Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 49 of 425
Found at i:13061953 original size:46 final size:46
Alignment explanation
Indices: 13061904--13062131 Score: 260
Period size: 46 Copynumber: 5.0 Consensus size: 46
13061894 AGACCATGGT
* * * * *
13061904 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
13061950 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
13061996 GGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13062042 ATGAAATGAATAAGACCATGGTTGAAAGGTACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
13062088 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
13062132 TCAAAGATAA
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
45 1 0.01
46 155 0.99
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:13062010 original size:114 final size:114
Alignment explanation
Indices: 13061789--13062022 Score: 344
Period size: 114 Copynumber: 2.1 Consensus size: 114
13061779 TGCTCTTTGA
* *
13061789 TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAACGTGTAAGACCA
* * * * ***
13061854 TGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGG
66 TGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGG
* *
13061903 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCA
1 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAACGTGTAAGACCA
* *
13061968 TGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGG
66 TGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGG
13062017 T-TGAAA
1 TATGAAA
13062023 GATACCATGG
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 5 0.05
114 102 0.95
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (114 bp):
TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAACGTGTAAGACCA
TGGTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGG
Found at i:13062075 original size:92 final size:92
Alignment explanation
Indices: 13061914--13062126 Score: 300
Period size: 92 Copynumber: 2.3 Consensus size: 92
13061904 ATGAAACGTG
* **
13061914 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* * *
13061979 TACCATGGCAACATGACGGGAAATAAA
66 TACCATGACAACATGACAGAAAATAAA
* * *
13062006 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGG
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* *
13062071 TACCATGACAACATGACAGAAAATGAG
66 TACCATGACAACATGACAGAAAATAAA
* * *
13062098 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
13062127 TCATGTCAAA
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 107 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
TACCATGACAACATGACAGAAAATAAA
Found at i:13064250 original size:30 final size:30
Alignment explanation
Indices: 13064192--13064250 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13064182 ATTTTCGGGC
* * **
13064192 CTAGGGGTAAAATAGTTATTTTGTCAAAGT
1 CTAGGGGCAAAATAGTCATTTTACCAAAGT
*
13064222 CTAGGGGCAAAATGGTCATTTTACCAAAG
1 CTAGGGGCAAAATAGTCATTTTACCAAAG
13064251 ATATAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATAGTCATTTTACCAAAGT
Found at i:13075499 original size:20 final size:20
Alignment explanation
Indices: 13075463--13075502 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13075453 TTGAAATGCT
*
13075463 AATAGAGGCACCGAAGTGCA
1 AATAGAGGCACCAAAGTGCA
*
13075483 AATAGAGGCACTAAAGTGCA
1 AATAGAGGCACCAAAGTGCA
13075503 CTCCCATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (20 bp):
AATAGAGGCACCAAAGTGCA
Found at i:13077458 original size:23 final size:22
Alignment explanation
Indices: 13077428--13077472 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
13077418 TATATGCTTG
13077428 TGCATTCTGGAGGAGATCTCACT
1 TGCATTCTGGAGGAGAT-TCACT
13077451 TGCATTCTGGAGGAGATTCACT
1 TGCATTCTGGAGGAGATTCACT
13077473 CCTATAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (22 bp):
TGCATTCTGGAGGAGATTCACT
Found at i:13090073 original size:17 final size:17
Alignment explanation
Indices: 13090053--13090086 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13090043 ATGTGAAATA
13090053 ATAAGTTGAGTGACTGT
1 ATAAGTTGAGTGACTGT
13090070 ATAAGTTGAGTGACTGT
1 ATAAGTTGAGTGACTGT
13090087 GCTTATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (17 bp):
ATAAGTTGAGTGACTGT
Found at i:13091457 original size:11 final size:11
Alignment explanation
Indices: 13091441--13091480 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
13091431 GTGGTGTTTG
*
13091441 GATATGAATTT
1 GATATGTATTT
13091452 GATATGTATTT
1 GATATGTATTT
*
13091463 GGTATGTATTT
1 GATATGTATTT
*
13091474 GGTATGT
1 GATATGT
13091481 TTGTAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (11 bp):
GATATGTATTT
Found at i:13091473 original size:22 final size:23
Alignment explanation
Indices: 13091437--13091480 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
13091427 CTTGGTGGTG
13091437 TTTGGATATGAATTTGATATGTA
1 TTTGGATATGAATTTGATATGTA
* *
13091460 TTTGG-TATGTATTTGGTATGT
1 TTTGGATATGAATTTGATATGT
13091481 TTGTAATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (23 bp):
TTTGGATATGAATTTGATATGTA
Found at i:13094187 original size:38 final size:39
Alignment explanation
Indices: 13094137--13094477 Score: 299
Period size: 46 Copynumber: 7.9 Consensus size: 39
13094127 TTGATATGAA
13094137 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
13094176 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCT-
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
13094213 ATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
13094257 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----T--G
*
13094304 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
13094343 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC----CTG
* *
13094393 AAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
1 ---ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CTG
*
13094439 AAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 ---ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
13094478 ATGACAGAAA
Statistics
Matches: 272, Mismatches: 7, Indels: 39
0.86 0.02 0.12
Matches are distributed among these distances:
38 72 0.26
39 1 0.00
41 4 0.01
43 1 0.00
44 1 0.00
45 41 0.15
46 144 0.53
47 1 0.00
48 2 0.01
50 1 0.00
51 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:13094280 original size:46 final size:46
Alignment explanation
Indices: 13094217--13094521 Score: 438
Period size: 46 Copynumber: 6.7 Consensus size: 46
13094207 CAACCTATGT
* * * *
13094217 GTAAGACCATGGTTGAAAGATATCATGGCAACCTGATATG-AAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
* * * *
13094263 GTAAGACCATGGTTGAAAGATACCATGGCAAC-CGATATG-AGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
*
13094308 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
*
13094354 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
13094400 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
13094446 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
* * *
13094492 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
13094522 TCACGTCAAA
Statistics
Matches: 243, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 48 0.20
46 193 0.79
47 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGA
Found at i:13094414 original size:137 final size:138
Alignment explanation
Indices: 13094132--13094521 Score: 451
Period size: 137 Copynumber: 2.9 Consensus size: 138
13094122 GCTCTTTGAT
* * *
13094132 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-A-AC--CTG----TGTGTAAGACCAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACACGACAGAAAATGAGTAAGACCAT
* * *
13094189 GGTTGAAAGATACCATGGCAACCT-A-TG----TG--TAAGACCATGGTTGAAAGATATCATGGC
66 GGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGC
* *
13094246 AACCTGAT
131 AACATGAC
* * * *
13094254 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-CGATATG-AGATGTGTAAGACCA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACACGACA-GAAAATGAGTAAGACCA
*
13094317 TGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAATAAGACCATGGTTGAAAGATACCATG
65 TGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAAGACCATGGTTGAAAGATACCATG
13094381 GCAACATGAC
129 GCAACATGAC
*
13094391 A-GAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACACGACAGAAAATGAGTAAGACCA
* * * *
13094455 TGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGG
65 TGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGG
13094520 CA
130 CA
13094522 TCACGTCAAA
Statistics
Matches: 230, Mismatches: 17, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
122 38 0.17
123 2 0.01
126 1 0.00
129 36 0.16
130 1 0.00
132 1 0.00
135 1 0.00
136 1 0.00
137 77 0.33
138 72 0.31
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (138 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACACGACAGAAAATGAGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCATGGTTGAAAGATACCATGGC
AACATGAC
Found at i:13094454 original size:183 final size:168
Alignment explanation
Indices: 13094129--13094521 Score: 468
Period size: 183 Copynumber: 2.2 Consensus size: 168
13094119 TGTGCTCTTT
*
13094129 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTG
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGTTG
* * * * *
13094194 AAAGATACCATGGCAACCTATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATATGAA
66 AAAGATACCATGGCAACCAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
*
13094259 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-C
131 ATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAC
* *
13094296 GATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGAC
1 GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAGAC
13094361 CATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATGGTTGAAAGATACCAT
58 CATGGTTGAAAGATACCATGGCAAC----C----AATGAGTAAGACCATGGTTGAAAGATACCAT
*
13094426 GGCAACATGACA-GAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAT
115 GGCAACATGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAC
* * * * *
13094480 GACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
13094522 TCACGTCAAA
Statistics
Matches: 191, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
167 45 0.24
170 2 0.01
173 1 0.01
175 31 0.16
179 1 0.01
182 1 0.01
183 76 0.40
184 34 0.18
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (168 bp):
GATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGTTG
AAAGATACCATGGCAACCAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAA
ATGAGTAAGACCATGGTTGAAAGATACCATGGCAACAC
Found at i:13094827 original size:23 final size:25
Alignment explanation
Indices: 13094782--13094828 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13094772 AATAAATATA
*
13094782 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
13094807 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
13094829 ATGAAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:13099800 original size:14 final size:14
Alignment explanation
Indices: 13099783--13099818 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
13099773 TGAAAACATG
13099783 AATTTGAAATTTAA
1 AATTTGAAATTTAA
13099797 AATTTGAAATTTAA
1 AATTTGAAATTTAA
13099811 AATTTGAA
1 AATTTGAA
13099819 TTACACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (14 bp):
AATTTGAAATTTAA
Found at i:13107535 original size:204 final size:204
Alignment explanation
Indices: 13107185--13107593 Score: 791
Period size: 204 Copynumber: 2.0 Consensus size: 204
13107175 AGTAAAGTAG
13107185 CTAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCC
1 CTAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCC
13107250 ATTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACC
66 ATTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACC
* *
13107315 AAGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCACAACCTCAAAGAACCAAAC
131 AAGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCAAAACCACAAAGAACCAAAC
13107380 AACAATTAC
196 AACAATTAC
13107389 CTAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCC
1 CTAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCC
13107454 ATTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACC
66 ATTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACC
*
13107519 AAGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCAAAACCACAAAGAACGAAAC
131 AAGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCAAAACCACAAAGAACCAAAC
13107584 AACAATTAC
196 AACAATTAC
13107593 C
1 C
13107594 ATACATATGA
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
204 202 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (204 bp):
CTAAAACTTCAGAACTAGTGATACATGCAACATTAAAGCTCCATATTTCCTTCATACTGAGATCC
ATTAAGCATGACAGAGCTGATTAATACTTTAGAATAAATCATTAAGCTAAATCAGGACTAGGACC
AAGCATTAACATGTCAGGTGAAGAACAATCACCAAGTCATTATTCAAAACCACAAAGAACCAAAC
AACAATTAC
Found at i:13113118 original size:27 final size:27
Alignment explanation
Indices: 13113080--13113147 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
13113070 CATTGAGACG
13113080 ACTCATTTTGGTTTGTTTTTGGAGCAA
1 ACTCATTTTGGTTTGTTTTTGGAGCAA
13113107 ACTCATTTTGGTTTGTTTTTGGAGCAA
1 ACTCATTTTGGTTTGTTTTTGGAGCAA
13113134 ACTCATTTTGGTTT
1 ACTCATTTTGGTTT
13113148 TAACAACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.50
Consensus pattern (27 bp):
ACTCATTTTGGTTTGTTTTTGGAGCAA
Found at i:13116412 original size:19 final size:18
Alignment explanation
Indices: 13116386--13116429 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
13116376 AAAAACTGTT
13116386 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
13116404 TTATATATATATTAATAAA
1 TT-TATATATATTAATAAA
13116423 TTTATAT
1 TTTATAT
13116430 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:13117097 original size:2 final size:2
Alignment explanation
Indices: 13117084--13117113 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13117074 AATTACATCC
*
13117084 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13117114 GTAAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13117922 original size:43 final size:43
Alignment explanation
Indices: 13117869--13117978 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
13117859 TAAAAAAATG
*
13117869 CCGCTAAAAGTCATGGCTTTTAGCAGCGTTTATGGGAAAAGCG
1 CCGCTAAAAGTCATGGCTTTTAGCAGCGTTTATGGGAAAAGCA
** * * * *
13117912 CTTCTAAAAGTCATGACTTTTAGCGGCGTTTGTGGTAAAAGCA
1 CCGCTAAAAGTCATGGCTTTTAGCAGCGTTTATGGGAAAAGCA
*
13117955 CCGCTACAAGTCATGGCTTTTAGC
1 CCGCTAAAAGTCATGGCTTTTAGC
13117979 TGCGCTTTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
CCGCTAAAAGTCATGGCTTTTAGCAGCGTTTATGGGAAAAGCA
Found at i:13118091 original size:31 final size:31
Alignment explanation
Indices: 13118056--13118138 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
13118046 TTTCCTGCAT
* *
13118056 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
13118087 TAAAATGCAGCCAAAAATAACAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
13118118 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
13118139 TTAATTCTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 26 0.63
33 15 0.37
ACGTcount: A:0.60, C:0.18, G:0.05, T:0.17
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:13118393 original size:21 final size:21
Alignment explanation
Indices: 13118369--13118444 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
13118359 TCTGCTGCCA
13118369 TCGCTGCTGCCTCTGCCTTCC
1 TCGCTGCTGCCTCTGCCTTCC
* *
13118390 TCGCT-CGTACCGCTGCC-TCC
1 TCGCTGC-TGCCTCTGCCTTCC
* *
13118410 TTCGCTGCTGCCACTGCCTCCC
1 -TCGCTGCTGCCTCTGCCTTCC
*
13118432 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
13118445 CGCTCGAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 4 0.09
21 37 0.84
22 3 0.07
ACGTcount: A:0.03, C:0.49, G:0.18, T:0.30
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTTCC
Found at i:13118882 original size:13 final size:14
Alignment explanation
Indices: 13118857--13118885 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13118847 TGATTAATTG
13118857 AATTAAACAATTAT
1 AATTAAACAATTAT
13118871 AATTAAAC-ATTAT
1 AATTAAACAATTAT
13118884 AA
1 AA
13118886 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:13124080 original size:9 final size:9
Alignment explanation
Indices: 13124066--13124555 Score: 516
Period size: 9 Copynumber: 55.4 Consensus size: 9
13124056 TATTTAAGTA
*
13124066 TTATGTAAG
1 TTATATAAG
*
13124075 TTATGTAAG
1 TTATATAAG
13124084 TTATATAAG
1 TTATATAAG
*
13124093 TTATGATATG
1 TTAT-ATAAG
* *
13124103 ATATAT-AT
1 TTATATAAG
*
13124111 TTATGTAAG
1 TTATATAAG
* *
13124120 TAATAT-AT
1 TTATATAAG
*
13124128 TTATCTAAG
1 TTATATAAG
*
13124137 TTATAGAAG
1 TTATATAAG
*
13124146 TTATGTAAG
1 TTATATAAG
*
13124155 TTATAT-AT
1 TTATATAAG
13124163 TTATCA-AAG
1 TTAT-ATAAG
*
13124172 TTATATCAG
1 TTATATAAG
13124181 TTATATAAG
1 TTATATAAG
*
13124190 TTATGTAAG
1 TTATATAAG
13124199 TTATATAAG
1 TTATATAAG
13124208 TTATATAAG
1 TTATATAAG
*
13124217 TTATAT-AT
1 TTATATAAG
*
13124225 TTATCTAAG
1 TTATATAAG
13124234 TTATATAAG
1 TTATATAAG
*
13124243 TTATGTAAG
1 TTATATAAG
*
13124252 TTATGTAAG
1 TTATATAAG
*
13124261 TTATAT-AT
1 TTATATAAG
* *
13124269 TTTTCTAAG
1 TTATATAAG
13124278 TTATATAAG
1 TTATATAAG
13124287 TTATATAAG
1 TTATATAAG
*
13124296 TTATGTAAG
1 TTATATAAG
13124305 TTATATAAG
1 TTATATAAG
13124314 TTATATAAG
1 TTATATAAG
*
13124323 TTATGTAAG
1 TTATATAAG
*
13124332 TTATAT-AT
1 TTATATAAG
*
13124340 TTATGTAAG
1 TTATATAAG
13124349 TTATATAAG
1 TTATATAAG
13124358 TTATATAAG
1 TTATATAAG
* *
13124367 CTATGTAAG
1 TTATATAAG
13124376 TTATATAAG
1 TTATATAAG
*
13124385 TTATAT-AT
1 TTATATAAG
*
13124393 TTATCTAAG
1 TTATATAAG
13124402 TTATATAAG
1 TTATATAAG
*
13124411 TTATGTAAG
1 TTATATAAG
*
13124420 TTATGTAAG
1 TTATATAAG
*
13124429 TTATAT-AT
1 TTATATAAG
*
13124437 TTATCTAAG
1 TTATATAAG
13124446 TTATATAAG
1 TTATATAAG
*
13124455 TTATGTAAG
1 TTATATAAG
*
13124464 TTATAT-AT
1 TTATATAAG
*
13124472 TTATCTAAG
1 TTATATAAG
13124481 TTATATAAG
1 TTATATAAG
13124490 TTATATAAG
1 TTATATAAG
13124499 TTATATAAG
1 TTATATAAG
*
13124508 TTATAT-AT
1 TTATATAAG
*
13124516 TTATCTAAG
1 TTATATAAG
13124525 TTATATAAG
1 TTATATAAG
*
13124534 TTATGTAAG
1 TTATATAAG
* *
13124543 TTTTGTAAG
1 TTATATAAG
13124552 TTAT
1 TTAT
13124556 GTTAAATATT
Statistics
Matches: 396, Mismatches: 72, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
8 56 0.14
9 333 0.84
10 7 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATATAAG
Found at i:13124183 original size:44 final size:44
Alignment explanation
Indices: 13124128--13124555 Score: 494
Period size: 44 Copynumber: 9.7 Consensus size: 44
13124118 AGTAATATAT
* * * *
13124128 TTATCTAAGTTATAGAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
*
13124172 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
* * * *
13124217 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
* * * *
13124261 TTATAT-ATTTTTCTAAGTTATATAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
*
13124305 TTATATAAGTTATATAAGTTATGTAAGTTATAT-ATTTATGTAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
* *
13124349 TTATATAAGTTATATAAGCTATGTAAGTTATATAAGTTA-TATAT
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTATTA-AG
* * *
13124393 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTA-TATAT
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTATTA-AG
* *
13124437 TTATCTAAGTTATATAAGTTATGTAAGTTATAT-ATTTATCTAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
* *
13124481 TTATATAAGTTATATAAGTTATATAAGTTATAT-ATTTATCTAAG
1 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTAT-TAAG
* *
13124525 TTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATATAAGTTATATAAGTTATGTAAGTTAT
13124556 GTTAAATATT
Statistics
Matches: 346, Mismatches: 32, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
43 6 0.02
44 298 0.86
45 42 0.12
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (44 bp):
TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTATTAAG
Found at i:13124543 original size:53 final size:54
Alignment explanation
Indices: 13124066--13124555 Score: 505
Period size: 53 Copynumber: 9.2 Consensus size: 54
13124056 TATTTAAGTA
* * * * *
13124066 TTATGTAAGTTATGTAAGTTATATAAGTTATGATATGATATAT-ATTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTAT-ATAAGTTATATAAGTTATGTAAG
* * * * * * **
13124120 TAATAT-ATTTATCTAAGTTATAGAAGTTATGTAAGTTATAT-ATTTATCAAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * *
13124172 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATAT-AT
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * * * *
13124225 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTTTCTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
*
13124278 TTATATAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * * *
13124332 TTATAT-ATTTATGTAAGTTATATAAGTTATATAAGCTATGTAAGTTATATAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * * * *
13124385 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-AT
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* * * * *
13124437 TTATCTAAGTTATATAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATATAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* *
13124490 TTATATAAGTTATATAAGTTATAT-ATTTATCTAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
* *
13124543 TTTTGTAAGTTAT
1 TTATATAAGTTAT
13124556 GTTAAATATT
Statistics
Matches: 370, Mismatches: 59, Indels: 15
0.83 0.13 0.03
Matches are distributed among these distances:
52 54 0.15
53 293 0.79
54 23 0.06
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (54 bp):
TTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATATAAGTTATGTAAG
Found at i:13124688 original size:15 final size:15
Alignment explanation
Indices: 13124668--13124723 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
13124658 TAAGTTGCGG
13124668 ATTAAATAATATTTA
1 ATTAAATAATATTTA
*
13124683 ATTAAATAATATTGA
1 ATTAAATAATATTTA
** *
13124698 AAAAAATTAT-TTTA
1 ATTAAATAATATTTA
13124712 ATTAAATAATAT
1 ATTAAATAATAT
13124724 ACATGTCATT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 10 0.31
15 22 0.69
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:13124929 original size:24 final size:24
Alignment explanation
Indices: 13124897--13124967 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
13124887 TTAACTTAAA
*
13124897 TGATAAAACAGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
13124921 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
13124945 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
13124968 CAATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:13125089 original size:64 final size:64
Alignment explanation
Indices: 13125015--13125147 Score: 239
Period size: 64 Copynumber: 2.1 Consensus size: 64
13125005 ATATTTTATT
* * *
13125015 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
13125079 AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
1 AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
13125143 AAATA
1 AAATA
13125148 TAGAAATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (64 bp):
AAATAATTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCATGATAG
Found at i:13125950 original size:7 final size:7
Alignment explanation
Indices: 13125938--13125970 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13125928 ACTTATAAAC
13125938 GCAAAAA
1 GCAAAAA
13125945 GCAAAAA
1 GCAAAAA
13125952 GCAAAAA
1 GCAAAAA
13125959 GCAAAAA
1 GCAAAAA
13125966 GCAAA
1 GCAAA
13125971 TCTATAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.15, G:0.15, T:0.00
Consensus pattern (7 bp):
GCAAAAA
Found at i:13128320 original size:13 final size:13
Alignment explanation
Indices: 13128304--13128328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13128294 CTTTTCCCCA
13128304 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
13128317 TTTCTTTCTTTT
1 TTTCTTTCTTTT
13128329 TCTCCCCTGC
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:13130871 original size:22 final size:21
Alignment explanation
Indices: 13130842--13130955 Score: 79
Period size: 22 Copynumber: 5.1 Consensus size: 21
13130832 TGCACTAATG
*
13130842 AACAGAGAGTACTGAAGTGCT
1 AACAGAGAGCACTGAAGTGCT
*
13130863 ATACAGAGAGCAC-AAATGTGCT
1 A-ACAGAGAGCACTGAA-GTGCT
*
13130885 AATCAGAGAGCACTGACGTGCT
1 AA-CAGAGAGCACTGAAGTGCT
*
13130907 AAATATCAGAGAGCAC-AAATGTGCT
1 --A-A-CAGAGAGCACTGAA-GTGCT
* *
13130932 AATTAGAGAGCACTGATGTGCT
1 AA-CAGAGAGCACTGAAGTGCT
13130954 AA
1 AA
13130956 ATATCAGAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.05
22 49 0.65
23 3 0.04
24 2 0.03
25 17 0.23
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.20
Consensus pattern (21 bp):
AACAGAGAGCACTGAAGTGCT
Found at i:13130919 original size:25 final size:24
Alignment explanation
Indices: 13130844--13131018 Score: 173
Period size: 25 Copynumber: 7.4 Consensus size: 24
13130834 CACTAATGAA
* *
13130844 CAGAGAGTACTGAAGTGCT-ATA-
1 CAGAGAGCACTGACGTGCTAATAT
** *
13130866 CAGAGAGCACAAATGTGCT-A-AT
1 CAGAGAGCACTGACGTGCTAATAT
13130888 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
** *
13130913 CAGAGAGCACAAATGTGCTAAT-T
1 CAGAGAGCACTGACGTGCTAATAT
*
13130936 -AGAGAGCACTGATGTGCTAAATAT
1 CAGAGAGCACTGACGTGCT-AATAT
*
13130960 CAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCTAATA-T
*
13130985 CAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCTAATA-T
13131010 CAGAGAGCA
1 CAGAGAGCA
13131019 TGCTGAGATC
Statistics
Matches: 131, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
21 1 0.01
22 48 0.37
23 4 0.03
24 9 0.07
25 69 0.53
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (24 bp):
CAGAGAGCACTGACGTGCTAATAT
Found at i:13130920 original size:47 final size:46
Alignment explanation
Indices: 13130844--13131018 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 46
13130834 CACTAATGAA
* *
13130844 CAGAGAGTACTGAAGTGCT-ATA-CAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
13130888 CAGAGAGCACTGACGTGCTAAATATCAGAGAGCACAAATGTGCTAAT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCTAAT
* * ****
13130935 TAGAGAGCACTGATGTGCTAAATATCAGAGAGCACTGGCGTGCTAATATT
1 CAGAGAGCACTGACGTGCT-AATATCAGAGAGCACAAATGTGCT-A-A-T
*
13130985 CAGAGAGCACTGGCGTGCTAATATTCAGAGAGCA
1 CAGAGAGCACTGACGTGCTAATA-TCAGAGAGCA
13131019 TGCTGAGATC
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
44 17 0.15
46 3 0.03
47 60 0.53
48 1 0.01
49 5 0.04
50 27 0.24
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (46 bp):
CAGAGAGCACTGACGTGCTAATATCAGAGAGCACAAATGTGCTAAT
Found at i:13134307 original size:30 final size:31
Alignment explanation
Indices: 13134247--13134307 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
13134237 AGAGATGGGA
* *
13134247 AAAGTTAAAGAATGGAAGAAAAAGAAAGCTT
1 AAAGTTAAAGAACGAAAGAAAAAGAAAGCTT
*
13134278 AAAGTTGAAGAACGAAAGAAAAA-AAAGCTT
1 AAAGTTAAAGAACGAAAGAAAAAGAAAGCTT
13134308 GCCTAGATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.59, C:0.05, G:0.21, T:0.15
Consensus pattern (31 bp):
AAAGTTAAAGAACGAAAGAAAAAGAAAGCTT
Found at i:13134527 original size:13 final size:13
Alignment explanation
Indices: 13134509--13134537 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13134499 AGTAGCAGGA
13134509 AAACCATCTCAAG
1 AAACCATCTCAAG
13134522 AAACCATCTCAAG
1 AAACCATCTCAAG
13134535 AAA
1 AAA
13134538 TAAAGCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.28, G:0.07, T:0.14
Consensus pattern (13 bp):
AAACCATCTCAAG
Found at i:13141769 original size:28 final size:28
Alignment explanation
Indices: 13141731--13141787 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
13141721 GAGTTTAAAG
13141731 AAAAACTAAATTGATTATTTTCGAATGA
1 AAAAACTAAATTGATTATTTTCGAATGA
* *
13141759 AAAAACTAAATTGATTGTTTTTGAATGA
1 AAAAACTAAATTGATTATTTTCGAATGA
13141787 A
1 A
13141788 CAATAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (28 bp):
AAAAACTAAATTGATTATTTTCGAATGA
Found at i:13143444 original size:47 final size:48
Alignment explanation
Indices: 13143375--13143591 Score: 198
Period size: 48 Copynumber: 4.6 Consensus size: 48
13143365 GTATAATACT
*
13143375 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCGAAGTC
* * *
13143422 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATC--CATCGAAGTC
* * * * * * *
13143471 GACGCCATGT-CTAGACATGGTCTTACACTGACACCTCTATACG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCAT-CGAAGTC
* * * * *
13143518 GATGCCATGTCCCAAACATGGCCTTACACTGACACGT-C-TCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCGAAGTC
*
13143564 GATG-CATGTCCCAGAAAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
13143592 AGCTCTAGTC
Statistics
Matches: 142, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
44 9 0.06
45 14 0.10
46 10 0.07
47 47 0.33
48 48 0.34
49 14 0.10
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCGAAGTC
Found at i:13143499 original size:48 final size:47
Alignment explanation
Indices: 13143378--13143550 Score: 170
Period size: 47 Copynumber: 3.6 Consensus size: 47
13143368 TAATACTGAT
* * * *
13143378 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
*
13143425 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGAC
* * * * ** *
13143474 GCCATGT-CTAGACATGGTCTTACACTGACACCTCTATACGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAAT-CAAGCCGAC
* *
13143521 GCCATGTCCCAAACATGGCCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
13143551 ACGTCTCGTA
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
46 3 0.03
47 44 0.42
48 44 0.42
49 14 0.13
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
Found at i:13149897 original size:20 final size:21
Alignment explanation
Indices: 13149872--13149911 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13149862 CTTTTGAAAC
*
13149872 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
13149892 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCCCGTGTGG
13149912 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:13150094 original size:27 final size:27
Alignment explanation
Indices: 13150063--13150118 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
13150053 TTTCTATGGT
* *
13150063 CCGTGTCCCTTACACAGCTATGACATG
1 CCGTGTCCCTCACACAGCCATGACATG
*
13150090 CCGTGTCCCTCACACGGCCATGACATG
1 CCGTGTCCCTCACACAGCCATGACATG
13150117 CC
1 CC
13150119 TATGTCCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.21
Consensus pattern (27 bp):
CCGTGTCCCTCACACAGCCATGACATG
Found at i:13151372 original size:94 final size:91
Alignment explanation
Indices: 13151224--13151394 Score: 227
Period size: 94 Copynumber: 1.8 Consensus size: 91
13151214 TACATATTCG
* *
13151224 TGCTGATGCGAGTCCCAGACATAGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCCAGAC
1 TGCTGATGCCAGTCCCAGACATAGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCAGAC
13151289 ATGTCTTACACTAGCTCTCGTCTCAA
66 ATGTCTTACACTAGCTCTCGTCTCAA
* * * * *
13151315 TGCTGATGCCATGTCTCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCAATGCATGTCCC
1 TGCTGATGCCA-GTCCCAGACATAGTCTTACACTGACACATC-T--TGTAGCCAATGCATGTCCC
*
13151379 ATACATGTCTTACACT
62 AGACATGTCTTACACT
13151395 GCCACACAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
91 12 0.18
92 24 0.35
94 32 0.47
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (91 bp):
TGCTGATGCCAGTCCCAGACATAGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAA
Found at i:13155554 original size:21 final size:21
Alignment explanation
Indices: 13155528--13155577 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
13155518 CTTATAGCAT
13155528 GGGCGTGTCCTTTGATCACAC
1 GGGCGTGTCCTTTGATCACAC
13155549 GGGCGTGTCCTTTGATCACAC
1 GGGCGTGTCCTTTGATCACAC
13155570 GGGCGTGT
1 GGGCGTGT
13155578 GTGCCCTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.28
Consensus pattern (21 bp):
GGGCGTGTCCTTTGATCACAC
Found at i:13170989 original size:26 final size:26
Alignment explanation
Indices: 13170960--13171009 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
13170950 AATAAAATGC
13170960 AGAAAATCAGAA-AGGATGAGAGAAAA
1 AGAAAAT-AGAAGAGGATGAGAGAAAA
*
13170986 AGAAAATAGAAGGGGATGAGAGAA
1 AGAAAATAGAAGAGGATGAGAGAA
13171010 TTGAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.58, C:0.02, G:0.32, T:0.08
Consensus pattern (26 bp):
AGAAAATAGAAGAGGATGAGAGAAAA
Found at i:13173118 original size:13 final size:13
Alignment explanation
Indices: 13173100--13173127 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13173090 TACCACATTT
13173100 ATATCATCAAAAC
1 ATATCATCAAAAC
13173113 ATATCATCAAAAC
1 ATATCATCAAAAC
13173126 AT
1 AT
13173128 TATTCGAGTC
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:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (13 bp):
ATATCATCAAAAC
Found at i:13174900 original size:18 final size:19
Alignment explanation
Indices: 13174862--13174899 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13174852 AAGCCATGAG
*
13174862 TTCTTCTTTCTTTCCCTTT
1 TTCTTCTTTCTTTCACTTT
13174881 TTCTT-TTTCTTTCA-TTT
1 TTCTTCTTTCTTTCACTTT
13174898 TT
1 TT
13174900 TTGTTTCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTCTTTCTTTCACTTT
Found at i:13176372 original size:3 final size:3
Alignment explanation
Indices: 13176366--13176422 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
13176356 GAGGAGGAGG
*
13176366 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
13176414 AGA AGA AGA
1 AGA AGA AGA
13176423 GACTATAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13179458 original size:26 final size:26
Alignment explanation
Indices: 13179402--13179507 Score: 198
Period size: 25 Copynumber: 4.2 Consensus size: 26
13179392 TGAAATTCCC
13179402 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
13179427 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13179453 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13179478 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13179504 ATCA
1 ATCA
13179508 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
25 45 0.57
26 34 0.43
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13179481 original size:51 final size:51
Alignment explanation
Indices: 13179402--13179507 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
13179392 TGAAATTCCC
13179402 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
13179453 ATCAT-GAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
13179504 ATCA
1 ATCA
13179508 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 14 0.26
51 40 0.74
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:13185873 original size:21 final size:20
Alignment explanation
Indices: 13185835--13185877 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13185825 ATCCCAATCC
13185835 CATGCATCAGATAATAACAA
1 CATGCATCAGATAATAACAA
13185855 CATGCATGCAG-TAAATAACAA
1 CATGCAT-CAGAT-AATAACAA
13185876 CA
1 CA
13185878 GTCAAACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.19
Consensus pattern (20 bp):
CATGCATCAGATAATAACAA
Found at i:13187463 original size:26 final size:26
Alignment explanation
Indices: 13187428--13187535 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
13187418 TGAAATTTCC
13187428 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13187454 ATCATTGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13187480 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13187506 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13187532 ATCA
1 ATCA
13187536 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13187708 original size:10 final size:10
Alignment explanation
Indices: 13187693--13187720 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13187683 TAGCCTATAG
13187693 CATTTTCAAA
1 CATTTTCAAA
13187703 CATTTTCAAA
1 CATTTTCAAA
13187713 CATTTTCA
1 CATTTTCA
13187721 CATAGGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (10 bp):
CATTTTCAAA
Found at i:13189241 original size:3 final size:3
Alignment explanation
Indices: 13189233--13189257 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13189223 GAAGAGAGCC
13189233 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
13189258 GAAAAGACAT
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13196890 original size:49 final size:49
Alignment explanation
Indices: 13196831--13196938 Score: 207
Period size: 49 Copynumber: 2.2 Consensus size: 49
13196821 GATTGGTGTT
*
13196831 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCGAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
13196880 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
1 CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
13196929 CCTTTCCAGT
1 CCTTTCCAGT
13196939 TTCCATTTTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (49 bp):
CCTTTCCAGTATACGTTGAGCAAGTGAGTGAAATCAAATCATTTAATTA
Found at i:13204060 original size:2 final size:2
Alignment explanation
Indices: 13204053--13204106 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
13204043 GTTTAAAGAG
13204053 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13204095 TA TA TA TA TA TA
1 TA TA TA TA TA TA
13204107 AAATAAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13212933 original size:17 final size:17
Alignment explanation
Indices: 13212913--13212946 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13212903 CAAGTACATA
*
13212913 TGTTTTTCTTTTTTTTT
1 TGTTGTTCTTTTTTTTT
13212930 TGTTGTTCTTTTTTTTT
1 TGTTGTTCTTTTTTTTT
13212947 CACGAGCATT
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:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (17 bp):
TGTTGTTCTTTTTTTTT
Found at i:13215095 original size:25 final size:26
Alignment explanation
Indices: 13215067--13215120 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
13215057 TAATTAGTAT
*
13215067 AAAATATT-AATAATTCAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
13215092 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
13215118 AAA
1 AAA
13215121 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:13215743 original size:14 final size:15
Alignment explanation
Indices: 13215715--13215746 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
13215705 ATTTGCTATT
13215715 AATTTATTAAAATAA
1 AATTTATTAAAATAA
13215730 AATTTATT-AAATAA
1 AATTTATTAAAATAA
13215744 AAT
1 AAT
13215747 ATGATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTATTAAAATAA
Found at i:13215815 original size:16 final size:15
Alignment explanation
Indices: 13215790--13215823 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13215780 AAAGTTGATA
*
13215790 ATAATTAATATATATT
1 ATAATAAATATA-ATT
13215806 ATAATAAATATAATT
1 ATAATAAATATAATT
13215821 ATA
1 ATA
13215824 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:13215947 original size:31 final size:30
Alignment explanation
Indices: 13215889--13215948 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13215879 GCATTTTGAA
* *
13215889 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
13215919 AATATTTACAAAAA-AGAGCAACCAAATTTT
1 AATATTTACAAAAAGAGA-C-ACCAAATTTT
13215949 GAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 15 0.58
31 8 0.31
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:13221300 original size:33 final size:33
Alignment explanation
Indices: 13221260--13221370 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 33
13221250 GAGGTGTACA
*
13221260 TTCCTTTTCAAGTGGTACACACAAAGTATCCCT
1 TTCCTTTTCAAGTGGTACACACAAAGTATACCT
*
13221293 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTTCA-AGTGGTACACACAAAGTATACCT
** * * *
13221326 AACCTTTCCAAGT-GTACACACAAAGTGTACAT
1 TTCCTTTTCAAGTGGTACACACAAAGTATACCT
**
13221358 AACCTTTTCAAGT
1 TTCCTTTTCAAGT
13221371 TGCACAATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
32 29 0.43
33 37 0.55
34 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (33 bp):
TTCCTTTTCAAGTGGTACACACAAAGTATACCT
Found at i:13228675 original size:33 final size:34
Alignment explanation
Indices: 13228635--13228724 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
13228625 GAGGCGTACA
13228635 TTCCTTTTCAAGTGGTACACACAAAA-TATACCT
1 TTCCTTTTCAAGTGGTACACACAAAAGTATACCT
* *
13228668 TTCCTTTT-AATATGGTATACA-AAAAGTATACCT
1 TTCCTTTTCAA-GTGGTACACACAAAAGTATACCT
** *
13228701 AACCTTTCCAAGT-GTACACACAAA
1 TTCCTTTTCAAGTGGTACACACAAA
13228725 GTGTACATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
32 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (34 bp):
TTCCTTTTCAAGTGGTACACACAAAAGTATACCT
Found at i:13231511 original size:16 final size:16
Alignment explanation
Indices: 13231490--13231529 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
13231480 CATAGTATGT
13231490 CTAACTTCACCTATCC
1 CTAACTTCACCTATCC
13231506 CTAACTTCACCTATCC
1 CTAACTTCACCTATCC
13231522 CTAACTTC
1 CTAACTTC
13231530 TTAAATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.00, T:0.33
Consensus pattern (16 bp):
CTAACTTCACCTATCC
Found at i:13234738 original size:58 final size:57
Alignment explanation
Indices: 13234648--13234796 Score: 178
Period size: 57 Copynumber: 2.6 Consensus size: 57
13234638 TTGACCTTAT
* *
13234648 TATAGAAAGTATTTTGCCTGGACAGGTAATCCTGATATAAGCTCTCT-TGAGCATATGA
1 TATAGAAAGGATTTAGCCTGGACAGGTAATCCTGAT-TAAGCTCT-TATGAGCATATGA
* *
13234706 TATAGATAGGATTTAGCCTGGACAGGTAATCCTGATTAAGCTCTTATGAGCATATGT
1 TATAGAAAGGATTTAGCCTGGACAGGTAATCCTGATTAAGCTCTTATGAGCATATGA
* * *
13234763 TGA-ACGCAA-GATTTAGCTTGGACAAGTAATCCTG
1 T-ATA-GAAAGGATTTAGCCTGGACAGGTAATCCTG
13234797 TTATATGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
56 1 0.01
57 43 0.54
58 36 0.45
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (57 bp):
TATAGAAAGGATTTAGCCTGGACAGGTAATCCTGATTAAGCTCTTATGAGCATATGA
Found at i:13234796 original size:57 final size:58
Alignment explanation
Indices: 13234648--13234761 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
13234638 TTGACCTTAT
* * *
13234648 TATAGAAAGTATTTTGCCTGGACAGGTAATCCTGATATAAGCTCTCTTGAGCATATGA
1 TATAGATAGGATTTAGCCTGGACAGGTAATCCTGATATAAGCTCTCTTGAGCATATGA
13234706 TATAGATAGGATTTAGCCTGGACAGGTAATCCTGAT-TAAGCTCT-TATGAGCATATG
1 TATAGATAGGATTTAGCCTGGACAGGTAATCCTGATATAAGCTCTCT-TGAGCATATG
13234762 TTGAACGCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
56 1 0.02
57 18 0.35
58 33 0.63
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (58 bp):
TATAGATAGGATTTAGCCTGGACAGGTAATCCTGATATAAGCTCTCTTGAGCATATGA
Found at i:13235355 original size:29 final size:29
Alignment explanation
Indices: 13235323--13235384 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
13235313 GCATGTATAG
* *
13235323 GTTAACTTAACCATGGATGGCTTGAATAT
1 GTTAACTTAACCATGGATGACTTAAATAT
13235352 GTTAACTTAACCATGGATGACTTAAATAT
1 GTTAACTTAACCATGGATGACTTAAATAT
13235381 GTTA
1 GTTA
13235385 TTTGTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (29 bp):
GTTAACTTAACCATGGATGACTTAAATAT
Found at i:13236520 original size:46 final size:46
Alignment explanation
Indices: 13236463--13236557 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
13236453 ATGAAATTAA
13236463 AATAATCTCTTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
1 AATAATCTCTTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
*
13236509 AATAATCTCTTGTACATATCTCTATGCCAATTCAAAGAATTAATTC
1 AATAATCTCTTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
13236555 AAT
1 AAT
13236558 CACATAAGCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (46 bp):
AATAATCTCTTGTACATATCTCTATGCCAATTCAAAAAATTAATTC
Found at i:13237805 original size:44 final size:44
Alignment explanation
Indices: 13237742--13237831 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
13237732 TGCCGAGCTG
*
13237742 TTTTTCGCCGTTTGTACAAATCTGTTAAAAATAATCATAATTTA
1 TTTTTCGCCCTTTGTACAAATCTGTTAAAAATAATCATAATTTA
* *
13237786 TTTTTTGCCCTTTGTACAAATCTGTTGAAAATAATCATAATTTA
1 TTTTTCGCCCTTTGTACAAATCTGTTAAAAATAATCATAATTTA
13237830 TT
1 TT
13237832 ATGAAATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (44 bp):
TTTTTCGCCCTTTGTACAAATCTGTTAAAAATAATCATAATTTA
Found at i:13238405 original size:15 final size:16
Alignment explanation
Indices: 13238373--13238405 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13238363 TTTTGATTAA
*
13238373 AATAATATAAGGTAAT
1 AATAATATAAGCTAAT
13238389 AATAATA-AAGCTAAT
1 AATAATATAAGCTAAT
13238404 AA
1 AA
13238406 AAGTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (16 bp):
AATAATATAAGCTAAT
Found at i:13239999 original size:10 final size:10
Alignment explanation
Indices: 13239986--13240020 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
13239976 AAGCTCGGTT
13239986 GAGCTCAAAC
1 GAGCTCAAAC
*
13239996 GAGCTGAAAC
1 GAGCTCAAAC
*
13240006 GAGCTCAAAT
1 GAGCTCAAAC
13240016 GAGCT
1 GAGCT
13240021 GAGTCGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:13241827 original size:12 final size:11
Alignment explanation
Indices: 13241810--13241872 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 11
13241800 TCGATCTCTT
13241810 TTTCTTTTTCAC
1 TTTCTTTTTC-C
13241822 TTTCTTTTTCC
1 TTTCTTTTTCC
13241833 GTTTCGTTTTT-C
1 -TTTC-TTTTTCC
*
13241845 -TT-TTTCTCAC
1 TTTCTTTTTC-C
*
13241855 TTTCTTTTTGC
1 TTTCTTTTTCC
13241866 TTTCTTT
1 TTTCTTT
13241873 CAAATTCTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
8 4 0.10
10 3 0.07
11 11 0.26
12 19 0.45
13 5 0.12
ACGTcount: A:0.03, C:0.22, G:0.05, T:0.70
Consensus pattern (11 bp):
TTTCTTTTTCC
Found at i:13241863 original size:21 final size:20
Alignment explanation
Indices: 13241822--13241889 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
13241812 TCTTTTTCAC
*
13241822 TTTCTTTTTC-C-GTTTCGTT
1 TTTCTTTTTCTCAATTTC-TT
*
13241841 TTTCTTTTTCTCACTTTCTT
1 TTTCTTTTTCTCAATTTCTT
*
13241861 TTTGCTTTCTT-TCAAATTCTT
1 TTT-CTTT-TTCTCAATTTCTT
13241882 TTTCTTTT
1 TTTCTTTT
13241890 ATTTCCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.26
20 10 0.24
21 19 0.45
22 2 0.05
ACGTcount: A:0.06, C:0.21, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTCTTTTTCTCAATTTCTT
Found at i:13241887 original size:16 final size:15
Alignment explanation
Indices: 13241866--13241918 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
13241856 TTCTTTTTGC
13241866 TTTCTTTCAAATTCTT
1 TTTCTTT-AAATTCTT
* *
13241882 TTTCTTTTATTTCCTTT
1 TTTCTTTAAATT-C-TT
13241899 TTTCTTTTAAATTCTT
1 TTTC-TTTAAATTCTT
13241915 TTTC
1 TTTC
13241919 ACTTGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 7 0.23
18 6 0.20
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTAAATTCTT
Found at i:13241915 original size:17 final size:17
Alignment explanation
Indices: 13241866--13241917 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
13241856 TTCTTTTTGC
*
13241866 TTTCTTTCAAATTC-TT
1 TTTCTTTTAAATTCTTT
*
13241882 TTTCTTTT-ATTTCCTTT
1 TTTCTTTTAAATT-CTTT
13241899 TTTCTTTTAAATTCTTT
1 TTTCTTTTAAATTCTTT
13241916 TT
1 TT
13241918 CACTTGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 3 0.10
16 8 0.27
17 16 0.53
18 3 0.10
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTTTTAAATTCTTT
Found at i:13242814 original size:13 final size:13
Alignment explanation
Indices: 13242796--13242821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13242786 TAATTTCGTA
13242796 TTTCTCTTTTTTT
1 TTTCTCTTTTTTT
13242809 TTTCTCTTTTTTT
1 TTTCTCTTTTTTT
13242822 ACAACTTCAA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTCTCTTTTTTT
Found at i:13243650 original size:18 final size:18
Alignment explanation
Indices: 13243627--13243663 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13243617 TTCATGCATA
13243627 CTTAGCCTAGAAGAAAAG
1 CTTAGCCTAGAAGAAAAG
13243645 CTTAGCCTAGAAGAAAAG
1 CTTAGCCTAGAAGAAAAG
13243663 C
1 C
13243664 CATAGTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (18 bp):
CTTAGCCTAGAAGAAAAG
Found at i:13246959 original size:43 final size:43
Alignment explanation
Indices: 13246901--13246983 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
13246891 GAGATATGTG
*
13246901 GCATCCGAGCTCGTTGAGAGGTCCGAGTTTATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
* *
13246944 GCATTCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
13246984 TGTTACATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:13248447 original size:23 final size:23
Alignment explanation
Indices: 13248419--13248463 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
13248409 TCCCAATGCG
13248419 CACGTGCGTGTGCATTGCCTCCT
1 CACGTGCGTGTGCATTGCCTCCT
13248442 CACGTGCGTGTGCATTGCCTCC
1 CACGTGCGTGTGCATTGCCTCC
13248464 ATACGGGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.09, C:0.36, G:0.27, T:0.29
Consensus pattern (23 bp):
CACGTGCGTGTGCATTGCCTCCT
Found at i:13248475 original size:23 final size:23
Alignment explanation
Indices: 13248426--13248476 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13248416 GCGCACGTGC
* *
13248426 GTGTGCATTGCCTCCTCACGTGC
1 GTGTGCATTGCCTCCTCACGGGA
13248449 GTGTGCATTGCCTCCAT-ACGGGA
1 GTGTGCATTGCCTCC-TCACGGGA
13248472 GTGTG
1 GTGTG
13248477 AGGTTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.29
Consensus pattern (23 bp):
GTGTGCATTGCCTCCTCACGGGA
Found at i:13255455 original size:43 final size:43
Alignment explanation
Indices: 13255359--13255483 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
13255349 AACTAAGATG
* * * * *
13255359 TCCGAGCTCGTTGAGTGGTCTGGGTTC-TTGAGATATGTG-GCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATT-ATAGATGCGAGCA
*
13255401 TCCGAGCTCGTTGAGAGGTTTGAGTTCATTATAGATGCGAGCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGAGCA
* * *
13255444 TCCGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGA
13255484 TTTATGTAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
42 30 0.42
43 41 0.58
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATAGATGCGAGCA
Found at i:13262230 original size:22 final size:21
Alignment explanation
Indices: 13262202--13262243 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13262192 ATGTCATTAG
13262202 GGTTCAAACGGAAAAAGGAAAT
1 GGTTC-AACGGAAAAAGGAAAT
**
13262224 GGTTCAATTGAAAAAGGAAA
1 GGTTCAACGGAAAAAGGAAA
13262244 ACAAGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.07, G:0.26, T:0.17
Consensus pattern (21 bp):
GGTTCAACGGAAAAAGGAAAT
Found at i:13269558 original size:35 final size:35
Alignment explanation
Indices: 13269507--13269628 Score: 190
Period size: 35 Copynumber: 3.5 Consensus size: 35
13269497 ATAAAGAAAA
* *
13269507 CCATACTGAGATGTGAAACGTAGGTATGGCATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
* *
13269542 CCATACCGAGTGGTGAAACGTAGGTATGGTATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
* *
13269577 TCATACTGAGTTGTGAAACGTAGGTATGATATTTT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
13269612 CCATACTGAGTTGTGAA
1 CCATACTGAGTTGTGAA
13269629 TTGTGGCACT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGGTATTTT
Found at i:13271121 original size:22 final size:21
Alignment explanation
Indices: 13271080--13271145 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
13271070 TGTTCTTCTT
*
13271080 TTTCTTTGTTTTATTGTTTTA
1 TTTCTTTGTTTTATTATTTTA
*
13271101 TTTCTTTTTATTTATTATTTTA
1 TTTCTTTGT-TTTATTATTTTA
* *
13271123 TGTT-TTATGTTATATAATTTTA
1 T-TTCTT-TGTTTTATTATTTTA
13271145 T
1 T
13271146 AATAATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 8 0.22
22 25 0.68
23 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (21 bp):
TTTCTTTGTTTTATTATTTTA
Found at i:13274642 original size:40 final size:40
Alignment explanation
Indices: 13274583--13274870 Score: 310
Period size: 40 Copynumber: 7.2 Consensus size: 40
13274573 CAATTGAATG
* * * * **
13274583 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * **
13274623 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGT-GACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCG-TT
* * *
13274663 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * *
13274703 AAATCCGGGCTAATACCTGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * *
13274743 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* *
13274783 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * * * *
13274823 CTATCTGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
13274863 ATATCCGG
1 ATATCCGG
13274871 TTGTATTCCG
Statistics
Matches: 206, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
39 2 0.01
40 201 0.98
41 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
Found at i:13274725 original size:80 final size:80
Alignment explanation
Indices: 13274584--13274870 Score: 371
Period size: 80 Copynumber: 3.6 Consensus size: 80
13274574 AATTGAATGA
* * ** * ** * * *
13274584 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGG-CA
* **
13274649 -TTGTGCTAGT-GACC
65 TTTGTGCAAGTCGTTC
* *
13274663 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCTGAAGGCA
1 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
13274728 TTTGTGCAAGTCGTTC
65 TTTGTGCAAGTCGTTC
13274744 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
13274809 TTGTGCAAGTCGTTC
66 TTGTGCAAGTCGTTC
* * * *
13274824 TATCTGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGG
13274871 TTGTATTCCG
Statistics
Matches: 184, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.01
80 180 0.98
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCAT
TTGTGCAAGTCGTTC
Found at i:13276532 original size:45 final size:46
Alignment explanation
Indices: 13276437--13276534 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 46
13276427 TAAAACTATG
* **
13276437 GTTGAAAGACACTATGACAGCACGACAAAAAGTAAATAAGACCATG
1 GTTGAAAGACACTATGACAGCAAGACAAAAAGTAAATAAGACCACA
* * * * * *
13276483 GTTGAAAGACATTATGGCATCAAGTCAAGAA-TAAATTAGACCACA
1 GTTGAAAGACACTATGACAGCAAGACAAAAAGTAAATAAGACCACA
13276528 GTTGAAA
1 GTTGAAA
13276535 AGCACCATGG
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 18 0.42
46 25 0.58
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (46 bp):
GTTGAAAGACACTATGACAGCAAGACAAAAAGTAAATAAGACCACA
Found at i:13292023 original size:29 final size:29
Alignment explanation
Indices: 13291989--13292120 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
13291979 TACTCGATTT
* * *
13291989 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
13292018 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* ** *
13292047 CGCACACTTAGTGCCATA-TATTTCCGGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
13292076 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
13292105 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
13292121 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:13316447 original size:17 final size:18
Alignment explanation
Indices: 13316420--13316453 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13316410 AGAGAAATAT
13316420 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
13316438 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
13316454 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:13326489 original size:46 final size:47
Alignment explanation
Indices: 13326343--13326503 Score: 170
Period size: 50 Copynumber: 3.4 Consensus size: 47
13326333 GAGGTATAAT
* * *
13326343 GCCGATGCCATATCCTAGACATGGTCTTACACTGACTTTAGCATATTTGT
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGAC-TTA-CAT-CTTGA
* *
13326393 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ATATCTTGTA
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGACTTACATCTTG-A
* *
13326439 GCCGATG-CATATCCAAGACAT-GTCTTACACTGACTTACATCTCGA
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGACTTACATCTTGA
*
13326484 GGCCGATG-CATGTCCCAGAC
1 -GCCGATGCCATATCCCAGAC
13326504 GTGCCTTACA
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
44 13 0.14
45 16 0.17
46 32 0.33
47 1 0.01
50 34 0.35
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTGACTTACATCTTGA
Found at i:13326512 original size:46 final size:44
Alignment explanation
Indices: 13326393--13326515 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
13326383 GCATATTTGT
* *
13326393 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACATATCTTGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTA
* *
13326439 GCCGATGCATATCCAAGACATGTCTTACACTGACTTACATCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA
* *
13326484 GGCCGATGCATGTCCCAGACGTGCCTTACACT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT
13326516 AGCTCTCGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 13 0.20
45 13 0.20
46 40 0.61
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGTA
Found at i:13333502 original size:44 final size:44
Alignment explanation
Indices: 13333439--13333527 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
13333429 CATTCTAAGG
13333439 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACGGTATAGTT
1 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACGGTATAGTT
13333483 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACGGTATAGTT
1 TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACGGTATAGTT
13333527 T
1 T
13333528 GGTTTAGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (44 bp):
TAAAGATTTTCGTTGCTTAAAGGGTTATCCATTACGGTATAGTT
Found at i:13344035 original size:12 final size:12
Alignment explanation
Indices: 13344018--13344042 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13344008 ATGTAAGTGA
13344018 TCTTGATGATTT
1 TCTTGATGATTT
13344030 TCTTGATGATTT
1 TCTTGATGATTT
13344042 T
1 T
13344043 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:13344963 original size:47 final size:45
Alignment explanation
Indices: 13344758--13345019 Score: 174
Period size: 44 Copynumber: 5.7 Consensus size: 45
13344748 TGAATTGTGC
** * * *
13344758 GCCAGTGTAAGATGTGTCTGGGACACGCATCGGCT--AAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAAAGAGAT-A
* * * * ** * * *
13344802 GCTAGTGTAATACATGTCTGGGGCATGTATTAGCACACATAAATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCA-A-AGA-GATA
*
13344850 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAAAGATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCAAAGA-GA-TA
** * *
13344898 GCCAAAGTAAAATATGTCTGGGACATGCATCGGCCTCAACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTCAA-AGAGATA
* * * *
13344945 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCT--AAGAGTTTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAAAGAG-ATA
*
13344989 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
13345020 AGCACGCATA
Statistics
Matches: 168, Mismatches: 38, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
43 4 0.02
44 55 0.33
46 10 0.06
47 47 0.28
48 29 0.17
49 15 0.09
50 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAAAGAGATA
Found at i:13350422 original size:27 final size:27
Alignment explanation
Indices: 13350388--13350441 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13350378 ATTGGTTGAA
13350388 TTCGCCTACAACAATAGCTACCAGTTG
1 TTCGCCTACAACAATAGCTACCAGTTG
13350415 TTCGCCTACAACAATAGCTACCAGTTG
1 TTCGCCTACAACAATAGCTACCAGTTG
13350442 AGTCTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (27 bp):
TTCGCCTACAACAATAGCTACCAGTTG
Found at i:13351193 original size:4 final size:4
Alignment explanation
Indices: 13351177--13351216 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
13351167 GATAGAAAAA
*
13351177 TTAT TTTT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
13351217 ATGAGGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTAT
Found at i:13351628 original size:12 final size:12
Alignment explanation
Indices: 13351611--13351635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13351601 ATGTAAGTTA
13351611 TCTTGATGATTT
1 TCTTGATGATTT
13351623 TCTTGATGATTT
1 TCTTGATGATTT
13351635 T
1 T
13351636 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:13352592 original size:44 final size:44
Alignment explanation
Indices: 13352334--13352592 Score: 166
Period size: 44 Copynumber: 5.6 Consensus size: 44
13352324 ATTGTGAGCC
* **
13352334 AGTGTAAGACGTGTCTGGGACACACATCGGCTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
* * * * *
13352378 AGTTTAAGACATGTCTAGGACATGCATCAGCACGCATAA-A-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-G---GC-TAAGAGT-TGTGCT
* *
13352426 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACAGAGATGAATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAGTTG--TGCT
* * * * *
13352474 AGAGTAAGACATGTCTGGGACATGCATCAGCCTCAACAGAGAT-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCT--A-AGAGTTGTGCT
* * * *
13352521 AGTGTAAAACGTGTCTGGGAGACGCATCGGCTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
* *
13352565 AGTGTAAGACATGTCTAGGATATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
13352593 AGCACGCATA
Statistics
Matches: 164, Mismatches: 33, Indels: 36
0.70 0.14 0.15
Matches are distributed among these distances:
43 5 0.03
44 50 0.30
45 2 0.01
46 11 0.07
47 42 0.26
48 24 0.15
49 17 0.10
50 13 0.08
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
Found at i:13352622 original size:48 final size:47
Alignment explanation
Indices: 13352382--13352642 Score: 189
Period size: 47 Copynumber: 5.5 Consensus size: 47
13352372 TGTGCTAGTT
* *
13352382 TAAGACATGTCTAGGACATGCATCAGCACGCATAAATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCACGCA-ATATGAGAGCCAGTG
* * * *
13352430 TAAGACCATGTCTGGGACATGGCATC-G-ACACAGAGATGA-ATGCTAGAG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCACGCA-ATATGAGA-GCCAGTG
* *
13352478 TAAGACATGTCTGGGACATGCATCAGC-CTCAACA-GAGATAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCACGCAATATGAG--AGCCAGTG
* * * * * * * * *
13352525 TAAAACGTGTCTGGGAGACGCATCGGCTAAG-AGT-T--GTGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGC-ACGCAATATGAGAGCCAGTG
* *
13352569 TAAGACATGTCTAGGATATGCATCAGCACGCATATATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCACGCA-ATATGAGAGCCAGTG
13352617 TAAGACCATGTCTGGGACATGGCATC
1 TAAGA-CATGTCTGGGACAT-GCATC
13352643 GGCAATATAT
Statistics
Matches: 162, Mismatches: 33, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
43 2 0.01
44 28 0.17
45 3 0.02
46 9 0.06
47 46 0.28
48 38 0.23
49 26 0.16
50 10 0.06
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCAGCACGCAATATGAGAGCCAGTG
Found at i:13355170 original size:2 final size:2
Alignment explanation
Indices: 13355163--13355187 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13355153 GTACACTAAT
13355163 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13355188 TGTACCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13362573 original size:13 final size:14
Alignment explanation
Indices: 13362555--13362583 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13362545 ATTTTTTTAC
13362555 TTAAACTTATT-TT
1 TTAAACTTATTATT
13362568 TTAAACTTATTATT
1 TTAAACTTATTATT
13362582 TT
1 TT
13362584 TTAAATAGGC
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:0.07, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAAACTTATTATT
Found at i:13362575 original size:19 final size:19
Alignment explanation
Indices: 13362525--13362588 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 19
13362515 AAAGCCCAAT
* *
13362525 TTATTTTTTAAAC-GAATC
1 TTATTTTTTAAACTTAAAC
*
13362543 TTATTTTTT-TACTTAAAC
1 TTATTTTTTAAACTTAAAC
13362561 TTATTTTTTAAACTT--A-
1 TTATTTTTTAAACTTAAAC
13362577 TTATTTTTTAAA
1 TTATTTTTTAAA
13362589 TAGGCATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 12 0.30
17 3 0.08
18 21 0.52
19 4 0.10
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (19 bp):
TTATTTTTTAAACTTAAAC
Found at i:13363583 original size:21 final size:21
Alignment explanation
Indices: 13363557--13363596 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13363547 AAAATAGACA
13363557 AGAAAATG-GATGTTTTGTTTG
1 AGAAAATGTGAT-TTTTGTTTG
13363578 AGAAAATGTGATTTTTGTT
1 AGAAAATGTGATTTTTGTT
13363597 GTACAGGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
AGAAAATGTGATTTTTGTTTG
Found at i:13369321 original size:7 final size:7
Alignment explanation
Indices: 13369309--13369339 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
13369299 TTACAAGTAA
13369309 CATTACT
1 CATTACT
13369316 CATTACT
1 CATTACT
13369323 CATTACT
1 CATTACT
13369330 CATTACT
1 CATTACT
13369337 CAT
1 CAT
13369340 GAAAACAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (7 bp):
CATTACT
Found at i:13371512 original size:11 final size:11
Alignment explanation
Indices: 13371498--13371522 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13371488 AAAAGTAATT
13371498 AAAATTTAAAA
1 AAAATTTAAAA
13371509 AAAATTTAAAA
1 AAAATTTAAAA
13371520 AAA
1 AAA
13371523 CCCTAACTAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTTAAAA
Found at i:13372094 original size:5 final size:5
Alignment explanation
Indices: 13372084--13372125 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
13372074 CTTAAGAATG
13372084 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
13372126 ATTAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:13376331 original size:16 final size:18
Alignment explanation
Indices: 13376304--13376337 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13376294 TTAGTTTAAA
13376304 TAAATAAATTTTC-CAAT
1 TAAATAAATTTTCTCAAT
13376321 TAAAT-AATTTTCTCAAT
1 TAAATAAATTTTCTCAAT
13376338 CCAATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATAAATTTTCTCAAT
Found at i:13378237 original size:33 final size:33
Alignment explanation
Indices: 13378191--13378297 Score: 153
Period size: 33 Copynumber: 3.2 Consensus size: 33
13378181 TACTTTCTGT
* * *
13378191 TTGGTATGCTGGTTGGATTAGCTCTTATGGGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
13378224 TTGGTGTGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
*
13378257 CTGGTGTGA-GAGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATG-GTTGGATTAGCTCTTATGAGCA
13378290 TTGGTGTG
1 TTGGTGTG
13378298 TTTTGCTGGA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 1 0.02
33 65 0.98
ACGTcount: A:0.16, C:0.10, G:0.35, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:13380307 original size:35 final size:35
Alignment explanation
Indices: 13380246--13380331 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
13380236 AGTGCCACAA
*
13380246 TTCACAACTCAGTAT-GGAAATACCATACTTATGT
1 TTCACAACTCAGTATGGGAAATACCATACCTATGT
*
13380280 TTCACAACTCAGTATGGGAAATGCCATACCTATGT
1 TTCACAACTCAGTATGGGAAATACCATACCTATGT
*
13380315 TTCATAACTCAGTATGG
1 TTCACAACTCAGTATGG
13380332 TTTTCTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 15 0.31
35 33 0.69
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (35 bp):
TTCACAACTCAGTATGGGAAATACCATACCTATGT
Found at i:13382547 original size:49 final size:52
Alignment explanation
Indices: 13382476--13382607 Score: 128
Period size: 49 Copynumber: 2.5 Consensus size: 52
13382466 AAAATATTAT
*
13382476 ATAAAACAATTTCAAATAAATAAT-T-T-GTAAAACAAATTTAAAATAAATA
1 ATAAAACAATTTCAAATAAATAATATATAGAAAAACAAATTTAAAATAAATA
* * * * *
13382525 ATAAGACAATTTTAAATGAATAATATATAGAAAAACAAGTTTAAAATAGATA
1 ATAAAACAATTTCAAATAAATAATATATAGAAAAACAAATTTAAAATAAATA
*
13382577 CTATAAAAAGCAATTT-AAAGTAAATAGTATA
1 --AT-AAAA-CAATTTCAAA-TAAATAATATA
13382608 AAACAATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
49 21 0.32
50 1 0.02
51 1 0.02
52 20 0.30
54 2 0.03
55 6 0.09
56 15 0.23
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (52 bp):
ATAAAACAATTTCAAATAAATAATATATAGAAAAACAAATTTAAAATAAATA
Found at i:13382758 original size:26 final size:25
Alignment explanation
Indices: 13382467--13382976 Score: 171
Period size: 26 Copynumber: 20.6 Consensus size: 25
13382457 ATATGCAACA
* *
13382467 AAATATTATATAAAACAATTTCAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* *
13382493 AAATAATTTGTAAAACAAATTTAAAAT
1 AAATAATATAT-AAA-AAATTTAAAAT
* * *
13382520 AAAT-A-ATA-AGACAATTTTAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
13382542 GAATAATATATAGAAAAACAAGTTTAAAAT
1 AAATAATATAT---AAAA-AA-TTTAAAAT
* * *
13382572 AGATACTATA-AAAAGCAATTTAAAGT
1 AAATAATATATAAAA--AATTTAAAAT
* *
13382598 AAATAGTATA-AAACAATTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
* * *
13382622 CATTAATATACAAAATAA--TAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* ** *
13382646 -AAT-ATATA-GAGCAACTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
13382668 AAATAATTTATAAAACAATTTAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* * *
13382694 -AA-CA-A-ATAAAAAGTTCAAAAT
1 AAATAATATATAAAAAATTTAAAAT
*
13382715 AAATAATATGTGAAAAATAAATTTAAAAT
1 AAATAATA--T-ATAAA-AAATTTAAAAT
*
13382744 AAATAATATAT---AAA--T-ATAT
1 AAATAATATATAAAAAATTTAAAAT
* * *
13382763 ATAT-ATATATAAAACAGTTTAATAT
1 AAATAATATATAAAA-AATTTAAAAT
* *
13382788 AAGTAATATAT--GAAATCTTAAAAT
1 AAATAATATATAAAAAAT-TTAAAAT
** *
13382812 AAATAATA-ATAAAAGGTTTACAAT
1 AAATAATATATAAAAAATTTAAAAT
13382836 AAATAATA-A-AAAAGAATTT-AAAT
1 AAATAATATATAAAA-AATTTAAAAT
** * * * * *
13382859 CAGTTAACATATAAAACA-GTATGACT
1 -AAATAATATATAAAAAATTTA-AAAT
*
13382885 AAATAACATAT--AAAATTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
* *
13382908 AGATAATATATATAAAATAGTTTAAAGT
1 AAATAATATATA-AAAA-A-TTTAAAAT
*
13382936 AAATAACATATAAAAATATTTAAAAT
1 AAATAATATATAAAAA-ATTTAAAAT
*
13382962 AAATAATATGTAAAA
1 AAATAATATATAAAA
13382977 CTGGTTAAAA
Statistics
Matches: 354, Mismatches: 80, Indels: 100
0.66 0.15 0.19
Matches are distributed among these distances:
18 6 0.02
19 6 0.02
20 3 0.01
21 10 0.03
22 35 0.10
23 34 0.10
24 72 0.20
25 26 0.07
26 78 0.22
27 27 0.08
28 24 0.07
29 19 0.05
30 14 0.04
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
AAATAATATATAAAAAATTTAAAAT
Found at i:13382984 original size:26 final size:26
Alignment explanation
Indices: 13382767--13382993 Score: 104
Period size: 24 Copynumber: 9.0 Consensus size: 26
13382757 ATATATATAT
* *
13382767 ATATATAAAACA-GTTTAATATAAGTA
1 ATATATAAAA-ATGTTTAAAATAAATA
* *
13382793 ATATAT-GAAAT-CTTAAAATAAATA
1 ATATATAAAAATGTTTAAAATAAATA
* *
13382817 ATA-AT-AAAAGGTTTACAATAAATA
1 ATATATAAAAATGTTTAAAATAAATA
* **
13382841 ATA-A-AAAAGA-ATTT-AAATCAGTTA
1 ATATATAAAA-ATGTTTAAAAT-AAATA
* * * *
13382865 ACATATAAAACA-GTAT-GACTAAATA
1 ATATATAAAA-ATGTTTAAAATAAATA
* *
13382890 ACATAT-AAAA--TTTAAAATAGATA
1 ATATATAAAAATGTTTAAAATAAATA
*
13382913 ATATATATAAAATAGTTTAAAGTAAATA
1 ATATATA-AAAAT-GTTTAAAATAAATA
* *
13382941 ACATATAAAAATATTTAAAATAAATA
1 ATATATAAAAATGTTTAAAATAAATA
* * *
13382967 ATATGTAAAACTGGTTAAAATGAAATA
1 ATATATAAAAATGTTTAAAAT-AAATA
13382994 TTTATATATA
Statistics
Matches: 152, Mismatches: 35, Indels: 27
0.71 0.16 0.13
Matches are distributed among these distances:
22 2 0.01
23 20 0.13
24 43 0.28
25 17 0.11
26 43 0.28
27 10 0.07
28 17 0.11
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (26 bp):
ATATATAAAAATGTTTAAAATAAATA
Found at i:13384228 original size:17 final size:17
Alignment explanation
Indices: 13384186--13384236 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
13384176 GGGTTTGTAA
*
13384186 TTGGGTTTTAACTTTGGG
1 TTGGGTTTT-AGTTTGGG
*
13384204 TT-GG-TTTAGTTTGGT
1 TTGGGTTTTAGTTTGGG
13384219 TTGGGTTTTAGTTTGGG
1 TTGGGTTTTAGTTTGGG
13384236 T
1 T
13384237 CATCTGCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.29
16 5 0.18
17 13 0.46
18 2 0.07
ACGTcount: A:0.08, C:0.02, G:0.35, T:0.55
Consensus pattern (17 bp):
TTGGGTTTTAGTTTGGG
Found at i:13384862 original size:89 final size:89
Alignment explanation
Indices: 13384672--13385103 Score: 319
Period size: 89 Copynumber: 4.9 Consensus size: 89
13384662 TTGTTGCTTT
* * *
13384672 AATCTACTCCAATGCAACT-TCAGGAAGATAAGATTTGCTATCTTCAGTCTGCTTCACTGCAACT
1 AATCTACTCCACTGCAACTCT-AGGGAGATAAGATTTGCTATCTTCA-TCTGCTCCACTGCAACT
*
13384736 ACAGGGAGATAAGA-CTCGTAACTTC
64 ACAGGGAGATAAGATCTAGTAACTTC
* * * * * * *
13384761 AACCT-GTCCCACTGCAACTTTAGGGGGATAAGGTTTGCTATCTTCGATCTACTCCACTGCAGCT
1 AATCTACT-CCACTGCAACTCTAGGGAGATAAGATTTGCTATCTTC-ATCTGCTCCACTGCAACT
* * *
13384825 CCAGGGGGATCAGATCT-GTAACTTC
64 ACAGGGAGATAAGATCTAGTAACTTC
* * *
13384850 AATCTACTCCACTACAACTCTAGGGAGATTAGACTCTTG--A-CTTCAACTTGCTCCACTGCAAC
1 AATCTACTCCACTGCAACTCTAGGGAGATAAGA-T-TTGCTATCTTCATC-TGCTCCACTGCAAC
* * * * *
13384912 TTCAGGGAGATAAGGTTTACTATCTTC
63 TACAGGGAGATAAGATCTAGTAACTTC
* * * * * * * * * *
13384939 AATCTACTCCACTGCAACTCTAGGGGGATAAGACTAG-TAACTTTAATTTACTCCTCTGTAACTT
1 AATCTACTCCACTGCAACTCTAGGGAGATAAGATTTGCTATC-TTCATCTGCTCCACTGCAACTA
* * **
13385003 TAGAGAGATAAGAT-TAGTGGCTTC
65 CAGGGAGATAAGATCTAGTAACTTC
* * ** * *
13385027 AATCTGCTCC-CTGCAACTCTAGGGAGATAAGATTAG-TGGCTTCAATATGCTCCACTGCAACTT
1 AATCTACTCCACTGCAACTCTAGGGAGATAAGATTTGCTATCTTC-ATCTGCTCCACTGCAACTA
*
13385090 TAGGGAGATAAGAT
65 CAGGGAGATAAGAT
13385104 TCGCCATGGT
Statistics
Matches: 273, Mismatches: 57, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
86 2 0.01
87 58 0.21
88 47 0.17
89 154 0.56
90 9 0.03
91 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (89 bp):
AATCTACTCCACTGCAACTCTAGGGAGATAAGATTTGCTATCTTCATCTGCTCCACTGCAACTAC
AGGGAGATAAGATCTAGTAACTTC
Found at i:13384884 original size:133 final size:133
Alignment explanation
Indices: 13384672--13385102 Score: 388
Period size: 133 Copynumber: 3.2 Consensus size: 133
13384662 TTGTTGCTTT
* * ** * * * * * * *
13384672 AATCTACTCCAATGCAACTTCAGGAAGATAAGATTTGCTATCTTCAGTCTGCTTCACTGCAACTA
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGACTAG-TAACTTCAATCTACTCCACTACAACT-
* * *
13384737 C-AGGGAGATAAGACTCGTAACTTCAACCTG-TCCCACTGCAACTTTAGGGGGATAAGGTTTGCT
64 CTAGGGAGATAAGACTCGTAACTTCAACCTGCT-CCACTGCAACTTCAGGGAGATAAGGTTTACT
13384800 ATCTTC
128 ATCTTC
* * *
13384806 GATCTACTCCACTGCAGCTCCAGGGGGATCAGATCT-GTAACTTCAATCTACTCCACTACAACTC
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGA-CTAGTAACTTCAATCTACTCCACTACAACTC
* * * *
13384870 TAGGGAGATTAGACTCTTGACTTCAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTACTAT
65 TAGGGAGATAAGACTCGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTACTAT
13384935 CTTC
130 CTTC
* * * * ** *
13384939 AATCTACTCCACTGCAACTCTAGGGGGATAAGACTAGTAACTTTAATTTACTCCTCTGTAACTTT
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGACTAGTAACTTCAATCTACTCCACTACAACTCT
* * * ** * * * **
13385004 AGAGAGATAAGATTAGTGGCTTCAATCTGCTCC-CTGCAAC-TCTAGGGAGATAA-GATTAGTGG
66 AGGGAGATAAGACTCGTAACTTCAACCTGCTCCACTGCAACTTC-AGGGAGATAAGGTTTACTAT
13385066 CTTC
130 CTTC
* * ** *
13385070 AATATGCTCCACTGCAACTTTAGGGAGATAAGA
1 AATCTACTCCACTGCAACTCCAGGGGGATAAGA
13385103 TTCGCCATGG
Statistics
Matches: 246, Mismatches: 46, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
131 40 0.16
132 20 0.08
133 157 0.64
134 28 0.11
135 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (133 bp):
AATCTACTCCACTGCAACTCCAGGGGGATAAGACTAGTAACTTCAATCTACTCCACTACAACTCT
AGGGAGATAAGACTCGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTACTATC
TTC
Found at i:13385103 original size:44 final size:44
Alignment explanation
Indices: 13384655--13385104 Score: 292
Period size: 44 Copynumber: 10.2 Consensus size: 44
13384645 CTTCAGAGGT
* * * *
13384655 ATAAGATTTGTTG-CTTTAATCTACTCCAATGCAACT-TCAGGAAG
1 ATAAGATTAG-TGACTTCAATCTACTCCACTGCAACTCT-AGGGAG
* * * *
13384699 ATAAGATTTGCT-ATCTTCAGTCTGCTTCACTGCAACTAC-AGGGAG
1 ATAAGATTAG-TGA-CTTCAATCTACTCCACTGCAACT-CTAGGGAG
* * * * * * *
13384744 ATAAGACTCGTAACTTCAACCT-GTCCCACTGCAACTTTAGGGGG
1 ATAAGATTAGTGACTTCAATCTACT-CCACTGCAACTCTAGGGAG
* * * * * *
13384788 ATAAGGTTTGCT-ATCTTCGATCTACTCCACTGCAGCTCCAGGGGG
1 ATAAGATTAG-TGA-CTTCAATCTACTCCACTGCAACTCTAGGGAG
* * *
13384833 ATCAGATCT-GTAACTTCAATCTACTCCACTACAACTCTAGGGAG
1 ATAAGAT-TAGTGACTTCAATCTACTCCACTGCAACTCTAGGGAG
* * ** *
13384877 ATTAGACTCTTGACTTCAA-CTTGCTCCACTGCAACT-TCAGGGAG
1 ATAAGATTAGTGACTTCAATC-TACTCCACTGCAACTCT-AGGGAG
* * *
13384921 ATAAGGTTTACT-ATCTTCAATCTACTCCACTGCAACTCTAGGGGG
1 ATAA-GATTAGTGA-CTTCAATCTACTCCACTGCAACTCTAGGGAG
* * * * * * * *
13384966 ATAAGACTAGTAACTTTAATTTACTCCTCTGTAACTTTAGAGAG
1 ATAAGATTAGTGACTTCAATCTACTCCACTGCAACTCTAGGGAG
* *
13385010 ATAAGATTAGTGGCTTCAATCTGCTCC-CTGCAACTCTAGGGAG
1 ATAAGATTAGTGACTTCAATCTACTCCACTGCAACTCTAGGGAG
* * * *
13385053 ATAAGATTAGTGGCTTCAATATGCTCCACTGCAACTTTAGGGAG
1 ATAAGATTAGTGACTTCAATCTACTCCACTGCAACTCTAGGGAG
13385097 ATAAGATT
1 ATAAGATT
13385105 CGCCATGGTG
Statistics
Matches: 320, Mismatches: 65, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
43 43 0.13
44 177 0.55
45 96 0.30
46 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
ATAAGATTAGTGACTTCAATCTACTCCACTGCAACTCTAGGGAG
Found at i:13388022 original size:37 final size:37
Alignment explanation
Indices: 13387977--13388048 Score: 128
Period size: 37 Copynumber: 1.9 Consensus size: 37
13387967 ATCCATATGA
13387977 TTGGTTATGAATGAAAT-AGAAAGAATAAAAGAATATT
1 TTGGTTATGAATGAAATGA-AAAGAATAAAAGAATATT
13388014 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATA
1 TTGGTTATGAATGAAATGAAAAGAATAAAAGAATA
13388049 CTTGCTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (37 bp):
TTGGTTATGAATGAAATGAAAAGAATAAAAGAATATT
Found at i:13395973 original size:11 final size:11
Alignment explanation
Indices: 13395957--13395981 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13395947 TTTTCACTCC
13395957 TACTGTACGCA
1 TACTGTACGCA
13395968 TACTGTACGCA
1 TACTGTACGCA
13395979 TAC
1 TAC
13395982 ACATACAATA
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:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (11 bp):
TACTGTACGCA
Found at i:13397966 original size:2 final size:2
Alignment explanation
Indices: 13397959--13397992 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13397949 ATTTTGTTTC
13397959 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13397993 CTTTTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13398195 original size:2 final size:2
Alignment explanation
Indices: 13398188--13398224 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13398178 TTAACCCTTT
13398188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13398225 GTGTGTGTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13402882 original size:12 final size:12
Alignment explanation
Indices: 13402865--13402921 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
13402855 TTGAGACCTT
*
13402865 AAAAAAATAAAA
1 AAAAAAAGAAAA
*
13402877 AAAAAAAGAGAA
1 AAAAAAAGAAAA
*
13402889 ATAAAAAGAAAA
1 AAAAAAAGAAAA
**
13402901 AAATCAA-AAAA
1 AAAAAAAGAAAA
*
13402912 AAAGAAAGAA
1 AAAAAAAGAA
13402922 TCAATCAAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (12 bp):
AAAAAAAGAAAA
Done.