Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 3 of 221
Found at i:917816 original size:12 final size:12
Alignment explanation
Indices: 917799--917825 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
917789 AAGAGAAGGA
917799 TGATGATGATGG
1 TGATGATGATGG
917811 TGATGATGATGG
1 TGATGATGATGG
917823 TGA
1 TGA
917826 GGACCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (12 bp):
TGATGATGATGG
Found at i:930195 original size:3 final size:3
Alignment explanation
Indices: 930181--930227 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
930171 TCTTCCTCCG
* *
930181 CCA CCG CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCT CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
930228 TCCGTTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.28, C:0.68, G:0.02, T:0.02
Consensus pattern (3 bp):
CCA
Found at i:930388 original size:9 final size:9
Alignment explanation
Indices: 930349--930391 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
930339 AACTTCTCCA
930349 CTACTACTC
1 CTACTACTC
* *
930358 CTACTCCTA
1 CTACTACTC
*
930367 CTCCTACTC
1 CTACTACTC
*
930376 CTACTACTT
1 CTACTACTC
930385 CTACTAC
1 CTACTAC
930392 CAACAACAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.21, C:0.44, G:0.00, T:0.35
Consensus pattern (9 bp):
CTACTACTC
Found at i:930389 original size:6 final size:6
Alignment explanation
Indices: 930352--930380 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
930342 TTCTCCACTA
930352 CTACTC CTACTC CTACTC CTACTC CTACT
1 CTACTC CTACTC CTACTC CTACTC CTACT
930381 ACTTCTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.34
Consensus pattern (6 bp):
CTACTC
Found at i:930391 original size:12 final size:12
Alignment explanation
Indices: 930344--930391 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
930334 TCAAAAACTT
930344 CTCC-ACTACTA
1 CTCCTACTACTA
*
930355 CTCCTACTCCTA
1 CTCCTACTACTA
*
930367 CTCCTACTCCTA
1 CTCCTACTACTA
* *
930379 CTACTTCTACTA
1 CTCCTACTACTA
930391 C
1 C
930392 CAACAACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 4 0.12
12 28 0.88
ACGTcount: A:0.21, C:0.46, G:0.00, T:0.33
Consensus pattern (12 bp):
CTCCTACTACTA
Found at i:933265 original size:1 final size:1
Alignment explanation
Indices: 933259--933283 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
933249 TTGCATTTGC
933259 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
933284 AAATTGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:941351 original size:3 final size:3
Alignment explanation
Indices: 941343--941387 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
941333 GGTTTTATAG
941343 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
941388 GGGGTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:943777 original size:3 final size:3
Alignment explanation
Indices: 943769--943801 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
943759 AATGAGTAGG
943769 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
943802 GGGTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:951630 original size:3 final size:3
Alignment explanation
Indices: 951622--951666 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
951612 GGTTTTATAG
951622 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
951667 GGGGTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:954056 original size:3 final size:3
Alignment explanation
Indices: 954048--954080 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
954038 AATGAGTAGG
954048 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
954081 GGGTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:961871 original size:3 final size:3
Alignment explanation
Indices: 961863--961907 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
961853 GGTTTTATAG
961863 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
961908 GGGTTATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:964289 original size:3 final size:3
Alignment explanation
Indices: 964281--964313 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
964271 AATGAGTAGG
964281 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
964314 GGGTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:970631 original size:31 final size:32
Alignment explanation
Indices: 970596--970655 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 32
970586 ACACATCAGC
970596 AAAAATAAAAGAAA-ATTCAATTTTTTTTGTA
1 AAAAATAAAAGAAATATTCAATTTTTTTTGTA
*
970627 AAAAATAAAAGAAATATTTAATTTTTTTT
1 AAAAATAAAAGAAATATTCAATTTTTTTT
970656 ACTAGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (32 bp):
AAAAATAAAAGAAATATTCAATTTTTTTTGTA
Found at i:971343 original size:6 final size:6
Alignment explanation
Indices: 971332--971386 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
971322 AGAGAACAAC
* *
971332 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ACTT-AC ATTAAG
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A-TTAAA ATTAAA
971380 ATTAAA A
1 ATTAAA A
971387 GAAACCAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
5 2 0.05
6 40 0.91
7 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:975666 original size:45 final size:45
Alignment explanation
Indices: 975615--975701 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
975605 CTTTTTTTTT
975615 ACTAAAGTTGGGGTTGTTGAGTTGTAACAAGTTTGTTGTTATCTA
1 ACTAAAGTTGGGGTTGTTGAGTTGTAACAAGTTTGTTGTTATCTA
975660 ACTAAAGTTGGGGTTGTTGAGTTGTAACAAGTTTGTTGTTAT
1 ACTAAAGTTGGGGTTGTTGAGTTGTAACAAGTTTGTTGTTAT
975702 AAAACTCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.06, G:0.28, T:0.43
Consensus pattern (45 bp):
ACTAAAGTTGGGGTTGTTGAGTTGTAACAAGTTTGTTGTTATCTA
Found at i:976390 original size:25 final size:25
Alignment explanation
Indices: 976361--976412 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
976351 TATATAATTT
976361 AAGTTTA-AGAAAATAATTTTTATAC
1 AAGTTTATA-AAAATAATTTTTATAC
* *
976386 AAGTTTATAAAAGTTATTTTTATAC
1 AAGTTTATAAAAATAATTTTTATAC
976411 AA
1 AA
976413 TAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (25 bp):
AAGTTTATAAAAATAATTTTTATAC
Found at i:978416 original size:22 final size:22
Alignment explanation
Indices: 978345--978417 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 22
978335 AAAAATGGAG
*
978345 AAAATTATGTTTAACCCCTT-A
1 AAAATTATGTTTAATCCCTTAA
* ** ***
978366 AAAATGATGAATAATAAATTAA
1 AAAATTATGTTTAATCCCTTAA
* *
978388 TACATTATGTTTAATCCCTTAA
1 AAAATTATGTTTAATCCCTTAA
978410 AAAATTAT
1 AAAATTAT
978418 TATTCAATTC
Statistics
Matches: 34, Mismatches: 17, Indels: 1
0.65 0.33 0.02
Matches are distributed among these distances:
21 13 0.38
22 21 0.62
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (22 bp):
AAAATTATGTTTAATCCCTTAA
Found at i:980911 original size:13 final size:13
Alignment explanation
Indices: 980893--980917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
980883 AACTGCAGAT
980893 CGTTACAATATCA
1 CGTTACAATATCA
980906 CGTTACAATATC
1 CGTTACAATATC
980918 TATTTAGCTT
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:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
CGTTACAATATCA
Found at i:983609 original size:16 final size:17
Alignment explanation
Indices: 983588--983627 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
983578 TTAATTTAAT
983588 TTAAATTATTTT-TCAA
1 TTAAATTATTTTCTCAA
*
983604 TTAAATAATTTTCTCAA
1 TTAAATTATTTTCTCAA
*
983621 TTCAATT
1 TTAAATT
983628 CTAATCACGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTATTTTCTCAA
Found at i:984902 original size:46 final size:46
Alignment explanation
Indices: 984851--984945 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
984841 ATTAAAATTA
* *
984851 AAACTTAGAAACCAAA-CATTAA-ATATATAGTTTGGAGAACAACATT
1 AAACTT-GAAACCAAAGC-CTAACATATATAGTTAGGAGAACAACATT
* * *
984897 AAACTTTAAATCAAAGCCTAACCTATATAGTTAGGAGAACAACATT
1 AAACTTGAAACCAAAGCCTAACATATATAGTTAGGAGAACAACATT
984943 AAA
1 AAA
984946 ATTAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 10 0.24
46 32 0.76
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (46 bp):
AAACTTGAAACCAAAGCCTAACATATATAGTTAGGAGAACAACATT
Found at i:994714 original size:3 final size:3
Alignment explanation
Indices: 994708--994755 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
994698 ATCATCATCG
* * * *
994708 GAA GAA GAA GAA GAG GAG GAA GAA GAA GAA GAG GAA GAA GAA GGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
994756 CCTGGAGTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:994728 original size:18 final size:18
Alignment explanation
Indices: 994707--994755 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
994697 AATCATCATC
994707 GGAAGAAGAAGAAGAGGA
1 GGAAGAAGAAGAAGAGGA
994725 GGAAGAAGAAGAAGAGGA
1 GGAAGAAGAAGAAGAGGA
* *
994743 AGAAGAAGGAGAA
1 GGAAGAAGAAGAA
994756 CCTGGAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (18 bp):
GGAAGAAGAAGAAGAGGA
Found at i:994729 original size:15 final size:15
Alignment explanation
Indices: 994711--994750 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
994701 ATCATCGGAA
*
994711 GAAGAAGAAGAGGAG
1 GAAGAAGAAGAAGAG
994726 GAAGAAGAAGAAGAG
1 GAAGAAGAAGAAGAG
994741 GAAGAAGAAG
1 GAAGAAGAAG
994751 GAGAACCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAAGAG
Found at i:995041 original size:21 final size:19
Alignment explanation
Indices: 995015--995064 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
995005 AAAAAAAGCA
*
995015 ATTATATTATAATTTTATTAC
1 ATTATATTA-AATTATATT-C
995036 ATTATAATTAAATTATATTC
1 ATTAT-ATTAAATTATATTC
995056 ATT-TATTAA
1 ATTATATTAA
995065 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 4 0.15
21 13 0.48
22 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATATTAAATTATATTC
Found at i:995298 original size:15 final size:15
Alignment explanation
Indices: 995256--995299 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
995246 TATTTAACAT
* *
995256 AAATTTATATAAACT
1 AAATTTATATATACC
*
995271 AATATTAATATATACC
1 AA-ATTTATATATACC
995287 AAATTTATATATA
1 AAATTTATATATA
995300 TATTAATGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTTATATATACC
Found at i:1006646 original size:10 final size:10
Alignment explanation
Indices: 1006567--1006649 Score: 112
Period size: 10 Copynumber: 8.3 Consensus size: 10
1006557 TGGGCTATGT
*
1006567 CATCAGTGAT
1 CATCAGTGAA
1006577 CATCAGTGAA
1 CATCAGTGAA
* *
1006587 CATCAATGAT
1 CATCAGTGAA
*
1006597 CATCAGTGAT
1 CATCAGTGAA
1006607 CATCAGTGAA
1 CATCAGTGAA
*
1006617 TATCAGTGAA
1 CATCAGTGAA
*
1006627 CTTCAGTGAA
1 CATCAGTGAA
1006637 CATCAGTGAA
1 CATCAGTGAA
1006647 CAT
1 CAT
1006650 AAGACCATGG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 64 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (10 bp):
CATCAGTGAA
Found at i:1008435 original size:20 final size:20
Alignment explanation
Indices: 1008410--1008459 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1008400 TTGATTAAGG
1008410 TATCGATACCTTGGATGTGA
1 TATCGATACCTTGGATGTGA
*
1008430 TATCGATACCTTGGATGTGG
1 TATCGATACCTTGGATGTGA
1008450 TATCGATACC
1 TATCGATACC
1008460 AAAATTACAT
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:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGATACCTTGGATGTGA
Found at i:1017954 original size:22 final size:23
Alignment explanation
Indices: 1017929--1017975 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
1017919 ATGTATTTAT
*
1017929 TTTATATATTTTTA-TAATTAAA
1 TTTAAATATTTTTATTAATTAAA
* *
1017951 TTTAAATTTTTTTATTATTTAAA
1 TTTAAATATTTTTATTAATTAAA
1017974 TT
1 TT
1017976 GAATTCAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTAAATATTTTTATTAATTAAA
Found at i:1019989 original size:25 final size:24
Alignment explanation
Indices: 1019955--1020002 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
1019945 GATTGAAGAT
1019955 CAATTTTTATTAT-AAGATCATTTTC
1 CAATTTTTATT-TCAAGATC-TTTTC
1019980 CAATTTTTATTTCAAGATCTTTT
1 CAATTTTTATTTCAAGATCTTTT
1020003 AGCATCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (24 bp):
CAATTTTTATTTCAAGATCTTTTC
Found at i:1026966 original size:19 final size:20
Alignment explanation
Indices: 1026928--1026973 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
1026918 AACCCCAAAT
1026928 CCTTGAACCCTCAACATGAA
1 CCTTGAACCCTCAACATGAA
*
1026948 CCTTGAACCC-CAACTTGAA
1 CCTTGAACCCTCAACATGAA
*
1026967 CCATGAA
1 CCTTGAA
1026974 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.20
Consensus pattern (20 bp):
CCTTGAACCCTCAACATGAA
Found at i:1027868 original size:32 final size:31
Alignment explanation
Indices: 1027818--1027913 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
1027808 CTTAGATAAT
1027818 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1027849 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
1027881 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1027912 TT
1 TT
1027914 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:1029292 original size:3 final size:3
Alignment explanation
Indices: 1029284--1029319 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1029274 AACCGTAGGT
1029284 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1029320 GCAGAGCTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1030870 original size:16 final size:16
Alignment explanation
Indices: 1030826--1030873 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
1030816 AACTACAATT
1030826 TATTAAATAAAA-ATTA
1 TATT-AATAAAATATTA
1030842 TATTAATTAAAATATTA
1 TATTAA-TAAAATATTA
*
1030859 TTTTAATAAAATATT
1 TATTAATAAAATATT
1030874 TAATTTCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 18 0.62
17 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTAATAAAATATTA
Found at i:1032478 original size:26 final size:25
Alignment explanation
Indices: 1032449--1032507 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
1032439 CCCTTAACCT
*
1032449 TTTTTAAAAAAATTTAGATT-TTTAC
1 TTTTTAAAAAAAGTTAGATTGTTT-C
*
1032474 ATTTTTCAAAAACAGTTAGATTGTTTC
1 -TTTTT-AAAAAAAGTTAGATTGTTTC
1032501 TTTTTAA
1 TTTTTAA
1032508 TAGAAATACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 10 0.34
27 14 0.48
28 3 0.10
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (25 bp):
TTTTTAAAAAAAGTTAGATTGTTTC
Found at i:1032715 original size:29 final size:27
Alignment explanation
Indices: 1032683--1032740 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
1032673 GCCGCTTTTT
*
1032683 AAAAA-AAATTAAAGATCAAATTTAACTA
1 AAAAATAAAATAAAGATCAAA-TTAA-TA
* *
1032711 AAAAATTAAATAAATATCAAATTAATA
1 AAAAATAAAATAAAGATCAAATTAATA
1032738 AAA
1 AAA
1032741 GATGTAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 12 0.46
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (27 bp):
AAAAATAAAATAAAGATCAAATTAATA
Found at i:1032749 original size:28 final size:29
Alignment explanation
Indices: 1032692--1032749 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1032682 TAAAAAAAAT
1032692 TAAAGATCAAATTTAACTAAAAAATTAAA
1 TAAAGATCAAATTTAACTAAAAAATTAAA
* *
1032721 TAAATATCAAA-TTAA-TAAAAGATGTAAA
1 TAAAGATCAAATTTAACTAAAAAAT-TAAA
1032749 T
1 T
1032750 GTTAGAAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.27
28 9 0.35
29 10 0.38
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (29 bp):
TAAAGATCAAATTTAACTAAAAAATTAAA
Found at i:1036138 original size:54 final size:54
Alignment explanation
Indices: 1036070--1036176 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
1036060 ATTATAAGTA
*
1036070 CTAATCTTTTCTAGGGTAGGTATAAAATTGTTAGCCACTATCATTTATATTATT
1 CTAATATTTTCTAGGGTAGGTATAAAATTGTTAGCCACTATCATTTATATTATT
1036124 CTAATATTTTCTAGGGTAGGTATAAAATTGTTAGCCACTATCATTTATATTAT
1 CTAATATTTTCTAGGGTAGGTATAAAATTGTTAGCCACTATCATTTATATTAT
1036177 GCATGAATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (54 bp):
CTAATATTTTCTAGGGTAGGTATAAAATTGTTAGCCACTATCATTTATATTATT
Found at i:1049530 original size:16 final size:16
Alignment explanation
Indices: 1049492--1049533 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
1049482 TAATTTATCA
1049492 AATAAAA-A-TATATT
1 AATAAAATATTATATT
1049506 AATTAAAATATTATATT
1 AA-TAAAATATTATATT
1049523 AATAAAATATT
1 AATAAAATATT
1049534 TAATTTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 5 0.20
16 10 0.40
17 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAAAATATTATATT
Found at i:1052125 original size:2 final size:2
Alignment explanation
Indices: 1052118--1052148 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1052108 ACAATTGTTA
1052118 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1052149 ATAACTTACA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1052436 original size:20 final size:20
Alignment explanation
Indices: 1052387--1052438 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1052377 CTGAACCCTA
*
1052387 AACCCCAAACCTAAACCCAT
1 AACCCCAAATCTAAACCCAT
* * * *
1052407 AATCCTAAATCTAAACTCGT
1 AACCCCAAATCTAAACCCAT
1052427 AACCCCAAATCT
1 AACCCCAAATCT
1052439 TTGAACCCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (20 bp):
AACCCCAAATCTAAACCCAT
Found at i:1054048 original size:3 final size:3
Alignment explanation
Indices: 1054040--1054066 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1054030 AACCGTAGGT
1054040 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1054067 GCAGAGCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1056118 original size:23 final size:24
Alignment explanation
Indices: 1056058--1056117 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 24
1056048 GACTTTTTTT
*
1056058 AAAAATTAAGGATCAAAATTAACTAA
1 AAAAATTAA-AATC-AAATTAACTAA
1056084 AAAAATTAAAATCAAATTAAC-AA
1 AAAAATTAAAATCAAATTAACTAA
1056107 AAAAATATAAA
1 AAAAAT-TAAA
1056118 TGTTAAAGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 8 0.25
24 12 0.38
25 3 0.09
26 9 0.28
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAAATTAAAATCAAATTAACTAA
Found at i:1056553 original size:21 final size:23
Alignment explanation
Indices: 1056511--1056553 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
1056501 ACTACTTCTA
1056511 TTCTCTAATATAAACTATTAAAT
1 TTCTCTAATATAAACTATTAAAT
1056534 TTCT-TAA-ATAAA-TATATAAA
1 TTCTCTAATATAAACTAT-TAAA
1056554 CTCAATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.16
21 9 0.47
22 3 0.16
23 4 0.21
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TTCTCTAATATAAACTATTAAAT
Found at i:1056733 original size:20 final size:20
Alignment explanation
Indices: 1056708--1056757 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1056698 TGGCTTAAAA
1056708 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1056728 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1056745 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1056758 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1061364 original size:20 final size:20
Alignment explanation
Indices: 1061339--1061388 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1061329 TGGCTTAAAA
1061339 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1061359 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1061376 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1061389 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1063643 original size:17 final size:16
Alignment explanation
Indices: 1063614--1063653 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
1063604 TACTTTATCA
1063614 AATAAAA-ATTATATT
1 AATAAAATATTATATT
1063629 AATTAAAATATTATATT
1 AA-TAAAATATTATATT
1063646 AATAAAAT
1 AATAAAAT
1063654 GTTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 11 0.48
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAAAATATTATATT
Found at i:1063782 original size:18 final size:18
Alignment explanation
Indices: 1063722--1063783 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
1063712 TAATAAATAA
*
1063722 AATTAAATATATTAATTT
1 AATTAAATATATAAATTT
*
1063740 AATAAAATAT-TAAATTTTCT
1 AATTAAATATATAAA--TT-T
*
1063760 AATTAAATATATCAATTT
1 AATTAAATATATAAATTT
1063778 AATTAA
1 AATTAA
1063784 CTATTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.08
18 16 0.44
19 4 0.11
20 10 0.28
21 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAAATATATAAATTT
Found at i:1064041 original size:12 final size:13
Alignment explanation
Indices: 1064013--1064045 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1064003 AATTTCATCT
*
1064013 TTAATTAATTAAA
1 TTAATAAATTAAA
1064026 TTAATAAATT-AA
1 TTAATAAATTAAA
1064038 TTAATAAA
1 TTAATAAA
1064046 ATTGATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAATAAATTAAA
Found at i:1064129 original size:15 final size:16
Alignment explanation
Indices: 1064106--1064138 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1064096 TAAGAGATAA
1064106 TATAAACAAT-TATTT
1 TATAAACAATCTATTT
*
1064121 TATATACAATCTATTT
1 TATAAACAATCTATTT
1064137 TA
1 TA
1064139 ACTTTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAACAATCTATTT
Found at i:1070068 original size:16 final size:16
Alignment explanation
Indices: 1070026--1070072 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1070016 AACTATAATT
*
1070026 TATTAAATAAAA-ATTA
1 TATT-AATAAAATATCA
1070042 TATTAATTAAAATATCA
1 TATTAA-TAAAATATCA
*
1070059 TTTTAATAAAATAT
1 TATTAATAAAATAT
1070073 TTAATTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 2 0.07
16 17 0.63
17 8 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAATAAAATATCA
Found at i:1071815 original size:18 final size:17
Alignment explanation
Indices: 1071797--1071842 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
1071787 TTATAACTAT
1071797 TTATATATATCATCTTA
1 TTATATATATCATCTTA
*
1071814 TTATATATTTACATCTTA
1 TTATATATAT-CATCTTA
1071832 TTATATATATC
1 TTATATATATC
1071843 TATATATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATATATCATCTTA
Found at i:1072019 original size:30 final size:29
Alignment explanation
Indices: 1071983--1072039 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
1071973 ATACATATAT
1071983 ATATACATACTTACACTATTTTATTTTACG
1 ATATACATACTTACA-TATTTTATTTTACG
* *
1072013 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATATTTTATTTTA
1072040 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATATTTTATTTTACG
Found at i:1076079 original size:5 final size:5
Alignment explanation
Indices: 1076069--1076098 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
1076059 ATCTTTATTT
1076069 AAATA AAATA AAATA AAATA AAAGTA AAAT
1 AAATA AAATA AAATA AAATA AAA-TA AAAT
1076099 CCATATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:1077032 original size:13 final size:14
Alignment explanation
Indices: 1076995--1077034 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
1076985 CTAAATCATT
*
1076995 AAACCTTGAACCTC
1 AAACCTTGAACCCC
1077009 AAATCCTTGAACCCC
1 AAA-CCTTGAACCCC
1077024 AAA-CTTGAACC
1 AAACCTTGAACC
1077035 ATGAATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 3 0.12
15 13 0.54
ACGTcount: A:0.38, C:0.35, G:0.07, T:0.20
Consensus pattern (14 bp):
AAACCTTGAACCCC
Found at i:1078455 original size:41 final size:41
Alignment explanation
Indices: 1078394--1078755 Score: 634
Period size: 41 Copynumber: 8.8 Consensus size: 41
1078384 AACACAAATT
1078394 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
* * * *
1078435 CACTGGCACTTAGCTTGCTAGGGGTAAAGCCTGATTCAATA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1078476 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
*
1078517 CACTGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1078558 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
*
1078599 CACGGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
*
1078640 CACGGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
* * *
1078681 CACCGGCCCTTAGCCTGCTAGGCATAAAGCCTGATTCTGTA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
1078722 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGA
1 CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGA
1078756 AAATCTCAAT
Statistics
Matches: 304, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 304 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (41 bp):
CACCGGCACTTAGCCTGCTAGGCGTAAAGCCTGATTCAGTA
Found at i:1083202 original size:15 final size:17
Alignment explanation
Indices: 1083177--1083209 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1083167 TTGAATGGAA
1083177 TTATATTTGAAT-TATT
1 TTATATTTGAATATATT
1083193 TTAT-TTTGAATATATT
1 TTATATTTGAATATATT
1083209 T
1 T
1083210 AGATCAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATATTTGAATATATT
Found at i:1085897 original size:42 final size:43
Alignment explanation
Indices: 1085851--1085945 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
1085841 AGACAAAGAC
** *
1085851 CTTTAGCGGGGCTTTAGT-GGAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCACTTTAGTGGGAAACGCCGCTAAAGATCAGGGT
* * * * **
1085893 CTTTATCGGCATTTTTGTGGGAAATGCCGCTAAAGATTGGGGT
1 CTTTAGCGGCACTTTAGTGGGAAACGCCGCTAAAGATCAGGGT
1085936 CTTTAGCGGC
1 CTTTAGCGGC
1085946 GCTCTTACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
42 13 0.31
43 29 0.69
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCACTTTAGTGGGAAACGCCGCTAAAGATCAGGGT
Found at i:1086004 original size:43 final size:43
Alignment explanation
Indices: 1085939--1086122 Score: 219
Period size: 43 Copynumber: 4.3 Consensus size: 43
1085929 TTGGGGTCTT
* * * *
1085939 TAGCGGCGCTCTTACTACAAACGCCACAATAGACCCTGAGCTA
1 TAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCCTGATCTA
*
1085982 TAGCGGCGCTTTTTCTAAAAACGCCGCAATAGACACC-GATCTA
1 TAGCGGCGCTTTTACTAAAAACGCCGCAATAGAC-CCTGATCTA
* * *** * *
1086025 TAGCGGCGCTTCTCCCGCAAACGCCTCAATAGACCCCGATCTA
1 TAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCCTGATCTA
* *
1086068 TAGCGGCGCTTTTACAAAAAACGCCGCAGTAGACCCTGATCTA
1 TAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCCTGATCTA
1086111 TAGCGGCG-TTTT
1 TAGCGGCGCTTTT
1086123 CAGGAAAAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
42 6 0.05
43 112 0.93
44 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (43 bp):
TAGCGGCGCTTTTACTAAAAACGCCGCAATAGACCCTGATCTA
Found at i:1086069 original size:86 final size:86
Alignment explanation
Indices: 1085956--1086118 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 86
1085946 GCTCTTACTA
* * *
1085956 CAAACGCCACAATAGACCCTGAGCTATAGCGGCGCTTTTTCTAAAAACGCCGCAATAGACACC-G
1 CAAACGCCACAATAGACCCCGAGCTATAGCGGCGCTTTTACAAAAAACGCCGCAATAGAC-CCTG
1086020 ATCTATAGCGGCGCTTCTCCCG
65 ATCTATAGCGGCGCTTCTCCCG
* * *
1086042 CAAACGCCTCAATAGACCCCGATCTATAGCGGCGCTTTTACAAAAAACGCCGCAGTAGACCCTGA
1 CAAACGCCACAATAGACCCCGAGCTATAGCGGCGCTTTTACAAAAAACGCCGCAATAGACCCTGA
1086107 TCTATAGCGGCG
66 TCTATAGCGGCG
1086119 TTTTCAGGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
85 2 0.03
86 68 0.97
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.19
Consensus pattern (86 bp):
CAAACGCCACAATAGACCCCGAGCTATAGCGGCGCTTTTACAAAAAACGCCGCAATAGACCCTGA
TCTATAGCGGCGCTTCTCCCG
Found at i:1086161 original size:31 final size:29
Alignment explanation
Indices: 1086106--1086165 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
1086096 GTAGACCCTG
*
1086106 ATCTATAGCGGCGTTTTCAGGAAAAGCGCC
1 ATCTATAGCGGCGTTTTCACGAAAA-CGCC
* *
1086136 ATCTTTAGCGGCGCTTTTCCCGAAAACGCC
1 ATCTATAGCGGCG-TTTTCACGAAAACGCC
1086166 GCTAAAGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (29 bp):
ATCTATAGCGGCGTTTTCACGAAAACGCC
Found at i:1086258 original size:43 final size:44
Alignment explanation
Indices: 1086136--1086258 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 44
1086126 GAAAAGCGCC
* * *
1086136 ATCTTTAGCGGCGCTTTTCCCGAAAACGCCGCTAAA-GACCATG
1 ATCTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAATAACCATG
* * * * *
1086179 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGGTAAATAACC-TT
1 ATCTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAATAACCATG
* * *
1086222 CTCTTTAGCGGCGCTTTTACAAAAAACGCCACTAAAT
1 ATCTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAAT
1086259 TTGGCAGATT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
43 62 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAATAACCATG
Found at i:1086618 original size:21 final size:21
Alignment explanation
Indices: 1086564--1086675 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 21
1086554 TTTGACGCTG
*
1086564 CTCTGCTTCCCTGGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
1086585 TTTTACTTGCCTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
1086606 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
1086627 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
1086648 CTTTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
1086669 ATCTGCT
1 CTCTGCT
1086676 CTAAGCTGTT
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.06, C:0.40, G:0.19, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:1086634 original size:42 final size:42
Alignment explanation
Indices: 1086564--1086665 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
1086554 TTTGACGCTG
* * *
1086564 CTCTGCTTCCCTGGCTGCAGCTTTTACTTGC-CTCGCTACAGC
1 CTCTGCTTCCCTCGCTGCAGCCTGTACTT-CTCTCGCTACAGC
* *
1086606 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTACAGC
* * *
1086648 CTTTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
1086666 CGCATCTGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.06, C:0.40, G:0.19, T:0.35
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTGTACTTCTCTCGCTACAGC
Found at i:1086735 original size:64 final size:65
Alignment explanation
Indices: 1086652--1086789 Score: 208
Period size: 64 Copynumber: 2.1 Consensus size: 65
1086642 TGCCGCCTTT
* *
1086652 GCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGTTGCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 GCTTCTC-TGCTGCCGCATCTACTCTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTGAACCT
1086716 CA
64 CA
* *
1086718 GCTTCTC-GCTGCTGCATCTACTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTTTTGAACCTCA
1 GCTTCTCTGCTGCCGCATCTACTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
1086782 GCTTCTCT
1 GCTTCTCT
1086790 CGATGTTGCC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
64 55 0.83
65 4 0.06
66 7 0.11
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (65 bp):
GCTTCTCTGCTGCCGCATCTACTCTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
Found at i:1092263 original size:18 final size:18
Alignment explanation
Indices: 1092240--1092275 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1092230 ATAGTTACGC
1092240 TATGTAAGTTATGTATTA
1 TATGTAAGTTATGTATTA
*
1092258 TATGTAAGTTATTTATTA
1 TATGTAAGTTATGTATTA
1092276 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
TATGTAAGTTATGTATTA
Found at i:1092441 original size:16 final size:16
Alignment explanation
Indices: 1092420--1092464 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
1092410 ATTAAAAAAA
1092420 TGTAAGTTATGT-AGAT
1 TGTAAGTTATGTAAG-T
1092436 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
1092452 TGTAAGTTATGTA
1 TGTAAGTTATGTA
1092465 TAATATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 26 0.93
17 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:1092448 original size:9 final size:9
Alignment explanation
Indices: 1092419--1092464 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
1092409 AATTAAAAAA
1092419 ATGTAAGTT
1 ATGTAAGTT
*
1092428 ATGT-AGAT
1 ATGTAAGTT
1092436 -TGTAAGTT
1 ATGTAAGTT
1092444 ATGTAAG-T
1 ATGTAAGTT
1092452 -TGTAAGTT
1 ATGTAAGTT
1092460 ATGTA
1 ATGTA
1092465 TAATATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 9 0.29
8 8 0.26
9 14 0.45
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:1092577 original size:34 final size:34
Alignment explanation
Indices: 1092537--1092942 Score: 433
Period size: 34 Copynumber: 12.2 Consensus size: 34
1092527 TAATGTATAA
* * *
1092537 TATGTAAGTTATGTATAATATTAATTAACTAACT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
* *
1092571 TATGTAATTTAAGTATAATATTAATGTAAGTTATGT
1 TATGTAATTTATGTATAATATTAAT-TAA-TTAAGT
* * * *
1092607 AAGTTGTAAGTTATGTATAATATTAATTAACTAACT
1 TA--TGTAATTTATGTATAATATTAATTAATTAAGT
* *
1092643 TATGTAATTTAAGTATAATATTAA-T--GTAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
* *
1092674 TATGTAATTAACGTATAATATTAATTAATTAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
*
1092708 CATGTAATTTATGTATAATATTAATGT-A--AA-T
1 TATGTAATTTATGTATAATATTAAT-TAATTAAGT
*
1092739 TATGTAATTAATGTATAATATTAATTAATTAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
* * *
1092773 CATATAATTTATGTATAATATTAA-T--GTAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
* *
1092804 TATGTAATTAATGTATAATATTAATCAATTAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
* * **
1092838 CATATAATTTATGTATAATATTAA-T--GCAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
*
1092869 TATGTAATATATGTATAATATTAATTAATTAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
* *
1092903 TATGTAATTTATGTATAATATTAAATAATCAAGT
1 TATGTAATTTATGTATAATATTAATTAATTAAGT
1092937 TATGTA
1 TATGTA
1092943 TAATATTAAT
Statistics
Matches: 307, Mismatches: 47, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
30 1 0.00
31 102 0.33
32 4 0.01
33 4 0.01
34 160 0.52
35 4 0.01
36 8 0.03
37 3 0.01
38 21 0.07
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (34 bp):
TATGTAATTTATGTATAATATTAATTAATTAAGT
Found at i:1092580 original size:83 final size:87
Alignment explanation
Indices: 1092452--1092608 Score: 286
Period size: 83 Copynumber: 1.9 Consensus size: 87
1092442 TTATGTAAGT
1092452 TGTAAGTTATGTATAATATTAATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAA
1 TGTAAGTTATGTATAATATTAATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAA
1092517 GTTATGTAATTAATGTATAATA
66 GTTATGTAATTAATGTATAATA
1092539 TGTAAGTTATGTAT-A-A-T-ATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAA
1 TGTAAGTTATGTATAATATTAATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAA
1092600 GTTATGTAA
66 GTTATGTAA
1092609 GTTGTAAGTT
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
83 53 0.76
84 1 0.01
85 1 0.01
86 1 0.01
87 14 0.20
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (87 bp):
TGTAAGTTATGTATAATATTAATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAA
GTTATGTAATTAATGTATAATA
Found at i:1092606 original size:65 final size:65
Alignment explanation
Indices: 1092537--1092926 Score: 550
Period size: 65 Copynumber: 5.9 Consensus size: 65
1092527 TAATGTATAA
* * * *
1092537 TATGTAAGTT-ATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAATGTAAG
1 TATGTAA-TTAATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAG
1092601 T
65 T
* * * *
1092602 TATGTAAGTTGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAA
1 TATGTAA--T-T-A---ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAA
1092667 TGTAAGT
59 TGTAAGT
* *
1092674 TATGTAATTAACGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAAT
1 TATGTAATTAATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGT
*
1092739 TATGTAATTAATGTATAATATTAATTAATTAAGTCATATAATTTATGTATAATATTAATGTAAGT
1 TATGTAATTAATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGT
* * *
1092804 TATGTAATTAATGTATAATATTAATCAATTAAGTCATATAATTTATGTATAATATTAATGCAAGT
1 TATGTAATTAATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGT
*
1092869 TATGTAA-TATATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TATGTAATTA-ATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAA
1092927 ATAATCAAGT
Statistics
Matches: 302, Mismatches: 15, Indels: 16
0.91 0.05 0.05
Matches are distributed among these distances:
64 2 0.01
65 233 0.77
66 1 0.00
67 1 0.00
68 1 0.00
69 1 0.00
70 1 0.00
72 62 0.21
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (65 bp):
TATGTAATTAATGTATAATATTAATTAATTAAGTCATGTAATTTATGTATAATATTAATGTAAGT
Found at i:1092931 original size:21 final size:22
Alignment explanation
Indices: 1092907--1092951 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
1092897 TTAAGTTATG
1092907 TAAT-TTATGTATAATATTAAA
1 TAATATTATGTATAATATTAAA
1092928 TAATCAAGTTATGTATAATATTAA
1 TAAT--A-TTATGTATAATATTAA
1092952 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TAATATTATGTATAATATTAAA
Found at i:1095558 original size:20 final size:20
Alignment explanation
Indices: 1095520--1095559 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
1095510 TAAATTTTTG
1095520 TTTTTTATTTCCTTTTTATAA
1 TTTTTTATTT-CTTTTTATAA
1095541 TTTTTTATTT-TTTCTTATA
1 TTTTTTATTTCTTT-TTATA
1095560 CTTTGGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 5 0.28
21 10 0.56
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTATTTCTTTTTATAA
Found at i:1096063 original size:90 final size:89
Alignment explanation
Indices: 1095913--1096149 Score: 406
Period size: 90 Copynumber: 2.7 Consensus size: 89
1095903 CACCCATAAA
* *
1095913 CCCTAAACACTATTTAATATATAATTTAAAAAACACTAATTAATCTAAA-CCTTAAACCCTAACT
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCC-TAAACCCTAACT
1095977 CGACCACGAATCACTAACCCCCAAC
65 CGACCACGAATCACTAACCCCCAAC
1096002 CCCTAAACATTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAATCCTAAACCCTAACT
1 CCCTAAACATTATTTAATATATAAATT-AAAAAACACTAATTAATCTAAATCCTAAACCCTAACT
* *
1096067 CGACCCCGAATCACTAACCCCTAAC
65 CGACCACGAATCACTAACCCCCAAC
1096092 CCCTAAACATTATTTAATATATAAA-TAAAAAACACTAATTAATCTAAATCCTAAACCC
1 CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCC
1096150 CTAGCTAACC
Statistics
Matches: 142, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
88 32 0.23
89 26 0.18
90 82 0.58
91 2 0.01
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.26
Consensus pattern (89 bp):
CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTC
GACCACGAATCACTAACCCCCAAC
Found at i:1096172 original size:88 final size:87
Alignment explanation
Indices: 1095904--1096192 Score: 387
Period size: 90 Copynumber: 3.3 Consensus size: 87
1095894 CCCAAACCCC
* * * *
1095904 ACCCATAAACCCTAAACACTATTTAATATATAATTTAAAAAACACTAATTAATCTAAA-CCTTAA
1 ACCCCTAACCCCTAAACATTATTTAATATATAA-ATAAAAAACACTAATTAATCTAAATCC-TAA
1095968 ACCCTAACTCGACCACGAATCACTA
64 ACCCTAACTCGACC-CGAATCACTA
*
1095993 ACCCCCAACCCCTAAACATTATTTAATATATAAATTAAAAAAACACTAATTAATCTAAATCCTAA
1 ACCCCTAACCCCTAAACATTATTTAATATATAAA-T-AAAAAACACTAATTAATCTAAATCCTAA
1096058 ACCCTAACTCGACCCCGAATCACTA
64 ACCCTAACTCGA-CCCGAATCACTA
1096083 ACCCCTAACCCCTAAACATTATTTAATATATAAATAAAAAACACTAATTAATCTAAATCCTAAAC
1 ACCCCTAACCCCTAAACATTATTTAATATATAAATAAAAAACACTAATTAATCTAAATCCTAAA-
* *
1096148 CCCTAGCT-AACCC---T-A--A
65 CCCTAACTCGACCCGAATCACTA
*
1096164 ATCCCTAACCCCTAAACATTATTTAATAT
1 ACCCCTAACCCCTAAACATTATTTAATAT
1096193 TATATAATTT
Statistics
Matches: 186, Mismatches: 9, Indels: 18
0.87 0.04 0.08
Matches are distributed among these distances:
81 29 0.16
83 1 0.01
84 1 0.01
87 3 0.02
88 30 0.16
89 38 0.20
90 80 0.43
91 4 0.02
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (87 bp):
ACCCCTAACCCCTAAACATTATTTAATATATAAATAAAAAACACTAATTAATCTAAATCCTAAAC
CCTAACTCGACCCGAATCACTA
Found at i:1096262 original size:85 final size:81
Alignment explanation
Indices: 1096092--1096269 Score: 184
Period size: 85 Copynumber: 2.2 Consensus size: 81
1096082 AACCCCTAAC
*
1096092 CCCTAAACATTATTTAATATATAAATAAAAAACACTAATTAATCTAAATCCTAAACCCCTAGCTA
1 CCCTAAACATTATTTAATATATAAATAAAAAACACTAATTAATCTAAATCCTAAACCCCTACCTA
* *
1096157 ACCCTAAATCCCTAAC
66 ACCCTAAATCCATAAA
* * * * *
1096173 CCCTAAACATTATTTAATATTATATAATTTAAAATATATTAATTAGTCTAAA-CACTAAA-CTCT
1 CCCTAAACATTATTTAATA-TATA-AA--TAAAAAACACTAATTAATCTAAATC-CTAAACCCCT
*
1096236 AACCTAACACC-GAATCCATAAA
61 -ACCTAAC-CCTAAATCCATAAA
1096258 CCCTAAAC-TTAT
1 CCCTAAACATTAT
1096270 AACCTTTAAC
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
81 19 0.23
82 4 0.05
83 2 0.02
84 8 0.10
85 46 0.57
86 2 0.02
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (81 bp):
CCCTAAACATTATTTAATATATAAATAAAAAACACTAATTAATCTAAATCCTAAACCCCTACCTA
ACCCTAAATCCATAAA
Found at i:1096919 original size:113 final size:114
Alignment explanation
Indices: 1096720--1097545 Score: 1134
Period size: 113 Copynumber: 7.3 Consensus size: 114
1096710 AGATAAAATG
* * * * * *
1096720 TTTTTGCGGCGC-TTTACAAAAAACGCCGCTAAAGGCATCAACATTAGCGGCGCTTATTCA-GAA
1 TTTTTGCGGCGCATTTA-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TACATAAA
* * *
1096783 ACGCCGCTAAAGTCCCCAAAAACTCAGAAAACGGTGACGTTAGGCTTAGGC
64 ACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
*
1096834 -TTTTGCGGCGCATTTAAAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
1 TTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
*
1096898 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
1096947 -TTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
1 TTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* * *
1097011 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGCGTTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * *
1097060 TTTTTGCGGCGCTTTTGAGAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTT--ATAAATG
1 TTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAA-A
*
1097123 CGCCGCTAAAGACCCCCAAAAACTCAGAAAACGATGCCGTTGGGCTTAGGC
65 CGCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
1097174 TTTTTGCGGCGCATTTAAAAAAACGCCACTAAAGACCTGAACATTAGCGGCGCTTTACAT-AAAC
1 TTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* * *
1097238 GCCGCGAAAGACCCCAAAAACTCAGAAAATGGTGCCGTTGAGCTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * *
1097287 TTTTTTGCGGCGC-TTTAAAAAAAATGCCGCTAAAGACATGATCATTAGCGGCACTTTACAT-AA
1 -TTTTTGCGGCGCATTT-AAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAA
* * *
1097350 ACGCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGTTTAGAC
64 ACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
1097400 TTTTTGTGGCGCATTTAAAACAACGCCGCTAAAGACCTGA-CATTAGCGGCGCTTTTACAGAAAA
1 TTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGC-TTTACATAAAA
* * * *
1097464 CGCCGCTAAAGACCCCAAAAAATCAGAAAACGGTGCCGTTTGTCTTTGGC
65 CGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
1097514 TTTTTGCGGCGCTTTTATAAAAATGCCGCTAA
1 TTTTTGCGGCGCATTTAAAAAAACGCCGCTAA
1097546 TGCTTATTTT
Statistics
Matches: 636, Mismatches: 63, Indels: 26
0.88 0.09 0.04
Matches are distributed among these distances:
111 11 0.02
112 46 0.07
113 302 0.47
114 273 0.43
115 2 0.00
116 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (114 bp):
TTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:1097373 original size:340 final size:338
Alignment explanation
Indices: 1096720--1097545 Score: 1189
Period size: 340 Copynumber: 2.4 Consensus size: 338
1096710 AGATAAAATG
* * *
1096720 TTTTTGCGGCGCTTTACAAAAAACGCCGCTAAAGGCATCAACATTAGCGGCGC-TTATTCAGAAA
1 TTTTTGCGGCGCTTT-TAAAAAACGCCGCTAAAGACCTC-ACATTAGCGGCGCTTTA-T-AGAAA
* *
1096784 CGCCGCTAAAGTCCCCAAAAACTCAGAAAACGGTGACGTTAGGCTTAGGC-TTTTGCGGCGCATT
62 CGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTAGGCTTAGGCTTTTTGCGGCGCATT
* *
1096848 TAAAAAAACGCCACTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAACGCCACTAAAGACCCC
127 TAAAAAAACGCCACTAAAGACCTGAACATTAGCGGCGCTTTACATAAAACGCCACGAAAGACCCC
*
1096913 AAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTGCGGCGCATTTAAAAAAACGCCGCTAA
192 AAAAACTCAGAAAACGGTGCCGTTGAGCTTAGGCTTTTGCGGCGCATTTAAAAAAACGCCGCTAA
* *
1096978 AGACCTGAGCATTAGCGGCGCTTTACATAAAACGCCACTAAAGACCCCAAAAACTCAGAAAACGG
257 AGACATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCCAAAAACTCAGAAAACGG
*
1097043 TGCCGTTGCGTTTAGGC
322 TGCCGTTGCGTTTAGAC
* *
1097060 TTTTTGCGGCGCTTTTGAGAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTATA-AATGC
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTCA-CATTAGCGGCGCTTTATAGAA-AC
* *
1097124 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGATGCCGTTGGGCTTAGGCTTTTTGCGGCGCATT
63 GCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTAGGCTTAGGCTTTTTGCGGCGCATT
*
1097189 TAAAAAAACGCCACTAAAGACCTGAACATTAGCGGCGCTTTACAT-AAACGCCGCGAAAGACCCC
127 TAAAAAAACGCCACTAAAGACCTGAACATTAGCGGCGCTTTACATAAAACGCCACGAAAGACCCC
* *
1097253 AAAAACTCAGAAAATGGTGCCGTTGAGCTTAGGCTTTTTTGCGGCGC-TTTAAAAAAAATGCCGC
192 AAAAACTCAGAAAACGGTGCCGTTGAGCTTAGGC--TTTTGCGGCGCATTT-AAAAAAACGCCGC
*
1097317 TAAAGACATGATCATTAGCGGCACTTTACAT-AAACGCCACTAAAGACCCC-AAAACTCAGAAAA
254 TAAAGACATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCCAAAAACTCAGAAAA
*
1097380 CGGTGCCGTTGGGTTTAGAC
319 CGGTGCCGTTGCGTTTAGAC
* * * *
1097400 TTTTTGTGGCGCATTTAAAACAACGCCGCTAAAGACCTGACATTAGCGGCGCTTTTACAGAAAAC
1 TTTTTGCGGCGCTTTTAAAA-AACGCCGCTAAAGACCTCACATTAGCGGCGC-TTTATAG-AAAC
* * * * *
1097465 GCCGCTAAAGACCCCAAAAAATCAGAAAACGGTGCCGTTTGTCTTTGGCTTTTTGCGGCGCTTTT
63 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTAGGCTTAGGCTTTTTGCGGCGCATTT
* * *
1097530 ATAAAAATGCCGCTAA
128 AAAAAAACGCCACTAA
1097546 TGCTTATTTT
Statistics
Matches: 438, Mismatches: 35, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
338 2 0.00
339 28 0.06
340 260 0.59
341 95 0.22
342 53 0.12
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (338 bp):
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAGACCTCACATTAGCGGCGCTTTATAGAAACGCC
GCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTAGGCTTAGGCTTTTTGCGGCGCATTTAAA
AAAACGCCACTAAAGACCTGAACATTAGCGGCGCTTTACATAAAACGCCACGAAAGACCCCAAAA
ACTCAGAAAACGGTGCCGTTGAGCTTAGGCTTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGAC
ATGAGCATTAGCGGCACTTTACATAAAACGCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCC
GTTGCGTTTAGAC
Found at i:1102071 original size:3 final size:3
Alignment explanation
Indices: 1102063--1102095 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1102053 AACCGTAGGT
1102063 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1102096 GCAGAGCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1103272 original size:16 final size:16
Alignment explanation
Indices: 1103228--1103275 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
1103218 AACTACAATT
1103228 TATTAAATAAAA-ATTA
1 TATT-AATAAAATATTA
1103244 TATTAATTAAAATATTA
1 TATTAA-TAAAATATTA
*
1103261 TTTTAATAAAATATT
1 TATTAATAAAATATT
1103276 TAATTTCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 18 0.62
17 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTAATAAAATATTA
Found at i:1103329 original size:18 final size:18
Alignment explanation
Indices: 1103306--1103344 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1103296 TATTAATAAT
*
1103306 ATTTTATTAAATAAAAAA
1 ATTTTAATAAATAAAAAA
* *
1103324 ATTTTAATAATTAAAATA
1 ATTTTAATAAATAAAAAA
1103342 ATT
1 ATT
1103345 AACTATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTAATAAATAAAAAA
Found at i:1108122 original size:24 final size:24
Alignment explanation
Indices: 1108093--1108146 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1108083 TTGATGAAAG
* *
1108093 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAACACATACAGAA
* *
1108117 ATGAACCGTTCAACACATACAGAA
1 ATGAACTGTTAAACACATACAGAA
1108141 A-GAACT
1 ATGAACT
1108147 TACTTTTCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
ATGAACTGTTAAACACATACAGAA
Found at i:1112486 original size:24 final size:26
Alignment explanation
Indices: 1112428--1112486 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 26
1112418 AGCAATTGGC
* *
1112428 AAATGGTTAACTCAACAATATTAGTA
1 AAATTGTTAACTCAACAATATTACTA
* *
1112454 AAAAT-TTAACT-AACAATTTTACT-
1 AAATTGTTAACTCAACAATATTACTA
1112477 AAATTGTTAA
1 AAATTGTTAA
1112487 AATTACTCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 4 0.15
24 14 0.52
25 6 0.22
26 3 0.11
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (26 bp):
AAATTGTTAACTCAACAATATTACTA
Found at i:1113557 original size:21 final size:20
Alignment explanation
Indices: 1113527--1113566 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1113517 TATAAAGCTT
*
1113527 ATTGAAGAGTGTTTTTATATA
1 ATTGAAGAGT-ATTTTATATA
*
1113548 ATTGATGAGTATTTTATAT
1 ATTGAAGAGTATTTTATAT
1113567 TTAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
ATTGAAGAGTATTTTATATA
Found at i:1114239 original size:3 final size:3
Alignment explanation
Indices: 1114231--1114276 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
1114221 TTCTCCGTCA
* *
1114231 CTC CTC CT- CTC CT- CTG CTC CTC CTC CTC CTC CTC CTC TTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
1114277 AGCATCCACG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.00, C:0.61, G:0.02, T:0.37
Consensus pattern (3 bp):
CTC
Found at i:1123133 original size:13 final size:13
Alignment explanation
Indices: 1123115--1123140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1123105 ATAATACTGG
1123115 GTTTTTGTTTTTT
1 GTTTTTGTTTTTT
1123128 GTTTTTGTTTTTT
1 GTTTTTGTTTTTT
1123141 TACCTTTCTT
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:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
GTTTTTGTTTTTT
Found at i:1129777 original size:28 final size:28
Alignment explanation
Indices: 1129745--1129805 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
1129735 TAGTAATGAT
* * *
1129745 AAAAATTAAACTTAAATTT-TGAAATTTA
1 AAAAATAAAAC-TAAATTTCTGAAAATAA
1129773 AAAAATAAAACTAAATTTCTGAAAATAA
1 AAAAATAAAACTAAATTTCTGAAAATAA
1129801 AAAAA
1 AAAAA
1129806 AACTGTGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAAATAAAACTAAATTTCTGAAAATAA
Found at i:1132650 original size:21 final size:21
Alignment explanation
Indices: 1132626--1132669 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1132616 ACATAAAAAG
*
1132626 ATAAAAATA-CCTTTAAATAAT
1 ATAAAAATATCC-TAAAATAAT
1132647 ATAAAAATATCCTAAAATAAT
1 ATAAAAATATCCTAAAATAAT
1132668 AT
1 AT
1132670 TTAATCTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAAAATATCCTAAAATAAT
Found at i:1133446 original size:26 final size:26
Alignment explanation
Indices: 1133410--1133461 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1133400 AAAATATAGA
1133410 GAGAGAATTCCTCTAAGAGTAATTTG
1 GAGAGAATTCCTCTAAGAGTAATTTG
1133436 GAGAGAATTCCTCTAAGAGTAATTTG
1 GAGAGAATTCCTCTAAGAGTAATTTG
1133462 AACTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (26 bp):
GAGAGAATTCCTCTAAGAGTAATTTG
Found at i:1136419 original size:17 final size:18
Alignment explanation
Indices: 1136408--1136440 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1136398 TTTATATATG
1136408 GATATT-AATTATA-AAA
1 GATATTGAATTATATAAA
1136424 GATATTGAATTATATAA
1 GATATTGAATTATATAA
1136441 TTTTACATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 7 0.47
18 2 0.13
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (18 bp):
GATATTGAATTATATAAA
Found at i:1140389 original size:7 final size:7
Alignment explanation
Indices: 1140377--1140406 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1140367 GAGGGGTTTT
1140377 AAAATTA
1 AAAATTA
1140384 AAAATTA
1 AAAATTA
1140391 AAAATT-
1 AAAATTA
1140397 AAAATTA
1 AAAATTA
1140404 AAA
1 AAA
1140407 CCATGTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:1140393 original size:13 final size:14
Alignment explanation
Indices: 1140377--1140406 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1140367 GAGGGGTTTT
1140377 AAAATTAAAAATTA
1 AAAATTAAAAATTA
1140391 AAAATT-AAAATTA
1 AAAATTAAAAATTA
1140404 AAA
1 AAA
1140407 CCATGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTAAAAATTA
Found at i:1145078 original size:83 final size:83
Alignment explanation
Indices: 1144982--1145149 Score: 318
Period size: 83 Copynumber: 2.0 Consensus size: 83
1144972 AATTGATTTT
*
1144982 AACCTCATTTTAATCTGTTAATTTAGTTGATTATTAGTTTTTGAATAAATCGATTTATTTTATAT
1 AACCTCATCTTAATCTGTTAATTTAGTTGATTATTAGTTTTTGAATAAATCGATTTATTTTATAT
1145047 AATTTTTAAATGAATTAA
66 AATTTTTAAATGAATTAA
1145065 AACCTCATCTTAATCTGTTAATTTAGTTGATTATTAGTTTTTGAATAAATCGATTTATTTTATAT
1 AACCTCATCTTAATCTGTTAATTTAGTTGATTATTAGTTTTTGAATAAATCGATTTATTTTATAT
*
1145130 TATTTTTAAATGAATTAA
66 AATTTTTAAATGAATTAA
1145148 AA
1 AA
1145150 TATATTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (83 bp):
AACCTCATCTTAATCTGTTAATTTAGTTGATTATTAGTTTTTGAATAAATCGATTTATTTTATAT
AATTTTTAAATGAATTAA
Found at i:1152515 original size:7 final size:7
Alignment explanation
Indices: 1152503--1152527 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1152493 GTATAGGGAC
1152503 TAAATTT
1 TAAATTT
1152510 TAAATTT
1 TAAATTT
1152517 TAAATTT
1 TAAATTT
1152524 TAAA
1 TAAA
1152528 AGAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:1153025 original size:31 final size:31
Alignment explanation
Indices: 1152990--1153055 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
1152980 TTAATATGCC
* * *
1152990 ATTTGGTACTTGCATTTGACTTTAATGTTTA
1 ATTTGGTACTTGAATTTAACTTTAATGTTAA
1153021 ATTTGGTACTTGAATTTAACTTTAATGTTAA
1 ATTTGGTACTTGAATTTAACTTTAATGTTAA
1153052 ATTT
1 ATTT
1153056 AATACCCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.52
Consensus pattern (31 bp):
ATTTGGTACTTGAATTTAACTTTAATGTTAA
Found at i:1157176 original size:23 final size:24
Alignment explanation
Indices: 1157142--1157201 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
1157132 ATCAGCTCAT
*
1157142 AAATATATTTGTT-TTATTATTAG
1 AAATATATTTGTTATTATAATTAG
*
1157165 AAATAT-TCTTGTTATTATAATTTG
1 AAATATAT-TTGTTATTATAATTAG
*
1157189 AAAAAATATTTGT
1 -AAATATATTTGT
1157202 AGGAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 11 0.37
24 8 0.27
25 9 0.30
26 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
AAATATATTTGTTATTATAATTAG
Found at i:1162047 original size:16 final size:16
Alignment explanation
Indices: 1162026--1162095 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
1162016 TTTGGTTCGC
*
1162026 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
1162042 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
1162058 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
1162074 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
1162090 TGTAAT
1 TGTAAT
1162096 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:1162130 original size:45 final size:41
Alignment explanation
Indices: 1162074--1162183 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
1162064 GGATTAGAGG
*
1162074 TGTAATAGAATAGAGGTGTAATAGCAAATCAAATGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGG-T
* * ***
1162116 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
1162159 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
1162184 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
Found at i:1162350 original size:18 final size:17
Alignment explanation
Indices: 1162329--1162363 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1162319 TTATTATTAA
*
1162329 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1162347 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1162364 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1162417 original size:157 final size:157
Alignment explanation
Indices: 1162216--1162532 Score: 598
Period size: 157 Copynumber: 2.0 Consensus size: 157
1162206 TAGAATACCC
*
1162216 TTAGCATAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
1162281 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
1162346 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
1162373 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1162438 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
1162503 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
1162530 TTA
1 TTA
1162533 ATATTCTTAT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:1162507 original size:18 final size:17
Alignment explanation
Indices: 1162486--1162520 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1162476 TTATTATTAA
*
1162486 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1162504 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1162521 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1165691 original size:19 final size:19
Alignment explanation
Indices: 1165667--1165703 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1165657 TTGTGTTTGT
*
1165667 TTAATGAAAAATGATTTAA
1 TTAATGAAAAATAATTTAA
*
1165686 TTAATGGAAAATAATTTA
1 TTAATGAAAAATAATTTA
1165704 TTGGTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAATGAAAAATAATTTAA
Found at i:1166003 original size:32 final size:36
Alignment explanation
Indices: 1165930--1166010 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 36
1165920 TATTAATATA
* * *
1165930 ATTAAAATAATTATTTATTTTAATGAAATTAATGAAT
1 ATTAAAATAATTATTTATCTTAATAAAATT-ATGAAC
1165967 ATTAAAAT-ATTATTT-TCTTAATAAAATT-T-AAC
1 ATTAAAATAATTATTTATCTTAATAAAATTATGAAC
1165999 ATT--AATAATTAT
1 ATTAAAATAATTAT
1166011 AAAATGGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
30 3 0.08
31 5 0.12
32 5 0.12
33 1 0.03
35 11 0.28
36 7 0.17
37 8 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (36 bp):
ATTAAAATAATTATTTATCTTAATAAAATTATGAAC
Found at i:1173575 original size:25 final size:27
Alignment explanation
Indices: 1173528--1173577 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1173518 TTATTATTAT
*
1173528 TATTTAAAATATTTTATTTCATTTTAA
1 TATTTAAAATATTTTATTACATTTTAA
*
1173555 TATTTAATA-ATTTTA-TACATTTT
1 TATTTAAAATATTTTATTACATTTT
1173578 TTATTTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 6 0.29
27 8 0.38
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTTAAAATATTTTATTACATTTTAA
Found at i:1175010 original size:30 final size:30
Alignment explanation
Indices: 1174976--1175033 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1174966 AACATAATTT
*
1174976 AATAATATAAAAT-TATTAAAAATATATCAC
1 AATAA-ATAAAATATATTAAAAAAATATCAC
*
1175006 AATAACTAAAATATATTAAAAAAATATC
1 AATAAATAAAATATATTAAAAAAATATC
1175034 TTATTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (30 bp):
AATAAATAAAATATATTAAAAAAATATCAC
Found at i:1176993 original size:8 final size:8
Alignment explanation
Indices: 1176980--1177016 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
1176970 ACATGCATAT
1176980 ATATATAC
1 ATATATAC
1176988 ATATATAC
1 ATATATAC
*
1176996 ATACATAC
1 ATATATAC
*
1177004 ATATATAT
1 ATATATAC
1177012 ATATA
1 ATATA
1177017 AAGAAAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:1184278 original size:19 final size:19
Alignment explanation
Indices: 1184254--1184292 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1184244 ACTGATAAGC
*
1184254 TGAAGCTTAAT-TTAATATT
1 TGAAGCTCAATATT-ATATT
1184273 TGAAGCTCAATATTATATT
1 TGAAGCTCAATATTATATT
1184292 T
1 T
1184293 AAACTTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
TGAAGCTCAATATTATATT
Found at i:1197083 original size:8 final size:8
Alignment explanation
Indices: 1197049--1197099 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
1197039 CAATGATGAG
*
1197049 AATAATAA
1 AATATTAA
1197057 AATATATAA
1 AATAT-TAA
1197066 AATA-TAA
1 AATATTAA
1197073 AATATTAA
1 AATATTAA
*
1197081 AATA-TCA
1 AATATTAA
*
1197088 AATATTAG
1 AATATTAA
1197096 AATA
1 AATA
1197100 ATAATAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 13 0.36
8 16 0.44
9 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:1197083 original size:15 final size:15
Alignment explanation
Indices: 1197053--1197099 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1197043 GATGAGAATA
1197053 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
1197069 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
* *
1197084 ATCAAATATTAGAAT
1 ATAAAATATTAAAAT
1197099 A
1 A
1197100 ATAATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:1197260 original size:23 final size:22
Alignment explanation
Indices: 1197209--1197262 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
1197199 ATACTACATC
1197209 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
1197228 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
1197251 AATATGTACATA
1 AATATGTACATA
1197263 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:1197309 original size:22 final size:24
Alignment explanation
Indices: 1197225--1197310 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
1197215 TACATATATA
* *
1197225 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
1197248 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
1197273 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
1197296 -AAGATATATACATAA
1 AAAAATATATACATAA
1197311 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:1197360 original size:25 final size:25
Alignment explanation
Indices: 1197332--1197465 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
1197322 GAAAAAAAAT
1197332 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
1197357 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
1197382 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
1197408 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
1197430 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
1197453 AAATAT-AATAATA
1 ATATATAAATAATA
1197466 ACAAAAAAAT
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:1198038 original size:30 final size:30
Alignment explanation
Indices: 1197945--1198119 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
1197935 TAGGTACAAG
* *
1197945 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
1197975 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
1198005 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* * *
1198035 TGGTGGTAGAAAAGGAGTAGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1198065 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1198095 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
1198120 TGAGAAAAGT
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
29 2 0.02
30 125 0.98
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:1198887 original size:14 final size:14
Alignment explanation
Indices: 1198868--1198917 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1198858 GAGTTGATTT
*
1198868 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
1198882 TTGAAAAAATAGAAA
1 TTG-AAAAATAGAAA
**
1198897 TTGAAAAGCAGAAA
1 TTGAAAAATAGAAA
1198911 TT-AAAAA
1 TTGAAAAA
1198918 GACATCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 14 0.45
15 13 0.42
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.22
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:1198891 original size:15 final size:15
Alignment explanation
Indices: 1198871--1198903 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1198861 TTGATTTTTG
*
1198871 AAAAATATAAATTGA
1 AAAAATAGAAATTGA
1198886 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
1198901 AAA
1 AAA
1198904 GCAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:1199034 original size:73 final size:74
Alignment explanation
Indices: 1198934--1199139 Score: 288
Period size: 75 Copynumber: 2.8 Consensus size: 74
1198924 AGCATGTGAG
* * *
1198934 CCGAGACTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAATTGAAATTACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCT
1198998 CAGCGTGTC
66 CAGCGTGTC
* * * * *
1199007 CCGAGGCTCAACTCACCTTTCGAAATATGAGTTGATTTTTTGAAAAATAGAAATTTAAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAA-TTGAAAATACC
1199072 TCAGCGTGTC
65 TCAGCGTGTC
* * * *
1199082 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTACGAACAGAAATTGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAA
1199140 GAACAGAAAT
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
73 30 0.26
74 20 0.18
75 64 0.56
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:1199096 original size:75 final size:74
Alignment explanation
Indices: 1198897--1199136 Score: 284
Period size: 75 Copynumber: 3.2 Consensus size: 74
1198887 AAAATAGAAA
* * * ** *
1198897 TTGAAAAGCAGAAATTAAAAAGACATCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
*
1198962 GAGTT-AATTT
64 GAGTTGATTTT
* * * * *
1198972 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGAAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1199037 GTTGATTTT
66 GTTGATTTT
* * *
1199046 TTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1199111 AGTTGATTTT
65 AGTTGATTTT
* **
1199121 TTTACGAACAGAAATT
1 TTGAAAAACAGAAATT
1199137 GAAGAACAGA
Statistics
Matches: 139, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
73 33 0.24
74 18 0.13
75 88 0.63
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:1199145 original size:14 final size:14
Alignment explanation
Indices: 1199126--1199153 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1199116 ATTTTTTTAC
1199126 GAACAGAAATTGAA
1 GAACAGAAATTGAA
1199140 GAACAGAAATTGAA
1 GAACAGAAATTGAA
1199154 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:1199287 original size:14 final size:14
Alignment explanation
Indices: 1199268--1199317 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1199258 GAGTTGATTT
* *
1199268 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
1199282 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
1199297 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
1199311 TT-AAAAA
1 TTGAAAAA
1199318 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:1199466 original size:14 final size:14
Alignment explanation
Indices: 1199447--1199496 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1199437 GTTGATTTTT
* *
1199447 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
1199461 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
1199476 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
1199490 TT-AAAAA
1 TTGAAAAA
1199497 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:1199533 original size:179 final size:183
Alignment explanation
Indices: 1199209--1199650 Score: 709
Period size: 179 Copynumber: 2.4 Consensus size: 183
1199199 GTAGATTTTG
* * *
1199209 AAAATACCTC-GACATGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTGA
1 AAAATACCTCAG-CGTGT-AACCGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
1199272 AAAATATAAATTGAAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCG
64 AAAATATAAATTGAAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCG
* *
1199337 AGACTCAACTTACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAATTG-
129 AGACTCAACTCACCTCTCACAATATGAGTTGATATTTTTGACAAACAGAAATTGA
* * *
1199389 AAATTACCTCAGCGTGT-CCCG-AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTAACCGAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAA
1199452 AAATATAAATTGAAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGA
65 AAATATAAATTGAAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGA
*
1199517 GACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAAACAGAAATTGA
130 GACTCAACTCACCTCTCACAATATGAGTTGATATTTTTGACAAACAGAAATTGA
*
1199571 AAAATACCTCAGCGTGTAAGCGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
1 AAAATACCTCAGCGTGTAACCGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
*
1199636 AATAGAAATTGAAAA
66 AATATAAATTGAAAA
1199651 CACCTCAGCA
Statistics
Matches: 240, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
177 30 0.12
178 2 0.01
179 100 0.42
180 14 0.06
181 21 0.09
182 16 0.07
183 26 0.11
184 31 0.13
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (183 bp):
AAAATACCTCAGCGTGTAACCGAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
AATATAAATTGAAAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAG
ACTCAACTCACCTCTCACAATATGAGTTGATATTTTTGACAAACAGAAATTGA
Done.