Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 22 of 345
Found at i:7361759 original size:75 final size:75
Alignment explanation
Indices: 7361662--7362413 Score: 533
Period size: 87 Copynumber: 9.6 Consensus size: 75
7361652 CACCTCAGCA
* *
7361662 TCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGAAATTGAAAATA
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATA
7361727 CCTCAACGTG
66 CCTCAACGTG
*
7361737 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCAGAT
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----TTAA----AAAA-CAGAA
* * *
7361802 TTTGAAAATGCCTCGATATGTG
56 ATTGAAAATACCTC-A-ACGTG
* ** ** * ***
7361824 ACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAA
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAA-A-ACA--G-AAATTGA
* **
7361889 AAAAACCTCAGTGTG
61 AAATACCTCAACGTG
* * * * *
7361904 TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGACAGAAATTGAAAA
1 T-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAA
*
7361969 TACCTCAGCATGTG
64 TACCTCA--ACGTG
* * * * ** *
7361983 AAC-TGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAATTGAAA
1 -TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTTTAAAAAACAGAAATTGAAA
7362047 ATACCTCAACGTG
63 ATACCTCAACGTG
** * * *
7362060 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTT-GAAAACAGAAATTGAAATTA
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATA
*
7362122 CCTCAGCGTG
66 CCTCAACGTG
** * *
7362132 TCCCGAGGCTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGAA
1 TCTTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATT---G--
* * ** *
7362196 CAAAAATGGAAAACACCTCAGCG
60 --AAAAT----ACCTCAAC-GTG
* * * *
7362219 TCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATA
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATA
** *
7362284 ATTCAACATG
66 CCTCAACGTG
* * ** *
7362294 TCTTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTTGACAACAGAAATTGAAA
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTAAAAAACAGAAATTGAAA
* * *
7362359 TTACCTCAGCGTA
63 ATACCTCAACGTG
* * *
7362372 TCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7362414 AAAATAAAAC
Statistics
Matches: 530, Mismatches: 102, Indels: 90
0.73 0.14 0.12
Matches are distributed among these distances:
72 58 0.11
73 5 0.01
74 4 0.01
75 88 0.17
76 6 0.01
77 74 0.14
78 66 0.12
79 35 0.07
80 16 0.03
81 3 0.01
82 53 0.10
84 5 0.01
85 16 0.03
86 6 0.01
87 95 0.18
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAAACAGAAATTGAAAATA
CCTCAACGTG
Found at i:7362003 original size:159 final size:151
Alignment explanation
Indices: 7361829--7362335 Score: 445
Period size: 159 Copynumber: 3.2 Consensus size: 151
7361819 ATGTGACTCA
7361829 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA-AAATTGAAAAAAAAAAAAA
* * *
7361894 CCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGACAG
65 CCTCA--GTGT-CT-TGAGGCTCAACTCATCTCTCGCAATATGAGTTAATTTTTTTGAAA-ACAG
7361959 AAATTGAAAATACCTCAGCATGTGAACTG
125 AAATTGAAAATACCTCAGCATGTG--CTG
* * * **** * *** *
7361988 AGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTT--TTTTTGAAAATAG-AAATTGAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AAAATTGAAAAAAAAAAAAA
*
7362050 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA---TTTTGAAAACAGAA
65 CCTC-A-GTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AATTTTTTTGAAAACAGAA
* * * *
7362112 ATTGAAATTACCTCAGCGTGTCCCG
127 ATTGAAAATACCTCAGCATGTGCTG
* *
7362137 AGGCTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGAACAAAA
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAAAATA-AAATT---GAA-AAAA
* * * * *
7362201 ATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAA
58 A---AAAAAACCTCAGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAATTTTTTTG-A
** *
7362266 AAACAGAAATTGAAAATAATTCAACATGT-CTTG
119 AAACAGAAATTGAAAATACCTCAGCATGTGC-TG
* *
7362299 AGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7362336 TTTTTTGACA
Statistics
Matches: 278, Mismatches: 47, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
149 29 0.10
150 1 0.00
151 30 0.11
152 9 0.03
153 4 0.01
154 29 0.10
155 3 0.01
156 17 0.06
157 8 0.03
158 4 0.01
159 68 0.24
160 6 0.02
161 15 0.05
162 55 0.20
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (151 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAATTGAAAAAAAAAAAAAC
CTCAGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAATTTTTTTGAAAACAGAAATTG
AAAATACCTCAGCATGTGCTG
Found at i:7362012 original size:77 final size:76
Alignment explanation
Indices: 7361888--7362413 Score: 366
Period size: 77 Copynumber: 6.8 Consensus size: 76
7361878 TTGAAAAAAA
* ** *
7361888 AAAAAACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAA
1 AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAA
7361953 AGACAGAAATTG
66 A-ACAGAAATTG
* * * **
7361965 AAAATACCTCAGCATGTGAACTGAGGCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTT
1 AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG-T--TAATTTTTTT
*
7362030 GAAAATAGAAATTG
63 GAAAACAGAAATTG
* **
7362044 AAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA---TTTTG
1 AAAATACCTCAGCATGTGATC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTTG
7362103 AAAACAGAAATTG
64 AAAACAGAAATTG
* * *
7362116 AAATTACCTCAGC--GTG-TCCCGAGGCTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTG
1 AAAATACCTCAGCATGTGAT-CTGAGGCTCAACTCACC-TCTCGCAATATGAGTTAATTTTTTTG
7362177 AAACACAGAAATTAAAG
64 AAA-ACAGAAATT---G
*** * * * * * *
7362194 AACAAAAATGGAAAACA-CCTCAGCG-TCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGAT
1 ----AAAAT--ACCTCAGCAT--GTGATC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
7362257 TTTTTTGAAAAACAGAAATTG
57 TTTTTTG-AAAACAGAAATTG
** * * * * *
7362278 AAAATAATTCAACATGT-CT-TGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTT
1 AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A---ATTTTTT
*
7362341 TGACAACAGAAATTG
62 TGAAAACAGAAATTG
* *
7362356 AAATTACCTCAGC--GT-ATCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AAAATACCTCAGCATGTGAT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTT
7362414 AAAATAAAAC
Statistics
Matches: 358, Mismatches: 54, Indels: 76
0.73 0.11 0.16
Matches are distributed among these distances:
71 1 0.00
72 58 0.16
73 2 0.01
74 9 0.03
75 40 0.11
76 5 0.01
77 76 0.21
78 58 0.16
79 30 0.08
80 17 0.05
82 4 0.01
83 1 0.00
84 4 0.01
86 2 0.01
87 48 0.13
88 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (76 bp):
AAAATACCTCAGCATGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAA
AACAGAAATTG
Found at i:7362132 original size:72 final size:72
Alignment explanation
Indices: 7361913--7362417 Score: 368
Period size: 72 Copynumber: 6.6 Consensus size: 72
7361903 GTGATCTGAA
*
7361913 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
7361978 ATGTGAAC-TGAG
63 --GTG-TCTTGAG
* * * *
7361990 GCTCAACTTACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAATAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTGAAAACAGAAATTGAAAATACCTCA
*
7362055 ACGTGTCTTGAG
61 GCGTGTCTTGAG
** * *
7362067 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
**
7362132 TCCCGAG
66 TCTTGAG
7362139 GCTCAACTCACCAT-TCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTAAAGAACAAAAAT
1 GCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---G----AAAAT
* * ** *
7362203 GGAAAACACCTCAGCGTCTTGAG
55 ----ACCTCAGC-GTGTCTTGAG
* * * ** *
7362226 GTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATAATTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTGAAAATACCTCAGC
*
7362291 ATGTCTTGAG
63 GTGTCTTGAG
* * * *
7362301 GCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTTGACAACAGAAATTGAAATTACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA------TTTTTGAAAACAGAAATTGAAAATACCTC
* *
7362366 AGCGTATCCTGAG
60 AGCGTGTCTTGAG
* *
7362379 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
7362418 TAAAACATCA
Statistics
Matches: 344, Mismatches: 56, Indels: 62
0.74 0.12 0.13
Matches are distributed among these distances:
71 3 0.01
72 66 0.19
73 1 0.00
74 8 0.02
75 42 0.12
76 6 0.02
77 57 0.17
78 56 0.16
79 29 0.08
80 14 0.04
82 4 0.01
84 1 0.00
86 5 0.01
87 49 0.14
88 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
TCTTGAG
Found at i:7362349 original size:78 final size:78
Alignment explanation
Indices: 7362218--7362413 Score: 229
Period size: 78 Copynumber: 2.6 Consensus size: 78
7362208 ACACCTCAGC
* *
7362218 GTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGA---TTTTTTTGAAAAACAGAAATTGAA
1 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATTGAA
*
7362280 AATAATTCAACAT
66 AATAACTCAACAT
* * * *
7362293 GTCTTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTTG-ACAACAGAAATTGA
1 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTTGAAAAACAGAAATTGA
* * * *
7362357 AATTACCTCAGCGT
65 AAATAACTCAACAT
* * *
7362371 ATCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7362414 AAAATAAAAC
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
75 33 0.33
77 4 0.04
78 55 0.55
79 8 0.08
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (78 bp):
GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATTGAA
AATAACTCAACAT
Found at i:7367412 original size:12 final size:12
Alignment explanation
Indices: 7367392--7367427 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7367382 TGGGATATGC
*
7367392 AATGTATGAATG
1 AATGCATGAATG
7367404 AATGCATGAATG
1 AATGCATGAATG
7367416 AATGCATGAATG
1 AATGCATGAATG
7367428 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:7370071 original size:34 final size:33
Alignment explanation
Indices: 7369982--7370070 Score: 151
Period size: 34 Copynumber: 2.7 Consensus size: 33
7369972 GCTAGGTTTT
**
7369982 TTTTTTTTTTTGTTAGGTTTTTCTTTTTTCTTC
1 TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTC
7370015 TTTTTTTTTGGGTTTAGGTTTTTCTTTTTTCTTC
1 TTTTTTTTTGGG-TTAGGTTTTTCTTTTTTCTTC
7370049 TTTTTTTTTGGGTTAGGTTTTT
1 TTTTTTTTTGGGTTAGGTTTTT
7370071 TTTGGGGGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
33 20 0.38
34 33 0.62
ACGTcount: A:0.03, C:0.07, G:0.15, T:0.75
Consensus pattern (33 bp):
TTTTTTTTTGGGTTAGGTTTTTCTTTTTTCTTC
Found at i:7371233 original size:15 final size:15
Alignment explanation
Indices: 7371215--7371248 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
7371205 ATACATATTC
7371215 TAAAAATATTAATTT
1 TAAAAATATTAATTT
7371230 TAAAAATATTAATTT
1 TAAAAATATTAATTT
7371245 TAAA
1 TAAA
7371249 TTTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATATTAATTT
Found at i:7372094 original size:26 final size:29
Alignment explanation
Indices: 7372064--7372125 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 29
7372054 TGTATTAAAA
7372064 TATATTATT-TAAT-TAGA-TTATATT-AT
1 TATATTATTATAATGTA-ATTTATATTAAT
*
7372090 TATATTATTATATTGTAATTTATATTAAT
1 TATATTATTATAATGTAATTTATATTAAT
7372119 TATATTA
1 TATATTA
7372126 CAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 9 0.29
27 4 0.13
28 9 0.29
29 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TATATTATTATAATGTAATTTATATTAAT
Found at i:7372099 original size:21 final size:22
Alignment explanation
Indices: 7372065--7372125 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
7372055 GTATTAAAAT
*
7372065 ATATTAT-TTAATTAGATTATA
1 ATATTATATTAATTATATTATA
* *
7372086 TTATTATATT-ATTATATTGTA
1 ATATTATATTAATTATATTATA
7372107 AT-TTATATTAATTATATTA
1 ATATTATATTAATTATATTA
7372126 CAAAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 7 0.21
21 24 0.73
22 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
ATATTATATTAATTATATTATA
Found at i:7373192 original size:17 final size:18
Alignment explanation
Indices: 7373155--7373193 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7373145 TTAAATTGAA
* *
7373155 TGAAAATGTATTGAGTTG
1 TGAAAATGTAGTGAATTG
7373173 TGAAAATGT-GTGAATTG
1 TGAAAATGTAGTGAATTG
7373190 TGAA
1 TGAA
7373194 TTGAATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (18 bp):
TGAAAATGTAGTGAATTG
Found at i:7375080 original size:31 final size:31
Alignment explanation
Indices: 7374990--7375086 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 31
7374980 TAGTAGCTAA
*
7374990 CATGTGGATACTTTTCACTGTTAAGCATAAAT
1 CATGTGGATACTTTTCA-TGTTAAGCATAATT
** *
7375022 CACATGAATACTTTTCATGGTTAAGCATAATT
1 CATGTGGATACTTTTCAT-GTTAAGCATAATT
* *
7375054 CTTGTGGATACTTATTCAT-TTAAGCATTATT
1 CATGTGGATACTT-TTCATGTTAAGCATAATT
7375085 CA
1 CA
7375087 CGTGCATTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
31 13 0.25
32 35 0.66
33 5 0.09
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (31 bp):
CATGTGGATACTTTTCATGTTAAGCATAATT
Found at i:7376556 original size:167 final size:167
Alignment explanation
Indices: 7376280--7376614 Score: 643
Period size: 167 Copynumber: 2.0 Consensus size: 167
7376270 AACTGAGTTC
*
7376280 TCATAAATACACACATATAACTTAGCGTTAATCATCAACATCATATCATTACAATTACATAATTC
1 TCATAAATACACACATATAACTTAGCGTTAATCATCAACATCATATCATCACAATTACATAATTC
7376345 ACTTCAAACAAATTAACATACATGATTATGTTACACGAACTTTTCAATTATCCATTTCAAACTAG
66 ACTTCAAACAAATTAACATACATGATTATGTTACACGAACTTTTCAATTATCCATTTCAAACTAG
7376410 TGTACTTAAACATACATTCCATGAATTTTGAGTAAAT
131 TGTACTTAAACATACATTCCATGAATTTTGAGTAAAT
*
7376447 TCATAAATACACACATATAACTTAGCGTTTATCATCAACATCATATCATCACAATTACATAATTC
1 TCATAAATACACACATATAACTTAGCGTTAATCATCAACATCATATCATCACAATTACATAATTC
*
7376512 ATTTCAAACAAATTAACATACATGATTATGTTACACGAACTTTTCAATTATCCATTTCAAACTAG
66 ACTTCAAACAAATTAACATACATGATTATGTTACACGAACTTTTCAATTATCCATTTCAAACTAG
7376577 TGTACTTAAACATACATTCCATGAATTTTGAGTAAAT
131 TGTACTTAAACATACATTCCATGAATTTTGAGTAAAT
7376614 T
1 T
7376615 TACTCATAGC
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 165 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (167 bp):
TCATAAATACACACATATAACTTAGCGTTAATCATCAACATCATATCATCACAATTACATAATTC
ACTTCAAACAAATTAACATACATGATTATGTTACACGAACTTTTCAATTATCCATTTCAAACTAG
TGTACTTAAACATACATTCCATGAATTTTGAGTAAAT
Found at i:7377914 original size:50 final size:50
Alignment explanation
Indices: 7377855--7377955 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
7377845 AATTATGGTA
7377855 ATACCACTGAGTACAAACATACTCAACGTACGATTATATTACTATAATTC
1 ATACCACTGAGTACAAACATACTCAACGTACGATTATATTACTATAATTC
7377905 ATACCACTGAGTACAAACATACTCAACGTACGATTATATTACTATAATTC
1 ATACCACTGAGTACAAACATACTCAACGTACGATTATATTACTATAATTC
7377955 A
1 A
7377956 AATTATTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (50 bp):
ATACCACTGAGTACAAACATACTCAACGTACGATTATATTACTATAATTC
Found at i:7380120 original size:2 final size:2
Alignment explanation
Indices: 7380115--7380140 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7380105 TAGCAGTGTG
7380115 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
7380141 AAAGTCCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7387775 original size:3 final size:3
Alignment explanation
Indices: 7387767--7387820 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
7387757 AAGAGTTTTG
7387767 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
7387815 ATC ATC
1 ATC ATC
7387821 CCTTTGAGAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:7389180 original size:22 final size:22
Alignment explanation
Indices: 7389140--7389181 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7389130 AATATGAAAT
*
7389140 ATAAAAAATATATTGGAATTAA
1 ATAAAAAATACATTGGAATTAA
* *
7389162 ATAAAAATTACATTTGAATT
1 ATAAAAAATACATTGGAATT
7389182 TTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAAAAAATACATTGGAATTAA
Found at i:7391236 original size:2 final size:2
Alignment explanation
Indices: 7391229--7391263 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
7391219 ACAATTGTAC
7391229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
7391264 GTAGAATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7397507 original size:45 final size:45
Alignment explanation
Indices: 7397457--7397546 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
7397447 GAATAAACCA
7397457 TTCATTAAGTGAGGCTTTACAGAATAAAATTAATATTATTTTCAT
1 TTCATTAAGTGAGGCTTTACAGAATAAAATTAATATTATTTTCAT
7397502 TTCATTAAGTGAGGCTTTACAGAATAAAATTAATATTATTTTCAT
1 TTCATTAAGTGAGGCTTTACAGAATAAAATTAATATTATTTTCAT
7397547 ACTAAGTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (45 bp):
TTCATTAAGTGAGGCTTTACAGAATAAAATTAATATTATTTTCAT
Found at i:7400347 original size:36 final size:36
Alignment explanation
Indices: 7400289--7400375 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
7400279 GGGGACACCC
* * * * * *
7400289 AGGATATCCACCACATGGAGGACATCTTCCTCCCGG
1 AGGATATCCCCCTCATGGAGGACACCATCCACACGG
* * *
7400325 AGGGTATCCCCCTCATGTAGGACACCATCCACATGG
1 AGGATATCCCCCTCATGGAGGACACCATCCACACGG
7400361 AGGATATCCCCCTCA
1 AGGATATCCCCCTCA
7400376 GGGTTATCCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.20
Consensus pattern (36 bp):
AGGATATCCCCCTCATGGAGGACACCATCCACACGG
Found at i:7401820 original size:2 final size:2
Alignment explanation
Indices: 7401813--7401847 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7401803 ATTATTTTAA
7401813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7401848 ATTTGAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7403535 original size:32 final size:33
Alignment explanation
Indices: 7403493--7403556 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
7403483 ACAATTTAAC
*
7403493 AGAAATTGATTATA-GCACACCTCAC-TTGTCAG
1 AGAAACTGATTA-AGGCACACCTCACTTTGTCAG
*
7403525 AGAAACTGATTAAGGCACGCCTCACTTTGTCA
1 AGAAACTGATTAAGGCACACCTCACTTTGTCA
7403557 CGTAAATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 21 0.75
33 6 0.21
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (33 bp):
AGAAACTGATTAAGGCACACCTCACTTTGTCAG
Found at i:7422062 original size:18 final size:17
Alignment explanation
Indices: 7422035--7422068 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7422025 GGAGGAAAAT
*
7422035 AGAGGAAAAAATAGAAG
1 AGAGGAAAAAAAAGAAG
7422052 AGAGAGAAAAAAAAGAA
1 AGAG-GAAAAAAAAGAA
7422069 AAGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (17 bp):
AGAGGAAAAAAAAGAAG
Found at i:7423211 original size:69 final size:69
Alignment explanation
Indices: 7423100--7423231 Score: 228
Period size: 69 Copynumber: 1.9 Consensus size: 69
7423090 TCAAATTAAC
7423100 TATAACACCATTAAAAATAAGTAAGATGCTAATGAATTGGCTAATAAACTTGTTTAGGAGGAAGT
1 TATAACACCATTAAAAATAAGTAAGATGCTAATGAATTGGCTAATAAACTTGTTTAGGAGGAAGT
7423165 AAAG
66 AAAG
* * * *
7423169 TATAACACTATTAAAAATAAGTAAGATGCTAATGTATTGGCTAGTATACTTGTTTAGGAGGAA
1 TATAACACCATTAAAAATAAGTAAGATGCTAATGAATTGGCTAATAAACTTGTTTAGGAGGAA
7423232 ACAAGATTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.30
Consensus pattern (69 bp):
TATAACACCATTAAAAATAAGTAAGATGCTAATGAATTGGCTAATAAACTTGTTTAGGAGGAAGT
AAAG
Found at i:7425983 original size:3 final size:3
Alignment explanation
Indices: 7425975--7426022 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
7425965 CCATTACTTT
*
7425975 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7426023 AATATTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7426240 original size:16 final size:16
Alignment explanation
Indices: 7426209--7426277 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 16
7426199 TTTTTATTTT
*
7426209 ATAAATATAGATAAATA
1 ATAAA-ATATATAAATA
*
7426226 ATAAAATATATAAATGTG
1 ATAAAATATATAAA--TA
* *
7426244 ATAAATTTTATAAATA
1 ATAAAATATATAAATA
7426260 ATAAAA-ATATAATATA
1 ATAAAATATATAA-ATA
7426276 AT
1 AT
7426278 TAATTCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 5 0.12
16 19 0.45
17 5 0.12
18 13 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
ATAAAATATATAAATA
Found at i:7427130 original size:35 final size:35
Alignment explanation
Indices: 7427091--7427161 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
7427081 AAATTAAATA
7427091 TGTAAAAATAAAATTATAAACATACCATTTTTATG
1 TGTAAAAATAAAATTATAAACATACCATTTTTATG
* *
7427126 TGTAAAAATGAAATTATAAACTTACCATTTTTATG
1 TGTAAAAATAAAATTATAAACATACCATTTTTATG
7427161 T
1 T
7427162 CTAAGACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (35 bp):
TGTAAAAATAAAATTATAAACATACCATTTTTATG
Found at i:7428004 original size:26 final size:25
Alignment explanation
Indices: 7427975--7428024 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
7427965 AATTTGAAGA
*
7427975 TAATGTATAATATGTTTAATCGTATT
1 TAATGTATAATATATTTAAT-GTATT
*
7428001 TAATGTATAATGTATTTAATGTAT
1 TAATGTATAATATATTTAATGTAT
7428025 AATAGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (25 bp):
TAATGTATAATATATTTAATGTATT
Found at i:7428017 original size:16 final size:17
Alignment explanation
Indices: 7427986--7428072 Score: 83
Period size: 16 Copynumber: 5.1 Consensus size: 17
7427976 AATGTATAAT
*
7427986 ATGTTTAATCGTATTTA
1 ATGTATAATCGTATTTA
7428003 ATGTATAAT-GTATTTA
1 ATGTATAATCGTATTTA
*
7428019 ATGTATAATAGAAATATTCTTA
1 ATGTATAATCG---TA-T-TTA
7428041 A-GT-TAATCGTATTTA
1 ATGTATAATCGTATTTA
7428056 ATGTATAAT-GTATTTA
1 ATGTATAATCGTATTTA
7428072 A
1 A
7428073 ATTATTTCCA
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
15 4 0.07
16 27 0.45
17 15 0.25
20 7 0.12
21 3 0.05
22 4 0.07
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.47
Consensus pattern (17 bp):
ATGTATAATCGTATTTA
Found at i:7430520 original size:6 final size:6
Alignment explanation
Indices: 7430509--7430540 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
7430499 AATGCCCAAT
7430509 CCTAAG CCTAAG CCTAAG CCTAAG CCTAAG CC
1 CCTAAG CCTAAG CCTAAG CCTAAG CCTAAG CC
7430541 ATTTCCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.38, G:0.16, T:0.16
Consensus pattern (6 bp):
CCTAAG
Found at i:7441446 original size:22 final size:20
Alignment explanation
Indices: 7441420--7441464 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
7441410 TTATTTTTGC
7441420 AAAAACTCAAAAAACTTGTAAA
1 AAAAACTCAAAAAA-TTG-AAA
* *
7441442 AAAAATTCAGAAAATTGAAA
1 AAAAACTCAAAAAATTGAAA
7441462 AAA
1 AAA
7441465 TTAGCTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.18
Consensus pattern (20 bp):
AAAAACTCAAAAAATTGAAA
Found at i:7442427 original size:16 final size:16
Alignment explanation
Indices: 7442405--7442533 Score: 69
Period size: 19 Copynumber: 7.2 Consensus size: 16
7442395 GTTCTTATAT
*
7442405 TTTTTTTACTTTTTTTA
1 TTTTTTTA-TTTTTTAA
7442422 TTTTTTTATTTTTTAA
1 TTTTTTTATTTTTTAA
*
7442438 CTTTTTTATTTTTTTCTTATA
1 --TTTTT-TTATTTT-TTA-A
* * *
7442459 TTTTGTCTCTTTCTTAGA
1 TTTT-TTTATTTTTTA-A
*
7442477 TTTTTTTCTTTTTTAA
1 TTTTTTTATTTTTTAA
7442493 GTTTTATATTATTTTCTTAA
1 -TTTT-T-TTATTTT-TTAA
*
7442513 TTTATTTTACTTATTTAA
1 TTT-TTTTA-TTTTTTAA
7442531 TTT
1 TTT
7442534 ATATTATTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
16 8 0.09
17 21 0.23
18 24 0.27
19 27 0.30
20 9 0.10
21 1 0.01
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTTTTTATTTTTTAA
Found at i:7442442 original size:24 final size:25
Alignment explanation
Indices: 7442405--7442452 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
7442395 GTTCTTATAT
*
7442405 TTTTTTTACTTTTTTTATTTTTTTA
1 TTTTTTAACTTTTTTTATTTTTTTA
7442430 TTTTTTAAC-TTTTTTATTTTTTT
1 TTTTTTAACTTTTTTTATTTTTTT
7442453 CTTATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTTTAACTTTTTTTATTTTTTTA
Found at i:7442452 original size:8 final size:8
Alignment explanation
Indices: 7442405--7442452 Score: 69
Period size: 8 Copynumber: 5.9 Consensus size: 8
7442395 GTTCTTATAT
7442405 TTTTTTTA
1 TTTTTTTA
7442413 CTTTTTTTA
1 -TTTTTTTA
7442422 TTTTTTTA
1 TTTTTTTA
*
7442430 TTTTTTAA
1 TTTTTTTA
*
7442438 CTTTTTTA
1 TTTTTTTA
7442446 TTTTTTT
1 TTTTTTT
7442453 CTTATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
8 27 0.77
9 8 0.23
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:7442462 original size:18 final size:17
Alignment explanation
Indices: 7442441--7442520 Score: 58
Period size: 18 Copynumber: 4.5 Consensus size: 17
7442431 TTTTTAACTT
7442441 TTTTATTTTTTTCTTATA
1 TTTTATTTTTTTCTTA-A
* * *
7442459 TTTTGTCTCTTTCTTAGA
1 TTTTATTTTTTTCTTA-A
7442477 TTTT-TTTCTTTT-TTAA
1 TTTTATTT-TTTTCTTAA
7442493 GTTTTATATTATTTTCTTAA
1 -TTTTAT-TT-TTTTCTTAA
7442513 -TTTATTTT
1 TTTTATTTT
7442521 ACTTATTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
16 2 0.04
17 11 0.22
18 27 0.54
19 6 0.12
20 4 0.08
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTATTTTTTTCTTAA
Found at i:7442537 original size:36 final size:36
Alignment explanation
Indices: 7442468--7442541 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
7442458 ATTTTGTCTC
*
7442468 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
7442505 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
7442541 T
1 T
7442542 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:7442546 original size:18 final size:17
Alignment explanation
Indices: 7442495--7442542 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
7442485 TTTTTTAAGT
*
7442495 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
7442513 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
7442531 TTTATATTATTA
1 TTTATATTATTA
7442543 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:7442681 original size:37 final size:36
Alignment explanation
Indices: 7442640--7442710 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
7442630 TTTATATATA
*
7442640 TATTTGTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTAAAAATG
* *
7442677 TATTTTTCAAATTAATTTTTTAAAATTTTAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTAAAAA
7442711 AATAATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTTGTCAAATTAATTATTTAAAATTTTAAAAATG
Found at i:7442773 original size:17 final size:17
Alignment explanation
Indices: 7442753--7442799 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
7442743 TGAAGTCTAA
7442753 TTTTTTTCTTATTTTAT
1 TTTTTTTCTTATTTTAT
7442770 TTTTTTATC-TATTTTAT
1 TTTTTT-TCTTATTTTAT
*
7442787 TTATTTTTATTAT
1 TT-TTTTTCTTAT
7442800 ACATTTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTTATTTTAT
Found at i:7443165 original size:21 final size:23
Alignment explanation
Indices: 7443141--7443183 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
7443131 TATATTTCTC
7443141 AAAT-TAATTTTTGAAA-ATTAT
1 AAATATAATTTTTGAAATATTAT
* *
7443162 AAATATTATTTTTTAAATATTA
1 AAATATAATTTTTGAAATATTA
7443184 ACCATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATAATTTTTGAAATATTAT
Found at i:7443405 original size:10 final size:9
Alignment explanation
Indices: 7443387--7443485 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
7443377 TAAAATTTAA
7443387 AAAATATTT
1 AAAATATTT
7443396 AAAATCATTT
1 AAAAT-ATTT
*
7443406 AAAATATTAA
1 AAAATATT-T
7443416 AAAATATTT
1 AAAATATTT
*
7443425 TAAATCATTT
1 AAAAT-ATTT
* *
7443435 TAAATCGTTT
1 AAAAT-ATTT
*
7443445 TAAATATTTT
1 AAAATA-TTT
* *
7443455 ATAATATTA
1 AAAATATTT
7443464 AAAATATATT
1 AAAATAT-TT
*
7443474 -TAATATTT
1 AAAATATTT
7443482 AAAA
1 AAAA
7443486 AATAATTTGA
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
8 2 0.03
9 27 0.38
10 43 0.60
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (9 bp):
AAAATATTT
Found at i:7443411 original size:19 final size:19
Alignment explanation
Indices: 7443387--7443453 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
7443377 TAAAATTTAA
7443387 AAAATATTTAAAATCATTT
1 AAAATATTTAAAATCATTT
*
7443406 AAAATATTAAAAAAT-ATTT
1 AAAATATT-TAAAATCATTT
* * *
7443425 TAAATCATTTTAAATCGTTT
1 AAAAT-ATTTAAAATCATTT
*
7443445 TAAATATTT
1 AAAATATTT
7443454 TATAATATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 24 0.60
20 16 0.40
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (19 bp):
AAAATATTTAAAATCATTT
Found at i:7443415 original size:29 final size:28
Alignment explanation
Indices: 7443377--7443439 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 28
7443367 AAATTCTATG
7443377 TAAAATTTAAAAAATATTTAAAATCATT
1 TAAAATTTAAAAAATATTTAAAATCATT
*
7443405 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAAT-TTAAAAAATATTTAAAATCATT
*
7443434 TTAAAT
1 TAAAAT
7443440 CGTTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTAAAATCATT
Found at i:7443479 original size:18 final size:20
Alignment explanation
Indices: 7443446--7443486 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
7443436 AAATCGTTTT
*
7443446 AAATATTTTATAATA-TTAA
1 AAATATATTATAATATTTAA
7443465 AAATATATT-TAATATTTAA
1 AAATATATTATAATATTTAA
7443484 AAA
1 AAA
7443487 ATAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATATATTATAATATTTAA
Found at i:7443502 original size:31 final size:34
Alignment explanation
Indices: 7443455--7443543 Score: 98
Period size: 34 Copynumber: 2.7 Consensus size: 34
7443445 TAAATATTTT
7443455 ATAATATTAAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAAATATATTTTAATATTTATAAAA
*
7443487 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATTAAAAATATA-TTTTAATATTTATAAAA
*
7443521 A-ATATATTATAAAACAT-TTTTAA
1 ATA-ATATTA-AAAATATATTTTAA
7443544 AAAATACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 10 0.21
32 5 0.10
33 12 0.25
34 13 0.27
35 2 0.04
36 6 0.12
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATAATATTAAAAATATATTTTAATATTTATAAAA
Found at i:7443534 original size:13 final size:13
Alignment explanation
Indices: 7443508--7443549 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
7443498 ATATATTTTT
7443508 AATATTTATAAAA
1 AATATTTATAAAA
7443521 AATATATTATAAAA
1 AATAT-TTATAAAA
*
7443535 CAT-TTT-TAAAA
1 AATATTTATAAAA
7443546 AATA
1 AATA
7443550 CATTTCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 6 0.24
14 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTATAAAA
Found at i:7447038 original size:30 final size:30
Alignment explanation
Indices: 7447002--7447124 Score: 160
Period size: 30 Copynumber: 4.1 Consensus size: 30
7446992 GGTCAAATAG
* * *
7447002 ACTCGAACCGCCTATATCCGGATGATATGA
1 ACTCGAACCACCCATGTCCGGATGATATGA
7447032 ACTCGAACCACCCATGTCCAGG-TGATATGA
1 ACTCGAACCACCCATGTCC-GGATGATATGA
*
7447062 ACTCGAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGATGATATGA
* *
7447092 ACTCGAACCACCTATGTCC-GAGTTATATGA
1 ACTCGAACCACCCATGTCCGGA-TGATATGA
7447122 ACT
1 ACT
7447125 GCTCTGGGAC
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.04
30 79 0.94
31 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGATGATATGA
Found at i:7450281 original size:21 final size:21
Alignment explanation
Indices: 7450251--7450294 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
7450241 GTTAAAAAAG
7450251 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
7450271 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
7450293 AA
1 AA
7450295 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:7450355 original size:18 final size:19
Alignment explanation
Indices: 7450332--7450370 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7450322 TAAAATTAAT
*
7450332 AATAAAAT-AAATAAACAA
1 AATAAAATAAAAAAAACAA
7450350 AATAAAATAAAAAAAACAA
1 AATAAAATAAAAAAAACAA
7450369 AA
1 AA
7450371 ATTTCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (19 bp):
AATAAAATAAAAAAAACAA
Found at i:7450950 original size:2 final size:2
Alignment explanation
Indices: 7450945--7450971 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7450935 AATTTCACAA
7450945 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7450972 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7451049 original size:20 final size:20
Alignment explanation
Indices: 7450984--7451056 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
7450974 TTTAAAAAAT
* * *
7450984 ATTTTTAAAAATAATAATTAA
1 ATTTTAAAAAAT-ATTATAAA
7451005 ATTTTAAAAAATATTATAAA
1 ATTTTAAAAAATATTATAAA
* *
7451025 CATTTTAAATATATATTACAAA
1 -ATTTTAAA-AAATATTATAAA
*
7451047 TTTTTTAAAA
1 -ATTTTAAAA
7451057 TTAATAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 20 0.47
22 17 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTAAAAAATATTATAAA
Found at i:7451104 original size:18 final size:18
Alignment explanation
Indices: 7451054--7451105 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
7451044 AAATTTTTTA
*
7451054 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
7451072 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
7451090 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
7451106 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:7451155 original size:18 final size:17
Alignment explanation
Indices: 7451110--7451175 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 17
7451100 TATAAAACTT
*
7451110 AAAAAAAAAATCTAAGA
1 AAAAAAAAAATATAAGA
* *
7451127 AAGAGACAAAATATAAGA
1 AA-AAAAAAAATATAAGA
*
7451145 AAAAAATAAA-A-AAG-
1 AAAAAAAAAATATAAGA
*
7451159 -TAAAAAAAATATAAGA
1 AAAAAAAAAATATAAGA
7451175 A
1 A
7451176 CCTGACAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
13 7 0.19
14 1 0.03
15 6 0.17
16 1 0.03
17 7 0.19
18 14 0.39
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAAAAAATATAAGA
Found at i:7465024 original size:14 final size:14
Alignment explanation
Indices: 7465002--7465040 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
7464992 GTAAAAGATA
7465002 TTTACTTATTATTAT
1 TTTA-TTATTATTAT
7465017 TTTATTATTATTAT
1 TTTATTATTATTAT
*
7465031 TATATT-TTAT
1 TTTATTATTAT
7465041 CAATTAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:7465251 original size:26 final size:26
Alignment explanation
Indices: 7465203--7465280 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
7465193 AGAATAAATA
*
7465203 AAAGAGAGAAAA-ACAAGAAAAAGAAAC
1 AAAGA-AGAAAAGAAAAG-AAAAGAAAC
* * *
7465230 AGAGAAGAAACGAAATAG-AAAGAAAG
1 AAAGAAGAAAAGAAA-AGAAAAGAAAC
7465256 AAAGAAGAAAAGAAAAGAAAAGAAA
1 AAAGAAGAAAAGAAAAGAAAAGAAA
7465281 AAGGAGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 2 0.05
26 32 0.76
27 6 0.14
28 2 0.05
ACGTcount: A:0.73, C:0.04, G:0.22, T:0.01
Consensus pattern (26 bp):
AAAGAAGAAAAGAAAAGAAAAGAAAC
Found at i:7465257 original size:22 final size:22
Alignment explanation
Indices: 7465198--7465270 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
7465188 AATAAAGAAT
7465198 AAATA-AAAGAGAGAAAAACAAG
1 AAATAGAAAGAGAGAAAAAC-AG
* *
7465220 AAAAAGAAACAGAGAAGAAAC-G
1 AAATAGAAAGAGAGAA-AAACAG
* *
7465242 AAATAGAAAGAAAGAAAGA-AG
1 AAATAGAAAGAGAGAAAAACAG
7465263 AAA-AGAAA
1 AAATAGAAA
7465271 AGAAAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.12
21 6 0.14
22 18 0.43
23 9 0.21
24 4 0.10
ACGTcount: A:0.73, C:0.04, G:0.21, T:0.03
Consensus pattern (22 bp):
AAATAGAAAGAGAGAAAAACAG
Found at i:7465270 original size:5 final size:5
Alignment explanation
Indices: 7465221--7465281 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
7465211 AAAAACAAGA
* *
7465221 AAAAG AAACAG AGAAG AAACG AAATAG -AAAG -AAAG AAAGAAG AAAAG
1 AAAAG AAA-AG AAAAG AAAAG AAA-AG AAAAG AAAAG -AA-AAG AAAAG
7465268 AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAA
7465282 AGGAGAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 6 0.13
5 30 0.64
6 8 0.17
7 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:7465281 original size:15 final size:16
Alignment explanation
Indices: 7465221--7465281 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
7465211 AAAAACAAGA
*
7465221 AAAAGAAACAGAGAAG
1 AAAAGAAACAGAAAAG
* *
7465237 AAACGAAATAG-AAAG
1 AAAAGAAACAGAAAAG
*
7465252 -AAAGAAAGAAGAAAAG
1 AAAAGAAA-CAGAAAAG
7465268 AAAAGAAA-AGAAAA
1 AAAAGAAACAGAAAA
7465282 AGGAGAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 6 0.16
15 11 0.30
16 13 0.35
17 7 0.19
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAGAAACAGAAAAG
Found at i:7468537 original size:2 final size:2
Alignment explanation
Indices: 7468530--7468556 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7468520 TAAATCATAA
7468530 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7468557 CTTTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7473773 original size:13 final size:13
Alignment explanation
Indices: 7473755--7473814 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
7473745 TCTTTATGGC
7473755 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
7473768 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
* * * *
7473781 TGTGGAGAAGTAT
1 TTTTGAAAAGTGT
*
7473794 TTTTGAGAAGTG-
1 TTTTGAAAAGTGT
*
7473806 CTTTGAAAA
1 TTTTGAAAA
7473815 AATTTAAGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
12 7 0.18
13 31 0.82
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:7475077 original size:22 final size:23
Alignment explanation
Indices: 7475050--7475094 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7475040 GGATATCTAC
7475050 AAATCAAATC-TCTAAAATTACA
1 AAATCAAATCTTCTAAAATTACA
* *
7475072 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAAATTACA
7475095 TATCATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAAATTACA
Found at i:7475098 original size:17 final size:18
Alignment explanation
Indices: 7475076--7475126 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
7475066 ATTACAAAAT
7475076 CATATCTTCTAAGATT-A
1 CATATCTTCTAAGATTGA
*
7475093 CATATCATACCTAAGATTGA
1 CATATC-T-TCTAAGATTGA
*
7475113 -ATATCTTCGAAGAT
1 CATATCTTCTAAGAT
7475127 CATGTTTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 13 0.46
20 1 0.04
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (18 bp):
CATATCTTCTAAGATTGA
Found at i:7475099 original size:22 final size:21
Alignment explanation
Indices: 7475047--7475101 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
7475037 AAAGGATATC
*
7475047 TACAAATCAAATCTCTAAAAT
1 TACAAATCATATCTCTAAAAT
*
7475068 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAAAT
*
7475091 TACATATCATA
1 TACAAATCATA
7475102 CCTAAGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.10
22 16 0.55
23 10 0.34
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (21 bp):
TACAAATCATATCTCTAAAAT
Found at i:7480204 original size:22 final size:23
Alignment explanation
Indices: 7480172--7480214 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
7480162 GGGTATCTAC
*
7480172 AAATCAAATC-TCTAAGATTATA
1 AAATCAAATCTTCAAAGATTATA
*
7480194 AAATCATATCTTCAAAGATTA
1 AAATCAAATCTTCAAAGATTA
7480215 CATATCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCAAAGATTATA
Found at i:7489180 original size:18 final size:18
Alignment explanation
Indices: 7489159--7489198 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
7489149 AACACTAGGA
*
7489159 AAGACAATCAGTATAAGC
1 AAGACAATCAATATAAGC
7489177 AAGACAATCAATATAAGC
1 AAGACAATCAATATAAGC
7489195 AAGA
1 AAGA
7489199 GTTACCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (18 bp):
AAGACAATCAATATAAGC
Found at i:7489926 original size:16 final size:16
Alignment explanation
Indices: 7489905--7489937 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7489895 AAACTGAAAC
7489905 AAGCAGACATCATTAG
1 AAGCAGACATCATTAG
*
7489921 AAGCAGACGTCATTAG
1 AAGCAGACATCATTAG
7489937 A
1 A
7489938 CACATTCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (16 bp):
AAGCAGACATCATTAG
Found at i:7492127 original size:6 final size:6
Alignment explanation
Indices: 7492094--7492124 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7492084 CGGGGTCTCC
*
7492094 GAGGCT GAGGCT GAGGCT GAGGCT GGGGCT G
1 GAGGCT GAGGCT GAGGCT GAGGCT GAGGCT G
7492125 GGGTTGGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.55, T:0.16
Consensus pattern (6 bp):
GAGGCT
Found at i:7492577 original size:33 final size:33
Alignment explanation
Indices: 7492535--7492601 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
7492525 CGAAAAAAAG
7492535 TTAATTTTTGTAGGTTCAATTAATGAGTAAATT
1 TTAATTTTTGTAGGTTCAATTAATGAGTAAATT
7492568 TTAATTTTTGTAGGTTCAATTAATGAGTAAATT
1 TTAATTTTTGTAGGTTCAATTAATGAGTAAATT
7492601 T
1 T
7492602 ATTTTTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (33 bp):
TTAATTTTTGTAGGTTCAATTAATGAGTAAATT
Found at i:7492912 original size:22 final size:21
Alignment explanation
Indices: 7492879--7492928 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
7492869 ATTTGTAATG
*
7492879 TTTATATATTTA-ATCTAAATT-
1 TTTAAATATTTATAT-T-AATTA
7492900 TTTAAATACTTTATATTAATTA
1 TTTAAATA-TTTATATTAATTA
7492922 TTTAAAT
1 TTTAAAT
7492929 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 11 0.44
22 12 0.48
23 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAAATATTTATATTAATTA
Found at i:7497029 original size:13 final size:13
Alignment explanation
Indices: 7497021--7497050 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7497011 TTTTTTTCAT
7497021 AATACTTTTTAAA
1 AATACTTTTTAAA
*
7497034 AATACTTTTCAAA
1 AATACTTTTTAAA
7497047 AATA
1 AATA
7497051 GTAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
AATACTTTTTAAA
Found at i:7502409 original size:7 final size:7
Alignment explanation
Indices: 7502397--7502424 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
7502387 CATCATTAGC
7502397 ATTCCAT
1 ATTCCAT
7502404 ATTCCAT
1 ATTCCAT
7502411 ATTCCAT
1 ATTCCAT
7502418 ATTCCAT
1 ATTCCAT
7502425 GTGCATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (7 bp):
ATTCCAT
Found at i:7510355 original size:19 final size:19
Alignment explanation
Indices: 7510335--7510398 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
7510325 AATAAAGGAA
*
7510335 AAAGAAAGAGAGAAAGTAA-
1 AAAGAAAAAGAGAAAG-AAG
* * *
7510354 AACGAAACAGA-AAGGAAAG
1 AAAGAAAAAGAGAAAG-AAG
7510373 AAAGAAAAAGAGAAAGAAG
1 AAAGAAAAAGAGAAAGAAG
7510392 AAAGAAA
1 AAAGAAA
7510399 CAGATGCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 5 0.14
19 28 0.78
20 3 0.08
ACGTcount: A:0.70, C:0.03, G:0.25, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAGAGAAAGAAG
Found at i:7510385 original size:38 final size:36
Alignment explanation
Indices: 7510328--7510402 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 36
7510318 TAAATGAAAT
* *
7510328 AAAGGAAAAAGAAAGAGAGAAAGTAA-AACGAAACAG
1 AAAGGAAAAAGAAAAAGAGAAAG-AAGAAAGAAACAG
7510364 AAAGGAAAGAAAGAAAAAGAGAAAGAAGAAAGAAACAG
1 AAAGG-AA-AAAGAAAAAGAGAAAGAAGAAAGAAACAG
7510402 A
1 A
7510403 TGCAAAAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 5 0.15
37 4 0.12
38 25 0.74
ACGTcount: A:0.69, C:0.04, G:0.25, T:0.01
Consensus pattern (36 bp):
AAAGGAAAAAGAAAAAGAGAAAGAAGAAAGAAACAG
Found at i:7513989 original size:14 final size:14
Alignment explanation
Indices: 7513966--7513995 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7513956 TTGAAAATAT
7513966 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
7513980 GTTGATTTGGATTG
1 GTTGAATTGGATTG
7513994 GT
1 GT
7513996 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:7519040 original size:16 final size:16
Alignment explanation
Indices: 7519008--7519048 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7518998 AGTGGAAAGA
*
7519008 TAGAAAATTGAAGGGG
1 TAGAAAATAGAAGGGG
7519024 TAGAATAATAGAA-GGG
1 TAGAA-AATAGAAGGGG
7519040 TAGAAAATA
1 TAGAAAATA
7519049 TAATTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 13 0.57
17 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (16 bp):
TAGAAAATAGAAGGGG
Found at i:7519588 original size:32 final size:32
Alignment explanation
Indices: 7519550--7519614 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7519540 AGAAAATAAA
7519550 ACAAAACACTTGAAAATGCATAATTTTGAACT
1 ACAAAACACTTGAAAATGCATAATTTTGAACT
*
7519582 ACAAAACATTTGAAAATGCATAATTTTGAACT
1 ACAAAACACTTGAAAATGCATAATTTTGAACT
7519614 A
1 A
7519615 ACTTATAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (32 bp):
ACAAAACACTTGAAAATGCATAATTTTGAACT
Found at i:7519609 original size:16 final size:16
Alignment explanation
Indices: 7519559--7519611 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
7519549 AACAAAACAC
7519559 TTGAAAATGCATAATT
1 TTGAAAATGCATAATT
* * * *
7519575 TTG-AACTACAAAACAT
1 TTGAAAATGCATAA-TT
7519591 TTGAAAATGCATAATT
1 TTGAAAATGCATAATT
7519607 TTGAA
1 TTGAA
7519612 CTAACTTATA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 7 0.26
16 13 0.48
17 7 0.26
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (16 bp):
TTGAAAATGCATAATT
Found at i:7521856 original size:23 final size:23
Alignment explanation
Indices: 7521830--7521882 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
7521820 AGTTGAAAAA
7521830 AAAAACAAAAACAGTATAAAGCT-
1 AAAAA-AAAAACAGTATAAAGCTG
7521853 AAAAAAAAAACAGTATAAAGCTG
1 AAAAAAAAAACAGTATAAAGCTG
7521876 AAAAAAA
1 AAAAAAA
7521883 CTGAAACAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAAAAAAACAGTATAAAGCTG
Found at i:7522263 original size:11 final size:11
Alignment explanation
Indices: 7522231--7522263 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7522221 TATTATTGTT
7522231 GATTTGAATTT-
1 GATTT-AATTTA
7522242 GATTTAATTTA
1 GATTTAATTTA
7522253 GATTTAATTTA
1 GATTTAATTTA
7522264 TAAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (11 bp):
GATTTAATTTA
Found at i:7522623 original size:17 final size:17
Alignment explanation
Indices: 7522603--7522635 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7522593 CTTAATGAAA
7522603 AAATAAAATACGAAAAG
1 AAATAAAATACGAAAAG
*
7522620 AAATAAAATATGAAAA
1 AAATAAAATACGAAAA
7522636 AATTACAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.09, T:0.15
Consensus pattern (17 bp):
AAATAAAATACGAAAAG
Found at i:7522951 original size:139 final size:138
Alignment explanation
Indices: 7522664--7523423 Score: 1229
Period size: 138 Copynumber: 5.5 Consensus size: 138
7522654 AAATAGTATA
* * * * * *
7522664 AAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATTAAAATCCAAAAAATTTAA
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* *
7522729 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAATACTAAAATAATACATTTAAAACAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
7522794 TATGTACT
131 TATGTACT
* *
7522802 AAAATAAGATAAAAAATAAAATACGAAAATAATATATTATAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
7522867 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAAACACTAAAATAATACATTTGAAACA
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTT-AAAAAACACTAAAATAATACATTTGAAACA
*
7522932 TTATGTGCT
130 TTATGTACT
* *
7522941 AAAATAAGATAAAAAAT-AAATACGAAAATAGTATATTTTAAAAAATAAAATACTAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
*
7523005 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAAACACTAAAATAATACATTTGAATCA
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTT-AAAAAACACTAAAATAATACATTTGAAACA
7523070 TTATGTACT
130 TTATGTACT
*
7523079 AAAATAAGATAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
1 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
* *
7523144 AAATAAAAATAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
66 AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
7523209 TATGTACT
131 TATGTACT
* *
7523217 AAAATAATATAATAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATATTTTA
1 AAAATAAGATAA-AAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* *
7523282 GAAATACAAACAAAGGGA-AAAATCAAGATTATTTAAAAAACACTAAAATAATACATTTGAAACA
65 GAAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACA
7523346 TTATGTACT
130 TTATGTACT
* * * *
7523355 AAAATAAGATAAAAAAATAAAATATGAAAATAATATATTTT-AAAAATAGAATCCGAAAATTTTA
1 AAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
*
7523419 AAAAT
65 GAAAT
7523424 TTTAGAAATA
Statistics
Matches: 581, Mismatches: 37, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
137 24 0.04
138 360 0.62
139 197 0.34
ACGTcount: A:0.58, C:0.07, G:0.08, T:0.27
Consensus pattern (138 bp):
AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTAG
AAATACAAACAAAGGGACAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
TATGTACT
Found at i:7526105 original size:17 final size:17
Alignment explanation
Indices: 7526085--7526123 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
7526075 AATATATTAC
7526085 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
7526102 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
7526119 AACAT
1 AACAT
7526124 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:7531178 original size:35 final size:33
Alignment explanation
Indices: 7531130--7531194 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
7531120 TAACCATTTT
*
7531130 TTATTATATTATTAATTTGTGTA-TTGTTTTAAAAA
1 TTATTATAGTATT-ATTT-T-TATTTGTTTTAAAAA
*
7531165 TTATTTTAGTATTATTTTTATTTGTTTTAA
1 TTATTATAGTATTATTTTTATTTGTTTTAA
7531195 TATTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 10 0.37
34 4 0.15
35 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (33 bp):
TTATTATAGTATTATTTTTATTTGTTTTAAAAA
Found at i:7531198 original size:21 final size:20
Alignment explanation
Indices: 7531168--7531215 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
7531158 TTAAAAATTA
* *
7531168 TTTTAGTATTATTTTTATTT
1 TTTTAATATTATTTTTATGT
*
7531188 GTTTTAATATTTGTTTTTATGT
1 -TTTTAATA-TTATTTTTATGT
7531210 TTTTAA
1 TTTTAA
7531216 ATATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (20 bp):
TTTTAATATTATTTTTATGT
Found at i:7531238 original size:26 final size:24
Alignment explanation
Indices: 7531194--7531241 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
7531184 ATTTGTTTTA
*
7531194 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
7531218 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
7531242 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:7531541 original size:20 final size:22
Alignment explanation
Indices: 7531503--7531551 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
7531493 CTCTTTTCTT
*
7531503 TTTCTTTTTTTTTTCCTTCTCC
1 TTTCTTTTTCTTTTCCTTCTCC
7531525 -TTCTTTTTCTTTT-CTTCTCC
1 TTTCTTTTTCTTTTCCTTCTCC
7531545 TTTCTTT
1 TTTCTTT
7531552 CCCTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCTTTTTCTTTTCCTTCTCC
Found at i:7531904 original size:21 final size:21
Alignment explanation
Indices: 7531878--7531919 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7531868 CTATTGCTGT
*
7531878 CCTTATTTTGAGGTCAGAATC
1 CCTTATTTTCAGGTCAGAATC
7531899 CCTTATTTTCAGGTCAGAATC
1 CCTTATTTTCAGGTCAGAATC
7531920 TTTTCTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (21 bp):
CCTTATTTTCAGGTCAGAATC
Found at i:7533942 original size:11 final size:11
Alignment explanation
Indices: 7533923--7533955 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7533913 GTTTGCTGTG
*
7533923 GGCAAGCACTA
1 GGCACGCACTA
7533934 GGCACGCACTA
1 GGCACGCACTA
7533945 GGCACGCACTA
1 GGCACGCACTA
7533956 CCTAAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.27, T:0.09
Consensus pattern (11 bp):
GGCACGCACTA
Found at i:7539177 original size:21 final size:22
Alignment explanation
Indices: 7539153--7539194 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7539143 AGGAAATTAT
*
7539153 TTGAATTTTTA-TAGGAAAAAC
1 TTGAATTTTTACAAGGAAAAAC
*
7539174 TTGAGTTTTTACAAGGAAAAA
1 TTGAATTTTTACAAGGAAAAA
7539195 AAACATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (22 bp):
TTGAATTTTTACAAGGAAAAAC
Found at i:7546483 original size:16 final size:16
Alignment explanation
Indices: 7546462--7546495 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7546452 ATATAATAAT
7546462 TAATTACATTTTTAAA
1 TAATTACATTTTTAAA
7546478 TAATTACATTTTTAAA
1 TAATTACATTTTTAAA
7546494 TA
1 TA
7546496 GTATAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTACATTTTTAAA
Found at i:7547615 original size:9 final size:9
Alignment explanation
Indices: 7547601--7547647 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 9
7547591 TATTTTTTAA
7547601 AAATTATTT
1 AAATTATTT
7547610 AAATTA-TT
1 AAATTATTT
7547618 AAATTATTT
1 AAATTATTT
7547627 AAA--A---
1 AAATTATTT
7547631 AAATTATTT
1 AAATTATTT
7547640 AAATTATT
1 AAATTATT
7547648 AAGCTGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
4 3 0.09
6 1 0.03
7 1 0.03
8 8 0.25
9 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AAATTATTT
Found at i:7547623 original size:17 final size:17
Alignment explanation
Indices: 7547601--7547649 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
7547591 TATTTTTTAA
7547601 AAATTATTTAAATTATT
1 AAATTATTTAAATTATT
7547618 AAATTATTTAAA--A--
1 AAATTATTTAAATTATT
7547631 AAATTATTTAAATTATT
1 AAATTATTTAAATTATT
7547648 AA
1 AA
7547650 GCTGTTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 12 0.43
15 2 0.07
17 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTATTTAAATTATT
Found at i:7550051 original size:46 final size:46
Alignment explanation
Indices: 7549986--7550211 Score: 215
Period size: 46 Copynumber: 5.1 Consensus size: 46
7549976 TTATCTTTGA
* * * * * *
7549986 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGGTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
7550032 CATGGTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
7550078 CACGTTGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CATGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
7550124 CA-GGTTGCCATGGTATCTTTCAACGATGGTCTTACACA--T--T-T
1 CATGG-TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
7550165 CA----GCCATGGTATCTTTCAACGATGGTCTTACACATTTCA-AC
1 CATGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
7550206 CATGGT
1 CATGGT
7550212 CTTACACATT
Statistics
Matches: 152, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
37 32 0.21
39 1 0.01
41 5 0.03
42 1 0.01
44 1 0.01
45 5 0.03
46 107 0.70
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (46 bp):
CATGGTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:7550173 original size:21 final size:21
Alignment explanation
Indices: 7550141--7550224 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
7550131 CCATGGTATC
*
7550141 TTTCAACGATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* *
7550162 TTTCAGCCATGG---TA-TC-
1 TTTCAACCATGGTCTTACACA
*
7550178 TTTCAACGATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
7550199 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
7550220 TTTCA
1 TTTCA
7550225 TATCAGGTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.20
17 1 0.02
18 2 0.04
19 2 0.04
20 1 0.02
21 35 0.69
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:7550180 original size:37 final size:37
Alignment explanation
Indices: 7550130--7550211 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
7550120 ATATCAGGTT
7550130 GCCATGGTATCTTTCAACGATGGTCTTACACATTTCA
1 GCCATGGTATCTTTCAACGATGGTCTTACACATTTCA
7550167 GCCATGGTATCTTTCAACGATGGTCTTACACATTTCA
1 GCCATGGTATCTTTCAACGATGGTCTTACACATTTCA
*
7550204 ACCATGGT
1 GCCATGGT
7550212 CTTACACATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (37 bp):
GCCATGGTATCTTTCAACGATGGTCTTACACATTTCA
Found at i:7552436 original size:11 final size:11
Alignment explanation
Indices: 7552415--7552452 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
7552405 ACTAAATAAT
7552415 TAATAA-AAAA
1 TAATAATAAAA
*
7552425 TAATAATGAAA
1 TAATAATAAAA
7552436 TAATAATAAAA
1 TAATAATAAAA
7552447 TAATAA
1 TAATAA
7552453 AATTCTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:7552483 original size:20 final size:20
Alignment explanation
Indices: 7552442--7552489 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
7552432 GAAATAATAA
*
7552442 TAAAATAATAAAATTCTCAT
1 TAAAATAATAAAATTCTAAT
*
7552462 TAAAATAATATATATT-TAAT
1 TAAAATAATA-AAATTCTAAT
7552482 T-AAATAAT
1 TAAAATAAT
7552490 CATAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 14 0.56
21 4 0.16
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATAATAAAATTCTAAT
Found at i:7553697 original size:25 final size:27
Alignment explanation
Indices: 7553661--7553717 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 27
7553651 GGCGTGACCC
*
7553661 ATTTTTTTAATAATA-TAATTTATT-T
1 ATTTTTTAAATAATATTAATTTATTAT
* *
7553686 ATTTTTTAAATATTATTATTTTATTAT
1 ATTTTTTAAATAATATTAATTTATTAT
7553713 ATTTT
1 ATTTT
7553718 AATAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 13 0.48
26 8 0.30
27 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTTTTTAAATAATATTAATTTATTAT
Found at i:7555970 original size:3 final size:3
Alignment explanation
Indices: 7555964--7556011 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
7555954 TCTCCTCCTC
*
7555964 CTT CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT -TT CTCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T
7556009 CTT
1 CTT
7556012 TGCTGCTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:7556183 original size:27 final size:27
Alignment explanation
Indices: 7556143--7556206 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
7556133 CTGCAGGGGA
*
7556143 GTCGCGCCTTTGCAGCAGGAGCGACTG
1 GTCGCGCCTCTGCAGCAGGAGCGACTG
7556170 GTCGCGCCTCTGCAGCAGGAGCGACTG
1 GTCGCGCCTCTGCAGCAGGAGCGACTG
7556197 GTCGCGCCTC
1 GTCGCGCCTC
7556207 CGGGTCTGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.12, C:0.34, G:0.36, T:0.17
Consensus pattern (27 bp):
GTCGCGCCTCTGCAGCAGGAGCGACTG
Found at i:7556315 original size:25 final size:25
Alignment explanation
Indices: 7556258--7556321 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
7556248 AATTTTAAAA
7556258 ATTATTAAAATATAATAAAAAAATAAT
1 ATTATTAAAA-A-AATAAAAAAATAAT
* *
7556285 A-T-TTAAAAAAATAAATAAATTAT
1 ATTATTAAAAAAATAAAAAAATAAT
7556308 ATTATTAAAAAAAT
1 ATTATTAAAAAAAT
7556322 GAGTCGCGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 13 0.39
24 2 0.06
25 16 0.48
26 1 0.03
27 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTATTAAAAAAATAAAAAAATAAT
Found at i:7562149 original size:16 final size:16
Alignment explanation
Indices: 7562130--7562160 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7562120 AGAGAAAGGA
*
7562130 GAAGGAGAAGAAAAAT
1 GAAGAAGAAGAAAAAT
7562146 GAAGAAGAAGAAAAA
1 GAAGAAGAAGAAAAA
7562161 AAAAAGGGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (16 bp):
GAAGAAGAAGAAAAAT
Found at i:7562446 original size:92 final size:95
Alignment explanation
Indices: 7562350--7562522 Score: 257
Period size: 92 Copynumber: 1.8 Consensus size: 95
7562340 ATTAAGTTAC
7562350 AAATTGTTAGTGTTTAGT-GTATTAGTGTATT-GTG-ATT-T-TTTTAGTAATAATATATTTTTA
1 AAATTGTTAGTGTTTAGTAGT-TTAGTGTATTAGTGTATTGTATTTTAGTAATAATATA-TTTTA
7562410 AAAAAATAATTTTATAGTTGATTAGGTTATAT
64 AAAAAATAATTTTATAGTTGATTAGGTTATAT
** *
7562442 AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTTTAA
1 AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGT-ATTTTAGTAATAATATATTTTAA
7562507 AAAAATAATTTTATAG
65 AAAAATAATTTTATAG
7562523 CTATTTTATT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
92 28 0.39
93 5 0.07
94 3 0.04
95 1 0.01
96 22 0.31
97 13 0.18
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.51
Consensus pattern (95 bp):
AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTATTTTAGTAATAATATATTTTAAA
AAAATAATTTTATAGTTGATTAGGTTATAT
Found at i:7562558 original size:114 final size:113
Alignment explanation
Indices: 7562429--7562880 Score: 721
Period size: 114 Copynumber: 3.9 Consensus size: 113
7562419 TTTTATAGTT
*
7562429 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
7562494 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATA-TTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
7562543 GATTAGGTTACATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTTGTGTATTGTAATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
7562608 TAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATA-TTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
7562657 G-TCTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTT
1 GAT-TAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGA-TTTTTTT
*
7562721 AGTAATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
64 AGTAATATATTTAAAAAA-ATAATTTTATAGCTATTTTATTAGTAATTTAA
7562772 GATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTGATTTTTTT
* * *
7562835 AGTAATGTATTTAAATAAATAATTTTATAGTTAATTTGTATTAGTA
64 AGTAATATATTTAAAAAAATAATTTTATAGCT-ATTT-TATTAGTA
7562881 TATGATTATA
Statistics
Matches: 318, Mismatches: 12, Indels: 15
0.92 0.03 0.04
Matches are distributed among these distances:
113 35 0.11
114 196 0.62
115 86 0.27
116 1 0.00
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (113 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
TAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:7562833 original size:229 final size:228
Alignment explanation
Indices: 7562432--7562880 Score: 735
Period size: 229 Copynumber: 2.0 Consensus size: 228
7562422 TATAGTTGAT
7562432 TAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAA
1 TAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAA
7562497 TATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTACATAAATTG
66 TATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTA-ATAAATTG
*
7562562 TTAGTGTTTAGTGGTTTAGTGTATTTGTGTATTGTAATTTTTTTAGTAATATATTTTAAAAAAAT
130 TTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTAATTTTTTTAGTAATATA-TTTAAAAAAAT
*
7562627 ATTTTTATAGCT-ATTT-TATTAGTAATTTAAGTC
194 AATTTTATAGCTAATTTGTATTAGTAATTTAAGTC
*
7562660 TAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTTAGTA
1 TAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGA-TTTTTTTAGTA
* *
7562725 ATATA-TTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTT-ATATATT
65 ATATATTTTAAAAAA-ATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTAATAAATT
* * *
7562788 GTTAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTTTTTAGTAATGTATTTAAATAA
129 GTTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTAATTTTTTTAGTAATATATTTAAAAAA
*
7562853 ATAATTTTATAGTTAATTTGTATTAGTA
192 ATAATTTTATAGCTAATTTGTATTAGTA
7562881 TATGATTATA
Statistics
Matches: 206, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
227 25 0.12
228 81 0.39
229 92 0.45
230 8 0.04
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (228 bp):
TAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAA
TATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAAGATTAGGTTAATAAATTGT
TAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTAATTTTTTTAGTAATATATTTAAAAAAATAA
TTTTATAGCTAATTTGTATTAGTAATTTAAGTC
Found at i:7562958 original size:15 final size:16
Alignment explanation
Indices: 7562929--7562960 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7562919 TGTGATTTTT
7562929 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
7562945 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
7562960 T
1 T
7562961 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:7565204 original size:42 final size:42
Alignment explanation
Indices: 7565141--7565267 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
7565131 CTTCGTTTTC
** * *
7565141 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
7565184 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
7565225 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
7565266 TC
1 TC
7565268 TCACTGATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.14
42 62 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:7565329 original size:47 final size:46
Alignment explanation
Indices: 7565226--7565347 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 46
7565216 ATTCATATAT
* * * * *
7565226 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
7565272 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
7565319 CGATGCCATATCCCAGATATGGTCTTATA
1 CGATGCCATATCCCAGATATGGTCTTATA
7565348 GGGAAATCAC
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 26 0.39
47 40 0.61
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:7565429 original size:31 final size:31
Alignment explanation
Indices: 7565374--7565521 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
7565364 CTTGTCACTT
* *
7565374 GTAGCCGAAGCT-GCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
7565404 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
7565435 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
7565466 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
7565497 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
7565522 TGTCATTTGT
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.13
31 91 0.85
32 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:7565603 original size:50 final size:51
Alignment explanation
Indices: 7565497--7565625 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
7565487 CACTGATCAG
* * *
7565497 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
7565548 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
7565598 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
7565626 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:7565760 original size:14 final size:15
Alignment explanation
Indices: 7565741--7565769 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7565731 TTTTATCATG
7565741 AACACAT-ATGAAAT
1 AACACATCATGAAAT
7565755 AACACATCATGAAAT
1 AACACATCATGAAAT
7565770 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
AACACATCATGAAAT
Found at i:7569272 original size:27 final size:27
Alignment explanation
Indices: 7569242--7569304 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
7569232 CCTACCAAGA
*
7569242 AGGCACAACTAGTCGTGCCTGTCAGAT
1 AGGCACAACTAGTCGAGCCTGTCAGAT
* * * *
7569269 AGGCTCAATTAGTTGAGCTTGTCAGAT
1 AGGCACAACTAGTCGAGCCTGTCAGAT
*
7569296 AGGCGCAAC
1 AGGCACAAC
7569305 ATGTATGTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (27 bp):
AGGCACAACTAGTCGAGCCTGTCAGAT
Found at i:7574510 original size:22 final size:23
Alignment explanation
Indices: 7574480--7574524 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7574470 AATATTTTTC
*
7574480 TTTAATAA-TAATTTGATGGAAA
1 TTTAATAATTAATTTAATGGAAA
* *
7574502 TTTATTAATTCATTTAATGGAAA
1 TTTAATAATTAATTTAATGGAAA
7574525 AAATAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (23 bp):
TTTAATAATTAATTTAATGGAAA
Found at i:7574886 original size:17 final size:17
Alignment explanation
Indices: 7574839--7574886 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
7574829 AAAATTTATC
7574839 TTGAAATTATCTTTGTT
1 TTGAAATTATCTTTGTT
*
7574856 TT-AAA--A--TTTATT
1 TTGAAATTATCTTTGTT
7574868 TTGAAATTATCTTTGTT
1 TTGAAATTATCTTTGTT
7574885 TT
1 TT
7574887 TACTCTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
12 7 0.29
13 3 0.12
14 1 0.04
15 1 0.04
16 3 0.12
17 9 0.38
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (17 bp):
TTGAAATTATCTTTGTT
Found at i:7574898 original size:29 final size:29
Alignment explanation
Indices: 7574826--7574886 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
7574816 AATAGTCTTC
*
7574826 TTTAAAATTTATCTTGAAATTATCTTTGT
1 TTTAAAATTTATTTTGAAATTATCTTTGT
7574855 TTTAAAATTTATTTTGAAATTATCTTTGT
1 TTTAAAATTTATTTTGAAATTATCTTTGT
7574884 TTT
1 TTT
7574887 TACTCTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTAAAATTTATTTTGAAATTATCTTTGT
Found at i:7575629 original size:12 final size:11
Alignment explanation
Indices: 7575610--7575640 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
7575600 TGTATAATTT
7575610 TTATTTTATTA
1 TTATTTTATTA
7575621 TTAATTTTATTA
1 TT-ATTTTATTA
7575633 TTATTTTA
1 TTATTTTA
7575641 AAGATATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:7575630 original size:17 final size:17
Alignment explanation
Indices: 7575608--7575641 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7575598 ATTGTATAAT
7575608 TTTTATT-TTATTATTAA
1 TTTTATTATTATT-TTAA
7575625 TTTTATTATTATTTTAA
1 TTTTATTATTATTTTAA
7575642 AGATATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTATTATTTTAA
Found at i:7580192 original size:20 final size:20
Alignment explanation
Indices: 7580163--7580202 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7580153 AAAAGAAAGA
7580163 CATTTACTTTCACAAAAAAT
1 CATTTACTTTCACAAAAAAT
* *
7580183 CATTTGCTTTTACAAAAAAT
1 CATTTACTTTCACAAAAAAT
7580203 AAACGAAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (20 bp):
CATTTACTTTCACAAAAAAT
Found at i:7580596 original size:16 final size:16
Alignment explanation
Indices: 7580559--7580589 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7580549 TTAAATTTTA
7580559 AATTTATTTTTTTATG
1 AATTTATTTTTTTATG
7580575 AATTTATTTTTTTAT
1 AATTTATTTTTTTAT
7580590 TATTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
AATTTATTTTTTTATG
Found at i:7584405 original size:5 final size:5
Alignment explanation
Indices: 7584395--7584431 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
7584385 TAACGCCATC
*
7584395 TCCTG TCCTG TCCTG TTCTG TCCTG TCCTG TCCTG TC
1 TCCTG TCCTG TCCTG TCCTG TCCTG TCCTG TCCTG TC
7584432 AGTTACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.38, G:0.19, T:0.43
Consensus pattern (5 bp):
TCCTG
Done.