Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 21
Found at i:1827302 original size:3 final size:3
Alignment explanation
Indices: 1827296--1827360 Score: 69
Period size: 3 Copynumber: 21.0 Consensus size: 3
1827286 TTAACCATTT
* * *
1827296 TTA TTA TTA TTA CTA TAA TTA TTA TTTA TAA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1827341 TTA TATA TATA TTA TTA TTA
1 TTA T-TA T-TA TTA TTA TTA
1827361 AAAAATAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 41 0.77
4 10 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1827329 original size:22 final size:19
Alignment explanation
Indices: 1827303--1827359 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
1827293 TTTTTATTAT
1827303 TATTACTATAATTATTATTTA
1 TATTA-TAT-ATTATTATTTA
1827324 TAATTAT-TATTATTATATTA
1 T-ATTATATATTATTAT-TTA
1827344 TA-TATATATTATTATT
1 TATTATATATTATTATT
1827360 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.12
19 18 0.55
20 5 0.15
21 2 0.06
22 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATATATTATTATTTA
Found at i:1827340 original size:28 final size:25
Alignment explanation
Indices: 1827297--1827360 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 25
1827287 TAACCATTTT
*
1827297 TATTATTATTACTATAATTATTATTTA
1 TATTATTATTACTAT-ATTA-TATATA
*
1827324 TAATTATTATTATTATATTATATATA
1 T-ATTATTATTACTATATTATATATA
1827350 TATTATTATTA
1 TATTATTATTA
1827361 AAAAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 10 0.29
26 6 0.18
27 5 0.15
28 13 0.38
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTATTATTACTATATTATATATA
Found at i:1827360 original size:22 final size:19
Alignment explanation
Indices: 1827313--1827360 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 19
1827303 TATTACTATA
1827313 ATTATTATTTATAATTATT
1 ATTATTATTTATAATTATT
1827332 ATTATTATATTATATATATATT
1 ATTATTAT-TTATA-AT-TATT
1827354 ATTATTA
1 ATTATTA
1827361 AAAAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 2 0.08
22 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTATTATTTATAATTATT
Found at i:1828684 original size:28 final size:28
Alignment explanation
Indices: 1828636--1828697 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
1828626 TAGTCACTAA
* *
1828636 TTTTAAATATTTTCATTTA-TTTTATTG
1 TTTTAAATATTATAATTTATTTTTATTG
1828663 CTTTTAAATA-TATAATTGTATTTTTATTG
1 -TTTTAAATATTATAATT-TATTTTTATTG
1828692 TTTTAA
1 TTTTAA
1828698 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 17 0.57
29 8 0.27
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (28 bp):
TTTTAAATATTATAATTTATTTTTATTG
Found at i:1828975 original size:16 final size:16
Alignment explanation
Indices: 1828954--1828988 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1828944 TCATTTTCTG
1828954 ATATTTTTAAATAAAT
1 ATATTTTTAAATAAAT
* *
1828970 ATATTTTTATATAATT
1 ATATTTTTAAATAAAT
1828986 ATA
1 ATA
1828989 AATTTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTTTTAAATAAAT
Found at i:1839153 original size:93 final size:93
Alignment explanation
Indices: 1838994--1839333 Score: 520
Period size: 93 Copynumber: 3.7 Consensus size: 93
1838984 AACAAGTGTC
*
1838994 GTGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCA
1 GTGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCA
* *
1839059 AAACCCAATCATTGAATTTGAAAGATGA
66 AAAACCAATCATTGAATTTGGAAGATGA
* *
1839087 GTGTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTTGTTTGGTATGAACACCA
1 GTGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCA
1839152 AAAACCAATCATTGAATTTGGAAGATGA
66 AAAACCAATCATTGAATTTGGAAGATGA
* * * * *
1839180 ATGTGCTCATAGCATCTTTTGGAAGTGTTTTTTGAGTTATCTAATCTGGTTTGGTATGAACCCCA
1 GTGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCA
*
1839245 AAAACCAATTATTGAATTTGGAAGATG-
66 AAAACCAATCATTGAATTTGGAAGATGA
* * * * *
1839272 GATGTGCTCATAACATCTTTTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTCGGTAGGAAC
1 G-TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAC
1839334 CATAGAACCA
Statistics
Matches: 226, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
93 226 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (93 bp):
GTGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACACCA
AAAACCAATCATTGAATTTGGAAGATGA
Found at i:1840374 original size:113 final size:112
Alignment explanation
Indices: 1840189--1840939 Score: 764
Period size: 113 Copynumber: 6.7 Consensus size: 112
1840179 TGCCAGGTAG
1840189 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAG-A-AA-TTCATAATGAGAAGAATTTGT
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * * **
1840251 TTAACTTTTTGCTCAAATCCATCATTTGATGGATCAGTTTTTCCAGAGAA
63 TCAACCTTTTGCTTAAATCCATCATTTGATGGATCAACTTTTCCAGAGAA
1840301 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * **
1840366 AACCTTTTGTTTGAATTCATCATTTGATGGATCAGTTTTTCCAGAGAA
65 AACCTTTTGCTTAAATCCATCATTTGATGGATCAACTTTTCCAGAGAA
*
1840414 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT-
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
1840478 AACC-TTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAT
65 AACCTTTTGCTTAAATCCATCATTTGATGGATCAACTTTTCCAGAG-AA
*
1840525 AGTTCATAAAGAGAAGAACTCATCT---GAAGAAG-A-AA-TTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * * * *
1840584 ACCTTTTGTTTGAATTCATCATTTGATGGATTAACATTCCCATGTAG--
66 ACCTTTTGCTTAAATCCATCATTTGATGGATCAACTTTTCCA-G-AGAA
1840631 AGTTCATAATGAGAAGAACTCATCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTG
* * * **
1840696 TTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAGTTTTTCCAGAG-A
62 TTCAACCTTTTGCTTAAATCCATCATTTGATGGATCAACTTTTCCAGAGAA
* ** *
1840746 AGTTCATAATGAGAAGAACTCATCTGAAGAAG-A-AA-AAGTTCACAATGAGAAGAGCTTATTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * * * * *
1840808 ACCTTTTACATAATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCCAGAGAA
66 ACCTTTTGCTTAA----ATC-C---ATCA-TTTGA-T-GGATCAACTTTTCCAGAGAA
* ** *
1840866 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAG-AAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1840931 AACCTTTTG
65 AACCTTTTG
1840940 AATGACTCTA
Statistics
Matches: 557, Mismatches: 45, Indels: 62
0.84 0.07 0.09
Matches are distributed among these distances:
104 22 0.04
105 6 0.01
106 54 0.10
107 5 0.01
108 36 0.06
109 21 0.04
110 7 0.01
111 62 0.11
112 42 0.08
113 134 0.24
114 3 0.01
115 21 0.04
116 58 0.10
117 3 0.01
118 1 0.00
119 14 0.03
120 32 0.06
122 1 0.00
123 2 0.00
124 33 0.06
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTTAAATCCATCATTTGATGGATCAACTTTTCCAGAGAA
Found at i:1840577 original size:16 final size:16
Alignment explanation
Indices: 1840527--1840577 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
1840517 CCAGGTATAG
*
1840527 TTCATAAAGAGAAGAA
1 TTCATAATGAGAAGAA
* *
1840543 CTCAT-CTGAAGAAGAAA
1 TTCATAATG-AGAAG-AA
1840560 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
1840576 TT
1 TT
1840578 TGTTCAACCT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 11 0.41
18 2 0.07
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.24
Consensus pattern (16 bp):
TTCATAATGAGAAGAA
Found at i:1840975 original size:124 final size:124
Alignment explanation
Indices: 1840736--1841027 Score: 395
Period size: 124 Copynumber: 2.4 Consensus size: 124
1840726 TGGATCAGTT
1840736 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTG---AAG-AAGAAAAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAAAAGTTCACAATGAGA
* * * *
1840796 AGAGCTTATTCAACCTTTTACATAATTCTATCACAGAAGCAGATAGATTAGCATCAACC
66 AGAGCTTATTCAACCTTTTACATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
* *
1840855 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAAAAGTTCACAATGAGA
* * * *
1840920 AGAGCTTATTCAACCTTTTGA-ATGACTCTATCACAGAAGGAAATAGGTCAACATCATCC
66 AGAGCTTATTCAACCTTTT-ACATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
1840979 ---CCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
1841028 TTTATTCAAC
Statistics
Matches: 154, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
119 9 0.06
120 27 0.18
121 4 0.03
122 32 0.21
123 8 0.05
124 73 0.47
125 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (124 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAAAAGTTCACAATGAGA
AGAGCTTATTCAACCTTTTACATAACTCTATCACAGAAGCAAATAGATCAACATCAACC
Found at i:1841168 original size:3 final size:3
Alignment explanation
Indices: 1841162--1841222 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
1841152 TTTACCCATT
* * * *
1841162 TTA TTA TTA CTA TAA TTA TTA TTA TTA TAA TTTA TAA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA
1841208 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
1841223 AAAAAATAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1842581 original size:18 final size:19
Alignment explanation
Indices: 1842558--1842593 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1842548 CTGGCATTTT
1842558 AAAA-TTAAATATTATAAA
1 AAAATTTAAATATTATAAA
*
1842576 AAAATTTAATTATTATAA
1 AAAATTTAAATATTATAA
1842594 TATATATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTTAAATATTATAAA
Found at i:1842692 original size:17 final size:17
Alignment explanation
Indices: 1842646--1842692 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
1842636 CTTTTCTGAT
*
1842646 ATTTTTAAATAAATATA
1 ATTTTTAAATAATTATA
* *
1842663 TTTTTTATATAATTATA
1 ATTTTTAAATAATTATA
*
1842680 ATTTTGAAATAAT
1 ATTTTTAAATAAT
1842693 AGGATTATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTTTAAATAATTATA
Found at i:1846494 original size:15 final size:15
Alignment explanation
Indices: 1846474--1846505 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1846464 ATTAATACCT
1846474 TTTTGCATACATACA
1 TTTTGCATACATACA
*
1846489 TTTTGCATACATTCA
1 TTTTGCATACATACA
1846504 TT
1 TT
1846506 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:1850260 original size:18 final size:19
Alignment explanation
Indices: 1850232--1850268 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1850222 AGATGGCAAT
*
1850232 CATTCTTTACATTTTTTTA
1 CATTCTTTACATTTATTTA
1850251 CATT-TTTACATTTATTTA
1 CATTCTTTACATTTATTTA
1850269 TTTCATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
CATTCTTTACATTTATTTA
Found at i:1853795 original size:10 final size:10
Alignment explanation
Indices: 1853780--1853815 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
1853770 ATGCTTGAAG
1853780 AAAAAGAAAA
1 AAAAAGAAAA
1853790 AAAAAGAAAA
1 AAAAAGAAAA
1853800 AAAAAGAAAA
1 AAAAAGAAAA
1853810 GAAAAA
1 -AAAAA
1853816 AGGGTGTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:1853804 original size:15 final size:15
Alignment explanation
Indices: 1853777--1853816 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
1853767 ATTATGCTTG
1853777 AAGAAAAAGAAAAAAA
1 AAGAAAAA-AAAAAAA
*
1853793 AAGAAAAAAAAAGAA
1 AAGAAAAAAAAAAAA
1853808 AAGAAAAAA
1 AAGAAAAAA
1853817 GGGTGTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAAAA
Found at i:1855019 original size:94 final size:93
Alignment explanation
Indices: 1854810--1855567 Score: 1204
Period size: 94 Copynumber: 8.1 Consensus size: 93
1854800 ACAAGTGCCG
*
1854810 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTATGAA-CCGAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCGAA
1854874 AAACCAATCATTGAATTTGAAAGATGAA
66 AAACCAATCATTGAATTTGAAAGATGAA
* *
1854902 GGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCCTGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCC-GA
1854967 AAAACCAATCATTGAATTTGAAAGATGAA
65 AAAACCAATCATTGAATTTGAAAGATGAA
* *
1854996 GGTGCTCATAGCATCATCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAATCCCGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCGA
1855061 AAAACCAATCATTGAATTTGAAAGATGAA
65 AAAACCAATCATTGAATTTGAAAGATGAA
* * *
1855090 TGTGCTCCTAGCATCTTTTGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCC-GA
*
1855155 AAAACCAATCATTGAATTTGAAAGATAAA
65 AAAACCAATCATTGAATTTGAAAGATGAA
*
1855184 TGTGCTCATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCGA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCGA
*
1855249 AAAACCAATCATTGAATTTAAAAGATGAA
65 AAAACCAATCATTGAATTTGAAAGATGAA
*
1855278 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAA
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCGA
1855343 AAAACCAATCATTGAATTTGAAAGATGAA
65 AAAACCAATCATTGAATTTGAAAGATGAA
*
1855372 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG-
1 TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-CCCGA
*
1855436 AAAACCAATCATTGGATTTG-AA-AT-AA
65 AAAACCAATCATTGAATTTGAAAGATGAA
* * * * *
1855462 AGAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATAAAACC-
1 TGTG-CTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCG
* *
1855526 ACAGAACCAATCATTGGATTTGAAAGATGAA
64 A-AAAACCAATCATTGAATTTGAAAGATGAA
1855557 TGTGCTCATAG
1 TGTGCTCATAG
1855568 TACAAATAAA
Statistics
Matches: 626, Mismatches: 28, Indels: 23
0.92 0.04 0.03
Matches are distributed among these distances:
90 4 0.01
91 7 0.01
92 128 0.20
93 30 0.05
94 447 0.71
95 10 0.02
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (93 bp):
TGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCGAA
AAACCAATCATTGAATTTGAAAGATGAA
Found at i:1856734 original size:113 final size:112
Alignment explanation
Indices: 1856390--1857235 Score: 1091
Period size: 113 Copynumber: 7.6 Consensus size: 112
1856380 CCAGAAAAAA
* *
1856390 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* ** * *
1856455 AACCTTTTGTTTAAATTCATCATTTGATGGATTAATATTGCCAGTTCG
65 AACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
1856503 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG--AAA-TTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCA
* * *
1856565 ACTTTTTGC-----TT-ATCATTCAATGGATTAGCATTACCAGTTTG
66 ACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
* *
1856606 AGTTCATAATAAGAAGAACTCATCTGAAGAAGACAGAAAAAGTTCATAAGGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGA-AGAAAAAGTTCATAATGAGAAGAACTTGTTC
* ** *
1856671 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGTTCG
65 AACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
* * *
1856719 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAAAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* * *
1856784 AACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTCG
65 AACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
* *
1856832 AGTTCATAAT---AAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* ** * **
1856894 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAG-TAA
65 AACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACC-AGTTCG
1856942 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAG---AAGTTCATAATGAGAAGAACTTGT
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGAAAAAGTTCATAATGAGAAGAACTTGT
* * * *
1857004 TCAACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTCG
63 TCAACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
* * *
1857054 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* * * *
1857119 AACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTCG
65 AACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
* *
1857167 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG--AAA-TTCACAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCA
1857229 ACCTTTT
66 ACCTTTT
1857236 ACATAATTGT
Statistics
Matches: 645, Mismatches: 65, Indels: 50
0.85 0.09 0.07
Matches are distributed among these distances:
103 56 0.09
104 4 0.01
106 3 0.00
107 30 0.05
109 70 0.11
110 102 0.16
111 4 0.01
112 86 0.13
113 272 0.42
114 2 0.00
115 4 0.01
116 12 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTTAAATTCATCATTCAATGGATTAACATTACCAGTTCG
Found at i:1856995 original size:20 final size:20
Alignment explanation
Indices: 1856941--1856999 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
1856931 TTGCCAAGTA
1856941 AAGTTCATAATGAGAAGAAC
1 AAGTTCATAATGAGAAGAAC
** * *
1856961 TCG-TCAT-CTGAAGAAGAAG
1 AAGTTCATAATG-AGAAGAAC
1856980 AAGTTCATAATGAGAAGAAC
1 AAGTTCATAATGAGAAGAAC
1857000 TTGTTCAACT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
18 2 0.07
19 12 0.43
20 12 0.43
21 2 0.07
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGTTCATAATGAGAAGAAC
Found at i:1857005 original size:20 final size:20
Alignment explanation
Indices: 1856942--1857006 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
1856932 TGCCAAGTAA
1856942 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * **
1856962 CG-TCAT-CTGAAGAAGAAGA
1 AGTTCATAATG-AGAAGAACT
1856981 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
1857001 TGTTCA
1 AGTTCA
1857007 ACTTTTTGCT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
20 17 0.52
21 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:1857099 original size:335 final size:325
Alignment explanation
Indices: 1856390--1857235 Score: 1144
Period size: 335 Copynumber: 2.6 Consensus size: 325
1856380 CCAGAAAAAA
*
1856390 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAATTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * ** * * *
1856455 AACCTTTTGTTTAAATTCATCATTTGATGGATTAATATTGCCAGTTCGAGTTCATAATGAGAAGA
66 AACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTCGAGTTCATAAT--GAAGA
*
1856520 ACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTATCATTCAA
129 ACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTATCATTCAA
* **
1856585 TGGATTAGCATTACCAGTTTGAGTTCATAATAAGAAGAACTCATCTGAAGAAGACAGAAAAAGTT
194 TGGATTAACATTACCAGTTAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGACAG--AAAGTT
* ** * *
1856650 CATAAGGAGAAGAACTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG
257 CATAAGGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATCAACATTACCAG
1856715 TTCG
322 TTCG
* *
1856719 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAAAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1856784 AACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTCGAGTTCATAAT-AAGAAC
66 AACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTCGAGTTCATAATGAAGAAC
* * *
1856848 TCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTTCAACCTTTTGTTTAAATTCA
131 TCATCTGAAGAA-G-A-AGAAA-TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT--A-TCA
* *
1856913 -TCATTTGATGGATTAACATTGCCAAG-TAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
189 TTCA----ATGGATTAACATTACC-AGTTAAAGTTCATAATAAGAAGAA--C-TCATCTGAAGAA
* * *
1856976 GA-AG-AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTGAATTCATCATTCAATGGATC
246 GACAGAAAGTTCATAAGGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATC
*
1857039 AGCATTACCAGTTCG
311 AACATTACCAGTTCG
* * * *
1857054 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGCAGAAAAAGTTCATAAGGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
1857119 AACTTTTTGCTTGAATTCATCATTCAATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGA
66 AACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTCGAGTTCATAAT--GAAGA
* *
1857184 ACTCATCTGAAGAAGAAGAAATTCACAATGAGAAGAGCTTGTTCAACCTTTT
129 ACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTT
1857236 ACATAATTGT
Statistics
Matches: 459, Mismatches: 40, Indels: 31
0.87 0.08 0.06
Matches are distributed among these distances:
326 18 0.04
327 1 0.00
328 1 0.00
329 116 0.25
330 32 0.07
332 4 0.01
333 3 0.01
334 28 0.06
335 185 0.40
336 33 0.07
337 3 0.01
338 21 0.05
339 14 0.03
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (325 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTTGCTTGAATTCATCATTCAATGGATCAACATTACCAGTTCGAGTTCATAATGAAGAAC
TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTATCATTCAATG
GATTAACATTACCAGTTAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGACAGAAAGTTCATA
AGGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCATTCAATGGATCAACATTACCAGTTCG
Found at i:1857307 original size:120 final size:117
Alignment explanation
Indices: 1857167--1857442 Score: 340
Period size: 120 Copynumber: 2.3 Consensus size: 117
1857157 TACCAGTTCG
* *
1857167 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAATTCACAATGAGAAGAGCTTGTTCAACC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAATTCACAATGAGAAGAGCTTATTCAACC
* * * * * * *
1857232 TTTT-ACATAATTGTATCACAAAAGGAGATATATTAGCATCAACCTTTCCAG-AGAA
66 TTTTGA-ATAACTCTATCACAAAAGGAAATAGATCAACATC-A---TCCCAGCAGAA
* * *
1857287 AGTTCATAATGAGAAGAACTCATCTGAAGAATAAGAAGTTCATAATGAGAAGAGCTTATTCAACC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAATTCACAATGAGAAGAGCTTATTCAACC
* * * *
1857352 TTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCCCAGCGGAA
66 TTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCATCCCAGCAGAA
1857404 AGTTCATAATGAGAAGAAACTCATCTGAAGAAAAAGAAA
1 AGTTCATAATGAGAAG-AACTCATCTGAAGAAAAAGAAA
1857443 AATTTATTCA
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
116 5 0.04
117 19 0.14
118 20 0.15
119 1 0.01
120 90 0.66
121 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (117 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAGAAATTCACAATGAGAAGAGCTTATTCAACC
TTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCATCCCAGCAGAA
Found at i:1857584 original size:3 final size:3
Alignment explanation
Indices: 1857576--1857648 Score: 94
Period size: 3 Copynumber: 24.7 Consensus size: 3
1857566 TTCATTTAAA
* * * * *
1857576 TAT TAT TA- TAT TAT TAT TAT TAT TAT AAT AAT AAT AAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1857623 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
1857649 AAAAAAATAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:1859040 original size:20 final size:19
Alignment explanation
Indices: 1859015--1859077 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 19
1859005 AAATATATAG
1859015 TTCTAATTGTATTTTTATTA
1 TTCTAATT-TATTTTTATTA
1859035 TTCTAATTTTACTTGTTTA-TA
1 TTCTAA-TTTA-TT-TTTATTA
1859056 TT-TAAATATTATTTTTATTA
1 TTCT-AAT-TTATTTTTATTA
1859076 TT
1 TT
1859078 ATTATATAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.11
20 16 0.43
21 13 0.35
22 4 0.11
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TTCTAATTTATTTTTATTA
Found at i:1862976 original size:21 final size:21
Alignment explanation
Indices: 1862952--1863004 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
1862942 AAAAATTATT
1862952 TAAATACAAAAACAAATAG-A
1 TAAATACAAAAACAAATAGTA
*
1862972 CTAAAT-CAATAAATAAATAGTA
1 -TAAATACAA-AAACAAATAGTA
1862994 TAAATACAAAA
1 TAAATACAAAA
1863005 TAATATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.66, C:0.09, G:0.04, T:0.21
Consensus pattern (21 bp):
TAAATACAAAAACAAATAGTA
Found at i:1863449 original size:13 final size:13
Alignment explanation
Indices: 1863431--1863511 Score: 59
Period size: 13 Copynumber: 6.5 Consensus size: 13
1863421 TTCTAATTAC
1863431 TATATTTATATAT
1 TATATTTATATAT
1863444 TATATTT-TA-A-
1 TATATTTATATAT
1863454 T-TATTTATTATAT
1 TATATTTA-TATAT
*
1863467 TAATAATTAATACTAT
1 T-AT-ATTTATA-TAT
1863483 TA-A-TTAT-TAT
1 TATATTTATATAT
*
1863493 TATATTTATTTAT
1 TATATTTATATAT
1863506 TATATT
1 TATATT
1863512 CTTTTAATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 22
0.70 0.03 0.28
Matches are distributed among these distances:
9 5 0.09
10 6 0.11
11 4 0.07
12 10 0.18
13 18 0.33
15 4 0.07
16 8 0.15
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTTATATAT
Found at i:1863505 original size:16 final size:15
Alignment explanation
Indices: 1863426--1863511 Score: 70
Period size: 16 Copynumber: 5.7 Consensus size: 15
1863416 ATCTATTCTA
* *
1863426 ATTACTATATTTATAT
1 ATTATTATATTAAT-T
*
1863442 ATTA-TATTTTAATT
1 ATTATTATATTAATT
*
1863456 ATTTATTATATTAATA
1 A-TTATTATATTAATT
*
1863472 ATTAATACTATTAATT
1 ATTATTA-TATTAATT
*
1863488 ATTATTATATTTA-T
1 ATTATTATATTAATT
1863502 -TTATTATATT
1 ATTATTATATT
1863512 CTTTTAATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
13 10 0.17
14 3 0.05
15 20 0.34
16 26 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATATTAATT
Found at i:1874506 original size:3 final size:3
Alignment explanation
Indices: 1874489--1874542 Score: 76
Period size: 3 Copynumber: 18.0 Consensus size: 3
1874479 CTACAAAAAC
1874489 ATT ATT AATT A-T ATT ATT ATAT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
1874534 ATT ATT ATT
1 ATT ATT ATT
1874543 TATCTTAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1876003 original size:30 final size:30
Alignment explanation
Indices: 1875969--1876160 Score: 174
Period size: 30 Copynumber: 6.4 Consensus size: 30
1875959 TTAATATCAG
1875969 TTTAGTCCTTTAAATTTCTATTTTTGCTAT
1 TTTAGTCCTTTAAATTTCTATTTTTGCTAT
* * *
1875999 TTTAGTCCTTTAAATATT-TGTTTTTGTTGT
1 TTTAGTCCTTTAAAT-TTCTATTTTTGCTAT
* * *
1876029 TTTAGCCCTTTAAGTTTCTATTTTTACTAT
1 TTTAGTCCTTTAAATTTCTATTTTTGCTAT
1876059 TTTAGTCCTTTAACATTT-TATTTTTGCTAT
1 TTTAGTCCTTTAA-ATTTCTATTTTTGCTAT
* * ** * *
1876089 TCTAGTCCCTTAAGCTTCTGTTTTTTCTAT
1 TTTAGTCCTTTAAATTTCTATTTTTGCTAT
* * * * *
1876119 TGTGGACCTTTAAA-TTCATATTTGTGGTAT
1 TTTAGTCCTTTAAATTTC-TATTTTTGCTAT
*
1876149 TTTGGTCCTTTA
1 TTTAGTCCTTTA
1876161 TGCTTATATT
Statistics
Matches: 128, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
29 7 0.05
30 116 0.91
31 5 0.04
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (30 bp):
TTTAGTCCTTTAAATTTCTATTTTTGCTAT
Found at i:1876019 original size:60 final size:60
Alignment explanation
Indices: 1875955--1876071 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
1875945 CCTTTCAGTT
* *
1875955 TTTGTTAATATCAG-TTTAGTCCTTTAAATTTCTATTTTTGCTATTTTAGTCCTTTAAATA
1 TTTGTTAATAT-AGTTTTAGCCCTTTAAATTTCTATTTTTACTATTTTAGTCCTTTAAATA
** * * *
1876015 TTTGTTTTTGTTGTTTTAGCCCTTTAAGTTTCTATTTTTACTATTTTAGTCCTTTAA
1 TTTGTTAATATAGTTTTAGCCCTTTAAATTTCTATTTTTACTATTTTAGTCCTTTAA
1876072 CATTTTATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (60 bp):
TTTGTTAATATAGTTTTAGCCCTTTAAATTTCTATTTTTACTATTTTAGTCCTTTAAATA
Found at i:1876141 original size:90 final size:90
Alignment explanation
Indices: 1875969--1876160 Score: 203
Period size: 90 Copynumber: 2.1 Consensus size: 90
1875959 TTAATATCAG
* * * * *
1875969 TTTAGTCCTTTAAATTTCTATTTTTGCTATTTTAGTCCTTTAAATATTTGTTTTTGTTGTTTTAG
1 TTTAGTCCTTTAAATTTCTATTTTTGCTATTCTAGTCCCTTAAATATCTGTTTTTGTTATTGTAG
* * *
1876034 CCCTTTAAGTTTCTATTTTTACTAT
66 ACCTTTAAGATTCTATTTGTACTAT
*
1876059 TTTAGTCCTTTAACATTT-TATTTTTGCTATTCTAGTCCCTTAAGCT-TCTGTTTTT-TCTATTG
1 TTTAGTCCTTTAA-ATTTCTATTTTTGCTATTCTAGTCCCTTAA-ATATCTGTTTTTGT-TATTG
* **
1876121 TGGACCTTTAA-ATTCATATTTGTGGTAT
63 TAGACCTTTAAGATTC-TATTTGTACTAT
*
1876149 TTTGGTCCTTTA
1 TTTAGTCCTTTA
1876161 TGCTTATATT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
89 4 0.05
90 76 0.89
91 5 0.06
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (90 bp):
TTTAGTCCTTTAAATTTCTATTTTTGCTATTCTAGTCCCTTAAATATCTGTTTTTGTTATTGTAG
ACCTTTAAGATTCTATTTGTACTAT
Found at i:1882115 original size:35 final size:35
Alignment explanation
Indices: 1882040--1882139 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
1882030 CTCGAAACTA
* * *
1882040 AAATTTTGTCTCGCTTGAGACAGTTTTATAAAAAC
1 AAATTTTGTCTCGCTTGAGACAATTTTTTCAAAAC
1882075 AAATTTTGTCTCGCTTGAGACAATTTCTTTCAAAA-
1 AAATTTTGTCTCGCTTGAGACAATTT-TTTCAAAAC
* * *
1882110 TAATTTTCGTCTCACTTAAGAC-ATTTTTTC
1 AAATTTT-GTCTCGCTTGAGACAATTTTTTC
1882140 TCTGAGATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
34 4 0.07
35 35 0.61
36 18 0.32
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (35 bp):
AAATTTTGTCTCGCTTGAGACAATTTTTTCAAAAC
Found at i:1882355 original size:31 final size:31
Alignment explanation
Indices: 1882320--1882397 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
1882310 TTTGTCTCCC
* * *
1882320 TTGAGGCAGTTTCTCTAGAAACATAAAATCT
1 TTGAGTCAGTTTCTCTAGAAAAACAAAATCT
*
1882351 TTGAGTCTA-TTTCTCTTGAAAAACAAAATCT
1 TTGAGTC-AGTTTCTCTAGAAAAACAAAATCT
*
1882382 TTGAGTCTGTTTCTCT
1 TTGAGTCAGTTTCTCT
1882398 TAAAACAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 39 0.98
32 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (31 bp):
TTGAGTCAGTTTCTCTAGAAAAACAAAATCT
Found at i:1882398 original size:31 final size:31
Alignment explanation
Indices: 1882328--1882406 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
1882318 CCTTGAGGCA
* * *
1882328 GTTTCTCTAGAAACATAAAATCTTTGAGTCT
1 GTTTCTCTTGAAAAACAAAATCTTTGAGTCT
*
1882359 ATTTCTCTTGAAAAACAAAATCTTTGAGTCT
1 GTTTCTCTTGAAAAACAAAATCTTTGAGTCT
1882390 GTTTCTCTT--AAAACAAA
1 GTTTCTCTTGAAAAACAAA
1882407 GTTTTGTCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 8 0.19
31 35 0.81
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (31 bp):
GTTTCTCTTGAAAAACAAAATCTTTGAGTCT
Found at i:1882688 original size:82 final size:83
Alignment explanation
Indices: 1882538--1882723 Score: 223
Period size: 82 Copynumber: 2.3 Consensus size: 83
1882528 GATGGTTTGT
* * * * * * *
1882538 CATCATCATCACATAGCAACCGTGTAATCCCCTGACTAGACCTCCTCATCATATAGGAGCCGTAT
1 CATCCTCATCACGTAGGAACCGTGTAATCACCTGACAAGAACTCCTCATCACATAGGAGCCGTAT
1882603 CACCCCT-GATAACCAGC
66 CACCCCTAGATAACCAGC
* * * * *
1882620 TATCCTCATCACGTAGGAACCGTGTTATCTACC-GACAAGAACTCCTCATCACGTAGGAGTCGTG
1 CATCCTCATCACGTAGGAACCGTGTAATC-ACCTGACAAGAACTCCTCATCACATAGGAGCCGTA
*
1882684 TCACCCCTAGATAACTAGC
65 TCACCCCTAGATAACCAGC
*
1882703 CATCCTCATCGCGTAGGAACC
1 CATCCTCATCACGTAGGAACC
1882724 ACCCTTCCTA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
82 57 0.66
83 30 0.34
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (83 bp):
CATCCTCATCACGTAGGAACCGTGTAATCACCTGACAAGAACTCCTCATCACATAGGAGCCGTAT
CACCCCTAGATAACCAGC
Found at i:1883915 original size:23 final size:23
Alignment explanation
Indices: 1883884--1883949 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 23
1883874 CATGTAAAAT
1883884 TGTCCCGAATGACCACATAGAAA
1 TGTCCCGAATGACCACATAGAAA
* * * *
1883907 TGTCTCGAAGGA-C-CATATATA
1 TGTCCCGAATGACCACATAGAAA
*
1883928 TGTCCCAAATGACCACATAGAA
1 TGTCCCGAATGACCACATAGAA
1883950 CCGTCGACTC
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 15 0.47
22 2 0.06
23 15 0.47
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (23 bp):
TGTCCCGAATGACCACATAGAAA
Found at i:1886320 original size:20 final size:19
Alignment explanation
Indices: 1886295--1886349 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1886285 TTTATGCTAA
1886295 TATACTCTTATCATATCACT
1 TATACT-TTATCATATCACT
* *
1886315 TATACTTATATCTTATTACT
1 TATACTT-TATCATATCACT
*
1886335 AAT-CTTTATCATATC
1 TATACTTTATCATATC
1886350 CTCATAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 7 0.24
19 4 0.14
20 18 0.62
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (19 bp):
TATACTTTATCATATCACT
Found at i:1888780 original size:18 final size:19
Alignment explanation
Indices: 1888759--1888796 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1888749 GCATTTCAAG
*
1888759 CTTA-ATAGTATCGGTACT
1 CTTACATAGTATCGATACT
1888777 CTTACTATAGTATCGATACT
1 CTTAC-ATAGTATCGATACT
1888797 ACCCTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (19 bp):
CTTACATAGTATCGATACT
Found at i:1891123 original size:30 final size:29
Alignment explanation
Indices: 1891089--1891177 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
1891079 TTTAAATTTT
1891089 TGTTTTTGTTGTTTTAGCCCTTTGAGTTTA
1 TGTTTTTGTTGTTTTAGCCCTTT-AGTTTA
* * * *
1891119 TGTTTTT-TCTATTTTAGTCCTTTATATTTT
1 TGTTTTTGT-TGTTTTAGCCCTTTA-GTTTA
*
1891149 TATTTTTGTTGTTTTCA-CCCTTTAAGTTT
1 TGTTTTTGTTGTTTT-AGCCCTTT-AGTTT
1891178 CTATTTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
29 2 0.04
30 41 0.89
31 3 0.07
ACGTcount: A:0.12, C:0.11, G:0.12, T:0.64
Consensus pattern (29 bp):
TGTTTTTGTTGTTTTAGCCCTTTAGTTTA
Found at i:1891135 original size:60 final size:60
Alignment explanation
Indices: 1891071--1891275 Score: 225
Period size: 60 Copynumber: 3.4 Consensus size: 60
1891061 TTAATATCAA
* * * *
1891071 TTTAGTCTTTTAAATTTTTGTTTTTGTTGTTTTAGCCCTTTGAGTTTATGTTTTTTCTAT
1 TTTAGTCCTTTAAATTTTTGTTTTTGTTGTTTTAGCCCTTTAAGTTTCTATTTTTTCTAT
* * *
1891131 TTTAGTCCTTTATATTTTTATTTTTGTTGTTTTCA-CCCTTTAAGTTTCTATTTTTTCCAT
1 TTTAGTCCTTTAAATTTTTGTTTTTGTTGTTTT-AGCCCTTTAAGTTTCTATTTTTTCTAT
* * * * *
1891191 TTTAGTCTTTTAACTTTATGTTTTTTTCTATTTTAGTCCC-TTAAGTTTCTATTTTTTCTAT
1 TTTAGTCCTTTAAATTTTTGTTTTTGT-TGTTTTAG-CCCTTTAAGTTTCTATTTTTTCTAT
* * * *
1891252 TGTGGACCTTTAAATTCTTGTTTT
1 TTTAGTCCTTTAAATTTTTGTTTT
1891276 ACTATTTTGG
Statistics
Matches: 119, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
60 73 0.61
61 43 0.36
62 3 0.03
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.63
Consensus pattern (60 bp):
TTTAGTCCTTTAAATTTTTGTTTTTGTTGTTTTAGCCCTTTAAGTTTCTATTTTTTCTAT
Found at i:1891203 original size:30 final size:30
Alignment explanation
Indices: 1891100--1891326 Score: 122
Period size: 30 Copynumber: 7.5 Consensus size: 30
1891090 GTTTTTGTTG
* * * * *
1891100 TTTTAGCCCTTTGAGTTTATGTTTTTTCTA
1 TTTTAGTCCTTTAAGTTTCTATTTTTTCCA
* **
1891130 TTTTAGTCCTTTATA-TTTTTATTTTTGT-TG
1 TTTTAGTCCTTTA-AGTTTCTATTTTT-TCCA
*
1891160 TTTTCA-CCCTTTAAGTTTCTATTTTTTCCA
1 TTTT-AGTCCTTTAAGTTTCTATTTTTTCCA
* * * * *
1891190 TTTTAGTCTTTTAACTTTATGTTTTTTTCTA
1 TTTTAGTCCTTTAAGTTTCT-ATTTTTTCCA
* *
1891221 TTTTAGTCCCTTAAGTTTCTATTTTTTCTA
1 TTTTAGTCCTTTAAGTTTCTATTTTTTCCA
* * * * * *
1891251 TTGTGGACCTTTAA-ATTCT-TGTTTTACTA
1 TTTTAGTCCTTTAAGTTTCTAT-TTTTTCCA
* * *
1891280 TTTTGGTCCTTTAAGTTTCTGTTTTTCCCA
1 TTTTAGTCCTTTAAGTTTCTATTTTTTCCA
* *
1891310 TTCTGGTCCTTGTAAGT
1 TTTTAGTCCTT-TAAGT
1891327 ATAAATACTT
Statistics
Matches: 154, Mismatches: 32, Indels: 21
0.74 0.15 0.10
Matches are distributed among these distances:
28 1 0.01
29 26 0.17
30 94 0.61
31 33 0.21
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (30 bp):
TTTTAGTCCTTTAAGTTTCTATTTTTTCCA
Found at i:1891240 original size:61 final size:59
Alignment explanation
Indices: 1891071--1891311 Score: 182
Period size: 60 Copynumber: 4.0 Consensus size: 59
1891061 TTAATATCAA
* * * * * *
1891071 TTTAGTCTTTTAAATTTTTGTTTTTGTTGTTTTAGCCCTTTGAGTTTATGTTTTTTCTAT
1 TTTAGTCTTTTAAATTTATGTTTTT-TTTTTTTAGCCCTTTAAGTTTCTATTTTTTCCAT
* * * * *
1891131 TTTAGTCCTTTATATTTTTATTTTTGTTGTTTTCA-CCCTTTAAGTTTCTATTTTTTCCAT
1 TTTAGTCTTTTAAATTTATGTTTTT-TT-TTTTTAGCCCTTTAAGTTTCTATTTTTTCCAT
* *
1891191 TTTAGTCTTTTAACTTTATGTTTTTTTCTATTTTAGTCCC-TTAAGTTTCTATTTTTTCTAT
1 TTTAGTCTTTTAAATTTATGTTTTTTT-T-TTTTAG-CCCTTTAAGTTTCTATTTTTTCCAT
* * * * ** * * * * *
1891252 TGTGGACCTTTAAATTCT-TGTTTTACTATTTTGGTCCTTTAAGTTTCTGTTTTTCCCAT
1 TTTAGTCTTTTAAATT-TATGTTTTTTTTTTTTAGCCCTTTAAGTTTCTATTTTTTCCAT
1891311 T
1 T
1891312 CTGGTCCTTG
Statistics
Matches: 145, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
58 2 0.01
59 27 0.19
60 70 0.48
61 42 0.29
62 4 0.03
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.62
Consensus pattern (59 bp):
TTTAGTCTTTTAAATTTATGTTTTTTTTTTTTAGCCCTTTAAGTTTCTATTTTTTCCAT
Found at i:1891261 original size:29 final size:29
Alignment explanation
Indices: 1891231--1891305 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
1891221 TTTTAGTCCC
*
1891231 TTAAGTTTCTATTTTTTCTATTGTGGACCT
1 TTAAGTTTCT-TTTTTACTATTGTGGACCT
* * *
1891261 TTAA-ATTCTTGTTTTACTATTTTGGTCCT
1 TTAAGTTTCTT-TTTTACTATTGTGGACCT
1891290 TTAAGTTTCTGTTTTT
1 TTAAGTTTCT-TTTTT
1891306 CCCATTCTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 23 0.62
30 12 0.32
31 1 0.03
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.60
Consensus pattern (29 bp):
TTAAGTTTCTTTTTTACTATTGTGGACCT
Found at i:1892242 original size:22 final size:23
Alignment explanation
Indices: 1892216--1892258 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1892206 ATTAAAGTTA
*
1892216 TAATTGTTTT-TTAAATAATATT
1 TAATTGTTTTGTTAAAAAATATT
1892238 TAATTGTTTTGTTAAAAAATA
1 TAATTGTTTTGTTAAAAAATA
1892259 GTTATGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (23 bp):
TAATTGTTTTGTTAAAAAATATT
Found at i:1908541 original size:21 final size:21
Alignment explanation
Indices: 1908503--1908562 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1908493 CAGATTGTCT
*
1908503 AGGGGGTACAGATT-CCCCCC
1 AGGGGGAACAGATTCCCCCCC
*
1908523 ATGGGGAACAGATTCCCCCCC
1 AGGGGGAACAGATTCCCCCCC
*
1908544 AGGGGGTATC-GATTCCCCC
1 AGGGGG-AACAGATTCCCCC
1908563 TGTCTAACGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.35
21 20 0.59
22 2 0.06
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (21 bp):
AGGGGGAACAGATTCCCCCCC
Found at i:1908561 original size:20 final size:20
Alignment explanation
Indices: 1908503--1908562 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1908493 CAGATTGTCT
1908503 AGGGGGTACAGATTCCCCCC
1 AGGGGGTACAGATTCCCCCC
* *
1908523 ATGGGGAACAGATTCCCCCCC
1 AGGGGGTACAGATT-CCCCCC
1908544 AGGGGGTATC-GATTCCCCC
1 AGGGGGTA-CAGATTCCCCC
1908563 TGTCTAACGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 17 0.50
21 16 0.47
22 1 0.03
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (20 bp):
AGGGGGTACAGATTCCCCCC
Found at i:1909329 original size:64 final size:64
Alignment explanation
Indices: 1909201--1909356 Score: 181
Period size: 64 Copynumber: 2.4 Consensus size: 64
1909191 CACACCCAAT
* * ** * *
1909201 ATCGAA-GCTATTTTATGTACCGATACACATCCTTGCATCGATACGCTCCTATTTTTATTGAAAC
1 ATCGAATG-TATTTTGTGTACCGATACACATCCTTGCATCGATACACTCCTAGCTGTATTAAAAC
* *
1909265 ATCGAATGTATTTTGTGTACCGATACACATCCTATGCATCGATGCACT-CTGGCTGTATTAAAAC
1 ATCGAATGTATTTTGTGTACCGATACACATCCT-TGCATCGATACACTCCTAGCTGTATTAAAAC
* * *
1909329 ATCGAATGCAATTAGTGTACCGATACAC
1 ATCGAATGTATTTTGTGTACCGATACAC
1909357 CCCAAGTGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 66 0.84
65 13 0.16
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (64 bp):
ATCGAATGTATTTTGTGTACCGATACACATCCTTGCATCGATACACTCCTAGCTGTATTAAAAC
Found at i:1918960 original size:20 final size:20
Alignment explanation
Indices: 1918923--1918961 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1918913 AGATTGAGTG
* * *
1918923 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
1918943 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
1918962 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:1919162 original size:21 final size:20
Alignment explanation
Indices: 1919138--1919176 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1919128 CGATCCCCTG
*
1919138 TGGGGGAATCGGTTCCCTCAT
1 TGGGGG-ATCGATTCCCTCAT
1919159 TGGGGGATCGATTCCCTC
1 TGGGGGATCGATTCCCTC
1919177 TGCACCAAAA
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:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (20 bp):
TGGGGGATCGATTCCCTCAT
Found at i:1926999 original size:13 final size:13
Alignment explanation
Indices: 1926970--1927002 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1926960 GGGAAGTAAT
*
1926970 TTTTCAAAACTAA
1 TTTTCAAAAATAA
1926983 -TTTCAAAAATAA
1 TTTTCAAAAATAA
1926995 TTTTCAAA
1 TTTTCAAA
1927003 GAAAACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTTTCAAAAATAA
Found at i:1930509 original size:14 final size:14
Alignment explanation
Indices: 1930481--1930527 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
1930471 ATTACCATGA
1930481 CATCATTCCTTACAT
1 CATCA-TCCTTACAT
*
1930496 CATCATCTTTACAT
1 CATCATCCTTACAT
1930510 CATCATCCTTACAT
1 CATCATCCTTACAT
1930524 CATC
1 CATC
1930528 CATAAACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 25 0.83
15 5 0.17
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (14 bp):
CATCATCCTTACAT
Found at i:1932730 original size:26 final size:26
Alignment explanation
Indices: 1932678--1932731 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1932668 TACAAATAGT
** **
1932678 TAATCAAATCAGTTTTTCAAATTAAC
1 TAATCAAATCAGTTGGTCAAACCAAC
1932704 TAATCAAATCAGTTGGTCAAACCAAC
1 TAATCAAATCAGTTGGTCAAACCAAC
1932730 TA
1 TA
1932732 CTAGAATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (26 bp):
TAATCAAATCAGTTGGTCAAACCAAC
Found at i:1932742 original size:13 final size:14
Alignment explanation
Indices: 1932726--1932758 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1932716 TTGGTCAAAC
1932726 CAACTAC-TAGAAT
1 CAACTACTTAGAAT
*
1932739 CAACTACTTATAAT
1 CAACTACTTAGAAT
1932753 CAACTA
1 CAACTA
1932759 TCAGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.27
Consensus pattern (14 bp):
CAACTACTTAGAAT
Found at i:1933978 original size:26 final size:26
Alignment explanation
Indices: 1933942--1934029 Score: 167
Period size: 26 Copynumber: 3.4 Consensus size: 26
1933932 CAATTGGCCC
1933942 AAACCCTAACCAAATAGGGTTTGTTG
1 AAACCCTAACCAAATAGGGTTTGTTG
*
1933968 AAACCCTAACCAAATACGGTTTGTTG
1 AAACCCTAACCAAATAGGGTTTGTTG
1933994 AAACCCTAACCAAATAGGGTTTGTTG
1 AAACCCTAACCAAATAGGGTTTGTTG
1934020 AAACCCTAAC
1 AAACCCTAAC
1934030 TTTCCAGCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (26 bp):
AAACCCTAACCAAATAGGGTTTGTTG
Found at i:1937834 original size:19 final size:21
Alignment explanation
Indices: 1937786--1937831 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
1937776 AAAAAACTCG
1937786 TAAAAACAAGAACTAAAAAAT
1 TAAAAACAAGAACTAAAAAAT
1937807 TAAAAACAAG-ACTAAAAAAT
1 TAAAAACAAGAACTAAAAAAT
1937827 TAAAA
1 TAAAA
1937832 CAATTGAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (21 bp):
TAAAAACAAGAACTAAAAAAT
Found at i:1939091 original size:22 final size:22
Alignment explanation
Indices: 1939061--1939102 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1939051 TGGTACCAAT
*
1939061 ACTCGTAGGGGTATCGATACTTG
1 ACTCGTA-GGGTATCAATACTTG
1939084 ACTC-TAGGGTATCAATACT
1 ACTCGTAGGGTATCAATACT
1939103 ACAAGTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 2 0.11
23 4 0.22
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (22 bp):
ACTCGTAGGGTATCAATACTTG
Found at i:1942565 original size:30 final size:27
Alignment explanation
Indices: 1942522--1942605 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 27
1942512 CTTTAAGAAA
*
1942522 TATTTTTACATTAACTTATTAAATATTTTT
1 TATTTTTACATTAA--T-TTAAATATATTT
1942552 TATTATTTA-ATTAATTTAAATATATTT
1 TATT-TTTACATTAATTTAAATATATTT
**
1942579 TATTTTTATTTTAATTTTAAAATATAT
1 TATTTTTACATTAA-TTT-AAATATAT
1942606 ATTTTATTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
26 4 0.08
27 19 0.40
28 4 0.08
29 8 0.17
30 9 0.19
31 4 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTTTTACATTAATTTAAATATATTT
Found at i:1942606 original size:31 final size:32
Alignment explanation
Indices: 1942571--1942672 Score: 129
Period size: 31 Copynumber: 3.2 Consensus size: 32
1942561 ATTAATTTAA
*
1942571 ATATATTTTATTTTTATTTTAA-TTTTAAAAT
1 ATATATTTTATTATTATTTTAACTTTTAAAAT
* * *
1942602 ATATATTTTATTCTTATCTAAACTTTTAAAA-
1 ATATATTTTATTATTATTTTAACTTTTAAAAT
*
1942633 ATATATTTTATTATTA-TTTAACTATTTAAAGT
1 ATATATTTTATTATTATTTTAACT-TTTAAAAT
1942665 ATATATTT
1 ATATATTT
1942673 AATATTAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
30 5 0.08
31 40 0.66
32 16 0.26
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (32 bp):
ATATATTTTATTATTATTTTAACTTTTAAAAT
Found at i:1942679 original size:31 final size:30
Alignment explanation
Indices: 1942532--1942672 Score: 125
Period size: 31 Copynumber: 4.7 Consensus size: 30
1942522 TATTTTTACA
*
1942532 TTAACTTATTAAATAT-T-TTTTATTATTTAA
1 TTAACTT-TTAAATATATATTTTATTA-TTAT
*
1942562 TTAA--TTT-AA-ATATATTTTATTTTTATT
1 TTAACTTTTAAATATATATTTTATTATTA-T
*
1942589 TTAA-TTTTAAAATATATATTTTATTCTTAT
1 TTAACTTTT-AAATATATATTTTATTATTAT
* *
1942619 CTAAACTTTTAAAAATATATTTTATTATTAT
1 -TTAACTTTTAAATATATATTTTATTATTAT
1942650 TTAACTATTTAAAGTATATATTT
1 TTAACT-TTTAAA-TATATATTT
1942673 AATATTAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
25 2 0.02
26 6 0.07
27 13 0.14
28 4 0.04
30 12 0.13
31 43 0.47
32 12 0.13
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (30 bp):
TTAACTTTTAAATATATATTTTATTATTAT
Found at i:1942822 original size:14 final size:14
Alignment explanation
Indices: 1942780--1942825 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1942770 TAAATTAAAA
*
1942780 AATAAAATATTTTT
1 AATAAAATATATTT
*
1942794 AA-ATTAATATA-TT
1 AATA-AAATATATTT
1942807 AATAAAATATATTT
1 AATAAAATATATTT
1942821 AATAA
1 AATAA
1942826 GTTCATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAAAATATATTT
Found at i:1942822 original size:27 final size:23
Alignment explanation
Indices: 1942757--1942800 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
1942747 TTTTAACATG
1942757 AAAT-AAATATTTTTAAATTAAA
1 AAATAAAATATTTTTAAATTAAA
1942779 AAATAAAATATTTTTAAATTAA
1 AAATAAAATATTTTTAAATTAA
1942801 TATATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATAAAATATTTTTAAATTAAA
Found at i:1942851 original size:24 final size:25
Alignment explanation
Indices: 1942810--1942858 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1942800 ATATATTAAT
*
1942810 AAAATATATTTAATAAGTTCATATA
1 AAAATATATTTAATAAGTTAATATA
* *
1942835 AAAATATTTTTTA-AAGTTAATATA
1 AAAATATATTTAATAAGTTAATATA
1942859 TATCAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
AAAATATATTTAATAAGTTAATATA
Found at i:1950252 original size:15 final size:15
Alignment explanation
Indices: 1950234--1950269 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1950224 ATAAAAGTAT
1950234 AAAATTTAAATTACA
1 AAAATTTAAATTACA
* *
1950249 AAAATTTAGATTACT
1 AAAATTTAAATTACA
1950264 AAAATT
1 AAAATT
1950270 GGGGCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAATTTAAATTACA
Found at i:1950499 original size:17 final size:16
Alignment explanation
Indices: 1950477--1950521 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
1950467 TGTTTATGAG
1950477 GGAATTGAATATGTGAA
1 GGAATTGAATATGT-AA
*
1950494 GGAATTGAAATATGTCA
1 GGAATTG-AATATGTAA
1950511 GGAATTTGAAT
1 GGAA-TTGAAT
1950522 CCAATTCCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.31
Consensus pattern (16 bp):
GGAATTGAATATGTAA
Found at i:1957596 original size:17 final size:17
Alignment explanation
Indices: 1957557--1957598 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1957547 AACTATGCTC
*
1957557 TTCATTAAAGCATGCAT
1 TTCATTTAAGCATGCAT
* *
1957574 TGCATTTAAGCATGTAT
1 TTCATTTAAGCATGCAT
1957591 TTCATTTA
1 TTCATTTA
1957599 GGGAAGTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (17 bp):
TTCATTTAAGCATGCAT
Found at i:1957676 original size:18 final size:18
Alignment explanation
Indices: 1957653--1957698 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1957643 ATTCATGGAT
1957653 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
1957671 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
1957689 TTATTTCATT
1 TTAGTTCATT
1957699 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:1961197 original size:17 final size:17
Alignment explanation
Indices: 1961172--1961211 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1961162 GTATGTTGTT
*
1961172 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
1961189 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
1961206 CATTTA
1 CATTTA
1961212 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:1961238 original size:17 final size:17
Alignment explanation
Indices: 1961218--1961276 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
1961208 TTTAGGGAAG
1961218 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
1961235 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
1961251 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
1961268 TAGTTCATT
1 TAGTTCATT
1961277 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:1961310 original size:18 final size:18
Alignment explanation
Indices: 1961265--1961312 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1961255 TCATTCATGC
1961265 ATTTAGTTCATTGAATAA
1 ATTTAGTTCATTGAATAA
*
1961283 AGTTAGTTCATTGAATAA
1 ATTTAGTTCATTGAATAA
* *
1961301 TTTTATTTCATT
1 ATTTAGTTCATT
1961313 AATCAAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (18 bp):
ATTTAGTTCATTGAATAA
Found at i:1965937 original size:2 final size:2
Alignment explanation
Indices: 1965930--1965986 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
1965920 CCTTAGCATC
* *
1965930 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA CA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1965971 CA TA TA CA TA TT TA TA
1 TA TA TA TA TA TA TA TA
1965987 ATGAATTTGG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:1965953 original size:17 final size:17
Alignment explanation
Indices: 1965931--1965981 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
1965921 CTTAGCATCT
*
1965931 ATATATATATATATATA
1 ATATATATATACATATA
1965948 ATATATATATACATATA
1 ATATATATATACATATA
* *
1965965 TACATACATATACATAT
1 -ATATATATATACATAT
1965982 TTATAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATATATACATATA
Found at i:1968941 original size:3 final size:3
Alignment explanation
Indices: 1968915--1969003 Score: 112
Period size: 3 Copynumber: 29.7 Consensus size: 3
1968905 TTTTTCCCAT
* *
1968915 TTA TTT TTA TTTA TGA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1968960 TTA TTA -TA TATA TTA TTA TTA TTA TTGA -TA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT
1969004 TAAATTTATA
Statistics
Matches: 76, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
2 5 0.07
3 64 0.84
4 7 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1969015 original size:18 final size:19
Alignment explanation
Indices: 1968915--1969016 Score: 104
Period size: 18 Copynumber: 5.3 Consensus size: 19
1968905 TTTTTCCCAT
*
1968915 TTATTTTTATTTATGATTTTA
1 TTATTATTATTTAT-A-TTTA
1968936 TTATTATTA-TTAT-TATTA
1 TTATTATTATTTATAT-TTA
1968954 TTATTATTATTATATATATTA
1 TTATTATTATT-TATAT-TTA
*
1968975 TTATTATTATTGATA-TTA
1 TTATTATTATTTATATTTA
*
1968993 TTATTATTATTTAAATTTA
1 TTATTATTATTTATATTTA
1969012 -TATTA
1 TTATTA
1969017 CAGGCCCAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.01
18 33 0.46
19 4 0.06
20 10 0.14
21 24 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTATTTATATTTA
Found at i:1972277 original size:36 final size:36
Alignment explanation
Indices: 1972230--1972301 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
1972220 GAGCTATGCA
* *
1972230 CAAAAATATCCTATTAGATCGATACCAAAAGTATTT
1 CAAAAAGATCCTATTAGATCGATACCAAAAGCATTT
* * *
1972266 CAAAAAGATCCTGTTAGATTGGTACCAAAAGCATTT
1 CAAAAAGATCCTATTAGATCGATACCAAAAGCATTT
1972302 TATGGTAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (36 bp):
CAAAAAGATCCTATTAGATCGATACCAAAAGCATTT
Found at i:1972846 original size:42 final size:43
Alignment explanation
Indices: 1972765--1972849 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
1972755 TGGCTTTAGA
*
1972765 GAAGTTAGGAGTAAAGGCTATCCCCTATATGTAAAGTTTTGTT
1 GAAGTCAGGAGTAAAGGCTATCCCCTATATGTAAAGTTTTGTT
*
1972808 GAAGTCAGGAGTGAAA-TCTAT-CCCTATATGTAAAGTTTTGTT
1 GAAGTCAGGAGT-AAAGGCTATCCCCTATATGTAAAGTTTTGTT
1972850 TGATGTACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
42 21 0.54
43 15 0.38
44 3 0.08
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (43 bp):
GAAGTCAGGAGTAAAGGCTATCCCCTATATGTAAAGTTTTGTT
Found at i:1972949 original size:21 final size:21
Alignment explanation
Indices: 1972923--1972962 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1972913 CTTTTTCATA
*
1972923 TGCATTTGCATTTTTCATCTT
1 TGCATTTGCATTTTACATCTT
*
1972944 TGCATTTTCATTTTACATC
1 TGCATTTGCATTTTACATC
1972963 CATATTTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.55
Consensus pattern (21 bp):
TGCATTTGCATTTTACATCTT
Found at i:1977016 original size:39 final size:40
Alignment explanation
Indices: 1976968--1977054 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 40
1976958 CAGATCCATG
* * *
1976968 TGGGACATTTTGAAGGCTCACATCAATATGAAA-AAACGT
1 TGGGGCATTTTGAAGGCTCACATCAACAAGAAACAAACGT
*
1977007 TGGGGCATTTTGAAGGCTCACATCAACAAGAAACAAATGT
1 TGGGGCATTTTGAAGGCTCACATCAACAAGAAACAAACGT
1977047 TGGGGCAT
1 TGGGGCAT
1977055 GCTGAAAGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 30 0.70
40 13 0.30
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (40 bp):
TGGGGCATTTTGAAGGCTCACATCAACAAGAAACAAACGT
Found at i:1978094 original size:54 final size:53
Alignment explanation
Indices: 1978011--1978172 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 53
1978001 TAATTGAAAA
* *
1978011 ATCTGGGCAGAAGCCACAAGAAAGGATGAATGTGTTGTCAAATATTTTACGAAC
1 ATCTGGGCAGAAACCACAAGAAA-GATGAATGTGTTGTCAAATGTTTTACGAAC
*
1978065 ATCTGGGCAGAAACCACAGGAAAGAATGAATGTGTTGTCAAATGTTTTACGAAC
1 ATCTGGGCAGAAACCACAAGAAAG-ATGAATGTGTTGTCAAATGTTTTACGAAC
* * * * *
1978119 ATCTGAGCAGAAACCACATGAGATGATGAATATGTTGTCAAATGTTTTATGAAC
1 ATCTGGGCAGAAACCACAAGA-AAGATGAATGTGTTGTCAAATGTTTTACGAAC
1978173 CAGTTATTCT
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.01
54 95 0.97
55 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (53 bp):
ATCTGGGCAGAAACCACAAGAAAGATGAATGTGTTGTCAAATGTTTTACGAAC
Found at i:1979298 original size:45 final size:45
Alignment explanation
Indices: 1979226--1979606 Score: 474
Period size: 45 Copynumber: 8.4 Consensus size: 45
1979216 CTATTTCCCA
* * * * *
1979226 CATCTGTAAGACCTTCAGTGCATGATGTTTTTAAAGCCTTTGGGA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
1979271 CATTTGTAAGACCTACAGTGCAAGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
1979316 CATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAGCCTTCGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
1979361 CATCTGTAAGACCTTCAGTACATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
** * * * *
1979406 CATCCATAAGACCTTCAGTGCAGGATGTTTTTAAAACCTTTGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
** * *
1979451 CATCCATAAGACCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
* **
1979496 CATCCGTAAGACCTACAGTGCATGATGTTTTCAATGCCTTCGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
* * *
1979541 CATCTGTAAGACCTACAGTGCAGGATATTTTCAAAAAGCCTTCGGAT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTC-AAAA-CCTTCGGGT
** *
1979588 CATCCATAAGACCTTCAGT
1 CATCTGTAAGACCTACAGT
1979607 TTCGGATGTT
Statistics
Matches: 296, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 270 0.91
46 2 0.01
47 24 0.08
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:1979470 original size:135 final size:135
Alignment explanation
Indices: 1979226--1979606 Score: 528
Period size: 135 Copynumber: 2.8 Consensus size: 135
1979216 CTATTTCCCA
* * * *
1979226 CATCTGTAAGACCTTCAGTGCATGATGTTTTTAAAGCCTTTGGGACATTTGTAAGACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTG
* * ** * *
1979291 CAAGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCAGGATGTTTTCAAAGCCTT
66 CAGGATGTTTTAAAAACCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAACCTT
*
1979356 CGGGT
131 CAGGT
* * ** *
1979361 CATCTGTAAGACCTTCAGTACATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTTCAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTG
* * *
1979426 CAGGATGTTTTTAAAACCTTTGGGTCATCCATAAGACCTTCAGTGCATGATGTTTTCAAAACCTT
66 CAGGATGTTTTAAAAACCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAACCTT
1979491 CAGGT
131 CAGGT
* * *
1979496 CATCCGTAAGACCTACAGTGCATGATGTTTTCAATGCCTTCGGGTCATCTGTAAGACCTACAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTG
* *
1979561 CAGGATATTTTCAAAAAGCCTTCGGATCATCCATAAGACCTTCAGT
66 CAGGATGTTTT-AAAAA-CCTTCGGGTCATCCATAAGACCTTCAGT
1979607 TTCGGATGTT
Statistics
Matches: 214, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
135 184 0.86
136 4 0.02
137 26 0.12
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (135 bp):
CATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTG
CAGGATGTTTTAAAAACCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAAACCTT
CAGGT
Found at i:1979721 original size:39 final size:39
Alignment explanation
Indices: 1979667--1980158 Score: 664
Period size: 39 Copynumber: 12.7 Consensus size: 39
1979657 AAACATTTCC
* **
1979667 AAAAGGAGTTCATAATCTGAAGAACCCGTCTGAAGAAAA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
*
1979706 AAAAGGAGTTCATAATCTGAAGAACTCGCCTGAAGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* * **
1979745 AAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
*
1979784 AAAAGGAGTTCATAATCTGAAGAACTCGTTTGAAGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
*
1979823 AAAAGCAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* *
1979862 AAAATGAGTTCATAATCTGAAGAACTCGTCTAAAGA-GA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* * * *
1979900 AAAAAG-GTTCATAATTTAAAGAACTCGTCTGAGGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* *
1979938 AAAAAGAGTTCATAATCTGAAGAACTCGTCTGAAGAGAA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
1979977 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
1980016 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* * * * * * *
1980055 AAAATGAGTTCATCATCTGAAGAACCCATATGAATAAGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* * * **
1980094 AGAAGGAGTTCATAATCTAAATAACTTATCTGAAGAGGA
1 AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* * * *
1980133 AGAAGAAGTTTATAGTCTGAAGAACT
1 AAAAGGAGTTCATAATCTGAAGAACT
1980159 TATTCAATAT
Statistics
Matches: 400, Mismatches: 51, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
37 25 0.06
38 15 0.04
39 360 0.90
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (39 bp):
AAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
Found at i:1980003 original size:193 final size:195
Alignment explanation
Indices: 1979667--1980158 Score: 713
Period size: 193 Copynumber: 2.5 Consensus size: 195
1979657 AAACATTTCC
* * *
1979667 AAAAGGAGTTCATAATCTGAAGAACCCGTCTGAAGAAAAAAAAGGAGTTCATAATCTGAAGAACT
1 AAAATGAGTTCATAATCTGAAGAACCCGTCTAAAGAAAAAAAAGGAGTTCATAATCTAAAGAACT
1979732 CGCCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCAT
66 CGCCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCAT
*
1979797 AATCTGAAGAACTCGTTTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
131 AATCTGAAGAACTCGTCTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
* * *
1979862 AAAATGAGTTCATAATCTGAAGAACTCGTCTAAAGAGAAAAAA-G-GTTCATAATTTAAAGAACT
1 AAAATGAGTTCATAATCTGAAGAACCCGTCTAAAGAAAAAAAAGGAGTTCATAATCTAAAGAACT
* * *
1979925 CGTCTGAGGAGGAAAAA-AGAGTTCATAATCTGAAGAACTCGTCTGAAGAGA-AAAAAGGAGTTC
66 CGCCTGAAGAGGAAAAAGA-AGTTCATAATCTGAAGAACTCGTATGAAGA-ACAAAAAGGAGTTC
*
1979988 ATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAG
129 ATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACTCGTCTGAAGAG
1980053 GA
194 GA
* * * * * * * *
1980055 AAAATGAGTTCATCATCTGAAGAACCCATATGAATAAGAAGAAGGAGTTCATAATCTAAATAACT
1 AAAATGAGTTCATAATCTGAAGAACCCGTCTAAAGAAAAAAAAGGAGTTCATAATCTAAAGAACT
*** * * *
1980120 TATCTGAAGAGGAAGAAGAAGTTTATAGTCTGAAGAACT
66 CGCCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAACT
1980159 TATTCAATAT
Statistics
Matches: 264, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
192 1 0.00
193 172 0.65
194 3 0.01
195 87 0.33
196 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (195 bp):
AAAATGAGTTCATAATCTGAAGAACCCGTCTAAAGAAAAAAAAGGAGTTCATAATCTAAAGAACT
CGCCTGAAGAGGAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCAT
AATCTGAAGAACTCGTCTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACTCGTCTGAAGAGGA
Found at i:1980105 original size:232 final size:232
Alignment explanation
Indices: 1979674--1980111 Score: 664
Period size: 232 Copynumber: 1.9 Consensus size: 232
1979664 TCCAAAAGGA
*
1979674 GTTCATAATCTGAAGAACCCGTCTGAAGAAAAAAAAGGAGTTCATAATCTGAAGAACTCGCCTGA
1 GTTCATAATCTAAAGAACCCGTCTGAAGAAAAAAAAGGAGTTCATAATCTGAAGAACTCGCCTGA
*
1979739 AGAGGAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCATAATCTGA
66 AGAGAAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCATAATCTGA
* * * * * *
1979804 AGAACTCGTTTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAATGA
131 AGAACTCGTCTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACCCATATGAAGAAGAAAAAGGA
1979869 GTTCATAATCTGAAGAACTCGTCTAAAGAGAAAAAAG
196 GTTCATAATCTGAAGAACTCGTCTAAAGAGAAAAAAG
* * * * *
1979906 GTTCATAATTTAAAGAACTCGTCTGAGGAGGAAAAAA-GAGTTCATAATCTGAAGAACTCGTCTG
1 GTTCATAATCTAAAGAACCCGTCTGAAGA-AAAAAAAGGAGTTCATAATCTGAAGAACTCGCCTG
* * **
1979970 AAGAGAAAAAAGGAGTTCATAATCTGAAGAACTCGTCTGAAGAGGAAAAAGGAGTTCATAATCTG
65 AAGAGAAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCATAATCTG
* * *
1980035 AAGAACTCGTCTGAAGAGGAAAAATG-AGTTCATCATCTGAAGAACCCATATGAATAAGAAGAAG
130 AAGAACTCGTCTGAAGAGGAAAAA-GCAGTTCATAATCTGAAGAACCCATATGAAGAAGAAAAAG
1980099 GAGTTCATAATCT
194 GAGTTCATAATCT
1980112 AAATAACTTA
Statistics
Matches: 184, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
232 177 0.96
233 7 0.04
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (232 bp):
GTTCATAATCTAAAGAACCCGTCTGAAGAAAAAAAAGGAGTTCATAATCTGAAGAACTCGCCTGA
AGAGAAAAAAGAAGTTCATAATCTGAAGAACTCGTATGAAGAACAAAAAGGAGTTCATAATCTGA
AGAACTCGTCTGAAGAGGAAAAAGCAGTTCATAATCTGAAGAACCCATATGAAGAAGAAAAAGGA
GTTCATAATCTGAAGAACTCGTCTAAAGAGAAAAAAG
Found at i:1980365 original size:3 final size:3
Alignment explanation
Indices: 1980359--1980395 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
1980349 TATGATTTTT
*
1980359 TTA TTA TTG TTA TTA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
1980396 AATTTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1981545 original size:18 final size:17
Alignment explanation
Indices: 1981501--1981546 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
1981491 TTTTATTTAC
1981501 ATTATTT-TTTTAGAAA
1 ATTATTTATTTTAGAAA
1981517 ATTATTATATTTTA-AAA
1 ATTATT-TATTTTAGAAA
1981534 TATTTATTTATTT
1 -A-TTATTTATTT
1981547 ATTTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.23
17 4 0.15
18 11 0.42
19 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTATTTATTTTAGAAA
Found at i:1982512 original size:66 final size:66
Alignment explanation
Indices: 1982430--1982562 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
1982420 AATGAGGTAG
* *
1982430 TTGTTGATAGAGTCACTGAATTGGAGAGGGAAATTTGCCAGGTCCTTTGAAGGGGTTGCATGTCT
1 TTGTTGATAGAGTCACTAAATTGGAGAGGGAAATTTGCCAGGTCCTTTGAAGGGGTTACATGTCT
1982495 T
66 T
*
1982496 TTGTTGATAGAGTCACTAAATTGGAGAGGGAAATTTGTCAGGTCCTTTGAAGGGGTTACATGTCT
1 TTGTTGATAGAGTCACTAAATTGGAGAGGGAAATTTGCCAGGTCCTTTGAAGGGGTTACATGTCT
1982561 T
66 T
1982562 T
1 T
1982563 CTGGAGCGTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (66 bp):
TTGTTGATAGAGTCACTAAATTGGAGAGGGAAATTTGCCAGGTCCTTTGAAGGGGTTACATGTCT
T
Found at i:1985943 original size:18 final size:18
Alignment explanation
Indices: 1985920--1985960 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1985910 ACAGAATTCT
1985920 GAATGCTGAGACATTACA
1 GAATGCTGAGACATTACA
1985938 GAATGCTGAGACATTACA
1 GAATGCTGAGACATTACA
*
1985956 AAATG
1 GAATG
1985961 TTGAACCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (18 bp):
GAATGCTGAGACATTACA
Found at i:1993750 original size:23 final size:23
Alignment explanation
Indices: 1993723--1993772 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1993713 TGACATTCTT
1993723 CTTATGTTAATTGCTATCCATTG
1 CTTATGTTAATTGCTATCCATTG
*
1993746 CTTATGTTAATTGCTATGCATTG
1 CTTATGTTAATTGCTATCCATTG
1993769 CTTA
1 CTTA
1993773 AGGATAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (23 bp):
CTTATGTTAATTGCTATCCATTG
Found at i:1995887 original size:163 final size:166
Alignment explanation
Indices: 1995617--1995946 Score: 630
Period size: 163 Copynumber: 2.0 Consensus size: 166
1995607 TATTGGCCCT
1995617 ATCAAATTAATTTGTTTCGGAAAATAAATTTTTCCTCAATCATTTTCTGCATCTTCACCATCAAC
1 ATCAAATTAATTTGTTTCGGAAAATAAATTTTTCCTCAATCATTTTCTGCATCTTCACCATCAAC
1995682 AATCAACCTTTCTCATCAGCATGATCAGTTTAATCAAATAAACTTTGCCTTGGC-AAACTTATCC
66 AATCAACCTTTCTCATCAGCATGATCAGTTTAATCAAATAAACTTTGCCTTGGCAAAACTTATCC
1995746 ACCACAT-GAAA-ATATCCTAAATGCAACTATATGC
131 ACCACATGGAAATATATCCTAAATGCAACTATATGC
*
1995780 ATCAAATTAATTTGTTTCGGAAAATAAATTTTTCCTCAATCATTTTCTGCATCTTCACCATCAAT
1 ATCAAATTAATTTGTTTCGGAAAATAAATTTTTCCTCAATCATTTTCTGCATCTTCACCATCAAC
1995845 AATCAACCTTTCTCATCAGCATGATCAGTTTAATCAAATAAACTTTGCCTTGGCAAAACTTATCC
66 AATCAACCTTTCTCATCAGCATGATCAGTTTAATCAAATAAACTTTGCCTTGGCAAAACTTATCC
1995910 ACCACATGGAAATATATCCTAAATGCAACTATATGC
131 ACCACATGGAAATATATCCTAAATGCAACTATATGC
1995946 A
1 A
1995947 GCTAAAATGC
Statistics
Matches: 163, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
163 118 0.72
164 17 0.10
165 4 0.02
166 24 0.15
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (166 bp):
ATCAAATTAATTTGTTTCGGAAAATAAATTTTTCCTCAATCATTTTCTGCATCTTCACCATCAAC
AATCAACCTTTCTCATCAGCATGATCAGTTTAATCAAATAAACTTTGCCTTGGCAAAACTTATCC
ACCACATGGAAATATATCCTAAATGCAACTATATGC
Found at i:1996517 original size:102 final size:103
Alignment explanation
Indices: 1996348--1996538 Score: 321
Period size: 102 Copynumber: 1.9 Consensus size: 103
1996338 CTTTTTTTTG
* * *
1996348 ATACTTCAAGGGGAGTCATTCTCATCAAACTACAATCGCACACTCTAAGTGAAAGGGAGCATGCC
1 ATACTTCAAGGGGAGTCATGCTCATCAAACTACAATCCCACACTCTAAGTGAAAGGGAGCATACC
1996413 TTCCACCCCCGAGCTAGTCAAGTAAAGTTTTTTTAAGC
66 TTCCACCCCCGAGCTAGTCAAGTAAAGTTTTTTTAAGC
* * *
1996451 ATACTTCAAGGGGAGTCA-GCTCATCACACTACCATCCCACACTCTAAGTGAAAGGGAGTATACC
1 ATACTTCAAGGGGAGTCATGCTCATCAAACTACAATCCCACACTCTAAGTGAAAGGGAGCATACC
1996515 TTCCACCCCCGAGCTAGTCAAGTA
66 TTCCACCCCCGAGCTAGTCAAGTA
1996539 GAGTAATCCC
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 64 0.78
103 18 0.22
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (103 bp):
ATACTTCAAGGGGAGTCATGCTCATCAAACTACAATCCCACACTCTAAGTGAAAGGGAGCATACC
TTCCACCCCCGAGCTAGTCAAGTAAAGTTTTTTTAAGC
Found at i:1999488 original size:20 final size:18
Alignment explanation
Indices: 1999452--1999505 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 18
1999442 AAGGGTAAAC
*
1999452 AAAAATAACGAATAAATCAT
1 AAAAATAAAGAA-AAAT-AT
1999472 AAAAATAAAAGAAAAATAT
1 AAAAAT-AAAGAAAAATAT
1999491 ACAATAATAAAGAAA
1 A-AA-AATAAAGAAA
1999506 CAAGATAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.10
20 19 0.63
21 8 0.27
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAATAAAGAAAAATAT
Found at i:2008326 original size:2 final size:2
Alignment explanation
Indices: 2008319--2008376 Score: 100
Period size: 2 Copynumber: 29.0 Consensus size: 2
2008309 ATGGATTGCT
2008319 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2008361 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
2008377 AGGCATTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 51 0.94
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2008600 original size:85 final size:85
Alignment explanation
Indices: 2008452--2008614 Score: 186
Period size: 85 Copynumber: 1.9 Consensus size: 85
2008442 ATACAATCAC
* ** * * *
2008452 GACACACGAATGTGTATCATCTTTGTTTATGACATGTGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTATCATCTTAATTTATGACAGGGGCTTCAATAACACGCAATGTAAGTCATA
*
2008517 CATGCAT-GTCATATATTTAT
66 AATGC-TCGTCATATATTTAT
* * * * *
2008537 GACACACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATAACGCTCAATG-AGCGTCAT
1 GACACACAAATGTGTATCATCTTAATTTATGACAGGGGCTTCAATAACACGCAATGTA-AGTCAT
2008601 AAATGCTCGTCATA
65 AAATGCTCGTCATA
2008615 AATGTGTGTC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
84 2 0.03
85 62 0.97
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (85 bp):
GACACACAAATGTGTATCATCTTAATTTATGACAGGGGCTTCAATAACACGCAATGTAAGTCATA
AATGCTCGTCATATATTTAT
Found at i:2008611 original size:13 final size:13
Alignment explanation
Indices: 2008595--2008643 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
2008585 GCTCAATGAG
2008595 CGTCATAAATGCT
1 CGTCATAAATGCT
2008608 CGTCATAAATG-T
1 CGTCATAAATGCT
* *
2008620 GTGTCATAAATGCA
1 -CGTCATAAATGCT
*
2008634 CATCATAAAT
1 CGTCATAAAT
2008644 TTATGACGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.97
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGCT
Found at i:2014632 original size:13 final size:13
Alignment explanation
Indices: 2014616--2014641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2014606 TTATCTCTCA
2014616 TTTCTTCATTTTC
1 TTTCTTCATTTTC
2014629 TTTCTTCATTTTC
1 TTTCTTCATTTTC
2014642 CCAATAGACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTCATTTTC
Found at i:2026107 original size:13 final size:13
Alignment explanation
Indices: 2026074--2026098 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2026064 CGTTCATTGC
2026074 GCGTCATAAATGA
1 GCGTCATAAATGA
2026087 GCGTCATAAATG
1 GCGTCATAAATG
2026099 TGTGTCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (13 bp):
GCGTCATAAATGA
Found at i:2030495 original size:24 final size:24
Alignment explanation
Indices: 2030468--2030519 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
2030458 AACACATAAC
* *
2030468 TTGGAACATCTAGTGGCACATCTT
1 TTGGAACATCAAGTAGCACATCTT
* *
2030492 TTGGAACTTCAAGTATCACATCTT
1 TTGGAACATCAAGTAGCACATCTT
2030516 TTGG
1 TTGG
2030520 TCCTCCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (24 bp):
TTGGAACATCAAGTAGCACATCTT
Found at i:2037278 original size:21 final size:21
Alignment explanation
Indices: 2037243--2037303 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
2037233 AGAACCCATT
* *
2037243 GGGGGTATCGATTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
2037263 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGGTTCCC--TCAAA
*
2037287 GGGGGAATTGGTTCCCT
1 GGGGGAATCGGTTCCCT
2037304 TATGGGGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
23 15 0.44
24 4 0.12
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:2044197 original size:5 final size:5
Alignment explanation
Indices: 2044189--2044221 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
2044179 ACAAAAGCTT
*
2044189 GAAAA GAAAA GAAAA GAATA -AAAA GAAAA GAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAA
2044222 TAACTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (5 bp):
GAAAA
Found at i:2045400 original size:37 final size:37
Alignment explanation
Indices: 2045345--2045424 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
2045335 TTTATTTTGT
* *
2045345 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTGTTAAGTGTGATATTCGAGTCGAG
*
2045382 TCGGGTCGGGTTTGTTAAGTGTGATATTCGAGTCGGG
1 TCGGGTCGGGTTTGTTAAGTGTGATATTCGAGTCGAG
2045419 TCGGGT
1 TCGGGT
2045425 TTTTTTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.12, C:0.11, G:0.40, T:0.36
Consensus pattern (37 bp):
TCGGGTCGGGTTTGTTAAGTGTGATATTCGAGTCGAG
Found at i:2045413 original size:32 final size:32
Alignment explanation
Indices: 2045345--2045452 Score: 126
Period size: 37 Copynumber: 3.2 Consensus size: 32
2045335 TTTATTTTGT
2045345 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTAAGTGTGATA-T----TCGAG
*
2045382 TCGGGTCGGGTTTGTTAAGTGTGATATTCGAG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGAG
* * *
2045414 TCGGGTCGGGTTTTTTTAATTGTGGTATTCGGG
1 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGAG
2045447 TCGGGT
1 TCGGGT
2045453 TTGGGTTTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
32 15 0.23
33 24 0.37
36 1 0.02
37 25 0.38
ACGTcount: A:0.12, C:0.10, G:0.38, T:0.40
Consensus pattern (32 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGAG
Found at i:2046020 original size:44 final size:44
Alignment explanation
Indices: 2045957--2046042 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
2045947 TCATTTGACA
* * *
2045957 TTCCTGTGAACCAAACAGAATATGGAATTGGATTTCAATTCCAT
1 TTCCTGTCAACCAAACAGAATATGGAATTAGATTCCAATTCCAT
2046001 TTCCTGTCAACCAAACAGAATATGGAATTAGATTCCAATTCC
1 TTCCTGTCAACCAAACAGAATATGGAATTAGATTCCAATTCC
2046043 TGACAGATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (44 bp):
TTCCTGTCAACCAAACAGAATATGGAATTAGATTCCAATTCCAT
Found at i:2046068 original size:18 final size:17
Alignment explanation
Indices: 2046030--2046077 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
2046020 ATATGGAATT
*
2046030 AGATTCCAATTCCTGAC
1 AGATTCCAATTCCTCAC
*
2046047 AGATTCAAATTCCTTCAC
1 AGATTCCAATTCC-TCAC
2046065 AGATTCCAATTCC
1 AGATTCCAATTCC
2046078 CTCATAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.31
Consensus pattern (17 bp):
AGATTCCAATTCCTCAC
Found at i:2046139 original size:3 final size:3
Alignment explanation
Indices: 2046131--2046171 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
2046121 CCCATTTGTT
*
2046131 TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2046172 AATAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2046282 original size:14 final size:14
Alignment explanation
Indices: 2046263--2046307 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2046253 AGAACCGGTC
2046263 CAGACCCGACCCAA
1 CAGACCCGACCCAA
*
2046277 CAGACCCGATCC-A
1 CAGACCCGACCCAA
*
2046290 -A-ACCCGACCTAA
1 CAGACCCGACCCAA
2046302 CAGACC
1 CAGACC
2046308 TGATCCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 2 0.08
14 14 0.56
ACGTcount: A:0.36, C:0.47, G:0.13, T:0.04
Consensus pattern (14 bp):
CAGACCCGACCCAA
Found at i:2046289 original size:25 final size:25
Alignment explanation
Indices: 2046261--2046317 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
2046251 CAAGAACCGG
*
2046261 TCCAGACCCGACCCAACAGACCCGA
1 TCCAAACCCGACCCAACAGACCCGA
* *
2046286 TCCAAACCCGACCTAACAGACCTGA
1 TCCAAACCCGACCCAACAGACCCGA
2046311 TCCAAAC
1 TCCAAAC
2046318 TCGAATGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.44, G:0.12, T:0.09
Consensus pattern (25 bp):
TCCAAACCCGACCCAACAGACCCGA
Found at i:2047010 original size:22 final size:22
Alignment explanation
Indices: 2046982--2047036 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
2046972 ATTGGAAATA
2046982 TTGGAATATTATCTATTTTTCC
1 TTGGAATATTATCTATTTTTCC
2047004 TTGG-A-A-TATCTATTTTTCC
1 TTGGAATATTATCTATTTTTCC
*
2047023 TTAGAAT-TT-TCTAT
1 TTGGAATATTATCTAT
2047037 GATTAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 16 0.55
20 7 0.24
21 2 0.07
22 4 0.14
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.55
Consensus pattern (22 bp):
TTGGAATATTATCTATTTTTCC
Found at i:2047036 original size:20 final size:19
Alignment explanation
Indices: 2046991--2047029 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2046981 ATTGGAATAT
*
2046991 TATCTATTTTTCCTTGGAA
1 TATCTATTTTTCCTTAGAA
2047010 TATCTATTTTTCCTTAGAA
1 TATCTATTTTTCCTTAGAA
2047029 T
1 T
2047030 TTTCTATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (19 bp):
TATCTATTTTTCCTTAGAA
Found at i:2079772 original size:27 final size:27
Alignment explanation
Indices: 2079716--2079831 Score: 90
Period size: 27 Copynumber: 4.2 Consensus size: 27
2079706 GAGTTAAATG
* * *
2079716 AAATGATCAAAATATCCTCGAATTTTA
1 AAATGATCAAAATACCCTCGAGTTTCA
*
2079743 AAATGATCAAAATACCCTTGAGTTTCA
1 AAATGATCAAAATACCCTCGAGTTTCA
* * * * **
2079770 AAATTA-CTGAAATACTCTTGAGTCCCA
1 AAATGATC-AAAATACCCTCGAGTTTCA
* *
2079797 AAATGACTGAAATATACCCTCAAGTTTCA
1 AAATGA-TCAAA-ATACCCTCGAGTTTCA
2079826 AAATGA
1 AAATGA
2079832 ATTAAATGCC
Statistics
Matches: 68, Mismatches: 17, Indels: 6
0.75 0.19 0.07
Matches are distributed among these distances:
26 1 0.01
27 48 0.71
28 2 0.03
29 17 0.25
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATGATCAAAATACCCTCGAGTTTCA
Found at i:2082375 original size:124 final size:120
Alignment explanation
Indices: 2082233--2082483 Score: 412
Period size: 124 Copynumber: 2.1 Consensus size: 120
2082223 GAGCATTCTT
* *
2082233 TAATTAAAGTGTACCTTCAAATTAAATGTGATATCTTTAAATAGAAAAAATGCAATGCATTGAAT
1 TAATTAAAGTATACCTTCAAATCAAATGTGATATCTTTAAATAGAAAAAATGCAATGCATTGAAT
2082298 TAGAAATAACTCTTTTTTTATAATGTGAGTTACTAATTAGATATGGATTGAGATTTGA
66 TAGAAATAA---TTTTTTTATAATGTGAGTTACTAATTAGATATGGATTGAGATTTGA
* * *
2082356 TAATTGAAAGTATACCTTCAAATCAAATGTGATATCTTTAAATAGCAAAAATGGAGTGCATTGAA
1 TAATT-AAAGTATACCTTCAAATCAAATGTGATATCTTTAAATAGAAAAAATGCAATGCATTGAA
*
2082421 TTAGAAATAATTTTTTTATAATGTGAGTTAGTAATTAGATATGGATTGAGATTTGA
65 TTAGAAATAATTTTTTTATAATGTGAGTTACTAATTAGATATGGATTGAGATTTGA
2082477 TAATTAA
1 TAATTAA
2082484 GAATAGATTT
Statistics
Matches: 121, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
120 2 0.02
121 50 0.41
123 5 0.04
124 64 0.53
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (120 bp):
TAATTAAAGTATACCTTCAAATCAAATGTGATATCTTTAAATAGAAAAAATGCAATGCATTGAAT
TAGAAATAATTTTTTTATAATGTGAGTTACTAATTAGATATGGATTGAGATTTGA
Found at i:2083533 original size:90 final size:90
Alignment explanation
Indices: 2083432--2083607 Score: 343
Period size: 90 Copynumber: 2.0 Consensus size: 90
2083422 TGTTTTATAT
2083432 ATTGACCTTTCATCACATCACCTATAACCTTTTGTAAATTTAATTTTAGGGTAAACTATGCCAGT
1 ATTGACCTTTCATCACATCACCTATAACCTTTTGTAAATTTAATTTTAGGGTAAACTATGCCAGT
2083497 AGTCCCCTTTGTTTTCAATCTGATC
66 AGTCCCCTTTGTTTTCAATCTGATC
*
2083522 ATTGACCTTTCATCACTTCACCTATAACCTTTTGTAAATTTAATTTTAGGGTAAACTATGCCAGT
1 ATTGACCTTTCATCACATCACCTATAACCTTTTGTAAATTTAATTTTAGGGTAAACTATGCCAGT
2083587 AGTCCCCTTTGTTTTCAATCT
66 AGTCCCCTTTGTTTTCAATCT
2083608 AATCGACTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (90 bp):
ATTGACCTTTCATCACATCACCTATAACCTTTTGTAAATTTAATTTTAGGGTAAACTATGCCAGT
AGTCCCCTTTGTTTTCAATCTGATC
Found at i:2083797 original size:3 final size:3
Alignment explanation
Indices: 2083789--2083854 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
2083779 CCAAGTCAAC
* * *
2083789 TCT TCT TCT TCT T-T CTCC TCT TCT TCT TCT TCT TAT TCT T-T CTCC
1 TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT
* *
2083834 TCT TCT TCT TAT TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
2083855 CCACGCAGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:2083812 original size:15 final size:15
Alignment explanation
Indices: 2083792--2083854 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
2083782 AGTCAACTCT
2083792 TCTTCTTCTTTCTCC
1 TCTTCTTCTTTCTCC
2083807 TCTTCTTC-TTCT--
1 TCTTCTTCTTTCTCC
*
2083819 TCTTATTCTTTCTCC
1 TCTTCTTCTTTCTCC
2083834 TCTTCTTCTTAT-TCC
1 TCTTCTTCTT-TCTCC
2083849 TCTTCT
1 TCTTCT
2083855 CCACGCAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 7 0.17
13 4 0.10
14 4 0.10
15 26 0.62
16 1 0.02
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (15 bp):
TCTTCTTCTTTCTCC
Found at i:2083827 original size:27 final size:27
Alignment explanation
Indices: 2083789--2083843 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
2083779 CCAAGTCAAC
*
2083789 TCTTCTTCTTCTTTCTCCTCTTCTTCT
1 TCTTCTTATTCTTTCTCCTCTTCTTCT
2083816 TCTTCTTATTCTTTCTCCTCTTCTTCT
1 TCTTCTTATTCTTTCTCCTCTTCTTCT
2083843 T
1 T
2083844 ATTCCTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (27 bp):
TCTTCTTATTCTTTCTCCTCTTCTTCT
Found at i:2083854 original size:27 final size:27
Alignment explanation
Indices: 2083795--2083854 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
2083785 CAACTCTTCT
* *
2083795 TCTTCTTTCTCCTCTTCTTCTTCTTCT
1 TCTTCTTTCTCCTCTTCTTCTTATTCC
*
2083822 TATTCTTTCTCCTCTTCTTCTTATTCC
1 TCTTCTTTCTCCTCTTCTTCTTATTCC
2083849 TCTTCT
1 TCTTCT
2083855 CCACGCAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (27 bp):
TCTTCTTTCTCCTCTTCTTCTTATTCC
Found at i:2085381 original size:18 final size:18
Alignment explanation
Indices: 2085360--2085402 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2085350 GTTGTTTTTA
*
2085360 AAATAAAAGATAACAATT
1 AAATAAAAGAAAACAATT
2085378 AAATAAAAGAAAACAATT
1 AAATAAAAGAAAACAATT
2085396 AAATAAA
1 AAATAAA
2085403 TAAATTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (18 bp):
AAATAAAAGAAAACAATT
Found at i:2086095 original size:72 final size:73
Alignment explanation
Indices: 2086015--2086202 Score: 263
Period size: 75 Copynumber: 2.6 Consensus size: 73
2086005 TAAAACATCT
* * * *
2086015 TAAATCCTAATTAAAACACTTAAACATATTTAAACTAAAATACCT-ACAAAAATAATAT-TTAAA
1 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAACAAAAATAAAATATAAAA
2086078 ATAATATTC
66 ATAATA-TC
*
2086087 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCT--AACAAAAATAAAATATAA
2086152 AAATAATATC
64 AAATAATATC
* * *
2086162 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAAT
1 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAAT
2086203 GCAAAGATAA
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
72 43 0.41
75 51 0.49
76 10 0.10
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.30
Consensus pattern (73 bp):
TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACCTAACAAAAATAAAATATAAAA
ATAATATC
Found at i:2086145 original size:25 final size:24
Alignment explanation
Indices: 2086098--2086145 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
2086088 AAATCCTAAT
* **
2086098 TAAAATACTAAAACATATTTAAAC
1 TAAAATACTAAAACAAAGATAAAC
2086122 TAAAATACCTAAAACAAAGATAAA
1 TAAAATA-CTAAAACAAAGATAAA
2086146 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAAATACTAAAACAAAGATAAAC
Found at i:2086194 original size:19 final size:20
Alignment explanation
Indices: 2086156--2086195 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2086146 ATATAAAAAT
*
2086156 AATATCTAAAACTTAATTAA
1 AATATCTAAAACCTAATTAA
*
2086176 AATA-CTAAAACCTATTTAA
1 AATATCTAAAACCTAATTAA
2086195 A
1 A
2086196 CTAAAATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATCTAAAACCTAATTAA
Done.