Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 209 of 250
Found at i:65192129 original size:39 final size:41
Alignment explanation
Indices: 65192086--65192174 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 41
65192076 ATTAGTTAAG
65192086 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAGTTGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
65192125 TTATGTAA---GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
65192164 TTATGTAAGTT
1 TTATGTAAGTT
65192175 ATATGAGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
36 14 0.33
37 1 0.02
38 1 0.02
39 26 0.62
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (41 bp):
TTATGTAAGTTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:65192175 original size:39 final size:39
Alignment explanation
Indices: 65192115--65192189 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
65192105 CGTTATGTGA
*
65192115 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
65192154 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAA
1 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAA
65192190 TTTATTTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
Found at i:65192175 original size:57 final size:57
Alignment explanation
Indices: 65192084--65192194 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
65192074 GTATTAGTTA
** * *
65192084 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
* * *
65192141 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAATTTAT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTAT
65192195 TTAAGTAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:65197221 original size:14 final size:14
Alignment explanation
Indices: 65197186--65197222 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
65197176 TATTATCTCT
65197186 TAAATAATTTAATC
1 TAAATAATTTAATC
65197200 TAAA-AATTTAATC
1 TAAATAATTTAATC
65197213 TAAATAATTT
1 TAAATAATTT
65197223 TATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:65197466 original size:44 final size:43
Alignment explanation
Indices: 65197385--65197492 Score: 100
Period size: 44 Copynumber: 2.5 Consensus size: 43
65197375 CTAAACCCTT
* *
65197385 CACATAAACCCTAAACCCCAGACCTGTAACATGTAACCATTAA-C
1 CACATAAACCCTAAACCCTAAACCTG-AACATGTAACC-TTAAGC
65197429 CACATAAACCCTAAACCCTAAACCATG-ACTTAT-TAACCTTAAGC
1 CACATAAACCCTAAACCCTAAACC-TGAAC--ATGTAACCTTAAGC
* *
65197473 C-C-TAAACCTTAAACACTAAA
1 CACATAAACCCTAAACCCTAAA
65197493 ACCCTAAACC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
42 16 0.29
43 7 0.12
44 29 0.52
45 4 0.07
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.20
Consensus pattern (43 bp):
CACATAAACCCTAAACCCTAAACCTGAACATGTAACCTTAAGC
Found at i:65197497 original size:22 final size:22
Alignment explanation
Indices: 65197472--65197517 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
65197462 TAACCTTAAG
*
65197472 CCCTAAACCTTAAACACTA-AAA
1 CCCTAAACCCTAAA-ACTATAAA
65197494 CCCTAAACCCTAAAACTATAAA
1 CCCTAAACCCTAAAACTATAAA
65197516 CC
1 CC
65197518 TTACACACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (22 bp):
CCCTAAACCCTAAAACTATAAA
Found at i:65197515 original size:15 final size:14
Alignment explanation
Indices: 65197466--65197517 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
65197456 ACTTATTAAC
* *
65197466 CTTAAGCCCTAAAC
1 CTTAAACCCTAAAA
*
65197480 CTTAAACACTAAAA
1 CTTAAACCCTAAAA
*
65197494 CCCTAAACCCTAAAA
1 -CTTAAACCCTAAAA
65197509 CTATAAACC
1 CT-TAAACC
65197518 TTACACACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (14 bp):
CTTAAACCCTAAAA
Found at i:65197676 original size:21 final size:21
Alignment explanation
Indices: 65197633--65197678 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
65197623 CCTAAAACCC
* **
65197633 TAAACCATATACCCTAATTTA
1 TAAACCATAAACCCTAAACTA
*
65197654 TAAACCCTAAACCCTAAACTA
1 TAAACCATAAACCCTAAACTA
65197675 TAAA
1 TAAA
65197679 GATAATTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCATAAACCCTAAACTA
Found at i:65197809 original size:21 final size:21
Alignment explanation
Indices: 65197784--65197833 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
65197774 AACCGTAAAC
*
65197784 CCATAATCCCT-AATCCATAAT
1 CCATAAACCCTGAAT-CATAAT
*
65197805 CCATAAACCCTGAATCATAAA
1 CCATAAACCCTGAATCATAAT
*
65197826 ACATAAAC
1 CCATAAAC
65197834 TCTAAACCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.22
Consensus pattern (21 bp):
CCATAAACCCTGAATCATAAT
Found at i:65197883 original size:16 final size:16
Alignment explanation
Indices: 65197862--65197893 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65197852 GACACTTAAA
65197862 CCATAACCCTTAAACC
1 CCATAACCCTTAAACC
*
65197878 CCATAATCCTTAAACC
1 CCATAACCCTTAAACC
65197894 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (16 bp):
CCATAACCCTTAAACC
Found at i:65197941 original size:21 final size:22
Alignment explanation
Indices: 65197903--65197943 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
65197893 CTTAAAATAA
*
65197903 TAACTCATAAACCTTAAACCCT
1 TAACTCATAAACCCTAAACCCT
*
65197925 TAAC-CATATACCCTAAACC
1 TAACTCATAAACCCTAAACC
65197944 GTAAAGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (22 bp):
TAACTCATAAACCCTAAACCCT
Found at i:65199089 original size:46 final size:46
Alignment explanation
Indices: 65199052--65199310 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
65199042 ATAAAATGTG
* **
65199052 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
*
65199098 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * **
65199144 TAAGACCATGGTTGAAAGATACCATAGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* * *
65199190 TAAGACCATGGTTGAAAGATACCATGGCAGCGTAACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
* *
65199236 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAA
* * *
65199282 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
65199311 TCATGTTAAA
Statistics
Matches: 192, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 191 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAA
Found at i:65199617 original size:16 final size:17
Alignment explanation
Indices: 65199596--65199628 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65199586 ATGATGGTGC
*
65199596 ATGAAAT-ATTGATATA
1 ATGAAATGATTAATATA
65199612 ATGAAATGATTAATATA
1 ATGAAATGATTAATATA
65199629 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTAATATA
Found at i:65215874 original size:24 final size:24
Alignment explanation
Indices: 65215829--65215884 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
65215819 TGAATGAACA
*
65215829 TAAAATACAATAATAGATAAATAATT
1 TAAAATAC-ATAATAGATAAAT-ACT
65215855 TAAAATAC-TAATAGCA-AAATACT
1 TAAAATACATAATAG-ATAAATACT
65215878 TAAAATA
1 TAAAATA
65215885 TAAATTATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.32
24 10 0.36
25 1 0.04
26 8 0.29
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.29
Consensus pattern (24 bp):
TAAAATACATAATAGATAAATACT
Found at i:65221142 original size:20 final size:20
Alignment explanation
Indices: 65221117--65221168 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
65221107 AAGCAGCAGC
65221117 AAGGAGAAGAAGAGAAAAAA
1 AAGGAGAAGAAGAGAAAAAA
*
65221137 AAGGAGGAGAAG-GAAAAAA
1 AAGGAGAAGAAGAGAAAAAA
65221156 AA--AGAA-AAGAGAA
1 AAGGAGAAGAAGAGAA
65221169 TGTATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 6 0.21
19 9 0.31
20 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAGAGAAAAAA
Found at i:65221295 original size:26 final size:26
Alignment explanation
Indices: 65221262--65221316 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
65221252 TTGTTGTTAG
* *
65221262 TTATTATTGTTAGTAAAAAACTCTTA
1 TTATTATTGTTAGTAAAAAAATATTA
65221288 TTATTATTGTTAGTAAAAAAATATTA
1 TTATTATTGTTAGTAAAAAAATATTA
65221314 TTA
1 TTA
65221317 GGATTGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (26 bp):
TTATTATTGTTAGTAAAAAAATATTA
Found at i:65221322 original size:26 final size:26
Alignment explanation
Indices: 65221267--65221324 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
65221257 GTTAGTTATT
* * **
65221267 ATTGTTAGTAAAAAACTCTTATTATT
1 ATTGTTAGTAAAAAAATATTATTAGG
65221293 ATTGTTAGTAAAAAAATATTATTAGG
1 ATTGTTAGTAAAAAAATATTATTAGG
65221319 ATTGTT
1 ATTGTT
65221325 GGTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (26 bp):
ATTGTTAGTAAAAAAATATTATTAGG
Found at i:65221370 original size:39 final size:37
Alignment explanation
Indices: 65221285--65221376 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 37
65221275 TAAAAAACTC
*
65221285 TTATTATTATTGTTAGTAAAAAAATATTATTAGGATTG
1 TTATTATTATTGTTAGTAAAAAAAAATTATTA-GATTG
*
65221323 TTGGTTATTATTGTTAGTAAAAAACCCAAATTATT-G-TTAG
1 TT-ATTATTATTGTTAGTAAAAAA---AAATTATTAGATT-G
65221363 TTATTATTATTGTT
1 TTATTATTATTGTT
65221377 GATTTATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
38 2 0.04
39 33 0.72
40 4 0.09
42 7 0.15
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (37 bp):
TTATTATTATTGTTAGTAAAAAAAAATTATTAGATTG
Found at i:65225112 original size:18 final size:17
Alignment explanation
Indices: 65225080--65225127 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
65225070 TTGCATATAT
65225080 TTAATGTTCTAATTAGA
1 TTAATGTTCTAATTAGA
*
65225097 TTAATGTATTTAATTAGA
1 TTAATGT-TCTAATTAGA
*
65225115 TTAATGTTGTAAT
1 TTAATGTTCTAAT
65225128 GTATTTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (17 bp):
TTAATGTTCTAATTAGA
Found at i:65225651 original size:18 final size:18
Alignment explanation
Indices: 65225630--65225684 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
65225620 GCTTCGACTG
*
65225630 TGGCTCAGGCTCGGGCTC
1 TGGCTCTGGCTCGGGCTC
* *
65225648 TGGCTCTTGCTCGGGATC
1 TGGCTCTGGCTCGGGCTC
* *
65225666 TAGCTGTGGCTCGGGCTC
1 TGGCTCTGGCTCGGGCTC
65225684 T
1 T
65225685 ATATCGGCCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.05, C:0.29, G:0.36, T:0.29
Consensus pattern (18 bp):
TGGCTCTGGCTCGGGCTC
Found at i:65230900 original size:151 final size:138
Alignment explanation
Indices: 65230738--65231168 Score: 491
Period size: 142 Copynumber: 3.0 Consensus size: 138
65230728 TTATTTTCGG
* * * *
65230738 ATTTTATTTTTTAAAATATATTATTTTCATA----T-TTTTTTATATTATTTTAGTATATAATCT
1 ATTTTATTTTTAAAAATATATTATTTTTATATTTTTATTTTTTATATTATTTTAGTACATAATGT
*
65230798 TGT-AATGTATTATTTAATTTTTTTGTATTAATTTAATAAATAACCCTAATTTTAGCACTTTGTT
66 T-TAAATGTATTATTTAATTTTTTT-TATTAATTTAATAAATAACCCTGATTTT-GCACTTTGTT
65230862 GGTATTTTTTT
128 GGTATTTTTTT
*
65230873 ATTTTATTTTTAAAAATATATTATTTTTGTA-TTTTA-TTTTTATATTATTTTAGTACATAATGT
1 ATTTTATTTTTAAAAATATATTATTTTTATATTTTTATTTTTTATATTATTTTAGTACATAATGT
* * *
65230936 TTCAAATTTATTATTAAAGTGTTTTATTATATTAATTTAATAAATAACCTTGATTTTGACACTTT
66 TT-AAATGTATTATTTAA-T-TTTT-TT-TATTAATTTAATAAATAACCCTGATTTTG-CACTTT
65231001 GTTGGTATTTTTTATTTTT
125 GTTGGTA----TT-TTTTT
* *
65231020 GGATTTTATTTTTTAAAATATATTATTTTCATATTTTTATTTTTTATATTATTTTAGTACATAAT
1 --ATTTTATTTTTAAAAATATATTATTTTTATATTTTTATTTTTTATATTATTTTAGTACATAAT
* * * *
65231085 GTTTCAAATGTATTATTTTAGTATTTTTTAATAATTTAGTAAATAACCCTGATTTTGGCACTTTG
64 GTTT-AAATGTATTA-TTTAATTTTTTTTATTAATTTAATAAATAACCCTGATTTT-GCACTTTG
65231150 TTGGTATTTTTTT
126 TTGGTATTTTTTT
*
65231163 ACTTTA
1 ATTTTA
65231169 GGATTTTATT
Statistics
Matches: 254, Mismatches: 21, Indels: 36
0.82 0.07 0.12
Matches are distributed among these distances:
135 28 0.11
137 1 0.00
138 27 0.11
139 12 0.05
140 1 0.00
141 10 0.04
142 41 0.16
143 5 0.02
144 2 0.01
146 2 0.01
147 5 0.02
148 38 0.15
149 31 0.12
150 8 0.03
151 40 0.16
152 3 0.01
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.58
Consensus pattern (138 bp):
ATTTTATTTTTAAAAATATATTATTTTTATATTTTTATTTTTTATATTATTTTAGTACATAATGT
TTAAATGTATTATTTAATTTTTTTTATTAATTTAATAAATAACCCTGATTTTGCACTTTGTTGGT
ATTTTTTT
Found at i:65231181 original size:148 final size:146
Alignment explanation
Indices: 65230703--65231210 Score: 616
Period size: 149 Copynumber: 3.5 Consensus size: 146
65230693 TTTTGTTCGG
* *
65230703 TGATTTTGGCCCTTTGTTGAT-TTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCA
1 TGATTTTGGCACTTTGTTGGTATTTTTTATTTT-GGATTTTATTTTTTAAAATATATTATTTTCA
* * * *
65230767 TA---T-TTTTTTATATTATTTTAGTATATAATCTTGT--AATGTATTA-TTTAATTTTTTTGTA
65 TATTTTATTTTTTATATTATTTTAGTACATAATGTT-TCAAATGTATTATTTTAGTATTTTT-TA
*
65230825 TTAATTTAATAAATAACCC
128 ATAATTTAATAAATAACCC
* * * **
65230844 TAATTTTAGCACTTTGTTGGTA---TTT-TTTT--ATTTTATTTTTAAAAATATATTATTTTTGT
1 TGATTTTGGCACTTTGTTGGTATTTTTTATTTTGGATTTTATTTTTTAAAATATATTATTTTCAT
* ** *
65230903 ATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATTTATTATTAAAGTGTTTTATTATA
66 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTT-TTA-A
*
65230967 TTAATTTAATAAATAACCT
129 -TAATTTAATAAATAACCC
*
65230986 TGATTTTGACACTTTGTTGGTATTTTTTATTTTTGGATTTTATTTTTTAAAATATATTATTTTCA
1 TGATTTTGGCACTTTGTTGGTATTTTTTA-TTTTGGATTTTATTTTTTAAAATATATTATTTTCA
65231051 TATTTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAA
65 TA-TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAA
*
65231116 TAATTTAGTAAATAACCC
129 TAATTTAATAAATAACCC
* *
65231134 TGATTTTGGCACTTTGTTGGTATTTTTTTACTTTAGGATTTTATTTTTTAAAA-ATACTATTTTC
1 TGATTTTGGCACTTTGTTGGTA-TTTTTTA-TTTTGGATTTTATTTTTTAAAATATATTATTTTC
*
65231198 GTATTTTATTTTT
64 ATATTTTATTTTT
65231211 GTAACACCCC
Statistics
Matches: 313, Mismatches: 33, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
135 28 0.09
137 1 0.00
138 31 0.10
139 11 0.04
140 9 0.03
141 18 0.06
142 36 0.12
145 3 0.01
147 14 0.04
148 49 0.16
149 57 0.18
150 8 0.03
151 48 0.15
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (146 bp):
TGATTTTGGCACTTTGTTGGTATTTTTTATTTTGGATTTTATTTTTTAAAATATATTATTTTCAT
ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTAATA
ATTTAATAAATAACCC
Found at i:65232062 original size:43 final size:45
Alignment explanation
Indices: 65231999--65232127 Score: 142
Period size: 46 Copynumber: 2.9 Consensus size: 45
65231989 CTTTTATTCA
* * *
65231999 TTCACCGACATT-TCGCCTGCTAGGCCCG-AA-GCCCGATATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAAGGCCCGA-ATAATG
*
65232041 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAAGGCCCGAATAATG
* * *
65232086 TCTCACCGGCATAATAGTCTGCTAGGCTC-AAAGGCCCGAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCCCGAAAGGCCCGAATA
65232128 TAATACCAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.14
43 14 0.18
44 6 0.08
45 20 0.26
46 25 0.33
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAAGGCCCGAATAATG
Found at i:65232185 original size:38 final size:38
Alignment explanation
Indices: 65232120--65232242 Score: 192
Period size: 38 Copynumber: 3.2 Consensus size: 38
65232110 GGCTCAAAGG
* *
65232120 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
65232158 CCCGTATATAATACCAACACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
65232196 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
65232234 CCCGTATAT
1 CCCGAATAT
65232243 CATATTTCGA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 77 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:65235391 original size:148 final size:149
Alignment explanation
Indices: 65234876--65235645 Score: 1274
Period size: 149 Copynumber: 5.2 Consensus size: 149
65234866 GCTATCACAA
* * *
65234876 TTTTTATATTATTTTAGTACATAATATTTCAAATGTACTATTTTAGT-TTTTTCTAAAAATTTAG
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT-TAATAATTTAG
* * * ***
65234940 TAAATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTAAATTTTATTTTTTAAAAT
65 TAAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAAT
65235005 ATACTATTTTCGTATTTTATT
130 ATACTATTTTCGTATTTTA-T
* *
65235026 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTGTCTTATAATAATTTAG
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TGTTTTTTAATAATTTAG
* *
65235091 TAAATAATCCTGATTTTGGCCCTTTGTTTGTAATTTTTAAATTTTCGGATTTTATTTTTTAAAAT
65 TAAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAAT
65235156 ATACTATTTTCGTATTTTAT
130 ATACTATTTTCGTATTTTAT
65235176 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
*
65235241 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTTAAATTTTCGGATTTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATA
*
65235306 TACTATTTTCATATTTTA-
131 TACTATTTTCGTATTTTAT
65235324 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
*
65235389 AAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCAGATTTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATA
65235454 TACTATTTTCGTATTTTAT
131 TACTATTTTCGTATTTTAT
* * * *
65235473 TTTTTACATTATTTTAGTACATAATGTTTTAAATGAATTATTTTAGTTTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
* * *
65235538 AAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATA
66 AAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATA
*
65235603 TACTATTTTTGTATTTTAT
131 TACTATTTTCGTATTTTAT
*
65235622 TTTTTATATTATTTTAGTAAATAA
1 TTTTTATATTATTTTAGTACATAA
65235646 CTCACCAGCA
Statistics
Matches: 584, Mismatches: 33, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
148 145 0.25
149 258 0.44
150 91 0.16
151 87 0.15
152 3 0.01
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (149 bp):
TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
AAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTTAAAATA
TACTATTTTCGTATTTTAT
Found at i:65235500 original size:297 final size:298
Alignment explanation
Indices: 65234876--65235645 Score: 1310
Period size: 297 Copynumber: 2.6 Consensus size: 298
65234866 GCTATCACAA
* * *
65234876 TTTTTATATTATTTTAGTACATAATATTTCAAATGTACTATTTTAGTTTTTTCTAAAAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTT-TAATAATTTAGT
**
65234941 AAATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTAAATTTTATTTTTTAAAATA
65 AAATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTGGATTTTATTTTTTAAAATA
65235006 TACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTA
130 TACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTA
*
65235071 GTTGTCTTATAATAATTTAGTAAATAATCCTGATTTTGGCCCTTTGTTTGTAATTTTTAAATTTT
194 GTTGTCTTATAATAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTAATTTTTAAATTTT
*
65235136 CGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
259 CAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
65235176 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTAATAATTTAGT
* * *
65235241 AAATAACCCTGATTTTGGCCCTTTGTTTGCATTTTTTAAATTTTCGGATTTTATTTTTTAAAATA
65 AAATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTGGATTTTATTTTTTAAAATA
*
65235306 TACTATTTTCATATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG
130 TACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG
* * *
65235370 -TGTTTTTTAATAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTC
195 TTGTCTTATAATAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTAATTTTTAAATTTTC
65235434 AGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
260 AGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
* * *
65235473 TTTTTACATTATTTTAGTACATAATGTTTTAAATGAATTATTTTAGTTTTTTTTAATAATTTAGT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTAATAATTTAGT
*
65235538 AAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATA
65 AAATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTGGATTTTATTTTTTAAAATA
* *
65235603 TACTATTTTTGTATTTTATTTTTTATATTATTTTAGTAAATAA
130 TACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAA
65235646 CTCACCAGCA
Statistics
Matches: 443, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
297 235 0.53
298 70 0.16
300 133 0.30
301 5 0.01
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (298 bp):
TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTAATAATTTAGTA
AATAACCCTGATTTTGGCCATTTGTTTGCATTTTTAAAATTTTTGGATTTTATTTTTTAAAATAT
ACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT
TGTCTTATAATAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGTAATTTTTAAATTTTCA
GATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
Found at i:65235694 original size:17 final size:17
Alignment explanation
Indices: 65235669--65235706 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
65235659 CTTTCCCCAA
*
65235669 ATTTTTTTTCGTATTTT
1 ATTTCTTTTCGTATTTT
65235686 ATTTCTTTTCGTATTTT
1 ATTTCTTTTCGTATTTT
65235703 ATTT
1 ATTT
65235707 TTTCATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTCGTATTTT
Found at i:65236249 original size:3 final size:3
Alignment explanation
Indices: 65236235--65236276 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
65236225 GTGCCGCCTC
* *
65236235 CTT CTC CTT CTT CTT CTT C-T CTT CTT CTC CTT CTT -TT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
65236277 CGAAATGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:65236260 original size:14 final size:14
Alignment explanation
Indices: 65236232--65236277 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
65236222 CCAGTGCCGC
65236232 CTCCTTCTCCTTCTT
1 CTCCTTCT-CTTCTT
*
65236247 CTTCTTCTCTTCTT
1 CTCCTTCTCTTCTT
*
65236261 CTCCTTCTTTTCTT
1 CTCCTTCTCTTCTT
65236275 CTC
1 CTC
65236278 GAAATGAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
CTCCTTCTCTTCTT
Found at i:65236267 original size:17 final size:17
Alignment explanation
Indices: 65236241--65236276 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65236231 CCTCCTTCTC
*
65236241 CTTCTTCTTCTTCTCTT
1 CTTCTCCTTCTTCTCTT
*
65236258 CTTCTCCTTCTTTTCTT
1 CTTCTCCTTCTTCTCTT
65236275 CT
1 CT
65236277 CGAAATGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTCTCCTTCTTCTCTT
Found at i:65238103 original size:17 final size:17
Alignment explanation
Indices: 65238078--65238111 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65238068 TATTTCATCA
*
65238078 ATATATTATATCATTAT
1 ATATATTATATAATTAT
*
65238095 ATATTTTATATAATTAT
1 ATATATTATATAATTAT
65238112 TAAATTTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATTATATAATTAT
Found at i:65241506 original size:27 final size:27
Alignment explanation
Indices: 65241459--65241522 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
65241449 TGCAATTTGG
*
65241459 ATTATAATAAAAAACAATATTTTAAAA
1 ATTATAATAAAAAACAATATTTAAAAA
**
65241486 ATTATAATTAAAAAA-TTTATTTAAAAAA
1 ATTATAA-TAAAAAACAATATTT-AAAAA
*
65241514 ATTAAAATA
1 ATTATAATA
65241523 GATCAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 14 0.45
28 17 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTATAATAAAAAACAATATTTAAAAA
Found at i:65241513 original size:13 final size:14
Alignment explanation
Indices: 65241475--65241513 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65241465 ATAAAAAACA
*
65241475 ATATTTTAAAAATT
1 ATATTTAAAAAATT
*
65241489 ATAATTAAAAAATT
1 ATATTTAAAAAATT
65241503 -TATTTAAAAAA
1 ATATTTAAAAAA
65241514 ATTAAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTTAAAAAATT
Found at i:65241516 original size:14 final size:14
Alignment explanation
Indices: 65241459--65241513 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
65241449 TGCAATTTGG
65241459 ATTATAA-TAAAAA
1 ATTATAATTAAAAA
** * *
65241472 ACAATATTTTAAAA
1 ATTATAATTAAAAA
65241486 ATTATAATTAAAAA
1 ATTATAATTAAAAA
*
65241500 ATT-TATTTAAAAA
1 ATTATAATTAAAAA
65241513 A
1 A
65241514 ATTAAAATAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 14 0.44
14 18 0.56
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTATAATTAAAAA
Found at i:65246679 original size:11 final size:11
Alignment explanation
Indices: 65246663--65246689 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
65246653 AAAAAATTCG
65246663 TAATAAAATCA
1 TAATAAAATCA
65246674 TAATAAAATCA
1 TAATAAAATCA
65246685 TAATA
1 TAATA
65246690 TATGATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (11 bp):
TAATAAAATCA
Found at i:65248854 original size:29 final size:29
Alignment explanation
Indices: 65248817--65248872 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
65248807 AATATACTTA
* *
65248817 AAAAAAAAAAG-AAGGAAAACCTAACCTT
1 AAAAAAAAAAGAAAAGAAAACATAACCTT
**
65248845 AAAATGAAAAGAAAAGAAAACATAACCT
1 AAAAAAAAAAGAAAAGAAAACATAACCT
65248873 AACACTACGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.66, C:0.12, G:0.11, T:0.11
Consensus pattern (29 bp):
AAAAAAAAAAGAAAAGAAAACATAACCTT
Found at i:65249922 original size:42 final size:42
Alignment explanation
Indices: 65249861--65249998 Score: 150
Period size: 42 Copynumber: 3.3 Consensus size: 42
65249851 TTGATTTATT
*
65249861 CAATGATGCACTTATGTGCCAGTATAATTGCTTCAGTATATC
1 CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTATATC
** * * * * ** *
65249903 TGATGGTGCACTTACGTGCCAGTGTATTTTCTTTGGTACATC
1 CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTATATC
* * * *
65249945 CAATGATGCACTTACGTGTCAGCATGATTGCTTCAGTTTATC
1 CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTATATC
65249987 CAATGATGCACT
1 CAATGATGCACT
65249999 ATGTGTACCA
Statistics
Matches: 73, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (42 bp):
CAATGATGCACTTACGTGCCAGTATAATTGCTTCAGTATATC
Found at i:65250028 original size:43 final size:41
Alignment explanation
Indices: 65249942--65250042 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 41
65249932 TCTTTGGTAC
* * *
65249942 ATCCAATGATGCACTTACGTGTCAGCATGATTGCTTCAGTTT
1 ATCCAATGATGCAC-TATGTGTCAGCATGATTCCTTCAATTT
65249984 ATCCAATGATGCACTATGTGTACCAGCAT-ATTTCCTTCAATTT
1 ATCCAATGATGCACTATGTGT--CAGCATGA-TTCCTTCAATTT
**
65250027 ATCTGATGA-GCACTAT
1 ATCCAATGATGCACTAT
65250043 AGTGCCACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 6 0.12
42 22 0.43
43 23 0.45
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (41 bp):
ATCCAATGATGCACTATGTGTCAGCATGATTCCTTCAATTT
Found at i:65279146 original size:31 final size:31
Alignment explanation
Indices: 65279105--65279180 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
65279095 TATACTTAAT
* *
65279105 AAATAATAATAAAATAATAAATATCTTATTA
1 AAATATTAATAAAATAATAAATATCTAATTA
**
65279136 AAATATTAATAAAATAATATTTATCTAATTA
1 AAATATTAATAAAATAATAAATATCTAATTA
*
65279167 ATA-ATT-ATAAAATA
1 AAATATTAATAAAATA
65279181 TCATCAACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 8 0.20
30 3 0.08
31 29 0.73
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATATTAATAAAATAATAAATATCTAATTA
Found at i:65280315 original size:208 final size:208
Alignment explanation
Indices: 65279945--65280388 Score: 798
Period size: 208 Copynumber: 2.1 Consensus size: 208
65279935 GTCGTGTGAC
* *
65279945 CCACACGGCTTAGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
1 CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
* * *
65280010 GTAAAGGAAATCGACAGAGAGTTACACGGCCAGGACACACGGGTGTGTCCTCGGCCGTGTGAGCC
66 GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACACAGGCGTGTCCTCGGCCGTGTGAGCC
65280075 CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
131 CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
*
65280140 AATGTCATGTGGA
196 AAGGTCATGTGGA
65280153 CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
1 CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
*
65280218 GTAAAGGAAATCGACAGAGAGTTACATAGCCAGGACACACAGGCGTGTCCTCGGCCGTGTGAGCC
66 GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACACAGGCGTGTCCTCGGCCGTGTGAGCC
**
65280283 CTGAAGTTTAAATCTTCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
131 CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
*
65280348 ACGGTCATGTGGA
196 AAGGTCATGTGGA
65280361 CCACACTGCTTGGACACACGGGCGTGTC
1 CCACACTGCTTGGACACACGGGCGTGTC
65280389 CTAGGCCGTA
Statistics
Matches: 226, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
208 226 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (208 bp):
CCACACTGCTTGGACACACGGGCGTGTCACTAATCATGTGGATTTTGGGACTTAGGTTTTTATTT
GTAAAGGAAATCGACAGAGAGTTACACAGCCAGGACACACAGGCGTGTCCTCGGCCGTGTGAGCC
CTGAAGTTTAAATCCCCAAAAATCGACAAAGACACGGGCTAAAAGAGGCCACACGGGCGTGCAAC
AAGGTCATGTGGA
Found at i:65280833 original size:27 final size:28
Alignment explanation
Indices: 65280798--65280852 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
65280788 CCCCAATCTA
65280798 CCCAAAAT-CATTTCCCACCAAAATTTT
1 CCCAAAATCCATTTCCCACCAAAATTTT
*
65280825 CCCAAAATCCATTTCTCACCAAAATTTT
1 CCCAAAATCCATTTCCCACCAAAATTTT
65280853 ACTCTCCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (28 bp):
CCCAAAATCCATTTCCCACCAAAATTTT
Found at i:65284578 original size:14 final size:14
Alignment explanation
Indices: 65284557--65284602 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
65284547 TCATTACTCT
65284557 TTTATTATTA-TTA-
1 TTTATT-TTATTTAC
65284570 TTTA-TTTATTTAC
1 TTTATTTTATTTAC
*
65284583 TTTATTTTATTTAT
1 TTTATTTTATTTAC
65284597 TTTATT
1 TTTATT
65284603 ATAAGCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.10
12 4 0.14
13 8 0.28
14 14 0.48
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTAC
Found at i:65284599 original size:9 final size:9
Alignment explanation
Indices: 65284557--65284602 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
65284547 TCATTACTCT
65284557 TTTATTATTA
1 TTTATT-TTA
65284567 -TTA-TTTA
1 TTTATTTTA
65284574 TTTA-TTTA
1 TTTATTTTA
65284582 CTTTATTTTA
1 -TTTATTTTA
65284592 TTTATTTTA
1 TTTATTTTA
65284601 TT
1 TT
65284603 ATAAGCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 3 0.09
8 8 0.24
9 18 0.55
10 4 0.12
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:65294853 original size:43 final size:42
Alignment explanation
Indices: 65294697--65294854 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
65294687 TGTGTTATCG
* *
65294697 TGTAAGACCAAGTCTGGGACGTTGGCATCGACTTTTGTTTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TTTTG-ATTACA
* * * * * * *
65294741 TGTAAGACCATTTCTGGGACATTAGCGTCG-TTAATCGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATT--TTGATTACA
* * * *
65294784 TGTAAGGCCCTATCTAGGACAG-TGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTTGATTACA
65294827 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
65294855 TGTATTTACT
Statistics
Matches: 85, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
42 3 0.04
43 53 0.62
44 28 0.33
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATTTTGATTACA
Found at i:65296457 original size:12 final size:12
Alignment explanation
Indices: 65296442--65296477 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
65296432 TGTAGATTTC
65296442 TTTTTCTTTTTA
1 TTTTTCTTTTTA
*
65296454 -TTTTCTTTTAA
1 TTTTTCTTTTTA
65296465 TTTTTCTTTTTA
1 TTTTTCTTTTTA
65296477 T
1 T
65296478 GTTTATTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:65296459 original size:11 final size:11
Alignment explanation
Indices: 65296443--65296477 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
65296433 GTAGATTTCT
65296443 TTTTCTTTTTA
1 TTTTCTTTTTA
*
65296454 TTTTCTTTTAA
1 TTTTCTTTTTA
65296465 TTTTTCTTTTTA
1 -TTTTCTTTTTA
65296477 T
1 T
65296478 GTTTATTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:65296491 original size:23 final size:22
Alignment explanation
Indices: 65296440--65296492 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
65296430 TCTGTAGATT
* *
65296440 TCTTTTTCTTTTTATTTTCTTT
1 TCTTTTTCTTTTTATTTTATTC
*
65296462 TAATTTTTCTTTTTATGTTTATTC
1 T-CTTTTTCTTTTTAT-TTTATTC
65296486 TCTTTTT
1 TCTTTTT
65296493 AACTTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 18 0.72
24 6 0.24
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.77
Consensus pattern (22 bp):
TCTTTTTCTTTTTATTTTATTC
Found at i:65300572 original size:18 final size:18
Alignment explanation
Indices: 65300463--65300572 Score: 123
Period size: 18 Copynumber: 6.1 Consensus size: 18
65300453 TAAATAAAGG
* *
65300463 TACTAAATAACTGACTGC
1 TACTGAATAACTGACTGT
*
65300481 TACTAAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
65300499 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
65300517 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* *
65300535 TACTGAATAATTTA-TCGT
1 TACTGAATAACTGACT-GT
*
65300553 TACTGAATAACTGATTGT
1 TACTGAATAACTGACTGT
65300571 TA
1 TA
65300573 AAGAGTACTA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
17 1 0.01
18 78 0.98
19 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:65302515 original size:19 final size:18
Alignment explanation
Indices: 65302487--65302523 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
65302477 TATTTGTGTA
65302487 AAATAATATTTCAATAATT
1 AAATAATATTTCAA-AATT
*
65302506 AAATATTATTTCAAAATT
1 AAATAATATTTCAAAATT
65302524 TTATCTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAATATTTCAAAATT
Found at i:65305474 original size:22 final size:22
Alignment explanation
Indices: 65305449--65305490 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
65305439 ATGACCTAAA
65305449 TAAAA-ACTCATATTTATATAAT
1 TAAAATACTCATATTT-TATAAT
*
65305471 TAAAATATTCATATTTTATA
1 TAAAATACTCATATTTTATA
65305491 CGGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATACTCATATTTTATAAT
Found at i:65305563 original size:23 final size:24
Alignment explanation
Indices: 65305537--65305590 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
65305527 AATATATATT
65305537 TATTATTAAA-ATATTAATAT-AAA
1 TATTATTAAATATA-TAATATAAAA
* *
65305560 TATTCTTAAATATATAATTTAAAA
1 TATTATTAAATATATAATATAAAA
65305584 TATTATT
1 TATTATT
65305591 TGAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTATTAAATATATAATATAAAA
Found at i:65305621 original size:22 final size:19
Alignment explanation
Indices: 65305575--65305621 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
65305565 TTAAATATAT
*
65305575 AATTTAAAATATTATTTGA
1 AATTTAAAATATTATTTAA
65305594 AATTTAAAATCATTACTATTAA
1 AATTTAAAAT-ATTA-T-TTAA
65305616 AATTTA
1 AATTTA
65305622 TTATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
21 1 0.04
22 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTAAAATATTATTTAA
Found at i:65305645 original size:19 final size:18
Alignment explanation
Indices: 65305613--65305652 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
65305603 TCATTACTAT
*
65305613 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
*
65305631 TAAAATTATAATATTTAAA
1 TAAAATT-TAATATTAAAA
65305650 TAA
1 TAA
65305653 TTTATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:65305649 original size:33 final size:33
Alignment explanation
Indices: 65305612--65305719 Score: 87
Period size: 35 Copynumber: 3.1 Consensus size: 33
65305602 ATCATTACTA
65305612 TTAAAATTTATTATTAAAATAAAATTATAATAT
1 TTAAAATTTATTATTAAAATAAAATTATAATAT
*
65305645 TTAAATAATTTATTA--AAAATAATTAATTATATTA-
1 TT-AA-AATTTATTATTAAAATAA--AATTATAATAT
*
65305679 TTAAATATTTATTTTTAGTAATATTAAACATTATAATAT
1 TTAAA-ATTTATTATTA--AA-A-TAAA-ATTATAATAT
65305718 TT
1 TT
65305720 TATATATTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
32 1 0.02
33 18 0.31
34 4 0.07
35 19 0.32
37 3 0.05
38 9 0.15
39 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (33 bp):
TTAAAATTTATTATTAAAATAAAATTATAATAT
Found at i:65305673 original size:35 final size:33
Alignment explanation
Indices: 65305616--65305691 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 33
65305606 TTACTATTAA
65305616 AATTTATTATTAAAATAAAATTATAATATTTAAAT
1 AATTTATTA-TAAAATAAAATTATAATA-TTAAAT
*
65305651 AATTTATTA-AAAATAATTAATTATATTATTAAAT
1 AATTTATTATAAAATAA--AATTATAATATTAAAT
65305685 -ATTTATT
1 AATTTATT
65305692 TTTAGTAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
33 14 0.37
34 6 0.16
35 18 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
AATTTATTATAAAATAAAATTATAATATTAAAT
Found at i:65310955 original size:19 final size:17
Alignment explanation
Indices: 65310931--65310984 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 17
65310921 TAATATTTTT
65310931 TTTATTTTATTATTTATTA
1 TTTATTTTATTATTTA--A
65310950 TTTATTATT-TTATTTAA
1 TTTATT-TTATTATTTAA
65310967 TTTAATTTTATTAATTTA
1 TTT-ATTTTATT-ATTTA
65310985 GGATAGACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.19
18 5 0.16
19 18 0.58
20 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTTTATTATTTAA
Found at i:65310959 original size:31 final size:31
Alignment explanation
Indices: 65310924--65310984 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
65310914 AGGAAGATAA
* * *
65310924 TATTTTTTTTATTTTATTATTTATT-ATTTAT
1 TATTTTATTTAATTTAAT-TTTATTAATTTAT
65310955 TATTTTATTTAATTTAATTTTATTAATTTA
1 TATTTTATTTAATTTAATTTTATTAATTTA
65310985 GGATAGACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (31 bp):
TATTTTATTTAATTTAATTTTATTAATTTAT
Found at i:65310982 original size:14 final size:15
Alignment explanation
Indices: 65310943--65310984 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
65310933 TATTTTATTA
65310943 TTTATT-ATTTATTAT
1 TTTATTAATTTA-TAT
65310958 TTTATTTAATTTA-AT
1 TTTA-TTAATTTATAT
65310973 TTTATTAATTTA
1 TTTATTAATTTA
65310985 GGATAGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.32
15 10 0.40
16 2 0.08
17 5 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTAATTTATAT
Found at i:65315736 original size:46 final size:46
Alignment explanation
Indices: 65315622--65315726 Score: 192
Period size: 46 Copynumber: 2.3 Consensus size: 46
65315612 AGTGTGCTCT
65315622 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
65315668 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
65315714 GTGATATGAAATG
1 CTGATATGAAATG
65315727 AACAAGACCA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:65325544 original size:32 final size:32
Alignment explanation
Indices: 65325495--65325585 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
65325485 ATTTTTTTTA
* * *
65325495 TTTTAATTTGATTAATTTTAATCTTAATATTT
1 TTTTAAATTGATAAATTTTAATCTTAATACTT
* *
65325527 TTTTGAATTGATCAATTTTAATTCTT-ATACTT
1 TTTTAAATTGATAAATTTTAA-TCTTAATACTT
* *
65325559 TTTTAAATTTA-AAATTTTAATCCTAAT
1 TTTTAAATTGATAAATTTTAATCTTAAT
65325586 CTAAACCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
30 3 0.06
31 10 0.20
32 32 0.65
33 4 0.08
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTAAATTGATAAATTTTAATCTTAATACTT
Found at i:65328890 original size:66 final size:67
Alignment explanation
Indices: 65328791--65328915 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 67
65328781 TTAAAATATT
* * *
65328791 TTTCGCATATATATTTATAATCTAAGTTTTAGTTTCCTGATAAATTGTATATA-TATTTAAAGAT
1 TTTCACATATATATTTATAATCTAAGTTTTAGTTTCCTAATAAATTATATATATTATTTAAAGAT
65328855 TC
66 TC
*
65328857 TTTCACATATATATTTATAATCT-AGTTTGTAGTTTCTTAATAAATTATATATATTATTT
1 TTTCACATATATATTTATAATCTAAGTTT-TAGTTTCCTAATAAATTATATATATTATTT
65328916 TCGTAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
65 5 0.09
66 43 0.81
67 5 0.09
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (67 bp):
TTTCACATATATATTTATAATCTAAGTTTTAGTTTCCTAATAAATTATATATATTATTTAAAGAT
TC
Found at i:65344884 original size:11 final size:11
Alignment explanation
Indices: 65344868--65344901 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
65344858 CAAATTCCAC
65344868 AAAATCCTCTT
1 AAAATCCTCTT
*
65344879 AAAATCCTCCT
1 AAAATCCTCTT
65344890 AAAATCCCTCTT
1 AAAAT-CCTCTT
65344902 CCATTATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATCCTCTT
Found at i:65346956 original size:15 final size:16
Alignment explanation
Indices: 65346925--65346958 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
65346915 AATTTCTTTG
65346925 TTCAAAAACAAATTTTA
1 TTCAAAAAC-AATTTTA
65346942 TTCAAAAAC-ATTTTA
1 TTCAAAAACAATTTTA
65346957 TT
1 TT
65346959 TGTCATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
TTCAAAAACAATTTTA
Found at i:65349236 original size:16 final size:16
Alignment explanation
Indices: 65349184--65349238 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
65349174 TTTATGTAAG
65349184 TTTATTTAATATTAGTT
1 TTTATTTAAT-TTAGTT
* **
65349201 GTTAATTTAATTTAAAT
1 -TTTATTTAATTTAGTT
*
65349218 TTTATTTTATTTAGTT
1 TTTATTTAATTTAGTT
65349234 TTTAT
1 TTTAT
65349239 CATAATGTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 17 0.57
17 4 0.13
18 9 0.30
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTATTTAATTTAGTT
Found at i:65351780 original size:2 final size:2
Alignment explanation
Indices: 65351773--65351799 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65351763 TCCTATTCTT
65351773 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
65351800 TTATTTTCTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:65367866 original size:24 final size:23
Alignment explanation
Indices: 65367822--65367866 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
65367812 TGCTGCCAAG
*
65367822 ACTGACTTTGAAAACACAAAAAA
1 ACTGACTTTGAAAAAACAAAAAA
*
65367845 ACTGACTTTGAAAAAACTAAAA
1 ACTGACTTTGAAAAAACAAAAA
65367867 CATAAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.20
Consensus pattern (23 bp):
ACTGACTTTGAAAAAACAAAAAA
Found at i:65368772 original size:3 final size:3
Alignment explanation
Indices: 65368764--65368797 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
65368754 ATACAACACA
65368764 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
65368798 TTCAATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:65380202 original size:21 final size:21
Alignment explanation
Indices: 65380176--65380216 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65380166 TTGTATGTCT
* *
65380176 ACAATTTCATTCTCGTTAGGC
1 ACAATTTCATCCTCCTTAGGC
65380197 ACAATTTCATCCTCCTTAGG
1 ACAATTTCATCCTCCTTAGG
65380217 AAAAATACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (21 bp):
ACAATTTCATCCTCCTTAGGC
Found at i:65384686 original size:20 final size:20
Alignment explanation
Indices: 65384661--65384728 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
65384651 TGTAGTTTCA
*
65384661 AACTTTACTATTTTATGCTC
1 AACTTTACTAATTTATGCTC
* * *
65384681 AACTTT-CCAAATTATAGTTTC
1 AACTTTACTAATTTAT-G-CTC
*
65384702 AAACTTTACTAGTTTATGCTC
1 -AACTTTACTAATTTATGCTC
65384723 AACTTT
1 AACTTT
65384729 CCAAATTTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 6 0.17
20 13 0.36
21 4 0.11
22 7 0.19
23 6 0.17
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (20 bp):
AACTTTACTAATTTATGCTC
Found at i:65384700 original size:42 final size:42
Alignment explanation
Indices: 65384653--65384735 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
65384643 TTTAACCCTG
*
65384653 TAGTTTCAAACTTTACTATTTTATGCTCAACTTTCCAAATTA
1 TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATTA
65384695 TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATT
1 TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATT
65384736 TTCATATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (42 bp):
TAGTTTCAAACTTTACTAGTTTATGCTCAACTTTCCAAATTA
Found at i:65402571 original size:31 final size:29
Alignment explanation
Indices: 65402519--65402589 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 29
65402509 AATTTTTTAA
65402519 AATTTT-AAAATTTAAAAAAATATAATTT
1 AATTTTAAAAATTTAAAAAAATATAATTT
**
65402547 AATTTTAAAAATTATATAAAAAATATCTTTT
1 AATTTTAAAAATT-TA-AAAAAATATAATTT
65402578 AATATTTAAAAA
1 AAT-TTTAAAAA
65402590 AGTGATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 6 0.16
29 6 0.16
30 2 0.05
31 15 0.41
32 8 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTTAAAAATTTAAAAAAATATAATTT
Found at i:65406566 original size:17 final size:17
Alignment explanation
Indices: 65406544--65406594 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
65406534 GAATTACCTA
65406544 AAATTTTATATATTTTT
1 AAATTTTATATATTTTT
*
65406561 AAA-TTTAAATTATTTTT
1 AAATTTTATA-TATTTTT
* *
65406578 AGTATTTTTTATATTTT
1 A-AATTTTATATATTTT
65406595 GATATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 7 0.26
19 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
AAATTTTATATATTTTT
Found at i:65409433 original size:3 final size:3
Alignment explanation
Indices: 65409427--65409474 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
65409417 TTATCACTTC
65409427 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65409475 ATTTTACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:65409866 original size:22 final size:21
Alignment explanation
Indices: 65409827--65409925 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 21
65409817 TTTTCTTTTA
65409827 ATATTTTATATATTATTATGTAC
1 ATATTTT-TATA-TATTATGTAC
* *
65409850 ATATTTTGATATCATTA-GTTAT
1 ATATTTTTATAT-ATTATG-TAC
*
65409872 ATATTTTTATATATTATGTAT
1 ATATTTTTATATATTATGTAC
* *
65409893 ATTTCTTTTACTAT-TTCATGTAT
1 ATAT-TTTTA-TATATT-ATGTAC
65409916 ATATTTTTAT
1 ATATTTTTAT
65409926 TTCATCTCAT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 13 0.20
22 33 0.51
23 19 0.29
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATATTTTTATATATTATGTAC
Found at i:65409975 original size:23 final size:24
Alignment explanation
Indices: 65409937--65409990 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
65409927 TCATCTCATG
* * *
65409937 TATAAATTTTTGAATACTATGTTA
1 TATATATTTTTGAATACCATCTTA
65409961 TATATATTTTT-AATACCATCTTA
1 TATATATTTTTGAATACCATCTTA
*
65409984 TGTATAT
1 TATATAT
65409991 ATTATTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (24 bp):
TATATATTTTTGAATACCATCTTA
Found at i:65410228 original size:10 final size:10
Alignment explanation
Indices: 65410213--65410237 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65410203 ATATGTTTAT
65410213 TATATATGTA
1 TATATATGTA
65410223 TATATATGTA
1 TATATATGTA
65410233 TATAT
1 TATAT
65410238 TTTAATAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATATGTA
Found at i:65410255 original size:25 final size:26
Alignment explanation
Indices: 65410221--65410317 Score: 80
Period size: 25 Copynumber: 3.9 Consensus size: 26
65410211 ATTATATATG
65410221 TATATATATGTATATA-TTTTAATAAC
1 TATAT-TATGTATATACTTTTAATAAC
* * *
65410247 TATATTATGTATGTATTTTTAA-CAC
1 TATATTATGTATATACTTTTAATAAC
* * *
65410272 TATTTTATGTATACACTTTCAAT-A-
1 TATATTATGTATATACTTTTAATAAC
*
65410296 T-TATTATGTATTTA-TTTTAATA
1 TATATTATGTATATACTTTTAATA
65410318 CATATGTACA
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
22 6 0.11
23 10 0.18
24 1 0.02
25 29 0.51
26 11 0.19
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (26 bp):
TATATTATGTATATACTTTTAATAAC
Found at i:65410392 original size:31 final size:30
Alignment explanation
Indices: 65410327--65410393 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 30
65410317 ACATATGTAC
65410327 ATAT-TTATGTAGTATTATTAATATATTTT
1 ATATGTTATGTAGTATTATTAATATATTTT
*
65410356 TTATGTTAT-TAGTATT-TCTAATATATATTGT
1 ATATGTTATGTAGTATTAT-TAATATAT-TT-T
65410387 ATATGTT
1 ATATGTT
65410394 CATTTTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 18 0.56
30 6 0.19
31 7 0.22
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (30 bp):
ATATGTTATGTAGTATTATTAATATATTTT
Found at i:65413515 original size:21 final size:21
Alignment explanation
Indices: 65413490--65413530 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65413480 TTCCATACTT
* *
65413490 AATTTTAATTATTAGTTAATG
1 AATTTAAATTATTAATTAATG
65413511 AATTTAAATTATTAATTAAT
1 AATTTAAATTATTAATTAAT
65413531 TTTAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTTAAATTATTAATTAATG
Found at i:65413525 original size:17 final size:19
Alignment explanation
Indices: 65413490--65413537 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
65413480 TTCCATACTT
65413490 AATTTTAATTATTAGTTAATG
1 AATTTTAA--ATTAGTTAATG
*
65413511 AA-TTTAAATTA-TTAATT
1 AATTTTAAATTAGTTAATG
65413528 AATTTTAAAT
1 AATTTTAAAT
65413538 ATCATGAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 7 0.28
18 11 0.44
20 5 0.20
21 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
AATTTTAAATTAGTTAATG
Found at i:65427213 original size:7 final size:7
Alignment explanation
Indices: 65427201--65427227 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65427191 GGCAGGAAAG
65427201 TGAAAAC
1 TGAAAAC
65427208 TGAAAAC
1 TGAAAAC
65427215 TGAAAAC
1 TGAAAAC
65427222 TGAAAA
1 TGAAAA
65427228 GGCTGTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAC
Found at i:65430519 original size:30 final size:31
Alignment explanation
Indices: 65430478--65430570 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
65430468 CTAGCCTAAC
*
65430478 CTTAAAAAAAAACATTT-A-ATAGCCTAATGA
1 CTTAAATAAAAAC-TTTCAGATAGCCTAATGA
* ** *
65430508 TTTAAATAAAAACTTTCAGATAGTTTAGTGA
1 CTTAAATAAAAACTTTCAGATAGCCTAATGA
* **
65430539 CTTAAATAAAAACTTTCAAATAGTTTAATGA
1 CTTAAATAAAAACTTTCAGATAGCCTAATGA
65430570 C
1 C
65430571 CATTTTGTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 3 0.06
30 12 0.23
31 38 0.72
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (31 bp):
CTTAAATAAAAACTTTCAGATAGCCTAATGA
Found at i:65430544 original size:31 final size:31
Alignment explanation
Indices: 65430502--65430570 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
65430492 TTTAATAGCC
* *
65430502 TAATGATTTAAATAAAAACTTTCAGATAGTT
1 TAATGACTTAAATAAAAACTTTCAAATAGTT
*
65430533 TAGTGACTTAAATAAAAACTTTCAAATAGTT
1 TAATGACTTAAATAAAAACTTTCAAATAGTT
65430564 TAATGAC
1 TAATGAC
65430571 CATTTTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (31 bp):
TAATGACTTAAATAAAAACTTTCAAATAGTT
Found at i:65431476 original size:22 final size:22
Alignment explanation
Indices: 65431429--65431476 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
65431419 TATTTAAGTT
* *
65431429 AATAATTAAATTAGTGATTTAT
1 AATAATTAAATTAGTGAATTAA
65431451 AATAATTAAA-TAGTGCAATTAA
1 AATAATTAAATTAGTG-AATTAA
65431473 AATA
1 AATA
65431477 GTGATCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (22 bp):
AATAATTAAATTAGTGAATTAA
Found at i:65431557 original size:10 final size:11
Alignment explanation
Indices: 65431537--65431561 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65431527 TGTTTGCTTC
65431537 TTTCTTTTTTT
1 TTTCTTTTTTT
65431548 TTTCTTTTTTT
1 TTTCTTTTTTT
65431559 TTT
1 TTT
65431562 ATGTTATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:65432186 original size:17 final size:17
Alignment explanation
Indices: 65432164--65432205 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
65432154 AGTATGGGAA
65432164 GTAATCTTCAAAGATAT
1 GTAATCTTCAAAGATAT
*
65432181 GTAATCTTCGAAGATAT
1 GTAATCTTCAAAGATAT
*
65432198 GCAATCTT
1 GTAATCTT
65432206 AGAAGATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (17 bp):
GTAATCTTCAAAGATAT
Found at i:65432210 original size:17 final size:17
Alignment explanation
Indices: 65432174--65432212 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
65432164 GTAATCTTCA
* *
65432174 AAGATATGTAATCTTCG
1 AAGATATGCAATCTTAG
65432191 AAGATATGCAATCTTAG
1 AAGATATGCAATCTTAG
65432208 AAGAT
1 AAGAT
65432213 TTGATTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (17 bp):
AAGATATGCAATCTTAG
Found at i:65439339 original size:14 final size:14
Alignment explanation
Indices: 65439320--65439349 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65439310 AATGTAAGTA
65439320 ATCCATTTTAAATG
1 ATCCATTTTAAATG
*
65439334 ATCCATTTTAAGTG
1 ATCCATTTTAAATG
65439348 AT
1 AT
65439350 TTGAGAGTGC
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:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (14 bp):
ATCCATTTTAAATG
Found at i:65446084 original size:18 final size:19
Alignment explanation
Indices: 65446040--65446101 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
65446030 TAATAATCAC
*
65446040 AAAAATGAAATAAAATAATAT
1 AAAAA-GAATTAAAATAA-AT
* *
65446061 ATAAAAAAATTAAAGTAAAT
1 A-AAAAGAATTAAAATAAAT
*
65446081 AAAAAGATTTAAAATAAAT
1 AAAAAGAATTAAAATAAAT
65446100 AA
1 AA
65446102 TAAATGAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 17 0.50
20 3 0.09
21 10 0.29
22 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAAGAATTAAAATAAAT
Found at i:65446105 original size:26 final size:25
Alignment explanation
Indices: 65446076--65446392 Score: 163
Period size: 26 Copynumber: 12.0 Consensus size: 25
65446066 AAAATTAAAG
65446076 TAAATAAAAAGATTTAAAATAAATAA
1 TAAATAAAAA-ATTTAAAATAAATAA
* * *
65446102 TAAATGAAACAACTTAAAGTAAATAA
1 TAAAT-AAAAAATTTAAAATAAATAA
* *
65446128 TATATTAAAAAAACAGTTTCAAATAAATAA
1 TA-A--ATAAAAA-A-TTTAAAATAAATAA
** *
65446158 TGTATGAAAAAAACTTAAAATAAATAA
1 TAAAT--AAAAAATTTAAAATAAATAA
**
65446185 TAATAATAAAACAGCTTAAAATAAATAA
1 T-A-AATAAAA-AATTTAAAATAAATAA
* * *
65446213 T--ATGAAAATTTTAAAATGAATAA
1 TAAATAAAAAATTTAAAATAAATAA
* * *
65446236 TAGATAAAACAATTTAAATTGAATATTA
1 TAAATAAAA-AATTTAAAAT-AA-ATAA
** * *
65446264 TACGT-AAAAATTTTAAATAGATAA
1 TAAATAAAAAATTTAAAATAAATAA
* *
65446288 TATATAAAATAGTTTAAAATAAATAA
1 TAAATAAAA-AATTTAAAATAAATAA
* * *
65446314 TATTATAAATAATGTTTAAAATAACTAA
1 TA-AATAAA-AA-ATTTAAAATAAATAA
* *
65446342 TAAATAAAAATTTTAAAATAAACAA
1 TAAATAAAAAATTTAAAATAAATAA
* * *
65446367 TATATGAAAAGATTTTAAATAAATAA
1 TAAAT-AAAAAATTTAAAATAAATAA
65446393 GATAAGCAAG
Statistics
Matches: 223, Mismatches: 46, Indels: 44
0.71 0.15 0.14
Matches are distributed among these distances:
23 14 0.06
24 11 0.05
25 25 0.11
26 69 0.31
27 39 0.17
28 44 0.20
29 9 0.04
30 12 0.05
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (25 bp):
TAAATAAAAAATTTAAAATAAATAA
Found at i:65446142 original size:30 final size:29
Alignment explanation
Indices: 65446108--65446215 Score: 114
Period size: 28 Copynumber: 3.8 Consensus size: 29
65446098 ATAATAAATG
*
65446108 AAACAACTTAAAGTAAATAATATATTAAAA
1 AAACAACTTAAAATAAATAATATA-TAAAA
** * * *
65446138 AAACAGTTTCAAATAAATAATGTAT-GAA
1 AAACAACTTAAAATAAATAATATATAAAA
*
65446166 AAA-AACTTAAAATAAATAATA-ATAATA
1 AAACAACTTAAAATAAATAATATATAAAA
*
65446193 AAACAGCTTAAAATAAATAATAT
1 AAACAACTTAAAATAAATAATAT
65446216 GAAAATTTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
26 2 0.03
27 18 0.29
28 22 0.35
29 1 0.02
30 19 0.31
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (29 bp):
AAACAACTTAAAATAAATAATATATAAAA
Found at i:65446158 original size:56 final size:55
Alignment explanation
Indices: 65446089--65446214 Score: 164
Period size: 55 Copynumber: 2.3 Consensus size: 55
65446079 ATAAAAAGAT
* * *
65446089 TTAAAATAAATAATAAATG-AAACAACTTAAAGTAAATAATATATTAAAAAAACAGT
1 TTAAAATAAATAATAAATGAAAAAAACTTAAAATAAATAATA-A-TAAAAAAACAGC
* ** *
65446145 TTCAAATAAATAATGTATGAAAAAAACTTAAAATAAATAATAATAATAAAACAGC
1 TTAAAATAAATAATAAATGAAAAAAACTTAAAATAAATAATAATAAAAAAACAGC
65446200 TTAAAATAAATAATA
1 TTAAAATAAATAATA
65446215 TGAAAATTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
55 23 0.38
56 17 0.28
57 20 0.33
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.27
Consensus pattern (55 bp):
TTAAAATAAATAATAAATGAAAAAAACTTAAAATAAATAATAATAAAAAAACAGC
Found at i:65446167 original size:27 final size:26
Alignment explanation
Indices: 65446089--65446220 Score: 90
Period size: 28 Copynumber: 4.8 Consensus size: 26
65446079 ATAAAAAGAT
* *
65446089 TTAAAATAAATAATAAATG-AAACAAC
1 TTAAAATAAATAAT-TATGAAAACAGC
* * *
65446115 TTAAAGTAAATAATATATTAAAAAAACAGT
1 TTAAAATAAATAAT-TA-T--GAAAACAGC
* * *
65446145 TTCAAATAAATAATGTATGAAAAAAAC
1 TTAAAATAAATAAT-TATGAAAACAGC
65446172 TTAAAATAAATAATAATAAT-AAAACAGC
1 TTAAAATAAATAAT--T-ATGAAAACAGC
65446200 TTAAAATAAATAA-TATGAAAA
1 TTAAAATAAATAATTATGAAAA
65446221 TTTTAAAATG
Statistics
Matches: 83, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
24 2 0.02
25 5 0.06
26 15 0.18
27 19 0.23
28 20 0.24
29 3 0.04
30 19 0.23
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (26 bp):
TTAAAATAAATAATTATGAAAACAGC
Found at i:65449972 original size:57 final size:57
Alignment explanation
Indices: 65449895--65450092 Score: 176
Period size: 57 Copynumber: 3.4 Consensus size: 57
65449885 ATTTTCAAAA
* *
65449895 TTTTTTGGGTGCTGGTCTTCTAATGGCCAGCACTAGTACAAAAATATCAGGAAATTT
1 TTTTTTTGGTGCTGGCCTTCTAATGGCCAGCACTAGTACAAAAATATCAGGAAATTT
* * *
65449952 TTTTTTTGCTGCTGGCCTTCTAATGGCCGACACCACTGTAGTA-AAAAAAATTCA--AAA---
1 TTTTTTTGGTGCTGGCCTTCTAATGG-C--CAGCAC--TAGTACAAAAATA-TCAGGAAATTT
* * * * *
65450009 -TTTTTTGAGTGCTGGTCTTTTAATGGCCGGCACCAGTACAAAAATATCAAGGAATTTTT
1 TTTTTTTG-GTGCTGGCCTTCTAATGGCCAGCACTAGTACAAAAATATC-AGGAA-ATTT
65450068 TTTTTTTGGTGCTGGCCTTCTAATG
1 TTTTTTTGGTGCTGGCCTTCTAATG
65450093 AACAGGCAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
52 6 0.05
53 7 0.06
54 4 0.04
55 2 0.02
56 8 0.07
57 38 0.35
58 1 0.01
59 15 0.14
60 15 0.14
61 6 0.05
62 8 0.07
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (57 bp):
TTTTTTTGGTGCTGGCCTTCTAATGGCCAGCACTAGTACAAAAATATCAGGAAATTT
Found at i:65450047 original size:114 final size:118
Alignment explanation
Indices: 65449838--65450092 Score: 401
Period size: 114 Copynumber: 2.2 Consensus size: 118
65449828 AAAAAAATAA
* *
65449838 TTTTGGTGCTGGCCTTCTAATGGCCGGCACCACTCTAGTAAAAAAAAATTTTCAAAATTTTTTGG
1 TTTTGGTGCTGGCCTTCTAATGGCCGACACCACTCTAGTAAAAAAAAA-TTTCAAAATTTTTTGA
*
65449903 GTGCTGGTCTTCTAATGGCCAGCACTAGTACAAAAATATC-AGGAA-ATTTTTT
65 GTGCTGGTCTTCTAATGGCCAGCACCAGTACAAAAATATCAAGGAATATTTTTT
* *
65449955 TTTTGCTGCTGGCCTTCTAATGGCCGACACCACTGTAGT-AAAAAAAA-TTCAAAATTTTTTGAG
1 TTTTGGTGCTGGCCTTCTAATGGCCGACACCACTCTAGTAAAAAAAAATTTCAAAATTTTTTGAG
* * *
65450018 TGCTGGTCTTTTAATGGCCGGCACCAGTACAAAAATATCAAGGAATTTTTTTT
66 TGCTGGTCTTCTAATGGCCAGCACCAGTACAAAAATATCAAGGAATATTTTTT
65450071 TTTTGGTGCTGGCCTTCTAATG
1 TTTTGGTGCTGGCCTTCTAATG
65450093 AACAGGCAAA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
114 51 0.40
115 5 0.04
116 35 0.28
117 36 0.28
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (118 bp):
TTTTGGTGCTGGCCTTCTAATGGCCGACACCACTCTAGTAAAAAAAAATTTCAAAATTTTTTGAG
TGCTGGTCTTCTAATGGCCAGCACCAGTACAAAAATATCAAGGAATATTTTTT
Found at i:65460275 original size:51 final size:54
Alignment explanation
Indices: 65460217--65460318 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 54
65460207 ATAGGAAAAA
* *
65460217 ATATATATTTG-ATAATAAT-AATATA-AAATAATAATATGTAC-ATAAAAATAC
1 ATATATATATGCAT-ATAATAAATATAGAAATAATAATATCTACAATAAAAATAC
*
65460268 ATATATATATGCATATAATAAATATATGTAATAATAATATCTACAATAAAA
1 ATATATATATGCATATAATAAATATA-GAAATAATAATATCTACAATAAAA
65460319 GAAAATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
51 15 0.35
52 8 0.19
54 14 0.33
55 6 0.14
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (54 bp):
ATATATATATGCATATAATAAATATAGAAATAATAATATCTACAATAAAAATAC
Found at i:65460402 original size:17 final size:17
Alignment explanation
Indices: 65460380--65460440 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
65460370 ACAATAATAT
65460380 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
65460397 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
65460414 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
65460428 AAAATATATATAT
1 AAAATATATATAT
65460441 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:65461211 original size:16 final size:14
Alignment explanation
Indices: 65461192--65461228 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
65461182 TTTGTTGTTT
65461192 TTTTTTTGCTAGAAAA
1 TTTTTTTGCT-G-AAA
65461208 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
65461222 TTTTTTT
1 TTTTTTT
65461229 TTGCTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:65461229 original size:15 final size:16
Alignment explanation
Indices: 65461191--65461229 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
65461181 TTTTGTTGTT
65461191 TTTTTTTTGCTAGAAA
1 TTTTTTTTGCTAGAAA
*
65461207 ATTTTTTTGCT-GAAA
1 TTTTTTTTGCTAGAAA
65461222 TTTTTTTT
1 TTTTTTTT
65461230 TGCTCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTAGAAA
Found at i:65461229 original size:16 final size:17
Alignment explanation
Indices: 65461190--65461233 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
65461180 TTTTTGTTGT
65461190 TTTTTTTTTGCTAGAAA
1 TTTTTTTTTGCTAGAAA
*
65461207 -ATTTTTTTGCT-GAAA
1 TTTTTTTTTGCTAGAAA
65461222 TTTTTTTTTGCT
1 TTTTTTTTTGCT
65461234 CTTTTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (17 bp):
TTTTTTTTTGCTAGAAA
Found at i:65461513 original size:30 final size:30
Alignment explanation
Indices: 65461456--65461571 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
65461446 GTAATTTTTA
* *
65461456 GAAAATTTA-GGGTAAAAAT-ACAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGA-AATTTAAG
* * *
65461485 GAAAGTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
*
65461515 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
*
65461544 GAAAAGTTTAGGGGTCAAAATGCAATTT
1 G-AAAGTTTAGGGGTCAAAATGAAATTT
65461572 TTATTTTTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.14
30 62 0.85
31 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.28
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:65461571 original size:60 final size:59
Alignment explanation
Indices: 65461455--65461571 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 59
65461445 TGTAATTTTT
* *
65461455 AGAAAATTTAGGGTAAAAATACAATTTAAGGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTAAAAATACAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
65461514 AGAAAGTTTAAGGGTCAAAATGA-AATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGGTAAAAAT-ACAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
65461572 TTATTTTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 11 0.22
60 38 0.76
61 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.28
Consensus pattern (59 bp):
AGAAAATTTAGGGTAAAAATACAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:65461595 original size:24 final size:24
Alignment explanation
Indices: 65461568--65461613 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
65461558 TCAAAATGCA
* *
65461568 ATTTTTATTTTTTGAAATTTTTTT
1 ATTTTTATTTTTTAAAAATTTTTT
65461592 ATTTTTATTTTTTAAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
65461614 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTATTTTTTAAAAATTTTTT
Found at i:65462005 original size:77 final size:76
Alignment explanation
Indices: 65461801--65462063 Score: 291
Period size: 77 Copynumber: 3.4 Consensus size: 76
65461791 AATCCGAAGT
* *
65461801 TCAACTCACCTCTCG-AATTATGAGTTGA--TCTTTTGAAAAAGTAAAAAATTGAAAATACCTCA
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTTGAAAAA--AAGAAATTGAAAATACCTCA
* *
65461863 GCGTGTGACCTGGGGC
63 --GTGTGTCCTGAGGC
* * * *
65461879 TTAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAATACCTCAATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAAGAAATTGAAAATACCTCAGTG
*
65461943 TGTCTTGAGGC
66 TGTCCTGAGGC
** * * *
65461954 TCAACTCATTTCTCGCAATATGAGTTGACTTTTTTTTTAAAAAAAGGAATTGAAATTACCTCAGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAAAAAGAAATTGAAAATACCTCAGT
*
65462019 GTGTCCCGAGGC
65 GTGTCCTGAGGC
* *
65462031 TCAACTCACCTCTCGTAATATGAATTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
65462064 GGAAAACATA
Statistics
Matches: 157, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
75 35 0.22
76 5 0.03
77 81 0.52
78 24 0.15
79 12 0.08
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAAGAAATTGAAAATACCTCAGTG
TGTCCTGAGGC
Found at i:65462208 original size:89 final size:87
Alignment explanation
Indices: 65461992--65462397 Score: 500
Period size: 87 Copynumber: 4.7 Consensus size: 87
65461982 CTTTTTTTTT
* * * * * *
65461992 AAAAAAAGGAATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
*
65462057 GATTTTTGGAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * *
65462079 AAAAAC-GAAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
* *
65462143 TGATTTTTGAAAAATATAGATTGG
65 TGATTTTTGAAAAACATAAATT-G
* *
65462167 AAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
*
65462232 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * **
65462251 AAGAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCATAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* *
65462316 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * *
65462338 AAAAATATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
65462398 AAGTCGACTT
Statistics
Matches: 273, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
83 61 0.22
85 4 0.01
86 18 0.07
87 127 0.47
88 1 0.00
89 61 0.22
90 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
GATTTTTGAAAAACATAAATTG
Found at i:65462344 original size:14 final size:14
Alignment explanation
Indices: 65462325--65462354 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
65462315 TGATTTTTGC
65462325 AAAATATAAATTGA
1 AAAATATAAATTGA
65462339 AAAATATAAATTGA
1 AAAATATAAATTGA
65462353 AA
1 AA
65462355 TTACCTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
AAAATATAAATTGA
Found at i:65462503 original size:259 final size:252
Alignment explanation
Indices: 65462001--65462482 Score: 634
Period size: 259 Copynumber: 1.9 Consensus size: 252
65461991 TAAAAAAAGG
* * * * *
65462001 AATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATTGATTTTTGG
1 AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGC
* *
65462066 AAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCT
66 AAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCT
* *
65462131 CGCAATATGAGTTGATTTTTGAAAAATATAGATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
131 CGCAATATAAGTCGATTTTT-----ATAT--ATTGGAAAAAACAGAAATTGAAAATACCTCAGCG
* * *
65462196 TGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGA
189 TGCCCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGA
*
65462260 AATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGC
1 AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGC
* * * * *
65462325 AAAATATAAATTGAAAAA-TATAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTC
66 AAAACATAAATTGAAAAACGA-AAATCGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTC
* * *
65462389 TCGCAATATAAGTCGACTTTTT-T-T-TT-G-ACAAACAGTAATTGAAAATACCTCGGCGTGCCC
130 TCGCAATATAAGTCGA-TTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCC
* *
65462449 CGAGGCTCAACTCACTTCTCACAATATGAGTTGA
194 CAAGGCTCAACTCACCTCTCACAATATGAGTTGA
65462483 ATTTTGAAAA
Statistics
Matches: 198, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
248 59 0.30
249 1 0.01
250 2 0.01
253 1 0.01
254 1 0.01
258 1 0.01
259 128 0.65
260 5 0.03
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (252 bp):
AATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCATAATATGAATTGATTTTTGC
AAAACATAAATTGAAAAACGAAAATCGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCT
CGCAATATAAGTCGATTTTTATATATTGGAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCA
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTAAAAACAGTCATTAAGAACAGA
Found at i:65465583 original size:5 final size:5
Alignment explanation
Indices: 65465575--65465653 Score: 151
Period size: 5 Copynumber: 16.0 Consensus size: 5
65465565 TTATGTTTAG
65465575 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
65465625 TATAT TATAT TATAT TATAT TATA- TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
65465654 AAACTAAAGA
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.05
5 69 0.95
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:65466944 original size:15 final size:15
Alignment explanation
Indices: 65466924--65466980 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
65466914 CGATGAATTT
65466924 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
65466939 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
65466954 ATTGAATTTATATTG
1 ATTGAATTTATATTG
65466969 ATTGAA-TTATAT
1 ATTGAATTTATAT
65466981 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:65477912 original size:17 final size:17
Alignment explanation
Indices: 65477890--65477931 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
65477880 ACAATAATAT
65477890 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
65477907 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
65477924 ATAATATA
1 AAAATATA
65477932 GTTATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:65478725 original size:15 final size:14
Alignment explanation
Indices: 65478706--65478743 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
65478696 TTTTTGTTGT
65478706 TTTTTTTTGCTAGAAA
1 TTTTTTTTGCT-G-AA
65478722 TTTTTTTTGCTGAA
1 TTTTTTTTGCTGAA
65478736 TTTTTTTT
1 TTTTTTTT
65478744 TGCTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 11 0.50
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (14 bp):
TTTTTTTTGCTGAA
Found at i:65478744 original size:15 final size:16
Alignment explanation
Indices: 65478705--65478747 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
65478695 TTTTTTGTTG
65478705 TTTTTTTTTGCTAGAA
1 TTTTTTTTTGCTAGAA
*
65478721 ATTTTTTTTGCT-GAA
1 TTTTTTTTTGCTAGAA
65478736 TTTTTTTTTGCT
1 TTTTTTTTTGCT
65478748 TTTTTCTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTGCTAGAA
Found at i:65479001 original size:29 final size:30
Alignment explanation
Indices: 65478955--65479084 Score: 122
Period size: 30 Copynumber: 4.4 Consensus size: 30
65478945 TTCTGGGGCT
* * *
65478955 AAATGTAATTTTTA-GAAATTTTA-GGGTTA
1 AAATGTAA-TTTAAGGAAAGTTTAGGGGTCA
**
65478984 AAATGTAATTTAAGGAAAGTTTAGGGGTTT
1 AAATGTAATTTAAGGAAAGTTTAGGGGTCA
* * * **
65479014 AAGTGAAATTTAAAGAAAGTTTAAAGGTCA
1 AAATGTAATTTAAGGAAAGTTTAGGGGTCA
*
65479044 AAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAGG-AAAGTTTAGGGGTCA
65479074 AAATGTAATTT
1 AAATGTAATTT
65479085 TTATTTTTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
28 4 0.05
29 18 0.22
30 61 0.73
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.35
Consensus pattern (30 bp):
AAATGTAATTTAAGGAAAGTTTAGGGGTCA
Found at i:65479084 original size:60 final size:59
Alignment explanation
Indices: 65478955--65479084 Score: 145
Period size: 60 Copynumber: 2.2 Consensus size: 59
65478945 TTCTGGGGCT
** * * * * **
65478955 AAATGTAATTTTTAGAAATTTTAGGGTTAAAATGTAATTTAAGGAAAGTTTAGGGGTTT
1 AAATGTAATTTAAAGAAATTTAAAGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
* *
65479014 AAGTGAAATTTAAAGAAAGTTTAAAGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTCA
1 AAATGTAATTTAAAGAAA-TTTAAAGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTCA
65479074 AAATGTAATTT
1 AAATGTAATTT
65479085 TTATTTTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 17 0.30
60 40 0.70
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.35
Consensus pattern (59 bp):
AAATGTAATTTAAAGAAATTTAAAGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTCA
Found at i:65483928 original size:31 final size:30
Alignment explanation
Indices: 65483892--65483952 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
65483882 CAAATTATGA
*
65483892 TTGTTTATGTTCCTTTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCC-CTTTTTTTTTGTGTGTG
65483923 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
65483953 ATAAAGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.03, C:0.08, G:0.20, T:0.69
Consensus pattern (30 bp):
TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
Found at i:65483944 original size:32 final size:31
Alignment explanation
Indices: 65483892--65483952 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 31
65483882 CAAATTATGA
*
65483892 TTGTTTATGTTCCTTTTTTTTTTTGTGTGTG
1 TTGTTTATGTTCCTTTTTTTTTGTGTGTGTG
65483923 TTGTTTATGTTCCCTTTTTTTTTGTGTGTG
1 TTGTTTATGTT-CCTTTTTTTTTGTGTGTG
65483953 ATAAAGCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.03, C:0.08, G:0.20, T:0.69
Consensus pattern (31 bp):
TTGTTTATGTTCCTTTTTTTTTGTGTGTGTG
Found at i:65489111 original size:17 final size:17
Alignment explanation
Indices: 65489089--65489127 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
65489079 TCAGGACACT
65489089 AATTTGAGT-TAATCAAC
1 AATTTG-GTCTAATCAAC
65489106 AATTT-GTCTAATCAAC
1 AATTTGGTCTAATCAAC
65489122 AATTTG
1 AATTTG
65489128 TCAATATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (17 bp):
AATTTGGTCTAATCAAC
Found at i:65489119 original size:16 final size:16
Alignment explanation
Indices: 65489098--65489129 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
65489088 TAATTTGAGT
65489098 TAATCAACAATTTGTC
1 TAATCAACAATTTGTC
65489114 TAATCAACAATTTGTC
1 TAATCAACAATTTGTC
65489130 AATATTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATCAACAATTTGTC
Found at i:65494641 original size:3 final size:3
Alignment explanation
Indices: 65494633--65494657 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65494623 ACAATGTCAT
65494633 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
65494658 ATGACTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65497520 original size:21 final size:21
Alignment explanation
Indices: 65497494--65497713 Score: 176
Period size: 21 Copynumber: 10.5 Consensus size: 21
65497484 GCTTGTAAGC
*
65497494 TGAACAGAAACTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
*
65497515 TGAACA-AAAGCTCATAAGAGC
1 TGAACAGAAA-CTCATAAGAGT
*
65497536 TGAACAAAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * *
65497557 TGAA-AAAAAGCTCGTAAGAGC
1 TGAACAGAAA-CTCATAAGAGT
* * *
65497578 TAAACAGAAACTCGTATGAGT
1 TGAACAGAAACTCATAAGAGT
* * * *
65497599 TAAATAGAAGCTCATAAGAGC
1 TGAACAGAAACTCATAAGAGT
* *
65497620 TGAACAGAAACTCTTAAAAGT
1 TGAACAGAAACTCATAAGAGT
* **
65497641 TGAATAGAAGGTCA-ATAGAGT
1 TGAACAGAAACTCATA-AGAGT
*
65497662 TGAACGGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * * *
65497683 TAAATAGAAACTCGTAAGAGC
1 TGAACAGAAACTCATAAGAGT
*
65497704 TAAACAGAAA
1 TGAACAGAAA
65497714 GTAAAACACA
Statistics
Matches: 158, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
20 9 0.06
21 141 0.89
22 8 0.05
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Done.