Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 65 of 284
Found at i:22674368 original size:3 final size:3
Alignment explanation
Indices: 22674360--22674390 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
22674350 ACTGGTTTGC
22674360 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
22674391 AAGGGTCCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:22674695 original size:16 final size:15
Alignment explanation
Indices: 22674676--22674706 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
22674666 AATAGGTGAA
22674676 TTTTCTTTTTCTTTTT
1 TTTTCTTTTT-TTTTT
22674692 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
22674707 ATATATACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:22674700 original size:9 final size:10
Alignment explanation
Indices: 22674676--22674705 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
22674666 AATAGGTGAA
22674676 TTTTCTTTTTC
1 TTTT-TTTTTC
22674687 TTTTTTTTTC
1 TTTTTTTTTC
22674697 TTTTTTTTT
1 TTTTTTTTT
22674706 TATATATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:22678040 original size:5 final size:4
Alignment explanation
Indices: 22677997--22678038 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
22677987 TCATCAATCT
22677997 TTTA TTTA TTTA TTTA TGATT- TTTA TTTA TTTA TTTAA TTTA
1 TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TTTA TTT-A TTTA
22678039 ATCATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 2 0.06
4 25 0.74
5 5 0.15
6 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:22680897 original size:21 final size:21
Alignment explanation
Indices: 22680871--22680972 Score: 141
Period size: 21 Copynumber: 4.9 Consensus size: 21
22680861 ATACTCCAAC
* *
22680871 GAAGCTCACAAGAGTTGAACA
1 GAAGCTCAAAAGAGCTGAACA
*
22680892 GAAGCTCAAAAGAACTGAACA
1 GAAGCTCAAAAGAGCTGAACA
22680913 GAAGCTCAAAAGAGCTGAACA
1 GAAGCTCAAAAGAGCTGAACA
* * * *
22680934 AAAGCTCATAAGAACTTAACA
1 GAAGCTCAAAAGAGCTGAACA
22680955 GAAGCTCAAAAGAGCTGA
1 GAAGCTCAAAAGAGCTGA
22680973 TCCACCCAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.13
Consensus pattern (21 bp):
GAAGCTCAAAAGAGCTGAACA
Found at i:22680932 original size:42 final size:42
Alignment explanation
Indices: 22680871--22680972 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
22680861 ATACTCCAAC
* * *
22680871 GAAGCTCACAAGAGTTGAACAGAAGCTCAAAAGAACTGAACA
1 GAAGCTCAAAAGAGCTGAACAAAAGCTCAAAAGAACTGAACA
* *
22680913 GAAGCTCAAAAGAGCTGAACAAAAGCTCATAAGAACTTAACA
1 GAAGCTCAAAAGAGCTGAACAAAAGCTCAAAAGAACTGAACA
22680955 GAAGCTCAAAAGAGCTGA
1 GAAGCTCAAAAGAGCTGA
22680973 TCCACCCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.13
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTGAACAAAAGCTCAAAAGAACTGAACA
Found at i:22682833 original size:9 final size:9
Alignment explanation
Indices: 22682819--22682846 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22682809 TAAGATCTCT
22682819 TTATTTTCA
1 TTATTTTCA
22682828 TTATTTTCA
1 TTATTTTCA
22682837 TTATTTTCA
1 TTATTTTCA
22682846 T
1 T
22682847 CTTCATGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTCA
Found at i:22685231 original size:67 final size:65
Alignment explanation
Indices: 22685123--22685300 Score: 175
Period size: 67 Copynumber: 2.7 Consensus size: 65
22685113 AACACTTTGT
* * * * * *
22685123 ACCACCCATGTGACCTAGC--CAGT-TTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACC
1 ACCACCCATGCGACCTAGCTACA-TCATATCCCGTAGCTCTCTTGTCTACATAGTG---TACACA
*
22685185 TGGA
62 TAGA
* *
22685189 ACCACGCATGCGACCTAGCTACAT-ATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGT
1 ACCACCCATGCGACCTAGCTACATCATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGA
*
22685253 ATCACCCATGCGACCTAGCTACATCATAATCTCTCGTAGCTCTCTTGT
1 ACCACCCATGCGACCTAGCTACATCAT-ATC-C-CGTAGCTCTCTTGT
22685301 ACACATGATG
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
64 28 0.29
65 2 0.02
66 20 0.21
67 29 0.31
68 16 0.17
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.30
Consensus pattern (65 bp):
ACCACCCATGCGACCTAGCTACATCATATCCCGTAGCTCTCTTGTCTACATAGTGTACACATAGA
Found at i:22688795 original size:27 final size:27
Alignment explanation
Indices: 22688765--22688942 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22688755 ATATTGAGTC
* * * *
22688765 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22688792 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22688819 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22688847 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22688874 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22688901 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22688928 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22688943 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22688904 original size:82 final size:81
Alignment explanation
Indices: 22688786--22688941 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22688776 TGCTATATAA
* *
22688786 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22688851 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22688868 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22688932 CACTTAGTGC
65 CACTTAGTGC
22688942 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22692645 original size:27 final size:27
Alignment explanation
Indices: 22692613--22692666 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22692603 GGGAGTATGT
22692613 ATACGATGGGGAATCAATAAAATGTTA
1 ATACGATGGGGAATCAATAAAATGTTA
22692640 ATACGATGGGGAATCAATAAAATGTTA
1 ATACGATGGGGAATCAATAAAATGTTA
22692667 CTGCAAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (27 bp):
ATACGATGGGGAATCAATAAAATGTTA
Found at i:22694779 original size:42 final size:41
Alignment explanation
Indices: 22694727--22694832 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 41
22694717 ATAGCCCAGC
*
22694727 TATGGTCTTACACAAAGTCTTATATCGATGTCATATC-CTAGA
1 TATGGTCTTACACAAAGTCTTATATAGATGTCATATCTC-A-A
* *
22694769 TATGGTCTTACGCGAAGTCTTATATAGATGTCATATCTCAA
1 TATGGTCTTACACAAAGTCTTATATAGATGTCATATCTCAA
22694810 TCATGGTCTTACACAAAGTCTTA
1 T-ATGGTCTTACACAAAGTCTTA
22694833 GTAACCCTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.04
42 54 0.95
43 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (41 bp):
TATGGTCTTACACAAAGTCTTATATAGATGTCATATCTCAA
Found at i:22699175 original size:12 final size:12
Alignment explanation
Indices: 22699158--22699188 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22699148 GCCCACTACT
22699158 TTACTCACCACC
1 TTACTCACCACC
22699170 TTACTCACCACC
1 TTACTCACCACC
*
22699182 ATACTCA
1 TTACTCA
22699189 TCTGCCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (12 bp):
TTACTCACCACC
Found at i:22699268 original size:33 final size:33
Alignment explanation
Indices: 22699214--22699352 Score: 104
Period size: 33 Copynumber: 4.2 Consensus size: 33
22699204 GCAACAGTTA
* * *
22699214 CACCCTCTCCATCAGCTTCTACCATTTAAACAT
1 CACCCTCTCTAACAGCTTCTACCACTTAAACAT
* * * * *
22699247 TACCTTTTCTAACAGCTTCTACCCCTTCAACAT
1 CACCCTCTCTAACAGCTTCTACCACTTAAACAT
* *
22699280 CACCCTCTCTAGCAGCTTCTA-CACCTTCAACAT
1 CACCCTCTCTAACAGCTTCTACCA-CTTAAACAT
* * *
22699313 CACCCT-TCTTAGCAGCTTTTACC-CATTTAACAT
1 CACCCTCTC-TAACAGCTTCTACCAC-TTAAACAT
*
22699346 CATCCTC
1 CACCCTC
22699353 CCTATTAAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
32 4 0.05
33 80 0.94
34 1 0.01
ACGTcount: A:0.24, C:0.39, G:0.04, T:0.32
Consensus pattern (33 bp):
CACCCTCTCTAACAGCTTCTACCACTTAAACAT
Found at i:22707688 original size:27 final size:27
Alignment explanation
Indices: 22707658--22707959 Score: 389
Period size: 27 Copynumber: 11.2 Consensus size: 27
22707648 CGATTTACAA
*
22707658 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
22707685 AATTACTGAAATACCCTTGTACGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
22707712 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
22707739 AATTA-TCGAAATAACC-TGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* *
22707765 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
22707792 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
22707819 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
22707846 AATTACTAAAATA-CCTCTGTAGGGTAG
1 AATTACTGAAATACCCT-TGTAGGGTAG
*
22707873 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
22707900 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
22707927 AATTAC-CAAGATACCCTCGTGGGGTAA
1 AATTACTGAA-ATACCCTTGTAGGGTAG
22707954 AATTAC
1 AATTAC
22707960 CATTTTGCCC
Statistics
Matches: 244, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
26 28 0.11
27 212 0.87
28 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:22708381 original size:22 final size:22
Alignment explanation
Indices: 22708351--22708412 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
22708341 AATTATTCTG
* *
22708351 ATTATGGCTTTGCGCCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
22708373 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
22708395 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
22708413 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:22708601 original size:27 final size:27
Alignment explanation
Indices: 22708571--22708674 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
22708561 ATTCTGTTAA
* *
22708571 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
22708598 GTGGTTATGCCACAAATATCTGTTT-TG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
22708625 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
22708652 GTGACTCTGTCACAATATCTGTT
1 GTGGCTCTGCCACAATATCTGTT
22708675 ATGGCAGCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.15
27 46 0.70
28 10 0.15
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:22708804 original size:6 final size:6
Alignment explanation
Indices: 22708795--22708836 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
22708785 TTGCATTCAC
*
22708795 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCT
22708837 CTTTTTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 26 0.84
7 3 0.10
8 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:22718383 original size:6 final size:6
Alignment explanation
Indices: 22718372--22718404 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
22718362 ACGCAAGTCT
22718372 TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA TCC
1 TCCAAA TCCAAA TCCAAA TCCAAA TCCAAA TCC
22718405 CAATGTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (6 bp):
TCCAAA
Found at i:22718913 original size:17 final size:16
Alignment explanation
Indices: 22718893--22718963 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 16
22718883 TTTATGGTAA
22718893 TTTTATTATTATTAAAT
1 TTTTATTATT-TTAAAT
22718910 TTTTATTATTTTAGGAAGT
1 TTTTATTATTTTA--AA-T
*
22718929 TTTTATT-TTTATTAA-
1 TTTTATTATTT-TAAAT
*
22718944 TTTTA-AATTTTAAAT
1 TTTTATTATTTTAAAT
22718959 TTTTA
1 TTTTA
22718964 AAAGGTCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
14 3 0.07
15 13 0.29
16 3 0.07
17 12 0.27
18 5 0.11
19 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTATTATTTTAAAT
Found at i:22718933 original size:19 final size:17
Alignment explanation
Indices: 22718893--22718963 Score: 62
Period size: 17 Copynumber: 4.3 Consensus size: 17
22718883 TTTATGGTAA
22718893 TTTTATTATTATTAAAT
1 TTTTATTATTATTAAAT
22718910 TTTTATTATT-TTAGGAAGT
1 TTTTATTATTATTA--AA-T
*
22718929 TTTTATTTTTATT-AA-
1 TTTTATTATTATTAAAT
*
22718944 TTTTA-AATT-TTAAAT
1 TTTTATTATTATTAAAT
22718959 TTTTA
1 TTTTA
22718964 AAAGGTCTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
13 2 0.04
14 4 0.09
15 10 0.22
16 3 0.07
17 12 0.27
18 2 0.04
19 10 0.22
20 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTATTATTATTAAAT
Found at i:22725818 original size:26 final size:25
Alignment explanation
Indices: 22725789--22725896 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 25
22725779 TGGTACAAAT
*
22725789 TGATAATGAGTTTGGTAAATGTTCCA
1 TGATAATG-GTTAGGTAAATGTTCCA
*
22725815 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
22725841 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
22725867 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
22725893 TGAT
1 TGAT
22725897 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.04
26 71 0.93
27 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:22725858 original size:52 final size:52
Alignment explanation
Indices: 22725789--22725896 Score: 180
Period size: 52 Copynumber: 2.1 Consensus size: 52
22725779 TGGTACAAAT
*
22725789 TGATAATGAGTTTGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
22725841 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22725893 TGAT
1 TGAT
22725897 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:22726055 original size:50 final size:50
Alignment explanation
Indices: 22725980--22726081 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
22725970 AAAAGAACAA
* *
22725980 AGTTTTGTCCATCTTTGTTCATCATAGCCTAAAGTTAGAGAAGAGAAAGG
1 AGTTTTGTCCATCTTTGTTAATCATAACCTAAAGTTAGAGAAGAGAAAGG
22726030 AGTTTTGTCCATCTTTGTTAATCATAACCTAAAGTTAGAGAAGAGAAAGG
1 AGTTTTGTCCATCTTTGTTAATCATAACCTAAAGTTAGAGAAGAGAAAGG
22726080 AG
1 AG
22726082 AGGAGAAAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (50 bp):
AGTTTTGTCCATCTTTGTTAATCATAACCTAAAGTTAGAGAAGAGAAAGG
Found at i:22727465 original size:26 final size:26
Alignment explanation
Indices: 22727436--22727488 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22727426 TTTACAGTTT
22727436 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
22727462 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
22727488 T
1 T
22727489 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:22729660 original size:12 final size:12
Alignment explanation
Indices: 22729643--22729679 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
22729633 TTTTTTTAAA
*
22729643 AAAAATAAAATG
1 AAAAATAAAAAG
22729655 AAAAATAAAAAG
1 AAAAATAAAAAG
*
22729667 AAATATAAAAAG
1 AAAAATAAAAAG
22729679 A
1 A
22729680 TCAAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:22730030 original size:21 final size:24
Alignment explanation
Indices: 22729979--22730034 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 24
22729969 TCTGCTAAAC
*
22729979 ATTTTTGGGTTACGGGCTTGTAAT
1 ATTTTTGGGCTACGGGCTTGTAAT
22730003 A-TTTTGGGCTA-GGG-TT-TAAT
1 ATTTTTGGGCTACGGGCTTGTAAT
22730023 ATTTTTGGGCTA
1 ATTTTTGGGCTA
22730035 TTAAGTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.17
21 12 0.40
22 3 0.10
23 9 0.30
24 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.29, T:0.46
Consensus pattern (24 bp):
ATTTTTGGGCTACGGGCTTGTAAT
Found at i:22730140 original size:40 final size:39
Alignment explanation
Indices: 22730091--22730261 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 39
22730081 GCATTTGGAT
*
22730091 AAAAACGCCGCTACAGATCGAGCATTAGCGGCATTTTTC
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCATTTTTC
* *
22730130 AAAAAGCGCCGCTATAGATCGAGCATTAGAGACATTTTTC
1 AAAAA-CGCCGCTATAGATCGAGCATTAGCGGCATTTTTC
* *
22730170 AAAAAGCGCCGCTATAGATTGAGCATTAGCGGCACTTTTTG
1 AAAAA-CGCCGCTATAGATCGAGCATTAGCGGCA-TTTTTC
* *
22730211 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGC-ATTTTTC
*
22730251 AAAAATGCCGC
1 AAAAACGCCGC
22730262 AAAAAAATTA
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 5 0.04
40 103 0.87
41 10 0.08
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (39 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCATTTTTC
Found at i:22730349 original size:40 final size:39
Alignment explanation
Indices: 22730299--22730593 Score: 174
Period size: 40 Copynumber: 7.6 Consensus size: 39
22730289 GCTTTAGTGG
22730299 CATTAGCGGCGCTTTTAGAAAAACGCCGCTATAGATCGAC
1 CATTAGCGGCGCTTTT-GAAAAACGCCGCTATAGATCGAC
* * * * *
22730339 CATTCGCGGCGCTTTTTAAAAACTCCACTATAGGTCGAC
1 CATTAGCGGCGCTTTTGAAAAACGCCGCTATAGATCGAC
* * * * * * *
22730378 CATTAGTGGCGCTTTTTGAAAAATGCCGCAAAAAAATCAAG
1 CATTAGCGGCGC-TTTTGAAAAACGCCGC-TATAGATCGAC
* * ** **** * * *
22730419 CA-CA-CGCCG-TTGTTTTATGTTG-AGCTTTAG-T-G-G
1 CATTAGCGGCGCTT-TTGAAAAACGCCGCTATAGATCGAC
* * **
22730452 CATTAGCGGTGCTTTTAGAAAAACACCGCTATAGATTAAC
1 CATTAGCGGCGCTTTT-GAAAAACGCCGCTATAGATCGAC
* *
22730492 CATTAGCGGCGCTTTTTAGAAACGCCGCTATA-AGTCGAC
1 CATTAGCGGCGCTTTTGAAAAACGCCGCTATAGA-TCGAC
*
22730531 CATTAGCGGCGCTTTCTGAAAAACGCCGCTATAGGTCGAC
1 CATTAGCGGCGCTTT-TGAAAAACGCCGCTATAGATCGAC
* *
22730571 CATTAGTGGTGCTTTTTGAAAAA
1 CATTAGCGGCGC-TTTTGAAAAA
22730594 TTCCGCAAAA
Statistics
Matches: 184, Mismatches: 56, Indels: 30
0.68 0.21 0.11
Matches are distributed among these distances:
33 3 0.02
34 1 0.01
35 6 0.03
36 4 0.02
37 10 0.05
38 7 0.04
39 63 0.34
40 80 0.43
41 10 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (39 bp):
CATTAGCGGCGCTTTTGAAAAACGCCGCTATAGATCGAC
Found at i:22730370 original size:39 final size:39
Alignment explanation
Indices: 22730299--22730400 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
22730289 GCTTTAGTGG
* *
22730299 CATTAGCGGCGCTTTTAGAAAAACGCCGCTATAGATCGAC
1 CATTAGCGGCGCTTTT-TAAAAACGCCACTATAGATCGAC
* * *
22730339 CATTCGCGGCGCTTTTTAAAAACTCCACTATAGGTCGAC
1 CATTAGCGGCGCTTTTTAAAAACGCCACTATAGATCGAC
*
22730378 CATTAGTGGCGCTTTTTGAAAAA
1 CATTAGCGGCGCTTTTT-AAAAA
22730401 TGCCGCAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 34 0.63
40 20 0.37
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (39 bp):
CATTAGCGGCGCTTTTTAAAAACGCCACTATAGATCGAC
Found at i:22730501 original size:153 final size:145
Alignment explanation
Indices: 22730178--22730559 Score: 521
Period size: 153 Copynumber: 2.6 Consensus size: 145
22730168 TCAAAAAGCG
* * * *
22730178 CCGCTATAGATTGAGCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGC
1 CCGCTATAGATTGACCATTAGCGGCGCTTTTT-AAAAACGCCGCTATAGGTCGACCATTAGCGGC
* *
22730243 GCTTTTTAAAAAATGCCGCAAAAAAATTAAGCACACGCCGTGTTGAGCTTTAGTGGCATTAGCGG
65 GCTTTTTGAAAAATGCCGCAAAAAAATCAAGCACACGCCGTGTTGAGCTTTAGTGGCATTAGCGG
*
22730308 CGCTTTTAGAAAAACG
130 CGCTTTTAGAAAAACA
* * * * *
22730324 CCGCTATAGATCGACCATTCGCGGCGCTTTTTAAAAACTCCACTATAGGTCGACCATTAGTGGCG
1 CCGCTATAGATTGACCATTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTCGACCATTAGCGGCG
22730389 CTTTTTGAAAAATGCCGCAAAAAAATCAAGCACACGCCGTTGTTTTATGTTGAGCTTTAGTGGCA
66 CTTTTTGAAAAATGCCGCAAAAAAATCAAGCACACGCC---G-----TGTTGAGCTTTAGTGGCA
*
22730454 TTAGCGGTGCTTTTAGAAAAACA
123 TTAGCGGCGCTTTTAGAAAAACA
* * *
22730477 CCGCTATAGATTAACCATTAGCGGCGCTTTTTAGAAACGCCGCTATAAGTCGACCATTAGCGGCG
1 CCGCTATAGATTGACCATTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTCGACCATTAGCGGCG
* *
22730542 CTTTCTGAAAAACGCCGC
66 CTTTTTGAAAAATGCCGC
22730560 TATAGGTCGA
Statistics
Matches: 205, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
145 64 0.31
146 28 0.14
148 1 0.00
153 112 0.55
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (145 bp):
CCGCTATAGATTGACCATTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTCGACCATTAGCGGCG
CTTTTTGAAAAATGCCGCAAAAAAATCAAGCACACGCCGTGTTGAGCTTTAGTGGCATTAGCGGC
GCTTTTAGAAAAACA
Found at i:22730574 original size:193 final size:195
Alignment explanation
Indices: 22730299--22730701 Score: 557
Period size: 193 Copynumber: 2.1 Consensus size: 195
22730289 GCTTTAGTGG
* * *
22730299 CATTAGCGGCGC-TTTTAGAAAAACGCCGCTATAGATCGACCATTCGCGGCGCTTTTTAAAAACT
1 CATTAGCGGCGCTTTTTAG-AAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTTGAAAAACG
22730363 CCACTATAGGTCGACCATTAGTGGCGCTTTTTGAAAAATGCCGCAAAAAAATCAAGCAC-ACGCC
65 CCACTATAGGTCGACCATTAGTGGCGCTTTTTGAAAAATGCCGCAAAAAAATCAAGCACAACGCC
* * * * *
22730427 GTT-GTTTTATGTTGAGCTTTAGTGGCA-TTAGCGGTGCTTTTAGAAAAACACCGCTATAGATTA
130 -TTCGTTTTATGTTAAACTTTAGTGGCATTTAGCGGCGCTTTTAGAAAAACACCACTATAGATCA
22730490 AC
194 AC
22730492 CATTAGCGGCGCTTTTTAG-AAACGCCGCTATA-AGTCGACCATTAGCGGCGCTTTCTGAAAAAC
1 CATTAGCGGCGCTTTTTAGAAAACGCCGCTATAGA-TCGACCATTAGCGGCGCTTT-TGAAAAAC
* * * * * *
22730555 GCCGCTATAGGTCGACCATTAGTGGTGCTTTTTGAAAAATTCCGCAAAAAAATTAAGCACAATGT
64 GCCACTATAGGTCGACCATTAGTGGCGCTTTTTGAAAAATGCCGCAAAAAAATCAAGCACAACGC
* * *
22730620 CTTCGTTTTATGTTAAACTTTAGTGGCATTTAGCGGCGCTTTTTGAAAAACGCCACTATAGATCG
129 CTTCGTTTTATGTTAAACTTTAGTGGCATTTAGCGGCGCTTTTAGAAAAACACCACTATAGATCA
*
22730685 AG
194 AC
*
22730687 CTTTAGCGGCGCTTT
1 CATTAGCGGCGCTTT
22730702 ACCAAAAAGG
Statistics
Matches: 185, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
191 1 0.01
192 32 0.17
193 76 0.41
194 31 0.17
195 45 0.24
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (195 bp):
CATTAGCGGCGCTTTTTAGAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTTGAAAAACGC
CACTATAGGTCGACCATTAGTGGCGCTTTTTGAAAAATGCCGCAAAAAAATCAAGCACAACGCCT
TCGTTTTATGTTAAACTTTAGTGGCATTTAGCGGCGCTTTTAGAAAAACACCACTATAGATCAAC
Found at i:22731015 original size:17 final size:18
Alignment explanation
Indices: 22730993--22731026 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22730983 TATTAATTTT
22730993 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
22731010 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
22731027 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:22731555 original size:18 final size:18
Alignment explanation
Indices: 22731534--22731570 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22731524 TTTCTTTCCC
22731534 CCCAATGTCCTCTTCTTT
1 CCCAATGTCCTCTTCTTT
* *
22731552 CCCAATTTCCTTTTCTTT
1 CCCAATGTCCTCTTCTTT
22731570 C
1 C
22731571 TTAGCCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.38, G:0.03, T:0.49
Consensus pattern (18 bp):
CCCAATGTCCTCTTCTTT
Found at i:22731635 original size:18 final size:18
Alignment explanation
Indices: 22731608--22731642 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22731598 TTCTCTCCCT
22731608 CAATTCCCTTTTCTTTCC
1 CAATTCCCTTTTCTTTCC
* *
22731626 CAATTTCCTTTTTTTTC
1 CAATTCCCTTTTCTTTC
22731643 TCATCCTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.31, G:0.00, T:0.57
Consensus pattern (18 bp):
CAATTCCCTTTTCTTTCC
Found at i:22731934 original size:61 final size:62
Alignment explanation
Indices: 22731860--22731988 Score: 163
Period size: 64 Copynumber: 2.1 Consensus size: 62
22731850 CTTCCTTTAA
22731860 TTTTCAATCGTCTTA-AAATTTTAGA-AATTTTAATTTGGGCTTCTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATTTTAGATAATTTTAATTTGGGCTTCTTATTTCTATTATA-TAG
* * ** ** *
22731921 TTTTCAATTGTCTTAGAAATTTTTGATTTTTTTTTGTTTGGGTTTCTTATTTCTATTATATAG
1 TTTTCAATCGTCTTAGAAATTTTAGA-TAATTTTAATTTGGGCTTCTTATTTCTATTATATAG
22731984 TTTTC
1 TTTTC
22731989 TAGTTTCCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 14 0.24
62 9 0.16
63 8 0.14
64 27 0.47
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (62 bp):
TTTTCAATCGTCTTAGAAATTTTAGATAATTTTAATTTGGGCTTCTTATTTCTATTATATAG
Found at i:22732416 original size:21 final size:21
Alignment explanation
Indices: 22732386--22732429 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22732376 AGAAGCTTTT
22732386 ATCTTCTTCCAACAGATTGTC
1 ATCTTCTTCCAACAGATTGTC
*
22732407 ATCTTGTTCCAACAGATTGTC
1 ATCTTCTTCCAACAGATTGTC
22732428 AT
1 AT
22732430 ATATATTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (21 bp):
ATCTTCTTCCAACAGATTGTC
Found at i:22734516 original size:26 final size:26
Alignment explanation
Indices: 22734487--22734540 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
22734477 ATATATCCAT
22734487 TAAAACTAAATATTTGTATAAGATAA
1 TAAAACTAAATATTTGTATAAGATAA
22734513 TAAAACTAAATATTTGTATAAGATAA
1 TAAAACTAAATATTTGTATAAGATAA
22734539 TA
1 TA
22734541 CAAGCCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (26 bp):
TAAAACTAAATATTTGTATAAGATAA
Found at i:22735769 original size:23 final size:23
Alignment explanation
Indices: 22735742--22735843 Score: 168
Period size: 23 Copynumber: 4.4 Consensus size: 23
22735732 TGGTTGCTGA
22735742 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
22735765 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
22735788 TGTTTAAATGTTGTAAATTAAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
22735811 TATTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
22735834 TGTTTAAATG
1 TGTTTAAATG
22735844 TTATTTGTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:22736392 original size:42 final size:42
Alignment explanation
Indices: 22736325--22736623 Score: 253
Period size: 43 Copynumber: 7.0 Consensus size: 42
22736315 ATTTGATATG
* *
22736325 GTCTTTAGTGGCGTTTTTGGGGAAAGCATCGCTAAAGGTCAT
1 GTCTTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCAT
** * * **
22736367 GTCTTTAGCGGCGTTTGAGGAGAAAGCGTCGTTAAAAATCAT
1 GTCTTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCAT
* * * *
22736409 GTATTTAGTGGCGTTTTTGGGGAAAGTGTCGCTAAAGGTTATT
1 GTCTTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCA-T
* * * *
22736452 TTCTTTAGCGG-TTTTTTTGGGAAAGCGCCGCTAAAGGTCAT
1 GTCTTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCAT
* * * * *
22736493 ATCCTTTAGCAGCGTTTTTGGGGAAGGCGCCGCTAAAGTTCAT
1 GT-CTTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCAT
* **
22736536 GTTCTTTAGCGACGTTTTT-ATGAGAAGCGTCGCTAAAGGTCAT
1 G-TCTTTAGCGGCGTTTTTGGGGA-AAGCGTCGCTAAAGGTCAT
** * ** *
22736579 GTTCTTTAGCAACATTTTT-ATGAGAAGCGCCGCTAAAGGTCAT
1 G-TCTTTAGCGGCGTTTTTGGGGA-AAGCGTCGCTAAAGGTCAT
22736622 GT
1 GT
22736624 TCTATAGAGG
Statistics
Matches: 209, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.01
42 100 0.48
43 106 0.51
44 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
GTCTTTAGCGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCAT
Found at i:22736441 original size:84 final size:84
Alignment explanation
Indices: 22736328--22736552 Score: 236
Period size: 85 Copynumber: 2.7 Consensus size: 84
22736318 TGATATGGTC
*
22736328 TTTAGTGGCGTTTTTGGGGAAAGCATCGCTAAAGGTCATGTCTTTAGCGGCGTTTGAGGAGAAAG
1 TTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTCTTTAGCGGCGTTTGAGG-GAAAG
* * *
22736393 CGTCGTTAAAAATCATGT-A
65 CGCCGCTAAAAATCATATCA
* * * ** **
22736412 TTTAGTGGCGTTTTTGGGGAAAGTGTCGCTAAAGGTTATTTTCTTTAGCGGTTTTTTTGGGAAAG
1 TTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCA-TGTCTTTAGCGGCGTTTGAGGGAAAG
** *
22736477 CGCCGCTAAAGGTCATATCC
65 CGCCGCTAAAAATCATATCA
** * * * *
22736497 TTTAGCAGCGTTTTTGGGGAAGGCGCCGCTAAAGTTCATGTTCTTTAGCGACGTTT
1 TTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATG-TCTTTAGCGGCGTTT
22736553 TTATGAGAAG
Statistics
Matches: 113, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
84 54 0.48
85 59 0.52
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.35
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTCTTTAGCGGCGTTTGAGGGAAAGC
GCCGCTAAAAATCATATCA
Found at i:22736640 original size:86 final size:86
Alignment explanation
Indices: 22736474--22736640 Score: 210
Period size: 86 Copynumber: 1.9 Consensus size: 86
22736464 TTTTTTGGGA
* * * *
22736474 AAGCGCCGCTAAAGGTCATATCCTTTAGCAGCGTTTTTGGGGAAGGCGCCGCTAAAGTTCATGTT
1 AAGCGCCGCTAAAGGTCATATCCTTTAGCAACATTTTTGGAGAAGGCGCCGCTAAAGGTCATGTT
* * *
22736539 CTTTAGCGACGTTTTTATGAG
66 CTATAGAGACATTTTTATGAG
* * * *
22736560 AAGCGTCGCTAAAGGTCATGTTCTTTAGCAACATTTTTATGAGAA-GCGCCGCTAAAGGTCATGT
1 AAGCGCCGCTAAAGGTCATATCCTTTAGCAACATTTTT-GGAGAAGGCGCCGCTAAAGGTCATGT
*
22736624 TCTATAGAGGCATTTTT
65 TCTATAGAGACATTTTT
22736641 TACAAAAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 64 0.94
87 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (86 bp):
AAGCGCCGCTAAAGGTCATATCCTTTAGCAACATTTTTGGAGAAGGCGCCGCTAAAGGTCATGTT
CTATAGAGACATTTTTATGAG
Found at i:22740951 original size:16 final size:18
Alignment explanation
Indices: 22740930--22740967 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22740920 GATTGATATT
22740930 GAAATGAA-A-AAGATGA
1 GAAATGAATATAAGATGA
*
22740946 GAAATGAATATGAGATGA
1 GAAATGAATATAAGATGA
22740964 GAAA
1 GAAA
22740968 ATATTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (18 bp):
GAAATGAATATAAGATGA
Found at i:22740973 original size:43 final size:43
Alignment explanation
Indices: 22740925--22741053 Score: 204
Period size: 43 Copynumber: 3.0 Consensus size: 43
22740915 TATGTGATTG
* * *
22740925 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
22740968 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
* * *
22741011 ATATTGAAGTGGCAAATATGAGAAATGATTATGAAATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
22741054 TGAAATATGA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
Found at i:22741051 original size:18 final size:19
Alignment explanation
Indices: 22741028--22741066 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
22741018 AGTGGCAAAT
*
22741028 ATGAGAAATG-ATTATGAA
1 ATGAGAAATGAAATATGAA
22741046 ATGAGAAATGAAATATGAA
1 ATGAGAAATGAAATATGAA
22741065 AT
1 AT
22741067 CATGAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (19 bp):
ATGAGAAATGAAATATGAA
Found at i:22744026 original size:18 final size:18
Alignment explanation
Indices: 22744009--22744043 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22743999 TTAAATATAT
*
22744009 TAAAAAT-AGTAATAATA
1 TAAAAATAACTAATAATA
22744026 TAAAAATAACTAATAATA
1 TAAAAATAACTAATAATA
22744044 ACGATGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAAAATAACTAATAATA
Found at i:22744227 original size:23 final size:23
Alignment explanation
Indices: 22744183--22744403 Score: 173
Period size: 23 Copynumber: 9.2 Consensus size: 23
22744173 GATACTACAT
*
22744183 AAATATGTACAT-AT-ATATTAA
1 AAATATATACATAATAATATTAA
*
22744204 AAATAAATACATAATAATATTAA
1 AAATATATACATAATAATATTAA
* * *
22744227 AAGTATGTACATAATATAGTGTTAA
1 AAATATATACATAATA-A-TATTAA
*
22744252 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATA-A--TATT-AA
22744279 AAATATATACATAAGATAATA-TAA
1 AAATATATACAT-A-ATAATATTAA
* *
22744303 AAATATATACATGAAATAGTATAAA
1 AAATATATACAT--AATAATATTAA
*
22744328 AAATATATA-ACTAATACTATTAA
1 AAATATATACA-TAATAATATTAA
22744351 AAATATATACATAAT-ATATATAA
1 AAATATATACATAATAATAT-TAA
* *
22744374 AAACATATACAATATATATATATTAG
1 AAATATATAC-ATA-ATA-ATATTAA
22744400 AAAT
1 AAAT
22744404 GATAATAATA
Statistics
Matches: 163, Mismatches: 20, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
21 10 0.06
22 5 0.03
23 54 0.33
24 25 0.15
25 37 0.23
26 10 0.06
27 17 0.10
28 2 0.01
29 3 0.02
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (23 bp):
AAATATATACATAATAATATTAA
Found at i:22744551 original size:22 final size:18
Alignment explanation
Indices: 22744500--22744538 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
22744490 ACTAGTACTA
*
22744500 ATAATATTAATAATAAAT
1 ATAATAATAATAATAAAT
22744518 ATAATAATAATAATAAAT
1 ATAATAATAATAATAAAT
22744536 ATA
1 ATA
22744539 TATGCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATAATAATAAAT
Found at i:22755079 original size:21 final size:21
Alignment explanation
Indices: 22755041--22755080 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
22755031 CTCACATCAA
* **
22755041 TTTTTTCTTTTCTTTTTCTAG
1 TTTTTTCCTTTCCCTTTCTAG
22755062 TTTTTTCCTTTCCCTTTCT
1 TTTTTTCCTTTCCCTTTCT
22755081 TTTCGTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTTCCTTTCCCTTTCTAG
Found at i:22757312 original size:17 final size:16
Alignment explanation
Indices: 22757292--22757442 Score: 96
Period size: 17 Copynumber: 9.4 Consensus size: 16
22757282 ATAAAAACAG
22757292 TATATATTATTTTTAAT
1 TATATATTATTTTT-AT
*
22757309 TATATGTTA-TTTTAT
1 TATATATTATTTTTAT
* *
22757324 TATTTA-TA-TTTCAT
1 TATATATTATTTTTAT
*
22757338 TATATTTTATATTTTAT
1 TATATATTAT-TTTTAT
* *
22757355 TACATATAATATTTTAT
1 TATATATTAT-TTTTAT
22757372 TATATATTATTTCTTA-
1 TATATATTATTT-TTAT
* **
22757388 TATTATCTTCCTTTTAT
1 TA-TATATTATTTTTAT
**
22757405 TATATATTA-TTACAT
1 TATATATTATTTTTAT
* *
22757420 TATTTATTATTTATTAG
1 TATATATTATTT-TTAT
22757437 TATATA
1 TATATA
22757443 AAAATTAAAA
Statistics
Matches: 102, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
14 11 0.11
15 20 0.20
16 18 0.18
17 53 0.52
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (16 bp):
TATATATTATTTTTAT
Found at i:22757339 original size:29 final size:31
Alignment explanation
Indices: 22757295--22757383 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 31
22757285 AAAACAGTAT
* *
22757295 ATATTATTTTTAATTATATGTTATTTTATT-
1 ATATTATATTTAATTATATATTATTTTATTA
* *
22757325 AT-TTATATTTCATTATATTTTATATTTTATTA
1 ATATTATATTTAATTATA-TAT-TATTTTATTA
* *
22757357 CATATAATATTTTATTATATATTATTT
1 -ATATTATATTTAATTATATATTATTT
22757384 CTTATATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
29 13 0.27
30 4 0.08
31 9 0.19
32 5 0.10
33 4 0.08
34 13 0.27
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (31 bp):
ATATTATATTTAATTATATATTATTTTATTA
Found at i:22757347 original size:24 final size:24
Alignment explanation
Indices: 22757316--22757391 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
22757306 AATTATATGT
22757316 TATTTTATTATTTATATTTCATTA
1 TATTTTATTATTTATATTTCATTA
*
22757340 TATTTTA-TATTT-TATTACATATAA
1 TATTTTATTATTTATATTTCAT-T-A
*
22757364 TATTTTATTATATATTATTTC-TTA
1 TATTTTATTATTTA-TATTTCATTA
22757388 TATT
1 TATT
22757392 ATCTTCCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 7 0.16
23 6 0.14
24 20 0.45
25 5 0.11
26 1 0.02
27 5 0.11
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTTTATTATTTATATTTCATTA
Found at i:22757410 original size:48 final size:47
Alignment explanation
Indices: 22757292--22757435 Score: 136
Period size: 48 Copynumber: 3.0 Consensus size: 47
22757282 ATAAAAACAG
* *
22757292 TATATATTAT-TTTTAATTATATGTTATTTTATTATTTA-TATTTCAT
1 TATATTTTATATTTT-ATTATATATTATTTTATTATTTATTATTTCAT
* *
22757338 TATATTTTATATTTTATTACATATAATATTTTATTATATATTATTTC-T
1 TATATTTTATATTTTATT--ATATATTATTTTATTATTTATTATTTCAT
* **
22757386 TATATTATCT-TCCTTTTATTATATATTATTACATTATTTATTATTT-AT
1 TATATT-T-TAT-ATTTTATTATATATTATTTTATTATTTATTATTTCAT
22757434 TA
1 TA
22757436 GTATATAAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
46 12 0.15
47 4 0.05
48 49 0.60
49 8 0.10
50 8 0.10
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (47 bp):
TATATTTTATATTTTATTATATATTATTTTATTATTTATTATTTCAT
Found at i:22759039 original size:28 final size:28
Alignment explanation
Indices: 22759002--22759063 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
22758992 CACACAAGTA
* * *
22759002 ATATTCGAATTTGT-TCACACGAGCTGTG
1 ATATTTGAATTT-TCTCACACAAACTGTG
*
22759030 ATATTTGAATTTTCTCACACAAATTGTG
1 ATATTTGAATTTTCTCACACAAACTGTG
22759058 ATATTT
1 ATATTT
22759064 TGGGTTGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (28 bp):
ATATTTGAATTTTCTCACACAAACTGTG
Found at i:22762315 original size:29 final size:31
Alignment explanation
Indices: 22762273--22762331 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
22762263 AATAATTTAA
22762273 GTATTACATTGAATATTTT-TAAAA-TATAT
1 GTATTACATTGAATATTTTATAAAAGTATAT
*
22762302 GTATTATATTGAATATTTTATAAAAGTATA
1 GTATTACATTGAATATTTTATAAAAGTATA
22762332 AGTACTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 18 0.67
30 5 0.19
31 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.47
Consensus pattern (31 bp):
GTATTACATTGAATATTTTATAAAAGTATAT
Found at i:22766285 original size:32 final size:32
Alignment explanation
Indices: 22766244--22766313 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
22766234 ATTTGATTCG
22766244 GTTCGTTCTAGCCCACACTCGAACTTGAAGTA
1 GTTCGTTCTAGCCCACACTCGAACTTGAAGTA
*
22766276 GTTCGTTCTAGCCCACACTCGAATTTGAAGTA
1 GTTCGTTCTAGCCCACACTCGAACTTGAAGTA
22766308 GTTCGT
1 GTTCGT
22766314 GGTACGAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (32 bp):
GTTCGTTCTAGCCCACACTCGAACTTGAAGTA
Found at i:22767700 original size:52 final size:52
Alignment explanation
Indices: 22767622--22768457 Score: 1654
Period size: 52 Copynumber: 16.1 Consensus size: 52
22767612 TGGTACAAAT
22767622 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767674 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767726 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767778 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767830 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767882 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767934 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22767986 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768038 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768090 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768142 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768194 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768246 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768298 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768350 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
22768402 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
22768454 TGAT
1 TGAT
22768458 GGGCATTTCA
Statistics
Matches: 782, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 782 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:22769972 original size:26 final size:26
Alignment explanation
Indices: 22769943--22769995 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
22769933 TTTACAATTT
22769943 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
22769969 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
22769995 T
1 T
22769996 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:22781374 original size:14 final size:15
Alignment explanation
Indices: 22781355--22781384 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22781345 GTTTATTATA
22781355 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
22781369 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
22781384 T
1 T
22781385 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:22783354 original size:43 final size:43
Alignment explanation
Indices: 22783302--22783430 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
22783292 GCTAGTGAAT
*
22783302 AATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* * *
22783345 GATAATATCGGCCTTCGGGCCTAGTAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
* * ** *
22783388 AATGATATCAGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
22783430 A
1 A
22783431 TGAGTTCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 12 0.16
43 62 0.84
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
Found at i:22788566 original size:20 final size:20
Alignment explanation
Indices: 22788541--22788596 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
22788531 AGAAATTGTA
22788541 ATTCTCAAAAAATAAAATTT
1 ATTCTCAAAAAATAAAATTT
22788561 ATTCTCAAAAAATAAAATTT
1 ATTCTCAAAAAATAAAATTT
*
22788581 ATTCTTAAAAAATAAA
1 ATTCTCAAAAAATAAA
22788597 TTCCCACTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTCTCAAAAAATAAAATTT
Found at i:22794059 original size:23 final size:24
Alignment explanation
Indices: 22794021--22794076 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
22794011 AATGAGTTTT
* *
22794021 GTAATGCTTTTCTGGTGTA-TTCA
1 GTAATGCCTTTCTGGTATATTTCA
*
22794044 GTAATGCCTTTGTGGTATATTTCA
1 GTAATGCCTTTCTGGTATATTTCA
22794068 G-AATGCCTT
1 GTAATGCCTT
22794077 GTGTCTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (24 bp):
GTAATGCCTTTCTGGTATATTTCA
Found at i:22795943 original size:8 final size:8
Alignment explanation
Indices: 22795930--22795957 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
22795920 TTTCAAGTAG
22795930 TCACATAT
1 TCACATAT
22795938 TCACATAT
1 TCACATAT
22795946 TCACATAT
1 TCACATAT
22795954 TCAC
1 TCAC
22795958 TTATCTTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (8 bp):
TCACATAT
Found at i:22796488 original size:44 final size:44
Alignment explanation
Indices: 22796425--22796511 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
22796415 CATCTACAAC
22796425 TTTCTAACATGATATTCCCATATTAACTAACTAACAACACCAAA
1 TTTCTAACATGATATTCCCATATTAACTAACTAACAACACCAAA
22796469 TTTCTAACATGATATTCCCATATTAACTAACTAACAACACCAA
1 TTTCTAACATGATATTCCCATATTAACTAACTAACAACACCAA
22796512 TGCATGACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (44 bp):
TTTCTAACATGATATTCCCATATTAACTAACTAACAACACCAAA
Found at i:22797069 original size:18 final size:18
Alignment explanation
Indices: 22797035--22797072 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22797025 CTTTATACAT
22797035 ATTAACTTAATCGATTTA
1 ATTAACTTAATCGATTTA
*
22797053 ATTAA-TTAATTCTATTTA
1 ATTAACTTAA-TCGATTTA
22797071 AT
1 AT
22797073 GGTTTGACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTAACTTAATCGATTTA
Found at i:22798024 original size:20 final size:21
Alignment explanation
Indices: 22797991--22798029 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
22797981 TGATAAAAAT
*
22797991 TAAAAATAATTCCAAAATTAA
1 TAAAAATAAATCCAAAATTAA
22798012 TAAAAA-AAATCCAAAATT
1 TAAAAATAAATCCAAAATT
22798030 TTCAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAATAAATCCAAAATTAA
Found at i:22798091 original size:16 final size:16
Alignment explanation
Indices: 22798072--22798109 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22798062 AAAAATAATT
22798072 AAAAATA-AAATTTTCA
1 AAAAATATAAATTTT-A
*
22798088 AAAATTATAAATTTTA
1 AAAAATATAAATTTTA
22798104 AAAAAT
1 AAAAAT
22798110 TCATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATATAAATTTTA
Found at i:22802029 original size:22 final size:22
Alignment explanation
Indices: 22802003--22802046 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
22801993 TTGTTAATTA
22802003 ATGAATAATCTTAATTGCATCT
1 ATGAATAATCTTAATTGCATCT
22802025 ATGAATAATCTTAATTGCATCT
1 ATGAATAATCTTAATTGCATCT
22802047 TGTTTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (22 bp):
ATGAATAATCTTAATTGCATCT
Found at i:22803912 original size:17 final size:19
Alignment explanation
Indices: 22803879--22803913 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
22803869 GAATAGAATA
22803879 GAAAATAGTGTAAATTGAT
1 GAAAATAGTGTAAATTGAT
22803898 GAAAATA-TG-AAATTGA
1 GAAAATAGTGTAAATTGA
22803914 CTTTGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (19 bp):
GAAAATAGTGTAAATTGAT
Found at i:22811651 original size:40 final size:40
Alignment explanation
Indices: 22811607--22811962 Score: 474
Period size: 40 Copynumber: 8.9 Consensus size: 40
22811597 GGATATAGCT
* *
22811607 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
22811647 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
22811687 ACTCGCACAAATGCCTTCGGGACTGAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
22811727 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
22811767 ACTCGCACAAATGCCTTCGGGACTGAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
22811807 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
22811847 ACTCGCACAAATGCCTTCGGGACTGAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
22811887 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
22811927 ACTCGCACAAATGCCTTCTGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
22811963 CATCCGAATA
Statistics
Matches: 278, Mismatches: 24, Indels: 28
0.84 0.07 0.08
Matches are distributed among these distances:
39 2 0.01
40 274 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:22811728 original size:80 final size:80
Alignment explanation
Indices: 22811607--22811958 Score: 627
Period size: 80 Copynumber: 4.4 Consensus size: 80
22811597 GGATATAGCT
* * *
22811607 ACTCGCTCAAATGCCTTCGGGACAT-AGCCCGG-TTATAGTAACTCGCACCAATGCCTTCGGGAC
1 ACTCGCACAAATGCCTTCGGGAC-TGAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGAC
22811670 TTAGCCCGGATTTGGTA
64 TTAGCCCGGATTTGGTA
22811687 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
22811752 AGCCCGGATTTGGTA
66 AGCCCGGATTTGGTA
22811767 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
22811832 AGCCCGGATTTGGTA
66 AGCCCGGATTTGGTA
22811847 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
22811912 AGCCCGGATTTGGTA
66 AGCCCGGATTTGGTA
* *
22811927 ACTCGCACAAATGCCTTCTGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTGAGCCCGG
22811959 TTATCATCCG
Statistics
Matches: 265, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
79 1 0.00
80 263 0.99
81 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGATTTGGTA
Found at i:22811808 original size:120 final size:120
Alignment explanation
Indices: 22811607--22811958 Score: 571
Period size: 120 Copynumber: 2.9 Consensus size: 120
22811597 GGATATAGCT
* * *
22811607 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACCAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
*
22811671 TAGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTA
65 TAGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
22811727 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
* * * *
22811792 AGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
66 AGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
22811847 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
*
22811912 AGCCCGGATTTGGTAACTCGCACAAATGCCTTCTGGACTTAGCCCGG
66 AGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
22811959 TTATCATCCG
Statistics
Matches: 214, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
120 212 0.99
121 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (120 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:22823240 original size:21 final size:21
Alignment explanation
Indices: 22823216--22823279 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
22823206 CTTTTTTTTC
22823216 TCTTTTTCAGCAACTTCTTCT
1 TCTTTTTCAGCAACTTCTTCT
** *
22823237 TCTTTTTCAGCAACAACTTCC
1 TCTTTTTCAGCAACTTCTTCT
* *
22823258 TCTTCTGCAGCAACTTCCTTCT
1 TCTTTTTCAGCAACTT-CTTCT
22823280 CAATAACAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 30 0.88
22 4 0.12
ACGTcount: A:0.17, C:0.33, G:0.06, T:0.44
Consensus pattern (21 bp):
TCTTTTTCAGCAACTTCTTCT
Found at i:22839960 original size:42 final size:42
Alignment explanation
Indices: 22839913--22840004 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
22839903 TGACCCTTAG
* ** **
22839913 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTAACCAA
22839955 GCCCATTTCAATATCACATGAAATACCAATGAATGTAACCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTAACCAA
22839997 GCCCATTT
1 GCCCATTT
22840005 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTAACCAA
Found at i:22840197 original size:26 final size:26
Alignment explanation
Indices: 22840149--22840246 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
22840139 CCTCTTTAAT
22840149 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
*
22840174 AACTAGGGCATAAGCCCTTCTCGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
* *
22840200 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTAGGGCATAAGCCCTTTTCGGTA
*
22840226 AACTGGGGCATAAGCCCTTTT
1 AACTAGGGCATAAGCCCTTTT
22840247 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTAGGGCATAAGCCCTTTTCGGTA
Found at i:22841140 original size:27 final size:27
Alignment explanation
Indices: 22841049--22841132 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
22841039 GGGCATATTC
* *
22841049 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
* *
22841076 GTCACTTTACCCTACAAGGGCTTTATG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
22841103 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
22841130 GTC
1 GTC
22841133 TTTTTACCTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:22841224 original size:27 final size:27
Alignment explanation
Indices: 22841171--22841516 Score: 257
Period size: 27 Copynumber: 12.8 Consensus size: 27
22841161 TTTCATCCTA
* * *
22841171 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
22841198 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** * *
22841225 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* ** *
22841254 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
22841281 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
22841308 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
22841335 CAATGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
22841362 TAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTGGTAATTTTACAAA-C
* *
22841390 GAA-GGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
22841416 CAGGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
22841442 CTAGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
22841469 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
22841496 TAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
22841517 GTAAATCGAG
Statistics
Matches: 250, Mismatches: 62, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
26 23 0.09
27 200 0.80
28 14 0.06
29 13 0.05
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:22841377 original size:81 final size:81
Alignment explanation
Indices: 22841282--22841516 Score: 337
Period size: 81 Copynumber: 2.9 Consensus size: 81
22841272 TTTGTAAATC
* *
22841282 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
*
22841347 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* *
22841363 AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
* *
22841428 AGCAATTTTACAGACT
66 AGTAATTTTACAAACT
** * * ** *
22841444 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
22841508 AGTAATTTT
66 AGTAATTTT
22841517 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 62 0.45
81 75 0.55
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTACAAACT
Found at i:22841538 original size:27 final size:27
Alignment explanation
Indices: 22841508--22841638 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
22841498 AGGGTATTTT
* *
22841508 AGTAATTTTGTAAATCGAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
22841535 AGTAATTCTGTAGATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22841562 AGTAATTCTTTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22841589 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
22841616 AGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
22841639 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:22843859 original size:23 final size:23
Alignment explanation
Indices: 22843805--22843863 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
22843795 ATTGCCTTTG
* *
22843805 TGGCATATTTTGTTTGTCCTGTC
1 TGGCATATTTTGTTTGGCCTGTA
*
22843828 TGGCATATTTTGTTTGGCCTTTA
1 TGGCATATTTTGTTTGGCCTGTA
22843851 TGG-AGTATTTTGT
1 TGGCA-TATTTTGT
22843864 AAATGCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (23 bp):
TGGCATATTTTGTTTGGCCTGTA
Found at i:22850622 original size:16 final size:15
Alignment explanation
Indices: 22850598--22850627 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22850588 AACTATTTTA
22850598 TTACAAATTTCACTC
1 TTACAAATTTCACTC
22850613 TTACATAATTTCACT
1 TTACA-AATTTCACT
22850628 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:22850957 original size:50 final size:50
Alignment explanation
Indices: 22850837--22851116 Score: 235
Period size: 50 Copynumber: 5.6 Consensus size: 50
22850827 ATCTAGTATG
* * *
22850837 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-TAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACT-ATCTGATACA
** * * * *
22850886 TGTGGTAGTCTACACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACA
* * * * * *
22850936 CGTAGTAGCCTGCACTTAGTACTATACACGTGA-TTGAAGT-TGTCGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACTATCT-GA-TACA
* * * *
22850987 CTTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACA
* * * * * *
22851037 TATAGTAGCCTGCATTTATTACTACACACGTGACCTAAAAATATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTATCTGATACA
* *
22851089 CATAGTATCCTGCACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
22851117 TGTGTTCTCA
Statistics
Matches: 179, Mismatches: 43, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
49 31 0.17
50 76 0.42
51 36 0.20
52 36 0.20
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACA
Found at i:22851115 original size:151 final size:149
Alignment explanation
Indices: 22850839--22851115 Score: 378
Period size: 151 Copynumber: 1.8 Consensus size: 149
22850829 CTAGTATGCA
* * *
22850839 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACATGTGGTAGTCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACATATAGTAGCCTACACTTA
* * * *
22850904 GTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGA
66 GTACTACACACGTGACCTAAACATCTGAAACACATAGTAGCCTGCACATAGTAC-ATACACGTGA
22850969 TTGAAGTTGTCGAGTACGCT
130 TTGAAGTTGTCGAGTACGCT
* *
22850989 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACT-ATCTGGTACATATAGTAGCCTGCATT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-TAATCTGGTACATATAGTAGCCTACACT
* * * *
22851053 TATTACTACACACGTGACCTAAAAATATCTTAAACACATAGTATCCTGCACATAGTAC-TACAC
64 TAGTACTACACACGTGACCT--AAACATCTGAAACACATAGTAGCCTGCACATAGTACATACAC
22851116 ATGTGTTCTC
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
150 33 0.30
151 47 0.43
152 1 0.01
153 29 0.26
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (149 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACATATAGTAGCCTACACTTA
GTACTACACACGTGACCTAAACATCTGAAACACATAGTAGCCTGCACATAGTACATACACGTGAT
TGAAGTTGTCGAGTACGCT
Found at i:22861984 original size:28 final size:27
Alignment explanation
Indices: 22861935--22861991 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
22861925 TATATAGTAT
* * *
22861935 CAATACAGTCTGGCCCTTAGCCCTATA
1 CAATACAGTATGGCCCTAAGCCCAATA
*
22861962 CAATAACAGTATGGGCCTAAGCCCAATA
1 CAAT-ACAGTATGGCCCTAAGCCCAATA
22861990 CA
1 CA
22861992 GTATCACTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (27 bp):
CAATACAGTATGGCCCTAAGCCCAATA
Found at i:22862380 original size:27 final size:27
Alignment explanation
Indices: 22862349--22862408 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
22862339 GGGCATAATC
*
22862349 GTCATTTTA-CCATACAATGATATTACG
1 GTCATTTTATCC-TACAATGACATTACG
* *
22862376 GTCATTTTATCCTACAGTGGCATTACG
1 GTCATTTTATCCTACAATGACATTACG
22862403 GTCATT
1 GTCATT
22862409 CTACTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (27 bp):
GTCATTTTATCCTACAATGACATTACG
Found at i:22869427 original size:34 final size:34
Alignment explanation
Indices: 22869361--22869427 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
22869351 TTATTATTGT
* *
22869361 TACTGGATTGGGCTAAGGTTCACACTGATACTGA
1 TACTGGATTGGGCTAAGGTCCAAACTGATACTGA
* *
22869395 TACTGTATTGGGCTAAGG-CCATAACTGTTACTG
1 TACTGGATTGGGCTAAGGTCCA-AACTGATACTG
22869428 GACTGTTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (34 bp):
TACTGGATTGGGCTAAGGTCCAAACTGATACTGA
Found at i:22883542 original size:21 final size:21
Alignment explanation
Indices: 22883518--22883560 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22883508 GGGCTGGTAC
22883518 ATTGGTTGATTTTAATGAGGT
1 ATTGGTTGATTTTAATGAGGT
22883539 ATTGGTTGATTTTAATGAGGT
1 ATTGGTTGATTTTAATGAGGT
22883560 A
1 A
22883561 CATTCCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (21 bp):
ATTGGTTGATTTTAATGAGGT
Found at i:22887446 original size:8 final size:8
Alignment explanation
Indices: 22887433--22887458 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22887423 AAACAAATAG
22887433 AAAAGAAA
1 AAAAGAAA
22887441 AAAAGAAA
1 AAAAGAAA
22887449 AAAAGAAA
1 AAAAGAAA
22887457 AA
1 AA
22887459 GAAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:22893211 original size:6 final size:6
Alignment explanation
Indices: 22893200--22893243 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
22893190 TCTTTCGCAC
**
22893200 TCTTTT TCTTTT TCTTTT TCTTTT T-TTATT TCAATT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTTTT TC
22893244 CTCACACTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 2 0.06
6 30 0.94
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:22893272 original size:18 final size:18
Alignment explanation
Indices: 22893217--22893274 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
22893207 CTTTTTCTTT
*
22893217 TTCTTTTTTTATTTCAA-
1 TTCTCTTTTTATTTCAAC
**
22893234 TT-TCTTTTT-CCTCACAC
1 TTCTCTTTTTATTTCA-AC
22893251 -TCTCTTTTTATTTCAAC
1 TTCTCTTTTTATTTCAAC
22893268 TTCTCTT
1 TTCTCTT
22893275 CTCACAACCT
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
15 3 0.10
16 8 0.26
17 11 0.35
18 9 0.29
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (18 bp):
TTCTCTTTTTATTTCAAC
Found at i:22893287 original size:31 final size:33
Alignment explanation
Indices: 22893222--22893290 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
22893212 TCTTTTTCTT
* *
22893222 TTTTTATTTCAATTTCTTTTTCCTCACACTCTC
1 TTTTTATTTCAACTTCTTCTTCCTCACACTCTC
22893255 TTTTTATTTCAACTTC-TCTT-CTCACAAC-CTC
1 TTTTTATTTCAACTTCTTCTTCCTCAC-ACTCTC
22893286 TTTTT
1 TTTTT
22893291 CTTTTTCGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 13 0.39
32 5 0.15
33 15 0.45
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTTTATTTCAACTTCTTCTTCCTCACACTCTC
Found at i:22893806 original size:18 final size:17
Alignment explanation
Indices: 22893763--22893810 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
22893753 AATCTTCAAT
22893763 ATGCAATCTTAGATATG
1 ATGCAATCTTAGATATG
*
22893780 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
22893797 ATTGCAATCTTAGA
1 A-TGCAATCTTAGA
22893811 AGATATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (17 bp):
ATGCAATCTTAGATATG
Found at i:22893846 original size:21 final size:23
Alignment explanation
Indices: 22893790--22893846 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 23
22893780 ATACAATCTT
*
22893790 AGATATG-A-TTGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
22893811 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
22893833 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
22893847 GATACCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 15 0.50
22 5 0.17
23 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:22900638 original size:21 final size:21
Alignment explanation
Indices: 22900597--22900637 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22900587 AAAAAAAGAG
*
22900597 GAAAAAGGGAAATAAAGAAAA
1 GAAAAAGAGAAATAAAGAAAA
22900618 GAAAAAGAGAAA-AAAGAAAA
1 GAAAAAGAGAAATAAAGAAAA
22900638 AATGGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (21 bp):
GAAAAAGAGAAATAAAGAAAA
Found at i:22901670 original size:44 final size:44
Alignment explanation
Indices: 22901611--22901953 Score: 358
Period size: 44 Copynumber: 7.8 Consensus size: 44
22901601 GATCCAAGAT
* * *
22901611 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATGACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
*
22901655 GATTTTGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
22901699 GATTTGGTATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAACT
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATAACA
* * * * * * *
22901745 GATTTGGCTTTCACGTGT-TT-AC-GTTAAAGAAAATCCAAGAT----
1 GATTTGGC-ATCTC-TGTATTGGCAG--AGAGCAGATCGAAGATAACA
* * *
22901786 GATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* *
22901830 GATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAAAA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
* * *
22901874 AATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGACAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
** *
22901918 GATTTGGTGTCTCTGTATTGGCAGGGAGCAGATCGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA
22901954 GGACATAGCT
Statistics
Matches: 249, Mismatches: 37, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.01
40 17 0.07
41 9 0.04
44 187 0.75
45 3 0.01
46 13 0.05
47 14 0.06
48 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACA
Found at i:22902006 original size:219 final size:219
Alignment explanation
Indices: 22901611--22902043 Score: 679
Period size: 219 Copynumber: 2.0 Consensus size: 219
22901601 GATCCAAGAT
* ** * * * *
22901611 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATGACAGATTTTGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAAAAAATTTGGCATCTCTGTATTGG
*
22901676 CAGAGAGCAGATCGAAGATAACAGATTTGGTATCTCTGTATTGGCAGGGAGCAGATCGAAGACAT
66 CAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATTGGCAGGGAGCAGATCGAAGACAT
*
22901741 AACTGATTTGGCTTTCACGTGTTTACGTTAAAGAAAATCCAAGATGATTTGGCGTCTCTGTATTG
131 AACTGATTTGGCTTTCACGTGTTTACGTTAAAGAAAATCCAAGATGATTTGGCATCTCTGTATTG
*
22901806 TCAAAGAGCAGATCGAAGATAACA
196 GCAAAGAGCAGATCGAAGATAACA
22901830 GATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAAAAAATTTGGCATCTCTGTATTGG
1 GATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAAAAAATTTGGCATCTCTGTATTGG
* * *
22901895 CAGAGAGCAGATCGAAGACAGCAGATTTGGTGTCTCTGTATTGGCAGGGAGCAGATCGAGGACAT
66 CAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATTGGCAGGGAGCAGATCGAAGACAT
* * * *
22901960 AGCTGATTTGGCTTTCATGTGTTTACGTTGAAA-CAAATCTAAGATGATTTGGCATCTCTGTATT
131 AACTGATTTGGCTTTCACGTGTTTACGTT-AAAGAAAATCCAAGATGATTTGGCATCTCTGTATT
**
22902024 GGCAGGGAGCAGATCGAAGA
195 GGCAAAGAGCAGATCGAAGA
22902044 CATAGCTGAT
Statistics
Matches: 194, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
219 191 0.98
220 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (219 bp):
GATTTGGCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAAAAAATTTGGCATCTCTGTATTGG
CAGAGAGCAGATCGAAGACAACAGATTTGGTATCTCTGTATTGGCAGGGAGCAGATCGAAGACAT
AACTGATTTGGCTTTCACGTGTTTACGTTAAAGAAAATCCAAGATGATTTGGCATCTCTGTATTG
GCAAAGAGCAGATCGAAGATAACA
Found at i:22902028 original size:87 final size:87
Alignment explanation
Indices: 22901918--22902565 Score: 1046
Period size: 87 Copynumber: 7.4 Consensus size: 87
22901908 GAAGACAGCA
* * *
22901918 GATTTGGTGTCTCTGTATTGGCAGGGAGCAGATCGAGGACATAGCTGATTTGGCTTTCATGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
22901983 TACGTTGAAACAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
*
22902005 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
22902070 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
*
22902092 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
22902157 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * *
22902179 GATTTGGCATCTCTGTATTGGTAGGGAGCAGATCGAAGACATAGCTGATTTGGATTTTACGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
22902244 TACGTTGAAGAAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
22902266 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATC-AAGGACATAGTTGATTTGGTTTTCACGTGT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAA-GACATAGCTGATTTGGCTTTCACGTGT
*
22902330 TTATGTTGAAGCAAATCTAAGAT
65 TTACGTTGAAGCAAATCTAAGAT
* * *
22902353 GATTTGGTGTCTCTGTATTGGTAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCAAGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
22902418 TATGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * *
22902440 GATTTGGTGTCTCTGTATTGGTAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCAAGTGTT
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
22902505 TATGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * **
22902527 GATTTAGCGTCTCTGTATTGTCAGATAGCAGATCGAAGA
1 GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGA
22902566 TAACAGATCT
Statistics
Matches: 532, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
86 2 0.00
87 528 0.99
88 2 0.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (87 bp):
GATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:22903186 original size:18 final size:18
Alignment explanation
Indices: 22903144--22903209 Score: 107
Period size: 18 Copynumber: 3.7 Consensus size: 18
22903134 ATCTTCAATA
22903144 TGCAATCTTAGATATGA-
1 TGCAATCTTAGATATGAT
*
22903161 TACAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
22903179 TGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGAT
22903197 ATGCAATCTTAGA
1 -TGCAATCTTAGA
22903210 AGATATGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.36
18 17 0.38
19 12 0.27
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
TGCAATCTTAGATATGAT
Found at i:22903216 original size:17 final size:19
Alignment explanation
Indices: 22903141--22903209 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
22903131 ATAATCTTCA
22903141 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
22903160 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
22903177 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
22903195 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
22903210 AGATATGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:22903235 original size:22 final size:22
Alignment explanation
Indices: 22903141--22903232 Score: 73
Period size: 17 Copynumber: 4.7 Consensus size: 22
22903131 ATAATCTTCA
22903141 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
22903160 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
22903177 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
22903195 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
22903217 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
22903233 GATTTAATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 12 0.19
22 8 0.12
23 12 0.19
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:22907907 original size:18 final size:18
Alignment explanation
Indices: 22907815--22907908 Score: 73
Period size: 19 Copynumber: 4.8 Consensus size: 18
22907805 CTTAAAAAAG
22907815 ATCTAAAATCTAATTTAA
1 ATCTAAAATCTAATTTAA
22907833 A-CTAAACATCTAATTGAATTTAA
1 ATCTAAA-ATC----T-AATTTAA
* *
22907856 TATCTAAAATTTAATTAAGA
1 -ATCTAAAATCTAATTTA-A
*
22907876 ATCTAAAAACCTAATTTAA
1 ATCT-AAAATCTAATTTAA
22907895 ATCTAAAATCTAAT
1 ATCTAAAATCTAAT
22907909 CAAACTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
17 5 0.08
18 13 0.22
19 14 0.23
20 12 0.20
22 1 0.02
23 7 0.12
24 3 0.05
25 5 0.08
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (18 bp):
ATCTAAAATCTAATTTAA
Found at i:22913010 original size:62 final size:61
Alignment explanation
Indices: 22912882--22913007 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 61
22912872 AGAAATGGTG
*
22912882 AAATGGAGAAATAGGAAACATTTGAAAATAATTATGGTTTTCTCCAAAAAAAATGAAAATAA
1 AAATGGAGAAATAGGAAACATTTGAAAATAAATATGGTTTTCTCCAAAAAAAA-GAAAATAA
* *
22912944 AAATGGAGAAATA-GAATA-ATTTGAAAAATAAATGTGGTTTTCTCCAAAATGAAA-AAAATAA
1 AAATGGAGAAATAGGAA-ACATTTG-AAAATAAATATGGTTTTCTCCAAAA-AAAAGAAAATAA
22913005 AAA
1 AAA
22913008 ATGACCTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
61 18 0.31
62 37 0.64
63 3 0.05
ACGTcount: A:0.55, C:0.06, G:0.14, T:0.25
Consensus pattern (61 bp):
AAATGGAGAAATAGGAAACATTTGAAAATAAATATGGTTTTCTCCAAAAAAAAGAAAATAA
Found at i:22914602 original size:20 final size:21
Alignment explanation
Indices: 22914579--22914623 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
22914569 GAATATAAAA
*
22914579 TTTTGTGGTGTAAT-AACAAC
1 TTTTGGGGTGTAATAAACAAC
*
22914599 TTTTGGGGTGTGATAAACAAC
1 TTTTGGGGTGTAATAAACAAC
22914620 TTTT
1 TTTT
22914624 ACTAAGTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (21 bp):
TTTTGGGGTGTAATAAACAAC
Found at i:22915234 original size:49 final size:50
Alignment explanation
Indices: 22915162--22915338 Score: 214
Period size: 52 Copynumber: 3.5 Consensus size: 50
22915152 ACTAGTGACT
* *
22915162 CAAGTGTGTTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
* *
22915211 CAAGTGTGATACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGTTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGC-TTGGTCA
* * * * *
22915263 CAAGTGTGGTACTATATGAAAGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
*
22915314 CAAGAGTGGTACTATGT-ACAGGCCA
1 CAAGTGTGGTACTATGTGA-AGGCCA
22915339 TCGGGTATCC
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 33 0.30
50 4 0.04
51 35 0.32
52 38 0.35
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:22915288 original size:52 final size:50
Alignment explanation
Indices: 22915162--22915338 Score: 223
Period size: 51 Copynumber: 3.5 Consensus size: 50
22915152 ACTAGTGACT
* * *
22915162 CAAGTGTGTTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
*
22915211 CAAGTGTGATACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGTTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTG-TCA
* * * *
22915263 CAAGTGTGGTACTATATGAAAGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-A
*
22915314 CAAGAGTGGTACTATGT-ACAGGCCA
1 CAAGTGTGGTACTATGTGA-AGGCCA
22915339 TCGGGTATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
49 33 0.29
50 2 0.02
51 42 0.38
52 35 0.31
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
Found at i:22919607 original size:2 final size:2
Alignment explanation
Indices: 22919549--22919587 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22919539 TATTCTCTTT
22919549 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22919588 TTCTTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:22919656 original size:44 final size:44
Alignment explanation
Indices: 22919605--22919692 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
22919595 TTTTTGTCTC
22919605 TCTGCTCTCTCTTTTTTTACCCTTACCAAGCACATTCAAAATTA
1 TCTGCTCTCTCTTTTTTTACCCTTACCAAGCACATTCAAAATTA
* *
22919649 TCTGCTCTCTCTTTTTTTATCCTTACCAAGCACCTTCAAAATTA
1 TCTGCTCTCTCTTTTTTTACCCTTACCAAGCACATTCAAAATTA
22919693 ACTTTGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.30, G:0.05, T:0.42
Consensus pattern (44 bp):
TCTGCTCTCTCTTTTTTTACCCTTACCAAGCACATTCAAAATTA
Found at i:22921258 original size:7 final size:7
Alignment explanation
Indices: 22921246--22921271 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22921236 TAGTCGATTC
22921246 GTATTTA
1 GTATTTA
22921253 GTATTTA
1 GTATTTA
22921260 GTATTTA
1 GTATTTA
22921267 GTATT
1 GTATT
22921272 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:22922705 original size:17 final size:18
Alignment explanation
Indices: 22922682--22922730 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
22922672 ACTTATCCAT
*
22922682 TTCAGTAACAGTCAGTCA
1 TTCAGTAACAGTCAGTAA
* *
22922700 -TCAGTAATAATCAGTAA
1 TTCAGTAACAGTCAGTAA
*
22922717 TTCAATAACAGTCA
1 TTCAGTAACAGTCA
22922731 AATATTCCGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (18 bp):
TTCAGTAACAGTCAGTAA
Found at i:22923009 original size:57 final size:58
Alignment explanation
Indices: 22922890--22923016 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 58
22922880 TAATAGTAAT
* * ** * *
22922890 AGTAACAGTAATAGTAGCATTATGGTACATAGAGTACCTCATCGGAACGAATCCGGAAC
1 AGTAACAGTAATAGTAACATTAAGGTACA-AGAGTACCTCATCAAAACAAATCAGGAAC
* * *
22922949 AGTAACAGTAATAGTAACATTAAGGTAC-GGAGTACCTCTTCAAAATAAATCAGGAAC
1 AGTAACAGTAATAGTAACATTAAGGTACAAGAGTACCTCATCAAAACAAATCAGGAAC
22923006 AGTAACAGTAA
1 AGTAACAGTAA
22923017 GGCGACACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 33 0.56
59 26 0.44
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (58 bp):
AGTAACAGTAATAGTAACATTAAGGTACAAGAGTACCTCATCAAAACAAATCAGGAAC
Found at i:22925597 original size:39 final size:39
Alignment explanation
Indices: 22925543--22925653 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
22925533 TGCATGGTAT
* *
22925543 TGGAAAAATATCCGGACTTGAAGTCCACAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
22925582 TGGAAATATATCCGGACTTGAAGTCCGTAGGCTTTATGC
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
22925621 TGGAAATATATCCGGACTTAAAGTCCGCAGGCT
1 TGGAAATATATCCGGACTTGAAGTCCGCAGGCT
22925654 AAGTGCTGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:22925661 original size:39 final size:39
Alignment explanation
Indices: 22925543--22925674 Score: 185
Period size: 39 Copynumber: 3.4 Consensus size: 39
22925533 TGCATGGTAT
*
22925543 TGGAAAAATATCCGGACTTGAAGTCCACAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* *
22925582 TGGAAATATATCCGGACTTGAAGTCCGTAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
22925621 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
*
22925660 TGAAAAAATATCCGG
1 TGGAAAAATATCCGG
22925675 GCTAAGTCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 82 0.98
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:22925699 original size:39 final size:39
Alignment explanation
Indices: 22925667--22925843 Score: 273
Period size: 39 Copynumber: 4.5 Consensus size: 39
22925657 TGCTGAAAAA
22925667 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
22925706 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* **
22925745 ATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
22925784 ATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
22925823 ATATCCGGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
22925844 CATGCTTTGT
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 117 0.93
40 1 0.01
41 8 0.06
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:22925700 original size:78 final size:78
Alignment explanation
Indices: 22925543--22925843 Score: 236
Period size: 78 Copynumber: 3.8 Consensus size: 78
22925533 TGCATGGTAT
* * * *
22925543 TGGAAAAATATCCGGACTTGAAGTCCACAGGCTTTA-TGCTGGAAATATATCCGGACTTGAAGT-
1 TGGAAATATATCCGGACTT-AAGTCCGCAGGCATTAGTGCTGGAAATATATCCGGGC-T-AAGTC
* **
22925606 CCGTAGGC-TTTATGC
63 CCGAAGGCATTCGTGC
* * *
22925621 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGAAAAAATATCCGGGCTAAGTCCC
1 TGGAAATATATCCGGACTT-AAGTCCGCAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCC
22925685 GAAGGCATTCGTGC
65 GAAGGCATTCGTGC
* * * * * *** *
22925699 TGGTATTATATCCGGGC-TAAGTCCTGAAGGCATTCGTGCTGGTGCTATATCTGGGCTAAGTCCC
1 TGGAAATATATCCGGACTTAAGTCC-GCAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCC
22925763 GAAGGCATTCGTGC
65 GAAGGCATTCGTGC
*** * * * * * *
22925777 TGGCGTTATATCTGGGC-TAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTTAAAGTC
1 TGGAAATATATCCGGACTTAAGT-CCGCAGGCATTAGTGCTGGAAATATATCCGGGC-T-AAGTC
22925841 CCG
63 CCG
22925844 CATGCTTTGT
Statistics
Matches: 187, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
76 10 0.05
77 16 0.09
78 150 0.80
79 3 0.02
80 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (78 bp):
TGGAAATATATCCGGACTTAAGTCCGCAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCG
AAGGCATTCGTGC
Found at i:22929197 original size:23 final size:23
Alignment explanation
Indices: 22929170--22929215 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22929160 CGATAAAAAG
22929170 ATCGATGAGTAAGTCGTATCAAT
1 ATCGATGAGTAAGTCGTATCAAT
22929193 ATCGATGAGTAAGTCGTATCAAT
1 ATCGATGAGTAAGTCGTATCAAT
22929216 CTTCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (23 bp):
ATCGATGAGTAAGTCGTATCAAT
Found at i:22930420 original size:29 final size:30
Alignment explanation
Indices: 22930387--22930445 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22930377 AAATTAATTT
22930387 TCAAG-TATAGGGGAAAAATAATCATTTTA
1 TCAAGTTATAGGGGAAAAATAATCATTTTA
* * **
22930416 TCAAGTTCTAGGGGCAAAATGGTCATTTTA
1 TCAAGTTATAGGGGAAAAATAATCATTTTA
22930446 CCTAATACGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (30 bp):
TCAAGTTATAGGGGAAAAATAATCATTTTA
Found at i:22938613 original size:53 final size:53
Alignment explanation
Indices: 22938550--22938656 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
22938540 CGTATAAGGC
22938550 CTCGTAAGGTGCCATCTTAATGCTTGATTGAAAGCTATTGTTGTAAGCGAATT
1 CTCGTAAGGTGCCATCTTAATGCTTGATTGAAAGCTATTGTTGTAAGCGAATT
22938603 CTCGTAAGGTGCCATCTTAATGCTTGATTGAAAGCTATTGTTGTAAGCGAATT
1 CTCGTAAGGTGCCATCTTAATGCTTGATTGAAAGCTATTGTTGTAAGCGAATT
22938656 C
1 C
22938657 GATCAAAGGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (53 bp):
CTCGTAAGGTGCCATCTTAATGCTTGATTGAAAGCTATTGTTGTAAGCGAATT
Found at i:22944439 original size:28 final size:28
Alignment explanation
Indices: 22944376--22944473 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
22944366 ATATTAAGTC
* *
22944376 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
22944403 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
22944431 CGCACACTTAGTGCTGTACA-ATTTAAACC
1 CGCACACTTAGTGC--TACATAATCAAACT
22944460 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22944474 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 21 0.33
28 18 0.29
29 20 0.32
30 4 0.06
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:22945758 original size:18 final size:18
Alignment explanation
Indices: 22945735--22945772 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22945725 CACATGGGTG
22945735 GTACTAAGTGTTCACCAT
1 GTACTAAGTGTTCACCAT
22945753 GTACTAAGTGTTCACCAT
1 GTACTAAGTGTTCACCAT
22945771 GT
1 GT
22945773 GTACAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (18 bp):
GTACTAAGTGTTCACCAT
Found at i:22950206 original size:67 final size:67
Alignment explanation
Indices: 22950126--22950302 Score: 252
Period size: 67 Copynumber: 2.7 Consensus size: 67
22950116 CATCATGTGT
22950126 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGA-AGCCATG
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACA-CCATG
22950190 TAG
65 TAG
** * *
22950193 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGTATACGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGT
22950258 AG
66 AG
* * *
22950260 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGT
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCACATGCGTGGT
22950303 ACTAAGTGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
66 15 0.15
67 80 0.82
68 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGT
AG
Done.