Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_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: 4521124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 21
Found at i:1667316 original size:26 final size:26
Alignment explanation
Indices: 1667287--1667342 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
1667277 CGATTATTTC
**
1667287 TTTAAATTTTTTTAATTTTTTTA-ATT
1 TTTAAATAATTTT-ATTTTTTTATATT
*
1667313 TTTATATAATTTTATTTTTTTATATT
1 TTTAAATAATTTTATTTTTTTATATT
1667339 TTTA
1 TTTA
1667343 TTGATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTAAATAATTTTATTTTTTTATATT
Found at i:1667322 original size:11 final size:9
Alignment explanation
Indices: 1667291--1667325 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
1667281 TATTTCTTTA
1667291 AATTTTTTT
1 AATTTTTTT
1667300 AATTTTTTT
1 AATTTTTTT
1667309 AATTTTTATAT
1 AATTTTT-T-T
1667320 AATTTT
1 AATTTT
1667326 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.67
10 1 0.04
11 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
AATTTTTTT
Found at i:1667333 original size:8 final size:8
Alignment explanation
Indices: 1667292--1667344 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
1667282 ATTTCTTTAA
1667292 ATTTTTTT
1 ATTTTTTT
1667300 AATTTTTTT
1 -ATTTTTTT
*
1667309 AATTTTTAT
1 -ATTTTTTT
**
1667318 ATAATTTT
1 ATTTTTTT
1667326 ATTTTTTT
1 ATTTTTTT
*
1667334 ATATTTTT
1 ATTTTTTT
1667342 ATT
1 ATT
1667345 GATGATTTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
8 20 0.56
9 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:1667343 original size:16 final size:16
Alignment explanation
Indices: 1667292--1667344 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1667282 ATTTCTTTAA
*
1667292 ATTTTTTTAATTTTTTT
1 ATTTTTTT-ATATTTTT
* *
1667309 AATTTTTATATAATTTT
1 -ATTTTTTTATATTTTT
1667326 ATTTTTTTATATTTTT
1 ATTTTTTTATATTTTT
1667342 ATT
1 ATT
1667345 GATGATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 17 0.57
17 6 0.20
18 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTTTTTATATTTTT
Found at i:1670502 original size:52 final size:52
Alignment explanation
Indices: 1670444--1670547 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
1670434 TGGTCCCTTC
*
1670444 AGGGACCAAACTGCAAAAATGTGCTAAAAATATGGGGTCTAATGCAATTAAA
1 AGGGACCAAACTGCAAAAATGTGCTAAAAATATGGGGTCTAACGCAATTAAA
* * *
1670496 AGGGACCAAACTGCAAAAATGTGCTAAAATTCTGGGGTTTAACGCAATTAAA
1 AGGGACCAAACTGCAAAAATGTGCTAAAAATATGGGGTCTAACGCAATTAAA
1670548 CCAATATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (52 bp):
AGGGACCAAACTGCAAAAATGTGCTAAAAATATGGGGTCTAACGCAATTAAA
Found at i:1671836 original size:29 final size:30
Alignment explanation
Indices: 1671767--1671825 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1671757 CAATTTAAGG
* *
1671767 CAAAATATTTGTGGACTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1671797 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
1671826 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:1671931 original size:21 final size:21
Alignment explanation
Indices: 1671905--1671960 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1671895 AGGGCGTCAA
*
1671905 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTAC
1671926 AGTGCATCCATGCATCCCTAC
1 AGTGCATCCATGCATCCCTAC
1671947 AGTGCATCCATGCA
1 AGTGCATCCATGCA
1671961 CTTGCACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTAC
Found at i:1672049 original size:12 final size:12
Alignment explanation
Indices: 1672032--1672070 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1672022 TAGTGCATCG
1672032 ATGCATCCTGCC
1 ATGCATCCTGCC
1672044 ATGCAT-C-G--
1 ATGCATCCTGCC
1672052 ATGCATCCTGCC
1 ATGCATCCTGCC
1672064 ATGCATC
1 ATGCATC
1672071 AAGGCTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 6 0.26
9 1 0.04
10 2 0.09
11 1 0.04
12 13 0.57
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.26
Consensus pattern (12 bp):
ATGCATCCTGCC
Found at i:1672050 original size:20 final size:20
Alignment explanation
Indices: 1672025--1672070 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1672015 ATTCACTTAG
1672025 TGCATCGATGCATCCTGCCA
1 TGCATCGATGCATCCTGCCA
1672045 TGCATCGATGCATCCTGCCA
1 TGCATCGATGCATCCTGCCA
1672065 TGCATC
1 TGCATC
1672071 AAGGCTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.35, G:0.20, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCATCCTGCCA
Found at i:1672219 original size:20 final size:22
Alignment explanation
Indices: 1672181--1672220 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1672171 TTTGAGTAGA
1672181 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
1672203 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
1672221 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:1672474 original size:34 final size:32
Alignment explanation
Indices: 1672435--1672504 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1672425 TTTTGTAAAG
*
1672435 GGGAAAGGTTATAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
* *
1672469 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
1672501 GGGA
1 GGGA
1672505 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:1674759 original size:29 final size:30
Alignment explanation
Indices: 1674691--1674748 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
1674681 AATTTAAGGA
* *
1674691 AAAATATTTTTGGATTTGAATTGAATTTAC
1 AAAATGTTTTTGGACTTGAATTGAATTTAC
1674721 AAAATGTTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
1674749 TTCAAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAC
Found at i:1674896 original size:20 final size:18
Alignment explanation
Indices: 1674871--1674960 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 18
1674861 CACCTGAACT
1674871 AATGCATCGATGCATCATGC
1 AATGCATCGATGCATC-T-C
*
1674891 AATGCATCCATGCA-CTC
1 AATGCATCGATGCATCTC
* *
1674908 AA-ACATCGAATGCA-CTT
1 AATGCATCG-ATGCATCTC
*
1674925 AGTGCATCGATGCATCCTGC
1 AATGCATCGATGCAT-CT-C
* *
1674945 CATGCATCCATGCATC
1 AATGCATCGATGCATC
1674961 AAGGCTGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
16 4 0.07
17 16 0.29
18 6 0.11
19 4 0.07
20 25 0.45
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (18 bp):
AATGCATCGATGCATCTC
Found at i:1675354 original size:34 final size:32
Alignment explanation
Indices: 1675315--1675384 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1675305 TTTTGTAAAG
* *
1675315 GGGAAATGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
1675349 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
1675381 GGGA
1 GGGA
1675385 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:1686735 original size:15 final size:15
Alignment explanation
Indices: 1686715--1686744 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1686705 CAACATGCAT
1686715 GCATATATACACATA
1 GCATATATACACATA
1686730 GCATATATACACATA
1 GCATATATACACATA
1686745 TGTATGCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
GCATATATACACATA
Found at i:1686767 original size:12 final size:12
Alignment explanation
Indices: 1686719--1686780 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
1686709 ATGCATGCAT
*
1686719 ATATACACATAGC
1 ATATATACATA-C
* *
1686732 ATATATACACAT
1 ATATATACATAC
*
1686744 ATGTATGCACATAC
1 ATATAT--ACATAC
1686758 ATATATACATAC
1 ATATATACATAC
*
1686770 ATACATACATA
1 ATATATACATA
1686781 ACGATATATT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
12 21 0.54
13 9 0.23
14 9 0.23
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.29
Consensus pattern (12 bp):
ATATATACATAC
Found at i:1690334 original size:8 final size:8
Alignment explanation
Indices: 1690321--1690358 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
1690311 GAGCAGGCAG
1690321 CATTGCAA
1 CATTGCAA
1690329 CATTGCAA
1 CATTGCAA
1690337 CATTGCAA
1 CATTGCAA
1690345 CATTGCAA
1 CATTGCAA
1690353 CATTGC
1 CATTGC
1690359 CTGCCCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (8 bp):
CATTGCAA
Found at i:1690376 original size:24 final size:24
Alignment explanation
Indices: 1690349--1690399 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1690339 TTGCAACATT
*
1690349 GCAACATTGCCTGCCCTGGTTCGA
1 GCAACATTGCCTGCCCTAGTTCGA
* * *
1690373 GCAACATTGTCTGTCCTAGTTTGA
1 GCAACATTGCCTGCCCTAGTTCGA
1690397 GCA
1 GCA
1690400 GGCATTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (24 bp):
GCAACATTGCCTGCCCTAGTTCGA
Found at i:1690424 original size:25 final size:25
Alignment explanation
Indices: 1690377--1690426 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1690367 GTTCGAGCAA
**
1690377 CATTGTCTGTCCTAGTTTGAGCAGG
1 CATTGTCTGTCCTAGTTCAAGCAGG
*
1690402 CATTGTTTGTCCTAGTTCAAGCAGG
1 CATTGTCTGTCCTAGTTCAAGCAGG
1690427 GCACAGCAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (25 bp):
CATTGTCTGTCCTAGTTCAAGCAGG
Found at i:1690661 original size:42 final size:42
Alignment explanation
Indices: 1690602--1690721 Score: 231
Period size: 42 Copynumber: 2.9 Consensus size: 42
1690592 TTTCCCCGAA
*
1690602 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1690644 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
1690686 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1690722 TGTAATTCAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:1690955 original size:26 final size:24
Alignment explanation
Indices: 1690893--1690955 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
1690883 CATTTTCATC
1690893 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
1690917 AAAATATAT-TTATTAATAT-TTAT
1 AAAATATATATTATTAAAATATT-T
1690940 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
1690956 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:1690957 original size:22 final size:23
Alignment explanation
Indices: 1690910--1690970 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 23
1690900 TAATTATTAA
* *
1690910 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
1690931 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
* *
1690954 -ATATTTTTAATATTATA
1 AATATTTATAATAATATA
1690971 TAAAATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.32
22 19 0.56
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:1691030 original size:24 final size:23
Alignment explanation
Indices: 1690998--1691044 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
1690988 TTATAATAAT
* *
1690998 ATAAGATATTATATTTTTATTTTA
1 ATAAGATATAATAATTTT-TTTTA
*
1691022 ATAATATATAATAATTTTTTTTA
1 ATAAGATATAATAATTTTTTTTA
1691045 TATATTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATAAGATATAATAATTTTTTTTA
Found at i:1691054 original size:28 final size:28
Alignment explanation
Indices: 1691023--1691086 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 28
1691013 TTTATTTTAA
* *
1691023 TAATATAT-AATAATTTTTTTTATATATT
1 TAATA-ATGAATAATATTATTTATATATT
1691051 TAATAATGAATAATATTATTTATATATT
1 TAATAATGAATAATATTATTTATATATT
1691079 TCAATAAT
1 T-AATAAT
1691087 ATTTTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
27 2 0.06
28 24 0.75
29 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TAATAATGAATAATATTATTTATATATT
Found at i:1691332 original size:20 final size:20
Alignment explanation
Indices: 1691253--1691323 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
1691243 TTTTCCAGAT
1691253 ATTTTCCAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
1691273 ATTTTCCAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
*
1691293 ATTTTACAGAAATGTAATTC
1 ATTTTCCAGAAATGTAATTC
1691313 ATTTTCCAGAA
1 ATTTTCCAGAA
1691324 TTCAAATTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (20 bp):
ATTTTCCAGAAATGTAATTC
Found at i:1691332 original size:40 final size:40
Alignment explanation
Indices: 1691253--1691332 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
1691243 TTTTCCAGAT
* **
1691253 ATTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTC
1 ATTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
*
1691293 ATTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 ATTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
1691333 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (40 bp):
ATTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
Found at i:1691342 original size:15 final size:15
Alignment explanation
Indices: 1691306--1691387 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
1691296 TTACAGAAAT
**
1691306 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
1691321 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
** *
1691335 GTAATTCATTTTCTA
1 GTAATTCAAATTCCA
1691350 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
1691365 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
1691380 ATAATTCA
1 GTAATTCA
1691388 TTCTCTGGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
14 12 0.21
15 45 0.79
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:1691358 original size:30 final size:29
Alignment explanation
Indices: 1691306--1691372 Score: 116
Period size: 30 Copynumber: 2.3 Consensus size: 29
1691296 TTACAGAAAT
1691306 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
*
1691335 GTAATTCATTTTCTAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
1691365 GTAATTCA
1 GTAATTCA
1691373 AATTCCAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.40
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:1705884 original size:21 final size:21
Alignment explanation
Indices: 1705853--1705902 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1705843 GTAGGTTTGA
* * *
1705853 GATCTATCCCTTTATGGAAAG
1 GATCGATCCCTCTAGGGAAAG
*
1705874 GATTGATCCCTCTAGGGAAAG
1 GATCGATCCCTCTAGGGAAAG
1705895 GATCGATC
1 GATCGATC
1705903 TCTCAATGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (21 bp):
GATCGATCCCTCTAGGGAAAG
Found at i:1705956 original size:29 final size:29
Alignment explanation
Indices: 1705917--1705972 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
1705907 AATGAAAATG
* *
1705917 ATTGATTCCTTTCACCAAGGGATCGATGA
1 ATTGATCCCTTTCACCAAAGGATCGATGA
1705946 ATTGATCCCTTTCACCAAAGGATCGAT
1 ATTGATCCCTTTCACCAAAGGATCGAT
1705973 CCCTTGTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (29 bp):
ATTGATCCCTTTCACCAAAGGATCGATGA
Found at i:1708934 original size:24 final size:25
Alignment explanation
Indices: 1708906--1708958 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1708896 TTTTTCTTTG
1708906 AAAAACAATTAAG-TATTATTTTAA
1 AAAAACAATTAAGATATTATTTTAA
* * *
1708930 AAAAACAATTATGATTTTATTTTGA
1 AAAAACAATTAAGATATTATTTTAA
1708955 AAAA
1 AAAA
1708959 TTGGCAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAAACAATTAAGATATTATTTTAA
Found at i:1708983 original size:10 final size:10
Alignment explanation
Indices: 1708968--1708993 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1708958 ATTGGCAATT
1708968 TTGAATTAAA
1 TTGAATTAAA
1708978 TTGAATTAAA
1 TTGAATTAAA
1708988 TTGAAT
1 TTGAAT
1708994 AGGAGTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (10 bp):
TTGAATTAAA
Found at i:1709732 original size:13 final size:13
Alignment explanation
Indices: 1709716--1709741 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1709706 AAAATATAAT
1709716 AAAAATATATGTA
1 AAAAATATATGTA
1709729 AAAAATATATGTA
1 AAAAATATATGTA
1709742 TACGCATGCA
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:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAAATATATGTA
Found at i:1709789 original size:22 final size:22
Alignment explanation
Indices: 1709754--1709797 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1709744 CGCATGCATA
*
1709754 AAAAATCAACTAATAAGAACAAC
1 AAAAATCAAATAATAA-AACAAC
1709777 AAAAA-CAAATAATAAAACAAC
1 AAAAATCAAATAATAAAACAAC
1709798 TATCATACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.70, C:0.16, G:0.02, T:0.11
Consensus pattern (22 bp):
AAAAATCAAATAATAAAACAAC
Found at i:1711445 original size:3 final size:3
Alignment explanation
Indices: 1711437--1711467 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1711427 ACCTAATTGT
*
1711437 TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1711468 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1711815 original size:46 final size:43
Alignment explanation
Indices: 1711758--1711902 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
1711748 ATGACATAGT
* *
1711758 TCCTACATGATGAGGACGGCTGGTAATCTAAGGTTGACGTGGCGGA
1 TCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACGT---GGA
* * * * *
1711804 TCCTACGTGATGAGGA-GATCTGGTTA-GT--GGATGACATGGT
1 TCCTACGTGATGAGGACG-GCTGGTTATCTAAGGTTGACGTGGA
**
1711844 TCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACG-CAA
1 TCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACGTGGA
1711886 CTCCTACGTGATGAGGA
1 -TCCTACGTGATGAGGA
1711903 GATTTGGTTG
Statistics
Matches: 79, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
40 25 0.32
41 2 0.03
43 29 0.37
45 2 0.03
46 21 0.27
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.26
Consensus pattern (43 bp):
TCCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGACGTGGA
Found at i:1711859 original size:40 final size:40
Alignment explanation
Indices: 1711804--1711942 Score: 136
Period size: 40 Copynumber: 3.4 Consensus size: 40
1711794 ACGTGGCGGA
*
1711804 TCCTACGTGATGAGGAGATCTGGTTAGTGGATGACATGGT
1 TCCTACGTGATGAGGAGATCTGGTTAGTGGATGACACGGT
* * * * ***
1711844 TCCTACGTGATGAGGACG-GCTGGTTATCTAAGGTTGACGCAAC
1 TCCTACGTGATGAGGA-GATCTGGTTA-GT--GGATGACACGGT
* *
1711887 TCCTACGTGATGAGGAGATTTGGTTGGTGGATGACACGGT
1 TCCTACGTGATGAGGAGATCTGGTTAGTGGATGACACGGT
*
1711927 TCCTACGTTATGAGGA
1 TCCTACGTGATGAGGA
1711943 TGGTTGGTCA
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
40 45 0.59
41 2 0.03
42 2 0.03
43 27 0.36
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.29
Consensus pattern (40 bp):
TCCTACGTGATGAGGAGATCTGGTTAGTGGATGACACGGT
Found at i:1711928 original size:83 final size:83
Alignment explanation
Indices: 1711695--1711942 Score: 309
Period size: 86 Copynumber: 3.0 Consensus size: 83
1711685 TGAGAAAATA
* * ** * * * * *
1711695 TGGTTATCTAAGGGTGACACTGCTCCTATGCGATGAGGAGATCTGGTCGGTTGATGACATAGTTC
1 TGGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATGGTTC
*
1711760 CTACATGATGAGGACGGC
66 CTACGTGATGAGGACGGC
* * *
1711778 TGGTAATCTAAGGTTGACGTGGCGGA-TCCTACGTGATGAGGAGATCTGGTTAGTGGATGACATG
1 TGGTTATCTAAGGTTGAC---GC-AACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATG
1711842 GTTCCTACGTGATGAGGACGGC
62 GTTCCTACGTGATGAGGACGGC
* *
1711864 TGGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATTTGGTTGGTGGATGACACGGTTC
1 TGGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATGGTTC
*
1711929 CTACGTTATGAGGA
66 CTACGTGATGAGGA
1711943 TGGTTGGTCA
Statistics
Matches: 142, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
82 1 0.01
83 70 0.49
86 71 0.50
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (83 bp):
TGGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACATGGTTC
CTACGTGATGAGGACGGC
Found at i:1712018 original size:36 final size:36
Alignment explanation
Indices: 1711970--1712326 Score: 512
Period size: 36 Copynumber: 10.1 Consensus size: 36
1711960 GGATAATTCT
* *
1711970 TTTCAAGAGAAAC-GATCTCAAGCGAGACAAAATATG
1 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATATG
* *
1712006 TTTCAAGGGAAACTGTTTCAAGAGAGAAAAAATATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
* *
1712042 TTTCAAGGGAAACTGTCTTAAGAGAGAC--AACA--
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
* *
1712074 TTTCAAGGGAAACTGTCTCGAGAGAGAAAAAATATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
*
1712110 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATT
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
*
1712146 TTTCAAGGGAAACTGTCTCAAGATAGAC-AAA-ATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
* *
1712180 TTTCAAGGGAAACTGTCTCGAGAGAGACAAAATATT
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
*
1712216 TTTCAAGGGAAACTGTCTCGAGAGAGACAAAATATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
* *
1712252 TTTCAAGGGAAACTGTCTCGATAGAGACAAAATATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
*
1712288 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATATG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
1712324 TTT
1 TTT
1712327 TGAGTAAAAA
Statistics
Matches: 289, Mismatches: 25, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
32 25 0.09
34 34 0.12
35 6 0.02
36 223 0.77
37 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (36 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATG
Found at i:1712024 original size:15 final size:15
Alignment explanation
Indices: 1712004--1712089 Score: 50
Period size: 15 Copynumber: 5.2 Consensus size: 15
1711994 AGACAAAATA
1712004 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
*
1712019 TGTTTCAAGAGAGAAAAAATA
1 TGTTTCAAG-G-G---AAA-C
1712040 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
1712055 TGTCTT-AAGAGAGACAAC
1 TGT-TTCAAG-G-GA-AAC
*
1712073 -ATTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
1712087 TGT
1 TGT
1712090 CTCGAGAGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 24
0.66 0.05 0.29
Matches are distributed among these distances:
14 3 0.05
15 18 0.33
16 10 0.18
17 7 0.13
18 3 0.05
19 1 0.02
20 4 0.07
21 9 0.16
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (15 bp):
TGTTTCAAGGGAAAC
Found at i:1712220 original size:106 final size:106
Alignment explanation
Indices: 1711970--1712326 Score: 522
Period size: 106 Copynumber: 3.4 Consensus size: 106
1711960 GGATAATTCT
* * * *
1711970 TTTCAAGAGAAAC-GATCTCAAGCGAGACAAAATATGTTTCAAGGGAAACTGTTTCAAGAGAGAA
1 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGAC
* *
1712034 AAAATATGTTTCAAGGGAAACTGTCTTAAGAGAGACAACA--
65 AAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATG
* *
1712074 TTTCAAGGGAAACTGTCTCGAGAGAGAAAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
* *
1712139 AAATATTTTTCAAGGGAAACTGTCTCAAGATAGACAAAATG
66 AAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATG
* * *
1712180 TTTCAAGGGAAACTGTCTCGAGAGAGACAAAATATTTTTCAAGGGAAACTGTCTCGAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
* *
1712245 AAATATGTTTCAAGGGAAACTGTCTCGATAGAGACAAAATATG
66 AAATATGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAA-ATG
*
1712288 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATATGTTT
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATGTTT
1712327 TGAGTAAAAA
Statistics
Matches: 228, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
104 92 0.40
105 1 0.00
106 93 0.41
107 3 0.01
108 39 0.17
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (106 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACA
AAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATG
Found at i:1712556 original size:37 final size:35
Alignment explanation
Indices: 1712465--1712606 Score: 124
Period size: 37 Copynumber: 3.9 Consensus size: 35
1712455 ATCTCAAAGG
*
1712465 AAAAATGTCTCAAGTGAGACAAAATTTGTTTTGAT
1 AAAAATGTCTCAAGCGAGACAAAATTTGTTTTGAT
* * * *
1712500 AGAAATTATCTAAAGCGAGAGAAAATTTGCTTTTAGAT
1 A-AAAATGTCTCAAGCGAGACAAAATTTG-TTTT-GAT
* * * *
1712538 AAAACTGTCTCAAGCGAGACAAAATTTATTTTTAAG
1 AAAAATGTCTCAAGCGAGACAAAATTT-GTTTTGAT
*
1712574 AAAAATTGTCTCTAA-CGAGACAACACTTTGTTT
1 AAAAA-TGTCTC-AAGCGAGACAA-AATTTGTTT
1712607 CGAGAGAAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.01
36 27 0.32
37 47 0.55
38 10 0.12
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (35 bp):
AAAAATGTCTCAAGCGAGACAAAATTTGTTTTGAT
Found at i:1714019 original size:4 final size:4
Alignment explanation
Indices: 1714010--1715940 Score: 3792
Period size: 4 Copynumber: 485.2 Consensus size: 4
1714000 GTATACTTAA
1714010 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714058 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714106 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714154 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714202 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714250 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714298 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714346 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714394 ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714440 ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714486 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714534 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714582 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714630 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714678 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714726 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714774 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714822 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714870 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714918 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1714966 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715014 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715062 ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715108 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715156 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715204 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715252 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715300 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715348 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715394 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715442 ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715488 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715536 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715584 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715632 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715680 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715728 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715776 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715824 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715872 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1715920 ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT A
1715941 TATATATATA
Statistics
Matches: 1917, Mismatches: 0, Indels: 20
0.99 0.00 0.01
Matches are distributed among these distances:
2 10 0.01
4 1907 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:1718012 original size:14 final size:15
Alignment explanation
Indices: 1717986--1718015 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1717976 AAATGAATGC
1717986 TATGCAGAATGCAAA
1 TATGCAGAATGCAAA
1718001 TATGCA-AATGCAAA
1 TATGCAGAATGCAAA
1718015 T
1 T
1718016 GCAAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (15 bp):
TATGCAGAATGCAAA
Found at i:1722032 original size:3 final size:3
Alignment explanation
Indices: 1722024--1722070 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
1722014 AATTAATTGT
*
1722024 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1722071 AAAAAGACTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1724763 original size:12 final size:12
Alignment explanation
Indices: 1724746--1724770 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1724736 CTAACATTTG
1724746 ATCAGTATTGAC
1 ATCAGTATTGAC
1724758 ATCAGTATTGAC
1 ATCAGTATTGAC
1724770 A
1 A
1724771 CTTGACCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATCAGTATTGAC
Found at i:1733176 original size:12 final size:12
Alignment explanation
Indices: 1733135--1733177 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1733125 TCGAAATAAA
1733135 ACTTTTAAAGAT
1 ACTTTTAAAGAT
* *
1733147 ACTATTCAAAGAA
1 ACT-TTTAAAGAT
1733160 ACTTTTAAAGAT
1 ACTTTTAAAGAT
*
1733172 GCTTTT
1 ACTTTT
1733178 TGTCTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (12 bp):
ACTTTTAAAGAT
Found at i:1733675 original size:2 final size:2
Alignment explanation
Indices: 1733668--1733693 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1733658 AAATAAATTA
1733668 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1733694 TCTTTCGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1734317 original size:18 final size:18
Alignment explanation
Indices: 1734294--1734332 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1734284 ATTTTAATAA
1734294 AAAATATATA-AAAATTTT
1 AAAATATA-AGAAAATTTT
*
1734312 AAAATATAAGATAATTTT
1 AAAATATAAGAAAATTTT
1734330 AAA
1 AAA
1734333 TTTTTAACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAATATAAGAAAATTTT
Found at i:1735867 original size:20 final size:20
Alignment explanation
Indices: 1735842--1735891 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1735832 ACATAGTAAA
1735842 TGAAATCCGAATCCGAATTC
1 TGAAATCCGAATCCGAATTC
*
1735862 TGAAATCCGAATCTGAATTC
1 TGAAATCCGAATCCGAATTC
1735882 TGAAATCCGA
1 TGAAATCCGA
1735892 GTTCCCGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (20 bp):
TGAAATCCGAATCCGAATTC
Found at i:1740209 original size:16 final size:16
Alignment explanation
Indices: 1740190--1740224 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1740180 AACTGAAAGC
1740190 AACGCGAACTAAAATT
1 AACGCGAACTAAAATT
* *
1740206 AACGTGAACTAGAATT
1 AACGCGAACTAAAATT
1740222 AAC
1 AAC
1740225 CTAAACTAAA
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:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (16 bp):
AACGCGAACTAAAATT
Found at i:1740231 original size:16 final size:16
Alignment explanation
Indices: 1740196--1740240 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1740186 AAGCAACGCG
* *
1740196 AACTAAAATTAACGTG
1 AACTAAAATTAACCTA
*
1740212 AACTAGAATTAACCTA
1 AACTAAAATTAACCTA
*
1740228 AACTAAAAATAAC
1 AACTAAAATTAAC
1740241 TCAAATTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.22
Consensus pattern (16 bp):
AACTAAAATTAACCTA
Found at i:1741215 original size:24 final size:23
Alignment explanation
Indices: 1741177--1741250 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
1741167 CCCAACCTAA
* *
1741177 AGCCCAACCAGAACCCGACCTGG
1 AGCCCAAACAGAACCCGACCCGG
* *
1741200 AGCCCAAAACATAACCCGACCCAG
1 AGCCC-AAACAGAACCCGACCCGG
*
1741224 AGCCCAAACAGAACCTGACCCGG
1 AGCCCAAACAGAACCCGACCCGG
1741247 AGCC
1 AGCC
1741251 TACCCTAACC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 24 0.56
24 19 0.44
ACGTcount: A:0.35, C:0.42, G:0.19, T:0.04
Consensus pattern (23 bp):
AGCCCAAACAGAACCCGACCCGG
Found at i:1744620 original size:21 final size:20
Alignment explanation
Indices: 1744572--1744623 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1744562 TACTACCCTT
*
1744572 TGAGTATCGATACCCTAGAT
1 TGAGTATCGATACCCTAGAA
* * *
1744592 TCAATATCGATACTCTTAGAA
1 TGAGTATCGATAC-CCTAGAA
1744613 TGAGTATCGAT
1 TGAGTATCGAT
1744624 GCTCGTAGCT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
TGAGTATCGATACCCTAGAA
Found at i:1745176 original size:11 final size:11
Alignment explanation
Indices: 1745157--1745187 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
1745147 TAGTTTCCTT
1745157 AACCCCCATTA
1 AACCCCCATTA
*
1745168 AATCCCCATTA
1 AACCCCCATTA
1745179 AACCCCCAT
1 AACCCCCAT
1745188 ATATGGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (11 bp):
AACCCCCATTA
Found at i:1748110 original size:20 final size:20
Alignment explanation
Indices: 1748085--1748123 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1748075 AAATAGGAAG
1748085 GAAAAGAAAATAAAAAGAAT
1 GAAAAGAAAATAAAAAGAAT
*
1748105 GAAAAGGAAATAAAAAGAA
1 GAAAAGAAAATAAAAAGAA
1748124 GTTGGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (20 bp):
GAAAAGAAAATAAAAAGAAT
Found at i:1750383 original size:16 final size:18
Alignment explanation
Indices: 1750362--1750410 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
1750352 GTAATGAGAT
1750362 ATTTAAATAATAAAA-CA
1 ATTTAAATAATAAAAGCA
1750379 A-TTAAATAAATAAAAGCA
1 ATTTAAAT-AATAAAAGCA
1750397 ATTTAAATAA-AAAA
1 ATTTAAATAATAAAA
1750411 TAAGAGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 6 0.21
17 12 0.41
18 5 0.17
19 6 0.21
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
ATTTAAATAATAAAAGCA
Found at i:1750962 original size:12 final size:11
Alignment explanation
Indices: 1750935--1750971 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
1750925 AACAAAGCTT
1750935 GAAAAATAAAA
1 GAAAAATAAAA
1750946 GAAAAATAAAA
1 GAAAAATAAAA
1750957 GAAAAATGAAAA
1 GAAAAAT-AAAA
1750969 GAA
1 GAA
1750972 CTTGAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (11 bp):
GAAAAATAAAA
Found at i:1755351 original size:12 final size:12
Alignment explanation
Indices: 1755334--1755358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1755324 TTTTGCCCGA
1755334 TAGAAAAAAATT
1 TAGAAAAAAATT
1755346 TAGAAAAAAATT
1 TAGAAAAAAATT
1755358 T
1 T
1755359 CGATCATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (12 bp):
TAGAAAAAAATT
Found at i:1760478 original size:18 final size:19
Alignment explanation
Indices: 1760447--1760493 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1760437 GTAATGAGAT
1760447 ATTTAAAT-AATAAAAACA
1 ATTTAAATAAATAAAAACA
*
1760465 A-TTAAATAAATAAAAGCA
1 ATTTAAATAAATAAAAACA
1760483 ATTTAAATAAA
1 ATTTAAATAAA
1760494 AATAAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
ATTTAAATAAATAAAAACA
Found at i:1763006 original size:23 final size:23
Alignment explanation
Indices: 1762979--1763060 Score: 82
Period size: 23 Copynumber: 3.6 Consensus size: 23
1762969 AAATTGTTTT
1762979 TAAAATAAAAGAGT-AGAATAAAA
1 TAAAATAAAAGA-TAAGAATAAAA
* *
1763002 TAAAA-AATAA-TTAAGCAATTAAA
1 TAAAATAA-AAGATAAG-AATAAAA
*
1763025 T-AAATAAAAGATAAGGATAAAA
1 TAAAATAAAAGATAAGAATAAAA
1763047 TAAAATAAAAGATA
1 TAAAATAAAAGATA
1763061 GAGAGAATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
21 1 0.02
22 15 0.31
23 32 0.67
ACGTcount: A:0.68, C:0.01, G:0.10, T:0.21
Consensus pattern (23 bp):
TAAAATAAAAGATAAGAATAAAA
Found at i:1763050 original size:22 final size:26
Alignment explanation
Indices: 1763021--1763080 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 26
1763011 ATTAAGCAAT
1763021 TAAATAAATAAAAGATA-AG-G-ATA
1 TAAATAAATAAAAGATAGAGAGAATA
1763044 -AAATAAAATAAAAGATAGAGAGAATA
1 TAAAT-AAATAAAAGATAGAGAGAATA
1763070 TAAATAAATAA
1 TAAATAAATAA
1763081 TTAAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.12
23 12 0.38
24 2 0.06
25 1 0.03
26 9 0.28
27 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (26 bp):
TAAATAAATAAAAGATAGAGAGAATA
Found at i:1766574 original size:2 final size:2
Alignment explanation
Indices: 1766569--1766659 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
1766559 TACGATTTAG
1766569 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1766611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1766653 AT AT AT A
1 AT AT AT A
1766660 GGTTTAGATC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1776423 original size:201 final size:199
Alignment explanation
Indices: 1775746--1777116 Score: 1512
Period size: 201 Copynumber: 6.8 Consensus size: 199
1775736 CATTATTTAC
* * *
1775746 AAGTATCGACACAA-A-TCTAAAACATGTCGATACATTATGT-TCACCTATTTTCTCATAATATC
1 AAGTATCGACACAACATTC-AAAA-GTGTCGATACATTATGTAT-ACCTATTTTCTCATAAAACC
* * * * *
1775808 GGTACATTTATACCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTTGATGTTT
63 GGTATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTTGATGTTT
* * *
1775873 TTGGGATCGATACTTTTTACAAAATGTATCGACACTTTATTTGTGCAATCCTTTT-GGCATTCAT
128 TTGGGATCGATACTTTTTA-AAAATGTATCGACACTTTA-TGGTTC-ACCCTTTTGGGCATTCAT
*
1775937 TTTGGA-AAA
190 TCTGGACAAA
* * ** *
1775946 AATGTATCGACACAA-A-TCTAAAACGTGTCGATACATTACGT-TCACCTATATTAACATAAAAT
1 AA-GTATCGACACAACATTC-AAAA-GTGTCGATACATTATGTAT-ACCTATTTTCTCATAAAAC
* * * * *
1776008 GGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGG-TTCGATGT
62 CGGTATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTAT-GGGTTTTGATGT
* * * *
1776072 TTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTTTACCCTTTTGGGCATTCAT
126 TTTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTA-TGGTTCACCCTTTTGGGCATTCAT
* *
1776137 TTTGGGCAAA
190 TCTGGACAAA
* * * * *
1776147 AAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACTGGT
1 AAGTATCGACACAACATTCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
* * * * * *
1776212 ATATTTATACCAGTTATATTACAAAATTATCTATTACATTATATTTATGGGTTTTGATGTTTTAG
66 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
** * * * * * *
1776277 GGATTAATACTTTTTAAAAATATATCGACACGTTATAGGTGCACCCTTTTTGG-ATTTTCCTTGT
131 GGATCGATACTTTTTAAAAATGTATCGACACTTTAT-GGTTCACCCTTTTGGGCA--TTCATTCT
1776341 GGACAAA
193 GGACAAA
* * * * *
1776348 AAGTATCGACACAA-GTTCCACAAGTGTTGATACATTATGTATATCTATTTTCTCAAAAAACCGG
1 AAGTATCGACACAACATT-CAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGG
*
1776412 TTTATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTAT-GGTTTTCGATGTTTT
65 TATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTT-GATGTTTT
* * *
1776476 TGGGATCGATACTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTC
129 TGGGATCGATAC-TTTTTAAAAATGTATCGACACTTTATG-GTTCACCCTTTTGGGCATTCATTC
1776541 TGGACAAA
192 TGGACAAA
* * *
1776549 AAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTATATCTATTTTCTCAAAAAACCGGT
1 AAGTATCGACACAACATTCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
* *
1776614 TTATTTATACCAGTTACATTATAAATTTACCTATCACATTATAATTAT-GGTTTTCGATGTTTTT
66 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTT-GATGTTTTT
* * *
1776678 GGGATCGATACTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCT
130 GGGATCGATAC-TTTTTAAAAATGTATCGACACTTTATG-GTTCACCCTTTTGGGCATTCATTCT
*
1776743 GGAAAAA
193 GGACAAA
* * * *
1776750 AAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTATACCAATTCTCACATAAAACCGGT
1 AAGTATCGACACAACATTCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
* * * * * *
1776815 ATATTTATA-CAGGTTATATTACAAAATTGCCTATTACATTATAATTATGAGTTTCGATGTTTTT
66 ATATTTATACCA-GTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTT
* * * * * * * *
1776879 GGGATCGATATTTTTTAAACATATATTGACTCTTTATGGGTACACCTTTTTGGGCATTCCTTCTG
130 GGGATCGATACTTTTTAAAAATGTATCGACACTTTAT-GGTTCACCCTTTTGGGCATTCATTCTG
1776944 GACAAA
194 GACAAA
* * * * * * **
1776950 TAGTATCGACACAA-ATCCAAAAGTATCGATACATTATGTAGACTTATTCTCTCATAAAACCAAT
1 AAGTATCGACACAACATTCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
* * * * * * *
1777014 TTAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGGATTTCGATGTTTCTG
66 ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
* * *
1777079 GGATCAATACTTTTTAAAACTGTATCGACACGTTATGG
131 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGG
1777117 GAAACTTTAT
Statistics
Matches: 1014, Mismatches: 136, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
198 2 0.00
199 131 0.13
200 249 0.25
201 587 0.58
202 44 0.04
203 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAGTATCGACACAACATTCAAAAGTGTCGATACATTATGTATACCTATTTTCTCATAAAACCGGT
ATATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTTGATGTTTTTG
GGATCGATACTTTTTAAAAATGTATCGACACTTTATGGTTCACCCTTTTGGGCATTCATTCTGGA
CAAA
Found at i:1776929 original size:602 final size:597
Alignment explanation
Indices: 1775746--1777109 Score: 1787
Period size: 602 Copynumber: 2.3 Consensus size: 597
1775736 CATTATTTAC
* * * * *
1775746 AAGTATCGACACAAATCTAAAACATGTCGATACATTATGT-TCACCTATTTTCTCATAATATCGG
1 AAGTATCGACACAAATCCAAAA-GTATCGATACATTATGTAT-A-CTATTTTCTCATAAAACCGG
** * *
1775810 TACATTTATACCGGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTT-GATGTTTT
63 TTTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTAT-GGTTTTCGATGTTTT
* ** *
1775874 TGGGATCGATACTTTTTACAAAATGTATCGACACTTTATTTGTGCAATCCTTTTGGCATTCATTT
127 TGGGATCGATACTTTTT--AAAATGTATCGACACTCTATGCGTGCAATCCTTTTGGCATTCATTC
* *
1775939 TGGAAAAAATGTATCGACACAAATCTAAAACGTGTCGATACATTACGTTCACCTATATTAACATA
190 TGGAAAAAATGTATCGACACAAATCTAAAACGTGTCGACACATTACGTTCACCTATATTAACAAA
** * * *
1776004 AAATGGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGGTTCGA
255 AAACCGGTATATTTATACCAGTTACATTATAAATTTACCTATCACATTATAATTAT-AGGTTCGA
* * * *
1776069 TGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTTTACCCTTTTGGGCATT
319 TGTTTTTGGGATCGATACGTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATT
* ** *
1776134 CATTTTGGGCAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTC
384 CATTCTGGAAAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCAATTCTC
* * * *
1776199 ACATAAAACTGGTATATTTATACCAGTTATATTACAAAATTATCTATTACATTATATTTATGGGT
449 ACATAAAACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGAGT
* * *
1776264 TTTGATGTTTTAGGGATTAATACTTTTTAAAAATATATCGACACGTTATAGGTGCACCCTTTTTG
514 TTCGATGTTTTAGGGATCAATACTTTTTAAAAATATATCGACACGTTATAGGTACACCCTTTTTG
** *
1776329 GATTTTCCTTGTGGACAAA
579 GACATTCCTTCTGGACAAA
* * * * *
1776348 AAGTATCGACACAAGTTCCACAAGTGTTGATACATTATGTATATCTATTTTCTCAAAAAACCGGT
1 AAGTATCGACACAA-ATCCAAAAGTATCGATACATTATGTATA-CTATTTTCTCATAAAACCGGT
*
1776413 TTATTTATACCAGTTACATTATAAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTG
64 TTATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTG
*
1776478 GGATCGATACTTTTTTATAAATGTATCGACACTCTATGCGTTC-A-CCATTTTGGGCATTCATTC
129 GGATCGATAC-TTTTTA-AAATGTATCGACACTCTATGCGTGCAATCC-TTTT-GGCATTCATTC
* * * **
1776541 TGGACAAAAA-GTATCGACACAACAT-TCAAAA-GTGTCGACACATTATGTAT-ATCTATTTTCT
190 TGGA-AAAAATGTATCGACACAA-ATCT-AAAACGTGTCGACACATTACGT-TCACCTATATTAA
*
1776602 CAAAAAACCGGTTTATTTATACCAGTTACATTATAAATTTACCTATCACATTATAATTAT-GGTT
251 CAAAAAACCGGTATATTTATACCAGTTACATTATAAATTTACCTATCACATTATAATTATAGG--
*
1776666 TTCGATGTTTTTGGGATCGATACTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTG
314 TTCGATGTTTTTGGGATCGATAC-GTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTG
*
1776731 GGCATTCATTCTGGAAAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTATACCA
378 GGCATTCATTCTGGAAAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCA
*
1776796 ATTCTCACATAAAACCGGTATATTTATA-CAGGTTATATTACAAAATTGCCTATTACATTATAAT
443 ATTCTCACATAAAACCGGTATATTTATACCA-GTTATATTACAAAATTACCTATTACATTATAAT
* * * * * * * *
1776860 TATGAGTTTCGATGTTTTTGGGATCGATATTTTTTAAACATATATTGACTCTTTATGGGTACA-C
507 TATGAGTTTCGATGTTTTAGGGATCAATACTTTTTAAAAATATATCGACACGTTATAGGTACACC
*
1776924 CTTTTTGGGCATTCCTTCTGGACAAA
572 CTTTTTGGACATTCCTTCTGGACAAA
* * * **
1776950 TAGTATCGACACAAATCCAAAAGTATCGATACATTATGTAGACTTATTCTCTCATAAAACCAATT
1 AAGTATCGACACAAATCCAAAAGTATCGATACATTATGTATAC-TATTTTCTCATAAAACCGGTT
* * * *
1777015 TAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGGATTTCGATGTTTCTGG
65 TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGG
*
1777080 GATCAATACTTTTTAAAACTGTATCGACAC
130 GATCGATACTTTTTAAAA-TGTATCGACAC
1777110 GTTATGGGAA
Statistics
Matches: 667, Mismatches: 78, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
599 3 0.00
600 22 0.03
601 120 0.18
602 295 0.44
603 227 0.34
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (597 bp):
AAGTATCGACACAAATCCAAAAGTATCGATACATTATGTATACTATTTTCTCATAAAACCGGTTT
ATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGG
ATCGATACTTTTTAAAATGTATCGACACTCTATGCGTGCAATCCTTTTGGCATTCATTCTGGAAA
AAATGTATCGACACAAATCTAAAACGTGTCGACACATTACGTTCACCTATATTAACAAAAAACCG
GTATATTTATACCAGTTACATTATAAATTTACCTATCACATTATAATTATAGGTTCGATGTTTTT
GGGATCGATACGTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTG
GAAAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCAATTCTCACATAAA
ACCGGTATATTTATACCAGTTATATTACAAAATTACCTATTACATTATAATTATGAGTTTCGATG
TTTTAGGGATCAATACTTTTTAAAAATATATCGACACGTTATAGGTACACCCTTTTTGGACATTC
CTTCTGGACAAA
Found at i:1779068 original size:24 final size:25
Alignment explanation
Indices: 1779033--1779079 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1779023 CTTCCAACCG
*
1779033 ACTTTTTCAATAAA-ATCATATCCC
1 ACTTTTTCAATAAATAACATATCCC
*
1779057 ACTTTTTTAATAAATAACATATC
1 ACTTTTTCAATAAATAACATATC
1779080 AATCTTGCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (25 bp):
ACTTTTTCAATAAATAACATATCCC
Found at i:1780491 original size:200 final size:200
Alignment explanation
Indices: 1780162--1781300 Score: 1355
Period size: 200 Copynumber: 5.7 Consensus size: 200
1780152 ATTTAACAAT
* * *
1780162 TGTTGATACTTTATG-ATGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGGA
1 TGTTGATACATTATGTA-GACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAA
* * * *
1780226 AATTTACGTATTACATTACAATTATCGGTTTCGATGTTTTTGGGATCGACACTTTTTAA-AAATG
65 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACAC-TTTTAATAAATG
* * *
1780290 TATCGACACTTTATGCGTGCAACCCTTTT-GGTATTCATTCTGGACAAAAAGTATCGACACAAAT
129 TATCAACACTTTATGCGTGC-ACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAAT
* *
1780354 TCCACAAG
193 TACAAAAG
* * * * *
1780362 TGTCGATACATGT-TGTAGACCTATTCTCTCATAAAACTGGTATAGTTATACCAGTTACATTGTA
1 TGTTGATACAT-TATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAA
* * * * * * *
1780426 AATTTATCTATTACATTATATTTATGGGTTTCGATGTTTCTGGTATTGACACTTTCAATAAATGT
65 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGT
* * * *
1780491 ATCAACACTTTATGCGTTCATCATTTTGCGCATTCATTCTGGACAAAAGGTATCGACACAAAATA
130 ATCAACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACAC-AAAT-
* *
1780556 AAAAAAAAG
193 -TACAAAAG
* ** * *
1780565 TGTTGATACATTATGTAGACCTATTCTCACATAAAACATGTATATTTATAACGGTTATATT-AAA
1 TGTTGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAA
** *
1780629 AATTACCTATTACATTATAATTATTAGTTTCGATGTTTTTGGGATCGACACTTTTTATAAATGTA
66 AATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTA
* * * * *
1780694 TCGACACTTAATG-GTGCAACCTTTTTGGGCATTCATTTTGGACCAAAAGTATCGACACAAATTA
131 TCAACACTTTATGCGTGC-ACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTA
*
1780758 CACAAG
195 CAAAAG
* * * *
1780764 TGTTGATATA-TATTTTAGACCTATTCTCTCATAAAACCGGTATATGTATACCAGTTACATTGAA
1 TGTTGATACATTA-TGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAA
* * * * * *
1780828 AAATTACCTACTAAATTATAATTATGGGTTTCGATGTTTCTGGGATCGATATTTGTTTATAAATG
65 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTT-TTAATAAATG
* * * * *
1780893 TATCGACACTTTTTGCGTGCACCCTTTTGGGCATTCCTTCTGGACAAACAGTATCGACACAAATT
129 TATCAACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATT
* *
1780958 CCAGAAG
194 ACAAAAG
* * * *
1780965 TGTTGATACATTATGTAGACATATTCTCTCATAAAACCGGTTTAGTTATACCGGTTACATTGTAA
1 TGTTGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAA
* * *
1781030 ATTTACCTATTATATTATATTTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTA
66 AATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTA
* * * * * *
1781095 TCAACACTTTATGTGTTCATCATTTTGGGCATTAATTCTGGACAAAAAGTATCGACACATTATGA
131 TCAACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACA-AATTA
1781160 -AAAAG
195 CAAAAG
* * * * *
1781165 TGTCGATACATTATGTATACCTATTCTCACATAAAACCGGTATATTTATATCGGTTATATT-ACA
1 TGTTGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGA-A
* *
1781229 AAATTACCTATTACATTATAATTATGGGTTTCGATG-TTTTCGGA-CTGACACTTTTTATAAATG
65 AAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATC-GACACTTTTAATAAATG
1781292 TATCAACAC
129 TATCAACAC
1781301 ATATGCTTAC
Statistics
Matches: 796, Mismatches: 126, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
198 3 0.00
199 97 0.12
200 349 0.44
201 183 0.23
202 109 0.14
203 55 0.07
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (200 bp):
TGTTGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAA
AATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTAATAAATGTA
TCAACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAATTAC
AAAAG
Found at i:1781164 original size:21 final size:21
Alignment explanation
Indices: 1781138--1781179 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1781128 AATTCTGGAC
1781138 AAAAAGTATCGACACATTATG
1 AAAAAGTATCGACACATTATG
* *
1781159 AAAAAGTGTCGATACATTATG
1 AAAAAGTATCGACACATTATG
1781180 TATACCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAAGTATCGACACATTATG
Found at i:1781675 original size:19 final size:19
Alignment explanation
Indices: 1781651--1781699 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1781641 TTACATCCAC
1781651 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1781670 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1781689 ATACAAAATTA
1 ATACAAAATTA
1781700 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1783197 original size:22 final size:18
Alignment explanation
Indices: 1783152--1783208 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
1783142 TCCTCCTCAT
1783152 TTCCTCTCTCTTTTCTTC
1 TTCCTCTCTCTTTTCTTC
1783170 TTCCTCTCTCTTTTCTTC
1 TTCCTCTCTCTTTTCTTC
*
1783188 TTCCTCCCTCTTTTCTTC
1 TTCCTCTCTCTTTTCTTC
1783206 TTC
1 TTC
1783209 ATATTTTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCCTCTCTCTTTTCTTC
Found at i:1783284 original size:41 final size:42
Alignment explanation
Indices: 1783237--1783322 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
1783227 GTATTTTTGC
1783237 TCTACATAGCTCTTCATCTC-TTTATTTCACCCTTCAATTTT
1 TCTACATAGCTCTTCATCTCTTTTATTTCACCCTTCAATTTT
1783278 TCTACATAGCTCTTCATCTCTTTTATTTCACCCTTCAATTTT
1 TCTACATAGCTCTTCATCTCTTTTATTTCACCCTTCAATTTT
1783320 TCT
1 TCT
1783323 CCTTTATCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.19, C:0.29, G:0.02, T:0.50
Consensus pattern (42 bp):
TCTACATAGCTCTTCATCTCTTTTATTTCACCCTTCAATTTT
Found at i:1783313 original size:21 final size:21
Alignment explanation
Indices: 1783248--1783314 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1783238 CTACATAGCT
1783248 CTTCATCTC-TTTATTTCACC
1 CTTCATCTCTTTTATTTCACC
** *
1783268 CTTCAAT-T-TTTCTACAT-AGCT
1 CTTC-ATCTCTTT-TATTTCA-CC
1783289 CTTCATCTCTTTTATTTCACC
1 CTTCATCTCTTTTATTTCACC
1783310 CTTCA
1 CTTCA
1783315 ATTTTTCTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 13
0.64 0.11 0.25
Matches are distributed among these distances:
20 10 0.29
21 20 0.59
22 4 0.12
ACGTcount: A:0.18, C:0.31, G:0.01, T:0.49
Consensus pattern (21 bp):
CTTCATCTCTTTTATTTCACC
Found at i:1785334 original size:19 final size:19
Alignment explanation
Indices: 1785306--1785377 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
1785296 CATTTATACA
*
1785306 ACCTAAAATATTATTTTCT
1 ACCTATAATATTATTTTCT
* *
1785325 ACCTATAATATTATATAC-
1 ACCTATAATATTATTTTCT
** *
1785343 AAGTATCCATATCTATTTTCT
1 ACCTAT-AATAT-TATTTTCT
1785364 ACCTATAATATTAT
1 ACCTATAATATTAT
1785378 AAAATCGATC
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
18 4 0.10
19 22 0.56
20 9 0.23
21 4 0.10
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.44
Consensus pattern (19 bp):
ACCTATAATATTATTTTCT
Found at i:1786386 original size:176 final size:176
Alignment explanation
Indices: 1785962--1786442 Score: 641
Period size: 176 Copynumber: 2.7 Consensus size: 176
1785952 TACGCGTACT
* *
1785962 TATTAAAGTATCGACACTTTCAATATGTCCGGTAGCGCTTTACCAGTTTTGTCATTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
* ** *
1786027 ATTTTGTCATATTTTTTTATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATA-TTTTTCCTGTTATA-TGTTGT-GATCGATACATTTTTATAAAGTATCGACA--
*
1786092 TCATAGGCGCTAAAATTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
126 TCATA-GCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * *
1786144 TATTAAAGTATCGACACTTTCAATATATCTGGTCGCTCTATACCGGGTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
* *
1786209 GTTTTGTCATATTTTTACCTGTTATATCGTTGTAGATCGATACATATTTATAAAGTATTGACA-C
66 GTTTTGTCATATTTTT-CCTGTTATAT-GTTGT-GATCGATACATTTTTATAAAGTATCGACATC
* * *
1786273 -T-GCGCTAAAACTGTTTCTCTTTTAAATTCACAATGTGTCGATGCTTA
128 ATAGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
1786320 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
*
1786385 GTTTTGTCATATTTTTCCTATTAT-TG-TG-GATCGATACATTTTTATAAAGTATCGACAT
66 GTTTTGTCATATTTTTCCTGTTATATGTTGTGATCGATACATTTTTATAAAGTATCGACAT
1786443 AAACCGACAA
Statistics
Matches: 266, Mismatches: 30, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
170 27 0.10
172 2 0.01
173 1 0.00
174 1 0.00
175 7 0.03
176 115 0.43
178 1 0.00
179 1 0.00
181 6 0.02
182 105 0.39
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (176 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACCG
GTTTTGTCATATTTTTCCTGTTATATGTTGTGATCGATACATTTTTATAAAGTATCGACATCATA
GCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:1787112 original size:17 final size:18
Alignment explanation
Indices: 1787069--1787115 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
1787059 ATGCAAAATA
1787069 GGTACCGATACTCAAGGG
1 GGTACCGATACTCAAGGG
1787087 GGTACCGATACTCAAGGG
1 GGTACCGATACTCAAGGG
1787105 GGTA-CGATACT
1 GGTACCGATACT
1787116 ACTTTACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.28, C:0.21, G:0.32, T:0.19
Consensus pattern (18 bp):
GGTACCGATACTCAAGGG
Found at i:1787242 original size:21 final size:22
Alignment explanation
Indices: 1787204--1787244 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1787194 TTAAAAATTA
1787204 TAAAGGTAGTACTAATACTCAT
1 TAAAGGTAGTACTAATACTCAT
* *
1787226 TAAAGG-AGTATTGATACTC
1 TAAAGGTAGTACTAATACTC
1787245 CCTGTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (22 bp):
TAAAGGTAGTACTAATACTCAT
Found at i:1787965 original size:14 final size:13
Alignment explanation
Indices: 1787931--1787972 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1787921 GTAATTGGTT
1787931 TTCTGAAAATGAA
1 TTCTGAAAATGAA
* *
1787944 TTATGAAAAAGAA
1 TTCTGAAAATGAA
1787957 TTCTAGAAAATGAA
1 TTCT-GAAAATGAA
1787971 TT
1 TT
1787973 TTGGTGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (13 bp):
TTCTGAAAATGAA
Found at i:1788311 original size:25 final size:25
Alignment explanation
Indices: 1788283--1788330 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1788273 TTAACAACAT
1788283 TTTTAACAT-TATCTTTATATTTAAC
1 TTTTAA-ATATATCTTTATATTTAAC
* *
1788308 TTTTAAATATTTTTTTATATTTA
1 TTTTAAATATATCTTTATATTTA
1788331 GGTTCAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTAAATATATCTTTATATTTAAC
Found at i:1788652 original size:6 final size:6
Alignment explanation
Indices: 1788641--1788687 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
1788631 AAGTTACAAC
1788641 TGTTGA TGTTGA TGTTGA TGTTGA TGTTGA TGTTGA TGTTGA TGTTG
1 TGTTGA TGTTGA TGTTGA TGTTGA TGTTGA TGTTGA TGTTGA TGTTG
1788688 GGGCCGTGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (6 bp):
TGTTGA
Found at i:1788989 original size:35 final size:37
Alignment explanation
Indices: 1788917--1788989 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
1788907 GTTAGAAAAT
* *
1788917 ATTTATATATTTTCTTTAAAAAATTTAAATTCGTAAA
1 ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
*
1788954 ATTTATATATTTT-TTT-ACAAATTTGAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAATTT-AAAATCATAAA
1788989 A
1 A
1788990 ATGTTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 12 0.38
36 7 0.22
37 13 0.41
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTTAAAATCATAAA
Found at i:1802099 original size:28 final size:28
Alignment explanation
Indices: 1802040--1802109 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
1802030 TGTAAAATTT
**
1802040 TAATATATATTTAGATAATTAATGTAAAAAA
1 TAATAT-TATTT--ATAATTAAAATAAAAAA
*
1802071 TAATATTATTTATAATTAAAATAATAAA
1 TAATATTATTTATAATTAAAATAAAAAA
*
1802099 TGATA-TATTTA
1 TAATATTATTTA
1802110 CTCTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.17
28 18 0.51
30 5 0.14
31 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (28 bp):
TAATATTATTTATAATTAAAATAAAAAA
Found at i:1802162 original size:23 final size:23
Alignment explanation
Indices: 1802136--1802181 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1802126 ATTTATCTTT
*
1802136 TAAATTTTATAAAAAATTATATA
1 TAAATTTTATAAAAAAGTATATA
*
1802159 TAAATTTTATTAAAAAGTATATA
1 TAAATTTTATAAAAAAGTATATA
1802182 AATTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAATTTTATAAAAAAGTATATA
Found at i:1802423 original size:20 final size:20
Alignment explanation
Indices: 1802398--1802474 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
1802388 ATCTTATTCC
*
1802398 CTGGTAATCTTACATTTTCA
1 CTGGTAATCTTACATTCTCA
*
1802418 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCTCA
*
1802438 CTGGTAATTTTACATTCTCA
1 CTGGTAATCTTACATTCTCA
1802458 CTGGTAATCTTACATTC
1 CTGGTAATCTTACATTC
1802475 CGTGAACCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCTCA
Found at i:1802631 original size:32 final size:32
Alignment explanation
Indices: 1802589--1802649 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
1802579 TAGTTGACCC
* * *
1802589 GAAAAATATACGCACTCTACTTAACTCGAATT
1 GAAAAATATACACACTCCACCTAACTCGAATT
* *
1802621 GAAAAGTATACACTCTCCACCTAACTCGA
1 GAAAAATATACACACTCCACCTAACTCGA
1802650 TTTGGATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.25
Consensus pattern (32 bp):
GAAAAATATACACACTCCACCTAACTCGAATT
Found at i:1805155 original size:6 final size:6
Alignment explanation
Indices: 1805146--1805182 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
1805136 TGCGATGGTG
1805146 ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA A
1 ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA ATGGGA A
1805183 GAACAAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.49, T:0.16
Consensus pattern (6 bp):
ATGGGA
Found at i:1805577 original size:20 final size:22
Alignment explanation
Indices: 1805544--1805584 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
1805534 CCGGAAATGT
1805544 TAAAAAATATTAATGTTTTAAG
1 TAAAAAATATTAATGTTTTAAG
1805566 TAAAAAA-A-TAATGTTTTAA
1 TAAAAAATATTAATGTTTTAA
1805585 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
TAAAAAATATTAATGTTTTAAG
Found at i:1806717 original size:2 final size:2
Alignment explanation
Indices: 1806710--1806740 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1806700 AATATTCATT
1806710 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1806741 CCATAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1808014 original size:31 final size:31
Alignment explanation
Indices: 1807979--1808048 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
1807969 TAGAGACTTA
* * * *
1807979 GAGGAACAAATTGGTGAGATTGGAGAAATTC
1 GAGGAACAAAGTGGAGACATTGAAGAAATTC
* *
1808010 GAGGACCAAAGTGGAGACATTGAAGAAATTG
1 GAGGAACAAAGTGGAGACATTGAAGAAATTC
1808041 GA-GAACAA
1 GAGGAACAA
1808049 GTTCTGTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.43, C:0.09, G:0.31, T:0.17
Consensus pattern (31 bp):
GAGGAACAAAGTGGAGACATTGAAGAAATTC
Found at i:1816241 original size:72 final size:72
Alignment explanation
Indices: 1816124--1816267 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
1816114 TAATCAACGC
* *
1816124 CGCATGAAACACTAAGATATTAAGCACACGCTTCATAATTCCTTGGAAATTCAAGATGAAATAAC
1 CGCATGAAACACTAAGATATTAAACACACGCTTCATAATGCCTTGGAAATTCAAGATGAAATAAC
1816189 AGTCACA
66 AGTCACA
*
1816196 CGCATGAAGCACTAAGATATTAAACACACGCTTCATAATGCCTTGGAAATTCAAGATGAAATAAC
1 CGCATGAAACACTAAGATATTAAACACACGCTTCATAATGCCTTGGAAATTCAAGATGAAATAAC
1816261 AGTCACA
66 AGTCACA
1816268 TAGAAAAACG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (72 bp):
CGCATGAAACACTAAGATATTAAACACACGCTTCATAATGCCTTGGAAATTCAAGATGAAATAAC
AGTCACA
Found at i:1817669 original size:178 final size:174
Alignment explanation
Indices: 1817296--1817670 Score: 409
Period size: 178 Copynumber: 2.1 Consensus size: 174
1817286 TGTTGTATTA
* * * *
1817296 AAAATCATCTGTAAAT-ATATTGTTTTTTAGTTTATTCAATTTAGGGTAAAATACATAGAGGTCA
1 AAAAT-ATATGTAAATAATATT-TATTTTAGTTTATTCAAGTTAGGGTAAAATACACAGAGGTCA
* *
1817360 CTGAATTATGCTAAAATAATATTTTTAAACCAGTAAACTTTTAAAATCTATAAAATAATAAATTT
64 CTAAATTATGCTAAAATAATATTTTTAAACCAATAAACTTTTAAAATCTATAAAATAATAAATTT
*
1817425 ATAAAATTATTACAAAATAATCTCTATATATTATAAAAATCATCTG
129 ATAAAATTATTACAAAATAATCTCTATATATTATAAAAATCATATG
* * * *
1817471 AAAATATATGTAATTAATATTTATTTTATTTTATTTAAGTTAGGGTAAAATACAACAGAGGTCAT
1 AAAATATATGTAAATAATATTTATTTTAGTTTATTCAAGTTAGGGTAAAATAC-ACAGAGGTCAC
* * ** * * *
1817536 TAAATTATGTTAAAATGATATTTTT-GTCTAATAAAC-TTTCAATTCTTATAAAATAGTCATTAA
65 TAAATTATGCTAAAATAATATTTTTAAACCAATAAACTTTTAAAATC-TATAAAATA---A-TAA
* * **
1817599 ATTTATCAAATTATTATAAAATGGTC-CTTATATATTATAAAAATCATATG
125 ATTTATAAAATTATTACAAAATAATCTC-TATATATTATAAAAATCATATG
* *
1817649 GAATTATAT-TAAAATAATATTT
1 AAAATATATGT-AAATAATATTT
1817671 TTTACTAGTA
Statistics
Matches: 166, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
173 7 0.04
174 52 0.31
175 41 0.25
177 3 0.02
178 63 0.38
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (174 bp):
AAAATATATGTAAATAATATTTATTTTAGTTTATTCAAGTTAGGGTAAAATACACAGAGGTCACT
AAATTATGCTAAAATAATATTTTTAAACCAATAAACTTTTAAAATCTATAAAATAATAAATTTAT
AAAATTATTACAAAATAATCTCTATATATTATAAAAATCATATG
Found at i:1827891 original size:2 final size:2
Alignment explanation
Indices: 1827886--1827911 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1827876 TTAAAAAAAG
1827886 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1827912 TATTTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1829040 original size:39 final size:42
Alignment explanation
Indices: 1828943--1829051 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 42
1828933 GCCATACATC
* * *
1828943 TGCTGAGGATACATCGAACCCATCTGGCCTGCCACTGGCATT
1 TGCTGAGGATTCATTGAACCCATCTGGCCTGCCACTGGCACT
* *
1828985 TGCTGTGTATAT-ATTGAACCCATCTGGTCC-G-C-C-GGCACT
1 TGCTGAGGAT-TCATTGAACCCATCTGG-CCTGCCACTGGCACT
1829024 TGCTGAGGATTCATTGAACCCATCTGGC
1 TGCTGAGGATTCATTGAACCCATCTGGC
1829052 ATTTTCCGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
38 2 0.04
39 28 0.49
40 1 0.02
41 1 0.02
42 23 0.40
43 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (42 bp):
TGCTGAGGATTCATTGAACCCATCTGGCCTGCCACTGGCACT
Found at i:1833578 original size:20 final size:20
Alignment explanation
Indices: 1833550--1833588 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1833540 TATTTATCAA
**
1833550 ACACATCGATGAAAGAAATT
1 ACACATCGAACAAAGAAATT
*
1833570 ACACGTCGAACAAAGAAAT
1 ACACATCGAACAAAGAAAT
1833589 AAAAAGCAAA
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:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (20 bp):
ACACATCGAACAAAGAAATT
Found at i:1835665 original size:13 final size:13
Alignment explanation
Indices: 1835647--1835676 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1835637 TAAGTAGTAG
1835647 ATCTTTTTCAATT
1 ATCTTTTTCAATT
1835660 ATCTTTTTCAATT
1 ATCTTTTTCAATT
1835673 ATCT
1 ATCT
1835677 GGGAGGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (13 bp):
ATCTTTTTCAATT
Found at i:1837703 original size:19 final size:20
Alignment explanation
Indices: 1837674--1837711 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1837664 CAGAATGTTT
1837674 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
1837694 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
1837712 TAATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:1837746 original size:63 final size:62
Alignment explanation
Indices: 1837679--1837837 Score: 221
Period size: 63 Copynumber: 2.5 Consensus size: 62
1837669 TGTTTTGAAG
* * * *
1837679 GTGCATCGATGCATATGAAGTGCATCGATGCATTAATTTATAAAA-AAACATCGAATGTCGTCA
1 GTGCATCGATGCATAAG-AGTGCATCGATGCATTAA-TAATAAAATAAACATCGAATGCCCTCA
* *
1837742 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTATAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAA-GAGTGCATCGATGCATTAATAATAAAATAAACATCGAATGCCCTCA
1837805 GTGCATCGATGCATCAAGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AAGAGTGCATCGATGCAT
1837838 GCCTCCATTA
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
62 7 0.08
63 77 0.89
64 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAAGAGTGCATCGATGCATTAATAATAAAATAAACATCGAATGCCCTCA
Found at i:1838488 original size:149 final size:151
Alignment explanation
Indices: 1838293--1838598 Score: 553
Period size: 149 Copynumber: 2.0 Consensus size: 151
1838283 GGGTAGAGGG
*
1838293 TCTACGCGGTCCTTCGGGATATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGGATATATATATATATTAGGTGGAACATGTGTGAAGTCTTGTAAGACAC
*
1838358 ATACTTGATCCCTAGTATATGTAAATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTAT
66 ATACTTGATCCCTAGTATATGTAAATGATTCTTAAGGAATGATATGTGGTCCTTATAGACATTAT
1838423 TATATGGCACTACGGTGCAAT
131 TATATGGCACTACGGTGCAAT
*
1838444 TCTACGCGGTCCTT-TGGA-ATATATATATATTAGGTGGAACATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGGATATATATATATATTAGGTGGAACATGTGTGAAGTCTTGTAAGACAC
* *
1838507 ATACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATAGACATTAT
66 ATACTTGATCCCTAGTATATGTAAATGATTCTTAAGGAATGATATGTGGTCCTTATAGACATTAT
1838572 TATATGGCACTACGGTGCAAT
131 TATATGGCACTACGGTGCAAT
1838593 TCTACG
1 TCTACG
1838599 TGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 133 0.89
150 3 0.02
151 14 0.09
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (151 bp):
TCTACGCGGTCCTTCGGGATATATATATATATTAGGTGGAACATGTGTGAAGTCTTGTAAGACAC
ATACTTGATCCCTAGTATATGTAAATGATTCTTAAGGAATGATATGTGGTCCTTATAGACATTAT
TATATGGCACTACGGTGCAAT
Found at i:1838610 original size:23 final size:23
Alignment explanation
Indices: 1838576--1838621 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1838566 CATTATTATA
*
1838576 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
* *
1838599 TGGCACTTCGGTGTAATTATACG
1 TGGCACTACGGTGCAATTATACG
1838622 AGCTATGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:1844911 original size:18 final size:20
Alignment explanation
Indices: 1844871--1844924 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
1844861 TGGATGTAGC
*
1844871 AGGAT-CATGGATGCACAAA
1 AGGATGCATCGATGCACAAA
1844890 AGGATGC-TCGATGCAC-AA
1 AGGATGCATCGATGCACAAA
1844908 AGGATGCATCGATGCAC
1 AGGATGCATCGATGCAC
1844925 TAATTGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 9 0.28
19 22 0.69
20 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (20 bp):
AGGATGCATCGATGCACAAA
Found at i:1844969 original size:20 final size:20
Alignment explanation
Indices: 1844945--1845042 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 20
1844935 CGGTGTTAGA
**
1844945 GTGCATGGATGCACTGCATA
1 GTGCATGGATGCACTGCAGG
1844965 GTGCATGGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
*
1844987 GTGCATGGATACACTGCAGG
1 GTGCATGGATGCACTGCAGG
1845007 GATGCATGGATGCACTGCAGG
1 G-TGCATGGATGCACTGCAGG
*
1845028 GTGAATGGATGCACT
1 GTGCATGGATGCACT
1845043 TTGACACCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
19 4 0.06
20 29 0.42
21 19 0.28
22 13 0.19
23 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:1845141 original size:28 final size:28
Alignment explanation
Indices: 1845110--1845176 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
1845100 TAAACCTTTT
1845110 AAAAC-TTTGAATAATTCAATT-AAGTCCA
1 AAAACATTTGAA-AATTC-ATTCAAGTCCA
*
1845138 AAAACATTTGTAAATTCATTCAAGTCCA
1 AAAACATTTGAAAATTCATTCAAGTCCA
1845166 AAAACCATTTG
1 AAAA-CATTTG
1845177 CCTTAAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 3 0.09
28 21 0.60
29 11 0.31
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAACATTTGAAAATTCATTCAAGTCCA
Found at i:1845185 original size:32 final size:28
Alignment explanation
Indices: 1845122--1845176 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
1845112 AACTTTGAAT
1845122 AATTCAATTAAGTCCAAAAACATTTGTA
1 AATTCAATTAAGTCCAAAAACATTTGTA
1845150 AATTC-ATTCAAGTCCAAAAACCATTTG
1 AATTCAATT-AAGTCCAAAAA-CATTTG
1845177 CCTTAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 3 0.12
28 16 0.64
29 6 0.24
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (28 bp):
AATTCAATTAAGTCCAAAAACATTTGTA
Found at i:1846249 original size:20 final size:20
Alignment explanation
Indices: 1846227--1846293 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
1846217 TTCGTGTATG
*
1846227 GATGCACAGCAGGATGCATG
1 GATGCACAGCAGGATGCATC
* *
1846247 GATGCACAACAAGATGCATC
1 GATGCACAGCAGGATGCATC
*
1846267 GATGCACAGAAGGATGCATC
1 GATGCACAGCAGGATGCATC
1846287 GATGCAC
1 GATGCAC
1846294 TAATTGCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.28, T:0.15
Consensus pattern (20 bp):
GATGCACAGCAGGATGCATC
Found at i:1846383 original size:21 final size:20
Alignment explanation
Indices: 1846314--1846412 Score: 119
Period size: 21 Copynumber: 4.8 Consensus size: 20
1846304 CAGTGTTTGA
**
1846314 GTGCATGGATGCACTGCATA
1 GTGCATGGATGCACTGCAGG
1846334 GTGCATGGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
1846356 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
1846376 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
*
1846398 GTGAATGGATGCACT
1 GTGCATGGATGCACT
1846413 TTGACACCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
19 4 0.06
20 16 0.23
21 30 0.42
22 17 0.24
23 4 0.06
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:1846513 original size:29 final size:29
Alignment explanation
Indices: 1846492--1846549 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
1846482 AAACTTTGAA
*
1846492 TAAATTCAATT-AAGTCTAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
1846521 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
1846550 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:1846543 original size:30 final size:30
Alignment explanation
Indices: 1846492--1846551 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
1846482 AAACTTTGAA
*
1846492 TAAATTCAATTAAGTCTAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
1846521 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1846552 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1847870 original size:19 final size:20
Alignment explanation
Indices: 1847827--1847874 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1847817 TCTAAATCCT
*
1847827 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1847847 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1847866 TTTTCAAAA
1 TTTTCAAAA
1847875 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1849179 original size:20 final size:20
Alignment explanation
Indices: 1849150--1849223 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1849140 GCAGCCTTCG
*
1849150 TGCATGGATGCACAGTAGGA
1 TGCATCGATGCACAGTAGGA
*
1849170 TGCATCGATGCACAGCCT-TGA
1 TGCATCGATGCACAG--TAGGA
*
1849191 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGTAGGA
1849211 TGCATCGATGCAC
1 TGCATCGATGCAC
1849224 TAATTGCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 29 0.62
21 17 0.36
22 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAGTAGGA
Found at i:1849201 original size:41 final size:41
Alignment explanation
Indices: 1849141--1849223 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
1849131 CTAGCCGTTG
* *
1849141 CAGCCTTCGTGCATGGATGCACAGTAGGATGCATCGATGCA
1 CAGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCA
1849182 CAGCCTT-GATGCATCGATGCACAGAAGGATGCATCGATGCA
1 CAGCCTTCG-TGCATCGATGCACAGAAGGATGCATCGATGCA
1849223 C
1 C
1849224 TAATTGCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (41 bp):
CAGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:1849297 original size:22 final size:20
Alignment explanation
Indices: 1849244--1849346 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 20
1849234 CGGTGTTAGA
1849244 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCATG
* **
1849264 GTG-ATCGATGCACTAGTGTAG
1 GTGCATGGATGCACT-GCAT-G
*
1849285 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCATG
*
1849305 GATGCACTGCAGGGATGCACTGCAGGG
1 G-TGCA-T----GGATGCACTGCA-TG
1849332 GTGCATGGATGCACT
1 GTGCATGGATGCACT
1849347 TTGACACCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
19 10 0.15
20 7 0.11
21 18 0.27
22 11 0.17
25 1 0.02
26 16 0.24
27 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCATG
Found at i:1849307 original size:13 final size:13
Alignment explanation
Indices: 1849286--1849336 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
1849276 CTAGTGTAGG
*
1849286 TGCATGGATGCAC
1 TGCAGGGATGCAC
1849299 TGCAGGGATGCAC
1 TGCAGGGATGCAC
1849312 TGCAGGGATGCAC
1 TGCAGGGATGCAC
*
1849325 TGCAGGGGTGCA
1 TGCAGGGATGCA
1849337 TGGATGCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.18
Consensus pattern (13 bp):
TGCAGGGATGCAC
Found at i:1849473 original size:30 final size:30
Alignment explanation
Indices: 1849426--1849485 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1849416 AAACTTTGAA
1849426 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
1849455 TAAATTCTATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
1849486 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1850893 original size:19 final size:19
Alignment explanation
Indices: 1850869--1850907 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1850859 AGCTGATAAG
1850869 TTACTAGTCCAACTCTCTT
1 TTACTAGTCCAACTCTCTT
1850888 TTACTAGTCCAACTCTCTT
1 TTACTAGTCCAACTCTCTT
1850907 T
1 T
1850908 ACAATCTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.44
Consensus pattern (19 bp):
TTACTAGTCCAACTCTCTT
Found at i:1854518 original size:7 final size:7
Alignment explanation
Indices: 1854506--1854550 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
1854496 CCTTGCAATG
1854506 AACCCTA
1 AACCCTA
1854513 AACCCTA
1 AACCCTA
1854520 AACCCTA
1 AACCCTA
* *
1854527 ATCCTTA
1 AACCCTA
1854534 AACCCTA
1 AACCCTA
*
1854541 AAACCTA
1 AACCCTA
1854548 AAC
1 AAC
1854551 TATAAATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:1854556 original size:21 final size:21
Alignment explanation
Indices: 1854511--1854556 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1854501 CAATGAACCC
* *
1854511 TAAACCCTAAACCCTAATCCT
1 TAAACCCTAAAACCTAATACT
1854532 TAAACCCTAAAACCTAA-ACT
1 TAAACCCTAAAACCTAATACT
1854552 ATAAA
1 -TAAA
1854557 TTATACTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAAACCTAATACT
Found at i:1854623 original size:7 final size:7
Alignment explanation
Indices: 1854611--1854656 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
1854601 CTTTGCACCT
1854611 TAAACCC
1 TAAACCC
1854618 TAAACCC
1 TAAACCC
*
1854625 TAAACCT
1 TAAACCC
*
1854632 TAAACTC
1 TAAACCC
*
1854639 TAAACCT
1 TAAACCC
*
1854646 TAAAACC
1 TAAACCC
1854653 TAAA
1 TAAA
1854657 TCTAATTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:1854630 original size:14 final size:14
Alignment explanation
Indices: 1854611--1854656 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
1854601 CTTTGCACCT
*
1854611 TAAACCCTAAACCC
1 TAAACCTTAAACCC
*
1854625 TAAACCTTAAACTC
1 TAAACCTTAAACCC
*
1854639 TAAACCTTAAAACC
1 TAAACCTTAAACCC
1854653 TAAA
1 TAAA
1854657 TCTAATTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:1854656 original size:21 final size:21
Alignment explanation
Indices: 1854607--1854661 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1854597 ATGTCTTTGC
*
1854607 ACCTTAAACCCTAAACCCTAA
1 ACCTTAAACTCTAAACCCTAA
*
1854628 ACCTTAAACTCTAAACCTTAAA
1 ACCTTAAACTCTAAACCCT-AA
1854650 ACC-TAAA-TCTAA
1 ACCTTAAACTCTAA
1854662 TTATGTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 5 0.16
21 21 0.68
22 5 0.16
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (21 bp):
ACCTTAAACTCTAAACCCTAA
Found at i:1856282 original size:11 final size:11
Alignment explanation
Indices: 1856266--1856292 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1856256 GCGAGCAATT
1856266 GAGCTTGAATC
1 GAGCTTGAATC
1856277 GAGCTTGAATC
1 GAGCTTGAATC
1856288 GAGCT
1 GAGCT
1856293 GGAGTCTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (11 bp):
GAGCTTGAATC
Found at i:1857717 original size:26 final size:27
Alignment explanation
Indices: 1857675--1857727 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
1857665 CAAATCATTA
*
1857675 TAAATATTAAAATAAT-AATAAAAATT
1 TAAATATCAAAATAATAAATAAAAATT
1857701 TAAATATC-AAATAAATAAAATAAAAAT
1 TAAATATCAAAAT-AAT-AAATAAAAAT
1857728 GAAGGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 10 0.43
28 9 0.39
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (27 bp):
TAAATATCAAAATAATAAATAAAAATT
Done.