Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 59 of 352
Found at i:18711814 original size:12 final size:13
Alignment explanation
Indices: 18711787--18711812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18711777 TCATTATTTC
18711787 ATTAAAAAGTTAA
1 ATTAAAAAGTTAA
18711800 ATTAAAAAGTTAA
1 ATTAAAAAGTTAA
18711813 TTTTAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
ATTAAAAAGTTAA
Found at i:18712013 original size:14 final size:14
Alignment explanation
Indices: 18711996--18712023 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18711986 AAAAAGTTAA
18711996 TTTTAATCCCACAT
1 TTTTAATCCCACAT
18712010 TTTTAATCCCACAT
1 TTTTAATCCCACAT
18712024 AATTAAAACA
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:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTAATCCCACAT
Found at i:18717527 original size:129 final size:131
Alignment explanation
Indices: 18717168--18717810 Score: 983
Period size: 130 Copynumber: 4.9 Consensus size: 131
18717158 ACATTTATTT
* * * * *
18717168 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAGTAAAGTAC
1 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAC
* *
18717233 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAAATAAATATAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
18717298 A
131 A
* * *
18717299 TAA-AAAAAATATTGACTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAATTAAAGTAA
1 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAC
18717363 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
18717428 A
131 A
18717429 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAA-AAAATT-AAAAAATTAAAGTAC
1 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAC
* * *
18717492 AATTAAAATATTAAAAACAACTTTTATTTTTTTAATTCAAACTATATAAAAATTTAAATATAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
18717557 A
131 A
*
18717558 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTGAAA-TA
1 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATT-AAAGTA
*
18717622 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATA-ATA
65 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAA
18717686 AA
130 AA
* * * * *
18717688 TAATAAAAAATATTGCCTAATCTAAAAAAACATTTATCTTAATAAATTTTTTTTAAAAAAAGTAA
1 TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAA-----ATTAAAAAAATTAA
* *
18717753 AGTACGATTAAAATATCAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
61 AGTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
18717811 AGTTTCTACA
Statistics
Matches: 473, Mismatches: 28, Indels: 18
0.91 0.05 0.03
Matches are distributed among these distances:
129 118 0.25
130 179 0.38
131 107 0.23
132 3 0.01
134 5 0.01
135 61 0.13
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (131 bp):
TAATAAAAAATATTGCCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAATTAAAGTAC
AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAAA
A
Found at i:18718248 original size:18 final size:18
Alignment explanation
Indices: 18718221--18718258 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18718211 GGAAAAGAAA
*
18718221 ACATAAAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
*
18718239 ACATATAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
18718257 AC
1 AC
18718259 GCAACTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:18718881 original size:7 final size:7
Alignment explanation
Indices: 18718865--18718926 Score: 90
Period size: 7 Copynumber: 9.0 Consensus size: 7
18718855 AAATATTAGT
*
18718865 TAAATCC
1 TAAATAC
18718872 TAAATAC
1 TAAATAC
*
18718879 TAAATCC
1 TAAATAC
18718886 TAAATAC
1 TAAATAC
*
18718893 TAAACAC
1 TAAATAC
18718900 TAAATAC
1 TAAATAC
18718907 T-AATAC
1 TAAATAC
18718913 TAAATAC
1 TAAATAC
18718920 TAAATAC
1 TAAATAC
18718927 GAAACGACTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
6 6 0.12
7 43 0.88
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAATAC
Found at i:18718912 original size:34 final size:36
Alignment explanation
Indices: 18718866--18718936 Score: 101
Period size: 34 Copynumber: 2.0 Consensus size: 36
18718856 AATATTAGTT
* * *
18718866 AAATCCTAAATACTAAATCCTAAATACTAAAC-ACT
1 AAATACTAAATACTAAATACTAAATACGAAACGACT
18718901 AAATACT-AATACTAAATACTAAATACGAAACGACT
1 AAATACTAAATACTAAATACTAAATACGAAACGACT
18718936 A
1 A
18718937 TTTTATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 22 0.69
35 10 0.31
ACGTcount: A:0.54, C:0.20, G:0.03, T:0.24
Consensus pattern (36 bp):
AAATACTAAATACTAAATACTAAATACGAAACGACT
Found at i:18720093 original size:22 final size:23
Alignment explanation
Indices: 18720050--18720103 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
18720040 ACTAATTCAA
18720050 AAAAATTTAAACAGAGCTTTTTTG-C
1 AAAAA-TTAAACAGAGC--TTTTGAC
*
18720075 AAAAATTAAAGAGAG-TTTTGAC
1 AAAAATTAAACAGAGCTTTTGAC
18720097 AAAAATT
1 AAAAATT
18720104 GAGAGAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 8 0.30
24 9 0.33
25 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (23 bp):
AAAAATTAAACAGAGCTTTTGAC
Found at i:18720132 original size:22 final size:22
Alignment explanation
Indices: 18720104--18720145 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
18720094 GACAAAAATT
18720104 GAGAGAAATT-TGAGAGAATTTG
1 GAGAG-AATTGTGAGAGAATTTG
18720126 GAGAGAATTGTGAGAGAATT
1 GAGAGAATTGTGAGAGAATT
18720146 GTGAAAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (22 bp):
GAGAGAATTGTGAGAGAATTTG
Found at i:18720149 original size:11 final size:10
Alignment explanation
Indices: 18720102--18720145 Score: 61
Period size: 11 Copynumber: 4.1 Consensus size: 10
18720092 TTGACAAAAA
18720102 TTGAGAGAAAT
1 TTGAGAG-AAT
18720113 TTGAGAGAAT
1 TTGAGAGAAT
18720123 TTGGAGAGAAT
1 TT-GAGAGAAT
18720134 TGTGAGAGAAT
1 T-TGAGAGAAT
18720145 T
1 T
18720146 GTGAAAGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.16
11 25 0.81
12 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.30
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:18725677 original size:35 final size:35
Alignment explanation
Indices: 18725631--18725701 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
18725621 GTCAATCTAG
*
18725631 AGGTAAAGATAGATGCCGAGACAAATGGTGGAGAT
1 AGGTAAAGATAGATACCGAGACAAATGGTGGAGAT
18725666 AGGTAAAGATAGATACCGAGACAAATGGTGGAGAT
1 AGGTAAAGATAGATACCGAGACAAATGGTGGAGAT
18725701 A
1 A
18725702 CCGATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.08, G:0.32, T:0.17
Consensus pattern (35 bp):
AGGTAAAGATAGATACCGAGACAAATGGTGGAGAT
Found at i:18727174 original size:22 final size:21
Alignment explanation
Indices: 18727133--18727176 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
18727123 TCTCGAGCTT
*
18727133 TAGCTTTTTAGCCTTATTTTC
1 TAGCTTTGTAGCCTTATTTTC
18727154 TAGCTCTTGTAGCACTT-TTTTC
1 TAGCT-TTGTAGC-CTTATTTTC
18727176 T
1 T
18727177 TTGCAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.14, C:0.20, G:0.11, T:0.55
Consensus pattern (21 bp):
TAGCTTTGTAGCCTTATTTTC
Found at i:18730381 original size:32 final size:32
Alignment explanation
Indices: 18730342--18730405 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
18730332 TTTTTACATG
18730342 GACAGATGCAACACCAAGCCTCAGATTGCTCA
1 GACAGATGCAACACCAAGCCTCAGATTGCTCA
18730374 GACAGATGCAACACCAAGCCTCAGATTGCTCA
1 GACAGATGCAACACCAAGCCTCAGATTGCTCA
18730406 CTGCGCATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (32 bp):
GACAGATGCAACACCAAGCCTCAGATTGCTCA
Found at i:18736434 original size:30 final size:30
Alignment explanation
Indices: 18736400--18736462 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
18736390 GATGAAATGC
18736400 AGCAGCATGCAAGTGACCAAGCAGTCCACT
1 AGCAGCATGCAAGTGACCAAGCAGTCCACT
*
18736430 AGCAGCATGCAAGTGACCAAGCAGTCCAGT
1 AGCAGCATGCAAGTGACCAAGCAGTCCACT
18736460 AGC
1 AGC
18736463 TGTACGCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.13
Consensus pattern (30 bp):
AGCAGCATGCAAGTGACCAAGCAGTCCACT
Found at i:18742293 original size:21 final size:22
Alignment explanation
Indices: 18742269--18742318 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
18742259 CGCTGTTTCT
*
18742269 AATCTCACT-GCTACAGTATCC
1 AATCTCACTCGCTACAGTAACC
*
18742290 AATCTCA-TCGCTACAGTAACT
1 AATCTCACTCGCTACAGTAACC
18742311 AATCTCAC
1 AATCTCAC
18742319 CGCCACCGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (22 bp):
AATCTCACTCGCTACAGTAACC
Found at i:18744078 original size:35 final size:35
Alignment explanation
Indices: 18744033--18744104 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
18744023 GTTTTTAAGG
* * *
18744033 TTAGGGTTTTGCCAAAATAAGTTAGGGTTTAGTGT
1 TTAGGGTTTTGCCAAAACAAATTAGGGTTTAGAGT
* **
18744068 TTAGGTTTTTGTTAAAACAAATTAGGGTTTAGAGT
1 TTAGGGTTTTGCCAAAACAAATTAGGGTTTAGAGT
18744103 TT
1 TT
18744105 TAGTAGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCCAAAACAAATTAGGGTTTAGAGT
Found at i:18744195 original size:34 final size:34
Alignment explanation
Indices: 18744140--18744226 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 34
18744130 ATTTTGTGTT
**
18744140 ATTTTATAA-AAATTATTTAAATTAAGG-TTTAGG
1 ATTTTA-AATAAATTAAGTAAATTAAGGTTTTAGG
*
18744173 ATTGTTAAATAAATTAAGTAAATTAGGGTTTTTAGG
1 ATT-TTAAATAAATTAAGTAAATTAAGG-TTTTAGG
*
18744209 GTTTTAAATAAATTAAGT
1 ATTTTAAATAAATTAAGT
18744227 TAGGGTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 5 0.11
34 18 0.39
35 15 0.33
36 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (34 bp):
ATTTTAAATAAATTAAGTAAATTAAGGTTTTAGG
Found at i:18744229 original size:22 final size:22
Alignment explanation
Indices: 18744204--18744247 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18744194 ATTAGGGTTT
18744204 TTAGGGTTTTAAATAAATTAAG
1 TTAGGGTTTTAAATAAATTAAG
18744226 TTAGGGTTTTAAATAAATTAAG
1 TTAGGGTTTTAAATAAATTAAG
18744248 GTTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (22 bp):
TTAGGGTTTTAAATAAATTAAG
Found at i:18744230 original size:31 final size:33
Alignment explanation
Indices: 18744167--18744235 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 33
18744157 TAAATTAAGG
18744167 TTTAGGATTGTTAAATAAATTAAGTAAATTAGGGTT
1 TTTAGGATTGTTAAATAAATTAAG---ATTAGGGTT
*
18744203 TTTAGGGTT-TTAAATAAATTAAG-TTAGGGTT
1 TTTAGGATTGTTAAATAAATTAAGATTAGGGTT
18744234 TT
1 TT
18744236 AAATAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 10 0.31
35 14 0.44
36 8 0.25
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (33 bp):
TTTAGGATTGTTAAATAAATTAAGATTAGGGTT
Found at i:18744252 original size:17 final size:17
Alignment explanation
Indices: 18744230--18744263 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18744220 ATTAAGTTAG
18744230 GGTTTTAAATAAATTAA
1 GGTTTTAAATAAATTAA
*
18744247 GGTTTTAAATAAGTTAA
1 GGTTTTAAATAAATTAA
18744264 ATTAGGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (17 bp):
GGTTTTAAATAAATTAA
Found at i:18744264 original size:22 final size:21
Alignment explanation
Indices: 18744204--18744273 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
18744194 ATTAGGGTTT
*
18744204 TTAGGGTTTTAAATAAATTAAG
1 TTAGGGTTTTAAAT-AATTAAA
18744226 TTAGGGTTTT--A-AA-TAAA
1 TTAGGGTTTTAAATAATTAAA
*
18744243 TTAAGGTTTTAAATAAGTTAAA
1 TTAGGGTTTTAAATAA-TTAAA
18744265 TTAGGGTTT
1 TTAGGGTTT
18744274 ATGGTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 12 0.30
18 2 0.05
19 1 0.03
20 3 0.08
22 22 0.55
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
TTAGGGTTTTAAATAATTAAA
Found at i:18744291 original size:25 final size:25
Alignment explanation
Indices: 18744261--18744317 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
18744251 TTAAATAAGT
* * *
18744261 TAAATTAG-GGTTTATGGTTTTTAGA
1 TAAATTAGAGTTTTA-GGGTTTTAAA
18744286 TAAATTAGAGTTTTAGGGTTTTAAA
1 TAAATTAGAGTTTTAGGGTTTTAAA
18744311 TAAATTA
1 TAAATTA
18744318 AATTAGGGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
TAAATTAGAGTTTTAGGGTTTTAAA
Found at i:18744741 original size:29 final size:30
Alignment explanation
Indices: 18744694--18744761 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
18744684 TGGCCTAAGA
* *
18744694 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
18744724 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
18744754 GCAAATAT
1 GTAAATAT
18744762 TTTAAGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:18747025 original size:127 final size:126
Alignment explanation
Indices: 18746888--18747200 Score: 425
Period size: 127 Copynumber: 2.5 Consensus size: 126
18746878 GTAGTTCCTA
*
18746888 AAAAAATAATTTTGAGAAA-ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGTA
1 AAAAAATAATTTTGA-AAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * * **
18746952 GTATCAGCAAAATTAC-GGAAAAAAGCTATCACGTGGACT-CTCTTTTTTCTACAGCAGTTCATG
65 CTACCAGCAAAATTACAGG-AAAAAGCTACCACGCAGA-TGCTC-TTTTTCTACAGCAGTTCATG
*
18747015 AAAAAATAATTTTGAAAAGACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * *
18747080 TGCCAGCAAAATTACAGGAAAAAGCTCCCACGCAGATGCTCTTTTTCTACAGTAGTTCTTG
66 TACCAGCAAAATTACAGGAAAAAGCTACCACGCAGATGCTCTTTTTCTACAGCAGTTCATG
* * * * *
18747141 AAAAAATAATTTTGAAAAGATGTTTCTAAACAAATAATGTCAAAAATGTTTCAAGCAGGA
1 AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGA
18747201 GGCAATATTG
Statistics
Matches: 166, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
126 76 0.46
127 88 0.53
128 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (126 bp):
AAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TACCAGCAAAATTACAGGAAAAAGCTACCACGCAGATGCTCTTTTTCTACAGCAGTTCATG
Found at i:18747217 original size:126 final size:126
Alignment explanation
Indices: 18746877--18747267 Score: 450
Period size: 126 Copynumber: 3.1 Consensus size: 126
18746867 GGGTATTGCA
* *
18746877 AGTAGTTCCTAAAAAAATAATTTTGAGAAA-ACGTTTCTGAACAAATAGTGTCAAAAACGCTTCA
1 AGTAGTTCATGAAAAAATAATTTTGA-AAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCA
* * **
18746941 AGCAGGATGTAGTATCAGCAAAATTAC-GGAAAAAAGCTATCACGTGGACT-CTCTTTTTTCTAC
65 AGCAGGATGCAATATCAGCAAAATTACAGG-AAAAAGCTCCCACGTGGA-TGCTC-TTTTTCTAC
* *
18747004 AGCAGTTCATGAAAAAATAATTTTGAAAAGACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAA
1 AGTAGTTCATGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAA
* ** **
18747069 GCAGGATGCACTGCCAGCAAAATTACAGGAAAAAGCTCCCACGCAGATGCTCTTTTTCTAC
66 GCAGGATGCAATATCAGCAAAATTACAGGAAAAAGCTCCCACGTGGATGCTCTTTTTCTAC
* * * * * *
18747130 AGTAGTTCTTGAAAAAATAATTTTGAAAAGATGTTTCTAAACAAATAATGTCAAAAATGTTTCAA
1 AGTAGTTCATGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAA
* ** * * * *
18747195 GCAGGAGGCAATATTGGAAAAATTTCTA--AAAAGAACTCCCACGTGGACGCTCTTTTTCTAC
66 GCAGGATGCAATATCAGCAAAATTAC-AGGAAAA-AGCTCCCACGTGGATGCTCTTTTTCTAC
*
18747256 AGTAGTTAATGA
1 AGTAGTTCATGA
18747268 TTGGCCTTAG
Statistics
Matches: 225, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
125 4 0.02
126 122 0.54
127 97 0.43
128 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
AGTAGTTCATGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAA
GCAGGATGCAATATCAGCAAAATTACAGGAAAAAGCTCCCACGTGGATGCTCTTTTTCTAC
Found at i:18751422 original size:7 final size:7
Alignment explanation
Indices: 18751412--18751436 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18751402 TTATATACAT
18751412 AATACTA
1 AATACTA
18751419 AATACTA
1 AATACTA
18751426 AATACTA
1 AATACTA
18751433 AATA
1 AATA
18751437 TGAAACAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:18755917 original size:18 final size:20
Alignment explanation
Indices: 18755894--18755930 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
18755884 GAGCAATTAT
18755894 TTTTGTAAT-T-TTTTTTAG
1 TTTTGTAATATATTTTTTAG
18755912 TTTTGTAATATATTTTTTA
1 TTTTGTAATATATTTTTTA
18755931 TTTATTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (20 bp):
TTTTGTAATATATTTTTTAG
Found at i:18755961 original size:17 final size:17
Alignment explanation
Indices: 18755919--18755961 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18755909 TAGTTTTGTA
*
18755919 ATATATTTTTTATTTAT
1 ATATATTTATTATTTAT
*
18755936 -TCATTTTTATTATTTAT
1 AT-ATATTTATTATTTAT
18755953 ATATATTTA
1 ATATATTTA
18755962 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATATTTATTATTTAT
Found at i:18757079 original size:398 final size:393
Alignment explanation
Indices: 18756308--18757090 Score: 1161
Period size: 398 Copynumber: 2.0 Consensus size: 393
18756298 GACTCAATCT
* *
18756308 GAAACTCAGAGAATTTTTCATGAAATTTCATAATTTTCTTTAAGTGCAGGGCTCTCAAGCCCGTG
1 GAAACTCAGAGAATTTTTCATGAAATTTCATAATTTTCCTTAAGTGCAGGGCTCACAAGCCCGTG
* *
18756373 TGATCAAGGGACACACTTGTGTGACCCTATGACATGCCCGTGCTTCAGGCCGTGTCCTAACCTGT
66 TGATCAAGGGACACACCTGTGCGACCCTATGACATGCCCGTGCTTCAGGCCGTGTCCTAACCTGT
* ** ***
18756438 GTTACTCTTTGACTTACCTCACACGGCCAAACCACAGGCCCGTGTGCTAGGTTGCGTGCTTCACA
131 GTAACTCCCTGACTTACCTCACACGGCCAAACCACAGGCCCGTGTGCTAGGCCACGTGCTTCACA
** * *
18756503 CGGTTGAGACACACGTTCGTGTCTCTGTCCATGTGGTAATACCTGAGCATTCTGTTTTAAAATTT
196 CGGTTGAGACACACGCCCGTGTCTCTGCCCATGTGGTAATACATGAGCATTCTGTTTTAAAATTT
* * * *
18756568 TAAGTTGCAGGGGACACACGGCCTAATCATATGCCCATGTATAAGCCGTATGTCTCACATGGTCT
261 TAAGATGCAGGGGACACACGGCCTAATCACATGCCCATGTACAAGCCGTATGTCTCACACGGTCT
* * *
18756633 AGTTACACGCCCATGTGCCATGCCGTGTGGACTCAAAATGAGCATTTTTCATCAATTTTTTTTCA
326 AGTCACACGCCCATGTGCCAGGCCGTGTGGACTCAAAATGAGCATTTTTCATCAAGTTTTTTTCA
18756698 TTG
391 TTG
* *
18756701 GAAACTTAGAGAATTTTTCATGAAATTTCATAATTTTCCTTAAGTGCAGGGCTCACACGCCCGTG
1 GAAACTCAGAGAATTTTTCATGAAATTTCATAATTTTCCTTAAGTGCAGGGCTCACAAGCCCGTG
* * * *
18756766 TGGTCAAGGGACACACCTGTGCGACCCTATGACATGCCTGTGCTTCAGGCTGTGTGCTAACCTGT
66 TGATCAAGGGACACACCTGTGCGACCCTATGACATGCCCGTGCTTCAGGCCGTGTCCTAACCTGT
* * ** *
18756831 GTAACTCCCTGACTTACCTCACATGGCCAAACCACATGCCTTTGTGCTAGGCCATGTGCTTCACA
131 GTAACTCCCTGACTTACCTCACACGGCCAAACCACAGGCCCGTGTGCTAGGCCACGTGCTT----
* *
18756896 CGACACGGTTGAGACATACGCCCGTGTCTCTGCCCGTGTGGTAATACATGAGCATTCTGTTTTAA
192 C-ACACGGTTGAGACACACGCCCGTGTCTCTGCCCATGTGGTAATACATGAGCATTCTGTTTTAA
* * * *
18756961 ATTTTTAAGATGCATGGGACACACGGCCTAATCACATGCCCATGTGCAAGCCGTGTGTCTCACAC
256 AATTTTAAGATGCAGGGGACACACGGCCTAATCACATGCCCATGTACAAGCCGTATGTCTCACAC
* *
18757026 GGTCTAGTCATACGCCCATGTGCCAGGTCGTGTGGACTCAAAATGAGCATTTTTCATCAAGTTTT
321 GGTCTAGTCACACGCCCATGTGCCAGGCCGTGTGGACTCAAAATGAGCATTTTTCATCAAGTTTT
18757091 ACCAACCCTG
Statistics
Matches: 345, Mismatches: 40, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
393 170 0.49
397 1 0.00
398 174 0.50
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (393 bp):
GAAACTCAGAGAATTTTTCATGAAATTTCATAATTTTCCTTAAGTGCAGGGCTCACAAGCCCGTG
TGATCAAGGGACACACCTGTGCGACCCTATGACATGCCCGTGCTTCAGGCCGTGTCCTAACCTGT
GTAACTCCCTGACTTACCTCACACGGCCAAACCACAGGCCCGTGTGCTAGGCCACGTGCTTCACA
CGGTTGAGACACACGCCCGTGTCTCTGCCCATGTGGTAATACATGAGCATTCTGTTTTAAAATTT
TAAGATGCAGGGGACACACGGCCTAATCACATGCCCATGTACAAGCCGTATGTCTCACACGGTCT
AGTCACACGCCCATGTGCCAGGCCGTGTGGACTCAAAATGAGCATTTTTCATCAAGTTTTTTTCA
TTG
Found at i:18759060 original size:13 final size:13
Alignment explanation
Indices: 18759026--18759053 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18759016 TTTAATTATA
18759026 ATAATATAATAAT
1 ATAATATAATAAT
18759039 ATAATATAATAAT
1 ATAATATAATAAT
18759052 AT
1 AT
18759054 TTTATAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:18762490 original size:14 final size:15
Alignment explanation
Indices: 18762471--18762503 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18762461 GGGGCAAAGC
*
18762471 TAAAAAT-CTTGAAT
1 TAAAAATGCTTAAAT
18762485 TAAAAATGCTTAAAT
1 TAAAAATGCTTAAAT
18762500 TAAA
1 TAAA
18762504 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (15 bp):
TAAAAATGCTTAAAT
Found at i:18766456 original size:18 final size:18
Alignment explanation
Indices: 18766433--18766467 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18766423 CTGCTTCTAA
*
18766433 AATCTGTTTTTTCTTTTC
1 AATCTGTGTTTTCTTTTC
18766451 AATCTGTGTTTTCTTTT
1 AATCTGTGTTTTCTTTT
18766468 GCTCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (18 bp):
AATCTGTGTTTTCTTTTC
Found at i:18772206 original size:45 final size:45
Alignment explanation
Indices: 18772013--18772268 Score: 320
Period size: 46 Copynumber: 5.6 Consensus size: 45
18772003 ATTGAAGGAA
* *
18772013 GCCATAATGTCTTTCAACCATGGTCTTATTCTCTTTTCGATATGAT
1 GCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATATGAT
* *
18772059 GCCATAGTGCCTTTCAACCATGGTTTTATTCATTTTCTGATATGAT
1 GCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTC-GATATGAT
*
18772105 GCCATAG-GTTCTTTCAACCATGGTCTTATTCGTTTTCCGATATGAT
1 GCCATAGTG-TCTTTCAACCATGGTCTTATTCATTTT-CGATATGAT
* *
18772151 CCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAGGAT
1 GCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGAT
* * *
18772196 GCCATAGTGTCTTTCAACTATGGTCTTACTCA-TCT-GAATCATGAT
1 GCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-AT-ATGAT
* * *
18772241 GCCATAGCGTCTTTCAGCTATGGTCTTA
1 GCCATAGTGTCTTTCAACCATGGTCTTA
18772269 CTCGTTTGAA
Statistics
Matches: 187, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.01
44 4 0.02
45 73 0.39
46 107 0.57
47 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (45 bp):
GCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATATGAT
Found at i:18772269 original size:45 final size:45
Alignment explanation
Indices: 18772054--18772286 Score: 156
Period size: 45 Copynumber: 5.1 Consensus size: 45
18772044 TCTTTTCGAT
* * * * *
18772054 ATGATGCCATAGTGCCTTTCAACCATGGTTTTATTCATTTTCTG-AT-
1 ATGATGCCATAGCGTCTTTCAACTATGGTCTTACTCA---TCTGAATA
* ** *
18772100 ATGATGCCATAG-GTTCTTTCAACCATGGTCTTATTCGTTTTCCG-AT-
1 ATGATGCCATAGCG-TCTTTCAACTATGGTCTTA--C-TCATCTGAATA
* * * * *
18772146 ATGATCCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-AT-
1 ATGATGCCATAGCGTCTTTCAACTATGGTCTTACTCA-TCT-GAATA
* * *
18772191 AGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCTGAATC
1 ATGATGCCATAGCGTCTTTCAACTATGGTCTTACTCATCTGAATA
* * *
18772236 ATGATGCCATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATA
1 ATGATGCCATAGCGTCTTTCAACTATGGTCTTACTCATCTGAATA
18772281 ATGATG
1 ATGATG
18772287 AACCGACTCA
Statistics
Matches: 155, Mismatches: 23, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
43 2 0.01
44 5 0.03
45 82 0.53
46 64 0.41
47 1 0.01
49 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (45 bp):
ATGATGCCATAGCGTCTTTCAACTATGGTCTTACTCATCTGAATA
Found at i:18777509 original size:12 final size:12
Alignment explanation
Indices: 18777479--18777511 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18777469 ATATTTTTTT
18777479 AAAATT-ATATA
1 AAAATTAATATA
18777490 AAAA-TAATATA
1 AAAATTAATATA
18777501 AAAATTAATAT
1 AAAATTAATAT
18777512 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:18778378 original size:48 final size:42
Alignment explanation
Indices: 18778263--18778385 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 42
18778253 TGATGATGAC
* * * *
18778263 TCGGTTATTTATGGGTACTTAGTGTGCGAAATTGAGATAGCT
1 TCGGTTATATATTGGCAATTAGTGTGCGAAATTGAGATAGCT
* * *
18778305 TCGGTTATATATTTGCATTTAGTGTGCGAGATTGAGATAGCT
1 TCGGTTATATATTGGCAATTAGTGTGCGAAATTGAGATAGCT
18778347 TCGGCTGTATATACACATTGGCAATTAGTGTGCGAAATT
1 TCGG-T-TATAT----ATTGGCAATTAGTGTGCGAAATT
18778386 AATACAACTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 40 0.61
43 1 0.02
44 5 0.08
48 20 0.30
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.37
Consensus pattern (42 bp):
TCGGTTATATATTGGCAATTAGTGTGCGAAATTGAGATAGCT
Found at i:18779873 original size:26 final size:22
Alignment explanation
Indices: 18779825--18779891 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 22
18779815 GACGAAGTGA
18779825 TTGTATAATTGTTTTAT-AAGT
1 TTGTATAATTGTTTTATAAAGT
18779846 TTGTATAATTGTTTTATAAGTCCAGT
1 TTGTATAATTGTTTTATAA----AGT
18779872 TTGTATAATTGTTTTATAAA
1 TTGTATAATTGTTTTATAAA
18779892 TCTAGTAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
21 17 0.41
22 2 0.05
26 22 0.54
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.54
Consensus pattern (22 bp):
TTGTATAATTGTTTTATAAAGT
Found at i:18786669 original size:29 final size:30
Alignment explanation
Indices: 18786640--18786695 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
18786630 ATATATTTGA
*
18786640 AATCTAG-TCTTTT-ATTTTTAATTTTATG
1 AATCTAGCCCTTTTGATTTTTAATTTTATG
* *
18786668 AATTTAGCCCTTTTGATTTTTAAATTTA
1 AATCTAGCCCTTTTGATTTTTAATTTTA
18786696 AAAATATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 5 0.22
30 12 0.52
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (30 bp):
AATCTAGCCCTTTTGATTTTTAATTTTATG
Found at i:18792868 original size:21 final size:21
Alignment explanation
Indices: 18792826--18792869 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18792816 CAATCCTGAC
* * *
18792826 AATTCCAACAAAAAATCGTAA
1 AATTCAAAAAAAAAATAGTAA
*
18792847 AATTCAAAAAAAAAATATTAA
1 AATTCAAAAAAAAAATAGTAA
18792868 AA
1 AA
18792870 GGGTAGAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTCAAAAAAAAAATAGTAA
Found at i:18795813 original size:17 final size:17
Alignment explanation
Indices: 18795787--18795819 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18795777 ATCTTCACCA
18795787 AATAAACCCCAAAAATT
1 AATAAACCCCAAAAATT
*
18795804 AATAAGCCCCAAAAAT
1 AATAAACCCCAAAAAT
18795820 CACAAAGTCA
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:0.58, C:0.24, G:0.03, T:0.15
Consensus pattern (17 bp):
AATAAACCCCAAAAATT
Found at i:18801567 original size:26 final size:26
Alignment explanation
Indices: 18801506--18801573 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
18801496 TTAAATTAAT
* *
18801506 TAATTATTATTATT-TTATTATCTTC
1 TAATTATTATTATTAGTACTATCTTC
*
18801531 TAATTTTTTATTATTAGTACTAT-TTC
1 TAA-TTATTATTATTAGTACTATCTTC
18801557 ATAATTATTATATATTA
1 -TAATTATTAT-TATTA
18801574 CTATTACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.09
26 19 0.54
27 13 0.37
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATTATTATTATTAGTACTATCTTC
Found at i:18801688 original size:34 final size:34
Alignment explanation
Indices: 18801646--18801721 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
18801636 TTATACTATA
* *
18801646 ATTA-TATTTACTTT-TATGGTTACCATTATTTTT
1 ATTATTATTT-CTTTATATCGTTACCATTATTATT
* **
18801679 ATTATTATTTCTTTATATCTTTGTCATTATTATT
1 ATTATTATTTCTTTATATCGTTACCATTATTATT
18801713 ATTATTATT
1 ATTATTATT
18801722 ATTATTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (34 bp):
ATTATTATTTCTTTATATCGTTACCATTATTATT
Found at i:18801712 original size:3 final size:3
Alignment explanation
Indices: 18801704--18801747 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18801694 TATCTTTGTC
18801704 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18801748 AATACTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18802374 original size:26 final size:26
Alignment explanation
Indices: 18802313--18802380 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
18802303 TTAAATTAAT
* *
18802313 TAATTATTATTATT-TTATTATCTTC
1 TAATTATTATTATTAGTACTATCTTC
*
18802338 TAATTTTTTATTATTAGTACTAT-TTC
1 TAA-TTATTATTATTAGTACTATCTTC
18802364 ATAATTATTATATATTA
1 -TAATTATTAT-TATTA
18802381 CTATTACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.09
26 19 0.54
27 13 0.37
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATTATTATTATTAGTACTATCTTC
Found at i:18802527 original size:3 final size:3
Alignment explanation
Indices: 18802521--18802569 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
18802511 CATTATTAGC
18802521 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18802569 T
1 T
18802570 AATACTTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18803181 original size:26 final size:26
Alignment explanation
Indices: 18803120--18803187 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
18803110 TTAAATTAAT
* *
18803120 TAATTATTATTATT-TTATTATCTTC
1 TAATTATTATTATTAGTACTATCTTC
*
18803145 TAATTTTTTATTATTAGTACTAT-TTC
1 TAA-TTATTATTATTAGTACTATCTTC
18803171 ATAATTATTATATATTA
1 -TAATTATTAT-TATTA
18803188 CTATTACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 3 0.09
26 19 0.54
27 13 0.37
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATTATTATTATTAGTACTATCTTC
Found at i:18803203 original size:807 final size:799
Alignment explanation
Indices: 18801154--18803549 Score: 4114
Period size: 809 Copynumber: 3.0 Consensus size: 799
18801144 TAAAACAACG
* * *
18801154 TCGCTTTGCCCTTGACCCGTCTGACGCGACCCGCTCCAACCTAGGATCTGCGTGTTTTTAATTGG
1 TCGCTTTGCCCTTAACCCGTCTGACCCGACCCGCTCCAACCTAGGATCCGCGTGTTTTTAATTGG
18801219 AAGGGCTAATTGCGCATTTAGCCCTTCCGCTTTTTATAGCTTTGTAATTAAAACTTTCGTTATTT
66 AAGGGCTAATTGCGCATTTAGCCCTTCCGCTTTTTATAGCTTTGTAATTAAAACTTTCGTTATTT
* * *
18801284 TTAATTTGGCCCTATGATTTATTTCAATTGCATTTTGGTCCTCTCTAATGCTGTGCGTTTTGGTG
131 TTGATTTGGCCCTATGATTTATTTCGATTGCATTTTGGTCCTCTCTAATGCTGTGCGTTTTGGAG
18801349 GAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGTGCATGCAAATTGGTCCTTTAACC
196 GAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGTGCATGCAAATTGGTCCTTTAACC
*
18801414 TTATTTTTATTTCGGATTAGCCCTAAAACTCTATTTTAAGTTCAATTTAATCTTTTTTCGTTATT
261 TTATTTTTATTTCGGATTAGCCCTAAAACTCTATTTTAAGTTCGATTTAATCTTTTTTCGTTA-T
18801479 TTTTTCTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATTTTTTATTA
325 TTTTTCTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATTTTTTATTA
18801544 TTAGTACTATTTCATAATTATTATATATTACTATTACATTCATTTTTTTATATTCTTTTTATTAA
390 TTAGTACTATTTCATAATTATTATATATTACTATTACATTCATTTTTTTATATTCTTTTTATTAA
*
18801609 TATTATTTCCACTATTATTATTA-TTTTTTATACTATAATTATATTTACTTTTATGGTTACCATT
455 TATTATTTCCACTATTATTATTATTTTTTTATACTATAATTATATTTACTTTTATGGTTATCATT
18801673 ATTTTTATTATTATTTCTTTATATCTTTGTCATTATTA--TTATTATTATTATTATTATTATTAT
520 ATTTTTATTATTATTTCTTTATATCTTTGTCATTATTAGCTTATTATTATTATTATTATTATTAT
*
18801736 TATTATTATTA-TA-ATACTTTCTTTTTTTTTACTTACTATATTTGTCTTATTATCATATTAATT
585 TATTATTATTATTATATACTTTCTTTTTTTTTACTTACTATATTTGTTTTATTATCATATTAATT
18801799 ATTTTTGCAATATTATTACTGCTATTATTCTATATATATATATATATTTATAATAAGTTTTTCAT
650 ATTTTTGCAATATTATTACTGCTATTATTC-----ATATATATATATTTATAATAAGTTTTTCAT
18801864 TTCATGTATAGCATTTTAGAATTATATTATTTTGTATATTACTTC-AAAACAGTTTTATATATTA
710 TTCATGTATAGCATTTTAGAATTATATTATTTTGTATATTACTTCTAAAA-AGTTTTATATATTA
18801928 TTTTATCTTGAATGGATACTAGTTTT
774 TTTTATCTTGAATGGATACTAGTTTT
*
18801954 TCGCTTTGCCCTTGACCCGTCTGACCCGTTTGACCCGACCCGCTCCAACCTAGGATCCGCGTGTT
1 TCGCTTTGCCCTT-A--------ACCCGTCTGACCCGACCCGCTCCAACCTAGGATCCGCGTGTT
18802019 TTTAATTGGAAGGGCTAATTGCGCATTTAGCCCTTCCGCTTTTTATAGCTTTGTAATTAAAACTT
57 TTTAATTGGAAGGGCTAATTGCGCATTTAGCCCTTCCGCTTTTTATAGCTTTGTAATTAAAACTT
18802084 TCGTTATTTTTGATTTGGCCCTATGATTTATTTCGATTGCATTTTGGTCCTCTCTAATGCTGTGC
122 TCGTTATTTTTGATTTGGCCCTATGATTTATTTCGATTGCATTTTGGTCCTCTCTAATGCTGTGC
18802149 GTTTTGGAGGAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGTGCATGCAAATTGGT
187 GTTTTGGAGGAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGTGCATGCAAATTGGT
18802214 CCTTTAACCTTATTTTTATTTCGGATTAGCCCTAAAACTCTATTTTAAGTTCGATTTAATC-TTT
252 CCTTTAACCTTATTTTTATTTCGGATTAGCCCTAAAACTCTATTTTAAGTTCGATTTAATCTTTT
18802278 TTCGTTATTTTTTCTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATT
317 TTCGTTATTTTTTCTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATT
18802343 TTTTATTATTAGTACTATTTCATAATTATTATATATTACTATTACATTCATTTTTTTATATTCTT
382 TTTTATTATTAGTACTATTTCATAATTATTATATATTACTATTACATTCATTTTTTTATATTCTT
18802408 TTTATTAATATTATTTCCACTATTATTATTATTTTTTTATACTATAATTATATTTACTTTTATGG
447 TTTATTAATATTATTTCCACTATTATTATTATTTTTTTATACTATAATTATATTTACTTTTATGG
18802473 TTATCATTATTTTTATTATTATTTCTTTATATCTTTGTCATTATTAGCTTATTATTATTATTATT
512 TTATCATTATTTTTATTATTATTTCTTTATATCTTTGTCATTATTAGCTTATTATTATTATTATT
*
18802538 ATTATTATTATTATTATTATTATTATTATTATAATACTTTCTTTTTTTACTTACTATATTTGTTT
577 ATTATTATTATTATTATTATTA-TA-TACT-T--T-C-TT-TTTTTTTACTTACTATATTTGTTT
18802603 TATTATCATATTAATTATTTTTGCAATATTATTACTGCTATTATTC-TATATATATATTTATAAT
634 TATTATCATATTAATTATTTTTGCAATATTATTACTGCTATTATTCATATATATATATTTATAAT
18802667 AAGTTTTTCATTTCATGTATAGCATTTTAGAATTATATTATTTTGTATATTACTTCTAAAAAGTT
699 AAGTTTTTCATTTCATGTATAGCATTTTAGAATTATATTATTTTGTATATTACTTCTAAAAAGTT
*
18802732 TTATATATTATTTTATCTTGAATGGATACTAATTTT
764 TTATATATTATTTTATCTTGAATGGATACTAGTTTT
* * *
18802768 TCGCTTTGCCCTTAACCTGTCTGACCCGACCCGCTCCAACCTCGGATCCGCATGTTTTTAATTGG
1 TCGCTTTGCCCTTAACCCGTCTGACCCGACCCGCTCCAACCTAGGATCCGCGTGTTTTTAATTGG
* * *
18802833 AAGGGCTAATTGCGCATTTAGCCATTTCGCTTTTTATAGCTTTGTAATTAAAACTTTCATTATTT
66 AAGGGCTAATTGCGCATTTAGCCCTTCCGCTTTTTATAGCTTTGTAATTAAAACTTTCGTTATTT
18802898 TTGATTTGGCCCTATGATTTATTTCGATTGCATTTTGGTCCTCTCTAATGCTGTGCGTTTTGGAG
131 TTGATTTGGCCCTATGATTTATTTCGATTGCATTTTGGTCCTCTCTAATGCTGTGCGTTTTGGAG
*
18802963 GAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGCGCATGCAAATTGGTCCTTTAACC
196 GAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGTGCATGCAAATTGGTCCTTTAACC
* * *
18803028 TTATTTTTATTACAGATTAGCCCTAAAACTCTATTTTAAGTTCGATTTAATCTTTTTTTGTTATT
261 TTATTTTTATTTCGGATTAGCCCTAAAACTCTATTTTAAGTTCGATTTAATCTTTTTTCGTTATT
18803093 TTTTGCTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATTTTTTATTA
326 TTTT-CTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATTTTTTATTA
18803158 TTAGTACTATTTCATAATTATTATATATTACTATTACATTCA-TTTTTTATATTCTTTTTATTAA
390 TTAGTACTATTTCATAATTATTATATATTACTATTACATTCATTTTTTTATATTCTTTTTATTAA
*
18803222 TATTATTACCACTATTATTATTATTTTTTTATACTATAATTATATTTACTTTTATGGTTATCATT
455 TATTATTTCCACTATTATTATTATTTTTTTATACTATAATTATATTTACTTTTATGGTTATCATT
18803287 ATTTTTATTATTATTTCTTTATATCTTTGTCATTATTAGC------------------TTATTAT
520 ATTTTTATTATTATTTCTTTATATCTTTGTCATTATTAGCTTATTATTATTATTATTATTATTAT
*
18803334 TATTATTATTA-T-CATACTTTC-TTTTTTTTACTTACTATATTTGTTTTATTATCATATTAATT
585 TATTATTATTATTATATACTTTCTTTTTTTTTACTTACTATATTTGTTTTATTATCATATTAATT
18803396 ATTTTTGCAATATTATTACTGCTATTATTCTATATATATATATATTTATAATAAGTTTTTCATTT
650 ATTTTTGCAATATTATTACTGCTATTATTC---ATATATATATATTTATAATAAGTTTTTCATTT
18803461 CATGTATAGCATTTTAGAATTATATTATTTTGTATATTACTTCTAAAAAGTTTTATATATTATTT
712 CATGTATAGCATTTTAGAATTATATTATTTTGTATATTACTTCTAAAAAGTTTTATATATTATTT
18803526 TATCTTGAATGGATACTAGTTTT
777 TATCTTGAATGGATACTAGTTTT
18803549 T
1 T
18803550 TTTTTAAAAA
Statistics
Matches: 1540, Mismatches: 27, Indels: 77
0.94 0.02 0.05
Matches are distributed among these distances:
777 70 0.05
778 1 0.00
780 1 0.00
781 120 0.08
783 1 0.00
784 3 0.00
785 1 0.00
787 1 0.00
788 18 0.01
800 13 0.01
805 288 0.19
806 141 0.09
807 256 0.17
808 88 0.06
809 291 0.19
810 36 0.02
811 2 0.00
813 2 0.00
814 129 0.08
815 5 0.00
817 1 0.00
818 1 0.00
819 2 0.00
820 69 0.04
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.52
Consensus pattern (799 bp):
TCGCTTTGCCCTTAACCCGTCTGACCCGACCCGCTCCAACCTAGGATCCGCGTGTTTTTAATTGG
AAGGGCTAATTGCGCATTTAGCCCTTCCGCTTTTTATAGCTTTGTAATTAAAACTTTCGTTATTT
TTGATTTGGCCCTATGATTTATTTCGATTGCATTTTGGTCCTCTCTAATGCTGTGCGTTTTGGAG
GAGAAGGGATTATTACCCTTTTGGTCCCTCCTTGTTATTCGTGCATGCAAATTGGTCCTTTAACC
TTATTTTTATTTCGGATTAGCCCTAAAACTCTATTTTAAGTTCGATTTAATCTTTTTTCGTTATT
TTTTCTATTTTATTTTTTAAATTAATTAATTATTATTATTTTATTATCTTCTAATTTTTTATTAT
TAGTACTATTTCATAATTATTATATATTACTATTACATTCATTTTTTTATATTCTTTTTATTAAT
ATTATTTCCACTATTATTATTATTTTTTTATACTATAATTATATTTACTTTTATGGTTATCATTA
TTTTTATTATTATTTCTTTATATCTTTGTCATTATTAGCTTATTATTATTATTATTATTATTATT
ATTATTATTATTATATACTTTCTTTTTTTTTACTTACTATATTTGTTTTATTATCATATTAATTA
TTTTTGCAATATTATTACTGCTATTATTCATATATATATATTTATAATAAGTTTTTCATTTCATG
TATAGCATTTTAGAATTATATTATTTTGTATATTACTTCTAAAAAGTTTTATATATTATTTTATC
TTGAATGGATACTAGTTTT
Found at i:18805491 original size:46 final size:46
Alignment explanation
Indices: 18805424--18805643 Score: 232
Period size: 46 Copynumber: 4.8 Consensus size: 46
18805414 TAACCCGCCT
* *
18805424 ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* *
18805470 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGCCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCGCATCC
* * * ** *
18805519 -TCA-TGAACTCGTACTCAACTCAACGAGTTCAAACGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* * **
18805563 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
18805609 ATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
18805644 TGCCCAAATA
Statistics
Matches: 147, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 2 0.01
46 101 0.69
47 26 0.18
48 2 0.01
49 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:18809427 original size:41 final size:41
Alignment explanation
Indices: 18809368--18809472 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
18809358 AGATTAATGA
* *
18809368 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTA-CCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
*
18809408 CTGAATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCT
1 -TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
* *
18809450 TGAATTACACATACATGCCCCTG
1 TGAATTGCACATACGTGCCCCTG
18809473 ATTATACTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 54 0.95
42 3 0.05
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
Found at i:18809637 original size:202 final size:203
Alignment explanation
Indices: 18809281--18809683 Score: 718
Period size: 202 Copynumber: 2.0 Consensus size: 203
18809271 TTGAGGTAAA
* *
18809281 TTCGTAGTTTTTTTAATACGTAACAAACTTTTATTTGCGCACTTGTACTATGATGTTTTAATTAT
1 TTCGTAGTTGTTTTAATACGTAACAAACTTTTATTTGCGCACTTGTACTATGATGCTTTAATTAT
*
18809346 TAATTTTTTAGAAGATTAATGATGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCTCTG
66 TAATTTTTTAGAAGATTAATGATGAATTGCACATATGTGCCCCTGTTTGTACTTCAGTACCTCTG
18809411 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCTTGAATTACACATACATGCCCCTGATT
131 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCTTGAATTACACATACATGCCCCTGATT
18809476 ATACTAAG
196 ATACTAAG
* * *
18809484 TTCGTAG-TGTTTTAATAGGTAACAAATTTTTATTTGTGCACTTGTACTATGATGCTTTAATTAT
1 TTCGTAGTTGTTTTAATACGTAACAAACTTTTATTTGCGCACTTGTACTATGATGCTTTAATTAT
*
18809548 TAATTTTTTAGAAGATTAATGATGAATTGCGCATATGTGCCCCTGTTTGTACTTCAGTACCTCTG
66 TAATTTTTTAGAAGATTAATGATGAATTGCACATATGTGCCCCTGTTTGTACTTCAGTACCTCTG
* *
18809613 AATTGCACATACGTGCCCTTGTTTGTTCTTCGATACCCTTGAATTGCACATACATGCCCCTGATT
131 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCTTGAATTACACATACATGCCCCTGATT
18809678 ATACTA
196 ATACTA
18809684 CGGTACCCCT
Statistics
Matches: 191, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
202 184 0.96
203 7 0.04
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (203 bp):
TTCGTAGTTGTTTTAATACGTAACAAACTTTTATTTGCGCACTTGTACTATGATGCTTTAATTAT
TAATTTTTTAGAAGATTAATGATGAATTGCACATATGTGCCCCTGTTTGTACTTCAGTACCTCTG
AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCTTGAATTACACATACATGCCCCTGATT
ATACTAAG
Found at i:18809691 original size:41 final size:42
Alignment explanation
Indices: 18809570--18809691 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 42
18809560 AGATTAATGA
* * *
18809570 TGAATTGCGCATATGTGCCCCTGTTTGTACTTCAGTA-CCTC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTC
* * *
18809611 TGAATTGCACATACGTGCCCTTGTTTGTTCTTCGATACCCT-
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTC
* * * *
18809652 TGAATTGCACATACATGCCCCTGATTATACTACGGTACCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
18809692 CTGGATATAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 64 0.96
42 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (42 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTC
Found at i:18815198 original size:64 final size:64
Alignment explanation
Indices: 18815048--18815178 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 64
18815038 AGTCAGTCGT
* *
18815048 AGTCATAGTCTACGAAATTCTCATGGGTACAAGTACCTTCCAGTCAGATAGTACAATTACATTC
1 AGTCACAGTCTACGAAATTCTCATGGGTACAAGTACCTTCCAGTCAGATAGTACAATCACATTC
*
18815112 AGTCACAGTCTACGAAATTCTCATGGGTACAAGTGCCTTCCAGTCAGATAGTACAATCACATTC
1 AGTCACAGTCTACGAAATTCTCATGGGTACAAGTACCTTCCAGTCAGATAGTACAATCACATTC
18815176 AGT
1 AGT
18815179 GACAATGTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (64 bp):
AGTCACAGTCTACGAAATTCTCATGGGTACAAGTACCTTCCAGTCAGATAGTACAATCACATTC
Found at i:18819016 original size:18 final size:18
Alignment explanation
Indices: 18818973--18819017 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
18818963 GGCCTATTAC
*
18818973 AGTAACAATAAATAGTGT
1 AGTAACAGTAAATAGTGT
18818991 AGTAACAGT-AATCAGTGT
1 AGTAACAGTAAAT-AGTGT
18819009 AGTAACAGT
1 AGTAACAGT
18819018 TTAAACAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (18 bp):
AGTAACAGTAAATAGTGT
Found at i:18819391 original size:27 final size:27
Alignment explanation
Indices: 18819349--18819510 Score: 227
Period size: 27 Copynumber: 6.0 Consensus size: 27
18819339 TCACATAGGA
* *
18819349 AAAACAGTCATCTTACCATATAAGAGC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
18819376 AAAATAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
18819403 AAAACAGTCATTTTACCATATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
18819430 AAAATAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCATATAAGGGC
* *
18819457 AAAAACAGCCATTTTACCATATAAGGAC
1 -AAAACAGTCATTTTACCATATAAGGGC
18819485 AAAACAGTCATTTTACCA-ATTAAGGG
1 AAAACAGTCATTTTACCATA-TAAGGG
18819511 TCTAGGTACG
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 95 0.80
28 23 0.19
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAACAGTCATTTTACCATATAAGGGC
Found at i:18819488 original size:55 final size:55
Alignment explanation
Indices: 18819348--18819510 Score: 251
Period size: 54 Copynumber: 3.0 Consensus size: 55
18819338 ATCACATAGG
*
18819348 AAAAACAGTCATCTTACCATATAA-GAGCAAAATAGTCATTTTACCACATAAGGGC
1 AAAAACAGTCATTTTACCATATAAGGA-CAAAATAGTCATTTTACCACATAAGGGC
*
18819403 -AAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTACCACATAAGGGC
1 AAAAACAGTCATTTTACCATATAAGGACAAAATAGTCATTTTACCACATAAGGGC
* *
18819457 AAAAACAGCCATTTTACCATATAAGGACAAAACAGTCATTTTACCA-ATTAAGGG
1 AAAAACAGTCATTTTACCATATAAGGACAAAATAGTCATTTTACCACA-TAAGGG
18819511 TCTAGGTACG
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
54 51 0.51
55 49 0.49
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (55 bp):
AAAAACAGTCATTTTACCATATAAGGACAAAATAGTCATTTTACCACATAAGGGC
Found at i:18831689 original size:49 final size:50
Alignment explanation
Indices: 18831511--18831707 Score: 200
Period size: 50 Copynumber: 3.9 Consensus size: 50
18831501 TTTTATTGTG
*** *
18831511 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * * * * **
18831562 CGATCACGTATGTAATACTAAGTGCAGGTTACTACGTGTATCAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
18831612 AGGTC-AAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCGCA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
18831662 -GGTCGCATGTTTAGTACTAAGTGCAGGCTACTATGGGTACCAGATA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
18831708 GCTTTGGCTA
Statistics
Matches: 116, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 40 0.34
50 42 0.36
51 34 0.29
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:18835478 original size:20 final size:20
Alignment explanation
Indices: 18835453--18835500 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
18835443 TATCATTGGC
** *
18835453 TATAATATTATTTGAATAGT
1 TATAATATTAAATGAATAAT
18835473 TATAATATTAAATGAATAAT
1 TATAATATTAAATGAATAAT
18835493 TAT-ATATT
1 TATAATATT
18835501 TTTAAGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (20 bp):
TATAATATTAAATGAATAAT
Found at i:18838523 original size:6 final size:7
Alignment explanation
Indices: 18838507--18838532 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18838497 GCAAATTTGC
18838507 AAAATTA
1 AAAATTA
18838514 AAAATTA
1 AAAATTA
18838521 AAAATTA
1 AAAATTA
18838528 AAAAT
1 AAAAT
18838533 ACTGTGAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:18839983 original size:30 final size:31
Alignment explanation
Indices: 18839947--18840005 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
18839937 TTTATATATC
18839947 AATTTTGATTTTG-TATAA-TTTTATAAATAA
1 AATTTTGA-TTTGATATAATTTTTATAAATAA
*
18839977 AATTTTGATTTGATCTAATTTTTATAAAT
1 AATTTTGATTTGATATAATTTTTATAAAT
18840006 TGTTAACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 12 0.46
31 10 0.38
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (31 bp):
AATTTTGATTTGATATAATTTTTATAAATAA
Found at i:18843837 original size:16 final size:16
Alignment explanation
Indices: 18843790--18843837 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18843780 TTTTAAAATT
*
18843790 ATAAATAATATAATGG
1 ATAAATAATATAATAG
*
18843806 AT-AAT-ATA-AA-AC
1 ATAAATAATATAATAG
18843818 ATAAATAATATAATAG
1 ATAAATAATATAATAG
18843834 ATAA
1 ATAA
18843838 TATATGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
12 2 0.08
13 5 0.20
14 6 0.24
15 5 0.20
16 7 0.28
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAAATAATATAATAG
Found at i:18843849 original size:28 final size:28
Alignment explanation
Indices: 18843783--18843841 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
18843773 TTACAAATTT
*
18843783 TAAAATTATAAATAATATAATGGATAATA
1 TAAAA-TATAAATAATATAATAGATAATA
*
18843812 TAAAACATAAATAATATAATAGATAATA
1 TAAAATATAAATAATATAATAGATAATA
18843840 TA
1 TA
18843842 TGATATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
TAAAATATAAATAATATAATAGATAATA
Found at i:18843881 original size:23 final size:22
Alignment explanation
Indices: 18843846--18843906 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
18843836 AATATATGAT
*
18843846 ATAACATATAATATAAAA-AAA
1 ATAAAATATAATATAAAATAAA
* *
18843867 AGGTAATATATAATA-AAAATATA
1 A--TAAAATATAATATAAAATAAA
18843890 ATAAAATATAATATAAA
1 ATAAAATATAATATAAA
18843907 TATATGTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 12 0.36
22 7 0.21
23 14 0.42
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (22 bp):
ATAAAATATAATATAAAATAAA
Found at i:18843890 original size:11 final size:11
Alignment explanation
Indices: 18843874--18843910 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
18843864 AAAAGGTAAT
18843874 ATATAATAAAA
1 ATATAATAAAA
18843885 ATATAAT-AAA
1 ATATAATAAAA
*
18843895 ATATAATATAA
1 ATATAATAAAA
18843906 ATATA
1 ATATA
18843911 TGTGATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:18853533 original size:369 final size:369
Alignment explanation
Indices: 18852854--18853592 Score: 1460
Period size: 369 Copynumber: 2.0 Consensus size: 369
18852844 TTTTCTAATA
*
18852854 GTGGTGGTTATACTTGCATTGCCACCTCCCTCTATCGTTGTGCATATTGCCTAAAACTTTCATTA
1 GTGGTGGTTATACTTGCATTGCCACCTCCCTCTATCGTTGTGCATAGTGCCTAAAACTTTCATTA
18852919 GGCTTTTTCTCCATGTTTTGAAGTGTGATCCTGTCTGGCATCATATCAGTCACATGGTTATACTG
66 GGCTTTTTCTCCATGTTTTGAAGTGTGATCCTGTCTGGCATCATATCAGTCACATGGTTATACTG
18852984 TTGCATGAAGGCTTGCGCTAGATCTCTCCATGAATCGATTCTTGCGGGGCTCAACTGATTGTACC
131 TTGCATGAAGGCTTGCGCTAGATCTCTCCATGAATCGATTCTTGCGGGGCTCAACTGATTGTACC
18853049 ATCTAGCCGCTGCTCCCACTAAGCTGTCTTGAAAACAATGGATCAATAATTGATTATTGTTCACA
196 ATCTAGCCGCTGCTCCCACTAAGCTGTCTTGAAAACAATGGATCAATAATTGATTATTGTTCACA
18853114 TGCCCAGTCATTCTCCTACAAAATAATGTTATGTGTGCCTCTGGGCAAGTAGTCCCGTTGTACTT
261 TGCCCAGTCATTCTCCTACAAAATAATGTTATGTGTGCCTCTGGGCAAGTAGTCCCGTTGTACTT
18853179 TTCAAACTCTGGCATCTTAAATTTATGAGGAAGCACTAAATCTG
326 TTCAAACTCTGGCATCTTAAATTTATGAGGAAGCACTAAATCTG
18853223 GTGGTGGTTATACTTGCATTGCCACCTCCCTCTATCGTTGTGCATAGTGCCTAAAACTTTCATTA
1 GTGGTGGTTATACTTGCATTGCCACCTCCCTCTATCGTTGTGCATAGTGCCTAAAACTTTCATTA
*
18853288 GGCTTTTTCTCCATGTTTTGAAGTGTGATCCTGTCTGGCATCATATCAGTCACATGGTTGTACTG
66 GGCTTTTTCTCCATGTTTTGAAGTGTGATCCTGTCTGGCATCATATCAGTCACATGGTTATACTG
18853353 TTGCATGAAGGCTTGCGCTAGATCTCTCCATGAATCGATTCTTGCGGGGCTCAACTGATTGTACC
131 TTGCATGAAGGCTTGCGCTAGATCTCTCCATGAATCGATTCTTGCGGGGCTCAACTGATTGTACC
18853418 ATCTAGCCGCTGCTCCCACTAAGCTGTCTTGAAAACAATGGATCAATAATTGATTATTGTTCACA
196 ATCTAGCCGCTGCTCCCACTAAGCTGTCTTGAAAACAATGGATCAATAATTGATTATTGTTCACA
18853483 TGCCCAGTCATTCTCCTACAAAATAATGTTATGTGTGCCTCTGGGCAAGTAGTCCCGTTGTACTT
261 TGCCCAGTCATTCTCCTACAAAATAATGTTATGTGTGCCTCTGGGCAAGTAGTCCCGTTGTACTT
18853548 TTCAAACTCTGGCATCTTAAATTTATGAGGAAGCACTAAATCTG
326 TTCAAACTCTGGCATCTTAAATTTATGAGGAAGCACTAAATCTG
18853592 G
1 G
18853593 GACCAAACTT
Statistics
Matches: 368, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
369 368 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (369 bp):
GTGGTGGTTATACTTGCATTGCCACCTCCCTCTATCGTTGTGCATAGTGCCTAAAACTTTCATTA
GGCTTTTTCTCCATGTTTTGAAGTGTGATCCTGTCTGGCATCATATCAGTCACATGGTTATACTG
TTGCATGAAGGCTTGCGCTAGATCTCTCCATGAATCGATTCTTGCGGGGCTCAACTGATTGTACC
ATCTAGCCGCTGCTCCCACTAAGCTGTCTTGAAAACAATGGATCAATAATTGATTATTGTTCACA
TGCCCAGTCATTCTCCTACAAAATAATGTTATGTGTGCCTCTGGGCAAGTAGTCCCGTTGTACTT
TTCAAACTCTGGCATCTTAAATTTATGAGGAAGCACTAAATCTG
Found at i:18854262 original size:14 final size:16
Alignment explanation
Indices: 18854231--18854263 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
18854221 CGATGCGATG
18854231 AAATGCTATGATATGC
1 AAATGCTATGATATGC
18854247 AAATGC-ATGA-ATGC
1 AAATGCTATGATATGC
18854261 AAA
1 AAA
18854264 AGGATATCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AAATGCTATGATATGC
Found at i:18854306 original size:14 final size:14
Alignment explanation
Indices: 18854283--18854312 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18854273 ATTCTGGTTC
18854283 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
18854297 AACTTTATTTAGAA
1 AACTTCATTTAGAA
18854311 AA
1 AA
18854313 ATAATATATT
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:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:18858251 original size:16 final size:16
Alignment explanation
Indices: 18858204--18858251 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18858194 TTTTAAAATT
*
18858204 ATAAATAATATAATGG
1 ATAAATAATATAATAG
*
18858220 AT-AAT-ATA-AA-AC
1 ATAAATAATATAATAG
18858232 ATAAATAATATAATAG
1 ATAAATAATATAATAG
18858248 ATAA
1 ATAA
18858252 TATATGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
12 2 0.08
13 5 0.20
14 6 0.24
15 5 0.20
16 7 0.28
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAAATAATATAATAG
Found at i:18858263 original size:28 final size:28
Alignment explanation
Indices: 18858197--18858255 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
18858187 TTACAAATTT
*
18858197 TAAAATTATAAATAATATAATGGATAATA
1 TAAAA-TATAAATAATATAATAGATAATA
*
18858226 TAAAACATAAATAATATAATAGATAATA
1 TAAAATATAAATAATATAATAGATAATA
18858254 TA
1 TA
18858256 TGATATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (28 bp):
TAAAATATAAATAATATAATAGATAATA
Found at i:18861041 original size:19 final size:18
Alignment explanation
Indices: 18860989--18861041 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
18860979 CTCTCTCAAT
18860989 AAAAATTATAAAAAATTCA
1 AAAAATTAT-AAAAATTCA
** *
18861008 AAACAAACATTAAAATTCA
1 AAA-AATTATAAAAATTCA
18861027 AAAAATTTATAAAAA
1 AAAAA-TTATAAAAA
18861042 ATTTCAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 4 0.15
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATTATAAAAATTCA
Found at i:18861525 original size:21 final size:21
Alignment explanation
Indices: 18861501--18861540 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18861491 TTTTAAAGCG
*
18861501 TTTGTTCTTTTTCTTCTTCCA
1 TTTGTTCCTTTTCTTCTTCCA
18861522 TTTGTTCCTTTTCTTCTTC
1 TTTGTTCCTTTTCTTCTTC
18861541 TTCTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.25, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTGTTCCTTTTCTTCTTCCA
Found at i:18861552 original size:27 final size:26
Alignment explanation
Indices: 18861509--18861570 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
18861499 CGTTTGTTCT
*
18861509 TTTTCTTCTTCCATTTGTTCCTTTTC
1 TTTTCTTCTTCCATTTGCTCCTTTTC
** *
18861535 TTCTTCTTCTTCTTTTTGCTCTTTTTC
1 TT-TTCTTCTTCCATTTGCTCCTTTTC
18861562 TTTT-TTCTT
1 TTTTCTTCTT
18861571 TCTAATAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 4 0.13
27 22 0.71
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTTCTTCTTCCATTTGCTCCTTTTC
Found at i:18863049 original size:5 final size:5
Alignment explanation
Indices: 18863029--18863079 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
18863019 GTATTTATAC
18863029 ATATT AT-TT CATATT ATATT ATATT ATATT AGT-TT ATATT AGT-TT
1 ATATT ATATT -ATATT ATATT ATATT ATATT A-TATT ATATT A-TATT
18863074 ATATT A
1 ATATT A
18863080 GTTTAATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:18863080 original size:10 final size:10
Alignment explanation
Indices: 18863042--18863084 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
18863032 TTATTTCATA
18863042 TTATATTA-T
1 TTATATTAGT
18863051 ATTATATTAGT
1 -TTATATTAGT
18863062 TTATATTAGT
1 TTATATTAGT
18863072 TTATATTAGT
1 TTATATTAGT
18863082 TTA
1 TTA
18863085 ATAATAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 31 0.97
11 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (10 bp):
TTATATTAGT
Found at i:18863166 original size:17 final size:17
Alignment explanation
Indices: 18863139--18863181 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18863129 GAAAAACAGA
*
18863139 AAAGAAAAAGAAGGAAAG
1 AAAG-AAAAGAAAGAAAG
18863157 AAAGAAAAGAAAGAAAG
1 AAAGAAAAGAAAGAAAG
*
18863174 AAGGAAAA
1 AAAGAAAA
18863182 ATTAGGGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAGAAAG
Found at i:18869180 original size:13 final size:13
Alignment explanation
Indices: 18869162--18869186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18869152 GATATTTCAG
18869162 TCATTCAGTTATT
1 TCATTCAGTTATT
18869175 TCATTCAGTTAT
1 TCATTCAGTTAT
18869187 GAGTTTAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (13 bp):
TCATTCAGTTATT
Found at i:18869346 original size:70 final size:70
Alignment explanation
Indices: 18869233--18869376 Score: 270
Period size: 70 Copynumber: 2.1 Consensus size: 70
18869223 CAGTCGTCTC
*
18869233 GGGCAACCTGTGCAACCTTAGCTACAAATCAGTGGAAATGAGCTCACACACCCATGTTGTATGCC
1 GGGCAACCTATGCAACCTTAGCTACAAATCAGTGGAAATGAGCTCACACACCCATGTTGTATGCC
18869298 TGTGT
66 TGTGT
*
18869303 GGGCAACCTATGCAACCTTAGCTACAAATCAGTGGAAATGAGCTCACACGCCCATGTTGTATGCC
1 GGGCAACCTATGCAACCTTAGCTACAAATCAGTGGAAATGAGCTCACACACCCATGTTGTATGCC
18869368 TGTGT
66 TGTGT
18869373 GGGC
1 GGGC
18869377 CCATAGGTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (70 bp):
GGGCAACCTATGCAACCTTAGCTACAAATCAGTGGAAATGAGCTCACACACCCATGTTGTATGCC
TGTGT
Found at i:18872053 original size:13 final size:13
Alignment explanation
Indices: 18872035--18872068 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18872025 TGGTTTAATC
*
18872035 AATTGATTTTATT
1 AATTGATTTGATT
18872048 AATTGATTTGATT
1 AATTGATTTGATT
18872061 AATT-ATTT
1 AATTGATTT
18872069 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (13 bp):
AATTGATTTGATT
Found at i:18877808 original size:22 final size:22
Alignment explanation
Indices: 18877781--18877833 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18877771 TCATGCATTT
*
18877781 TTTTTATTTGCTATTAT-TTAC
1 TTTTTATTTACTATTATCTTAC
* *
18877802 TTATTTATTTATTATTGTCTTAC
1 TT-TTTATTTACTATTATCTTAC
18877825 TTTTTATTT
1 TTTTTATTT
18877834 TAGAATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 19 0.70
23 6 0.22
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTATTTACTATTATCTTAC
Found at i:18878038 original size:3 final size:3
Alignment explanation
Indices: 18878032--18878057 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18878022 ACGATTTGAT
18878032 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
18878058 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18885639 original size:19 final size:20
Alignment explanation
Indices: 18885610--18885652 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
18885600 CTTTATTTGC
18885610 ATGATGTGCTTACCGATTGT
1 ATGATGTGCTTACCGATTGT
*
18885630 ATGA-GTGCTTACCGATTTT
1 ATGATGTGCTTACCGATTGT
18885649 ATGA
1 ATGA
18885653 CATATTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (20 bp):
ATGATGTGCTTACCGATTGT
Found at i:18886354 original size:21 final size:20
Alignment explanation
Indices: 18886339--18886376 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18886329 TCAATTTTCG
18886339 TAATTTTTT-TTACAATTTT
1 TAATTTTTTATTACAATTTT
*
18886358 TACTTTTTTATTACAATTT
1 TAATTTTTTATTACAATTT
18886377 ATATATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
TAATTTTTTATTACAATTTT
Found at i:18887550 original size:19 final size:19
Alignment explanation
Indices: 18887526--18887563 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18887516 TTTGGCTGTT
18887526 GGCCAACTAATGGCCGGCA
1 GGCCAACTAATGGCCGGCA
*
18887545 GGCCAACTGATGGCCGGCA
1 GGCCAACTAATGGCCGGCA
18887564 CCCACTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.34, T:0.11
Consensus pattern (19 bp):
GGCCAACTAATGGCCGGCA
Found at i:18887717 original size:54 final size:55
Alignment explanation
Indices: 18887650--18887785 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 55
18887640 TTTTTTTCGT
* ** * *
18887650 GTGCTGGGACACTGATGGTCGGCTTCCTTGTACCAGATTTGAGAAAAAAATTT-G
1 GTGCTGGGACACTGATGGCCGGCACCCTTGTACCAAATTTGAAAAAAAAATTTGG
*
18887704 GTGCTAGGACACTGATGGCCGGCACCCTTGTACCAAATTTGAAAAAAAAATTTGG
1 GTGCTGGGACACTGATGGCCGGCACCCTTGTACCAAATTTGAAAAAAAAATTTGG
*
18887759 GTGCTGGGACACTAATGGCCGGCACCC
1 GTGCTGGGACACTGATGGCCGGCACCC
18887786 ACTTAGTTGG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 47 0.64
55 26 0.36
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (55 bp):
GTGCTGGGACACTGATGGCCGGCACCCTTGTACCAAATTTGAAAAAAAAATTTGG
Found at i:18888291 original size:21 final size:21
Alignment explanation
Indices: 18888266--18888312 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18888256 TTTGTTGGTC
*
18888266 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTAAAT
18888287 AAATTTTATATTTTCGTAAAT
1 AAATTTTATATTTTCGTAAAT
18888308 AAATT
1 AAATT
18888313 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTTTATATTTTCGTAAAT
Found at i:18888401 original size:21 final size:21
Alignment explanation
Indices: 18888376--18888422 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
18888366 TTTGTTGGTC
* *
18888376 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCATAAAT
18888397 AAATTTTATATTTTCATAAAT
1 AAATTTTATATTTTCATAAAT
18888418 AAATT
1 AAATT
18888423 ATTCTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (21 bp):
AAATTTTATATTTTCATAAAT
Found at i:18888417 original size:110 final size:110
Alignment explanation
Indices: 18888179--18888534 Score: 608
Period size: 110 Copynumber: 3.2 Consensus size: 110
18888169 TTGTTAGCTG
18888179 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTT-ATATTATTTTGGGGTGCTGT-AAAA
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGA-ATTATTTTGGGGTGCTGTAAAAA
* *
18888242 TATTTTAATTCTTATTTGTTGGTCAAATTTTATATTTTCGTATATA
65 TATTTTAATCCGTATTTGTTGGTCAAATTTTATATTTTCGTATATA
* *
18888288 AATTTTATATTTTCGTAAATAAATTATTCTAAAATATTTGAATTATTTTGGGGTGCTGTAAAAAA
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
18888353 ATTTTAATCCGTATTTGTTGGTCAAATTTTATATTTTCGTATATA
66 ATTTTAATCCGTATTTGTTGGTCAAATTTTATATTTTCGTATATA
* * *
18888398 AATTTTATATTTTCATAAATAAATTATTCTAAAATGTTCGAATTATTTTGGGATGCTGTAAAAAT
1 AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
*
18888463 ATTTTAATCCGTATTTGTTGGTCGAATTTTATATTTTCGTATATA
66 ATTTTAATCCGTATTTGTTGGTCAAATTTTATATTTTCGTATATA
*
18888508 AATTTTATATTTTCGTATATAAATTAT
1 AATTTTATATTTTCGTAAATAAATTAT
18888535 ATATTTTTCA
Statistics
Matches: 233, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
109 56 0.24
110 177 0.76
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (110 bp):
AATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAAAT
ATTTTAATCCGTATTTGTTGGTCAAATTTTATATTTTCGTATATA
Found at i:18888512 original size:21 final size:21
Alignment explanation
Indices: 18888487--18888541 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
18888477 TTGTTGGTCG
18888487 AATTTTATATTTTCGTATATA
1 AATTTTATATTTTCGTATATA
18888508 AATTTTATATTTTCGTATATA
1 AATTTTATATTTTCGTATATA
*
18888529 AATTATATATTTT
1 AATTTTATATTTT
18888542 TCATAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
AATTTTATATTTTCGTATATA
Found at i:18891378 original size:19 final size:19
Alignment explanation
Indices: 18891350--18891401 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
18891340 AAAATTCAAT
*
18891350 TAATTTTTAATTTAAACTA
1 TAATTATTAATTTAAACTA
* *
18891369 TAATTATTAAGTTAAACTT
1 TAATTATTAATTTAAACTA
18891388 TAATTATTTAATTT
1 TAATTA-TTAATTT
18891402 TAAAATTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTATTAATTTAAACTA
Found at i:18891489 original size:90 final size:90
Alignment explanation
Indices: 18891328--18891491 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
18891318 TATTTCTATT
*
18891328 AATTAAAAATAAAAAATTCAATTAATTTTTAATTTAAACTATAATTATTAAGTTAAACTTTAATT
1 AATTAAAAATAAAAAATTCAATTAATTTTTAATTTAAACTATAATTATCAAGTTAAACTTTAATT
*
18891393 ATTTAATTTTAAAATTGATTTTTTA
66 AATTAATTTTAAAATTGATTTTTTA
* * * * * * * *
18891418 AATTAAAATTAAGAATTTCATTTCATTTTTAGTTTATACTTTAATTATCAAGTTAAACTTT-ATG
1 AATTAAAAATAAAAAATTCAATTAATTTTTAATTTAAACTATAATTATCAAGTTAAACTTTAAT-
18891482 TAATTAATTT
65 TAATTAATTT
18891492 ATTTACTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
89 2 0.03
90 61 0.97
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (90 bp):
AATTAAAAATAAAAAATTCAATTAATTTTTAATTTAAACTATAATTATCAAGTTAAACTTTAATT
AATTAATTTTAAAATTGATTTTTTA
Found at i:18891549 original size:13 final size:14
Alignment explanation
Indices: 18891531--18891559 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18891521 AATAATTGAA
18891531 TAATTTATTTA-TT
1 TAATTTATTTACTT
18891544 TAATTTATTTACTT
1 TAATTTATTTACTT
18891558 TA
1 TA
18891560 CACTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATTTATTTACTT
Found at i:18891586 original size:47 final size:47
Alignment explanation
Indices: 18891518--18891770 Score: 324
Period size: 47 Copynumber: 5.5 Consensus size: 47
18891508 TGTATTAAAT
*
18891518 TATAATAATTGAATAATTTATTTATTTAATTTATTTACTTTACACTA
1 TATAATAATTGAATAATTTATTTATTTAAATTATTTACTTTACACTA
* ** * *
18891565 TATAATAACTT-AACAATTTATTTATTTAAAACATTTATTTTGCACTA
1 TATAATAA-TTGAATAATTTATTTATTTAAATTATTTACTTTACACTA
18891612 TATAATAATTGAATAATTTATTTATTT--ATT-TTTACTTTACACTA
1 TATAATAATTGAATAATTTATTTATTTAAATTATTTACTTTACACTA
* ** *
18891656 TATAATAATTTAATAATTTATTTATTTAAAACATTTATTTTACACTA
1 TATAATAATTGAATAATTTATTTATTTAAATTATTTACTTTACACTA
* *
18891703 TATAATAACTT-AATAA-TT-TTT-TTTAATTTGTTTACTTTACACTA
1 TATAATAA-TTGAATAATTTATTTATTTAAATTATTTACTTTACACTA
18891747 TATAATAATTGAATAATTTATTTA
1 TATAATAATTGAATAATTTATTTA
18891771 ATAATTGGAT
Statistics
Matches: 176, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.01
44 69 0.39
45 6 0.03
46 8 0.05
47 87 0.49
48 4 0.02
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (47 bp):
TATAATAATTGAATAATTTATTTATTTAAATTATTTACTTTACACTA
Found at i:18891675 original size:91 final size:93
Alignment explanation
Indices: 18891518--18891770 Score: 399
Period size: 91 Copynumber: 2.8 Consensus size: 93
18891508 TGTATTAAAT
* *
18891518 TATAATAATTGAATAATTTATTTATTTAATTTATTTACTTTACACTATATAATAACTTAACAATT
1 TATAATAATTGAATAATTTATTTATTT-ATTTATTTACTTTACACTATATAATAATTTAATAATT
*
18891583 TATTTATTTAAAACATTTATTTTGCACTA
65 TATTTATTTAAAACATTTATTTTACACTA
18891612 TATAATAATTGAATAATTTATTTATTTA-TT-TTTACTTTACACTATATAATAATTTAATAATTT
1 TATAATAATTGAATAATTTATTTATTTATTTATTTACTTTACACTATATAATAATTTAATAATTT
18891675 ATTTATTTAAAACATTTATTTTACACTA
66 ATTTATTTAAAACATTTATTTTACACTA
* * *
18891703 TATAATAACTT-AATAATTT-TTT-TTAATTTGTTTACTTTACACTATATAATAATTGAATAATT
1 TATAATAA-TTGAATAATTTATTTATTTATTTATTTACTTTACACTATATAATAATTTAATAATT
18891765 TATTTA
65 TATTTA
18891771 ATAATTGGAT
Statistics
Matches: 151, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
89 3 0.02
90 5 0.03
91 111 0.74
92 4 0.03
93 1 0.01
94 27 0.18
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (93 bp):
TATAATAATTGAATAATTTATTTATTTATTTATTTACTTTACACTATATAATAATTTAATAATTT
ATTTATTTAAAACATTTATTTTACACTA
Found at i:18895604 original size:34 final size:34
Alignment explanation
Indices: 18895566--18895634 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
18895556 TGTTGAGAAA
18895566 TATACCCATATTGTAGTAAACATGTAATTATTTT
1 TATACCCATATTGTAGTAAACATGTAATTATTTT
18895600 TATACCCATATTGTAGTAAACATGTAATTATTTT
1 TATACCCATATTGTAGTAAACATGTAATTATTTT
18895634 T
1 T
18895635 CTATGTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (34 bp):
TATACCCATATTGTAGTAAACATGTAATTATTTT
Found at i:18903422 original size:15 final size:15
Alignment explanation
Indices: 18903419--18903455 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
18903409 AGAAAAAAAT
18903419 AAAAATAAAAAAGATA
1 AAAAAT-AAAAAGATA
*
18903435 AAAAATAAAAAGAAA
1 AAAAATAAAAAGATA
18903450 AAAAAT
1 AAAAAT
18903456 GGAGAGGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAGATA
Found at i:18903423 original size:16 final size:15
Alignment explanation
Indices: 18903411--18903455 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
18903401 AGCAAAAGAG
18903411 AAAAAAAT-AAAAAT
1 AAAAAAATAAAAAAT
18903425 AAAAAAGATAAAAAAT
1 AAAAAA-ATAAAAAAT
18903441 AAAAAGAA-AAAAAAT
1 AAAAA-AATAAAAAAT
18903456 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 12 0.43
17 1 0.04
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.11
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:18903423 original size:22 final size:23
Alignment explanation
Indices: 18903382--18903453 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 23
18903372 TCTATTTCAA
* *
18903382 AAAAAAAG-GAAAAAA-GAAAAG
1 AAAAAAAGATAAAAAATAAAAAG
* *
18903403 CAAAAGAGA-AAAAAATAAAAA-
1 AAAAAAAGATAAAAAATAAAAAG
*
18903424 TAAAAAAGATAAAAAATAAAAAG
1 AAAAAAAGATAAAAAATAAAAAG
18903447 AAAAAAA
1 AAAAAAA
18903454 ATGGAGAGGC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
21 19 0.46
22 16 0.39
23 6 0.15
ACGTcount: A:0.82, C:0.01, G:0.11, T:0.06
Consensus pattern (23 bp):
AAAAAAAGATAAAAAATAAAAAG
Found at i:18904461 original size:43 final size:43
Alignment explanation
Indices: 18904412--18904816 Score: 174
Period size: 43 Copynumber: 9.6 Consensus size: 43
18904402 CGCCTTAATC
*
18904412 CCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
* * * * * * ** *
18904455 TCCTAAGTAGTAGTGG-AGCAGATTGAA--GACTCACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTACAGATCTT-ATCT
*
18904496 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
* * ** * * * *
18904539 CCCTAAGCAGTAGTGG-AGCA-GATCGA-TGACTCG-CCTTAATCC
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTAC-AGATCTT-ATCT
* *
18904581 CCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
* * * * *
18904624 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-C-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTACAGATCTT-ATCT
**
18904665 CCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
* ** **
18904703 CCCTAAGCAGTAGCGG-AACA-GATCGA-CGAC-GACTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTACAGA-T---CTT-ATCT
* *
18904747 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGACCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
* *
18904790 CCCTAAGTAGTAGGGTAATAGGTTAAA
1 CCCTAAGCAGTAGGGTAACAGGTTAAA
18904817 ACCTTCATTT
Statistics
Matches: 263, Mismatches: 60, Indels: 78
0.66 0.15 0.19
Matches are distributed among these distances:
36 1 0.00
37 5 0.02
38 20 0.08
39 2 0.01
40 6 0.02
41 54 0.21
42 35 0.13
43 96 0.37
44 34 0.13
45 7 0.03
46 1 0.00
47 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCT
Found at i:18904622 original size:85 final size:84
Alignment explanation
Indices: 18904402--18904802 Score: 614
Period size: 84 Copynumber: 4.8 Consensus size: 84
18904392 CAAAATTCAG
* * * *
18904402 CGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTTCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
18904467 GTGGAGCAGATTGAAGACT
66 GTGGAGCAGATCGAAGACT
*
18904486 CACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
18904551 GTGGAGCAGATCGATGACT
66 GTGGAGCAGATCGAAGACT
*
18904570 CGCCTTAATCCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
1 CGCCTTAAT-CCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGT
18904635 AGTGGAGCAGATCGAAGACT
65 AGTGGAGCAGATCGAAGACT
*
18904655 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
18904715 GCGGAACAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* *
18904737 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGACCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
18904802 G
66 G
18904803 GGTAATAGGT
Statistics
Matches: 291, Mismatches: 17, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
79 39 0.13
81 1 0.00
82 36 0.12
84 107 0.37
85 82 0.28
87 26 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:18904767 original size:44 final size:42
Alignment explanation
Indices: 18904624--18904767 Score: 144
Period size: 38 Copynumber: 3.5 Consensus size: 42
18904614 GATCTTATCT
* *
18904624 CCCTAAGCAGTAGTGGAGCAGATCGA-AGACTCGCCTTAATC
1 CCCTAAGCAGTAGCGGAACAGATCGACAGACTCGCCTTAATC
*
18904665 CCCTAAGCAGTAG-GGTAACAGGTTCG-CAGA-T---CTT-ATC
1 CCCTAAGCAGTAGCGG-AACA-GATCGACAGACTCGCCTTAATC
18904702 TCCCTAAGCAGTAGCGGAACAGATCGACGACGACTCGCCTTAATC
1 -CCCTAAGCAGTAGCGGAACAGATCGAC-A-GACTCGCCTTAATC
18904747 CCCTAAGCAGTAG-GGTAACAG
1 CCCTAAGCAGTAGCGG-AACAG
18904768 GTTAAATTTG
Statistics
Matches: 86, Mismatches: 3, Indels: 25
0.75 0.03 0.22
Matches are distributed among these distances:
37 7 0.08
38 21 0.24
39 3 0.03
40 4 0.05
41 18 0.21
42 7 0.08
43 2 0.02
44 21 0.24
45 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.19
Consensus pattern (42 bp):
CCCTAAGCAGTAGCGGAACAGATCGACAGACTCGCCTTAATC
Found at i:18905391 original size:19 final size:18
Alignment explanation
Indices: 18905359--18905410 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 18
18905349 ATGGAAATAT
18905359 AATCTTA-AATGATATGC
1 AATCTTAGAATGATATGC
18905376 AATCTTAGATATGATATGC
1 AATCTTAGA-ATGATATGC
18905395 AATCTTAGAA-GATATG
1 AATCTTAGAATGATATG
18905411 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.39
18 2 0.06
19 18 0.55
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCTTAGAATGATATGC
Found at i:18905429 original size:22 final size:22
Alignment explanation
Indices: 18905367--18905426 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
18905357 ATAATCTTAA
18905367 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
18905386 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
18905408 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
18905427 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:18905715 original size:17 final size:17
Alignment explanation
Indices: 18905690--18905725 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18905680 ATGTTTCCCG
*
18905690 AATTTTTTTATATATTTT
1 AATTTTTTAATA-ATTTT
18905708 AATTTTTTAATAATTTT
1 AATTTTTTAATAATTTT
18905725 A
1 A
18905726 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTTTAATAATTTT
Found at i:18909028 original size:8 final size:8
Alignment explanation
Indices: 18909012--18909054 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
18909002 AGTCCCTATT
18909012 TCACAAAA
1 TCACAAAA
*
18909020 TCTCAAAA
1 TCACAAAA
18909028 TTCACAAAA
1 -TCACAAAA
18909037 TCACAAAA
1 TCACAAAA
18909045 TTCACAAAA
1 -TCACAAAA
18909054 T
1 T
18909055 TTGCATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 16 0.52
9 15 0.48
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (8 bp):
TCACAAAA
Found at i:18909033 original size:17 final size:17
Alignment explanation
Indices: 18909011--18909054 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
18909001 TAGTCCCTAT
*
18909011 TTCACAAAATCTCAAAA
1 TTCACAAAATCACAAAA
18909028 TTCACAAAATCACAAAA
1 TTCACAAAATCACAAAA
18909045 TTCACAAAAT
1 TTCACAAAAT
18909055 TTGCATATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.23
Consensus pattern (17 bp):
TTCACAAAATCACAAAA
Found at i:18909037 original size:9 final size:9
Alignment explanation
Indices: 18909011--18909055 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
18909001 TAGTCCCTAT
18909011 TTCACAAAA
1 TTCACAAAA
*
18909020 -TCTCAAAA
1 TTCACAAAA
18909028 TTCACAAAA
1 TTCACAAAA
18909037 -TCACAAAA
1 TTCACAAAA
18909045 TTCACAAAA
1 TTCACAAAA
18909054 TT
1 TT
18909056 TGCATATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 15 0.47
9 17 0.53
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (9 bp):
TTCACAAAA
Found at i:18912239 original size:13 final size:14
Alignment explanation
Indices: 18912221--18912250 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18912211 TTATGTTATA
18912221 TTTCTTTC-TTTTC
1 TTTCTTTCTTTTTC
18912234 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
18912248 TTT
1 TTT
18912251 TTTTTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:18917458 original size:13 final size:13
Alignment explanation
Indices: 18917436--18917468 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18917426 AAGGGTTTGT
18917436 TTAT-TAAACTAA
1 TTATCTAAACTAA
18917448 TTATCTAAACTAA
1 TTATCTAAACTAA
*
18917461 TTAACTAA
1 TTATCTAA
18917469 CTTAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:18920141 original size:17 final size:17
Alignment explanation
Indices: 18920115--18920154 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
18920105 CTTGAAAAGG
*
18920115 AAAACAAATGAATCTTA
1 AAAACGAATGAATCTTA
*
18920132 AAAACGAATGAATTTTA
1 AAAACGAATGAATCTTA
18920149 AAAACG
1 AAAACG
18920155 TAATAAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAACGAATGAATCTTA
Found at i:18923757 original size:13 final size:13
Alignment explanation
Indices: 18923735--18923767 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18923725 AAAGGTTTGT
18923735 TTAT-TAAACTAA
1 TTATCTAAACTAA
18923747 TTATCTAAACTAA
1 TTATCTAAACTAA
*
18923760 TTAACTAA
1 TTATCTAA
18923768 CTTAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:18927352 original size:23 final size:23
Alignment explanation
Indices: 18927322--18927368 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
18927312 TCAGTTTGCA
18927322 CAAGTTCTAAAGATTGGATGGCC
1 CAAGTTCTAAAGATTGGATGGCC
*
18927345 CAAGTTCTAAAGATTGGTTGGCC
1 CAAGTTCTAAAGATTGGATGGCC
18927368 C
1 C
18927369 TTGTACCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (23 bp):
CAAGTTCTAAAGATTGGATGGCC
Found at i:18931933 original size:40 final size:40
Alignment explanation
Indices: 18931889--18931973 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 40
18931879 GCTATAAATA
18931889 GCACTAAGTGTGCGAGTTGGAATAGCTTTGGCTATATGAG
1 GCACTAAGTGTGCGAGTTGGAATAGCTTTGGCTATATGAG
18931929 GCAC------T----GTTGGAATAGCTTTGGCTATATGAG
1 GCACTAAGTGTGCGAGTTGGAATAGCTTTGGCTATATGAG
18931959 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
18931974 TACAGAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 20
0.64 0.00 0.36
Matches are distributed among these distances:
30 29 0.83
34 1 0.03
36 1 0.03
40 4 0.11
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (40 bp):
GCACTAAGTGTGCGAGTTGGAATAGCTTTGGCTATATGAG
Found at i:18931940 original size:30 final size:30
Alignment explanation
Indices: 18931904--18931963 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
18931894 AAGTGTGCGA
18931904 GTTGGAATAGCTTTGGCTATATGAGGCACT
1 GTTGGAATAGCTTTGGCTATATGAGGCACT
18931934 GTTGGAATAGCTTTGGCTATATGAGGCACT
1 GTTGGAATAGCTTTGGCTATATGAGGCACT
18931964 AAGTGTGCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.33
Consensus pattern (30 bp):
GTTGGAATAGCTTTGGCTATATGAGGCACT
Found at i:18936142 original size:55 final size:53
Alignment explanation
Indices: 18936012--18936200 Score: 227
Period size: 55 Copynumber: 3.5 Consensus size: 53
18936002 AACTTACCAT
* * *
18936012 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
18936065 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTCCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * *
18936120 TGCCATGTCTTGACATGTTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
18936174 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
18936201 ATATCCTTAT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 34 0.30
55 43 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:18940638 original size:26 final size:26
Alignment explanation
Indices: 18940592--18940641 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18940582 TTAGCATTGC
*
18940592 TTTTGAGAAGTTCTATGGAAAAGTGA
1 TTTTGAGAAGTACTATGGAAAAGTGA
* *
18940618 TTTTGAGAAGTACTTTTGAAAAGT
1 TTTTGAGAAGTACTATGGAAAAGT
18940642 TTGGTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TTTTGAGAAGTACTATGGAAAAGTGA
Found at i:18941128 original size:13 final size:13
Alignment explanation
Indices: 18941112--18941136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18941102 TTTTGGGTTG
18941112 AAAAGCACTTTTT
1 AAAAGCACTTTTT
18941125 AAAAGCACTTTT
1 AAAAGCACTTTT
18941137 GACTTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
AAAAGCACTTTTT
Found at i:18948346 original size:29 final size:30
Alignment explanation
Indices: 18948313--18948389 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
18948303 TTGTTGTATT
*
18948313 TTTTAAGATTTTAAAATTTAA-TCATTATAC
1 TTTTAAGATTTTAAAATTGAATTCATT-TAC
* *
18948343 -TTTAA-TTTTTATTAATTGAATTCATTTAC
1 TTTTAAGATTTTA-AAATTGAATTCATTTAC
*
18948372 TTTTCAGATTTTAAAATT
1 TTTTAAGATTTTAAAATT
18948390 AGGGTCTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
28 5 0.14
29 14 0.38
30 13 0.35
31 5 0.14
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (30 bp):
TTTTAAGATTTTAAAATTGAATTCATTTAC
Found at i:18948523 original size:21 final size:21
Alignment explanation
Indices: 18948497--18948554 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
18948487 CTCCAAAACA
*
18948497 AGGGAAAATGGGTTACAATTT
1 AGGGAAAATGGCTTACAATTT
**
18948518 AGGGAAAATATCTTACAATTT
1 AGGGAAAATGGCTTACAATTT
*
18948539 AGGGAAAATGTCTTAC
1 AGGGAAAATGGCTTAC
18948555 CCTTTCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (21 bp):
AGGGAAAATGGCTTACAATTT
Found at i:18948973 original size:20 final size:20
Alignment explanation
Indices: 18948948--18948987 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18948938 AATATTTTCT
*
18948948 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
18948968 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
18948988 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:18948990 original size:34 final size:35
Alignment explanation
Indices: 18948936--18949002 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18948926 CAAACACCAG
* *
18948936 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18948971 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18949003 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18951796 original size:11 final size:11
Alignment explanation
Indices: 18951780--18951808 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18951770 CTAGAAATAG
18951780 TTCGAGAACAA
1 TTCGAGAACAA
18951791 TTCGAGAACAA
1 TTCGAGAACAA
18951802 TTCGAGA
1 TTCGAGA
18951809 CTAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (11 bp):
TTCGAGAACAA
Found at i:18955012 original size:15 final size:15
Alignment explanation
Indices: 18955001--18955034 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18954991 TATTATTTTC
18955001 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
18955016 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
18955031 ATGT
1 ATGT
18955035 AGTGGGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Done.