: 29657601--29657761 Score: 202
Period size: 26 Copynumber: 6.2 Consensus size: 26
29657591 ATATAAGCTC
*
29657601 TCTTTCATGTTAAGCCACACAGGCTT
1 TCTTTCATATTAAGCCACACAGGCTT
* *
29657627 TCTTCCATATTACGCCACACAGG-TT
1 TCTTTCATATTAAGCCACACAGGCTT
* **
29657652 TCTTTCATATTATGCCTTACAGGCTT
1 TCTTTCATATTAAGCCACACAGGCTT
*
29657678 TCTTTCATATTACA-CCACACAAGCTT
1 TCTTTCATATTA-AGCCACACAGGCTT
*
29657704 TCTTTCATATTACGCCACACAGGCTT
1 TCTTTCATATTAAGCCACACAGGCTT
*
29657730 TCTTTCATATTACA-CCATACAGGCTT
1 TCTTTCATATTA-AGCCACACAGGCTT
29657756 TCTTTC
1 TCTTTC
29657762 CTGACGTGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
25 21 0.18
26 95 0.82
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (26 bp):
TCTTTCATATTAAGCCACACAGGCTT
Found at i:29657643 original size:52 final size:51
Alignment explanation
Indices: 29657561--29657761 Score: 204
Period size: 52 Copynumber: 3.9 Consensus size: 51
29657551 TACAGAGCTT
* * * * * * *
29657561 GCCACAAAGGCATTCCTTCCATATTTCGCCATATAAGCTCTCTTTCATGTTAA
1 GCCACACAGGC-TTTCTTCCATATTACACCACA-AAGCTTTCTTTCATATTAA
* * * *
29657614 GCCACACAGGCTTTCTTCCATATTACGCCACACAGGTTTCTTTCATATTAT
1 GCCACACAGGCTTTCTTCCATATTACACCACAAAGCTTTCTTTCATATTAA
** * *
29657665 GCCTTACAGGCTTTCTTTCATATTACACCACACAAGCTTTCTTTCATATTAC
1 GCCACACAGGCTTTCTTCCATATTACACCACA-AAGCTTTCTTTCATATTAA
* * *
29657717 GCCACACAGGCTTTCTTTCATATTACACCATACAGGCTTTCTTTC
1 GCCACACAGGCTTTCTTCCATATTACACCACA-AAGCTTTCTTTC
29657762 CTGACGTGTT
Statistics
Matches: 127, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
51 42 0.33
52 75 0.59
53 10 0.08
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.36
Consensus pattern (51 bp):
GCCACACAGGCTTTCTTCCATATTACACCACAAAGCTTTCTTTCATATTAA
Found at i:29657696 original size:77 final size:78
Alignment explanation
Indices: 29657601--29657761 Score: 245
Period size: 77 Copynumber: 2.1 Consensus size: 78
29657591 ATATAAGCTC
* * *
29657601 TCTTTCATGTTAAGCCACACAGGCTTTCTTCCATATTACGCCACACAGG-TTTCTTTCATATTAT
1 TCTTTCATATTAAGCCACACAAGCTTTCTTCCATATTACGCCACACAGGCTTTCTTTCATATTAC
* *
29657665 GCCTTACAGGCTT
66 ACCATACAGGCTT
*
29657678 TCTTTCATATTACA-CCACACAAGCTTTCTTTCATATTACGCCACACAGGCTTTCTTTCATATTA
1 TCTTTCATATTA-AGCCACACAAGCTTTCTTCCATATTACGCCACACAGGCTTTCTTTCATATTA
29657742 CACCATACAGGCTT
65 CACCATACAGGCTT
29657756 TCTTTC
1 TCTTTC
29657762 CTGACGTGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 44 0.58
78 32 0.42
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (78 bp):
TCTTTCATATTAAGCCACACAAGCTTTCTTCCATATTACGCCACACAGGCTTTCTTTCATATTAC
ACCATACAGGCTT
Found at i:29669296 original size:6 final size:6
Alignment explanation
Indices: 29669285--29669318 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
29669275 TGATTATCAT
29669285 ATTCAC ATTCAC ATTCAC ATTCAC ATTCAC ATTC
1 ATTCAC ATTCAC ATTCAC ATTCAC ATTCAC ATTC
29669319 TCACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (6 bp):
ATTCAC
Found at i:29673782 original size:20 final size:21
Alignment explanation
Indices: 29673759--29673809 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
29673749 AAAATTCAAA
29673759 AAAATATTTTAAAAAATAT-T
1 AAAATATTTTAAAAAATATAT
* *
29673779 AAAAT-TATTTGAAAATTATAT
1 AAAATAT-TTTAAAAAATATAT
29673800 AAAATATTTT
1 AAAATATTTT
29673810 TTAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 15 0.58
21 9 0.35
22 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAATATTTTAAAAAATATAT
Found at i:29677032 original size:11 final size:10
Alignment explanation
Indices: 29677000--29677048 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
29676990 AAAGAGAATG
29677000 GAAAAT-AAA
1 GAAAATAAAA
29677009 GAAAA-AGAAA
1 GAAAATA-AAA
29677019 GAAAATTAAAA
1 GAAAA-TAAAA
*
29677030 GAACATAAAA
1 GAAAATAAAA
29677040 GAAAA-AAAA
1 GAAAATAAAA
29677049 TTAAATTGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 9 0.26
10 17 0.50
11 7 0.21
12 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (10 bp):
GAAAATAAAA
Found at i:29701168 original size:54 final size:54
Alignment explanation
Indices: 29701056--29701171 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
29701046 GTCCTCACCC
* * * * * * *
29701056 GTGTAACTCACTGAGTAGCCCTACATACCAGTGTGCCAAGCTGTGTTCTAGGCC
1 GTGTAACTCACTGAGTAGCCATACACACCAGTGTGCCAAGCCGTGTGCCAAGCA
* * * * *
29701110 GTGTAACTCTCTGAGTTGCCATACACGCCTGTGTGCCATGCCGTGTGCCAAGCA
1 GTGTAACTCACTGAGTAGCCATACACACCAGTGTGCCAAGCCGTGTGCCAAGCA
29701164 GTGTAACT
1 GTGTAACT
29701172 TATTCACTTG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.27
Consensus pattern (54 bp):
GTGTAACTCACTGAGTAGCCATACACACCAGTGTGCCAAGCCGTGTGCCAAGCA
Found at i:29707243 original size:32 final size:32
Alignment explanation
Indices: 29707207--29707270 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
29707197 TTTAAAAAAC
*
29707207 ATACATAATGCCATTGATGATTTTGAGTTTTT
1 ATACATAATGCCATTGATGAGTTTGAGTTTTT
29707239 ATACATAATGCCATTGATGAGTTTGAGTTTTT
1 ATACATAATGCCATTGATGAGTTTGAGTTTTT
29707271 CTTGAAGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (32 bp):
ATACATAATGCCATTGATGAGTTTGAGTTTTT
Found at i:29712458 original size:36 final size:36
Alignment explanation
Indices: 29712418--29712492 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
29712408 TAGAAAACTT
29712418 AAAGATATTTTAAGTATTAAAATAGGTCATATAGTC
1 AAAGATATTTTAAGTATTAAAATAGGTCATATAGTC
29712454 AAAGATATTTTAAGTATTAAAATAGGTCATATAGTC
1 AAAGATATTTTAAGTATTAAAATAGGTCATATAGTC
29712490 AAA
1 AAA
29712493 AACTTTCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (36 bp):
AAAGATATTTTAAGTATTAAAATAGGTCATATAGTC
Found at i:29736226 original size:20 final size:19
Alignment explanation
Indices: 29736171--29736215 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
29736161 CATTTCATTG
*
29736171 AGCTCCAATTAGCTCATTTCC
1 AGCTCC-ATGAGCTCATTT-C
*
29736192 AGCTCCATGAACTCATTTC
1 AGCTCCATGAGCTCATTTC
29736211 AGCTC
1 AGCTC
29736216 ATTTGAGCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (19 bp):
AGCTCCATGAGCTCATTTC
Found at i:29738896 original size:23 final size:22
Alignment explanation
Indices: 29738844--29738896 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
29738834 TCCTTGTCTT
*
29738844 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
29738866 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
29738889 TTTCTTTT
1 TTTCTTTT
29738897 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:29738910 original size:18 final size:18
Alignment explanation
Indices: 29738889--29738928 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29738879 CTTTCTTCAA
* * *
29738889 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
29738907 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
29738925 TTTC
1 TTTC
29738929 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:29757859 original size:131 final size:130
Alignment explanation
Indices: 29757619--29758024 Score: 476
Period size: 131 Copynumber: 3.1 Consensus size: 130
29757609 GGGTGTTACA
* * * ** *
29757619 ATCATTAACAATTTTATTTGAGTTAG-TTGATTTAAGATTGCAAATCTGAACAACTCATTGATTT
1 ATCATGAACAATTTTATTTGAGTTAGCTT-ATTTAAGATTACAACTCCAAACAACTCACT-ATTT
* * *
29757683 AA-ATTCCCAGATGATATTATTAAGGTTAGCTAATTGAAGATCGCAACCTATGTTCATTTGATTT
64 AAGA-TCCCAGATGATATTATTAAGGTTAGCTTATTAAAGATCGCAACCTAAGTTCATTTGATTT
29757747 ATG
128 ATG
* * *
29757750 ATCTTGAACAATTTTATTTGAGTTAGCTTATTTAAGATTACAACTCCAAACGACTCGCTAATTTA
1 ATCATGAACAATTTTATTTGAGTTAGCTTATTTAAGATTACAACTCCAAACAACTCACT-ATTTA
* * * * ** *
29757815 AGATCGCAAATTATGTTATTAAGGTTAATTTATTAAAGATCGCAACCTAAGCTCATTTGATTTAT
65 AGATCCCAGATGATATTATTAAGGTTAGCTTATTAAAGATCGCAACCTAAGTTCATTTGATTTAT
29757880 G
130 G
* * * * *
29757881 GTCATGAACAATTTTATTGGAGTTAGCTGATTTAAGATCACAACTACAAA-AAGCTCACGTATTT
1 ATCATGAACAATTTTATTTGAGTTAGCTTATTTAAGATTACAACTCCAAACAA-CTCAC-TATTT
* * *
29757945 AAGATCCCAGATGATATTATTAAGGTTAGCTTATTTAATATCGCAATCTAAGTTCATTTGATTTT
64 AAGATCCCAGATGATATTATTAAGGTTAGCTTATTAAAGATCGCAACCTAAGTTCATTTGA-TTT
*
29758010 AAG
128 ATG
29758013 ATCATGAACAAT
1 ATCATGAACAAT
29758025 CTCACTTGTG
Statistics
Matches: 230, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
130 1 0.00
131 209 0.91
132 20 0.09
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (130 bp):
ATCATGAACAATTTTATTTGAGTTAGCTTATTTAAGATTACAACTCCAAACAACTCACTATTTAA
GATCCCAGATGATATTATTAAGGTTAGCTTATTAAAGATCGCAACCTAAGTTCATTTGATTTATG
Found at i:29761821 original size:21 final size:21
Alignment explanation
Indices: 29761797--29761844 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29761787 TTATTTTCTT
* * *
29761797 CAACTTTTTTTTCTTCAGCAA
1 CAACTTTCTCTTCTACAGCAA
29761818 CAACTTTCTCTTCTACAGCAA
1 CAACTTTCTCTTCTACAGCAA
29761839 CAACTT
1 CAACTT
29761845 CCTTCTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (21 bp):
CAACTTTCTCTTCTACAGCAA
Found at i:29773807 original size:37 final size:39
Alignment explanation
Indices: 29773761--29773847 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 39
29773751 TTTGAGCAAA
* * *
29773761 CTTTACTCTTTA-TTTTT-GAGAATTTTAACAATCTTTT
1 CTTTGCTCTTTATTTTTTCGAGAATTTGAACAAACTTTT
* *
29773798 CTTTGCTC-TTATTTTTTCTAGAATTTGAGCAAACTTTT
1 CTTTGCTCTTTATTTTTTCGAGAATTTGAACAAACTTTT
*
29773836 CTTTGTTCTTTA
1 CTTTGCTCTTTA
29773848 GTCATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 3 0.07
37 12 0.29
38 23 0.56
39 3 0.07
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (39 bp):
CTTTGCTCTTTATTTTTTCGAGAATTTGAACAAACTTTT
Found at i:29784713 original size:44 final size:45
Alignment explanation
Indices: 29784538--29784724 Score: 247
Period size: 45 Copynumber: 4.2 Consensus size: 45
29784528 AATAATAACA
* * *
29784538 GATACACGGTGG-ATCAGCACACAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
** * *
29784581 GATACTAGGTGGAATCAGCACATAGCAACCACCTTCATAATCAATT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAA-T
29784627 G-TACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
*
29784671 GATACCCGGTGGAATCAGCAC-CCGCAACCACCTTTATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
* *
29784715 GGTTCCCGGT
1 GATACCCGGT
29784725 ACACGTAGTA
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
43 10 0.08
44 44 0.35
45 71 0.56
46 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
Found at i:29784713 original size:89 final size:88
Alignment explanation
Indices: 29784544--29784724 Score: 256
Period size: 89 Copynumber: 2.0 Consensus size: 88
29784534 AACAGATACA
* * *
29784544 CGGTGGATCAGCACACAGCACCACCCTTATAGTCAATGATACTAGGTGGAATCAGCACATAGCAA
1 CGGTGGATCAGCACACAGCACCACCCTTATAATCAATGATACCAGGTGGAATCAGCACACAGCAA
*
29784609 CCACCTTCATAATCAATTGTACC
66 CCACCTTCATAATCAATGGTACC
* * *
29784632 CGGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGTGGAATCAGCAC-CCGC
1 CGGTGG-ATCAGCACACAGC-ACCACCCTTATAATCAATGATACCAGGTGGAATCAGCACACAGC
* *
29784696 AACCACCTTTATAATCAATGGTTCC
64 AACCACCTTCATAATCAATGGTACC
29784721 CGGT
1 CGGT
29784725 ACACGTAGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 6 0.07
89 41 0.50
90 35 0.43
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (88 bp):
CGGTGGATCAGCACACAGCACCACCCTTATAATCAATGATACCAGGTGGAATCAGCACACAGCAA
CCACCTTCATAATCAATGGTACC
Found at i:29789024 original size:56 final size:56
Alignment explanation
Indices: 29788938--29789127 Score: 380
Period size: 56 Copynumber: 3.4 Consensus size: 56
29788928 GGTAAAGAAA
29788938 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
29788994 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
29789050 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
29789106 TCCCATGTAAGACCATGTCTGG
1 TCCCATGTAAGACCATGTCTGG
29789128 AAGGGAACAT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 134 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (56 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
Found at i:29791887 original size:22 final size:24
Alignment explanation
Indices: 29791861--29791904 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
29791851 GAAAAATATT
29791861 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
29791883 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
29791905 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:29792820 original size:13 final size:14
Alignment explanation
Indices: 29792795--29792824 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
29792785 GCCCGGGCCC
29792795 AAAACCAAATAAAT
1 AAAACCAAATAAAT
29792809 AAAACC-AATAAAT
1 AAAACCAAATAAAT
29792822 AAA
1 AAA
29792825 TAAATAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCAAATAAAT
Found at i:29793096 original size:41 final size:42
Alignment explanation
Indices: 29793045--29793148 Score: 147
Period size: 43 Copynumber: 2.5 Consensus size: 42
29793035 AGTTGCAGCA
*
29793045 GAGTGTATTGAAGCTACAAGCC-ATCTCGTTGAAGTGCAGTG
1 GAGTGCATTGAAGCTACAAGCCGATCTCGTTGAAGTGCAGTG
* *
29793086 GAGTGGATTGAAGCTACAAGCCGTATCTCTTTGAAGTGCAGTG
1 GAGTGCATTGAAGCTACAAGCCG-ATCTCGTTGAAGTGCAGTG
* *
29793129 GAGTGCATCGAAGCAACAAG
1 GAGTGCATTGAAGCTACAAG
29793149 ACACAGAGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 21 0.38
43 35 0.62
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (42 bp):
GAGTGCATTGAAGCTACAAGCCGATCTCGTTGAAGTGCAGTG
Found at i:29793327 original size:13 final size:14
Alignment explanation
Indices: 29793302--29793331 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
29793292 GCCCGGGCCC
29793302 AAAACCAAATAAAT
1 AAAACCAAATAAAT
29793316 AAAACC-AATAAAT
1 AAAACCAAATAAAT
29793329 AAA
1 AAA
29793332 TAAATAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACCAAATAAAT
Found at i:29794589 original size:3 final size:3
Alignment explanation
Indices: 29794581--29794616 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
29794571 AACATTAATC
29794581 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29794617 CTACTACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29810879 original size:25 final size:25
Alignment explanation
Indices: 29810760--29810883 Score: 126
Period size: 25 Copynumber: 5.0 Consensus size: 25
29810750 TAGGGTTACT
* *
29810760 GATTTATAGCTTGTGAGAGCGTACC
1 GATTTATAGCTCGTGAGAGCATACC
* *
29810785 GATTCATAGCTCATGAGAGCATACC
1 GATTTATAGCTCGTGAGAGCATACC
* * *
29810810 GATTCATAGCTTGGGAGAGCATACC
1 GATTTATAGCTCGTGAGAGCATACC
*
29810835 GATTT-TCAGCTC-AGATGAGCATACC
1 GATTTAT-AGCTCGTGA-GAGCATACC
* *
29810860 GATTTACAGCTCGTAAGAGCATAC
1 GATTTATAGCTCGTGAGAGCATAC
29810884 ATGTACATGA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
24 3 0.04
25 78 0.95
26 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
GATTTATAGCTCGTGAGAGCATACC
Found at i:29810879 original size:50 final size:50
Alignment explanation
Indices: 29810760--29810883 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
29810750 TAGGGTTACT
*
29810760 GATTTATAGCTTGTGAGAGCGTACCGATTCATAGCTCATGAGAGCATACC
1 GATTTATAGCTTGTGAGAGCATACCGATTCATAGCTCATGAGAGCATACC
* * *
29810810 GATTCATAGCTTGGGAGAGCATACCGATT-TTCAGCTCA-GATGAGCATACC
1 GATTTATAGCTTGTGAGAGCATACCGATTCAT-AGCTCATGA-GAGCATACC
* * *
29810860 GATTTACAGCTCGTAAGAGCATAC
1 GATTTATAGCTTGTGAGAGCATAC
29810884 ATGTACATGA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.05
50 60 0.95
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (50 bp):
GATTTATAGCTTGTGAGAGCATACCGATTCATAGCTCATGAGAGCATACC
Found at i:29814908 original size:41 final size:40
Alignment explanation
Indices: 29814851--29815052 Score: 172
Period size: 41 Copynumber: 5.0 Consensus size: 40
29814841 TACATCCAGG
* * *
29814851 GGTATCGAAGTATAAATACGGGAACGTATCTGCAATTCAGA
1 GGTACCGAAGTATAAATA-GGGCACGTATGTGCAATTCAGA
* * *
29814892 GGTATCGAAGTATAAATAGGGGCACCTATGTGCAATACA-A
1 GGTACCGAAGTATAAATA-GGGCACGTATGTGCAATTCAGA
* * * *
29814932 GGGTACCGAAATACAAATAGCGCACGTATGTGCAATTCAGG
1 -GGTACCGAAGTATAAATAGGGCACGTATGTGCAATTCAGA
* * * * *
29814973 GGTACCAAAGTATAAACAAGGGTACATATGTGCAATTCAGG
1 GGTACCGAAGTATAAA-TAGGGCACGTATGTGCAATTCAGA
* * * * *
29815014 GGTACTGAAGTACAAACAGAGGCACATATTTGCAATTCA
1 GGTACCGAAGTATAAATAG-GGCACGTATGTGCAATTCA
29815053 ACAATATTTT
Statistics
Matches: 132, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 33 0.25
41 99 0.75
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (40 bp):
GGTACCGAAGTATAAATAGGGCACGTATGTGCAATTCAGA
Found at i:29814966 original size:81 final size:82
Alignment explanation
Indices: 29814874--29815052 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 82
29814864 AAATACGGGA
* * * * *
29814874 ACGTATCTGCAATTCAGAGGTATCGAAGTATAAATAGGGGCACCTATGTGCAATACAAGGGTACC
1 ACGTATCTGCAATTCAGAGGTACCAAAGTATAAACAAGGGCACATATGTGCAATACAAGGGTACC
*
29814939 GAAATACAAATAG-CGC
66 GAAATACAAACAGACGC
* * * * * *
29814955 ACGTATGTGCAATTCAGGGGTACCAAAGTATAAACAAGGGTACATATGTGCAATTCAGGGGTACT
1 ACGTATCTGCAATTCAGAGGTACCAAAGTATAAACAAGGGCACATATGTGCAATACAAGGGTACC
* *
29815020 GAAGTACAAACAGAGGC
66 GAAATACAAACAGACGC
* *
29815037 ACATATTTGCAATTCA
1 ACGTATCTGCAATTCA
29815053 ACAATATTTT
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
81 65 0.80
82 16 0.20
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (82 bp):
ACGTATCTGCAATTCAGAGGTACCAAAGTATAAACAAGGGCACATATGTGCAATACAAGGGTACC
GAAATACAAACAGACGC
Found at i:29815017 original size:21 final size:21
Alignment explanation
Indices: 29814958--29815018 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
29814948 ATAGCGCACG
29814958 TATGTGCAATTCAGGGGTACCA
1 TATGTGCAATTCAGGGGTA-CA
* ** * *
29814980 -AAGTATAA-ACAAGGGTACA
1 TATGTGCAATTCAGGGGTACA
29814999 TATGTGCAATTCAGGGGTAC
1 TATGTGCAATTCAGGGGTAC
29815019 TGAAGTACAA
Statistics
Matches: 27, Mismatches: 10, Indels: 5
0.64 0.24 0.12
Matches are distributed among these distances:
19 2 0.07
20 12 0.44
21 13 0.48
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (21 bp):
TATGTGCAATTCAGGGGTACA
Found at i:29821413 original size:131 final size:131
Alignment explanation
Indices: 29821179--29821443 Score: 451
Period size: 131 Copynumber: 2.0 Consensus size: 131
29821169 CTACAACAAG
**
29821179 CATTATAGCCTGTTATGCACATATGTTACCAAAACACAAACACACTTAGTTATTTTATACATATT
1 CATTATAGCCAATTATGCACATATGTTACCAAAACACAAACACACTTAGTTATTTTATACATATT
* *
29821244 CATCAAACATCACTTTCAAACATTCTAAATACATTTCAACCATAAATTCAACT-ATATATGTTTA
66 CATCAAACATCACTTTCAAACATTCTAAACACATTTCAACCATAAATCCAACTCA-ATATGTTTA
29821308 TA
130 TA
*
29821310 CATTATAGCCAATTATGCACATATGTTACCAAAACACAAACATACTTAGTTATTTTATACATATT
1 CATTATAGCCAATTATGCACATATGTTACCAAAACACAAACACACTTAGTTATTTTATACATATT
* *
29821375 CATCAATCATCACTTTTAAACATTCTAAACACATTTCAACCATAAATCCAACTCAATATGTTTAT
66 CATCAAACATCACTTTCAAACATTCTAAACACATTTCAACCATAAATCCAACTCAATATGTTTAT
29821440 A
131 A
29821441 CAT
1 CAT
29821444 GACACTGACC
Statistics
Matches: 126, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
131 125 0.99
132 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (131 bp):
CATTATAGCCAATTATGCACATATGTTACCAAAACACAAACACACTTAGTTATTTTATACATATT
CATCAAACATCACTTTCAAACATTCTAAACACATTTCAACCATAAATCCAACTCAATATGTTTAT
A
Found at i:29821758 original size:41 final size:41
Alignment explanation
Indices: 29821679--29821842 Score: 222
Period size: 41 Copynumber: 4.0 Consensus size: 41
29821669 AAGTACATCT
29821679 AGGGGTACCGAAGTACAAACA-GGGCACATATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
* * *
29821719 AGGGTTACTGAAGTACAAACAGGGGCACATATGTACAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
* * * *
29821760 AGGGGTACCAAAGTACAAACAGGGGCACGTATCTGCAATTT
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
* * * *
29821801 AAGGGTACCGAAGTACAAACAGAGGCACGTATGTGTAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
29821842 A
1 A
29821843 ACAATATTCT
Statistics
Matches: 107, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 19 0.18
41 88 0.82
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
Found at i:29821764 original size:21 final size:21
Alignment explanation
Indices: 29821700--29821764 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
29821690 AGTACAAACA
*
29821700 GGGCACATATGTGCAATTCAG
1 GGGCACATATGTACAATTCAG
** * *
29821721 GGTTAC-TGAAGTACAA-ACAG
1 GGGCACAT-ATGTACAATTCAG
29821741 GGGCACATATGTACAATTCAG
1 GGGCACATATGTACAATTCAG
29821762 GGG
1 GGG
29821765 TACCAAAGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (21 bp):
GGGCACATATGTACAATTCAG
Found at i:29833285 original size:25 final size:25
Alignment explanation
Indices: 29833249--29833318 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
29833239 CAAAGGAGAG
29833249 CATTAAAGGAAGCATGCATGAACGA
1 CATTAAAGGAAGCATGCATGAACGA
* * *
29833274 CATTAAAAGAAGCATGCATGAATGG
1 CATTAAAGGAAGCATGCATGAACGA
* *
29833299 CATTCAAGGAAACATGCATG
1 CATTAAAGGAAGCATGCATG
29833319 CTGATTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.19
Consensus pattern (25 bp):
CATTAAAGGAAGCATGCATGAACGA
Found at i:29836937 original size:196 final size:196
Alignment explanation
Indices: 29836603--29836995 Score: 777
Period size: 196 Copynumber: 2.0 Consensus size: 196
29836593 AAAAAACTTA
*
29836603 ATTGTACAAATGTGAAAATTTTATTAGTTATACATATATTATTACATGTTTCAATTACGTACGAA
1 ATTGTACAAAAGTGAAAATTTTATTAGTTATACATATATTATTACATGTTTCAATTACGTACGAA
29836668 TGGAAGAATGAATATTTAGTGATGGTAATTCTTGTGATCGCACATTATTGAAATGAATGTAACAG
66 TGGAAGAATGAATATTTAGTGATGGTAATTCTTGTGATCGCACATTATTGAAATGAATGTAACAG
29836733 ATTTATAAAATGTGTATGGAAATAAGAAGTGCCATTGAATGATTGATTTATTGTTGTTATGCATT
131 ATTTATAAAATGTGTATGGAAATAAGAAGTGCCATTGAATGATTGATTTATTGTTGTTATGCATT
29836798 T
196 T
29836799 ATTGTACAAAAGTGAAAATTTTATTAGTTATACATATATTATTACATGTTTCAATTACGTACGAA
1 ATTGTACAAAAGTGAAAATTTTATTAGTTATACATATATTATTACATGTTTCAATTACGTACGAA
29836864 TGGAAGAATGAATATTTAGTGATGGTAATTCTTGTGATCGCACATTATTGAAATGAATGTAACAG
66 TGGAAGAATGAATATTTAGTGATGGTAATTCTTGTGATCGCACATTATTGAAATGAATGTAACAG
29836929 ATTTATAAAATGTGTATGGAAATAAGAAGTGCCATTGAATGATTGATTTATTGTTGTTATGCATT
131 ATTTATAAAATGTGTATGGAAATAAGAAGTGCCATTGAATGATTGATTTATTGTTGTTATGCATT
29836994 T
196 T
29836995 A
1 A
29836996 AGTATAACGT
Statistics
Matches: 196, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
196 196 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (196 bp):
ATTGTACAAAAGTGAAAATTTTATTAGTTATACATATATTATTACATGTTTCAATTACGTACGAA
TGGAAGAATGAATATTTAGTGATGGTAATTCTTGTGATCGCACATTATTGAAATGAATGTAACAG
ATTTATAAAATGTGTATGGAAATAAGAAGTGCCATTGAATGATTGATTTATTGTTGTTATGCATT
T
Found at i:29844956 original size:54 final size:54
Alignment explanation
Indices: 29844867--29844984 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 54
29844857 AACATGTAAA
* * *
29844867 AAAGAAAGGCCTTTGTAGTGAAATATGTAAAGAAAGCCTTTGTGGTGAAATATG
1 AAAGAAAAGCCTTTGTAATGAAATATGTAAAGAAAGCCATTGTGGTGAAATATG
29844921 AAAGAAAAGCCTTTGTAATG-AATCATG-AAAGGAAAGCCATTGTGGTGAAATATG
1 AAAGAAAAGCCTTTGTAATGAAAT-ATGTAAA-GAAAGCCATTGTGGTGAAATATG
*
29844975 AAAGGAAAGC
1 AAAGAAAAGC
29844985 AATTATGGTG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 6 0.10
54 52 0.90
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.24
Consensus pattern (54 bp):
AAAGAAAAGCCTTTGTAATGAAATATGTAAAGAAAGCCATTGTGGTGAAATATG
Found at i:29844993 original size:27 final size:27
Alignment explanation
Indices: 29844870--29845057 Score: 139
Period size: 27 Copynumber: 6.9 Consensus size: 27
29844860 ATGTAAAAAA
* *
29844870 GAAAGGCCTTTGTAGTGAAATATGTAAA-
1 GAAA-GCCATTGTGGTGAAATATG-AAAG
*
29844898 GAAAGCCTTTGTGGTGAAATATGAAAG
1 GAAAGCCATTGTGGTGAAATATGAAAG
* * **
29844925 AAAAGCCTTTGTAATG-AATCATGAAAG
1 GAAAGCCATTGTGGTGAAAT-ATGAAAG
29844952 GAAAGCCATTGTGGTGAAATATGAAAG
1 GAAAGCCATTGTGGTGAAATATGAAAG
* * **
29844979 GAAAGCAATTATGGTGAGGTATGAAAG
1 GAAAGCCATTGTGGTGAAATATGAAAG
* ** *
29845006 AAAATTCATTGTGGCG-AATCATGAAAG
1 GAAAGCCATTGTGGTGAAAT-ATGAAAG
* * * * *
29845033 AAAAGCCTTTGAGGCGAATTATGAA
1 GAAAGCCATTGTGGTGAAATATGAA
29845058 GGAGTAGCCT
Statistics
Matches: 130, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.05
27 114 0.88
28 9 0.07
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (27 bp):
GAAAGCCATTGTGGTGAAATATGAAAG
Found at i:29847429 original size:12 final size:12
Alignment explanation
Indices: 29847403--29847441 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
29847393 TGCTTCTTCT
* *
29847403 TTACTTACTTTC
1 TTACTTGCTTAC
*
29847415 TTACTTGTTTAC
1 TTACTTGCTTAC
29847427 TTACTTGCTTAC
1 TTACTTGCTTAC
29847439 TTA
1 TTA
29847442 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.05, T:0.56
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:29847768 original size:50 final size:49
Alignment explanation
Indices: 29847663--29847773 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 49
29847653 CCATGACCAT
*
29847663 ACATGGTCTTACATGGGATGTTTCCTATACTGCCAATGCCATATCCTAG
1 ACATGGTCTTACATGGGATGTTTCCTATACTGCCAATGCCATATCCCAG
* * * *
29847712 ATATGGTCTTACATGGGA-G-TTCTTATATTGGTGCCCATGCCATATCCCAG
1 ACATGGTCTTACATGGGATGTTTCCTATA---CTGCCAATGCCATATCCCAG
29847762 ACATGGTCTTAC
1 ACATGGTCTTAC
29847774 GGGGGACCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
47 7 0.13
48 1 0.02
49 17 0.32
50 28 0.53
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (49 bp):
ACATGGTCTTACATGGGATGTTTCCTATACTGCCAATGCCATATCCCAG
Found at i:29847795 original size:50 final size:50
Alignment explanation
Indices: 29847693--29847879 Score: 167
Period size: 50 Copynumber: 3.6 Consensus size: 50
29847683 TTTCCTATAC
* * * ** * *
29847693 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTTATATTGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
* * *
29847743 TGCCCATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
** * * **
29847793 TGCCAACACCATGTCCCAGACATGGTTTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCAT-A--TC---GG
*
29847849 TGCCAATGCCATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATATCCCAGACATGGTCTTAC
29847880 ATAGGATCTC
Statistics
Matches: 109, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 79 0.72
53 2 0.02
56 28 0.26
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACGTGGGACCTCTCATATCGG
Found at i:29857829 original size:16 final size:16
Alignment explanation
Indices: 29857805--29857858 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
29857795 CACGGGCTGT
*
29857805 CACACGGCTGTGTGTC
1 CACATGGCTGTGTGTC
**
29857821 CACATGGCT-T-ACT-
1 CACATGGCTGTGTGTC
*
29857834 CACATGGCCGTGTGTC
1 CACATGGCTGTGTGTC
29857850 CACATGGCT
1 CACATGGCT
29857859 TACTCACATG
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
13 8 0.29
14 2 0.07
15 2 0.07
16 16 0.57
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (16 bp):
CACATGGCTGTGTGTC
Found at i:29857846 original size:29 final size:29
Alignment explanation
Indices: 29857804--29857878 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
29857794 ACACGGGCTG
* *
29857804 TCACACGGCTGTGTGTCCACATGGCTTAC
1 TCACATGGCCGTGTGTCCACATGGCTTAC
29857833 TCACATGGCCGTGTGTCCACATGGCTTAC
1 TCACATGGCCGTGTGTCCACATGGCTTAC
29857862 TCACATGGCCGTGTGTC
1 TCACATGGCCGTGTGTC
29857879 TTATTGATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.16, C:0.31, G:0.25, T:0.28
Consensus pattern (29 bp):
TCACATGGCCGTGTGTCCACATGGCTTAC
Found at i:29860077 original size:17 final size:17
Alignment explanation
Indices: 29860055--29860100 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
29860045 TGAAAAGTAT
*
29860055 TAATATTATTATCCATA
1 TAATATTATTATACATA
* *
29860072 TAATATTATTTTACATT
1 TAATATTATTATACATA
29860089 TATATATTATTA
1 TA-ATATTATTA
29860101 ATATCTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATATTATTATACATA
Found at i:29866713 original size:15 final size:15
Alignment explanation
Indices: 29866693--29866721 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29866683 TATGGGAGAT
29866693 GAAGGATGAAAAATA
1 GAAGGATGAAAAATA
29866708 GAAGGATGAAAAAT
1 GAAGGATGAAAAAT
29866722 GAAAGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.14
Consensus pattern (15 bp):
GAAGGATGAAAAATA
Found at i:29869531 original size:138 final size:138
Alignment explanation
Indices: 29869283--29869566 Score: 469
Period size: 138 Copynumber: 2.1 Consensus size: 138
29869273 TAGAAAAATG
** * * * *
29869283 AATTATATTATTTTTAAAAGAATATTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTATTTCCAAAAAAATATTAACTTTCATGTCTTTTATATTTTGACCAAAATTAATTAA
*
29869348 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATT
29869413 CATATATT
131 CATATATT
* *
29869421 AATTATATTCTTTCCAAAAAAATATTAACTTTCATGTCTTTTATATTTTGACCAAAATTAATTGA
1 AATTATATTATTTCCAAAAAAATATTAACTTTCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
29869486 TATAATTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAACCAAATT
66 TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATT
29869551 CATATATT
131 CATATATT
29869559 AATTATAT
1 AATTATAT
29869567 CTATGTTATT
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 135 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAAAAATATTAACTTTCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAACTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAACCAAATT
CATATATT
Found at i:29870968 original size:21 final size:20
Alignment explanation
Indices: 29870948--29871018 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 20
29870938 AGAAAGTGAT
29870948 TCAAATTTTAGAGGATATGA
1 TCAAATTTTAGAGGATATGA
**
29870968 TCAAAAGTTGTGTTATTGGATATGA
1 TC-AAA--T-T-TTAGAGGATATGA
29870993 TTCAAATTTTAGAGGATATGA
1 -TCAAATTTTAGAGGATATGA
29871014 TCAAA
1 TCAAA
29871019 AGGAAAGCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
20 7 0.17
21 14 0.34
22 1 0.02
23 2 0.05
24 1 0.02
25 14 0.34
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.37
Consensus pattern (20 bp):
TCAAATTTTAGAGGATATGA
Found at i:29884586 original size:17 final size:17
Alignment explanation
Indices: 29884564--29884599 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
29884554 ATTACAAGGA
29884564 AACTCTTGTGGGTATTT
1 AACTCTTGTGGGTATTT
29884581 AACTCTTGTGGGTATTT
1 AACTCTTGTGGGTATTT
29884598 AA
1 AA
29884600 AATAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (17 bp):
AACTCTTGTGGGTATTT
Found at i:29891053 original size:16 final size:16
Alignment explanation
Indices: 29891032--29891063 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29891022 GTTTTGTTGC
*
29891032 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
29891048 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
29891064 CTTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:29893107 original size:28 final size:27
Alignment explanation
Indices: 29893054--29893105 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
29893044 ACCAATGAAT
29893054 AGGGAAATCAACACTTAGCAACCCCTC
1 AGGGAAATCAACACTTAGCAACCCCTC
* *
29893081 AGGGGAATCAGCACTTAGCAACCCC
1 AGGGAAATCAACACTTAGCAACCCC
29893106 CTTTCACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.33, G:0.19, T:0.13
Consensus pattern (27 bp):
AGGGAAATCAACACTTAGCAACCCCTC
Found at i:29893155 original size:103 final size:102
Alignment explanation
Indices: 29892918--29893313 Score: 587
Period size: 102 Copynumber: 3.9 Consensus size: 102
29892908 TAACCGTTAT
* * * * *
29892918 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAATCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTTGGGG
* * * *
29892983 GAATCAGCACTTAGTAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
* * ** **
29893020 CAGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGAAATCAACACTTAGCAACCCCTCAGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTTGGGG
29893085 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTAAAATA
*
29893123 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCA-GGGAATCAGCACACAGCAACCCCTTGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAAT-AGGGGAATCAACACACAGCAACCCCTTGGG
*
29893187 GGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATA
65 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
**
29893225 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACTTAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTTGGGG
*
29893290 AAATCAGCACTTAGCAACCCCCTT
66 GAATCAGCACTTAGCAACCCCCTT
29893314 TTTATTCAAT
Statistics
Matches: 264, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
101 1 0.00
102 172 0.65
103 90 0.34
104 1 0.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
Found at i:29893169 original size:33 final size:33
Alignment explanation
Indices: 29893127--29893281 Score: 99
Period size: 33 Copynumber: 4.6 Consensus size: 33
29893117 AAAATACGGT
29893127 GGAATCAGCACTTAGCAACCACCAATGAATCAG
1 GGAATCAGCACTTAGCAACCACCAATGAATCAG
** **
29893160 GGAATCAGCACACAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCAG
* * *
29893187 GGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--C-AA--T-GAAT-CAG
29893228 TGGAATCAGCACTTAGCAACCACCAATGAAT-AGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCA-G
*
29893262 GGAATCAACACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
29893282 CCTTGGGGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 32
0.69 0.08 0.23
Matches are distributed among these distances:
27 18 0.19
28 2 0.02
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.02
33 37 0.39
34 1 0.01
35 3 0.03
36 2 0.02
38 2 0.02
39 1 0.01
40 1 0.01
41 5 0.05
42 18 0.19
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.17
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCAG
Found at i:29893270 original size:205 final size:205
Alignment explanation
Indices: 29892918--29893314 Score: 670
Period size: 205 Copynumber: 1.9 Consensus size: 205
29892908 TAACCGTTAT
* * * *
29892918 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAATCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACACAGCAACCCCTTGGGG
* * * * *
29892983 GAATCAGCACTTAGTAACCCCCTTCACATTTCAGATGCAGTGGAATCAGCACTTAGCAACCACCA
66 GAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACAGTGGAATCAGCACTTAGCAACCACCA
29893048 ATGAATAGGGAAATCAACACTTAGCAACCCCTCAGGGG-AATCAGCACTTAGCAACCCCCTTTCA
131 ATGAATAGGGAAATCAACACTTAGCAACCCCT-AGGGGAAATCAGCACTTAGCAACCCCCTTTCA
29893112 CATTTAAAATA
195 CATTTAAAATA
29893123 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACACAGCAACCCCTTGGGG
*
29893188 GAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCA
66 GAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACAGTGGAATCAGCACTTAGCAACCACCA
* *
29893253 ATGAATAGGGGAATCAACACTTAGCAACCCCTTGGGGAAATCAGCACTTAGCAACCCCCTTT
131 ATGAATAGGGAAATCAACACTTAGCAACCCCTAGGGGAAATCAGCACTTAGCAACCCCCTTT
29893315 TTATTCAATG
Statistics
Matches: 179, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
204 4 0.02
205 175 0.98
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (205 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCAGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACAGTGGAATCAGCACTTAGCAACCACCA
ATGAATAGGGAAATCAACACTTAGCAACCCCTAGGGGAAATCAGCACTTAGCAACCCCCTTTCAC
ATTTAAAATA
Found at i:29893289 original size:26 final size:27
Alignment explanation
Indices: 29893260--29893310 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
29893250 CCAATGAATA
29893260 GGGG-AATCAACACTTAGCAACCCCTT
1 GGGGAAATCAACACTTAGCAACCCCTT
*
29893286 GGGGAAATCAGCACTTAGCAACCCC
1 GGGGAAATCAACACTTAGCAACCCC
29893311 CTTTTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (27 bp):
GGGGAAATCAACACTTAGCAACCCCTT
Found at i:29899688 original size:51 final size:50
Alignment explanation
Indices: 29899516--29899895 Score: 256
Period size: 51 Copynumber: 7.5 Consensus size: 50
29899506 TCGATACACG
** * *
29899516 TAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTTCACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGCTCACA
29899565 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGCTCACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGCTCACA
* * *
29899615 TAGTAGCCTTCACATAGTACTACATACGTGA-CGAAAGCTTTT-TTG-TACCCA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC--AAG-TTTTATGGCT-CACA
* * * * * ** * *
29899666 TTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTATGGCT-CACA
* * * * * * * *
29899717 TAGTAGCATTCACACAATACTACACACGTGCTCAAAG-CTTCTCGATACACA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTATGGCT-CACA
* * * * * * *
29899768 TAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATCGATACACG
1 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTATGGCT-CACA
* * * *
29899819 TAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTATT-CGG-TACGCA
1 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTATGGCT-CACA
*
29899870 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTTCACATAGTACTACACA
29899896 TGCGACCCAT
Statistics
Matches: 264, Mismatches: 52, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
49 38 0.14
50 46 0.17
51 168 0.64
52 8 0.03
53 3 0.01
54 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGCTCACA
Found at i:29899746 original size:102 final size:100
Alignment explanation
Indices: 29899507--29899951 Score: 431
Period size: 102 Copynumber: 4.4 Consensus size: 100
29899497 TTTTATCATT
* * * *
29899507 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGA-CAAAGCTTTTTC-GTACACATAGT
* * * *
29899569 AGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAT
64 AGCCTTCACATAGTACTACACATGTAACCATA--TTTAC
* * * * * * * *
29899607 GGCT-CACATAGTAGCCTTCACATAGTACTACATACGTGACGAAAGCTTTTTTGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-AAAGCTTTTTCGTACACATAGTA
*
29899671 GCCTTCACTTAGTACTACACATGTAACCATAGTTTAC
65 GCCTTCACATAGTACTACACATGTAACCATA-TTTAC
* * * *
29899708 CGATACACGTAGTAGCATTCACACAATACTACACACGTGCTCAAAGC-TTCTCGATACACATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG-ACAAAGCTTTTTCG-TACACATAGT
* * *
29899772 AGCCTTCACTTAGTACTACACATGTGACCATTATTTAT
64 AGCCTTCACATAGTACTACACATGTAACCA-TATTTAC
* *
29899810 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGC-TATTCGGTACGCATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGA-CAAAGCTTTTTC-GTACACATAGT
* * *
29899874 AGCCTGCACATAGTACTACACATGCGACCCATCA-TT-C
64 AGCCTTCACATAGTACTACACATG-TAACCAT-ATTTAC
* *
29899911 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC
29899952 CATCACTTTC
Statistics
Matches: 288, Mismatches: 44, Indels: 26
0.80 0.12 0.07
Matches are distributed among these distances:
98 1 0.00
99 33 0.11
100 3 0.01
101 83 0.29
102 160 0.56
103 8 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (100 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACAAAGCTTTTTCGTACACATAGTAG
CCTTCACATAGTACTACACATGTAACCATATTTAC
Found at i:29899874 original size:153 final size:151
Alignment explanation
Indices: 29899506--29899960 Score: 431
Period size: 153 Copynumber: 3.0 Consensus size: 151
29899496 TTTTTATCAT
* *
29899506 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TTTACGGTACACGTAGTA
* * * * *
29899570 GCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGCT-CACATAGTAGCCTTCACATAGTA
65 GCCTTCACATAGTACTACACACGTGCTCAAG-CTTCTCGATACACATAGTAGCCTTCACATAGTA
* * *
29899634 CTACATACGTGACGA-AAGCTTTT
129 CTACACACGTGACCATAA-CTTTA
* * * * * * * * *
29899657 TTG-TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAGTTTACCGATACACGTAGT
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTA-CGGTACACGTAGT
* * * *
29899721 AGCATTCACACAATACTACACACGTGCTCAAAGCTTCTCGATACACATAGTAGCCTTCACTTAGT
64 AGCCTTCACATAGTACTACACACGTGCTC-AAGCTTCTCGATACACATAGTAGCCTTCACATAGT
* *
29899786 ACTACACATGTGACCATTA-TTTA
128 ACTACACACGTGACCATAACTTTA
* * *
29899809 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTATT-CGGTACGCATAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-T-TTACGGTACACGTAG
* * * * * * *
29899873 TAGCCTGCACATAGTACTACACATGCGAC-CCATCATTC-CGATACACGTAGTAGCCTGCACATA
63 TAGCCTTCACATAGTACTACACACGTG-CTCAAGC-TTCTCGATACACATAGTAGCCTTCACATA
*
29899936 GTACTACACACGTGACCATCACTTT
126 GTACTACACACGTGACCATAACTTT
29899961 CACTTTCACA
Statistics
Matches: 241, Mismatches: 50, Indels: 24
0.77 0.16 0.08
Matches are distributed among these distances:
150 32 0.13
151 6 0.02
152 90 0.37
153 107 0.44
154 4 0.02
155 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (151 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTACGGTACACGTAGTAG
CCTTCACATAGTACTACACACGTGCTCAAGCTTCTCGATACACATAGTAGCCTTCACATAGTACT
ACACACGTGACCATAACTTTA
Found at i:29899973 original size:203 final size:199
Alignment explanation
Indices: 29899501--29899984 Score: 516
Period size: 203 Copynumber: 2.4 Consensus size: 199
29899491 TATTATTTTT
* *
29899501 ATCATT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTG--ATCAGTTTTACAGTTCA
1 ATCATTCCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGCCATCA-CTTT-CACTTCA
* * *
29899563 CGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGCTCACATAGTAGCCTTCAC
64 CATAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATCGATCACATAGTAGCCTTCAC
* * * ** * * *
29899628 ATAGTACTACATACGTGACGAAAGCTTTTTTGTACCCATTGTAGCCTTCACTTAGTACTACACAT
129 ACAGTACTACACACGTGACGAAAGCTATTCGGTACCCATAGTAGCCTGCACATAGTACTACACAT
*
29899693 GTAACC
194 GGAACC
* * * *
29899699 AT-AGTTTACCGATACACGTAGTAGCATTCACACAATACTACACACGTGCTCA-AAGCTTCTCGA
1 ATCA--TT-CCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGC-CATCA-CTT-TC-A
* * * * * *
29899762 -TACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTATCGATACACGTAGTAG
59 CTTCACATAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTATCGAT-CACATAGTAG
*
29899825 CCTTCACACAGTACTACACACGTGATC-AAAGCTATTCGGTACGCATAGTAGCCTGCACATAGTA
122 CCTTCACACAGTACTACACACGTGA-CGAAAGCTATTCGGTACCCATAGTAGCCTGCACATAGTA
*
29899889 CTACACATGCGACCC
186 CTACACATG-GAACC
*
29899904 ATCATTCCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCACTTTCA
1 ATCATTCCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG-CCATCACTTTCAC-TTCA
* *
29899969 CATAGTGGCCTACACA
64 CATAGTAGCCTTCACA
29899985 CAGTCCGTGC
Statistics
Matches: 234, Mismatches: 34, Indels: 31
0.78 0.11 0.10
Matches are distributed among these distances:
197 1 0.00
198 2 0.01
199 2 0.01
201 37 0.16
202 5 0.02
203 102 0.44
204 78 0.33
205 6 0.03
206 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (199 bp):
ATCATTCCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGCCATCACTTTCACTTCACA
TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATCGATCACATAGTAGCCTTCACAC
AGTACTACACACGTGACGAAAGCTATTCGGTACCCATAGTAGCCTGCACATAGTACTACACATGG
AACC
Found at i:29909781 original size:7 final size:7
Alignment explanation
Indices: 29909769--29909815 Score: 67
Period size: 7 Copynumber: 6.6 Consensus size: 7
29909759 AAAAAAAAAG
29909769 AATGAAA
1 AATGAAA
29909776 AATGAAA
1 AATGAAA
29909783 AATGAAA
1 AATGAAA
29909790 AATGAAA
1 AATGAAA
*
29909797 AATAAAAA
1 AAT-GAAA
*
29909805 AATTAAA
1 AATGAAA
29909812 AATG
1 AATG
29909816 GAAAGGCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
7 30 0.83
8 6 0.17
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (7 bp):
AATGAAA
Found at i:29911210 original size:88 final size:88
Alignment explanation
Indices: 29911047--29911768 Score: 1004
Period size: 88 Copynumber: 8.2 Consensus size: 88
29911037 AACAGATCAG
**
29911047 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACAAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGGAAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
29911112 CTCTCGGTTGTAGTAGAACAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
29911135 TGAAGATAG-AGGATCTTGCCTTCCTGTATCGACAGGAAAGCAGATCGAAGACACGAGCCTTACC
1 TGAAGATAGCA-GATCTTGCCTTCCTGCATCGACAGGAAAGCAGATCGAAGACACAAGCCTTGCC
*
29911199 TCCCTCAGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * *
29911223 TGAAGATAGTAGATCTTGCCTTCCTGCATCGACAGCAAACCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGGAAAGCAGATCGAAGACACAAGCCTTGCCT
* *
29911288 CCATCGGTTGTAGTAGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
29911311 TGAAGATAGCAGATCTTGCTTTCCTGCATCGAAAGTAAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGGAAAGCAGATCGAAGACACAAGCCTTGCCT
* *
29911376 CTCTCGGTTGTAGTAGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
29911399 TGAAGATAGCGGATCTTGCCTTCCTGCATCGATAGCAAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGGAAAGCAGATCGAAGACACAAGCCTTGCCT
29911464 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
29911487 TGAAGATAACGGATCTTGCCTTCCTGCATCGACAGCG-GAGCAGATCGAAGACACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAG-GAAAGCAGATCGAAGACACAAGCCTTGCC
* * * *
29911551 TCGCTCAGTTGCAGTGGAGTAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * * *
29911575 TAAAGATAGCAGATCTTGCCTTCCTGCGAT-GACAGCG-AAGCAGATCAAAGATACCAGCCTTGC
1 TGAAGATAGCAGATCTTGCCTTCCTGC-ATCGACAG-GAAAGCAGATCGAAGACACAAGCCTTGC
* *
29911638 CTTCCTCGGTTGCAGTGGAGCAGGT
64 CTCCCTCGGTTGTAGTGGAGCAGGT
* *
29911663 TGAAGATAGCAGATCTTGCCTTCCTGCGTCGACGACG-AAGCAGATCGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGAC-AGGAAAGCAGATCGAAGACACAAGCCTTGCC
29911727 TCCCTCGGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
*
29911751 TGAAGATAGCAAATCTTG
1 TGAAGATAGCAGATCTTG
29911769 TCTCCCTAAG
Statistics
Matches: 568, Mismatches: 60, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.00
88 562 0.99
89 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGGAAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:29911329 original size:44 final size:42
Alignment explanation
Indices: 29911281--29911773 Score: 112
Period size: 44 Copynumber: 11.2 Consensus size: 42
29911271 AGACACAAGC
29911281 CTTGCCTCCATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGAT
1 CTTGCCTCC-TCGGTTGTAGTAGAGCAGGTTGAAGATA-CAGAT
* * * * * * ** * *
29911325 CTTGCTTTCCT-GCATCGAAAGTAAAGCAGATCAAAGACACA-AGC
1 CTTGC-CTCCTCG-GTTG-TAGTAGAGCAGGTTGAAGATACAGA-T
*
29911369 CTTGCCTCTCTCGGTTGTAGTAGAGCAGGTTGAAGATAGCGGAT
1 CTTGCCTC-CTCGGTTGTAGTAGAGCAGGTTGAAGATA-CAGAT
* * * * * * * *
29911413 CTTGCCTTCCT-GCATCGATAGCAAAGCAGATCGAAGACACA-AGC
1 CTTGCC-TCCTCG-GTTG-TAGTAGAGCAGGTTGAAGATACAGA-T
* *
29911457 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAACGGAT
1 CTTGCCT-CCTCGGTTGTAGTAGAGCAGGTTGAAGAT-ACAGAT
* * * ** * * * *
29911501 CTTGCCTTCCT-GCATCGACAGCGGAGCAGATCGAAGACACCAG-C
1 CTTGCC-TCCTCG-GTTG-TAGTAGAGCAGGTTGAAGATA-CAGAT
* * * * *
29911545 CTTGCCTCGCTCAGTTGCAGTGGAGTAGGTTAAAGATAGCAGAT
1 CTTGCCTC-CTCGGTTGTAGTAGAGCAGGTTGAAGATA-CAGAT
* * * * ** *
29911589 CTTGCCTTCCT-GCGATGACAG-CGAAGCAGATCAAAGATACCAG-C
1 CTTGCC-TCCTCG-GTTG-TAGTAG-AGCAGGTTGAAGATA-CAGAT
* *
29911633 CTTGCCTTCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
1 CTTGCC-TCCTCGGTTGTAGTAGAGCAGGTTGAAGATA-CAGAT
* * * * *
29911677 CTTGCCTTCCT-GCGTCG-ACG-ACGAAGCAGATCGAAGACACA-AGC
1 CTTGCC-TCCTCG-GTTGTA-GTA-G-AGCAGGTTGAAGATACAGA-T
* *
29911721 CTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAAAT
1 CTTGCCT-CCTCGGTTGTAGTAGAGCAGGTTGAAGATA-CAGAT
*
29911765 CTTGTCTCC
1 CTTGCCTCC
29911774 CTAAGCAGTA
Statistics
Matches: 320, Mismatches: 88, Indels: 83
0.65 0.18 0.17
Matches are distributed among these distances:
43 93 0.29
44 133 0.42
45 94 0.29
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (42 bp):
CTTGCCTCCTCGGTTGTAGTAGAGCAGGTTGAAGATACAGAT
Found at i:29911341 original size:48 final size:47
Alignment explanation
Indices: 29911289--29911517 Score: 112
Period size: 45 Copynumber: 5.1 Consensus size: 47
29911279 GCCTTGCCTC
29911289 CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCTG
1 CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGC-TTCCTG
** * * ** * * *
29911337 CATC-G--AAAGTAAAGCAGATCAAAGACA-CA-AGCCTTGCCT-CT-
1 CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGA-TCTTGCTTCCTG
*
29911378 C-TCGGTTGTAGTAGAGCAGGTTGAAGATAGCGGATCTTGCCTTCCTG
1 CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTG-CTTCCTG
* * * * * * * *
29911425 CATC-G--ATAGCAAAGCAGATCGAAGACA-CA-AGCCTTGCCTCC--
1 CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGA-TCTTGCTTCCTG
* * *
29911466 C-TCGGTTGTAGTGGAGCAGGTTGAAGATAACGGATCTTGCCTTCCTG
1 CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTG-CTTCCTG
29911513 CATCG
1 CATCG
29911518 ACAGCGGAGC
Statistics
Matches: 123, Mismatches: 38, Indels: 40
0.61 0.19 0.20
Matches are distributed among these distances:
40 4 0.03
41 4 0.03
42 2 0.02
43 37 0.30
44 22 0.18
45 39 0.32
46 2 0.02
47 4 0.03
48 9 0.07
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (47 bp):
CATCGGTTGTAGTAGAGCAGGTTGAAGATAGCAGATCTTGCTTCCTG
Found at i:29912771 original size:20 final size:19
Alignment explanation
Indices: 29912748--29912794 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
29912738 TATGGGATGC
29912748 GAAATGAAATATGAATTAAT
1 GAAATGAAATATGAA-TAAT
* * *
29912768 GAAATGAGATGTGAATATT
1 GAAATGAAATATGAATAAT
29912787 GAAATGAA
1 GAAATGAA
29912795 TTCAAGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (19 bp):
GAAATGAAATATGAATAAT
Found at i:29919574 original size:25 final size:26
Alignment explanation
Indices: 29919546--29919602 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
29919536 CTCGTTATAT
29919546 GGCTCTTTG-GAGCTTCCCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
* *
29919571 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCCGATTAAA
29919597 GGCTCT
1 GGCTCT
29919603 CCAGAGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 9 0.31
26 20 0.69
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.37
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:29928400 original size:20 final size:20
Alignment explanation
Indices: 29928377--29928424 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
29928367 TTAACTTAGT
29928377 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* * *
29928397 TCAGCTCATTTGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
29928417 TCAGCTCA
1 TCAGCTCA
29928425 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:29928402 original size:10 final size:10
Alignment explanation
Indices: 29928376--29928426 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
29928366 TTTAACTTAG
29928376 TTCAGCTC-A
1 TTCAGCTCAA
*
29928385 CTCGAGCTCAA
1 TTC-AGCTCAA
* *
29928396 GTCAGCTCAT
1 TTCAGCTCAA
*
29928406 TTGAGCTCAA
1 TTCAGCTCAA
29928416 TTCAGCTCAA
1 TTCAGCTCAA
29928426 T
1 T
29928427 CTTAACCCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 2 0.06
10 28 0.85
11 3 0.09
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:29929145 original size:22 final size:21
Alignment explanation
Indices: 29929116--29929163 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
29929106 AAGCATGAAC
*
29929116 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAATT-GTG
* *
29929137 TGAACATTTTTATTAATTGTG
1 TGAACATTTTAATGAATTGTG
29929158 TGAACA
1 TGAACA
29929164 CATAGATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAATTGTG
Found at i:29946982 original size:54 final size:53
Alignment explanation
Indices: 29946915--29947022 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 53
29946905 TGCTCTCAAT
*
29946915 TATGTATGCTTATTTCTTGTTTTAATAATTCTCGGATATTAATTCACGTTTAA
1 TATGTATGCTTATTTCTTGTTTTAATAATTCTAGGATATTAATTCACGTTTAA
* * *
29946968 TATGTATGTGTTATTTCTTGTTTTAATATTTCTAGGATATTAATTCATGTTTAA
1 TATGTATG-CTTATTTCTTGTTTTAATAATTCTAGGATATTAATTCACGTTTAA
29947022 T
1 T
29947023 GTGCTTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 8 0.16
54 42 0.84
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (53 bp):
TATGTATGCTTATTTCTTGTTTTAATAATTCTAGGATATTAATTCACGTTTAA
Found at i:29947022 original size:28 final size:27
Alignment explanation
Indices: 29946935--29947022 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
29946925 TATTTCTTGT
* *
29946935 TTTAATAATTCTCGGATATTAATTCACG
1 TTTAAT-ATTCTAGGATATTAATTCATG
* * * * *
29946963 TTTAATA-TGTATG-TGTTATTTCTTG
1 TTTAATATTCTAGGATATTAATTCATG
29946988 TTTTAATATTTCTAGGATATTAATTCATG
1 -TTTAATA-TTCTAGGATATTAATTCATG
29947017 TTTAAT
1 TTTAAT
29947023 GTGCTTAATT
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
25 8 0.18
26 10 0.23
27 1 0.02
28 16 0.36
29 9 0.20
ACGTcount: A:0.28, C:0.08, G:0.11, T:0.52
Consensus pattern (27 bp):
TTTAATATTCTAGGATATTAATTCATG
Found at i:29947665 original size:18 final size:18
Alignment explanation
Indices: 29947642--29947676 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29947632 GAACAATTTA
29947642 TTTTTA-TTATAATTTTTG
1 TTTTTAGTT-TAATTTTTG
29947660 TTTTTAGTTTAATTTTT
1 TTTTTAGTTTAATTTTT
29947677 ACTTTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTAGTTTAATTTTTG
Found at i:29951410 original size:14 final size:14
Alignment explanation
Indices: 29951393--29951426 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29951383 TTTTTTCTTA
29951393 TTATTTTTATTAGT
1 TTATTTTTATTAGT
* *
29951407 TTATTATTATTATT
1 TTATTTTTATTAGT
29951421 TTATTT
1 TTATTT
29951427 CATTATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTATTTTTATTAGT
Found at i:29951457 original size:21 final size:21
Alignment explanation
Indices: 29951407--29951469 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
29951397 TTTTATTAGT
29951407 TTATTATTA-TTATTTTATTTCA
1 TTATT-TTATTTATTTTA-TTCA
29951429 TTATTTTAATTTA-TTTATTCA
1 TTATTTT-ATTTATTTTATTCA
29951450 -TATGTTTATTTATTTTATTC
1 TTAT-TTTATTTATTTTATTC
29951470 TTTTGCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 8 0.22
21 16 0.43
22 10 0.27
23 3 0.08
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (21 bp):
TTATTTTATTTATTTTATTCA
Found at i:29953148 original size:6 final size:6
Alignment explanation
Indices: 29953139--29953201 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
29953129 TTTGTTTTCA
* * * **
29953139 TTTTAG TTTTAT TTTTAT TTTTA- CTTTAT TTTCA- TTTTAT GCTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
29953185 GTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTA
29953202 GTTCTCTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 8 0.17
6 38 0.83
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:29953158 original size:17 final size:16
Alignment explanation
Indices: 29953133--29953177 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
29953123 AGTATATTTG
*
29953133 TTTTCATTTTAGTTTTA
1 TTTTCATTTTA-CTTTA
*
29953150 TTTTTATTTTTACTTTA
1 TTTTCA-TTTTACTTTA
29953167 TTTTCATTTTA
1 TTTTCATTTTA
29953178 TGCTTATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.21
17 14 0.58
18 5 0.21
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTCATTTTACTTTA
Found at i:29959972 original size:33 final size:34
Alignment explanation
Indices: 29959925--29959999 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
29959915 GAGTAAGTTT
* * *
29959925 ATTAAATTTGGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
*
29959958 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
29959992 ATTAATTT
1 ATTAATTT
29960000 GTTTAAATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 28 0.76
34 9 0.24
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:29961929 original size:23 final size:23
Alignment explanation
Indices: 29961899--29961948 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
29961889 ATTTATACTA
29961899 TTGTTCGATAGGTACGTTTTCCT
1 TTGTTCGATAGGTACGTTTTCCT
29961922 TTGTTCGATAGGTACGTTTTCCT
1 TTGTTCGATAGGTACGTTTTCCT
29961945 TTGT
1 TTGT
29961949 CGTATTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (23 bp):
TTGTTCGATAGGTACGTTTTCCT
Found at i:29983335 original size:28 final size:28
Alignment explanation
Indices: 29983295--29983403 Score: 146
Period size: 28 Copynumber: 3.9 Consensus size: 28
29983285 CATTATCAAT
* * * * *
29983295 ACAGTGTGGGCCTTCGCCGATTTCAGTA
1 ACAGTGTGAGCCTTAGCCCAATACAGTA
29983323 ACAGTGTGAGCCTTAGCCCAATACAGTA
1 ACAGTGTGAGCCTTAGCCCAATACAGTA
29983351 ACAGTGTGAGCCTTAGCCCAATACAGTA
1 ACAGTGTGAGCCTTAGCCCAATACAGTA
* * *
29983379 ACAATGTGGGCCTTAGCACAATACA
1 ACAGTGTGAGCCTTAGCCCAATACA
29983404 TTAATTAGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTGTGAGCCTTAGCCCAATACAGTA
Found at i:29983760 original size:27 final size:27
Alignment explanation
Indices: 29983702--29984219 Score: 528
Period size: 27 Copynumber: 19.2 Consensus size: 27
29983692 TATAACGGTC
** *
29983702 ATTTTACCCCTTCGGGGGTATTTC-AGTC
1 ATTTTA-CCCTTCAAGGGTATTTCGA-TA
* * *
29983730 ATTTTACCTTTCAAAGGTATTTTGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
* *
29983757 ATTTTACCCTTCAAGGGTATTTTGGTA
1 ATTTTACCCTTCAAGGGTATTTCGATA
29983784 ATTTTACCCTTCGAA-GGTATTTC-AGTA
1 ATTTTACCCTTC-AAGGGTATTTCGA-TA
*
29983811 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
** *
29983838 ATTTTACCCTTTGAGGGTATTTTGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
* *
29983865 ATTTTACCCTTAAAGGGTATTTCAATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
** * *
29983892 ATTTTACCCTTTGATGGTATTTC-AGTC
1 ATTTTACCCTTCAAGGGTATTTCGA-TA
*
29983919 ATTTTACCCTTCAGGGGTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
* * *
29983946 ATTTTACCTTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
* * * *
29983973 A-TTTACCATTTAAGGGTATTTCGGTC
1 ATTTTACCCTTCAAGGGTATTTCGATA
29983999 ATTTTACCCTTCAAGGGTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
*
29984026 ATTTTACCCTTCAAGGGTATTTCGGTA
1 ATTTTACCCTTCAAGGGTATTTCGATA
** * *
29984053 ATTTTACCCTTCGGGGGTATTTTGGTA
1 ATTTTACCCTTCAAGGGTATTTCGATA
** *
29984080 ATTTTACCCTTTGAGAGTATTTCGATA
1 ATTTTACCCTTCAAGGGTATTTCGATA
* * *
29984107 ATTTTACCCTTTGAA-GGTATTTCAATC
1 ATTTTACCC-TTCAAGGGTATTTCGATA
*
29984134 ATTTTACCCTTCAAGGGTATTTCGGTA
1 ATTTTACCCTTCAAGGGTATTTCGATA
** *
29984161 ATTTTACCCTTCGTGGGTATTTCGGTA
1 ATTTTACCCTTCAAGGGTATTTCGATA
* * *
29984188 ATTTTACTCTTCGAA-GGTATTTTGGTA
1 ATTTTACCCTTC-AAGGGTATTTCGATA
29984215 ATTTT
1 ATTTT
29984220 GGGCCCATTA
Statistics
Matches: 414, Mismatches: 65, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
26 26 0.06
27 374 0.90
28 14 0.03
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCAAGGGTATTTCGATA
Found at i:29986695 original size:39 final size:39
Alignment explanation
Indices: 29986641--29987087 Score: 639
Period size: 39 Copynumber: 11.5 Consensus size: 39
29986631 AACATATTTT
*
29986641 TGAGTATTGTGATATATGCTTTAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
29986680 TGAGTATTGTTATATATG-TTGGAATGTTATGTGACTATA
1 TGAGTATTGTGATATATGCTT-GAATGTTATGTGATTATA
* *
29986719 TGAGTATTGTGATATATGCTCGAAGGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
29986758 TGAGTATTGTGATATATGCTTGAATGTTATATGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
29986797 TGATTATTGTGATATATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
29986836 TGGGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
29986875 TGAGTATTGTAATATATGCTTGAAGGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * *
29986914 TGAGTATTGTGATATATGTTTTAATATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
29986953 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * *
29986992 TTAGTATAGTGATATATGTTTGAATATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** *
29987031 TTTGTATTGTGATATATGCTTAAATGTTATGCT-ATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATG-TGATTATA
* *
29987070 -CATGTAATGTGATATATG
1 TGA-GTATTGTGATATATG
29987088 ATTAAAATTG
Statistics
Matches: 365, Mismatches: 39, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.01
39 361 0.99
40 2 0.01
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:29992362 original size:20 final size:20
Alignment explanation
Indices: 29992337--29992393 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
29992327 TCCATGCGGT
29992337 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* *
29992357 TCAGCTCACACGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
* *
29992377 TCAACTC-CTTGAGCTCA
1 TCAGCTCACTCGAGCTCA
29992394 TTATTAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:29995030 original size:5 final size:6
Alignment explanation
Indices: 29995009--29995104 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
29994999 AATAAAAACA
** ** * *
29995009 AAAAAG AAAGTG AAAAAG AAAAAG AAATTG CAAAAG AAAAAG AAATCA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG
** * * *
29995057 AAAAAG TGAGAG AAAAAG AAAACG AAGAAAAG AAAATTG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -A-AAAAG AAAA-AG AAAAAG AAA
29995105 TTGAGATTGA
Statistics
Matches: 63, Mismatches: 22, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
5 1 0.02
6 50 0.79
7 8 0.13
8 4 0.06
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:29995054 original size:18 final size:18
Alignment explanation
Indices: 29995009--29995104 Score: 75
Period size: 18 Copynumber: 5.2 Consensus size: 18
29994999 AATAAAAACA
*
29995009 AAAAAGAAAGTGAAAAAG
1 AAAAAGAAATTGAAAAAG
*
29995027 AAAAAGAAATTGCAAAAG
1 AAAAAGAAATTGAAAAAG
**
29995045 AAAAAGAAATCAAAAAAG
1 AAAAAGAAATTGAAAAAG
** * ** *
29995063 TGAGAGAAAAAGAAAACG
1 AAAAAGAAATTGAAAAAG
29995081 AAGAAAAGAAAATTGAAAAAG
1 -A-AAAAG-AAATTGAAAAAG
29995102 AAA
1 AAA
29995105 TTGAGATTGA
Statistics
Matches: 57, Mismatches: 18, Indels: 5
0.71 0.22 0.06
Matches are distributed among these distances:
18 42 0.74
19 2 0.04
20 4 0.07
21 9 0.16
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (18 bp):
AAAAAGAAATTGAAAAAG
Found at i:29996843 original size:20 final size:20
Alignment explanation
Indices: 29996818--29996874 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
29996808 TCCATGCGGT
29996818 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
* *
29996838 TCAGCTCACACGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
* *
29996858 TCAACTC-CTTGAGCTCA
1 TCAGCTCACTCGAGCTCA
29996875 TTATTAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:29998664 original size:39 final size:39
Alignment explanation
Indices: 29998610--29998993 Score: 581
Period size: 39 Copynumber: 9.8 Consensus size: 39
29998600 TGTTTTTGAT
*
29998610 TATTGTGATATATGCTTGATTGTTATGTGATTATATGAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
29998649 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
29998688 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
* *
29998727 TATTGTGATATATGCTTGAATCTTATGTGATTATATTAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
* *
29998766 TATTGTGTTATATGCTTGAATGATATGTGATTATATGAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
29998805 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
* *
29998844 TATTGTGATATATGCTTGAAGGTTATGTGATTATATGTG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
* * * *
29998883 TATTGTGGTATATGCTTAAACGTTATGTGATTATATGTG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
* * *
29998922 TATTGTGGTATATGCTTAAATGTTATGTGATTATA-CATG
1 TATTGTGATATATGCTTGAATGTTATGTGATTATATGA-G
* * * *
29998961 TAATGTCATATATGCTTAAAAGTTAATGTGATT
1 TATTGTGATATATGCTTGAATGTT-ATGTGATT
29998994 CCCATGTAAA
Statistics
Matches: 322, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 314 0.98
40 8 0.02
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (39 bp):
TATTGTGATATATGCTTGAATGTTATGTGATTATATGAG
Found at i:30001135 original size:19 final size:22
Alignment explanation
Indices: 30001097--30001136 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
30001087 CTCGATGAGT
30001097 TTGGTGTGATATTTAGTATGAA
1 TTGGTGTGATATTTAGTATGAA
30001119 TTGGT-TGAT-TTTA-TATGA
1 TTGGTGTGATATTTAGTATGA
30001137 TGTTGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 4 0.22
22 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TTGGTGTGATATTTAGTATGAA
Found at i:30001298 original size:21 final size:21
Alignment explanation
Indices: 30001272--30001311 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30001262 TGTTAGAATC
30001272 AAAGATTGTATCCTAATTAGA
1 AAAGATTGTATCCTAATTAGA
*
30001293 AAAGATTTTATCCTAATTA
1 AAAGATTGTATCCTAATTA
30001312 TCGTAATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAGATTGTATCCTAATTAGA
Found at i:30002594 original size:66 final size:66
Alignment explanation
Indices: 30002511--30002643 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
30002501 ATTCGTAAAG
* *
30002511 TATGTGAAATTTAACGATATTCATGGATACCAGAACAATGGTAATTTGAAATATTGGAACACTAT
1 TATGTGAAATTTAACGATATTCATGGATACCAGAACAATGGTAATTTGAAAGATTAGAACACTAT
30002576 T
66 T
* * * *
30002577 TATGTGGAATTTAACGATATTGATTGATACCAGCACAATGGTAATTTGAAAGATTAGAACACTAT
1 TATGTGAAATTTAACGATATTCATGGATACCAGAACAATGGTAATTTGAAAGATTAGAACACTAT
30002642 T
66 T
30002643 T
1 T
30002644 CCATTTACTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (66 bp):
TATGTGAAATTTAACGATATTCATGGATACCAGAACAATGGTAATTTGAAAGATTAGAACACTAT
T
Found at i:30017395 original size:21 final size:21
Alignment explanation
Indices: 30017352--30017395 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30017342 ACACACTCAG
*
30017352 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
30017373 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
30017394 CT
1 CT
30017396 ACAAGACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:30019033 original size:35 final size:35
Alignment explanation
Indices: 30018994--30019072 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
30018984 AACACAGTGG
*
30018994 CATGCTTAACATGCAAAT-TAGAATTAGAATAATGA
1 CATGCTTAACATACAAATCTA-AATTAGAATAATGA
* *
30019029 CATGCTTAACATACAAGTCTAAATTAGAATAATGG
1 CATGCTTAACATACAAATCTAAATTAGAATAATGA
30019064 CATGCTTAA
1 CATGCTTAA
30019073 TTAAGTGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 38 0.95
36 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (35 bp):
CATGCTTAACATACAAATCTAAATTAGAATAATGA
Found at i:30029931 original size:19 final size:19
Alignment explanation
Indices: 30029904--30029996 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
30029894 AATAAATTAC
* *
30029904 TCATTTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
30029923 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
** * * *
30029942 TGC-T-GGAATAAATT--GC
1 T-CATCTTAGTTAATTAAGT
30029958 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* *
30029977 TTATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
30029996 T
1 T
30029997 GTTGGAATAA
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
15 1 0.02
16 3 0.05
17 6 0.11
18 6 0.11
19 38 0.69
20 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:30029967 original size:54 final size:54
Alignment explanation
Indices: 30029880--30030006 Score: 191
Period size: 54 Copynumber: 2.4 Consensus size: 54
30029870 AATTTGGTGG
* * *
30029880 AATTTAGTTGCTAGAATAAATTACTCATTTTAGTTAATTGAGTTCATCTTAGTT
1 AATTTAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTT
* * *
30029934 AATTAAGTTGCTGGAATAAATTGCTCATCTTAGTTAATTAAGTTTATCTTAGTT
1 AATTTAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTT
*
30029988 AATTTAGTTGTTGGAATAA
1 AATTTAGTTGCTGGAATAA
30030007 TTTATTATTG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (54 bp):
AATTTAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTT
Found at i:30030114 original size:9 final size:9
Alignment explanation
Indices: 30030100--30030137 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
30030090 TATGTGTTAA
30030100 AATGTGTTT
1 AATGTGTTT
30030109 AATGTGTTT
1 AATGTGTTT
30030118 AATGTGTTTTT
1 AATGTG--TTT
30030129 AATGTGTTT
1 AATGTGTTT
30030138 GTTTGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (9 bp):
AATGTGTTT
Found at i:30030129 original size:11 final size:11
Alignment explanation
Indices: 30030106--30030137 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30030096 TTAAAATGTG
30030106 TTTAATGTG--
1 TTTAATGTGTT
30030115 TTTAATGTGTT
1 TTTAATGTGTT
30030126 TTTAATGTGTT
1 TTTAATGTGTT
30030137 T
1 T
30030138 GTTTGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:30030290 original size:21 final size:22
Alignment explanation
Indices: 30030237--30030300 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
30030227 TACAAGGGGC
*
30030237 TGTTACATCAATTAAAGGAGAG
1 TGTTACATCATTTAAAGGAGAG
* *
30030259 TGTTATACATCATTTAATGGAG-T
1 TG-T-TACATCATTTAAAGGAGAG
30030282 TGTTACATCATTTAAAGGA
1 TGTTACATCATTTAAAGGA
30030301 AAACATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 15 0.42
22 3 0.08
23 3 0.08
24 15 0.42
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (22 bp):
TGTTACATCATTTAAAGGAGAG
Found at i:30036188 original size:19 final size:20
Alignment explanation
Indices: 30036164--30036201 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
30036154 TGAGCTGATT
30036164 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
30036183 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
30036202 AGTCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:30040379 original size:13 final size:12
Alignment explanation
Indices: 30040361--30040402 Score: 54
Period size: 10 Copynumber: 3.7 Consensus size: 12
30040351 TGTGAGCGAG
30040361 AAAAGAACATTGA
1 AAAAGAA-ATTGA
30040374 AAAAGAAATTG-
1 AAAAGAAATTGA
30040385 -AAAGAAA-TGA
1 AAAAGAAATTGA
30040395 AAAAGAAA
1 AAAAGAAA
30040403 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 4 0.15
13 7 0.26
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:30040458 original size:18 final size:17
Alignment explanation
Indices: 30040422--30040461 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30040412 ATGAGATTTC
30040422 AAAAACAAAAAAGAGTG
1 AAAAACAAAAAAGAGTG
* *
30040439 AAAAGCAAAAAGAGATTG
1 AAAAACAAAAA-AGAGTG
30040457 AAAAA
1 AAAAA
30040462 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.70, C:0.05, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAAACAAAAAAGAGTG
Found at i:30040462 original size:12 final size:12
Alignment explanation
Indices: 30040445--30040486 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
30040435 AGTGAAAAGC
*
30040445 AAAAAGAGATTG
1 AAAAAGAAATTG
30040457 AAAAAGAAATTG
1 AAAAAGAAATTG
30040469 --AAAGAAA-TG
1 AAAAAGAAATTG
30040478 AAAAAGAAA
1 AAAAAGAAA
30040487 AAGATGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 2 0.07
10 7 0.26
11 7 0.26
12 11 0.41
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (12 bp):
AAAAAGAAATTG
Found at i:30040473 original size:38 final size:38
Alignment explanation
Indices: 30040431--30040558 Score: 100
Period size: 38 Copynumber: 3.2 Consensus size: 38
30040421 CAAAAACAAA
30040431 AAAGAGTGAAAAGCAAAAAGAGATTGAAAAAGAAATTG
1 AAAGAGTGAAAAGCAAAAAGAGATTGAAAAAGAAATTG
* * **
30040469 AAAGAAATGAAAAAG-AAAAAGATGAAAATGAGATTTCAAA-AACA-AA
1 AAAG-AGTG-AAAAGCAAAAAGA-G--ATTGA-A----AAAGAA-ATTG
30040515 AAAGAGTGAAAAGCAAAAAGAGATTGAAAAAGAAATTG
1 AAAGAGTGAAAAGCAAAAAGAGATTGAAAAAGAAATTG
30040553 AAAGAG
1 AAAGAG
30040559 AGTAAAAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 28
0.65 0.08 0.27
Matches are distributed among these distances:
37 4 0.06
38 12 0.18
39 10 0.15
40 6 0.09
41 1 0.01
42 8 0.12
43 1 0.01
44 6 0.09
45 10 0.15
46 6 0.09
47 4 0.06
ACGTcount: A:0.63, C:0.03, G:0.21, T:0.12
Consensus pattern (38 bp):
AAAGAGTGAAAAGCAAAAAGAGATTGAAAAAGAAATTG
Found at i:30040542 original size:18 final size:17
Alignment explanation
Indices: 30040506--30040545 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30040496 ATGAGATTTC
30040506 AAAAACAAAAAAGAGTG
1 AAAAACAAAAAAGAGTG
* *
30040523 AAAAGCAAAAAGAGATTG
1 AAAAACAAAAA-AGAGTG
30040541 AAAAA
1 AAAAA
30040546 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.70, C:0.05, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAAACAAAAAAGAGTG
Found at i:30040580 original size:84 final size:84
Alignment explanation
Indices: 30040369--30040557 Score: 378
Period size: 84 Copynumber: 2.2 Consensus size: 84
30040359 AGAAAAGAAC
30040369 ATTGAAAAAGAAATTGAAAGAAATGAAAAAGAAAAAGATGAAAATGAGATTTCAAAAACAAAAAA
1 ATTGAAAAAGAAATTGAAAGAAATGAAAAAGAAAAAGATGAAAATGAGATTTCAAAAACAAAAAA
30040434 GAGTGAAAAGCAAAAAGAG
66 GAGTGAAAAGCAAAAAGAG
30040453 ATTGAAAAAGAAATTGAAAGAAATGAAAAAGAAAAAGATGAAAATGAGATTTCAAAAACAAAAAA
1 ATTGAAAAAGAAATTGAAAGAAATGAAAAAGAAAAAGATGAAAATGAGATTTCAAAAACAAAAAA
30040518 GAGTGAAAAGCAAAAAGAG
66 GAGTGAAAAGCAAAAAGAG
30040537 ATTGAAAAAGAAATTGAAAGA
1 ATTGAAAAAGAAATTGAAAGA
30040558 GAGTAAAAAC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 105 1.00
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.14
Consensus pattern (84 bp):
ATTGAAAAAGAAATTGAAAGAAATGAAAAAGAAAAAGATGAAAATGAGATTTCAAAAACAAAAAA
GAGTGAAAAGCAAAAAGAG
Found at i:30047946 original size:24 final size:21
Alignment explanation
Indices: 30047912--30047954 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 21
30047902 TGAAAAACAA
30047912 AAAGAGATTGAAAAAGAAATTG
1 AAAGAGATTG-AAAAGAAATTG
30047934 AAAGAGAACTTGAAAAGAAAT
1 AAAGAG-A-TTGAAAAGAAAT
30047955 CGAGTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 10 0.53
24 3 0.16
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.16
Consensus pattern (21 bp):
AAAGAGATTGAAAAGAAATTG
Found at i:30047967 original size:16 final size:16
Alignment explanation
Indices: 30047946--30047995 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
30047936 AGAGAACTTG
30047946 AAAAGAAATCGAGTGA
1 AAAAGAAATCGAGTGA
* *
30047962 AAAAGAAATAGAGCCTGT
1 AAAAGAAATCGAG--TGA
30047980 AAAAGAAA-CGAGTGA
1 AAAAGAAATCGAGTGA
30047995 A
1 A
30047996 GAGAGTAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 12 0.43
17 3 0.11
18 10 0.36
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (16 bp):
AAAAGAAATCGAGTGA
Found at i:30060416 original size:16 final size:16
Alignment explanation
Indices: 30060397--30060431 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30060387 TAGTAATTTT
30060397 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
30060413 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
30060429 AAT
1 AAT
30060432 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Done.