Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 49 of 211
Found at i:13128003 original size:125 final size:125
Alignment explanation
Indices: 13127605--13128171 Score: 791
Period size: 125 Copynumber: 4.5 Consensus size: 125
13127595 GATAAAATCA
* * * * * * *
13127605 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTAGAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
13127670 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
13127730 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
13127795 TGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTTTCAGCAAATAGTTTTAAAAAACGCTTC
66 AGGTCCT-GAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TATAAAAAACGCTTC
* *
13127857 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
13127922 AGGTCCT-AAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * *
13127982 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
13128046 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTAAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
13128106 TAGCA-GATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCATGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
13128170 AG
66 AG
13128172 CATGCTTAGG
Statistics
Matches: 393, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
122 2 0.01
123 53 0.13
124 16 0.04
125 169 0.43
126 71 0.18
127 82 0.21
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:13128054 original size:252 final size:249
Alignment explanation
Indices: 13127605--13128171 Score: 843
Period size: 252 Copynumber: 2.3 Consensus size: 249
13127595 GATAAAATCA
* * * * * *
13127605 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTAGAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
13127670 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCA
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
* * *
13127735 GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTTGGTC
131 GCATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
* * * *
13127800 CTGGAAGAAATAATTTCGAGTTGACGTTTTTCAGCAAATAGTTTTAAAAAACGCTTC
196 CTGGAA-AAATAATTTCGACTTGACGTTTCTAAGCAAATAG-TAT-AAAAACGCTTC
13127857 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
13127922 AGGTCCT-AAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAGC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTGCAAGC
*
13127986 AGCATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGG
130 AGCATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
*
13128050 TCCTGGAAAAATAATTTCGACTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTC
194 TCCTGGAAAAATAATTTCGACTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTC
* * * * *
13128106 TAGCA-GATGCTTTATGAGAAGAATTTGTGAAATCGTGCCCATGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
13128170 AG
66 AG
13128172 CATGCTTAGG
Statistics
Matches: 288, Mismatches: 25, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
248 57 0.20
249 14 0.05
250 2 0.01
251 71 0.25
252 142 0.49
253 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (249 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
GCATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
CTGGAAAAATAATTTCGACTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTC
Found at i:13129391 original size:22 final size:22
Alignment explanation
Indices: 13129342--13129795 Score: 525
Period size: 22 Copynumber: 21.0 Consensus size: 22
13129332 TCAAATTATA
*
13129342 TTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13129363 TTTAATTTAAGGATTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
13129385 TTAAATTTAAGTG-CTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129405 TTTAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13129426 TTTAAGTTAAGGGTTTATGGAT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129448 TTTAATTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129469 TTTAATGTTAATGG-TTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
13129491 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129513 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
13129535 TTTAAGTTATA-GGTTTAGGGTT
1 TTTAAGTTA-AGGGTTTAGGGTT
13129557 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
13129579 TTAAAGTTAATGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129600 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129622 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13129644 TTTAATTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129665 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
13129687 TTAAAGTCAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
13129708 TTTAGGTTAAGGGGCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
13129730 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
13129752 TTTAGGTTTAGGGTTTAAGTTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
13129774 TTTAAATTTAAGGG-TTAGGGTT
1 TTT-AAGTTAAGGGTTTAGGGTT
13129796 AGGGGTAAGG
Statistics
Matches: 367, Mismatches: 54, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
20 15 0.04
21 103 0.28
22 241 0.66
23 8 0.02
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:13129406 original size:43 final size:43
Alignment explanation
Indices: 13129342--13129795 Score: 531
Period size: 43 Copynumber: 10.5 Consensus size: 43
13129332 TCAAATTATA
* * *
13129342 TTTAAGTTAAGGGTTAAGGTTTTTAATTTAAGGATTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
13129385 TTAAATTTAAGTGCTAGGG-TTTTAAGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
13129426 TTTAAGTTAAGGGTTTATGGATTTTAATTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
13129469 TTTAATGTTAATGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
13129513 TTTAAGTTAAGGGGTTAGGGTTTTTAAGTTATA-GGTTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTA-AGGGTTTAGGGTT
* * *
13129557 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAATGG-TTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
13129600 TTTAGGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
13129644 TTTAATTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * **
13129687 TTAAAGTCAAGGGTTAGGGTTTTTAGGTTAAGGGGCTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
13129730 TTTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTAAGTTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
13129774 TTTAAATTTAAGGGTTAGGGTT
1 TTT-AAGTTAAGGGTTAGGGTT
13129796 AGGGGTAAGG
Statistics
Matches: 351, Mismatches: 48, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
41 17 0.05
42 16 0.05
43 178 0.51
44 130 0.37
45 10 0.03
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:13129493 original size:65 final size:64
Alignment explanation
Indices: 13129342--13129795 Score: 531
Period size: 65 Copynumber: 7.0 Consensus size: 64
13129332 TCAAATTATA
* * * * * *
13129342 TTTAAGTTAAGGG-TTAAGGTTTTTAATTTAAGGATTTAGGGTTTTAAATTTAAGTGCTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGT
* * *
13129405 TTTAAGTTAAGGG-TTAGTGTTTTTAAGTTAAGGGTTTATGGATTTTAATTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGG-TTAGGGT
* *
13129469 TTTAATGTTAATGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAGGG
1 TTTAA-GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTAGGG
13129533 TT
64 -T
* * * *
13129535 TTTAAGTTATA-GGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAATGGTTAGGAT
1 TTTAAGTTA-AGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGG-G
13129599 T
64 T
* * *
13129600 TTTAGGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTT-AGGGT
* * * ** *
13129665 TTTAAGTTAAGGGTTTAGGATTTTAAAGTCAAGGG-TTAGGGTTTTTAGGTTAAGGGGCTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTAGGG-
13129729 T
64 T
* * * *
13129730 TTTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTAAGTTTTTTAAATTTAAGGGTTAGGGT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT-AATTTAAGGGTTAGGGT
13129795 T
1 T
13129796 AGGGGTAAGG
Statistics
Matches: 337, Mismatches: 41, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
63 48 0.14
64 31 0.09
65 184 0.55
66 69 0.20
67 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (64 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTAGGGT
Found at i:13130408 original size:18 final size:18
Alignment explanation
Indices: 13130381--13130415 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13130371 GAAAAATGAA
* *
13130381 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
13130399 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
13130416 AATGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:13131046 original size:7 final size:7
Alignment explanation
Indices: 13131036--13131061 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13131026 TTATATACAT
13131036 AATACTA
1 AATACTA
13131043 AATACTA
1 AATACTA
13131050 AATACTA
1 AATACTA
13131057 AATAC
1 AATAC
13131062 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:13131267 original size:20 final size:20
Alignment explanation
Indices: 13131230--13131267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13131220 TTTATTTTTA
*
13131230 AAAATCTACATAATAATTGC
1 AAAATCTACATAAAAATTGC
13131250 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
13131268 TACATCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGC
Found at i:13132301 original size:12 final size:11
Alignment explanation
Indices: 13132265--13132319 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
13132255 ATAAATATGG
13132265 ATTTGAGAGAA
1 ATTTGAGAGAA
*
13132276 ATTTTGA-AGGA
1 A-TTTGAGAGAA
13132287 ATTTGAGAGCAA
1 ATTTGAGAG-AA
13132299 A-TTGAGAGGAA
1 ATTTGAGA-GAA
*
13132310 ATTTAAGAGA
1 ATTTGAGAGA
13132320 GGATTAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
10 5 0.14
11 18 0.50
12 13 0.36
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:13132308 original size:22 final size:22
Alignment explanation
Indices: 13132265--13132319 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
13132255 ATAAATATGG
13132265 ATTTGAGAGAAATTTTGAAGG-A
1 ATTTGAGAGAAA-TTTGAAGGAA
13132287 ATTTGAGAGCAAA-TTGAGAGGAA
1 ATTTGAGAG-AAATTTGA-AGGAA
*
13132310 ATTTAAGAGA
1 ATTTGAGAGA
13132320 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 4 0.14
22 13 0.45
23 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGAAGGAA
Found at i:13144670 original size:44 final size:44
Alignment explanation
Indices: 13144608--13144747 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 44
13144598 ATGTGATATT
** * *
13144608 GTGTAAGACCACATCTGGGACGTTGGCATCGATTTGATAT-TTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATGT-ATATATTAC
*
13144652 GTGTAAGACCATGCCTGGGACATT-GC--CGATGTATATGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATGTATAT-ATTAC
* * *
13144694 GTGTAAGACCCTGTCTGGGACAATGGCATC-AT-TATTTGATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATGTATAT-ATTAC
*
13144737 ATGTAAGACCA
1 GTGTAAGACCA
13144748 CGTTTGGATG
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
40 4 0.05
41 5 0.06
42 25 0.31
43 23 0.29
44 22 0.28
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATGTATATATTAC
Found at i:13148982 original size:40 final size:41
Alignment explanation
Indices: 13148923--13149002 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
13148913 TAACAGTTTA
* * *
13148923 GGCCTTAGCTCATCTCAGTA-CAATATCAAACATGCAGTAG
1 GGCCTTAGCCCATCACAGTATCAATAGCAAACATGCAGTAG
**
13148963 GGCCTTAGCCCATCACAGTATCAATAGCAGTCATGCAGTA
1 GGCCTTAGCCCATCACAGTATCAATAGCAAACATGCAGTA
13149003 TTCAGTATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
40 18 0.53
41 16 0.47
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (41 bp):
GGCCTTAGCCCATCACAGTATCAATAGCAAACATGCAGTAG
Found at i:13156530 original size:265 final size:262
Alignment explanation
Indices: 13156008--13156821 Score: 1206
Period size: 264 Copynumber: 3.1 Consensus size: 262
13155998 TGCACGCAAC
13156008 AAACACAACCCTCTTTGAAGTGCATTTTTTTTATAAAAGTTTTATTATTTTTCAAGAAAAAAAAT
1 AAACACAACCCTCTTTGAAGTGCATTTTTTTTATAAAAGTTTTATTATTTTTCAAG--AAAAAAT
* * *
13156073 AAAATCTTTAAACTATTTATTTTTTCAATTTTACTGTTCCAAAAAATCTGGAATTGGAATATTTT
64 AAAATCTTTAAACTATTTATTTTTCCAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATA--TT
* **
13156138 TTTTGGCTATTGGGGCAGAAATAGTGGGGCAATTTTTTGTG-TTTTTTACTTCTTTGCCCCTACT
127 TTTTGGCTGTT-GGGCAGAAATAGTGGGGCAA-TTTCAGTGCTTTTTTACTTCTTTGCCCCTACT
13156202 TATTTACCATTTTGCCCTTCTATTACTAGTATAAATAGA-TAGTTGATTTCTTCATTCTTTTCAC
190 TATTTACCATTTTGCCCTTCTATTACTAGTATAAATAGAGT-GTTGATTTCTTCATTCTTTTCAC
13156266 ACTGAACAG
254 ACTGAACAG
* * *
13156275 AGACACAACTCTTTTTGAAGTGCATTTTTTTTATAAAAGTTTTATTATTTTTCAAGAAAGAAATA
1 AAACACAACCCTCTTTGAAGTGCATTTTTTTTATAAAAGTTTTATTATTTTTCAAGAAA-AAATA
* * * *
13156340 AAATGTTTAAATTATTTATTTTTCCAGTTTTACTGTTTCGAAAAATCTGGAACTGGAATATTTTT
65 AAATCTTTAAACTATTTATTTTTCCAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATATTTTT
13156405 TGGCTGTTGGAGCAGAAATAGTGGGGCAATTTCAGTGCATTTTTTACTTCTTTGCCCCTACTTAT
130 TGGCTGTTGG-GCAGAAATAGTGGGGCAATTTCAGTGC-TTTTTTACTTCTTTGCCCCTACTTAT
13156470 TTACCATTTTG-CCTTCTATTACTAGTATAAGATAGAGTGTTGATTTCTTCATTCTTTTCACACT
193 TTACCATTTTGCCCTTCTATTACTAGTATAA-ATAGAGTGTTGATTTCTTCATTCTTTTCACACT
13156534 GAACAG
257 GAACAG
*
13156540 AAACACAACCCTCTCTGAAGTGCATATTTTTTTATAAAA-TTTTAATTATTTTTCAA-AAAAAAT
1 AAACACAACCCTCTTTGAAGTGCAT-TTTTTTTATAAAAGTTTT-ATTATTTTTCAAGAAAAAAT
* * *
13156603 AAAATCTTTAAACTATTTATTTTTCTAGTTTTACTGTTCCGAAAAATCTGAAATTGGAATTTTTT
64 AAAATCTTTAAACTATTTATTTTTCCAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATATTTT
* * * *
13156668 TTTGCTGTTGGGCAGAAATAGTAGGGCAATTTCAGTGCGTTTTTCACTTCTTTTCCCCTACTTAT
129 TTGGCTGTTGGGCAGAAATAGTGGGGCAATTTCAGTGC-TTTTTTACTTCTTTGCCCCTACTTAT
* * * *
13156733 TTACCGTTTTGTCCTTCTGTTACTAGTATAAATAGAGGGTTGATTTCTTCATTCTTTTCACACTG
193 TTACCATTTTGCCCTTCTATTACTAGTATAAATAGAGTGTTGATTTCTTCATTCTTTTCACACTG
*
13156798 AATAG
258 AACAG
* * *
13156803 AAATACAACCTTCTCTGAA
1 AAACACAACCCTCTTTGAA
13156822 AATATTTTTA
Statistics
Matches: 503, Mismatches: 35, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
263 122 0.24
264 139 0.28
265 105 0.21
266 84 0.17
267 53 0.11
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (262 bp):
AAACACAACCCTCTTTGAAGTGCATTTTTTTTATAAAAGTTTTATTATTTTTCAAGAAAAAATAA
AATCTTTAAACTATTTATTTTTCCAGTTTTACTGTTCCGAAAAATCTGGAATTGGAATATTTTTT
GGCTGTTGGGCAGAAATAGTGGGGCAATTTCAGTGCTTTTTTACTTCTTTGCCCCTACTTATTTA
CCATTTTGCCCTTCTATTACTAGTATAAATAGAGTGTTGATTTCTTCATTCTTTTCACACTGAAC
AG
Found at i:13158148 original size:18 final size:18
Alignment explanation
Indices: 13158116--13158158 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13158106 AATTATTAAA
13158116 ATATTTA-AAATAAAATC
1 ATATTTATAAATAAAATC
* *
13158133 ATATTTATATATAAAATT
1 ATATTTATAAATAAAATC
13158151 ATATTTAT
1 ATATTTAT
13158159 GTTATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATAAATAAAATC
Found at i:13163087 original size:43 final size:45
Alignment explanation
Indices: 13163003--13163119 Score: 159
Period size: 43 Copynumber: 2.7 Consensus size: 45
13162993 ATTTTAATTC
* *
13163003 GCTCCACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTAGTAGCCTCAATCT
*
13163047 GCTCCACTGCAACTT-AGGGAGATAAGACTT-GTATCCTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGACTTAGTAGCCTCAATCT
* * *
13163090 GCCCCACTGCAACTTCAGGGGGATCAGACT
1 GCTCCACTGCAACTTCAGGGAGATAAGACT
13163120 GGTGGCTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 36 0.55
44 29 0.45
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTTAGTAGCCTCAATCT
Found at i:13163135 original size:44 final size:43
Alignment explanation
Indices: 13163006--13163135 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
13162996 TTAATTCGCT
* *
13163006 CCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATA-GACTAGTAGCTTCAATCTGCC
* * *
13163050 CCACTGCAACTT-AGGGAGATAAGACTTGTATCCTCAATCTGCC
1 CCACTGCAACTTCAGGGAGAT-AGACTAGTAGCTTCAATCTGCC
* * * *
13163093 CCACTGCAACTTCAGGGGGATCAGACTGGTGGCTTAAATCTGC
1 CCACTGCAACTTCAGGGAGAT-AGACTAGTAGCTTCAATCTGC
13163136 TTCCCTACTA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
43 36 0.50
44 36 0.50
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAGACTAGTAGCTTCAATCTGCC
Found at i:13163449 original size:45 final size:45
Alignment explanation
Indices: 13163389--13163857 Score: 518
Period size: 45 Copynumber: 10.4 Consensus size: 45
13163379 ACCAACTTTT
* * * * *
13163389 GATCTGCTTCACTGCCAGTACAAGAAGACAAGATTTGCTATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
*
13163434 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCT-ATAATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-ATCTTC
* * * * *** * *
13163479 GACCTACTCCACTACTGCT-CAGGGAGACAAGATCTGCTATCTTT
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * * *
13163523 GATATACTTCGCTGCCAATATAGGAAGACAATATCTACTATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
13163568 GACCTACTTCGCTGCCAATACAAGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * *
13163613 GACCTACTTCGCTGCCAATACAAGAAGACAAGATTTGCTATCTT-
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* ** * *
13163657 TAGTCTACTTCGCTATCAATACAGGAAGACAAGACCTGTTATCTTC
1 GA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * * *
13163703 GATCTACTTCGCTACCAATATAGGAAGATAAGATCTGCTATCTTT
1 GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
13163748 GA-CTTACTTTGCTGCCAATACAGGAAGATAAGATCTGCTATCTTC
1 GATC-TACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
13163793 -AGTCTACTTCGCTGTCAATACAGGAAGACAAGA-CTTACTATCTTC
1 GA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCTATCTTC
13163838 GATCTACTTCGCTGCCAATA
1 GATCTACTTCGCTGCCAATA
13163858 TAGAAAGATA
Statistics
Matches: 354, Mismatches: 60, Indels: 20
0.82 0.14 0.05
Matches are distributed among these distances:
44 36 0.10
45 315 0.89
46 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
Found at i:13166770 original size:14 final size:13
Alignment explanation
Indices: 13166736--13166766 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13166726 GGATTTTTGG
13166736 ATTTTTCTTTTCA
1 ATTTTTCTTTTCA
13166749 ATTTTTCTTTTC-
1 ATTTTTCTTTTCA
13166761 ATTTTT
1 ATTTTT
13166767 TTCTGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTCTTTTCA
Found at i:13167610 original size:18 final size:17
Alignment explanation
Indices: 13167578--13167611 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13167568 TCTTTTATTT
13167578 TATTTTTTGTATATATG
1 TATTTTTTGTATATATG
*
13167595 TATTTGTTTTTATATAT
1 TATTT-TTTGTATATAT
13167612 ATGATTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TATTTTTTGTATATATG
Found at i:13171874 original size:21 final size:20
Alignment explanation
Indices: 13171832--13171874 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
13171822 TACTCGACGG
*
13171832 AAAACTAAGAAAATAGACCA
1 AAAACTAAGAAAATAGAACA
* *
13171852 AAAACTAGAGAAACTGGAACA
1 AAAACTA-AGAAAATAGAACA
13171873 AA
1 AA
13171875 TGCAACGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (20 bp):
AAAACTAAGAAAATAGAACA
Found at i:13180245 original size:131 final size:131
Alignment explanation
Indices: 13180011--13180256 Score: 375
Period size: 131 Copynumber: 1.9 Consensus size: 131
13180001 ACCAGTAAAG
* * * * * *
13180011 ATTGCAGATCTTATCTCCCTAAGCAGTAGCGGAACTGATCGAAGATGACGAATCTTATCTTCCCC
1 ATTGCAGATCTTACCTCCCTAAGCAGTAGCGGAACAGATCAAAAACGACGAATCTCATCTTCCCC
*
13180076 AGGAGTAGGGAAACAGATATAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAACAGGTTGGA
66 AGGAATAGGGAAACAGATATAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAACAGGTTGGA
13180141 A
131 A
* * * *
13180142 ATTGCAGATTTTGCCTCCCTAAGCAGTAGCGGAGCAGATCAAAAACGGCGAATCTCATCTTCCCC
1 ATTGCAGATCTTACCTCCCTAAGCAGTAGCGGAACAGATCAAAAACGACGAATCTCATCTTCCCC
* *
13180207 AGGAATAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACTAGCA
66 AGGAATAGGGAAACAGATATAAGCCACAAGTCCTATGTCCCTGACCAGCA
13180257 AGGGGATAGC
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 102 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (131 bp):
ATTGCAGATCTTACCTCCCTAAGCAGTAGCGGAACAGATCAAAAACGACGAATCTCATCTTCCCC
AGGAATAGGGAAACAGATATAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAACAGGTTGGA
A
Found at i:13181721 original size:18 final size:17
Alignment explanation
Indices: 13181689--13181722 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13181679 TCTTTTATTT
13181689 TATTTTTTGTATATATG
1 TATTTTTTGTATATATG
*
13181706 TATTTGTTTTTATATAT
1 TATTT-TTTGTATATAT
13181723 ATGATTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (17 bp):
TATTTTTTGTATATATG
Found at i:13186411 original size:17 final size:18
Alignment explanation
Indices: 13186384--13186417 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13186374 ACTTACAAAA
*
13186384 TATGTATATATATATAAG
1 TATGTATATATAAATAAG
13186402 TATG-ATATATAAATAA
1 TATGTATATATAAATAA
13186418 ATTTTGAAAA
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:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
TATGTATATATAAATAAG
Found at i:13186452 original size:14 final size:14
Alignment explanation
Indices: 13186435--13186479 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
13186425 AAATATGTAT
*
13186435 ATACATATATTTAA
1 ATACATATATATAA
*
13186449 ATACGTATATATAA
1 ATACATATATATAA
13186463 GTATACATATATATAA
1 --ATACATATATATAA
13186479 A
1 A
13186480 AAATGAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (14 bp):
ATACATATATATAA
Found at i:13188655 original size:50 final size:50
Alignment explanation
Indices: 13188505--13188669 Score: 136
Period size: 50 Copynumber: 3.3 Consensus size: 50
13188495 CGTCCTCGTA
* * * *
13188505 GCTTCAATCTGCTCCACTACACCGCCAAGAAAGTAAGATT-AGCCATTGTG
1 GCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCA-CCATTGTG
* * * * ** * ** * ** * *
13188555 GCTTCAATCTTTTCAATTGCAATG-TCGGGAAACAAGATCCGTCGTCGTG
1 GCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCATTGTG
13188604 GCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCATTGTG
1 GCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCATTGTG
*
13188654 GCTTCAATCTATTCCA
1 GCTTCAATCTGTTCCA
13188670 TTGTAATGCC
Statistics
Matches: 80, Mismatches: 33, Indels: 4
0.68 0.28 0.03
Matches are distributed among these distances:
49 31 0.39
50 49 0.61
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (50 bp):
GCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCACCATTGTG
Found at i:13188660 original size:99 final size:99
Alignment explanation
Indices: 13188489--13188677 Score: 272
Period size: 99 Copynumber: 1.9 Consensus size: 99
13188479 CCAGGGAGAT
*
13188489 AAGATTCGTCCTCGTAGCTTCAATCTGCTCCACTACACCGCCAAGAAAGTAAGATTAGCCATTGT
1 AAGATCCGTCCTCGTAGCTTCAATCTGCTCCACTACACCGCCAAGAAAGTAAGATTAGCCATTGT
*
13188554 GGCTTCAATCTTTTCAATTGCAATGTCGGGAAAC
66 GGCTTCAATCTATTCAATTGCAATGTCGGGAAAC
* * * * * *
13188588 AAGATCCGTCGTCGTGGCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAGATTCA-CCATTG
1 AAGATCCGTCCTCGTAGCTTCAATCTGCTCCACTACACCGCCAAGAAAGTAAGATT-AGCCATTG
* *
13188652 TGGCTTCAATCTATTCCATTGTAATG
65 TGGCTTCAATCTATTCAATTGCAATG
13188678 CCAAAGAGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 78 0.99
100 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (99 bp):
AAGATCCGTCCTCGTAGCTTCAATCTGCTCCACTACACCGCCAAGAAAGTAAGATTAGCCATTGT
GGCTTCAATCTATTCAATTGCAATGTCGGGAAAC
Found at i:13188844 original size:50 final size:50
Alignment explanation
Indices: 13188741--13188844 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
13188731 TCCAAGCCTT
* * *
13188741 AACGCCAGGGAGATAAGATTTGCCGTCGTGGCTTCAATCTGCTCTGTTAC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTATTAC
* ** *
13188791 AACGCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCTATTGC
1 AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTATTAC
13188841 AACG
1 AACG
13188845 TAAAGGCGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (50 bp):
AACGCCAGGGAAATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTATTAC
Found at i:13188857 original size:50 final size:50
Alignment explanation
Indices: 13188749--13188858 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 50
13188739 TTAACGCCAG
* * * *
13188749 GGAGATAAGATTTGCCGTCGTGGCTTCAATCTGCTCTGTTACAACGCCAG
1 GGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTATTACAACGCAAA
* * ** * *
13188799 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCTATTGCAACGTAAA
1 GGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTATTACAACGCAAA
*
13188849 GGCGATAAGA
1 GGAGATAAGA
13188859 CTGGTGTCCT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (50 bp):
GGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTATTACAACGCAAA
Found at i:13204463 original size:19 final size:19
Alignment explanation
Indices: 13204439--13204475 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13204429 AAATAAAAAT
13204439 AAAAATAAAAGGAAAACAG
1 AAAAATAAAAGGAAAACAG
* *
13204458 AAAAATCAAATGAAAACA
1 AAAAATAAAAGGAAAACA
13204476 ATCAGATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAAATAAAAGGAAAACAG
Found at i:13207174 original size:5 final size:5
Alignment explanation
Indices: 13207164--13207207 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
13207154 TCATTATCAC
13207164 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT
13207208 TCCAAAGTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:13208142 original size:14 final size:14
Alignment explanation
Indices: 13208125--13208162 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
13208115 ATTTATATAT
13208125 AAATATAAATTTTA
1 AAATATAAATTTTA
13208139 AAATTATAAATTTTA
1 AAA-TATAAATTTTA
*
13208154 AAAAATAAA
1 AAATATAAA
13208163 AAAAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATATAAATTTTA
Found at i:13211014 original size:16 final size:16
Alignment explanation
Indices: 13210993--13211060 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
13210983 TTTGGTTCGC
13210993 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13211009 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
13211025 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13211041 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13211057 TGTA
1 TGTA
13211061 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13211317 original size:18 final size:17
Alignment explanation
Indices: 13211296--13211330 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13211286 TTATTATTAA
*
13211296 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13211314 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13211331 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13211384 original size:157 final size:157
Alignment explanation
Indices: 13211183--13211467 Score: 525
Period size: 157 Copynumber: 1.8 Consensus size: 157
13211173 TAGAATACCC
13211183 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
13211248 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
13211313 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
13211340 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
13211405 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
13211468 TAAGGAACCA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 123 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (157 bp):
TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:13211466 original size:15 final size:16
Alignment explanation
Indices: 13211433--13211467 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
13211423 TTAATCATAT
*
13211433 TTAAATATAATTATTA
1 TTAAATATAATTATAA
13211449 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
13211464 TTAA
1 TTAA
13211468 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:13214715 original size:28 final size:28
Alignment explanation
Indices: 13214684--13214738 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13214674 GCAAATCGGT
*
13214684 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
13214712 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
13214739 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:13217674 original size:28 final size:28
Alignment explanation
Indices: 13217630--13217690 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
13217620 AGTAGAAAAG
13217630 AAAAAGAAACAATAGAAAA-AAAACGTGAA
1 AAAAAGAAACAATAGAAAATAAAA--TGAA
*
13217659 AAAAAGAAAGAA-AGAAAATAAAATGAA
1 AAAAAGAAACAATAGAAAATAAAATGAA
13217686 AAAAA
1 AAAAA
13217691 TATGGGTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.30
28 6 0.20
29 15 0.50
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.07
Consensus pattern (28 bp):
AAAAAGAAACAATAGAAAATAAAATGAA
Found at i:13218395 original size:19 final size:21
Alignment explanation
Indices: 13218359--13218397 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13218349 AGATAATAAT
13218359 ATTTATTATTTTTGTAAAATA
1 ATTTATTATTTTTGTAAAATA
13218380 ATTT-TTATTTTT-TAAAAT
1 ATTTATTATTTTTGTAAAAT
13218398 TACATTGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTATTATTTTTGTAAAATA
Found at i:13224730 original size:20 final size:20
Alignment explanation
Indices: 13224705--13224744 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13224695 CGGAAAATAA
13224705 TTTTTGGAAAATGATTTACT
1 TTTTTGGAAAATGATTTACT
13224725 TTTTTGGAAAATGATTTACT
1 TTTTTGGAAAATGATTTACT
13224745 GAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTTTGGAAAATGATTTACT
Found at i:13226156 original size:32 final size:32
Alignment explanation
Indices: 13226110--13226170 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
13226100 TGTCAATCAT
13226110 TTCAATATCCAACAAGCTTAAAACATAATTAA
1 TTCAATATCCAACAAGCTTAAAACATAATTAA
*
13226142 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
13226171 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATTAA
Found at i:13226178 original size:27 final size:30
Alignment explanation
Indices: 13226110--13226183 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
13226100 TGTCAATCAT
*
13226110 TTCAATATCCAACAAGCTTAAAACATAATTAA
1 TTCAATATCTAACAAGCTTAAAAC--AATTAA
13226142 TTCAATATCTAACAAGCTTAAAAC-A-TAA
1 TTCAATATCTAACAAGCTTAAAACAATTAA
13226170 -TCAATATCTAACAA
1 TTCAATATCTAACAA
13226184 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 14 0.34
28 3 0.07
29 1 0.02
32 23 0.56
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATTAA
Found at i:13226194 original size:27 final size:27
Alignment explanation
Indices: 13226111--13226196 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 27
13226101 GTCAATCATT
* *
13226111 TCAATATCCAACAAGCTTAAAACATAATTAA
1 TCAATATCTAACAAGATTAAAAC---A-TAA
*
13226142 TTCAATATCTAACAAGCTTAAAACATAA
1 -TCAATATCTAACAAGATTAAAACATAA
*
13226170 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
13226197 AAATTTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
26 2 0.04
27 22 0.44
28 3 0.06
29 1 0.02
32 22 0.44
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:13231230 original size:30 final size:30
Alignment explanation
Indices: 13231196--13231434 Score: 220
Period size: 30 Copynumber: 8.0 Consensus size: 30
13231186 ATTTTACATG
* *
13231196 TTATTTTATTGTCAGCTTGTGTGAGCAATC
1 TTATTATAATGTCAGCTTGTGTGAGCAATC
*
13231226 TTATTATAATGTCAGCTTGTGTGAACAATAC
1 TTATTATAATGTCAGCTTGTGTGAGCAAT-C
* * *
13231257 -TATTATAATGTCAACTTGTGTGAGTAAAGC
1 TTATTATAATGTCAGCTTGTGTGAG-CAATC
* * *
13231287 -TATTATAATATTAGCTTGTATGAGCAAT-
1 TTATTATAATGTCAGCTTGTGTGAGCAATC
* *
13231315 TCTATCATAATGTCAGCTTGTGTGAGTAAT-
1 T-TATTATAATGTCAGCTTGTGTGAGCAATC
* *
13231345 TCCATCATAATGTCAGCTTGTGTGAGC-AT-
1 T-TATTATAATGTCAGCTTGTGTGAGCAATC
* * *
13231374 TTCCATCATAATGTCAGCTTGTGTGAGAAACC
1 TT--ATTATAATGTCAGCTTGTGTGAGCAATC
* *
13231406 TTATTATAATGTCAACTTGTCTGAGCAAT
1 TTATTATAATGTCAGCTTGTGTGAGCAAT
13231435 GTATTCACTT
Statistics
Matches: 173, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
29 5 0.03
30 162 0.94
31 4 0.02
32 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (30 bp):
TTATTATAATGTCAGCTTGTGTGAGCAATC
Found at i:13231279 original size:60 final size:60
Alignment explanation
Indices: 13231205--13231434 Score: 275
Period size: 60 Copynumber: 3.8 Consensus size: 60
13231195 GTTATTTTAT
* * * *
13231205 TGTCAGCTTGTGTGAGCAATCTTATTATAATGTCAGCTTGTGTGAACAATACTATTATAA
1 TGTCAGCTTGTGTGAGAAATCTTATTATAATGTCAGCTTGTGTGAGCAATTCTATCATAA
* * * * *
13231265 TGTCAACTTGTGTGAGTAAAGC-TATTATAATATTAGCTTGTATGAGCAATTCTATCATAA
1 TGTCAGCTTGTGTGAG-AAATCTTATTATAATGTCAGCTTGTGTGAGCAATTCTATCATAA
* * * * *
13231325 TGTCAGCTTGTGTGAGTAAT-TCCATCATAATGTCAGCTTGTGTGAGCATTTCCATCATAA
1 TGTCAGCTTGTGTGAGAAATCT-TATTATAATGTCAGCTTGTGTGAGCAATTCTATCATAA
* * *
13231385 TGTCAGCTTGTGTGAGAAACCTTATTATAATGTCAACTTGTCTGAGCAAT
1 TGTCAGCTTGTGTGAGAAATCTTATTATAATGTCAGCTTGTGTGAGCAAT
13231435 GTATTCACTT
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
59 2 0.01
60 134 0.96
61 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (60 bp):
TGTCAGCTTGTGTGAGAAATCTTATTATAATGTCAGCTTGTGTGAGCAATTCTATCATAA
Found at i:13232258 original size:19 final size:20
Alignment explanation
Indices: 13232224--13232264 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
13232214 TTTAAAGCTT
13232224 AATTAACTAATGTTTAATTA
1 AATTAACTAATGTTTAATTA
*
13232244 AATTAATTAAT-TTTAATTA
1 AATTAACTAATGTTTAATTA
13232263 AA
1 AA
13232265 GTGGAACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTAACTAATGTTTAATTA
Found at i:13232850 original size:71 final size:71
Alignment explanation
Indices: 13232773--13232916 Score: 243
Period size: 71 Copynumber: 2.0 Consensus size: 71
13232763 TTGGAAGGGA
* * *
13232773 TAAATTGAATTGAATTATTATATAAATCTTAAATTGGACCAAATCAGAAATAATCAGGGAAAATA
1 TAAATTGAATTGAATTATTATATAAATCATAAATTGGACCAAATAAAAAATAATCAGGGAAAATA
13232838 AAAAAT
66 AAAAAT
* *
13232844 TAAATTGAATTGAATTATTATATAGATCATAAATTGGACCAAATAAAAAATAATCGGGGAAAATA
1 TAAATTGAATTGAATTATTATATAAATCATAAATTGGACCAAATAAAAAATAATCAGGGAAAATA
13232909 AAAAAT
66 AAAAAT
13232915 TA
1 TA
13232917 TTGAATAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (71 bp):
TAAATTGAATTGAATTATTATATAAATCATAAATTGGACCAAATAAAAAATAATCAGGGAAAATA
AAAAAT
Found at i:13235260 original size:22 final size:22
Alignment explanation
Indices: 13235235--13235294 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
13235225 GAGATAATTA
13235235 TGTATTTGTCTCGAGAAAACAG
1 TGTATTTGTCTCGAGAAAACAG
* * * **
13235257 TGTATGTGTCCCAAGAAAATTG
1 TGTATTTGTCTCGAGAAAACAG
* *
13235279 TGTATTTTTCTTGAGA
1 TGTATTTGTCTCGAGA
13235295 CATATACCTT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (22 bp):
TGTATTTGTCTCGAGAAAACAG
Found at i:13237217 original size:15 final size:15
Alignment explanation
Indices: 13237197--13237227 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13237187 TAACTTGTGA
13237197 AACTATTAAAAGTTT
1 AACTATTAAAAGTTT
13237212 AACTATTAAAAGTTT
1 AACTATTAAAAGTTT
13237227 A
1 A
13237228 GGGACATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTATTAAAAGTTT
Found at i:13248195 original size:15 final size:15
Alignment explanation
Indices: 13248175--13248206 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13248165 TCCCTTAAAG
*
13248175 TTAACTCGATTTCAA
1 TTAACTCAATTTCAA
13248190 TTAACTCAATTTCAA
1 TTAACTCAATTTCAA
13248205 TT
1 TT
13248207 CAAAAAGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAACTCAATTTCAA
Found at i:13248638 original size:16 final size:17
Alignment explanation
Indices: 13248612--13248648 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
13248602 TTATTTCCCA
13248612 ATTTAATTTAATTTTTG
1 ATTTAATTTAATTTTTG
*
13248629 ATTT-ATTTAATTTTTT
1 ATTTAATTTAATTTTTG
13248645 ATTT
1 ATTT
13248649 CTGCTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
ATTTAATTTAATTTTTG
Found at i:13251950 original size:125 final size:125
Alignment explanation
Indices: 13251814--13252190 Score: 522
Period size: 125 Copynumber: 3.0 Consensus size: 125
13251804 AGTAGTTTTA
* * * *
13251814 GAAAAATTAATTTTGAGAAGATGGTTTTGAAAAGATAATGTCAAAAACGCTTCAAGCAGAATGCA
1 GAAAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * *
13251879 CTATCAGCAAAATTACTGAAAAAGCTCCCACGTGGACGTTATTTTTCTATAATAGTTCCT
66 CTATTAGCAAAATTACTGAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAATAGTTCCT
* * *
13251939 GAAAAAATAATTCTGAGAAGATGATTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGTA
1 GAAAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * * * ** *
13252004 CTGTTAACAAAATTACTAAAAAAAGCTCCCACGTAGACGCTCTTTTTCTACGATAGTTCTT
66 CTATTAGCAAAATTACT-GAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAATAGTTCCT
* *
13252065 G-AAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTAAAAAATGCTTCAAGCAGGATGCA
1 GAAAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * * *
13252129 CTATTAGCAAAATTACTGAAAAGAGCTCCTACGTGAACACTCTTTTTCTATAGTAGTTCCT
66 CTATTAGCAAAATTACTGAAAA-AGCTCCCACGTGGACGCTCTTTTTCTATAATAGTTCCT
13252190 G
1 G
13252191 CTTGGCCTTA
Statistics
Matches: 217, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
124 4 0.02
125 176 0.81
126 37 0.17
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (125 bp):
GAAAAAATAATTTTGAGAAGATGGTTTTGAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
CTATTAGCAAAATTACTGAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAATAGTTCCT
Found at i:13255744 original size:18 final size:18
Alignment explanation
Indices: 13255718--13255760 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
13255708 GACTAGAAAA
* *
13255718 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
13255736 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
13255754 AGGATAC
1 AGGATAC
13255761 GCAGCTGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:13260310 original size:16 final size:16
Alignment explanation
Indices: 13260291--13260322 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13260281 TTTTGATTTG
13260291 GAGCAATTATACAACT
1 GAGCAATTATACAACT
13260307 GAGCAATTATACAACT
1 GAGCAATTATACAACT
13260323 TTTGTTTTTA
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:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
GAGCAATTATACAACT
Found at i:13264086 original size:21 final size:21
Alignment explanation
Indices: 13264060--13264116 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
13264050 ATGTAAAAGG
*
13264060 AAAAATGAAAATAAAATAGAA
1 AAAAATGAAAATAAAATACAA
* *
13264081 AAAAATGAAAA-AAGATTCAA
1 AAAAATGAAAATAAAATACAA
*
13264101 AACAA-GAAAATAAAAT
1 AAAAATGAAAATAAAAT
13264117 CCTCTCAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.17
20 14 0.47
21 11 0.37
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAATAAAATACAA
Found at i:13265092 original size:132 final size:132
Alignment explanation
Indices: 13264938--13265195 Score: 390
Period size: 132 Copynumber: 2.0 Consensus size: 132
13264928 GGTTTGATTC
* * * * *
13264938 AATCTGGTTCCCTATTTCCTTGGGAAGATAAGATTCATTGTCTTTGATCTGCTCCACTACCGCTT
1 AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACCGCTT
* * * * *
13265003 AGGGAGACAGGATCTGCAATCTTCAGCCTACTCCGCTTCTGCTCAGGGAGATAAGGCTAGTGGCT
66 AGGGAGACAGGATATGCAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCT
13265068 TA
131 TA
* *
13265070 AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACCGCTT
* *
13265135 AGGGAGACAGGATATGCAATTTTCAACCTACTCTACTGCTGCTCAAGGAGATAAGGCTAGT
66 AGGGAGACAGGATATGCAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAGT
13265196 TTTTTTTTTA
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 112 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (132 bp):
AATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACCGCTT
AGGGAGACAGGATATGCAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTAGTGGCT
TA
Found at i:13265359 original size:44 final size:43
Alignment explanation
Indices: 13265306--13266183 Score: 391
Period size: 44 Copynumber: 20.4 Consensus size: 43
13265296 TATTGTAACT
* * * *
13265306 TCAGAGAGATAAGATCCTTTATTTAAATCCGCTCCACTGTAATC
1 TCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAATC
* * * *
13265350 TCAGGGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAATC
1 TCAGGGAGATAAGATCT-TTA-CTTCAATCTGCTCCACTGTAATC
* * * * * *
13265394 TTAGGGAGATAAGATC-TGACAT-GATCTACTCTACTGTAA-C
1 TCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAATC
* * * *
13265434 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
1 -TCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAATC
* * * *
13265479 TCAAGGAGATAGGAT-TACTAGCTTCAATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAGATCT-TTA-CTTCAATCTGCTCCACTGTAATC
* * * * * **
13265523 TGAGGGAGATAAGA-CTTGA-TGCGATCTACTCTGCTGTAA-C
1 TCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAATC
* * * *
13265563 TTCAGAGAGATAAGATCCTCTACTTTAGTCTGCTCCACTGTAATC
1 -TCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAATC
* * * * * *
13265608 TCAGGGAGATAAGA-CCTGA-TGCGATCTACTCTACTGTAA-C
1 TCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAATC
* * * * * *
13265648 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTATAA-C
1 -TCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAATC
* * * **
13265692 TTCAGGGAGATAGGA-CAGTGT-CTTCGATCTGCTCCGTTGTAATC
1 -TCAGGGAGATAAGATC--TTTACTTCAATCTGCTCCACTGTAATC
* * * *
13265736 TCAGGGAAATAAGATATTTGGCTTCAATCTGCTCCACTGTAACC
1 TCAGGGAGATAAGATCTTT-ACTTCAATCTGCTCCACTGTAATC
*
13265780 TCAGGGAGATAAGAT-TTCTGGCTTCAATCTGCTCCACTGTAA-C
1 TCAGGGAGATAAGATCTT-T-ACTTCAATCTGCTCCACTGTAATC
* ** * *
13265823 ATCAGGGAGATAAGATATGAAATT-CTTCGGTCTACTCCACTGTAACC
1 -TCAGGGAGATAAGATCT----TTACTTCAATCTGCTCCACTGTAATC
* ** * * *
13265870 TCAGGGAGATAAGA-C-CTGGTGCGATCT-CTCTACTGTAA-C
1 TCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAATC
* * * *
13265909 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
1 -TCAGGGAGATAAGAT-CTTTACTTCAATCTGCTCCACTGTAATC
* *
13265954 TCAGGGAGATAAGAT-TACTAGCTTCAATCTGCTCCGCTGTAATC
1 TCAGGGAGATAAGATCT-TTA-CTTCAATCTGCTCCACTGTAATC
* * ** *
13265998 TCATGGAGATAAGAT-TTGAAATTCTTTGATCTGTTCCACTGTAATC
1 TCAGGGAGATAAGATCTT----TACTTCAATCTGCTCCACTGTAATC
* * ** * * *
13266044 TCAGGGAAATAAGA-C-CTGGTGCGATCT-CTCTACTGTAA-C
1 TCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAATC
* *
13266083 TTCAGAGAGATAAGATC----CTTTAAT-TCGCTCCACTGTAATC
1 -TCAGGGAGATAAGATCTTTACTTCAATCT-GCTCCACTGTAATC
* * * * **
13266123 TCAGGGAGATAGGAT-TACTAAATTCACTCTGCTCTGCTGTAATC
1 TCAGGGAGATAAGATCT--TTACTTCAATCTGCTCCACTGTAATC
13266167 TCAGGGAGATAAGATCT
1 TCAGGGAGATAAGATCT
13266184 GAGATTCTTT
Statistics
Matches: 626, Mismatches: 147, Indels: 121
0.70 0.16 0.14
Matches are distributed among these distances:
37 1 0.00
38 3 0.00
39 25 0.04
40 49 0.08
41 96 0.15
42 12 0.02
43 50 0.08
44 317 0.51
45 6 0.01
46 63 0.10
47 2 0.00
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (43 bp):
TCAGGGAGATAAGATCTTTACTTCAATCTGCTCCACTGTAATC
Found at i:13265433 original size:129 final size:128
Alignment explanation
Indices: 13265275--13265618 Score: 546
Period size: 129 Copynumber: 2.7 Consensus size: 128
13265265 ACAGGAAGAC
*
13265275 AAGATCTGACACGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTAAATCCGCTC
1 AAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT-AATCCGCTC
*
13265340 CACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTTAGGGAGAT
65 CACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTGAGGGAGAT
*
13265404 AAGATCTGACATGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
1 AAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAATCCGCTC
* *
13265469 CACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTGAGGGAGAT
65 CACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTGAGGGAGAT
** * * * *
13265533 AAGA-CTTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTCTACTTTAGTCTGCT
1 AAGATC-TGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAATCCGCT
13265597 CCACTGTAATCTCAGGGAGATA
64 CCACTGTAATCTCAGGGAGATA
13265619 AGACCTGATG
Statistics
Matches: 199, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
128 1 0.01
129 195 0.98
130 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (128 bp):
AAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTAATCCGCTCC
ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTGAGGGAGAT
Found at i:13265560 original size:85 final size:84
Alignment explanation
Indices: 13265286--13266133 Score: 454
Period size: 85 Copynumber: 9.9 Consensus size: 84
13265276 AGATCTGACA
* * * * *
13265286 CGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTAAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCTGCTCCACTGTAATCT
* * * *
13265351 CAGGGAGATAGGATTACTAGCTT
65 CAGGGAGATAAGA--CCT-GATG
* ** * * * * * *
13265374 CAATCTACTCCGCTGTAATCTT-AGGGAGATAAGATCT-GACAT-GATCTACTCTACTGTAA-CT
1 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCTCTACTTCAATCTGCTCCACTGTAATC-
* * *
13265435 TCAGAGAGATAAGATCCTTTATTT
64 TCAGGGAGATAAGA-CC-TGA-TG
** ** * * *
13265459 TAATCCGCTCCACTGTAA-TCTCA-AGGAGATAGGAT-TACTAGCTTCAATCTGCTCCGCTGTAA
1 CGATCTACTCTACTGTAACT-TCAGA-GAGATAAGATCT-CTA-CTTCAATCTGCTCCACTGTAA
* *
13265521 TCTGAGGGAGATAAGACTTGATG
62 TCTCAGGGAGATAAGACCTGATG
* * *
13265544 CGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTCTACTTTAGTCTGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCTGCTCCACTGTAATCT
13265609 CAGGGAGATAAGACCTGATG
65 CAGGGAGATAAGACCTGATG
* * * * * *
13265629 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTATAA-CT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCTGCTCCACTGTAATC-
* * * *
13265693 TCAGGGAGATAGGACAGTGTCTT
64 TCAGGGAGATAAGAC-CTG-ATG
* *** * * * * * *
13265716 CGATCTGCTCCGTTGTAA-TCTCAGGGAAATAAGATATTTGGCTTCAATCTGCTCCACTGTAACC
1 CGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCTCT-ACTTCAATCTGCTCCACTGTAATC
* * *
13265780 TCAGGGAGATAAGATTTCTGGCTT
64 TCAGGGAGATAAGA--CCT-GATG
* * * * * * * * ** * *
13265804 CAATCTGCTCCACTGTAACATCAGGGAGATAAGATATGAAATTCTTCGGTCTACTCCACTGTAAC
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCT---CTACTTCAATCTGCTCCACTGTAAT
*
13265869 CTCAGGGAGATAAGACCTGGTG
63 CTCAGGGAGATAAGACCTGATG
* * * *
13265891 CGATCT-CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTCTACTTCAATCTGCTCCACTGTAATCT
* * *
13265955 CAGGGAGATAAGATTACTAGCTT
65 CAGGGAGATAAGA--CCT-GATG
* * ** * * * ** *
13265978 CAATCTGCTCCGCTGTAA-TCTCATG-GAGATAAGATTTGAAATTCTTTGATCTGTTCCACTGTA
1 CGATCTACTCTACTGTAACT-TCA-GAGAGATAAGATCT---CTACTTCAATCTGCTCCACTGTA
* *
13266041 ATCTCAGGGAAATAAGACCTGGTG
61 ATCTCAGGGAGATAAGACCTGATG
13266065 CGATCT-CTCTACTGTAACTTCAGAGAGATAAGATC-CT--TT-AAT-TCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCT-GCTCCACTGTAATCT
13266124 CAGGGAGATA
65 CAGGGAGATA
13266134 GGATTACTAA
Statistics
Matches: 593, Mismatches: 125, Indels: 93
0.73 0.15 0.11
Matches are distributed among these distances:
78 1 0.00
79 25 0.04
80 2 0.00
82 1 0.00
83 1 0.00
84 37 0.06
85 186 0.31
86 65 0.11
87 88 0.15
88 113 0.19
89 6 0.01
90 67 0.11
91 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (84 bp):
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTCTACTTCAATCTGCTCCACTGTAATCTC
AGGGAGATAAGACCTGATG
Found at i:13265573 original size:41 final size:41
Alignment explanation
Indices: 13265528--13265662 Score: 132
Period size: 41 Copynumber: 3.2 Consensus size: 41
13265518 TAATCTGAGG
*
13265528 GAGATAAGACTTGATGCGATCTACTCTGCTGTAACTTCAGA
1 GAGATAAGACTTGATGCGATCTACTCTACTGTAACTTCAGA
** * * *
13265569 GAGATAAGATCCTCT-ACT-TTAGTCTGCTCCACTGTAA-TCTCAGG
1 GAGATAAGA--CT-TGA-TGCGA-TCTACTCTACTGTAACT-TCAGA
*
13265613 GAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA
1 GAGATAAGACTTGATGCGATCTACTCTACTGTAACTTCAGA
13265654 GAGATAAGA
1 GAGATAAGA
13265663 TCCTTTATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
41 37 0.51
42 4 0.05
43 5 0.07
44 27 0.37
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
GAGATAAGACTTGATGCGATCTACTCTACTGTAACTTCAGA
Found at i:13265692 original size:129 final size:128
Alignment explanation
Indices: 13265288--13266183 Score: 492
Period size: 129 Copynumber: 6.9 Consensus size: 128
13265278 ATCTGACACG
* * * *
13265288 ATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAAATCCGCTCCACTGTAATCTC
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTCTACTTT-AATCTGCTCCACTGTAATCTC
* * * **
13265352 AGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTT-AGGGAGATAAGATC-TGACA
65 AGGGAGATAAGA--ACTAGCTTCAATCTACTCCACTGTAA-CTTCAGGGAGATAAGATCTTTATT
*
13265415 TG
127 TA
* * * *
13265417 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTCTACTTTAATCTGCTCCACTGTAATCTCA
* * * * * * **
13265482 AGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-TCTGAGGGAGATAAGA-CTTGATGC
66 GGGAGATAAGA--ACTAGCTTCAATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTTTATTT
*
13265545 G
128 A
* * *
13265546 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTCTACTTTAGTCTGCTCCACTGTAATCTCA
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTCTACTTTAATCTGCTCCACTGTAATCTCA
* * * * * *
13265611 GGGAGATAAGACCT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 GGGAGATAAGAACTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGAT-CTTTA-TTTA
* * * * * * ** **
13265675 ATCCGCTCTACTATAACTTCAGGGAGATAGGA-CAGTGT-CTTCGATCTGCTCCGTTGTAATCTC
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATC-CTCTACTTTAATCTGCTCCACTGTAATCTC
* * * * * *
13265738 AGGGAAATAAGATATTTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-TTCTGGC
65 AGGGAGATAAGA-A-CTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATCTT-T--A
*
13265802 TTCA
125 TTTA
* * * * * * *** * *
13265806 ATCTGCTCCACTGTAACATCAGGGAGATAAGAT-ATGAAATTCTTCGGTCTACTCCACTGTAACC
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCT---CTACTTTAATCTGCTCCACTGTAATC
* * * * * *
13265870 TCAGGGAGATAAGACCT-GGTGCGATCT-CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
63 TCAGGGAGATAAGAACTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGAT-CTTTA-T
13265933 TTA
126 TTA
* * * * *
13265936 ATCCGCTCCACTGTAA-TCTCAGGGAGATAAGAT--TACTAGCTTCAATCTGCTCCGCTGTAATC
1 ATCTGCTCTACTGTAACT-TCAGAGAGATAAGATCCT-CTA-CTTTAATCTGCTCCACTGTAATC
* ** * ** ** * *
13265998 TCATGGAGATAAGATTTGAAATTCTTTGATCTGTTCCACTGTAA-TCTCAGGGAAATAAGA-CCT
63 TCAGGGAGATAAGAACT---A-GCTTCAATCTACTCCACTGTAACT-TCAGGGAGATAAGATCTT
** ***
13266061 GGTGCG
123 TATTTA
13266067 ATCT-CTCTACTGTAACTTCAGAGAGATAAGA---TC--CTTTAAT-TCGCTCCACTGTAATCTC
1 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTCTACTTTAATCT-GCTCCACTGTAATCTC
* ** * * **
13266125 AGGGAGATAGGATTACTAAATTCACTCTGCTCTGCTGTAA-TCTCAGGGAGATAAGATCT
65 AGGGAGATAAGA--ACTAGCTTCAATCTACTCCACTGTAACT-TCAGGGAGATAAGATCT
13266184 GAGATTCTTT
Statistics
Matches: 611, Mismatches: 119, Indels: 79
0.76 0.15 0.10
Matches are distributed among these distances:
123 29 0.05
124 3 0.00
125 31 0.05
126 28 0.05
127 7 0.01
128 71 0.12
129 215 0.35
130 87 0.14
131 75 0.12
132 5 0.01
133 8 0.01
134 52 0.09
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (128 bp):
ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTCTACTTTAATCTGCTCCACTGTAATCTCA
GGGAGATAAGAACTAGCTTCAATCTACTCCACTGTAACTTCAGGGAGATAAGATCTTTATTTA
Found at i:13265950 original size:174 final size:174
Alignment explanation
Indices: 13265505--13266208 Score: 675
Period size: 174 Copynumber: 4.1 Consensus size: 174
13265495 ACTAGCTTCA
* * * * * *
13265505 ATCTGCTCCGCTGTAATCTGAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACTTCAGAG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAG
* * * * * *
13265570 AGATAAGATCCTCTACTTTAGTCTGCTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGA
66 AGATAAGATCCTTTACTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGATTCAA
* * * ** *
13265632 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATT-TTA
131 TCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTG
* * * * * * * * * ***
13265675 ATCCGCTCTACTATAACTTCAGGGAGATAGGACAGTGTCTTCGATCTGCTCCGTTGTAA-TCTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAC-CTG-GTGCGATCTACTCTACTGTAACT-TCA
* * * * * * * * * *
13265739 GGGAAATAAGAT-ATTTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCT
63 GAGAGATAAGATCCTTT-ACTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGAT
*
13265803 TCAATCTGCTCCACTGTAA-CATCAGGGAGATAAGATATGAAATTCTTCG
127 TCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAATTCTT-G
* *
13265852 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCT-CTCTACTGTAACTTCAGAG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAG
* *
13265916 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA
66 AGATAAGATCCTTTACTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGATTCAA
* * *
13265981 TCTGCTCCGCTGTAATCTCATGGAGATAAGATTTGAAATTCTTTG
131 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTC-TTG
* * *
13266026 ATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCT-CTCTACTGTAACTTCAGAG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAG
* * * *
13266090 AGATAAGAT-C----CTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAAATTCAC
66 AGATAAGATCCTTTACTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGATTCAA
** *
13266150 TCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGAGATTCTTTG
131 TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTC-TTG
*
13266195 ATCTGCTTCACTGT
1 ATCTGCTCCACTGT
13266209 CGATGCCGGA
Statistics
Matches: 443, Mismatches: 77, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
169 97 0.22
170 25 0.06
171 5 0.01
172 63 0.14
173 1 0.00
174 173 0.39
175 49 0.11
176 4 0.01
177 26 0.06
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (174 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAG
AGATAAGATCCTTTACTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGATTCAA
TCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTG
Found at i:13267598 original size:13 final size:14
Alignment explanation
Indices: 13267572--13267605 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
13267562 TTAGCCTCTC
*
13267572 CATTTTTCATTTTT
1 CATTTTTCAGTTTT
13267586 CATTTTTC-GTTTT
1 CATTTTTCAGTTTT
13267599 CATTTTT
1 CATTTTT
13267606 TTGACTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (14 bp):
CATTTTTCAGTTTT
Found at i:13267606 original size:8 final size:7
Alignment explanation
Indices: 13267572--13267605 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
13267562 TTAGCCTCTC
13267572 CATTTTT
1 CATTTTT
13267579 CATTTTT
1 CATTTTT
13267586 CATTTTT
1 CATTTTT
*
13267593 C-GTTTT
1 CATTTTT
13267599 CATTTTT
1 CATTTTT
13267606 TTGACTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:13268463 original size:14 final size:15
Alignment explanation
Indices: 13268440--13268473 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
13268430 TTGACCTCTC
*
13268440 CTTTTTCTTC-TTTT
1 CTTTTCCTTCTTTTT
13268454 CTTTTCCTTCTTTTT
1 CTTTTCCTTCTTTTT
13268469 CTTTT
1 CTTTT
13268474 ATTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTCCTTCTTTTT
Found at i:13268507 original size:35 final size:34
Alignment explanation
Indices: 13268461--13268528 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
13268451 TTTCTTTTCC
* *
13268461 TTCTTTTTCTTTTATTTTTGATTTTTTCTTTTTTT
1 TTCTTTTTCTTTTACTTTTGATTTTGT-TTTTTTT
*
13268496 TTCTTTTTCTTTTGCTTTTGATTTTGTTTTTTT
1 TTCTTTTTCTTTTACTTTTGATTTTGTTTTTTT
13268529 AATTGGATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 6 0.20
35 24 0.80
ACGTcount: A:0.04, C:0.09, G:0.06, T:0.81
Consensus pattern (34 bp):
TTCTTTTTCTTTTACTTTTGATTTTGTTTTTTTT
Found at i:13274416 original size:20 final size:20
Alignment explanation
Indices: 13274375--13274430 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
13274365 ATGTAAAAGG
*
13274375 AAAAATGAAATAAAATAGAA
1 AAAAATGAAATAAAATACAA
*
13274395 AAAAATGAAA-AAAGATTCAA
1 AAAAATGAAATAAA-ATACAA
*
13274415 AACAA-GAAAATAAAAT
1 AAAAATG-AAATAAAAT
13274431 CCTCTCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 3 0.10
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.14
Consensus pattern (20 bp):
AAAAATGAAATAAAATACAA
Found at i:13275080 original size:22 final size:22
Alignment explanation
Indices: 13275048--13275104 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
13275038 AGGATATCCA
* *
13275048 ATATAGTTGCAGAATAGATCGG
1 ATATAGATGCAAAATAGATCGG
**
13275070 ATATAGATGCAAAATAGATCAA
1 ATATAGATGCAAAATAGATCGG
*
13275092 ATACAGATGCAAA
1 ATATAGATGCAAA
13275105 TTCCTAACTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (22 bp):
ATATAGATGCAAAATAGATCGG
Found at i:13284622 original size:21 final size:21
Alignment explanation
Indices: 13284582--13284641 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
13284572 AAATTAATTC
*
13284582 AATCGTAATCAACGTATAAACT
1 AATCGTAAT-AACATATAAACT
13284604 AATCGTAATAACATATAAACT
1 AATCGTAATAACATATAAACT
13284625 AA-C-TAATAACATTATAA
1 AATCGTAATAACA-TATAA
13284642 TATGCAAGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 8 0.22
20 6 0.17
21 13 0.36
22 9 0.25
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.28
Consensus pattern (21 bp):
AATCGTAATAACATATAAACT
Found at i:13284796 original size:49 final size:49
Alignment explanation
Indices: 13284724--13284819 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 49
13284714 TATGCATTTC
* *
13284724 TAAACTTGGTCTTCCACTATCTACACTCTTATCACCATTTATACATTGT
1 TAAACTTAGTCTTCCACTATCTACAATCTTATCACCATTTATACATTGT
* * *
13284773 TAAACTTAGTCTTCCACTGTCTACAATCTTATCACTATTTATCCATT
1 TAAACTTAGTCTTCCACTATCTACAATCTTATCACCATTTATACATT
13284820 CTTGAATGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.05, T:0.42
Consensus pattern (49 bp):
TAAACTTAGTCTTCCACTATCTACAATCTTATCACCATTTATACATTGT
Found at i:13304501 original size:13 final size:13
Alignment explanation
Indices: 13304494--13304518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13304484 ATAATTTTAT
13304494 ATTTTAATAATTA
1 ATTTTAATAATTA
13304507 ATTTTAATAATT
1 ATTTTAATAATT
13304519 CATTAATAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAATAATTA
Found at i:13310987 original size:20 final size:20
Alignment explanation
Indices: 13310951--13310988 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13310941 TATATATAGA
*
13310951 TATGTAAACAAATTATAAAC
1 TATGTAAACAAAATATAAAC
13310971 TATGTATAA-AAAATATAA
1 TATGTA-AACAAAATATAA
13310989 GGGTGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATGTAAACAAAATATAAAC
Found at i:13311069 original size:10 final size:10
Alignment explanation
Indices: 13311054--13311087 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
13311044 AAAATGTATG
13311054 TATGTATATA
1 TATGTATATA
13311064 TATGTATGTATA
1 TATGTA--TATA
13311076 TATGTATATA
1 TATGTATATA
13311086 TA
1 TA
13311088 AATTACAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (10 bp):
TATGTATATA
Found at i:13311069 original size:14 final size:14
Alignment explanation
Indices: 13311050--13311078 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13311040 TATAAAAATG
13311050 TATGTATGTATATA
1 TATGTATGTATATA
13311064 TATGTATGTATATA
1 TATGTATGTATATA
13311078 T
1 T
13311079 GTATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TATGTATGTATATA
Found at i:13311210 original size:3 final size:3
Alignment explanation
Indices: 13311186--13311233 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
13311176 TAAATGAGTA
* * *
13311186 AAT AAC AAT AAT GAT GAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13311233 A
1 A
13311234 TTAAAAGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13313130 original size:42 final size:44
Alignment explanation
Indices: 13313025--13313130 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
13313015 TTGTTTTTGG
13313025 TCTACTCCACTGCATCTTCAGGGAAATAAGACTTGTATCCTCAA
1 TCTACTCCACTGCATCTTCAGGGAAATAAGACTTGTATCCTCAA
* * * * *
13313069 CCTACTCCACTGCAACTTCAGGGAAATAGGA-TTCGTA-GC-CGA
1 TCTACTCCACTGCATCTTCAGGGAAATAAGACTT-GTATCCTCAA
*
13313111 TCTACTCTACTGCATCTTCA
1 TCTACTCCACTGCATCTTCA
13313131 AGAAGATACG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 19 0.36
43 3 0.06
44 31 0.58
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (44 bp):
TCTACTCCACTGCATCTTCAGGGAAATAAGACTTGTATCCTCAA
Found at i:13331874 original size:15 final size:15
Alignment explanation
Indices: 13331851--13331886 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
13331841 ATATATCTCC
*
13331851 AAACTATTAAACTAT
1 AAACAATTAAACTAT
13331866 AAACAATTAAACTAT
1 AAACAATTAAACTAT
13331881 AAACAA
1 AAACAA
13331887 GGCCTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (15 bp):
AAACAATTAAACTAT
Found at i:13335162 original size:12 final size:12
Alignment explanation
Indices: 13335145--13335169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13335135 GAATGTTAAT
13335145 AATAATAATAAC
1 AATAATAATAAC
13335157 AATAATAATAAC
1 AATAATAATAAC
13335169 A
1 A
13335170 CAAAAGATAT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:13335340 original size:20 final size:20
Alignment explanation
Indices: 13335306--13335347 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13335296 AACTATTTAA
** *
13335306 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
13335326 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
13335346 AT
1 AT
13335348 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:13339720 original size:49 final size:49
Alignment explanation
Indices: 13339635--13339735 Score: 112
Period size: 49 Copynumber: 2.1 Consensus size: 49
13339625 CTCGTTTTCT
* ** * * **
13339635 CGATGCCATAGTCCAACTATGGTGTTACATGTAATCACTTATCACATAC
1 CGATGCCATAGCCCAACTATGGCCTTACACGGAATCAAATATCACATAC
* * *
13339684 CGATGCCATAGCCCAGCTATGGCCTTATACGGAATCAAATATCACTTAC
1 CGATGCCATAGCCCAACTATGGCCTTACACGGAATCAAATATCACATAC
13339733 CGA
1 CGA
13339736 AGTACACATA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGCCTTACACGGAATCAAATATCACATAC
Found at i:13340601 original size:49 final size:49
Alignment explanation
Indices: 13340539--13341127 Score: 510
Period size: 51 Copynumber: 11.7 Consensus size: 49
13340529 TATCATTTGA
13340539 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAG
* * *
13340588 TTCACGTAGTAGCCTTCACATAGTACTATACACATGATCAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAG
* * * *
13340637 TTCATGTAGTAGCCTCCACATAGTACTACACACATGATCAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAG
* * * *
13340686 TTCATGTAGTAGGCTCCACATAGTACTACACACGTGATCAAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAG
* * * *
13340736 TTCACGTAGCAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAG
* * **
13340786 CT-CACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTTT-GGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAG
* * * * * * *
13340837 TACCCATTGTAGCCTTCACTTAGTACTACACATGTGACCA-TAATTTACCG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTACAG
* * * * * *
13340887 ATACACGTAGTAGCATTCACACAGTACTACACATGTGCTCAAAGCTTCT-CGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAG
* * * * *
13340939 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATC-G
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAG
* * *
13340989 ATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAGCTTCTT--GG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TT-TTACAG
* * * * *
13341041 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATC-G
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAG
*
13341091 ATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTG
13341128 TTCATCGACA
Statistics
Matches: 452, Mismatches: 61, Indels: 52
0.80 0.11 0.09
Matches are distributed among these distances:
47 1 0.00
48 4 0.01
49 138 0.31
50 93 0.21
51 200 0.44
52 7 0.02
53 5 0.01
54 3 0.01
55 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAG
Found at i:13345097 original size:49 final size:49
Alignment explanation
Indices: 13345012--13345112 Score: 112
Period size: 49 Copynumber: 2.1 Consensus size: 49
13345002 CTCGTTTTCT
* ** * * **
13345012 CGATGCCATAGTCCAACTATGGTGTTACATGTAATCACTTATCACATAC
1 CGATGCCATAGCCCAACTATGGCCTTACACGGAATCAAATATCACATAC
* * *
13345061 CGATGCCATAGCCCAGCTATGGCCTTATACGGAATCAAATATCACTTAC
1 CGATGCCATAGCCCAACTATGGCCTTACACGGAATCAAATATCACATAC
13345110 CGA
1 CGA
13345113 AGTACACATA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGCCTTACACGGAATCAAATATCACATAC
Found at i:13346084 original size:100 final size:99
Alignment explanation
Indices: 13345917--13346100 Score: 296
Period size: 100 Copynumber: 1.8 Consensus size: 99
13345907 TCATTCGATA
* * *
13345917 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTTCACGTAGTAGCCTCCA
1 CACGTAGCAGCCTCCACATAGTACTACACACGTGATCAGTTTTACAGCTCACGTAGTAGCCTCCA
13345982 CATAGTACTACACACGTGATCAAGTTTTACAGTT
66 CATAGTACTACACACGTGATCAAGTTTTACAGTT
* * *
13346016 CACGTAGCAGGCTCCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTC
1 CACGTAGCAGCCTCCACATAGTACTACACACGTGATC-AGTTTTACAGCTCACGTAGTAGCCTCC
*
13346081 ACATAGTATTACACACGTGA
65 ACATAGTACTACACACGTGA
13346101 CCAAAGCTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 34 0.44
100 43 0.56
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
CACGTAGCAGCCTCCACATAGTACTACACACGTGATCAGTTTTACAGCTCACGTAGTAGCCTCCA
CATAGTACTACACACGTGATCAAGTTTTACAGTT
Found at i:13346226 original size:51 final size:51
Alignment explanation
Indices: 13345911--13346400 Score: 333
Period size: 51 Copynumber: 9.7 Consensus size: 51
13345901 TTTTTATCAT
* * * *
13345911 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTT
1 TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
* * * * * *
13345959 TAC-AGTTCACGTAGTAGCCTCCACATAGTACTACACACGTGATC-AAG-TTT
1 T-CGA-TACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
* * * * * * * *
13346009 TAC-AGTTCACGTAGCAGGCTCCACATAGTACTACACACGTGATC-AAG-TTT
1 T-CGA-TACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
* * * * *
13346059 TACGGCT-CACGTAGTAGCCTTCACATAGTATTACACACGTGACCAAAGCTTT
1 T-C-GATACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
* * * * * * *
13346111 TGGGTACCCATTGTAGCCTTCACTTAGT-CTACACATGTGACCATAGTTTAC
1 TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTT-C
** * *
13346162 -CGATACATGTAGTAGCATTCACACAGTACTACACATGTG-CTCAAAGCTTC
1 TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGAC-CAAAGCTTC
* * ** * *
13346212 TCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
* * *
13346263 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG-CTCAAAGCTTC
1 TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGAC-CAAAGCTTC
* * * ** * *
13346314 TTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
* *
13346365 TCGATACACGTAGTAGCCTTCACACAGTACTACACA
1 TCGATACACATAGTAGCCTTCACATAGTACTACACA
13346401 CGTGTTCATC
Statistics
Matches: 361, Mismatches: 66, Indels: 27
0.80 0.15 0.06
Matches are distributed among these distances:
48 2 0.01
49 38 0.11
50 128 0.35
51 187 0.52
52 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (51 bp):
TCGATACACATAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTC
Found at i:13346285 original size:102 final size:102
Alignment explanation
Indices: 13345915--13346404 Score: 568
Period size: 102 Copynumber: 4.9 Consensus size: 102
13345905 TATCATTCGA
* * * * * *
13345915 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-C-AGTTCACGTAGTAGC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGA-TACACGTAGTAGC
* * * * *
13345977 CTCCACATAGTACTACACACGTGATC-AAG-TTTTACAG
65 CTTCACACAGTACTACACACGTGCTCAAAGCTTCT-CGG
* * * * * * * * * *
13346014 TTCACGTAGCAGGCTCCACATAGTACTACACACGTGATCA-AGTTT-TACGGCT-CACGTAGTAG
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTAT-C-GATACACGTAGTAG
* * * *
13346076 CCTTCACATAGTATTACACACGTGAC-CAAAGCTTTTGGG
64 CCTTCACACAGTACTACACACGTG-CTCAAAGCTTCTCGG
* * * * * *
13346115 TACCCATTGTAGCCTTCACTTAGT-CTACACATGTGACCATAGTTTACCGATACATGTAGTAGCA
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGATACACGTAGTAGCC
*
13346179 TTCACACAGTACTACACATGTGCTCAAAGCTTCTCGG
66 TTCACACAGTACTACACACGTGCTCAAAGCTTCTCGG
13346216 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGATACACGTAGTAGCC
*
13346281 TTCACACAGTACTACACACGTGCTCAAAGCTTCTTGG
66 TTCACACAGTACTACACACGTGCTCAAAGCTTCTCGG
13346318 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGATACACGTAGTAGCC
13346383 TTCACACAGTACTACACACGTG
66 TTCACACAGTACTACACACGTG
13346405 TTCATCGACA
Statistics
Matches: 340, Mismatches: 38, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
99 39 0.11
100 50 0.15
101 89 0.26
102 162 0.48
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTGTTTATCGATACACGTAGTAGCC
TTCACACAGTACTACACACGTGCTCAAAGCTTCTCGG
Found at i:13353611 original size:25 final size:25
Alignment explanation
Indices: 13353572--13353620 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13353562 TGCAGTCTAT
*
13353572 CTATAGTAGTCTTAGTATATACTAC
1 CTATAGTAGTCTTAGGATATACTAC
* *
13353597 CTATAGTCGTTTTAGGATATACTA
1 CTATAGTAGTCTTAGGATATACTA
13353621 TCAAAAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (25 bp):
CTATAGTAGTCTTAGGATATACTAC
Found at i:13359070 original size:54 final size:54
Alignment explanation
Indices: 13358823--13359078 Score: 191
Period size: 54 Copynumber: 4.7 Consensus size: 54
13358813 ATTACCATGC
* * * * *
13358823 ATGTAGGAAGTCCGTTAGGACAAT-TGCAATATGGAAGTCCGTCAGAATAATCTTA
1 ATGT-GGAAGTCCGTCAGGACAATCT-TAATGTGGAAGTCCGTCAGGACAATCTTA
* * * * *
13358878 ATGTGGGAAGTCTGTTAGGACTATCTTAA-GTGGGAAGTCCCTCAGGACAATCGTA
1 ATGT-GGAAGTCCGTCAGGACAATCTTAATGT-GGAAGTCCGTCAGGACAATCTTA
** * * * ** * *
13358933 ATGTGGAAGTCCACCAGAACAATCATAATGTGAAAGTTTGCCAAGACAAT-TATA
1 ATGTGGAAGTCCGTCAGGACAATCTTAATGTGGAAGTCCGTCAGGACAATCT-TA
* *
13358987 ATGTGGAAGTCTG-CTAGGTA-AAT-TGTAATGTGGAAGTCCGTTAGGACAATCTTA
1 ATGTGGAAGTCCGTC-AGG-ACAATCT-TAATGTGGAAGTCCGTCAGGACAATCTTA
* *
13359041 ATGTGGCAGTCCGTCAGGACAATCTTAATGTAGAAGTC
1 ATGTGGAAGTCCGTCAGGACAATCTTAATGTGGAAGTC
13359079 TGCTAGGACG
Statistics
Matches: 154, Mismatches: 36, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
53 2 0.01
54 99 0.64
55 52 0.34
56 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (54 bp):
ATGTGGAAGTCCGTCAGGACAATCTTAATGTGGAAGTCCGTCAGGACAATCTTA
Found at i:13359086 original size:27 final size:27
Alignment explanation
Indices: 13358871--13359087 Score: 167
Period size: 27 Copynumber: 8.0 Consensus size: 27
13358861 CCGTCAGAAT
*
13358871 AATCTTAATGTGGGAAGTCTGTTAGGAC
1 AATCTTAATGT-GGAAGTCTGCTAGGAC
* *
13358899 TATCTTAA-GTGGGAAGTC-CCTCAGGAC
1 AATCTTAATGT-GGAAGTCTGCT-AGGAC
* ** * *
13358926 AATCGTAATGTGGAAGTCCACCAGAAC
1 AATCTTAATGTGGAAGTCTGCTAGGAC
* * * * *
13358953 AATCATAATGTGAAAGTTTGCCAAGAC
1 AATCTTAATGTGGAAGTCTGCTAGGAC
13358980 AAT-TATAATGTGGAAGTCTGCTAGGTA-
1 AATCT-TAATGTGGAAGTCTGCTAGG-AC
* *
13359007 AAT-TGTAATGTGGAAGTCCGTTAGGAC
1 AATCT-TAATGTGGAAGTCTGCTAGGAC
* *
13359034 AATCTTAATGTGGCAGTCCG-TCAGGAC
1 AATCTTAATGTGGAAGTCTGCT-AGGAC
*
13359061 AATCTTAATGTAGAAGTCTGCTAGGAC
1 AATCTTAATGTGGAAGTCTGCTAGGAC
13359088 GATTGTATTT
Statistics
Matches: 153, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
26 3 0.02
27 137 0.90
28 13 0.08
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCTTAATGTGGAAGTCTGCTAGGAC
Found at i:13359093 original size:81 final size:81
Alignment explanation
Indices: 13358823--13359094 Score: 255
Period size: 81 Copynumber: 3.3 Consensus size: 81
13358813 ATTACCATGC
* * * * *
13358823 ATGTAGGAAGTCCGTTAGGACAATTGCAATATGGAAGTCCGTCAGAATAATCTTAATGTGGGAAG
1 ATGTA-GAAGTCTGCTAGGACAATTGTAATGTGGAAGTCCGTCAGAACAATCTTAATGT-GGAAG
* *
13358888 TCTGTTAGGACTATCTTA
64 TCTGTCAGGACAATCTTA
* * * ** * *
13358906 A-GTGGGAAGTC-CCTCAGGACAATCGTAATGTGGAAGTCCACCAGAACAATCATAATGTGAAAG
1 ATGT-AGAAGTCTGCT-AGGACAATTGTAATGTGGAAGTCCGTCAGAACAATCTTAATGTGGAAG
* * *
13358969 TTTGCCAAGACAAT-TATA
64 TCTGTCAGGACAATCT-TA
* * * *
13358987 ATGTGGAAGTCTGCTAGGTA-AATTGTAATGTGGAAGTCCGTTAGGACAATCTTAATGTGGCAGT
1 ATGTAGAAGTCTGCTAGG-ACAATTGTAATGTGGAAGTCCGTCAGAACAATCTTAATGTGGAAGT
*
13359051 CCGTCAGGACAATCTTA
65 CTGTCAGGACAATCTTA
*
13359068 ATGTAGAAGTCTGCTAGGACGATTGTA
1 ATGTAGAAGTCTGCTAGGACAATTGTA
13359095 TTTGTGAAGT
Statistics
Matches: 150, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
80 2 0.01
81 97 0.65
82 50 0.33
83 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (81 bp):
ATGTAGAAGTCTGCTAGGACAATTGTAATGTGGAAGTCCGTCAGAACAATCTTAATGTGGAAGTC
TGTCAGGACAATCTTA
Found at i:13360209 original size:27 final size:27
Alignment explanation
Indices: 13360174--13360250 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
13360164 GTAGTGATTC
13360174 AATTCGATTAATTCGAGTAATTTGGTT
1 AATTCGATTAATTCGAGTAATTTGGTT
* * *
13360201 AATTTGATTAATTCGGGTAATTCGGTT
1 AATTCGATTAATTCGAGTAATTTGGTT
*
13360228 AATTCGGTTAATTC-AGTTAATTT
1 AATTCGATTAATTCGAG-TAATTT
13360251 TTAACCAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (27 bp):
AATTCGATTAATTCGAGTAATTTGGTT
Found at i:13360246 original size:9 final size:9
Alignment explanation
Indices: 13360174--13360249 Score: 82
Period size: 9 Copynumber: 8.4 Consensus size: 9
13360164 GTAGTGATTC
*
13360174 AATTCGATT
1 AATTCGGTT
13360183 AATTCGAG-T
1 AATTCG-GTT
*
13360192 AATTTGGTT
1 AATTCGGTT
* *
13360201 AATTTGATT
1 AATTCGGTT
*
13360210 AATTCGGGT
1 AATTCGGTT
13360219 AATTCGGTT
1 AATTCGGTT
13360228 AATTCGGTT
1 AATTCGGTT
*
13360237 AATTCAGTT
1 AATTCGGTT
13360246 AATT
1 AATT
13360250 TTTAACCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
8 1 0.02
9 56 0.98
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:13360370 original size:28 final size:28
Alignment explanation
Indices: 13360312--13360370 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
13360302 GAATTAACCG
* * *** *
13360312 AAAAAATTTCGGTTCGGTTAATTTTTTA
1 AAAAAAATTCGGCTCGGTTAACGGTTAA
13360340 AAAAAAATTCGGCTCGGTTAACGGTTAA
1 AAAAAAATTCGGCTCGGTTAACGGTTAA
13360368 AAA
1 AAA
13360371 TTTTGAAAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (28 bp):
AAAAAAATTCGGCTCGGTTAACGGTTAA
Found at i:13361065 original size:44 final size:46
Alignment explanation
Indices: 13360975--13361066 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
13360965 TTTGGATCGC
*
13360975 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
*
13361021 TGTAATGGAATAGAGGCGTAAT-GG-CATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
13361065 TG
1 TG
13361067 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 20 0.45
45 2 0.05
46 22 0.50
ACGTcount: A:0.26, C:0.05, G:0.30, T:0.38
Consensus pattern (46 bp):
TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
Found at i:13361067 original size:39 final size:42
Alignment explanation
Indices: 13360975--13361086 Score: 131
Period size: 39 Copynumber: 2.6 Consensus size: 42
13360965 TTTGGATCGC
* *
13360975 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAAT-GG-CATTCTTGTGTTTGGTT--A
13361021 TGTAATGGAATAGAGGCGTAATGGCATTCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATGGCATTCTTGTGTTTGGTTA
* *
13361061 TG-AATGGAATAGAGGTGTAATAGCAT
1 TGTAATGGAATAGAGGCGTAATGGCAT
13361087 AAGAAAAAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
39 22 0.35
40 2 0.03
43 1 0.02
44 13 0.21
45 2 0.03
46 22 0.35
ACGTcount: A:0.29, C:0.05, G:0.30, T:0.36
Consensus pattern (42 bp):
TGTAATGGAATAGAGGCGTAATGGCATTCTTGTGTTTGGTTA
Found at i:13361245 original size:16 final size:16
Alignment explanation
Indices: 13361226--13361260 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13361216 TAATTGTTGT
13361226 AAAATATAATTTAATA
1 AAAATATAATTTAATA
13361242 AAAATATAATTTAATA
1 AAAATATAATTTAATA
13361258 AAA
1 AAA
13361261 TGATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:13361333 original size:120 final size:110
Alignment explanation
Indices: 13361209--13361472 Score: 302
Period size: 110 Copynumber: 2.3 Consensus size: 110
13361199 TTAATCATAT
* *
13361209 TTTAACATAATTGTTGTAAAATATAATTTAATAA-AA-ATATAATTTAATAAAATGATTAATAAA
1 TTTAACATAATTATTATAAAATATAATTTAATAATAATATATAATTTAAT-AAA--ATT-AT---
*
13361272 TATTCTTAAATATGAATTTACTAATAAAATCATAATATATAACACTATAAAATATAA
59 TATTCTT--ATATGAATTTAC---TAAAATCATAATATATAACAATATAAAATATAA
* * * *
13361329 TTTAAAATAATTATAATTAAATATAATTTAATAATAATATATAATTTAATAAAATTCTTATTCTT
1 TTTAACATAATTATTATAAAATATAATTTAATAATAATATATAATTTAATAAAATTATTATTCTT
*
13361394 ATATGAATTTACTAAAATCATAATATATAATAATATAAAATATAA
66 ATATGAATTTACTAAAATCATAATATATAACAATATAAAATATAA
*
13361439 TTTAAC-TAATTATTATTAAATTATAATTT-ATAAT
1 TTTAACATAATTATTA-TAAAATATAATTTAATAAT
13361473 CTACTTTATT
Statistics
Matches: 129, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
109 13 0.10
110 47 0.36
113 12 0.09
115 7 0.05
118 1 0.01
119 3 0.02
120 29 0.22
121 5 0.04
122 12 0.09
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (110 bp):
TTTAACATAATTATTATAAAATATAATTTAATAATAATATATAATTTAATAAAATTATTATTCTT
ATATGAATTTACTAAAATCATAATATATAACAATATAAAATATAA
Found at i:13361345 original size:16 final size:17
Alignment explanation
Indices: 13361324--13361378 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 17
13361314 CACTATAAAA
13361324 TATAATTTAAA-ATAAT
1 TATAATTTAAATATAAT
13361340 TATAA-TTAAATATAAT
1 TATAATTTAAATATAAT
*
13361356 T-TAATAATAATATATAAT
1 TATAAT-TTAA-ATATAAT
13361374 T-TAAT
1 TATAAT
13361379 AAAATTCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 8 0.24
16 11 0.32
17 3 0.09
18 12 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAATTTAAATATAAT
Found at i:13361351 original size:26 final size:28
Alignment explanation
Indices: 13361321--13361384 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
13361311 TAACACTATA
13361321 AAATATAATTTAA-AATAAT-TATAATT
1 AAATATAATTTAATAATAATATATAATT
13361347 AAATATAATTTAATAATAATATATAATT
1 AAATATAATTTAATAATAATATATAATT
* *
13361375 TAATAAAATT
1 AAATATAATT
13361385 CTTATTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 13 0.38
27 6 0.18
28 15 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATATAATTTAATAATAATATATAATT
Found at i:13362892 original size:49 final size:49
Alignment explanation
Indices: 13362805--13362901 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
13362795 AAAAACAAAT
* * * *
13362805 TAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATAAAAA
1 TAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTATATAAAAA
*
13362854 TAAAATTGAGTTCAATATCATGAATCACAAA-CTCAACACTATATAAAA
1 TAAAATTAAGTTCAATATCATGAATCA-AAAGCTCAACACTATATAAAA
13362902 TTATAACACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 39 0.93
50 3 0.07
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (49 bp):
TAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTATATAAAAA
Found at i:13364292 original size:23 final size:24
Alignment explanation
Indices: 13364262--13364321 Score: 95
Period size: 23 Copynumber: 2.5 Consensus size: 24
13364252 ATTCAAACCA
13364262 GAATTGCAACTATAAAAT-CTCTT
1 GAATTGCAACTATAAAATACTCTT
13364285 GAATTGCAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAATA-CTCTT
*
13364310 AAATTGCAACTA
1 GAATTGCAACTA
13364322 AAGCTTTAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 18 0.53
25 16 0.47
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (24 bp):
GAATTGCAACTATAAAATACTCTT
Found at i:13364323 original size:23 final size:22
Alignment explanation
Indices: 13364263--13364323 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 22
13364253 TTCAAACCAG
* *
13364263 AATTGCAACTATAAAATCTCTTG
1 AATTGCAACTA-AAAACCTCTTA
13364286 AATTGCAACTATAAAATACCTCTTA
1 AATTGCAAC--TAAAA-ACCTCTTA
13364311 AATTGCAACTAAA
1 AATTGCAACTAAA
13364324 GCTTTAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 13 0.39
24 3 0.09
25 17 0.52
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (22 bp):
AATTGCAACTAAAAACCTCTTA
Found at i:13374044 original size:44 final size:45
Alignment explanation
Indices: 13373917--13374116 Score: 151
Period size: 44 Copynumber: 4.5 Consensus size: 45
13373907 ATCTGTTCTA
* * * * *
13373917 CTGCAACTTCAGAGAGATAAGA-TCTAT-TACTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACT-TATCTTCTTCAGTCTGCTCCG
* * * *** * *
13373961 CTACAACTTCAGGGGGATAGGA-TTATCGAATTCAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAAGACTTATCTTCTTCAGTCTGCTCCG
* * *
13374005 CTGCAACCTCAAGGAGATAAGA-TT-TGCTTCTTCAGTCTGCCCCG
1 CTGCAACTTCAGGGAGATAAGACTTAT-CTTCTTCAGTCTGCTCCG
** * *
13374049 CTGTGACTTCAGGGGGATAAGACTTATTTTC-TCAGTCTGCTCCG
1 CTGCAACTTCAGGGAGATAAGACTTATCTTCTTCAGTCTGCTCCG
*
13374093 TTGCAACTTCAGGGAGATAAGACT
1 CTGCAACTTCAGGGAGATAAGACT
13374117 CGATATGATC
Statistics
Matches: 123, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
43 4 0.03
44 113 0.92
45 5 0.04
46 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CTGCAACTTCAGGGAGATAAGACTTATCTTCTTCAGTCTGCTCCG
Found at i:13374363 original size:87 final size:87
Alignment explanation
Indices: 13374209--13374474 Score: 390
Period size: 87 Copynumber: 3.1 Consensus size: 87
13374199 ACCTGTAATC
* ** * * **
13374209 TTCGATCTGCCTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCTACTGGAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
13374274 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
13374296 TTTGATCTGCTTTACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
13374361 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * *
13374383 TTCGATCTGCTTCACTGTTAATGTAGGAAGGTAAGATTTGCTATCTTTAATCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
13374448 CCGATGGAGGCAA-GCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
13374469 TTCGAT
1 TTCGAT
13374475 TTTGACTGAT
Statistics
Matches: 161, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 13 0.08
87 148 0.92
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:13375746 original size:21 final size:21
Alignment explanation
Indices: 13375699--13375746 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
13375689 TTAGCCTCTC
*
13375699 CATTTTAC-TTTTCATTTTTT
1 CATTTTTCATTTTCATTTTTT
*
13375719 CGTTTTTCATTTTCA-TTTTT
1 CATTTTTCATTTTCATTTTTT
13375739 CATCTTTT
1 CAT-TTTT
13375747 TTTTTAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATTTTTT
Found at i:13376168 original size:26 final size:26
Alignment explanation
Indices: 13376139--13376198 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
13376129 TTTACTTTGA
13376139 TTGA-TTTCTCTTTTTTGCTTTTGACT
1 TTGATTTTCT-TTTTTTGCTTTTGACT
* **
13376165 TTGATTTTCTTTTTTTGTTTTTGTTT
1 TTGATTTTCTTTTTTTGCTTTTGACT
13376191 TTGATTTT
1 TTGATTTT
13376199 GAGTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.07, C:0.08, G:0.12, T:0.73
Consensus pattern (26 bp):
TTGATTTTCTTTTTTTGCTTTTGACT
Found at i:13392103 original size:23 final size:25
Alignment explanation
Indices: 13392073--13392124 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
13392063 TATCAGATTT
*
13392073 TATAAAATAT-ATTTGT-CCAAATA
1 TATAAAATATAATTTATACCAAATA
*
13392096 TATAAAATATAATTTATATCAAATA
1 TATAAAATATAATTTATACCAAATA
13392121 TATA
1 TATA
13392125 GAAAAGGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.40
24 5 0.20
25 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TATAAAATATAATTTATACCAAATA
Found at i:13392982 original size:33 final size:33
Alignment explanation
Indices: 13392934--13392999 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
13392924 AAGGTAAAAA
*
13392934 AAATTTGGAACCCTAAGAGATGAAACATTTATG
1 AAATTTGAAACCCTAAGAGATGAAACATTTATG
*
13392967 AAATTTGAAATCCTAAGAGATGAAACATTTATG
1 AAATTTGAAACCCTAAGAGATGAAACATTTATG
13393000 GTGATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (33 bp):
AAATTTGAAACCCTAAGAGATGAAACATTTATG
Found at i:13394674 original size:22 final size:22
Alignment explanation
Indices: 13394646--13394688 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13394636 AATATACATT
13394646 CTTAATGATCTAAGAAAGGTTG
1 CTTAATGATCTAAGAAAGGTTG
* *
13394668 CTTAATGATGTAAGAAGGGTT
1 CTTAATGATCTAAGAAAGGTT
13394689 ACTAGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.33
Consensus pattern (22 bp):
CTTAATGATCTAAGAAAGGTTG
Found at i:13397284 original size:113 final size:113
Alignment explanation
Indices: 13397156--13397370 Score: 333
Period size: 113 Copynumber: 1.9 Consensus size: 113
13397146 ATTTTTCAGA
* * *
13397156 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTCGTTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCA-TTTCATTTTC
*
13397221 ATTTTGGAGAAAATCGTAATAATTTCCAAATG-TTTCCACTTGTCCATT
65 ATTTTGGAGAAAATCATAATAATTTCCAAATGATTTCCACTTGTCCATT
* *
13397269 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATTTCATTTTCA
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCATTTCATTTTCA
* * *
13397334 TTTTGTAGAAAATCATAATCATTTCTAAATGATTTCC
66 TTTTGGAGAAAATCATAATAATTTCCAAATGATTTCC
13397371 TATTTCTCCA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 37 0.40
113 55 0.60
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (113 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCATTTCTCCATTTCATTTTCA
TTTTGGAGAAAATCATAATAATTTCCAAATGATTTCCACTTGTCCATT
Found at i:13397302 original size:56 final size:56
Alignment explanation
Indices: 13397156--13397383 Score: 312
Period size: 56 Copynumber: 4.0 Consensus size: 56
13397146 ATTTTTCAGA
* * * *
13397156 TCATTTTTATTTTGGAGAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCA-TT
* * * * * *
13397213 TCGTTTTCATTTTGGAGAAAATCGTAATAATTTCCAAATGTTTCCACTTGTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
13397269 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
* * *
13397325 TCATTTTCATTTTGTAGAAAATCATAATCATTTCTAAATGATTTCCTATTTCTCCATT
1 TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTCC-ATTTCTCCATT
13397383 T
1 T
13397384 TCACCAATTT
Statistics
Matches: 150, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
56 89 0.59
57 49 0.33
58 12 0.08
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (56 bp):
TCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCATTTCTCCATT
Found at i:13398853 original size:102 final size:103
Alignment explanation
Indices: 13398726--13398931 Score: 333
Period size: 103 Copynumber: 2.0 Consensus size: 103
13398716 TTAGTTACTA
* * * *
13398726 AATCTCTTTAGTTGTTTGAAAGTTAGTTTCTAATGATAATAGC-AAAAAAACTAGCATACATTGG
1 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAAACTAGCATACATTGA
*
13398790 ATCTGAAGAAGAGGCTCGGAGACTACCTTTTTCTAGCC
66 ATCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
* *
13398828 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAGTGGCAATAGCAAAAAAAACTAGCATACATTGA
1 AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAAACTAGCATACATTGA
*
13398893 ATCTGAAGAAGAGGCTCAGAGACTACGTTTTTCTAGCC
66 ATCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
13398931 A
1 A
13398932 GGTTGGATGT
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 38 0.40
103 57 0.60
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (103 bp):
AATCTCTCTAGTTGTTTGAAAGTTAGTTCCTAATGACAATAGCAAAAAAAACTAGCATACATTGA
ATCTGAAGAAGAGGCTCAGAGACTACCTTTTTCTAGCC
Found at i:13404905 original size:25 final size:25
Alignment explanation
Indices: 13404845--13404915 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
13404835 AGGGTTATCG
* *
13404845 ATTCTAGCTCTTATAAGCTTATCGAT
1 ATTC-AGCTCGTATGAGCTTATCGAT
* * *
13404871 ACTCATCTCGTATGAGCTTATCGTT
1 ATTCAGCTCGTATGAGCTTATCGAT
* *
13404896 ATTCAGCTCGGAGGAGCTTA
1 ATTCAGCTCGTATGAGCTTA
13404916 CATTTTATAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (25 bp):
ATTCAGCTCGTATGAGCTTATCGAT
Found at i:13405122 original size:28 final size:28
Alignment explanation
Indices: 13405056--13405123 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 28
13405046 ATATGAATTT
**
13405056 GATACATGGAAATGGTTTATATATATGT
1 GATACATGGAAATGGTTTATATATATAA
13405084 GAATTACATGGAAATGGTTTATATATATAA
1 G-A-TACATGGAAATGGTTTATATATATAA
*
13405114 GATATATGGA
1 GATACATGGA
13405124 TACATGGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.23
29 2 0.06
30 25 0.71
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.37
Consensus pattern (28 bp):
GATACATGGAAATGGTTTATATATATAA
Found at i:13405131 original size:30 final size:30
Alignment explanation
Indices: 13405058--13405115 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
13405048 ATGAATTTGA
**
13405058 TACATGGAAATGGTTTATATATATGTGAAT
1 TACATGGAAATGGTTTATATATATAAGAAT
13405088 TACATGGAAATGGTTTATATATATAAGA
1 TACATGGAAATGGTTTATATATATAAGA
13405116 TATATGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (30 bp):
TACATGGAAATGGTTTATATATATAAGAAT
Found at i:13421041 original size:24 final size:25
Alignment explanation
Indices: 13420992--13421042 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
13420982 ACCCTTCTCA
* *
13420992 TTTCTTCACTTCTCTCTCATTTTTC
1 TTTCTTCACTTCCCTCTCATTGTTC
13421017 TTTCTTCA-TTCCCT-TCCATTGTTC
1 TTTCTTCACTTCCCTCT-CATTGTTC
13421041 TT
1 TT
13421043 CATTTTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.61
25 8 0.35
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTCTTCACTTCCCTCTCATTGTTC
Found at i:13425189 original size:39 final size:40
Alignment explanation
Indices: 13425111--13425190 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
13425101 ATAAACACCA
*
13425111 AAAAATTATTTTAAAAATAAAAAATTTAAAAAAAGTATTTT
1 AAAAATTATTTTAAAAATAAAAAA-TTAAAAAAAATATTTT
*
13425152 AAAAA-TATTTT-AAAATAAAAAA-TAAAAAATATATATTT
1 AAAAATTATTTTAAAAATAAAAAATTAAAAAAAATAT-TTT
13425190 A
1 A
13425191 TTATATTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
37 10 0.28
38 4 0.11
39 11 0.31
40 6 0.17
41 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (40 bp):
AAAAATTATTTTAAAAATAAAAAATTAAAAAAAATATTTT
Found at i:13425714 original size:17 final size:17
Alignment explanation
Indices: 13425688--13425728 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
13425678 ATTATGTGAA
13425688 TTTAAA-ATTTAT-ATAT
1 TTTAAATATTTATAAT-T
*
13425704 TTTAAATATTTTTAATT
1 TTTAAATATTTATAATT
13425721 TTTAAATA
1 TTTAAATA
13425729 CAAGTTGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 14 0.64
18 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAATATTTATAATT
Found at i:13430468 original size:12 final size:13
Alignment explanation
Indices: 13430447--13430479 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13430437 GATAAACATT
*
13430447 TACAAATAT-ATA
1 TACAAGTATAATA
13430459 TACAAGTATAATA
1 TACAAGTATAATA
13430472 TACAAGTA
1 TACAAGTA
13430480 AATTTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (13 bp):
TACAAGTATAATA
Found at i:13431783 original size:10 final size:10
Alignment explanation
Indices: 13431760--13431797 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
13431750 TGGAAAAGAA
13431760 AAAT-AAAT-
1 AAATAAAATC
13431768 AAATAAAATC
1 AAATAAAATC
13431778 AAATAAAATC
1 AAATAAAATC
*
13431788 AAACAAAATC
1 AAATAAAATC
13431798 TATACTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 4 0.15
9 4 0.15
10 19 0.70
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAATC
Found at i:13431987 original size:16 final size:17
Alignment explanation
Indices: 13431966--13432001 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13431956 TTTTTGTTTT
*
13431966 TTTGGGC-TAGGTTTGG
1 TTTGGGCTTAGGTTTAG
13431982 TTTGGGCTTAGGTTTAG
1 TTTGGGCTTAGGTTTAG
13431999 TTT
1 TTT
13432002 ATTGGGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.50
Consensus pattern (17 bp):
TTTGGGCTTAGGTTTAG
Found at i:13432688 original size:42 final size:40
Alignment explanation
Indices: 13432611--13432689 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 40
13432601 AAAATTTATG
* * *
13432611 TTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAAGTCAT
1 TTTTTAGCGGAGTTTGTGAAAAAGCGCCACTAAAAGTCAT
13432651 TTTTATAGCGGAGTTTGT-AATATAAGCGCCACTAAAAGT
1 TTTT-TAGCGGAGTTTGTGAA-A-AAGCGCCACTAAAAGT
13432690 TATGACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.18
41 13 0.39
42 14 0.42
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (40 bp):
TTTTTAGCGGAGTTTGTGAAAAAGCGCCACTAAAAGTCAT
Done.