Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 50 of 433
Found at i:13719675 original size:20 final size:21
Alignment explanation
Indices: 13719652--13719690 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13719642 GAGGCACTAA
13719652 AGTGCAAAT-AGAGACACCGT
1 AGTGCAAATCAGAGACACCGT
*
13719672 AGTGCAAATCAGATACACC
1 AGTGCAAATCAGAGACACC
13719691 AAAGTGTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (21 bp):
AGTGCAAATCAGAGACACCGT
Found at i:13728575 original size:16 final size:15
Alignment explanation
Indices: 13728554--13728584 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13728544 GAGGGAAAAA
13728554 GATCATGGAATGATGG
1 GATCATGG-ATGATGG
13728570 GATCATGGATGATGG
1 GATCATGGATGATGG
13728585 ACCTACTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.06, G:0.39, T:0.26
Consensus pattern (15 bp):
GATCATGGATGATGG
Found at i:13732385 original size:38 final size:38
Alignment explanation
Indices: 13732342--13732754 Score: 304
Period size: 38 Copynumber: 9.9 Consensus size: 38
13732332 TTTCAAATTA
*
13732342 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
13732380 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTAAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGT---T
* ** *
13732421 GAATCAATATATGTAACCGTGACATATCCACTTAGCACCACATT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
13732465 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* * **
13732503 ACATGTTTAACCGTGGTATATCCGCTTAGCACCATATTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCA-CGT--T
* *
13732544 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* *
13732588 ACATGTTTAAACGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
13732629 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATAT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACG-----T-T
* * *
13732679 ATCAATATGTGTAATCGAGGTATATCCACTTAGCACCACGTT
1 A-C---ATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
13732721 ACACGTATAACCGTGGTATATCCACTTAGCACCA
1 ACATGTATAACCGTGGTATATCCACTTAGCACCA
13732755 TGTTTTTCAT
Statistics
Matches: 302, Mismatches: 40, Indels: 66
0.74 0.10 0.16
Matches are distributed among these distances:
38 151 0.50
39 2 0.01
40 6 0.02
41 6 0.02
42 4 0.01
43 4 0.01
44 5 0.02
45 9 0.03
46 1 0.00
47 79 0.26
48 29 0.10
50 5 0.02
51 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:13732438 original size:85 final size:76
Alignment explanation
Indices: 13732429--13732754 Score: 238
Period size: 85 Copynumber: 3.9 Consensus size: 76
13732419 ATGAATCAAT
* ** *
13732429 ATATGTAACCGTGACATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAG
1 ATATTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
13732494 CACCACGTTAC
66 CACCACGTTAC
* * ** * *
13732505 ATGTTTAACCGTGGTATATCCGCTTAGCACCATATTAATGAATCAATATATGTAACCGTGGCATA
1 ATATTTAACCGTGGTATATCCACTTAGCACCA-CGT--T--A-C-ATGT-T-TAACCGTGGTATA
13732570 TCCACTTAGCACCACGTTAC
57 TCCACTTAGCACCACGTTAC
* * * *
13732590 ATGTTTAAACGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATA
1 ATATTTAACCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-TAACCGTGGTATA
13732655 TCCACTTAGCACCACGTTACATATATC
57 TCCACTTAGCACCACG-----T-TA-C
* * * *
13732682 AATATGTGTAATCGAGGTATATCCACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACT
1 -ATAT-T-TAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACT
13732747 TAGCACCA
63 TAGCACCA
13732755 TGTTTTTCAT
Statistics
Matches: 210, Mismatches: 20, Indels: 30
0.81 0.08 0.12
Matches are distributed among these distances:
76 27 0.13
77 1 0.00
79 1 0.00
81 1 0.00
82 1 0.00
83 3 0.01
84 1 0.00
85 108 0.51
86 26 0.12
88 2 0.01
89 1 0.00
90 2 0.01
91 2 0.01
92 2 0.01
93 3 0.01
94 2 0.01
95 27 0.13
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (76 bp):
ATATTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAG
CACCACGTTAC
Found at i:13732561 original size:123 final size:123
Alignment explanation
Indices: 13732342--13732754 Score: 567
Period size: 123 Copynumber: 3.3 Consensus size: 123
13732332 TTTCAAATTA
*
13732342 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTT
* * *
13732407 AGCACCACGTAAATGAATCAATATATGTAACCGTGACATATCCACTTAGCACCACATT
66 AGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
* *
13732465 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCGCTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTT
**
13732530 AGCACCATATTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
66 AGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
13732588 ACATGTTTAAACGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCA
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-TAACCGTGGTA
* * * *
13732653 TATCCACTTAGCACCACGTTACAT-ATATCAATATGTGTAATCGAGGTATATCCACTTAGCACCA
57 TATCCACTTAGCACCACGTTA-ATGA-ATCAATATATGTAACCGTGGCATATCCACTTAGCACCA
13732717 CGTT
120 CGTT
*
13732721 ACACGTATAACCGTGGTATATCCACTTAGCACCA
1 ACATGTATAACCGTGGTATATCCACTTAGCACCA
13732755 TGTTTTTCAT
Statistics
Matches: 258, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
123 150 0.58
124 1 0.00
126 1 0.00
128 1 0.00
129 1 0.00
130 3 0.01
131 1 0.00
132 29 0.11
133 71 0.28
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (123 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTT
AGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:13732704 original size:48 final size:48
Alignment explanation
Indices: 13732602--13732723 Score: 185
Period size: 48 Copynumber: 2.6 Consensus size: 48
13732592 GTTTAAACGT
*
13732602 GGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGT
1 GGTATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACCGA
* * *
13732649 GGCATATCCACTTAGCACCACGTTACAT-ATATCAATATGTGTAATCGA
1 GGTATATCCACTTAGCACCACGTTACATGA-ATCAATATATGTAACCGA
13732697 GGTATATCCACTTAGCACCACGTTACA
1 GGTATATCCACTTAGCACCACGTTACA
13732724 CGTATAACCG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 25 0.37
48 43 0.63
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (48 bp):
GGTATATCCACTTAGCACCACGTTACATGAATCAATATATGTAACCGA
Found at i:13732747 original size:133 final size:132
Alignment explanation
Indices: 13732510--13732754 Score: 366
Period size: 133 Copynumber: 1.8 Consensus size: 132
13732500 GTTACATGTT
* * * *
13732510 TAACCGTGGTATATCCGCTTAGCACCATATTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGAGGCATATCCAC
* *
13732575 TTAGCACCACGTTACATGTTTAAACGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAAACGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
13732640 TG
131 TG
* * * *
13732642 TAACCGTGGCATATCCACTTAGCACCACGTTACAT-ATATCAATATGTGTAATCGAGGTATATCC
1 TAACCGTGGCATATCCACTTAGCACCACATTA-ATGA-ATCAATATATGTAACCGAGGCATATCC
*
13732706 ACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCA
64 ACTTAGCACCACGTTACACGTATAAACGTGGTATATCCACTTAGCACCA
13732755 TGTTTTTCAT
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
132 29 0.29
133 71 0.71
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACATTAATGAATCAATATATGTAACCGAGGCATATCCAC
TTAGCACCACGTTACACGTATAAACGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATA
TG
Found at i:13739018 original size:46 final size:44
Alignment explanation
Indices: 13738925--13739036 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 44
13738915 ATGCTAATGC
13738925 CATGTCCCAGACATGGTCTTACACTGGCTCATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCTCGTAGCCGATG
*
13738970 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCG-AGTTCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-T-CATCTCGTAG-CCGATG
13739016 CATGTCCCAGACATGTCTTAC
1 CATGTCCCAGACATGTCTTAC
13739037 GCTAGCTCTC
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
44 13 0.21
45 17 0.27
46 33 0.52
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCTCGTAGCCGATG
Found at i:13739061 original size:46 final size:46
Alignment explanation
Indices: 13738925--13739092 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
13738915 ATGCTAATGC
* *
13738925 CATGTCCCAGACATGGTCTTACACT-G-GCTCATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAT-GCCGATG
* *
13738970 CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGA-GTTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTC-ATG-CCGATG
* *
13739016 CATGTCCCAGACAT-GTCTTACGCTAGCTCTCACCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-ATGCCGATG
* *
13739062 CCATGTCCTAGGCATGGTCTTACACTAGCTC
1 -CATGTCCCAGACATGGTCTTACACTAGCTC
13739093 ACAATAACCC
Statistics
Matches: 103, Mismatches: 11, Indels: 15
0.80 0.09 0.12
Matches are distributed among these distances:
44 10 0.10
45 17 0.17
46 48 0.47
47 14 0.14
48 14 0.14
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCATGCCGATG
Found at i:13741334 original size:29 final size:28
Alignment explanation
Indices: 13741300--13741402 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
13741290 TACTCAATCA
*
13741300 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
13741329 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
13741358 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
13741387 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
13741403 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:13749321 original size:29 final size:28
Alignment explanation
Indices: 13749287--13749389 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
13749277 TACTCAATCA
*
13749287 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
13749316 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
13749345 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
13749374 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
13749390 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:13754800 original size:18 final size:19
Alignment explanation
Indices: 13754748--13754801 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
13754738 TTACAAAAAG
13754748 AAATT-AAAATAATTT-TCAA
1 AAATTCAAAAT-ATTTAT-AA
13754767 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
13754786 AAATTCCAAAT-TTTAT
1 AAATTCAAAATATTTAT
13754802 TTTTTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.16
19 21 0.66
20 6 0.19
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:13759305 original size:4 final size:4
Alignment explanation
Indices: 13759298--13759375 Score: 66
Period size: 4 Copynumber: 18.0 Consensus size: 4
13759288 ATGAAAGAAA
* *
13759298 AATT AATT AATT AAATTT AATT AATAA AATT AGTT AATT AAATTT AATT
1 AATT AATT AATT -AA-TT AATT AAT-T AATT AATT AATT -AA-TT AATT
* *
13759347 AATAA AATT AATT AGTT AATT AATT AATT
1 AAT-T AATT AATT AATT AATT AATT AATT
13759376 GTAAGGATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 42 0.70
5 14 0.23
6 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:13759329 original size:27 final size:27
Alignment explanation
Indices: 13759296--13759374 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
13759286 GCATGAAAGA
13759296 AAAATTAATTAATTAAATTTAATTAAT
1 AAAATTAATTAATTAAATTTAATTAAT
*
13759323 AAAATTAGTTAATTAAATTTAATTAAT
1 AAAATTAATTAATTAAATTTAATTAAT
*
13759350 AAAATTAATTAGTT-AA-TTAATTAAT
1 AAAATTAATTAATTAAATTTAATTAAT
13759375 TGTAAGGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
25 9 0.18
26 2 0.04
27 38 0.78
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
AAAATTAATTAATTAAATTTAATTAAT
Found at i:13772656 original size:3 final size:3
Alignment explanation
Indices: 13772643--13772978 Score: 95
Period size: 3 Copynumber: 109.0 Consensus size: 3
13772633 TAAAAACCTT
* * *
13772643 TAA TGA TAA TAA TATA TAGA TAA AAA TGTA TAA TAA T-A TAA -AA -AA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
13772688 TGACA TAA TAA TTTA TAA TAA -AA TAA -ATA TAA TATA TAA T-A TAA
1 T-A-A TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA
*
13772732 -AA GTATA TATG TAA -AA -AA TAA TATA TAA T-A TATA TAAA TAA TTAA
1 TAA -TA-A TA-A TAA TAA TAA TAA TA-A TAA TAA TA-A T-AA TAA -TAA
* *
13772777 TAAA TATA TAA TACA -AG TAA AAA T-A TAA TAA TAA TATA TAAA TAA
1 T-AA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA
* ** *
13772822 TAA T-G TAA -AA TAA TAA TAA TTTG TGAA AAA TAA TATA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A TAA T-AA TAA
13772869 TAA TAA T-A TAAA TAA TATA TAA TAA T-A TAA TAA T-A TAA TATA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * *
13772914 T-A TAA AAA TAA -AGT TAA AAA TAA -AA CAAA TAA TAA T-A TAA -AA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
*
13772956 TATA TATA TAA TAA TAA AAA TAA
1 TA-A TA-A TAA TAA TAA TAA TAA
13772979 ATATATAGGG
Statistics
Matches: 253, Mismatches: 32, Indels: 96
0.66 0.08 0.25
Matches are distributed among these distances:
2 39 0.15
3 141 0.56
4 68 0.27
5 5 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13772765 original size:47 final size:46
Alignment explanation
Indices: 13772710--13772974 Score: 163
Period size: 51 Copynumber: 5.5 Consensus size: 46
13772700 TTATAATAAA
13772710 ATAA-ATATAATATATAATATAAAAGTATATATGTAAAAAATAATAT
1 ATAATATATAATATATAATATAAAA-TATATATGTAAAAAATAATAT
* *
13772756 ATAATATAT-ATAAATAATTAATAAATATATAATACAAGTAAAAATATAATA-
1 ATAATATATAATATATAA-T-ATAAA-ATAT-AT--ATGTAAAAA-ATAATAT
* *
13772807 ATAATATATAA-ATAATAATGTAAAATAATAATAATTTGTGAAAAATAATAT
1 ATAATATATAATAT-ATAATATAAAAT-AT-AT-A--TGTAAAAAATAATAT
* * *
13772858 ATAATAAATAATA-ATAATAT-AAATA-ATATATAATAATATAATAAT
1 ATAATATATAATATATAATATAAAATATATATGTAA-AAAATAAT-AT
* * * * *
13772903 ATAATATATAATATA-AAAATAAAGTTAAAAAT-AAAACAAATAATAAT
1 ATAATATATAATATATAATATAAA-ATATATATGTAAA-AAATAAT-AT
*
13772950 ATAAAATAT-ATATATAATAATAAAA
1 ATAATATATAATATATAAT-ATAAAA
13772975 ATAAATATAT
Statistics
Matches: 174, Mismatches: 21, Indels: 47
0.72 0.09 0.19
Matches are distributed among these distances:
43 3 0.02
44 7 0.04
45 19 0.11
46 22 0.13
47 28 0.16
48 17 0.10
49 10 0.06
50 21 0.12
51 35 0.20
52 12 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (46 bp):
ATAATATATAATATATAATATAAAATATATATGTAAAAAATAATAT
Found at i:13772835 original size:30 final size:30
Alignment explanation
Indices: 13772702--13772983 Score: 141
Period size: 30 Copynumber: 9.4 Consensus size: 30
13772692 ATAATAATTT
*
13772702 ATAATAAAATAAATATAATATATAATATA-AA
1 ATAATAATATAAA-ATAATA-ATAATATATAA
**
13772733 AGT-AT-ATATGTAA-AA-AATAATATAT-A
1 A-TAATAATATAAAATAATAATAATATATAA
*
13772759 AT-AT-ATATAAATA-ATTAATAAATATATAA
1 ATAATAATATAAA-ATAATAAT-AATATATAA
* *
13772788 TACAAGTAA-A-AATATAATAATAATATATAA
1 -ATAA-TAATATAAAATAATAATAATATATAA
* * *
13772818 ATAATAATGTAAAATAATAATAATTTGTGAA
1 ATAATAATATAAAATAATAATAATATAT-AA
*
13772849 A-AATAATATATAATAAATAATAATAATATAA
1 ATAATAATATAAAAT-AATAATAAT-ATATAA
*
13772880 ATAAT-ATATAATAAT-ATAATAATATA-AT
1 ATAATAATATAA-AATAATAATAATATATAA
* * *
13772908 AT-ATAATATAAAAATAAAGTTAAAAATAAAACAA
1 ATAATAATAT-AAAAT-AA--TAATAAT-ATATAA
13772942 ATAATAATATAAAATATATATATAATA-ATAA
1 ATAATAATATAAAATA-ATA-ATAATATATAA
13772973 A-AATAAATATA
1 ATAAT-AATATA
13772984 TAGGGTTAGA
Statistics
Matches: 196, Mismatches: 25, Indels: 60
0.70 0.09 0.21
Matches are distributed among these distances:
25 8 0.04
26 12 0.06
27 6 0.03
28 22 0.11
29 10 0.05
30 53 0.27
31 41 0.21
32 20 0.10
33 8 0.04
34 9 0.05
35 7 0.04
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAATATAAAATAATAATAATATATAA
Found at i:13774843 original size:45 final size:45
Alignment explanation
Indices: 13774771--13775126 Score: 148
Period size: 45 Copynumber: 8.3 Consensus size: 45
13774761 ATCTGCTATG
* * **
13774771 TCTTTGATCTGCTCCTCGTCAAATACAGAGAGATAAGATTTATCA
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCCATCA
* * *
13774816 TCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCCGTCA
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCCATCA
* * *
13774861 TCTTGGATCTG--CCCCG----AT---GA-AGGTCAGATCTGCTAT-G
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATC--C-ATCA
* ** * **
13774898 TTTTTTATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCCATCA
* * * ** *
13774943 TCTTAGATCTG---CCC-T--GAT---GA-AGGTCGGATCTGCTAT-G
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATC--C-ATCA
* * * * *
13774980 TCTTTGATCTACTCCCCATCGAATACAGAGAGATAAGATCTATCA
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCCATCA
* **
13775025 TCTTGGATCTGCTCCCCG-CTTAATACAGAGAGATAAGATCTGTCA
1 TCTTGGATCTGCTCCCCGTC-AAATACAGAGAGATAAGATCCATCA
* * ** * *
13775070 TTTTGGATCTGCTTCCCACCTATTACAGAGAGATAAGATCCA-CTA
1 TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCCATC-A
13775115 TCTTGGATCTGC
1 TCTTGGATCTGC
13775127 CCCAATGAAG
Statistics
Matches: 230, Mismatches: 50, Indels: 62
0.67 0.15 0.18
Matches are distributed among these distances:
35 15 0.07
36 4 0.02
37 18 0.08
38 2 0.01
39 8 0.03
40 3 0.01
41 2 0.01
42 3 0.01
43 9 0.04
44 5 0.02
45 141 0.61
46 5 0.02
47 15 0.07
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (45 bp):
TCTTGGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCCATCA
Found at i:13774864 original size:127 final size:128
Alignment explanation
Indices: 13774637--13775191 Score: 555
Period size: 127 Copynumber: 4.4 Consensus size: 128
13774627 AGCCAAATCA
* * * *
13774637 GCTATTTCTTCGATCTACTCTCCGTCAAATACAGAGAGATAAGATCTGTCATCTTTGGATCTGCT
1 GCTATGTCTTTGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCTGTCATC-TTGGATCTGCT
* * *
13774702 CCCCGTCCATTATAGAGAGATAAGATCCGTC-ATCTTGGATCTGCTCCGATGAAGGTCAGATCT
65 CCCCGTCTATTACAGAGAGATAAGATCCGTCTATCTTGGATCTGCCCCGATGAAGGTCAGATCT
* * *
13774765 GCTATGTCTTTGATCTGCTCCTCGTCAAATACAGAGAGATAAGATTTATCATCTTGGATCTGCTC
1 GCTATGTCTTTGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTC
13774830 CCCGTCTATTACAGAGAGATAAGATCCGTC-ATCTTGGATCTGCCCCGATGAAGGTCAGATCT
66 CCCGTCTATTACAGAGAGATAAGATCCGTCTATCTTGGATCTGCCCCGATGAAGGTCAGATCT
* * * *
13774892 GCTATGTTTTTTATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTG---
1 GCTATGTCTTTGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTC
* * ** * * * * * **
13774954 CCC-T-GA-T---GA-AGGTCGGATCTG-CTATGTCTTTGATCTACTCCCCATCGAATACAGAGA
66 CCCGTCTATTACAGAGAGATAAGATCCGTCTA--TCTTGGATCTGC-CCCGAT-G-A-A-GGTCA
**
13775011 GATAA
124 GATCT
* * * *
13775016 GATCTATCATCTTGGATCTGCTCCCCG-CTTAATACAGAGAGATAAGATCTGTCATTTTGGATCT
1 G--CTAT-GTCTTTGATCTGCTCCCCGTC-AAATACAGAGAGATAAGATCTGTCATCTTGGATCT
* ** * *
13775080 GCTTCCCACCTATTACAGAGAGATAAGATCC-ACTATCTTGGATCTGCCCCAATGAAGGTCAGAT
62 GCTCCCCGTCTATTACAGAGAGATAAGATCCGTCTATCTTGGATCTGCCCCGATGAAGGTCAGAT
13775144 CT
127 CT
* *
13775146 GCTATGTCTTTGATCTGCTCCCCGTCGAATACAGAAAGATAAGATC
1 GCTATGTCTTTGATCTGCTCCCCGTCAAATACAGAGAGATAAGATC
13775192 CACTATCTTC
Statistics
Matches: 348, Mismatches: 55, Indels: 49
0.77 0.12 0.11
Matches are distributed among these distances:
116 1 0.00
117 9 0.03
118 2 0.01
119 10 0.03
120 5 0.01
121 2 0.01
122 2 0.01
123 2 0.01
124 9 0.03
126 5 0.01
127 209 0.60
128 51 0.15
130 9 0.03
131 1 0.00
132 2 0.01
133 2 0.01
134 5 0.01
135 10 0.03
136 2 0.01
137 10 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (128 bp):
GCTATGTCTTTGATCTGCTCCCCGTCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCTC
CCCGTCTATTACAGAGAGATAAGATCCGTCTATCTTGGATCTGCCCCGATGAAGGTCAGATCT
Found at i:13774962 original size:82 final size:82
Alignment explanation
Indices: 13774816--13775191 Score: 391
Period size: 82 Copynumber: 4.5 Consensus size: 82
13774806 AGATTTATCA
* * * * *
13774816 TCTTGGATCTGCTCCCCGTCTATTACAGAGAGATAAGATCCGTCATCTTGGATCTGCCCCGATGA
1 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCCCCAATGA
13774881 AGGTCAGATCTGCTATG
66 AGGTCAGATCTGCTATG
* * * **
13774898 TTTTTTATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTGCCCTGATGA
1 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCCCCAATGA
*
13774963 AGGTCGGATCTGCTATG
66 AGGTCAGATCTGCTATG
* * *
13774980 TCTTTGATCTACTCCCCATCGAATACAGAGAGATAAGATCTATCATCTTGGATCTGCTCCCCGCT
1 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTG---CCC-C-
* *
13775045 TAATACAGAGAGATAAGATCTG-TCAT-
61 -AAT---GA-AGGTCAGATCTGCT-ATG
* * ** * * **
13775071 T-TTGGATCTGCTTCCCACCTATTACAGAGAGATAAGATC-CACTATCTTGGATCTGCCCCAATG
1 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTC-ATCTTGGATCTGCCCCAATG
13775134 AAGGTCAGATCTGCTATG
65 AAGGTCAGATCTGCTATG
*
13775152 TCTTTGATCTGCTCCCCGTCGAATACAGAAAGATAAGATC
1 TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATC
13775192 CACTATCTTC
Statistics
Matches: 242, Mismatches: 37, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
80 12 0.05
81 4 0.02
82 154 0.64
84 3 0.01
85 3 0.01
86 1 0.00
87 3 0.01
88 2 0.01
89 1 0.00
90 44 0.18
91 4 0.02
92 11 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (82 bp):
TCTTTGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTGCCCCAATGA
AGGTCAGATCTGCTATG
Found at i:13775055 original size:209 final size:209
Alignment explanation
Indices: 13774695--13775081 Score: 616
Period size: 209 Copynumber: 1.9 Consensus size: 209
13774685 TCATCTTTGG
* * *
13774695 ATCTGCTCCCCGTCCATTATAGAGAGATAAGATCCGTCATCTTGGATCTGCTCCGATGAAGGTCA
1 ATCTGCTCCCCGTCCAATACAGAGAGATAAGATCCGTCATCTTAGATCTGCTCCGATGAAGGTCA
* * * *
13774760 GATCTGCTATGTCTTTGATCTGCTCCTCGTCAAATACAGAGAGATAAGATTTATCATCTTGGATC
66 GATCTGCTATGTCTTTGATCTACTCCCCATCAAATACAGAGAGATAAGATCTATCATCTTGGATC
*
13774825 TGCTCCCCGTCTATTACAGAGAGATAAGATCCGTCATCTTGGATCTGCCCCGATGAAGGTCAGAT
131 TGCTCCCCGTCTAATACAGAGAGATAAGATCCGTCATCTTGGATCTGCCCCGATGAAGGTCAGAT
13774890 CTGCTATGTTTTTT
196 CTGCTATGTTTTTT
* *
13774904 ATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTGC-CCTGATGAAGGTC
1 ATCTGCTCCCCGTCCAATACAGAGAGATAAGATCCGTCATCTTAGATCTGCTCC-GATGAAGGTC
* *
13774968 GGATCTGCTATGTCTTTGATCTACTCCCCATCGAATACAGAGAGATAAGATCTATCATCTTGGAT
65 AGATCTGCTATGTCTTTGATCTACTCCCCATCAAATACAGAGAGATAAGATCTATCATCTTGGAT
* *
13775033 CTGCTCCCCG-CTTAATACAGAGAGATAAGATCTGTCATTTTGGATCTGC
130 CTGCTCCCCGTC-TAATACAGAGAGATAAGATCCGTCATCTTGGATCTGC
13775082 TTCCCACCTA
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
208 3 0.02
209 159 0.98
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (209 bp):
ATCTGCTCCCCGTCCAATACAGAGAGATAAGATCCGTCATCTTAGATCTGCTCCGATGAAGGTCA
GATCTGCTATGTCTTTGATCTACTCCCCATCAAATACAGAGAGATAAGATCTATCATCTTGGATC
TGCTCCCCGTCTAATACAGAGAGATAAGATCCGTCATCTTGGATCTGCCCCGATGAAGGTCAGAT
CTGCTATGTTTTTT
Found at i:13782740 original size:3 final size:3
Alignment explanation
Indices: 13782727--13783059 Score: 100
Period size: 3 Copynumber: 108.0 Consensus size: 3
13782717 TAAAAACCTT
* * *
13782727 TAA TGA TAA TAA TATA TAGA TAA AAA TGTA TAA TAA T-A TAA -AA -AA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA
13782772 TGACA TAA TAA TATA TAA TAA -AA TAA -ATA TAA TATA TAA T-A TAA
1 T-A-A TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA
*
13782816 -AA GTATA TATG TAA -AA -AA TAA TATA TAA T-A TATA TAAA TAA TTAA
1 TAA -TA-A TA-A TAA TAA TAA TAA TA-A TAA TAA TA-A T-AA TAA -TAA
* *
13782861 TAAA TATA TAA TACA -AG TAA AAA T-A TAA TAA TAA TATA TAAA TAA
1 T-AA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA
* **
13782906 TAA T-G TAA -AA TAA TAA TAA TTTG TGAA -AA TAA TATA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A TAA T-AA TAA
13782952 TAA TAA T-A TAAA TAA TATA TAA TAA T-A TAA TAA T-A TAA TATA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
13782997 T-A TAA AAA TAA -AGT TAA -AA TAA -AA CAAA TAA TAA T-A TAAA TATA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA T-AA TA-A
*
13783041 TATA TAA TAA TAA AAA TAA
1 TA-A TAA TAA TAA TAA TAA
13783060 ATATATAGGG
Statistics
Matches: 254, Mismatches: 26, Indels: 100
0.67 0.07 0.26
Matches are distributed among these distances:
2 41 0.16
3 137 0.54
4 71 0.28
5 5 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13782791 original size:30 final size:28
Alignment explanation
Indices: 13782746--13783004 Score: 158
Period size: 30 Copynumber: 8.9 Consensus size: 28
13782736 TAATATATAG
* *
13782746 ATAAAAATGTATAATAATATAAAAAATGA
1 ATAATAATATATAATAATATAAAAAAT-A
* *
13782775 CATAATAATATATAATAAAAT-AAATATA
1 -ATAATAATATATAATAATATAAAAAATA
* ***
13782803 ATATATAATATAAAAGT-ATATATGTAA-A
1 ATA-ATAATATATAA-TAATATAAAAAATA
*
13782831 A-AATAATATATAAT-ATAT-ATAAATA
1 ATAATAATATATAATAATATAAAAAATA
13782856 ATTAATAAATATATAATACA-AGTAAAAATATA
1 A-TAAT-AATATATAATA-ATA-TAAAAA-ATA
**
13782888 ATAATAATATATAAATAATAATGTAAAATA
1 ATAATAATATAT-AATAAT-ATAAAAAATA
* *
13782918 ATAATAATTTGTGAAAATAATATATAATAAATA
1 ATAATAA--TAT-ATAATAATATA-AA-AAATA
*
13782951 ATAATAATATA-AATAATATATAATAAT-
1 ATAATAATATATAATAATATA-AAAAATA
13782978 ATAATAATATAATATATAATATAAAAA
1 ATAATAATAT-ATA-ATAATATAAAAA
13783005 TAAAGTTAAA
Statistics
Matches: 182, Mismatches: 24, Indels: 47
0.72 0.09 0.19
Matches are distributed among these distances:
24 2 0.01
25 7 0.04
26 10 0.05
27 17 0.09
28 30 0.16
29 24 0.13
30 46 0.25
31 19 0.10
32 14 0.08
33 13 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
ATAATAATATATAATAATATAAAAAATA
Found at i:13782854 original size:20 final size:20
Alignment explanation
Indices: 13782732--13783066 Score: 120
Period size: 20 Copynumber: 16.5 Consensus size: 20
13782722 ACCTTTAATG
*
13782732 ATAATA-AT-ATATAGATAA
1 ATAATATATAATATATATAA
*
13782750 A-AATGTATAATA-ATATAA
1 ATAATATATAATATATATAA
*
13782768 AAAATGACATAATAATATATAATAAA
1 ATAAT---AT-ATAATATAT-AT-AA
13782794 ATAA-ATATAATATATAATATA
1 ATAATATATAATATAT-ATA-A
* *
13782815 A-AAGTATAT-ATGTA-AAAA
1 ATAA-TATATAATATATATAA
13782833 ATAATATATAATATATATAA
1 ATAATATATAATATATATAA
13782853 ATAAT-TAATAA-ATATATAA
1 ATAATAT-ATAATATATATAA
* *
13782872 TACAAGTA-AAAATATA-AT-A
1 -ATAA-TATATAATATATATAA
*
13782891 ATAATATATAAATAATAATGTAAA
1 ATAATATAT-AAT-AT-ATAT-AA
* *
13782915 ATAATA-ATAATTTGTGA-AA
1 ATAATATATAATATAT-ATAA
*
13782934 ATAATATATAATAAATA-ATA
1 ATAATATATAATATATATA-A
13782954 ATAATATA-AATA-ATATATA
1 ATAATATATAATATATATA-A
*
13782973 ATAATATAATAATATA-ATAT
1 ATAATAT-ATAATATATATAA
* *
13782993 ATAATATA-AAAATAAAGTTAAA
1 ATAATATATAATATATA--T-AA
* *
13783015 ATAAAACA-AATAATAATATAA
1 ATAATATATAAT-AT-ATATAA
*
13783036 ATATATATATAATA-ATAAAA
1 ATA-ATATATAATATATATAA
13783056 ATAAATATATA
1 AT-AATATATA
13783067 GGGTTAGATT
Statistics
Matches: 244, Mismatches: 29, Indels: 86
0.68 0.08 0.24
Matches are distributed among these distances:
17 5 0.02
18 28 0.11
19 53 0.22
20 63 0.26
21 38 0.16
22 26 0.11
23 13 0.05
24 11 0.05
25 2 0.01
26 5 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATAATATATATAA
Found at i:13783028 original size:156 final size:155
Alignment explanation
Indices: 13782732--13783060 Score: 342
Period size: 156 Copynumber: 2.1 Consensus size: 155
13782722 ACCTTTAATG
* *
13782732 ATAATAATATATAGATAAAAATGTATAATAATATAAAAAATGACATAATAATATATAATAAAATA
1 ATAATAATATATAAATAAAAATGTAAAATAATATAAAAAATGACATAATAATATATAATAAAATA
13782797 AATATAATATATAATATAAAAGTATATATGTAAAAAATAATATATAATATATATAAATAATTAAT
66 AATATAATATATAATATAAAAGTATATA-GTAAAAAATAATATATAATATATATAAATAATTAAT
* *
13782862 AAATATATAATACA-AGTAAAAATATA-
130 AAACAAATAATA-ATA-TAAAAATATAT
* ****
13782888 ATAATAATATATAAATAATAATGTAAAATAATAATAATTTGTGA-A-AATAATATATAAT-AAAT
1 ATAATAATATATAAATAAAAATGTAAAATAAT-ATAAAAAATGACATAATAATATATAATAAAAT
* *
13782950 -AATAATAATATAAATAATATATAA-TA-ATA-TAATAATATAATATATAATATA-A-AAATAAA
65 AAAT-ATAATAT--ATAATATAAAAGTATATAGTAA-AAAATAATATATAATATATATAAAT-AA
*
13783009 GTTAAAATAAAACAAATAATAATATAAATATATAT
125 -TT--AAT-AAACAAATAATAATATAAAAATATAT
13783044 ATAATAATA-A-AAATAAA
1 ATAATAATATATAAATAAA
13783061 TATATAGGGT
Statistics
Matches: 148, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
151 4 0.03
152 6 0.04
153 22 0.15
154 20 0.14
155 29 0.20
156 60 0.41
157 7 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (155 bp):
ATAATAATATATAAATAAAAATGTAAAATAATATAAAAAATGACATAATAATATATAATAAAATA
AATATAATATATAATATAAAAGTATATAGTAAAAAATAATATATAATATATATAAATAATTAATA
AACAAATAATAATATAAAAATATAT
Found at i:13788632 original size:17 final size:17
Alignment explanation
Indices: 13788610--13788643 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13788600 AATTGTAAAG
13788610 AATGAAAAGTTTCTTTC
1 AATGAAAAGTTTCTTTC
13788627 AATGAAAAGTTTCTTTC
1 AATGAAAAGTTTCTTTC
13788644 TTCTCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
AATGAAAAGTTTCTTTC
Found at i:13788758 original size:20 final size:19
Alignment explanation
Indices: 13788721--13788767 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
13788711 TATATTTACT
13788721 AATAAAATAATAATAAAAG
1 AATAAAATAATAATAAAAG
13788740 AATAAAAT-ATCATATAAAAG
1 AATAAAATAAT-A-ATAAAAG
*
13788760 AATCAAAT
1 AATAAAAT
13788768 TAAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 14 0.56
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAATAATAATAAAAG
Found at i:13789033 original size:24 final size:22
Alignment explanation
Indices: 13789006--13789049 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
13788996 AGATCCTTCC
13789006 CCCTTAAAATATTTTCACTATTAG
1 CCCTTAAAAT-TTTTCA-TATTAG
*
13789030 CCCTTCAAATTTTTCATATT
1 CCCTTAAAATTTTTCATATT
13789050 TACATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 6 0.32
24 9 0.47
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (22 bp):
CCCTTAAAATTTTTCATATTAG
Found at i:13789866 original size:19 final size:18
Alignment explanation
Indices: 13789837--13789885 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
13789827 GTAATTATGT
* *
13789837 TTAACTTAATTATGTTTAA
1 TTAA-TTAATTAAGATTAA
13789856 TTAGATTAATTAAGATTAA
1 TTA-ATTAATTAAGATTAA
13789875 TTAATT-ATTAA
1 TTAATTAATTAA
13789886 CCAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 3 0.11
19 18 0.67
20 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAAGATTAA
Found at i:13792564 original size:40 final size:40
Alignment explanation
Indices: 13792520--13792600 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
13792510 TTTATTTATG
13792520 TTCATGATGTTCTGTGCCTCAATCGATTATGCTTTCAATT
1 TTCATGATGTTCTGTGCCTCAATCGATTATGCTTTCAATT
13792560 TTCATGATGTTCTGTGCCTCAATCGATTATGCTTTCAATT
1 TTCATGATGTTCTGTGCCTCAATCGATTATGCTTTCAATT
13792600 T
1 T
13792601 ATTTCATTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (40 bp):
TTCATGATGTTCTGTGCCTCAATCGATTATGCTTTCAATT
Found at i:13793111 original size:16 final size:17
Alignment explanation
Indices: 13793086--13793118 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13793076 TTCGTCACAC
*
13793086 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
13793102 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
13793119 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:13793607 original size:53 final size:53
Alignment explanation
Indices: 13793548--13793693 Score: 229
Period size: 53 Copynumber: 2.8 Consensus size: 53
13793538 CCATGACACT
* * *
13793548 GAAGAAGACTATATCGTGTAAGACCGTAATTGGTGGGTTATGGCATCATATGG
1 GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTATGGCATCATATGG
* * *
13793601 TAAGAAGACCATATCATGGAAGACTGTAACTGGTGGGTTATGGCATCATATGG
1 GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTATGGCATCATATGG
*
13793654 GAAGAAGACCATATCATGTAAAACCGTAACTGGTGGGTTA
1 GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTA
13793694 CGACATAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 83 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (53 bp):
GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTATGGCATCATATGG
Found at i:13802832 original size:17 final size:17
Alignment explanation
Indices: 13802810--13802843 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13802800 AATTGTAAAG
13802810 AATGAAAAGTTTCTTTC
1 AATGAAAAGTTTCTTTC
13802827 AATGAAAAGTTTCTTTC
1 AATGAAAAGTTTCTTTC
13802844 TTCTCTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
AATGAAAAGTTTCTTTC
Found at i:13802958 original size:20 final size:19
Alignment explanation
Indices: 13802921--13802967 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
13802911 TATATATACT
13802921 AATAAAATAATAATAAAAG
1 AATAAAATAATAATAAAAG
13802940 AATAAAAT-ATCATATAAAAG
1 AATAAAATAAT-A-ATAAAAG
*
13802960 AATCAAAT
1 AATAAAAT
13802968 TAAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 14 0.56
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAATAATAATAAAAG
Found at i:13804072 original size:19 final size:18
Alignment explanation
Indices: 13804043--13804091 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
13804033 GTAATTATGT
* *
13804043 TTAACTTAATTATGTTTAA
1 TTAA-TTAATTAAGATTAA
13804062 TTAGATTAATTAAGATTAA
1 TTA-ATTAATTAAGATTAA
13804081 TTAATT-ATTAA
1 TTAATTAATTAA
13804092 CCAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 3 0.11
19 18 0.67
20 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (18 bp):
TTAATTAATTAAGATTAA
Found at i:13807276 original size:16 final size:17
Alignment explanation
Indices: 13807251--13807283 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13807241 TTCATCACAC
*
13807251 TTAGGTTAA-TTTGCAT
1 TTAGGATAATTTTGCAT
13807267 TTAGGATAATTTTGCAT
1 TTAGGATAATTTTGCAT
13807284 CTAGTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (17 bp):
TTAGGATAATTTTGCAT
Found at i:13807774 original size:53 final size:53
Alignment explanation
Indices: 13807713--13807858 Score: 211
Period size: 53 Copynumber: 2.8 Consensus size: 53
13807703 CCATGACACT
* * *
13807713 GAAGAAGACTATATCGTGTAAGACCGTAATTGGTGGGTTATAGCATCATATGG
1 GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTATAGCATCATATGG
* * * * *
13807766 TAAGAAGACCATATCATGGAAGACTGTAACTGGTGAGTTATGGCATCATATGG
1 GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTATAGCATCATATGG
*
13807819 GAAGAAGACCATATCATGTAAAACCGTAACTGGTGGGTTA
1 GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTA
13807859 CGACATAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.26
Consensus pattern (53 bp):
GAAGAAGACCATATCATGTAAGACCGTAACTGGTGGGTTATAGCATCATATGG
Found at i:13810516 original size:14 final size:14
Alignment explanation
Indices: 13810497--13810524 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13810487 GATGAATCGG
13810497 TATGTTTTCATAGA
1 TATGTTTTCATAGA
13810511 TATGTTTTCATAGA
1 TATGTTTTCATAGA
13810525 ACCTAAGTGT
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:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TATGTTTTCATAGA
Found at i:13814544 original size:40 final size:40
Alignment explanation
Indices: 13814489--13814688 Score: 251
Period size: 40 Copynumber: 5.0 Consensus size: 40
13814479 TGAATGATAC
* * *
13814489 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
* *
13814529 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
*
13814569 TCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
* * * *
13814609 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
13814649 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
13814689 TCGGCTAAAT
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 135 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:13814633 original size:80 final size:80
Alignment explanation
Indices: 13814485--13814696 Score: 295
Period size: 80 Copynumber: 2.7 Consensus size: 80
13814475 CAATTGAATG
* * * *
13814485 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
13814550 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
**
13814565 ATATTCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTTG-TTATATCCGGGCTAAGACCCGAAGG
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCT-AG-TGATTATATCCGGGCTAAGACCCGAAGG
13814628 CATTTGTGCGAGTTGCT
64 CATTTGTGCGAGTTGCT
* * * *
13814645 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATTC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAA
13814697 ATTCCGAAGA
Statistics
Matches: 117, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
79 9 0.08
80 105 0.90
81 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:13819721 original size:21 final size:21
Alignment explanation
Indices: 13819695--13819735 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13819685 AGACGAGCGA
* *
13819695 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
13819716 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
13819736 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:13822637 original size:2 final size:2
Alignment explanation
Indices: 13822630--13822662 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13822620 AAGGCCAATT
13822630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13822663 TACATGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13829143 original size:21 final size:20
Alignment explanation
Indices: 13829118--13829158 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13829108 CATCTCTTCA
13829118 TTTTTATCTTCAATTTCCTTT
1 TTTTTATC-TCAATTTCCTTT
* *
13829139 TTTTTTTCTCCATTTCCTTT
1 TTTTTATCTCAATTTCCTTT
13829159 GTCCTCTTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATCTCAATTTCCTTT
Found at i:13842003 original size:49 final size:49
Alignment explanation
Indices: 13841947--13842161 Score: 376
Period size: 49 Copynumber: 4.4 Consensus size: 49
13841937 TACATATATG
* * * *
13841947 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
13841996 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
13842045 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
13842094 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
13842143 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
13842162 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:13842320 original size:37 final size:37
Alignment explanation
Indices: 13842263--13842346 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
13842253 GGAATATATT
*
13842263 CCGGGTGAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
13842299 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
13842336 CCGGGTAAGAC
1 CCGGGTAAGAC
13842347 TTCTTTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
36 9 0.20
37 36 0.80
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:13845312 original size:43 final size:43
Alignment explanation
Indices: 13845237--13845468 Score: 360
Period size: 43 Copynumber: 5.4 Consensus size: 43
13845227 GATAAATCCC
* * *
13845237 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
13845278 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
13845321 GCAAGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
13845364 GCAGGCTTCGTGCCGGTGATGTGTATTCTGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
13845407 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
13845450 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
13845469 AATGATATGT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 15 0.09
42 2 0.01
43 159 0.90
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:13845852 original size:45 final size:42
Alignment explanation
Indices: 13845785--13845892 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
13845775 TTGACTTGAT
* *
13845785 TATTCGGGCCTTTGAGCTTAGCAAACTATAATACCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
** *
13845830 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
13845872 TGATGTCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
13845893 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:13847504 original size:20 final size:20
Alignment explanation
Indices: 13847479--13847529 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
13847469 AGAGAAATTT
*
13847479 AAATAAAAT-TAATAACTAGA
1 AAATAAAATAAAATAACTA-A
13847499 AAATAAAATAAAAATAACTAA
1 AAATAAAAT-AAAATAACTAA
13847520 AAATAAAATA
1 AAATAAAATA
13847530 TGTATCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.36
21 10 0.36
22 8 0.29
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAAATAACTAA
Found at i:13847517 original size:22 final size:21
Alignment explanation
Indices: 13847489--13847529 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
13847479 AAATAAAATT
13847489 AATAACTAGAAAATAAAATAAA
1 AATAACTA-AAAATAAAATAAA
13847511 AATAACTAAAAATAAAATA
1 AATAACTAAAAATAAAATA
13847530 TGTATCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAACTAAAAATAAAATAAA
Found at i:13848975 original size:10 final size:11
Alignment explanation
Indices: 13848950--13848992 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
13848940 TGAAATGAAG
13848950 TTAAAAATTAA
1 TTAAAAATTAA
13848961 TTAAAAATTAA
1 TTAAAAATTAA
*
13848972 -TAAAAA-AAA
1 TTAAAAATTAA
13848981 TTTAAAAATTAA
1 -TTAAAAATTAA
13848993 GTTCAGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.07
10 6 0.22
11 17 0.63
12 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAAAATTAA
Found at i:13849636 original size:19 final size:19
Alignment explanation
Indices: 13849582--13849636 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
13849572 AAACTCTATT
13849582 TAATATTTTTATAAATTTTAA
1 TAAT-TTTTTA-AAATTTTAA
* *
13849603 TAATTTTCTACAATTTT-A
1 TAATTTTTTAAAATTTTAA
13849621 TAAATTTTTTAAAATT
1 T-AATTTTTTAAAATT
13849637 AGTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 18 0.62
20 5 0.17
21 4 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATTTTTTAAAATTTTAA
Found at i:13850799 original size:9 final size:9
Alignment explanation
Indices: 13850774--13850810 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13850764 TGAGTTTTCG
13850774 AATTCGAAT
1 AATTCGAAT
**
13850783 AACCCGAAT
1 AATTCGAAT
13850792 AATTCGAAT
1 AATTCGAAT
13850801 AATTCGAAT
1 AATTCGAAT
13850810 A
1 A
13850811 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13851070 original size:30 final size:29
Alignment explanation
Indices: 13851023--13851079 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
13851013 AACTTTTTAT
* *
13851023 TTTCCCCCTAAATTTTTACTCCCTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTCCCAC
*
13851052 TTTCACCCCAAAACTTTTACTTCCTCCC
1 TTTC-CCCCAAAACTTTTACTCCCTCCC
13851080 CATCTCATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTTACTCCCTCCCAC
Found at i:13852108 original size:112 final size:112
Alignment explanation
Indices: 13851946--13852170 Score: 450
Period size: 112 Copynumber: 2.0 Consensus size: 112
13851936 ATCTTTTATG
13851946 ATCTGGGTGAAAAAAGTAGACATATTTTAATAGTTGGGTGACTAATGGTATAGTTTACCCTTTTT
1 ATCTGGGTGAAAAAAGTAGACATATTTTAATAGTTGGGTGACTAATGGTATAGTTTACCCTTTTT
13852011 AAAAGGCTTAATATAACATTTGGTACCTAAACTTGACACTTTTTCCT
66 AAAAGGCTTAATATAACATTTGGTACCTAAACTTGACACTTTTTCCT
13852058 ATCTGGGTGAAAAAAGTAGACATATTTTAATAGTTGGGTGACTAATGGTATAGTTTACCCTTTTT
1 ATCTGGGTGAAAAAAGTAGACATATTTTAATAGTTGGGTGACTAATGGTATAGTTTACCCTTTTT
13852123 AAAAGGCTTAATATAACATTTGGTACCTAAACTTGACACTTTTTCCT
66 AAAAGGCTTAATATAACATTTGGTACCTAAACTTGACACTTTTTCCT
13852170 A
1 A
13852171 CTTTGGTACC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 113 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (112 bp):
ATCTGGGTGAAAAAAGTAGACATATTTTAATAGTTGGGTGACTAATGGTATAGTTTACCCTTTTT
AAAAGGCTTAATATAACATTTGGTACCTAAACTTGACACTTTTTCCT
Found at i:13856662 original size:21 final size:21
Alignment explanation
Indices: 13856636--13856676 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13856626 TAACGGGATT
13856636 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
13856657 GCTGATGTGGCTAGTTAACT
1 GCTGATGTGGCAAGTTAACT
13856677 TATCACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:13856920 original size:44 final size:39
Alignment explanation
Indices: 13856840--13856950 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 39
13856830 GGAAAAAAAA
* *
13856840 TAACAGGGATTT-GGGTTAGAAATCAATTCGAG-AATCGAT
1 TAACAGGG-TTTAGGGTTAGAAATCGATTTG-GTAATCGAT
13856879 TAACAAGGTTGGTTTAGGGTTAGAAAATCGATTTGGTAATCGAT
1 TAAC-A-G--GGTTTAGGGTTAG-AAATCGATTTGGTAATCGAT
*
13856923 TAACAGGGTTTAGGTTTAGAAATCGATT
1 TAACAGGGTTTAGGGTTAGAAATCGATT
13856951 AGTATTTTCT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
39 13 0.21
40 13 0.21
41 1 0.02
42 4 0.06
43 11 0.18
44 20 0.32
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.32
Consensus pattern (39 bp):
TAACAGGGTTTAGGGTTAGAAATCGATTTGGTAATCGAT
Found at i:13859613 original size:22 final size:22
Alignment explanation
Indices: 13859586--13859631 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
13859576 AAATCAGCAT
*
13859586 AGGACTTCTGTCAATCAGAGGA
1 AGGACTTCTGTCAATCAAAGGA
13859608 AGGACTTCTGTCAATCAAAGGA
1 AGGACTTCTGTCAATCAAAGGA
13859630 AG
1 AG
13859632 CTTTCAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (22 bp):
AGGACTTCTGTCAATCAAAGGA
Found at i:13859643 original size:21 final size:22
Alignment explanation
Indices: 13859586--13859644 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
13859576 AAATCAGCAT
* *
13859586 AGGACTTCTGTCAATCAGAGGA
1 AGGACTTCAGTCAATCAAAGGA
*
13859608 AGGACTTCTGTCAATCAAAGGA
1 AGGACTTCAGTCAATCAAAGGA
13859630 A-G-CTTTCAGTCAATC
1 AGGAC-TTCAGTCAATC
13859645 TCGAATATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 22 0.65
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (22 bp):
AGGACTTCAGTCAATCAAAGGA
Found at i:13863504 original size:40 final size:40
Alignment explanation
Indices: 13863459--13863626 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
13863449 CGGAATATAA
*
13863459 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
13863499 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
13863539 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
13863579 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
13863619 CCGGATAT
1 CCGGATAT
13863627 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13863609 original size:80 final size:80
Alignment explanation
Indices: 13863475--13863626 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
13863465 ATAACCATGT
* *
13863475 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
13863540 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
13863555 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
13863618 CCCGGATAT
64 CCCGGATAT
13863627 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:13871497 original size:40 final size:40
Alignment explanation
Indices: 13871452--13871618 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
13871442 CGGAATATAA
13871452 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
13871492 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
13871532 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
13871572 CCGGATA-AATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
13871611 CCGGATAT
1 CCGGATAT
13871619 CATTCAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 31 0.30
40 71 0.70
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13877008 original size:40 final size:40
Alignment explanation
Indices: 13876963--13877129 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
13876953 CGGAATATAA
13876963 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
13877003 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
13877043 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
13877083 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
13877122 CCGGATAT
1 CCGGATAT
13877130 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13877113 original size:80 final size:79
Alignment explanation
Indices: 13876963--13877129 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
13876953 CGGAATATAA
* *
13876963 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
13877028 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
13877043 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
13877105 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
13877122 CCGGATAT
1 CCGGATAT
13877130 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:13884207 original size:40 final size:40
Alignment explanation
Indices: 13884162--13884328 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
13884152 CGGAATATAA
13884162 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
13884202 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
13884242 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
13884282 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
13884321 CCGGATAT
1 CCGGATAT
13884329 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13884312 original size:80 final size:79
Alignment explanation
Indices: 13884162--13884328 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
13884152 CGGAATATAA
* *
13884162 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
13884227 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
13884242 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
13884304 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
13884321 CCGGATAT
1 CCGGATAT
13884329 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:13897234 original size:13 final size:13
Alignment explanation
Indices: 13897216--13897249 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13897206 TACTTAAGTT
13897216 ATGAATTTGTTTG
1 ATGAATTTGTTTG
*
13897229 ATGAATTTTTTTG
1 ATGAATTTGTTTG
*
13897242 ATGGATTT
1 ATGAATTT
13897250 CAATTGTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (13 bp):
ATGAATTTGTTTG
Found at i:13897405 original size:21 final size:21
Alignment explanation
Indices: 13897387--13897426 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13897377 AGTTACAAAC
13897387 TGCCCCAACTC-CTCAACAATA
1 TGCCCCAACTCTCT-AACAATA
13897408 TGCCCCAACTCTCTAACAA
1 TGCCCCAACTCTCTAACAA
13897427 GATGTTGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.42, G:0.05, T:0.20
Consensus pattern (21 bp):
TGCCCCAACTCTCTAACAATA
Found at i:13898427 original size:17 final size:16
Alignment explanation
Indices: 13898401--13898439 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
13898391 AACATATCTA
13898401 TTTT-TTCTCTTCTCC
1 TTTTATTCTCTTCTCC
*
13898416 TTCTTATTCTCTTCTTC
1 TT-TTATTCTCTTCTCC
13898433 TTTTATT
1 TTTTATT
13898440 GCCTAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 7 0.33
17 12 0.57
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTCTCTTCTCC
Found at i:13898944 original size:22 final size:22
Alignment explanation
Indices: 13898919--13898982 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
13898909 TTAATGAGAA
*
13898919 TATATTTTATTATTAATAATAT
1 TATATATTATTATTAATAATAT
* *
13898941 TATAAATTAATATTAA-AATAT
1 TATATATTATTATTAATAATAT
*
13898962 TAT-TATTATCATATAATAATA
1 TATATATTATTAT-TAATAATA
13898983 AAATTAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 6 0.18
21 11 0.32
22 17 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATATATTATTATTAATAATAT
Found at i:13898951 original size:38 final size:40
Alignment explanation
Indices: 13898902--13898992 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 40
13898892 TTTGAAAATT
* *
13898902 ATATAAATTAATGA-GAATATATT-TTATTATTA-ATAATA
1 ATATAAATTAAT-ATGAAAATATTATTATTATCATATAATA
* *
13898940 TTATAAATTAATATTAAAATATTATTATTATCATATAATA
1 ATATAAATTAATATGAAAATATTATTATTATCATATAATA
13898980 ATA-AAATTAATAT
1 ATATAAATTAATAT
13898993 TAATTAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.02
38 18 0.40
39 18 0.40
40 8 0.18
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (40 bp):
ATATAAATTAATATGAAAATATTATTATTATCATATAATA
Found at i:13898987 original size:39 final size:38
Alignment explanation
Indices: 13898902--13898995 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 38
13898892 TTTGAAAATT
* * *
13898902 ATATAAATTAATGA-GAATATATTTTATTATTAATAATA
1 ATATAAATTAAT-ATTAAAATATTTTATTATCAATAATA
*
13898940 TTATAAATTAATATTAAAATATTATTATTATCATATAATA
1 ATATAAATTAATATTAAAATATT-TTATTATCA-ATAATA
13898980 ATA-AAATTAATATTAA
1 ATATAAATTAATATTAA
13898996 TTAATATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
37 1 0.02
38 18 0.38
39 21 0.44
40 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (38 bp):
ATATAAATTAATATTAAAATATTTTATTATCAATAATA
Found at i:13899002 original size:27 final size:25
Alignment explanation
Indices: 13898933--13899006 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 25
13898923 TTTTATTATT
* *
13898933 AATAATATTATAAAT-TAATATTAA
1 AATAATATTATTAATATAATAATAA
*
13898957 AATATTATTATTATCATATAATAATAA
1 AATAATATTATTA--ATATAATAATAA
13898984 AATTAATATTAATTAATATAATA
1 AA-TAATATT-ATTAATATAATA
13899007 GTATATTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 11 0.27
26 2 0.05
27 18 0.44
28 6 0.15
29 4 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAATATTATTAATATAATAATAA
Found at i:13903660 original size:40 final size:40
Alignment explanation
Indices: 13903601--13903768 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
13903591 AAATTGAATG
* *
13903601 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAGATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAGATT
* * * **
13903641 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
* *
13903681 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAGATT
* * ** *
13903721 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
13903761 ATATCCGG
1 ATATCCGG
13903769 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
39 3 0.03
40 96 0.94
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAGATT
Found at i:13912726 original size:29 final size:28
Alignment explanation
Indices: 13912694--13912796 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
13912684 GTGACGAGAT
* *
13912694 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
13912723 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
13912752 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
13912781 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
13912797 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:13916606 original size:14 final size:14
Alignment explanation
Indices: 13916587--13916613 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13916577 TGGGGGTTGA
13916587 GTATCTTAAGCTGT
1 GTATCTTAAGCTGT
13916601 GTATCTTAAGCTG
1 GTATCTTAAGCTG
13916614 CGCCTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (14 bp):
GTATCTTAAGCTGT
Found at i:13921682 original size:27 final size:27
Alignment explanation
Indices: 13921652--13921809 Score: 118
Period size: 27 Copynumber: 5.9 Consensus size: 27
13921642 GAATGATACT
* *
13921652 CTTTCATATTTTGCCATAAAGGCATTC
1 CTTTCATATTTTGCCACAAAGGTATTC
* * * * *
13921679 CTTTTACATTGTGCTACAAAGGGATTC
1 CTTTCATATTTTGCCACAAAGGTATTC
* * **** *
13921706 TTTTCATATTGTAATGCAAAGGAATTC
1 CTTTCATATTTTGCCACAAAGGTATTC
* * * *
13921733 ATTTCATATTATGCCACAAAAGTGTTC
1 CTTTCATATTTTGCCACAAAGGTATTC
* * *
13921760 TTTTCATATTTTGCCACAATGGTGTTC
1 CTTTCATATTTTGCCACAAAGGTATTC
*
13921787 CTTTCATATTGTGCCACAAAGGT
1 CTTTCATATTTTGCCACAAAGGT
13921810 TTTCTTTTAG
Statistics
Matches: 102, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (27 bp):
CTTTCATATTTTGCCACAAAGGTATTC
Found at i:13922261 original size:27 final size:27
Alignment explanation
Indices: 13922231--13922331 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
13922221 ACTTATCATA
* * *
13922231 TTTCATATTGTGCCAAAAATGTGTTCT
1 TTTCATATTGCGCCAAAAAGGTGTTCC
* * *
13922258 TTTCATATTGTGCCACAAAGGAGTTCC
1 TTTCATATTGCGCCAAAAAGGTGTTCC
* *
13922285 TATCATATTGCGCCACAAAGGCT-TTCC
1 TTTCATATTGCGCCAAAAAGG-TGTTCC
13922312 TTTCATATTGCGCCACAAAA
1 TTTCATATTGCGCCA-AAAA
13922332 ACATTGTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 60 0.95
28 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (27 bp):
TTTCATATTGCGCCAAAAAGGTGTTCC
Found at i:13922342 original size:27 final size:27
Alignment explanation
Indices: 13922258--13922411 Score: 94
Period size: 27 Copynumber: 5.7 Consensus size: 27
13922248 AATGTGTTCT
* * *
13922258 TTTCATATTGTGCCACAAAGGA-GTTCC
1 TTTCATATTGCGCCACAAA-AACATTCC
* ** *
13922285 TATCATATTGCGCCACAAAGGCTTTCC
1 TTTCATATTGCGCCACAAAAACATTCC
**
13922312 TTTCATATTGCGCCACAAAAACATTGT
1 TTTCATATTGCGCCACAAAAACATTCC
* * ** *
13922339 TTTCATATTACGCCATAAAGGCTTTCC
1 TTTCATATTGCGCCACAAAAACATTCC
** * ** *
13922366 TTTTGTATTGCGCCACAAAGACGGTCT
1 TTTCATATTGCGCCACAAAAACATTCC
* *
13922393 TTTCATATTACACCACAAA
1 TTTCATATTGCGCCACAAA
13922412 GGCCTTTCTT
Statistics
Matches: 97, Mismatches: 29, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
26 1 0.01
27 96 0.99
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (27 bp):
TTTCATATTGCGCCACAAAAACATTCC
Found at i:13922345 original size:54 final size:54
Alignment explanation
Indices: 13922287--13922419 Score: 176
Period size: 54 Copynumber: 2.4 Consensus size: 54
13922277 GGAGTTCCTA
* * *
13922287 TCATATTGCGCCACAAAGGCTTTCCTTTCATATTGCGCCACAAAAACATTGTTT
1 TCATATTACGCCACAAAGGCTTTCCTTTCATATTGCGCCACAAAAACAGTCTTT
* ** * *
13922341 TCATATTACGCCATAAAGGCTTTCCTTTTGTATTGCGCCACAAAGACGGTCTTT
1 TCATATTACGCCACAAAGGCTTTCCTTTCATATTGCGCCACAAAAACAGTCTTT
*
13922395 TCATATTACACCACAAAGGCCTTTC
1 TCATATTACGCCACAAAGG-CTTTC
13922420 TTTAGGGTTC
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 63 0.93
55 5 0.07
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (54 bp):
TCATATTACGCCACAAAGGCTTTCCTTTCATATTGCGCCACAAAAACAGTCTTT
Found at i:13929656 original size:11 final size:11
Alignment explanation
Indices: 13929640--13929666 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13929630 TTTTCGTTTT
13929640 TAATTATTTAA
1 TAATTATTTAA
13929651 TAATTATTTAA
1 TAATTATTTAA
13929662 TAATT
1 TAATT
13929667 TTTTCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATTATTTAA
Found at i:13935378 original size:46 final size:45
Alignment explanation
Indices: 13935310--13935479 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
13935300 CATATCTCTA
* *
13935310 CCGATGCATCTCCTAGACATGTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCGAGG
* * * * * *
13935356 CTGATGTATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCGAGG
* * * * *
13935402 CCGATGCCAAGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGT-CTCGAGG
13935450 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
13935480 AGCTCACACA
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 51 0.52
47 24 0.24
48 22 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCGAGG
Found at i:13938182 original size:47 final size:48
Alignment explanation
Indices: 13938040--13938302 Score: 204
Period size: 47 Copynumber: 5.5 Consensus size: 48
13938030 AACGAGGGCT
* * * *
13938040 AGTGTAAGA-CGTGTCTGGGACATGCATCAG--TCGCATCATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCG-ATGAAGATAGCC
* * * *
13938086 CGTGTAAGACCACGTCTGGGACATGACATCGGCGTAGAGGTG-AG-T-GCC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGA--TGAAGATAGCC
* * * * *
13938134 AGTGTAAGA-CATGTCTAGGACATACATTGGCCTCGATGATGTTAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGATGAAGATAGCC
** * * * *
13938181 AGTGTAAGA-TGTGTCTGGGACATGCATCAG-CACGTAT-ACACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCG-ATGA-A-GATAGCC
13938229 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGATGAAGATAGCC
*
13938278 AGCGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
13938303 GCAGCGACAA
Statistics
Matches: 168, Mismatches: 33, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 22 0.13
47 54 0.32
48 30 0.18
49 42 0.25
50 12 0.07
51 5 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGATGAAGATAGCC
Found at i:13938303 original size:49 final size:49
Alignment explanation
Indices: 13937988--13938305 Score: 198
Period size: 47 Copynumber: 6.7 Consensus size: 49
13937978 GTTATGTGAG
* * * ** * *
13937988 AGCCAGTATAAGACCATGTCTAGGACATGGCATCAGTATTGA--AACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAA-GAT
* * * * * *
13938036 GGCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAG--TCGCATCATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATGAAGAT
* * * * *
13938082 AGCCCGTGTAAGACCACGTCTGGGACATGACATCGGCGTAGAGGTG-AG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--TGAAGAT
* * * * *
13938131 -GCCAGTGTAAGA-CATGTCTAGGACAT-ACATTGGCCTCGATGATGTT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
** * * *
13938177 AGCCAGTGTAAGA-TGTGTCTGGGACAT-GCATCAG-CACGTAT-ACACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG-ATGA-A-GAT
*
13938225 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
*
13938274 AGCCAGCGTAAGACCATGTCTGGGACATGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCA
13938306 GCGACAACTT
Statistics
Matches: 208, Mismatches: 43, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
44 4 0.02
45 2 0.01
46 34 0.16
47 66 0.32
48 39 0.19
49 46 0.22
50 12 0.06
51 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGAT
Found at i:13949638 original size:41 final size:41
Alignment explanation
Indices: 13949593--13949710 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
13949583 TGAAAGATAA
13949593 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
13949634 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
13949664 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
13949705 ATGTAG
1 ATGTAG
13949711 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:13949649 original size:71 final size:71
Alignment explanation
Indices: 13949561--13949724 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
13949551 GAGATGTATC
13949561 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
13949626 AGGACA
66 AGGACA
13949632 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
13949697 AGGACA
66 AGGACA
13949703 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
13949725 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:13957210 original size:41 final size:41
Alignment explanation
Indices: 13957165--13957282 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
13957155 TGAAAGATAA
13957165 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
13957206 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
13957236 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
13957277 ATGTAG
1 ATGTAG
13957283 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:13957221 original size:71 final size:71
Alignment explanation
Indices: 13957133--13957296 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
13957123 GAGATGTATC
13957133 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
13957198 AGGACA
66 AGGACA
13957204 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
13957269 AGGACA
66 AGGACA
13957275 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
13957297 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:13964651 original size:20 final size:21
Alignment explanation
Indices: 13964626--13964665 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13964616 ACTTTGAAAT
13964626 AGGGC-ACAAGCCCATGTAGA
1 AGGGCAACAAGCCCATGTAGA
* *
13964646 AGGGCAACACGCCCGTGTAG
1 AGGGCAACAAGCCCATGTAG
13964666 CCATTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.28, G:0.33, T:0.10
Consensus pattern (21 bp):
AGGGCAACAAGCCCATGTAGA
Found at i:13965964 original size:46 final size:47
Alignment explanation
Indices: 13965914--13966041 Score: 129
Period size: 46 Copynumber: 2.7 Consensus size: 47
13965904 CATCTCGTAA
*
13965914 CCGATGCATGTCCTAGACATGTCTTACACTGGCTTA-T-GTCTCGAGG
1 CCGATGCATGTCCTAGACATGTCTTACACTGGC-TACTCGTCTCAAGG
* * * *
13965960 CCGATACATGT-CTCAGACATGTCTTACACTAGC-ACTCGTCTTAATG
1 CCGATGCATGTCCT-AGACATGTCTTACACTGGCTACTCGTCTCAAGG
* *
13966006 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCT
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTGGCT
13966042 CTCATAATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
44 1 0.02
45 3 0.05
46 39 0.59
47 11 0.17
48 12 0.18
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
CCGATGCATGTCCTAGACATGTCTTACACTGGCTACTCGTCTCAAGG
Found at i:13968520 original size:19 final size:19
Alignment explanation
Indices: 13968493--13968550 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
13968483 TCGAAACATG
*
13968493 AAATCCCTAATAACATGTC
1 AAATACCTAATAACATGTC
13968512 AAATACCTAATAACATGTC
1 AAATACCTAATAACATGTC
*
13968531 AAATACCTAATGACATGTC
1 AAATACCTAATAACATGTC
13968550 A
1 A
13968551 TTTGTATCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (19 bp):
AAATACCTAATAACATGTC
Found at i:13972097 original size:30 final size:30
Alignment explanation
Indices: 13972061--13972120 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
13972051 TATAATGGAG
13972061 TTTGACATTGTCGACCATACAAAGCTTCAT
1 TTTGACATTGTCGACCATACAAAGCTTCAT
* *
13972091 TTTGACATTTTCGACTATACAAAGCTTCAT
1 TTTGACATTGTCGACCATACAAAGCTTCAT
13972121 ACGGTGTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (30 bp):
TTTGACATTGTCGACCATACAAAGCTTCAT
Found at i:13981921 original size:39 final size:39
Alignment explanation
Indices: 13981867--13981945 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
13981857 GATCTTAAAA
*
13981867 GATATGATTTTATAATCTTAGAGATCTTAGATATGATAT
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATAT
*
13981906 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATAT
13981945 G
1 G
13981946 GAATCTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (39 bp):
GATATGATATTATAATCTTAGAGATCTTAGATATGATAT
Found at i:13981944 original size:29 final size:28
Alignment explanation
Indices: 13981906--13982006 Score: 79
Period size: 28 Copynumber: 3.8 Consensus size: 28
13981896 GATATGATAT
*
13981906 GATATTATATTATAATCTTAGAGATCTTA
1 GATATGATA-TATAATCTTAGAGATCTTA
** * *
13981935 GATATGATATGGAATCTTATAAGATATT-
1 GATATGATATATAATCTTA-GAGATCTTA
13981963 -ATAT--TATAT--TCTTAGAGATCTTA
1 GATATGATATATAATCTTAGAGATCTTA
* *
13981986 GGTATGATATGTAATCTTAGA
1 GATATGATATATAATCTTAGA
13982007 AGATATGATT
Statistics
Matches: 54, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
22 6 0.11
23 5 0.09
24 3 0.06
25 3 0.06
26 4 0.07
27 4 0.07
28 15 0.28
29 14 0.26
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.43
Consensus pattern (28 bp):
GATATGATATATAATCTTAGAGATCTTA
Found at i:13981964 original size:51 final size:51
Alignment explanation
Indices: 13981906--13982032 Score: 200
Period size: 51 Copynumber: 2.5 Consensus size: 51
13981896 GATATGATAT
* *
13981906 GATATTATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAA
1 GATATTATATTATATTCTTAGAGATCTTAGATATGATATGGAATCTTAGAA
* *
13981957 GATATTATATTATATTCTTAGAGATCTTAGGTATGATATGTAATCTTAGAA
1 GATATTATATTATATTCTTAGAGATCTTAGATATGATATGGAATCTTAGAA
* *
13982008 GATATGATTTTATATTCTTAGAGAT
1 GATATTATATTATATTCTTAGAGAT
13982033 TTGATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (51 bp):
GATATTATATTATATTCTTAGAGATCTTAGATATGATATGGAATCTTAGAA
Found at i:13981981 original size:22 final size:22
Alignment explanation
Indices: 13981956--13982032 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
13981946 GAATCTTATA
13981956 AGATATTATATTATATTCTTAG
1 AGATATTATATTATATTCTTAG
* *
13981978 AGATCTTAGGTATGATATGTAATCTTAG
1 AGATATTA--TAT--TA--TATTCTTAG
* *
13982006 AAGATATGATTTTATATTCTTAG
1 -AGATATTATATTATATTCTTAG
13982029 AGAT
1 AGAT
13982033 TTGATTTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 11 0.26
23 8 0.19
24 3 0.07
25 2 0.05
26 2 0.05
27 2 0.05
28 8 0.19
29 6 0.14
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (22 bp):
AGATATTATATTATATTCTTAG
Found at i:13984763 original size:51 final size:51
Alignment explanation
Indices: 13984699--13984924 Score: 278
Period size: 51 Copynumber: 4.7 Consensus size: 51
13984689 TGGAAACATG
* *
13984699 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* *
13984750 ATCTTATAAGATATTATATTATAATCTTAGAGATATTAGATATGATAT-G-
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
13984799 -----AT---AT-T-ATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
13984840 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
13984891 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATATTATAATCTTAGAGAT
13984925 TTGATTTGTA
Statistics
Matches: 153, Mismatches: 10, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
39 32 0.21
40 2 0.01
41 2 0.01
44 2 0.01
46 2 0.01
49 2 0.01
50 2 0.01
51 109 0.71
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.42
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:13984802 original size:39 final size:39
Alignment explanation
Indices: 13984759--13984837 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13984749 AATCTTATAA
13984759 GATATTATATTATAATCTTAGAGATATTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATATTAGATATGATAT
*
13984798 GATATTATATTATAATCTTAGAGATCTTAGATATGATAT
1 GATATTATATTATAATCTTAGAGATATTAGATATGATAT
13984837 G
1 G
13984838 GAATCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (39 bp):
GATATTATATTATAATCTTAGAGATATTAGATATGATAT
Found at i:13984854 original size:90 final size:90
Alignment explanation
Indices: 13984708--13984888 Score: 326
Period size: 90 Copynumber: 2.0 Consensus size: 90
13984698 GATCTTAAAA
*
13984708 GATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
13984773 ATCTTAGAGATATTAGATATGATAT
66 ATCTTAGAGATATTAGATATGATAT
*
13984798 GATATTATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
1 GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
* *
13984863 TTCTTAGAGATCTTAGATATGATAT
66 ATCTTAGAGATATTAGATATGATAT
13984888 G
1 G
13984889 TAATCTTAGA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (90 bp):
GATATGATATTATAATCTTAGAGATCTTAGATATGATATGGAATCTTATAAGATATTATATTATA
ATCTTAGAGATATTAGATATGATAT
Found at i:14004979 original size:3 final size:3
Alignment explanation
Indices: 14004971--14005007 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14004961 CCCTGAAAGG
14004971 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14005008 TATTTAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14006756 original size:31 final size:31
Alignment explanation
Indices: 14006718--14006784 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
14006708 AATATTAAAA
*
14006718 ACAGAATAATTAAAAAATAAAATAAATATTT
1 ACAGAATAATTAAAAAATAAAATAAAAATTT
* *
14006749 ACAGAATAATTTAAAAATAAAGTAAAAATTT
1 ACAGAATAATTAAAAAATAAAATAAAAATTT
14006780 ACAGA
1 ACAGA
14006785 TAAAAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (31 bp):
ACAGAATAATTAAAAAATAAAATAAAAATTT
Found at i:14006797 original size:31 final size:31
Alignment explanation
Indices: 14006725--14006796 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
14006715 AAAACAGAAT
* *
14006725 AATTAAAAAATAAAATAAATATTTACAGAATA
1 AATT-AAAAATAAAATAAAAATTTACAGAAAA
* *
14006757 ATTTAAAAATAAAGTAAAAATTTACAGATAAA
1 AATTAAAAATAAAATAAAAATTTACAGA-AAA
14006789 AATTAAAA
1 AATTAAAA
14006797 TTGTCGCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 22 0.65
32 12 0.35
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (31 bp):
AATTAAAAATAAAATAAAAATTTACAGAAAA
Found at i:14009138 original size:17 final size:18
Alignment explanation
Indices: 14009116--14009168 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 18
14009106 CCTTTTTTTT
14009116 ATTTCATTTATAATTT-C
1 ATTTCATTTATAATTTCC
14009133 ATTTCATTTCATTTACATTTCC
1 ATTTCATTT-A--TA-ATTTCC
14009155 ATTTCATTTA-AATT
1 ATTTCATTTATAATT
14009169 ATTTATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 12 0.39
18 2 0.06
20 2 0.06
21 5 0.16
22 10 0.32
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTCATTTATAATTTCC
Found at i:14009141 original size:22 final size:22
Alignment explanation
Indices: 14009116--14009163 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14009106 CCTTTTTTTT
14009116 ATTTCATTTATAATTT-CATTTC
1 ATTTCATTTA-AATTTCCATTTC
*
14009138 ATTTCATTTACATTTCCATTTC
1 ATTTCATTTAAATTTCCATTTC
14009160 ATTT
1 ATTT
14009164 AAATTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTCATTTAAATTTCCATTTC
Found at i:14009157 original size:6 final size:5
Alignment explanation
Indices: 14009128--14009163 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
14009118 TTCATTTATA
14009128 ATTTC ATTTC ATTTC ATTTAC ATTTCC ATTTC ATTT
1 ATTTC ATTTC ATTTC ATTT-C ATTT-C ATTTC ATTT
14009164 AAATTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTC
Found at i:14009179 original size:26 final size:27
Alignment explanation
Indices: 14009128--14009184 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
14009118 TTCATTTATA
* *
14009128 ATTTCATTTCATTTCATTTACATTTCC
1 ATTTCATTTAAATTCATTTACATTTCC
14009155 ATTTCATTTAAATT-ATTTATC-TTTCC
1 ATTTCATTTAAATTCATTTA-CATTTCC
14009181 ATTT
1 ATTT
14009185 AAATTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.25, C:0.18, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTTCATTTAAATTCATTTACATTTCC
Found at i:14009204 original size:21 final size:22
Alignment explanation
Indices: 14009158--14009205 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
14009148 CATTTCCATT
*
14009158 TCATTTAAATTATTTATCTTTC
1 TCATTTAAATTAATTATCTTTC
14009180 -CATTTAAATTTAATT-T-TTTC
1 TCATTTAAA-TTAATTATCTTTC
14009200 TCATTT
1 TCATTT
14009206 CAAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.60
Consensus pattern (22 bp):
TCATTTAAATTAATTATCTTTC
Found at i:14009214 original size:18 final size:17
Alignment explanation
Indices: 14009191--14009243 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 17
14009181 ATTTAAATTT
14009191 AATTTTTTCTCATTTCAA
1 AATTTTTT-TCATTTCAA
14009209 AATTTTTATTTTCATTTCAA
1 AA--TTT-TTTTCATTTCAA
*
14009229 TATTTCTTTTCATTT
1 AATTT-TTTTCATTT
14009244 AAATTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 14 0.47
20 13 0.43
21 3 0.10
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTTTTCATTTCAA
Found at i:14009299 original size:5 final size:5
Alignment explanation
Indices: 14009270--14009391 Score: 59
Period size: 5 Copynumber: 22.4 Consensus size: 5
14009260 TTTTTTAAAC
* * *
14009270 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTTA TATTCA TTTAACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA T-TTCA TTT--CA
* * * *
14009317 TTTCA TTTAA TTTCA TATTCA TTACAAA TTACA TTTTA TTTCA TATTCATA
1 TTTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA TTTCA TTTCA T-TTC--A
14009368 TTTCA TTTAACA TTTCA TTTCA TT
1 TTTCA TTT--CA TTTCA TTTCA TT
14009392 AATTTTTTCA
Statistics
Matches: 92, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
3 3 0.03
5 54 0.59
6 15 0.16
7 18 0.20
8 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.53
Consensus pattern (5 bp):
TTTCA
Found at i:14009323 original size:28 final size:28
Alignment explanation
Indices: 14009291--14009419 Score: 95
Period size: 28 Copynumber: 4.4 Consensus size: 28
14009281 TTCATAATCA
14009291 TCATTTCATTTTATATTCATTTAACATT
1 TCATTTCATTTTATATTCATTTAACATT
* * *
14009319 TCATTTAATTTCATATTCATTACAAATTACATT
1 TCATTTCATTTTATATTCATT-----TAACATT
* *
14009352 TTATTTCATATTCATATTTCATTTAACATT
1 TCATTTCAT-TTTATA-TTCATTTAACATT
*
14009382 TCATTTCATTAATT-TTTTCATTTAA-ATT
1 TCATTTCATT--TTATATTCATTTAACATT
14009410 T-ATTTC-TTTT
1 TCATTTCATTTT
14009420 CCTAATATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
24 2 0.02
26 2 0.02
27 5 0.06
28 23 0.28
29 10 0.12
30 15 0.18
31 1 0.01
33 13 0.16
34 6 0.07
35 6 0.07
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.57
Consensus pattern (28 bp):
TCATTTCATTTTATATTCATTTAACATT
Found at i:14009532 original size:16 final size:16
Alignment explanation
Indices: 14009492--14009533 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
14009482 TATCAGGGTC
14009492 ATTTAAATTTTTTCAT
1 ATTTAAATTTTTTCAT
*
14009508 ATTT-TATTTTTGTCA-
1 ATTTAAATTTTT-TCAT
14009523 ATTTAAATTTT
1 ATTTAAATTTT
14009534 AAATTTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
ATTTAAATTTTTTCAT
Found at i:14009732 original size:5 final size:5
Alignment explanation
Indices: 14009724--14009791 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
14009714 CACTTTTTTT
* * *
14009724 TTTCA TTTCA TTCCAA TTTCA TTTTCA TTTCA TTTTA TTTCCA TTCCCA
1 TTTCA TTTCA TTTC-A TTTCA -TTTCA TTTCA TTTCA TTT-CA TT-TCA
*
14009773 TTTCCA TTTCA TTTAA TTT
1 TTT-CA TTTCA TTTCA TTT
14009792 ATATTATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 30 0.59
6 21 0.41
ACGTcount: A:0.21, C:0.22, G:0.00, T:0.57
Consensus pattern (5 bp):
TTTCA
Found at i:14009768 original size:22 final size:21
Alignment explanation
Indices: 14009723--14009791 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
14009713 TCACTTTTTT
*
14009723 TTTTCATTTCATTCCAATTTCA
1 TTTTCATTTCATT-TAATTTCA
*
14009745 TTTTCATTTCATTTTATTTCCA
1 TTTTCATTTCATTTAATTT-CA
** * *
14009767 TTCCCATTTCCATTTCATTTAA
1 TTTTCATTT-CATTTAATTTCA
14009789 TTT
1 TTT
14009792 ATATTATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.11
22 25 0.66
23 9 0.24
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTCATTTCATTTAATTTCA
Found at i:14010811 original size:5 final size:5
Alignment explanation
Indices: 14010801--14010828 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14010791 TTGTGTGTTC
14010801 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
14010829 TTTACAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:14015188 original size:30 final size:30
Alignment explanation
Indices: 14015152--14015211 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14015142 ATTCCGAGCC
*
14015152 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
14015182 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
14015212 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:14026786 original size:39 final size:39
Alignment explanation
Indices: 14026743--14026901 Score: 282
Period size: 39 Copynumber: 4.1 Consensus size: 39
14026733 CATGGTATTT
* * *
14026743 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
14026782 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
14026821 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
*
14026860 GAAATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
14026899 GAA
1 GAA
14026902 TGGTACCCGG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
Found at i:14033285 original size:22 final size:22
Alignment explanation
Indices: 14033257--14033298 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
14033247 AGCTTAAATG
14033257 ATGGTTGAATAAGTA-GAATTTC
1 ATGGTTGAA-AAGTATGAATTTC
14033279 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
14033299 GAAATTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (22 bp):
ATGGTTGAAAAGTATGAATTTC
Found at i:14034618 original size:39 final size:39
Alignment explanation
Indices: 14034575--14034694 Score: 186
Period size: 39 Copynumber: 3.1 Consensus size: 39
14034565 CATGGTATTT
* * * *
14034575 GAAATATATCTAGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCAGACTTGAAGTCCGCAGGCTATGTGCTG
*
14034614 GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTG
1 GAAATATATCCAGACTTGAAGTCCGCAGGCTATGTGCTG
*
14034653 GAAATATATCCAGACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCAGACTTGAAGTCCGCAGGCTATGTGCTG
14034692 GAA
1 GAA
14034695 TGGTACCCGG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAATATATCCAGACTTGAAGTCCGCAGGCTATGTGCTG
Found at i:14037926 original size:112 final size:110
Alignment explanation
Indices: 14037798--14038168 Score: 410
Period size: 108 Copynumber: 3.3 Consensus size: 110
14037788 CAGTACTAAA
* * *
14037798 TTTTTTTTTACTAGTCTGGTGTCGACTATTAGAAGGCCAGAACAAAAAAAAAAATTACATTGGAA
1 TTTTTTTTTACTAGTCTGGTG-CGACCATTAGAAGGCCAAAAC-AAAAAAAAAATTACATTGGGA
* *
14037863 CACGAAAAAAGTACCTGGTGCTAGCCATCTACAGGCCAGCACCAAAT
64 CACGAAAAAAGTACTTGGTGCTGGCCATCTACAGGCCAGCACCAAAT
* ***
14037910 TTTTTTTTTACTAGTCTGGTGCCAGCCATTAGAAGGCCAAAACAAAAAAAAAATTGTGTTGGGAC
1 TTTTTTTTTACTAGTCTGGTGCGA-CCATTAGAAGGCCAAAACAAAAAAAAAATTACATTGGGAC
* *
14037975 ACGAAAAAAGTACTTGGTG-TCGGCCATCTAC-GAGCTAGCACTAAA-
65 ACGAAAAAAGTACTTGGTGCT-GGCCATCTACAG-GCCAGCACCAAAT
* * * * * * *
14038020 ATTTTTTTT--TAGTCTGATGCTGGCCATTAGAAGGCAAAAACCAAAAGAAATTTACATTGGGAC
1 TTTTTTTTTACTAGTCTGGTGC-GACCATTAGAAGGCCAAAACAAAAAAAAAATTACATTGGGAC
* * *
14038083 ACGAAAAAAGTACTTGGTGCTGGCCATCTACAAGCCACCACCAATTT
65 ACGAAAAAAGTACTTGGTGCTGGCCATCTACAGGCCAGCACCAA-AT
* * * *
14038130 TTTTTTTTTGCTACTCTGGTGTTGGCCATTAGAAGGCCA
1 TTTTTTTTTACTAGTCTGGTG-CGACCATTAGAAGGCCA
14038169 TAATCATTTT
Statistics
Matches: 216, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
108 80 0.37
109 1 0.00
110 18 0.08
111 57 0.26
112 60 0.28
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (110 bp):
TTTTTTTTTACTAGTCTGGTGCGACCATTAGAAGGCCAAAACAAAAAAAAAATTACATTGGGACA
CGAAAAAAGTACTTGGTGCTGGCCATCTACAGGCCAGCACCAAAT
Found at i:14040133 original size:2 final size:2
Alignment explanation
Indices: 14040126--14040163 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14040116 CCGTTATAGT
14040126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14040164 ATAATATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14040327 original size:26 final size:26
Alignment explanation
Indices: 14040291--14040342 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14040281 ATTTAATCCA
14040291 ATTTTTTATTTTGTTATCATACATAT
1 ATTTTTTATTTTGTTATCATACATAT
14040317 ATTTTTTATTTTGTTATCATACATAT
1 ATTTTTTATTTTGTTATCATACATAT
14040343 TTCATGTATT
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:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (26 bp):
ATTTTTTATTTTGTTATCATACATAT
Done.