Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 58 of 100
Found at i:13550266 original size:21 final size:22
Alignment explanation
Indices: 13550226--13550267 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13550216 TGAAATTAAA
*
13550226 TTAAAAAAATAAAAATAAAATT
1 TTAAAAAAATAAAAAGAAAATT
*
13550248 TTAAGAAAAT-AAAAGAAAAT
1 TTAAAAAAATAAAAAGAAAAT
13550268 AAAATCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (22 bp):
TTAAAAAAATAAAAAGAAAATT
Found at i:13550279 original size:18 final size:19
Alignment explanation
Indices: 13550255--13550303 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
13550245 ATTTTAAGAA
13550255 AATAAAAGAAAAT-AAAAT
1 AATAAAAGAAAATAAAAAT
* *
13550273 CATAAAATAAAATAAAAAT
1 AATAAAAGAAAATAAAAAT
*
13550292 AAAAAAAGAAAA
1 AATAAAAGAAAA
13550304 ACTTGTGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (19 bp):
AATAAAAGAAAATAAAAAT
Found at i:13550281 original size:13 final size:11
Alignment explanation
Indices: 13550253--13550295 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 11
13550243 AAATTTTAAG
*
13550253 AAAATAAAA-G
1 AAAATAAAATA
13550263 AAAATAAAATCA
1 AAAATAAAAT-A
13550275 TAAAATAAAATA
1 -AAAATAAAATA
13550287 AAAATAAAA
1 AAAATAAAA
13550296 AAAGAAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.31
11 9 0.31
12 1 0.03
13 10 0.34
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13552263 original size:17 final size:16
Alignment explanation
Indices: 13552226--13552315 Score: 76
Period size: 16 Copynumber: 5.6 Consensus size: 16
13552216 TTTTTAAGAC
13552226 TTTGGATTTCAAGGAT
1 TTTGGATTTCAAGGAT
* *
13552242 TTTGGATTTCGAGGGGT
1 TTTGGATTTC-AAGGAT
13552259 TTTGGATTT-AATGGAT
1 TTTGGATTTCAA-GGAT
* * * **
13552275 TTTGAATTTTATGGGG
1 TTTGGATTTCAAGGAT
13552291 TTTGGATTT-AAGGCAT
1 TTTGGATTTCAAGG-AT
13552307 TTTGGATTT
1 TTTGGATTT
13552316 TTAGGAGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
15 4 0.07
16 40 0.69
17 14 0.24
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.48
Consensus pattern (16 bp):
TTTGGATTTCAAGGAT
Found at i:13552318 original size:33 final size:32
Alignment explanation
Indices: 13552226--13552326 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 32
13552216 TTTTTAAGAC
**
13552226 TTTGGATTTCAAGGATTTTGGATTTCGAGGGGT
1 TTTGGATTT-AAGGATTTTGGATTTTTAGGGGT
*
13552259 TTTGGATTTAATGGATTTT-GAATTTTATGGGG-
1 TTTGGATTTAA-GGATTTTGGATTTTTA-GGGGT
*
13552291 TTTGGATTTAAGGCATTTTGGATTTTTAGGAGT
1 TTTGGATTTAAGG-ATTTTGGATTTTTAGGGGT
13552324 TTT
1 TTT
13552327 AGAAACCTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 2 0.03
32 26 0.45
33 30 0.52
ACGTcount: A:0.20, C:0.03, G:0.29, T:0.49
Consensus pattern (32 bp):
TTTGGATTTAAGGATTTTGGATTTTTAGGGGT
Found at i:13552729 original size:30 final size:31
Alignment explanation
Indices: 13552695--13552758 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
13552685 TATCATGCAT
*
13552695 AAAT-ATAACAAAATAACAAAA-TAACAAAAA
1 AAATAATAA-AAAATAACAAAATTAAAAAAAA
* *
13552725 AAATAATAAAAAATTAGAAAATTAAAAAAAA
1 AAATAATAAAAAATAACAAAATTAAAAAAAA
13552756 AAA
1 AAA
13552759 ATTTTTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.16
Consensus pattern (31 bp):
AAATAATAAAAAATAACAAAATTAAAAAAAA
Found at i:13552735 original size:8 final size:8
Alignment explanation
Indices: 13552699--13552723 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13552689 ATGCATAAAT
13552699 ATAACAAA
1 ATAACAAA
13552707 ATAACAAA
1 ATAACAAA
13552715 ATAACAAA
1 ATAACAAA
13552723 A
1 A
13552724 AAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAACAAA
Found at i:13552889 original size:38 final size:38
Alignment explanation
Indices: 13552803--13552901 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
13552793 GATGAACGCT
* * *
13552803 GGTCCGGGCGGTCTGACCGGTTCGACAGTTGAATAGGC
1 GGTCCGGGCGATCTGACCGGTTCGACAGTCGAATAGAC
* * * * *
13552841 AGTTCAGGCGATCTGACCGGTTCGACGGTCGGATCA-AC
1 GGTCCGGGCGATCTGACCGGTTCGACAGTCGAAT-AGAC
*
13552879 GGTCCGGGCGATCTGACTGGTTC
1 GGTCCGGGCGATCTGACCGGTTC
13552902 AGTCCGATCC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
38 47 0.98
39 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.36, T:0.22
Consensus pattern (38 bp):
GGTCCGGGCGATCTGACCGGTTCGACAGTCGAATAGAC
Found at i:13553453 original size:6 final size:6
Alignment explanation
Indices: 13553438--13553472 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
13553428 ACTGTGTATT
* *
13553438 TTTTTA TTTTTG TTTTTG TTTTGG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
13553473 TTTGCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:13553713 original size:21 final size:21
Alignment explanation
Indices: 13553679--13553720 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13553669 CTGAGAGAGC
13553679 TGGTCAGGGGGTTGGTTGGGT
1 TGGTCAGGGGGTTGGTTGGGT
13553700 TGGTC-GGGGAGTTGGTTGGGT
1 TGGTCAGGGG-GTTGGTTGGGT
13553721 GGCTGACAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.05, C:0.05, G:0.57, T:0.33
Consensus pattern (21 bp):
TGGTCAGGGGGTTGGTTGGGT
Found at i:13554125 original size:48 final size:47
Alignment explanation
Indices: 13554007--13554382 Score: 415
Period size: 48 Copynumber: 7.8 Consensus size: 47
13553997 TGGTTTTACA
* * *
13554007 GAAAAAGGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTTTCATCT
1 GAAAAA-GCTCCTCTCAACAGAGGCTC-ACAACTTTAAAAA-TCTCATCT
*
13554057 GGAAAAAGCTCCTCTCAACAGAGGTTTCACAACTTTAAAAATCTCATCT
1 -GAAAAAGCTCCTCTCAACAGAGG-CTCACAACTTTAAAAATCTCATCT
13554106 GAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATCTC-T-T
1 GAAAAAGCTCCTCTCAACAGAGGCT-CACAACTTTAAAAATCTCATCT
* **
13554152 GAAAAAAGCTCCTCTCAGCAGAGGCTCA-ATGACTTT-AAAATCTTTTCTT
1 G-AAAAAGCTCCTCTCAACAGAGGCTCACA--ACTTTAAAAATCTCATC-T
13554201 GAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAAATCTCATCT
1 GAAAAAGCTCCTCTCAACAGAGGCTC-ACAACTTTAAAAATCTCATCT
* * **
13554249 -AGAAAAGCTCCTCTCAGCAGAGGCTCAACGACTTT-AAAATCTTTTCTT
1 GA-AAAAGCTCCTCTCAACAGAGGCTC-ACAACTTTAAAAATCTCATC-T
*
13554297 GAAAAA-CTCCTCTCAACAGAGGCTTAACAACTTTAAAAATCTCATCT
1 GAAAAAGCTCCTCTCAACAGAGGC-TCACAACTTTAAAAATCTCATCT
* ** *
13554344 GGAAAAGCTCCTCTCAGTAGAGGCTCAACGACTTTAAAA
1 GAAAAAGCTCCTCTCAACAGAGGCTC-ACAACTTTAAAA
13554383 TTTTTCATCT
Statistics
Matches: 282, Mismatches: 25, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
45 1 0.00
46 11 0.04
47 71 0.25
48 142 0.50
49 20 0.07
50 29 0.10
51 8 0.03
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (47 bp):
GAAAAAGCTCCTCTCAACAGAGGCTCACAACTTTAAAAATCTCATCT
Found at i:13554204 original size:95 final size:97
Alignment explanation
Indices: 13554007--13554388 Score: 528
Period size: 95 Copynumber: 4.0 Consensus size: 97
13553997 TGGTTTTACA
* * * *
13554007 GAAAAAGGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAAATTTTCATCTGGAAAAAGCTCCTCT
1 GAAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTAAAAA-TCTCATCTGAAAAAAGCTCCTCT
* * * **
13554072 CAACAGAGGTTTC-ACAACTTTAAAAATCTCATC-T
64 CAGCAGAGG-CTCAACGACTTT-AAAATCTTTTCTT
*
13554106 GAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAAATCTC-T-TGAAAAAAGCTCCTCTCA
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAAGCTCCTCTCA
*
13554169 GCAGAGGCTCAATGACTTTAAAATCTTTTCTT
66 GCAGAGGCTCAACGACTTTAAAATCTTTTCTT
* *
13554201 GAAAAAGCTCCTCTCAACAGAGGCTCTACAACTTTAAAAATCTCATCT-AGAAAAGCTCCTCTCA
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAAGCTCCTCTCA
13554265 GCAGAGGCTCAACGACTTTAAAATCTTTTCTT
66 GCAGAGGCTCAACGACTTTAAAATCTTTTCTT
* *
13554297 GAAAAA-CTCCTCTCAACAGAGGCTTAACAACTTTAAAAATCTCATCTG-GAAAAGCTCCTCTCA
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAAGCTCCTCTCA
*
13554360 GTAGAGGCTCAACGACTTTAAAAT-TTTTC
66 GCAGAGGCTCAACGACTTTAAAATCTTTTC
13554389 ATCTGTTTTC
Statistics
Matches: 261, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
94 16 0.06
95 150 0.57
96 54 0.21
97 4 0.02
98 31 0.12
99 6 0.02
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (97 bp):
GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAAGCTCCTCTCA
GCAGAGGCTCAACGACTTTAAAATCTTTTCTT
Found at i:13554270 original size:143 final size:144
Alignment explanation
Indices: 13554007--13554382 Score: 471
Period size: 143 Copynumber: 2.6 Consensus size: 144
13553997 TGGTTTTACA
* * *
13554007 GAAAAAGGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAAAT-TTTCATCTGGAAAAAGCTCCTC
1 GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTT--TCTTGAAAAAGCTCCTC
* *
13554071 TCAACAGAGG-TTTCACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAACAGAGGCTCCAC
64 TCAACAGAGGCTCT-ACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAACAGAGGCTCAAC
13554135 AACTTTAAAAATC-TCTT
128 AACTTT-AAAATCTTCTT
**
13554152 GAAAAAAGCTCCTCTCAGCAGAGGCTCAATGACTTT-AAAATCTTTTCTTGAAAAAGCTCCTCTC
1 GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTTTCTTGAAAAAGCTCCTCTC
* *
13554216 AACAGAGGCTCTACAACTTTAAAAATCTCATCT-AGAAAAGCTCCTCTCAGCAGAGGCTCAACGA
66 AACAGAGGCTCTACAACTTTAAAAATCTCATCTGA-AAAAGCTCCTCTCAACAGAGGCTCAACAA
13554280 CTTTAAAATCTTTTCTT
130 CTTTAAAATC--TTCTT
* * ** *
13554297 G-AAAAA-CTCCTCTCAACAGAGGCTTAACAACTTTAAAAATCTCATC-TGGAAAAGCTCCTCTC
1 GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTTTCTTGAAAAAGCTCCTCTC
** * *
13554359 AGTAGAGGCTCAACGACTTTAAAA
66 AACAGAGGCTCTACAACTTTAAAA
13554383 TTTTTCATCT
Statistics
Matches: 204, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
142 7 0.03
143 136 0.67
144 21 0.10
145 40 0.20
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (144 bp):
GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTTTCTTGAAAAAGCTCCTCTC
AACAGAGGCTCTACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAACAGAGGCTCAACAAC
TTTAAAATCTTCTT
Found at i:13560069 original size:176 final size:176
Alignment explanation
Indices: 13559775--13560129 Score: 665
Period size: 176 Copynumber: 2.0 Consensus size: 176
13559765 GATGAGCCAT
*
13559775 TATCAATCAAAACTTTAGCCATTATATGACTTTTACATTTCACAGTAATGTGAAGAGCCCTGGTA
1 TATCAATCAAAACCTTAGCCATTATATGACTTTTACATTTCACAGTAATGTGAAGAGCCCTGGTA
*
13559840 CTTCCTCTACCCTCAGGAGGAATTTCTTCATCATTGAAAAAAATATAGTTTGAAATCATCAGATT
66 CTTCCTCTACCCTCAGGAGGAATTTCTTCATCATTAAAAAAAATATAGTTTGAAATCATCAGATT
13559905 GCCAACAAGCTGTTCCACATATTCAACAGAAGCATTGTGAGACACA
131 GCCAACAAGCTGTTCCACATATTCAACAGAAGCATTGTGAGACACA
13559951 TATCAATCAAAACCTTAGCCATTATATGACTTTTACATTTCACAGTAATGTGAAGAGCCCTGGTA
1 TATCAATCAAAACCTTAGCCATTATATGACTTTTACATTTCACAGTAATGTGAAGAGCCCTGGTA
*
13560016 CTTCCTCTACCCTCAGGAGGAATTTCTTCATCATTAAAAAAAATATAGTTTGAAATCGTCAGATT
66 CTTCCTCTACCCTCAGGAGGAATTTCTTCATCATTAAAAAAAATATAGTTTGAAATCATCAGATT
* *
13560081 GCCAACAAGCTGTTTCACATATTCAATAGAAGCATTGTGAGACACA
131 GCCAACAAGCTGTTCCACATATTCAACAGAAGCATTGTGAGACACA
13560127 TAT
1 TAT
13560130 GCTTGATTTA
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 174 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (176 bp):
TATCAATCAAAACCTTAGCCATTATATGACTTTTACATTTCACAGTAATGTGAAGAGCCCTGGTA
CTTCCTCTACCCTCAGGAGGAATTTCTTCATCATTAAAAAAAATATAGTTTGAAATCATCAGATT
GCCAACAAGCTGTTCCACATATTCAACAGAAGCATTGTGAGACACA
Found at i:13566684 original size:16 final size:15
Alignment explanation
Indices: 13566660--13566754 Score: 64
Period size: 16 Copynumber: 5.9 Consensus size: 15
13566650 TTTTTTTTTT
*
13566660 AGGACTTTGGATTTCA
1 AGGATTTTGGATTT-A
*
13566676 AGGATTTTGGATTTCGG
1 AGGATTTTGGATTT--A
* *
13566693 GGGGTTTTGGATTTA
1 AGGATTTTGGATTTA
*
13566708 ATGGATTTTGAATTTTA
1 A-GGATTTTGGA-TTTA
* **
13566725 TGGGGTTTGGATTTA
1 AGGATTTTGGATTTA
13566740 AGGGATTTTGGATTT
1 A-GGATTTTGGATTT
13566755 TTAGGAGTTT
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
15 4 0.07
16 39 0.66
17 16 0.27
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.45
Consensus pattern (15 bp):
AGGATTTTGGATTTA
Found at i:13566757 original size:33 final size:32
Alignment explanation
Indices: 13566665--13566755 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
13566655 TTTTTAGGAC
**
13566665 TTTGGATTTCAAGGATTTTGGATTTCGGGGGGT
1 TTTGGATTT-AAGGATTTTGGATTTTAGGGGGT
* *
13566698 TTTGGATTTAATGGATTTTGAATTTTATGGGG-
1 TTTGGATTTAA-GGATTTTGGATTTTAGGGGGT
13566730 TTTGGATTTAAGGGATTTTGGATTTT
1 TTTGGATTTAA-GGATTTTGGATTTT
13566756 TAGGAGTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 26 0.51
33 25 0.49
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (32 bp):
TTTGGATTTAAGGATTTTGGATTTTAGGGGGT
Found at i:13568192 original size:9 final size:9
Alignment explanation
Indices: 13568169--13568220 Score: 88
Period size: 9 Copynumber: 5.9 Consensus size: 9
13568159 TCTTCTTTTC
13568169 GTTTTGTTT
1 GTTTTGTTT
13568178 -TTTTGTTT
1 GTTTTGTTT
13568186 GTTTTGTTT
1 GTTTTGTTT
13568195 GTTTTGTTT
1 GTTTTGTTT
*
13568204 TTTTTGTTT
1 GTTTTGTTT
13568213 GTTTTGTT
1 GTTTTGTT
13568221 AAATATTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
8 8 0.20
9 32 0.80
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
GTTTTGTTT
Found at i:13572815 original size:9 final size:9
Alignment explanation
Indices: 13572801--13572827 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13572791 ACTTAGGCAT
13572801 AGACATACC
1 AGACATACC
13572810 AGACATACC
1 AGACATACC
13572819 AGACATACC
1 AGACATACC
13572828 TTCTTCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.11
Consensus pattern (9 bp):
AGACATACC
Found at i:13579784 original size:100 final size:100
Alignment explanation
Indices: 13579607--13579792 Score: 257
Period size: 100 Copynumber: 1.9 Consensus size: 100
13579597 TCCCAAACAG
* * *
13579607 TTTTATTTTGACAGGTTTGATAGCTACAACAACTGTACCTTATTTAGAACTTAATATTAACAAAG
1 TTTTATTTTCACAAGTTTGATAGCTACAACAACTATACCTTATTTAGAACTTAATATTAACAAAG
**
13579672 ACTGGATGAGAAAGCTGAGATCCTATTGGTGGATA
66 ACTGGACAAGAAAGCTGAGATCCTATTGGTGGATA
** *
13579707 TTTTATTTTCACAAGTTTGATAGCTACAGTAATTATACCTTATTTA-AGACTTAATATTAACAAA
1 TTTTATTTTCACAAGTTTGATAGCTACAACAACTATACCTTATTTAGA-ACTTAATATTAACAAA
** *
13579771 GTTTGGACAAGAAAGTTGAGAT
65 GACTGGACAAGAAAGCTGAGAT
13579793 TGTGTTGATG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 73 0.99
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (100 bp):
TTTTATTTTCACAAGTTTGATAGCTACAACAACTATACCTTATTTAGAACTTAATATTAACAAAG
ACTGGACAAGAAAGCTGAGATCCTATTGGTGGATA
Found at i:13592787 original size:9 final size:9
Alignment explanation
Indices: 13592750--13592786 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13592740 TAACTCAACT
13592750 AAAGAAATA
1 AAAGAAATA
*
13592759 AAAAAAATA
1 AAAGAAATA
13592768 AAAGAAATA
1 AAAGAAATA
*
13592777 AGAGAAATA
1 AAAGAAATA
13592786 A
1 A
13592787 GGAATGGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAAGAAATA
Found at i:13601855 original size:19 final size:19
Alignment explanation
Indices: 13601831--13601880 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
13601821 ACAGTAAAAA
*
13601831 ACCAATCGATCCCCTTTGG
1 ACCAATCGATCCCCTTTAG
*
13601850 ACCAATCAATCCCCTTTAG
1 ACCAATCGATCCCCTTTAG
*
13601869 ACAAGATCGATC
1 ACCA-ATCGATC
13601881 GGGTCTCCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (19 bp):
ACCAATCGATCCCCTTTAG
Found at i:13603962 original size:9 final size:9
Alignment explanation
Indices: 13603948--13603999 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
13603938 GAAAATTTTC
13603948 TTTGATGAT
1 TTTGATGAT
*
13603957 TTTGATGAC
1 TTTGATGAT
* *
13603966 ATTAATGAT
1 TTTGATGAT
* *
13603975 CTTGATTAT
1 TTTGATGAT
*
13603984 ATTGATGAT
1 TTTGATGAT
13603993 TTTGATG
1 TTTGATG
13604000 GTATGAACCA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.27, C:0.04, G:0.19, T:0.50
Consensus pattern (9 bp):
TTTGATGAT
Found at i:13603979 original size:18 final size:18
Alignment explanation
Indices: 13603952--13603999 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
13603942 ATTTTCTTTG
13603952 ATGATTTTGATGACATTA
1 ATGATTTTGATGACATTA
* * * *
13603970 ATGATCTTGATTATATTG
1 ATGATTTTGATGACATTA
13603988 ATGATTTTGATG
1 ATGATTTTGATG
13604000 GTATGAACCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (18 bp):
ATGATTTTGATGACATTA
Found at i:13610157 original size:25 final size:25
Alignment explanation
Indices: 13610123--13610173 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
13610113 TAAGTGATTG
*
13610123 TTCATCGGAATTGTTTTTGTCTGAA
1 TTCATCGGAATTGTTATTGTCTGAA
*
13610148 TTCATTGGAATTGTTATTGTCTGAA
1 TTCATCGGAATTGTTATTGTCTGAA
13610173 T
1 T
13610174 ACTCGTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.49
Consensus pattern (25 bp):
TTCATCGGAATTGTTATTGTCTGAA
Found at i:13614939 original size:39 final size:39
Alignment explanation
Indices: 13614844--13614991 Score: 181
Period size: 39 Copynumber: 3.7 Consensus size: 39
13614834 AACATTATAA
* *
13614844 TTTTAATAACATGACACGGGAAAAAATGATATTAAAAAAAT
1 TTTTAATAACATGACACGGGAAAAAATGA-AGT-GAAAAAT
* *
13614885 TTTTAATAACATGACACGGGAAAAAATGACGTGAAAAAC
1 TTTTAATAACATGACACGGGAAAAAATGAAGTGAAAAAT
* * *
13614924 TTTAAATAATC-TGACATGGGAACAAATGAAGTGAAAAAT
1 TTTTAATAA-CATGACACGGGAAAAAATGAAGTGAAAAAT
* *
13614963 TTTTAATAACACGACACCGGAAAAAATGA
1 TTTTAATAACATGACACGGGAAAAAATGA
13614992 TAACAAGGAG
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 59 0.65
40 2 0.02
41 29 0.32
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.24
Consensus pattern (39 bp):
TTTTAATAACATGACACGGGAAAAAATGAAGTGAAAAAT
Found at i:13615153 original size:33 final size:33
Alignment explanation
Indices: 13615110--13615178 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
13615100 TTTTTTAGTA
13615110 TTTATGTGACTATTGATACTC-TTGAAAGGTGT
1 TTTATGTGACTATTGATACTCTTTGAAAGGTGT
* *
13615142 TTTATGGTGACTTTTGATACTCTTTGATAGGTGT
1 TTTAT-GTGACTATTGATACTCTTTGAAAGGTGT
13615176 TTT
1 TTT
13615179 GTTTGCTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 5 0.15
33 15 0.45
34 13 0.39
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTATGTGACTATTGATACTCTTTGAAAGGTGT
Found at i:13615551 original size:12 final size:11
Alignment explanation
Indices: 13615523--13615550 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13615513 ATATGCTTCG
13615523 TTTTTTCTTTT
1 TTTTTTCTTTT
13615534 TTTTTTCTTTT
1 TTTTTTCTTTT
13615545 TTTTTT
1 TTTTTT
13615551 TTCGTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:13617027 original size:17 final size:18
Alignment explanation
Indices: 13616999--13617034 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
13616989 AACTAATTAA
13616999 TTTTAAATATATTTATAT
1 TTTTAAATATATTTATAT
*
13617017 TTTTAAA-ATATTTTTAT
1 TTTTAAATATATTTATAT
13617034 T
1 T
13617035 GATTCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAATATATTTATAT
Found at i:13618165 original size:46 final size:47
Alignment explanation
Indices: 13618115--13618206 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
13618105 TTACTGTGCA
*
13618115 TTAAAAAATCATCAAC-AAAATTAAAAGATAATTTAAAATTAATAAG
1 TTAAAAAATCATCAACAAAAATAAAAAGATAATTTAAAATTAATAAG
* *
13618161 TTAAAAAATCCTCAACAAAAATAAAAAGATAATTTAAAGTTAATAA
1 TTAAAAAATCATCAACAAAAATAAAAAGATAATTTAAAATTAATAA
13618207 ATATAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 15 0.36
47 27 0.64
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (47 bp):
TTAAAAAATCATCAACAAAAATAAAAAGATAATTTAAAATTAATAAG
Found at i:13619940 original size:24 final size:25
Alignment explanation
Indices: 13619903--13619953 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
13619893 AAATCGTATT
*
13619903 ATTTAATTTATTAATAATTTATAAA
1 ATTTAATTTATTAATAATATATAAA
*
13619928 ATTT-ATTTATTAATAATATATCAA
1 ATTTAATTTATTAATAATATATAAA
13619952 AT
1 AT
13619954 ATAAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTAATTTATTAATAATATATAAA
Found at i:13620015 original size:22 final size:22
Alignment explanation
Indices: 13619990--13620035 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
13619980 CATTTATTTT
*
13619990 TTATCACAAAAAAAAAAATTAA
1 TTATCACAAAAAAAAAAATAAA
* *
13620012 TTATCACATAAAATAAAATAAA
1 TTATCACAAAAAAAAAAATAAA
13620034 TT
1 TT
13620036 TCTACTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
TTATCACAAAAAAAAAAATAAA
Found at i:13622776 original size:2 final size:2
Alignment explanation
Indices: 13622769--13622804 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13622759 GCTTAGCACA
*
13622769 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13622805 TTATCTGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13623147 original size:3 final size:3
Alignment explanation
Indices: 13623139--13623166 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13623129 TAACTTCAAA
13623139 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13623167 TTGGTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13630993 original size:5 final size:5
Alignment explanation
Indices: 13630979--13631008 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13630969 TTAATAACTT
*
13630979 CAAAA CAAAA TAAAA CAAAA CAAAA CAAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
13631009 ATTGTAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.03
Consensus pattern (5 bp):
CAAAA
Found at i:13633920 original size:33 final size:34
Alignment explanation
Indices: 13633876--13633948 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
13633866 AAATAGGGCC
13633876 ATTTTATTATTAAAAATAAAGACA-TTAAAAAAAT
1 ATTTTATTATTAAAAAT-AAGACATTTAAAAAAAT
* * * *
13633910 ATTTTA-TATTAATAATATGACATTTTAAAATAT
1 ATTTTATTATTAAAAATAAGACATTTAAAAAAAT
13633943 ATTTTA
1 ATTTTA
13633949 AAATATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 5 0.15
33 23 0.68
34 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (34 bp):
ATTTTATTATTAAAAATAAGACATTTAAAAAAAT
Found at i:13633948 original size:12 final size:12
Alignment explanation
Indices: 13633931--13633955 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13633921 ATAATATGAC
13633931 ATTTTAAAATAT
1 ATTTTAAAATAT
13633943 ATTTTAAAATAT
1 ATTTTAAAATAT
13633955 A
1 A
13633956 AATTAAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAATAT
Found at i:13635673 original size:23 final size:24
Alignment explanation
Indices: 13635634--13635678 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
13635624 AACAACCGTT
13635634 TTATTGATACAGATGAT-TTTGGA
1 TTATTGATACAGATGATATTTGGA
*
13635657 TTATTGAT-CGGATTGATATTTG
1 TTATTGATACAGA-TGATATTTG
13635679 TACTACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 12 0.63
24 4 0.21
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (24 bp):
TTATTGATACAGATGATATTTGGA
Found at i:13640293 original size:3 final size:3
Alignment explanation
Indices: 13640285--13640313 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13640275 CATCAATCAA
13640285 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13640314 ATGGCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13646270 original size:30 final size:30
Alignment explanation
Indices: 13646234--13646293 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
13646224 TAATATGTAC
*
13646234 TTGAATTATAATATAACTTCATTAGTATTT
1 TTGAATTATAATATAACTTCATTAATATTT
13646264 TTGAATTATAATATAACTTCATTAATATTT
1 TTGAATTATAATATAACTTCATTAATATTT
13646294 ATTTCCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (30 bp):
TTGAATTATAATATAACTTCATTAATATTT
Found at i:13647602 original size:22 final size:22
Alignment explanation
Indices: 13647577--13647632 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
13647567 ATTGTATTAT
*
13647577 ATTAATATTTAATTTAATAA-TA
1 ATTAA-ATATAATTTAATAAGTA
*
13647599 ATTAAATATAATTTTATAAGTA
1 ATTAAATATAATTTAATAAGTA
*
13647621 ATTAAATCTAAT
1 ATTAAATATAAT
13647633 AATTTTATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTAAATATAATTTAATAAGTA
Found at i:13647634 original size:25 final size:21
Alignment explanation
Indices: 13647577--13647641 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 21
13647567 ATTGTATTAT
* *
13647577 ATTAATATTTAATTTAATAATA
1 ATTAA-ATATAATTTTATAATA
13647599 ATTAAATATAATTTTATAAGTA
1 ATTAAATATAATTTTATAA-TA
13647621 ATTAAATCTAATAATTTTATA
1 ATTAAA--T-ATAATTTTATA
13647642 GTTAAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 12 0.32
22 13 0.35
24 1 0.03
25 11 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTAAATATAATTTTATAATA
Found at i:13647845 original size:18 final size:17
Alignment explanation
Indices: 13647819--13647853 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13647809 TTAATATAAA
13647819 AAAATTAAAAAAATTTT
1 AAAATTAAAAAAATTTT
*
13647836 AAAATATAAAAAAGTTTT
1 AAAAT-TAAAAAAATTTT
13647854 TAATGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAATTAAAAAAATTTT
Found at i:13650490 original size:16 final size:15
Alignment explanation
Indices: 13650469--13650499 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13650459 CTTGAGTTAA
13650469 TTTATATTTATATATT
1 TTTATATTTA-ATATT
13650485 TTTATATTTAATATT
1 TTTATATTTAATATT
13650500 ATCTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATATTTAATATT
Found at i:13650506 original size:16 final size:16
Alignment explanation
Indices: 13650471--13650508 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13650461 TGAGTTAATT
*
13650471 TATATTTATATATTTT
1 TATATTTATATATTTC
13650487 TATATTTA-ATATTATC
1 TATATTTATATATT-TC
13650503 TATATT
1 TATATT
13650509 AATTACCCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTATATATTTC
Found at i:13651432 original size:5 final size:5
Alignment explanation
Indices: 13651422--13651474 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
13651412 AATAATATTT
13651422 AACAA AACAA AAC-A AA-AA AACAA AA-AA AACCAA AACAGA AA-AA AACAA
1 AACAA AACAA AACAA AACAA AACAA AACAA AA-CAA AACA-A AACAA AACAA
13651470 AACAA
1 AACAA
13651475 GTAAACAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
4 13 0.31
5 22 0.52
6 7 0.17
ACGTcount: A:0.81, C:0.17, G:0.02, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:13651443 original size:8 final size:8
Alignment explanation
Indices: 13651430--13651495 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
13651420 TTAACAAAAC
13651430 AAAACAAA
1 AAAACAAA
13651438 AAAACAAAA
1 AAAAC-AAA
*
13651447 AAAACCAA
1 AAAACAAA
* *
13651455 AACAGAAA
1 AAAACAAA
13651463 AAAACAAA
1 AAAACAAA
**
13651471 ACAAGTAAA
1 A-AAACAAA
*
13651480 CAAACAAA
1 AAAACAAA
13651488 AAAA-AAA
1 AAAACAAA
13651495 A
1 A
13651496 GAAAGAAGTC
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
7 4 0.09
8 27 0.61
9 13 0.30
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.02
Consensus pattern (8 bp):
AAAACAAA
Found at i:13651456 original size:17 final size:17
Alignment explanation
Indices: 13651422--13651495 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
13651412 AATAATATTT
13651422 AACAAAACAAAACAAAAA
1 AACAAAA-AAAACAAAAA
*
13651440 AACAAAAAAAAC--CAA
1 AACAAAAAAAACAAAAA
*
13651455 AACAGAAAAAAACAAAAC
1 AACA-AAAAAAACAAAAA
** *
13651473 AAGTAAACAAACAAAAA
1 AACAAAAAAAACAAAAA
13651490 AA-AAAA
1 AACAAAA
13651496 GAAAGAAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
15 6 0.13
16 11 0.24
17 18 0.40
18 10 0.22
ACGTcount: A:0.81, C:0.15, G:0.03, T:0.01
Consensus pattern (17 bp):
AACAAAAAAAACAAAAA
Found at i:13651456 original size:23 final size:23
Alignment explanation
Indices: 13651425--13651471 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
13651415 AATATTTAAC
13651425 AAAACAAAAC-AAAAAAACAAAA
1 AAAACAAAACAAAAAAAACAAAA
13651447 AAAACCAAAACAGAAAAAAACAAAA
1 AAAA-CAAAACA-AAAAAAACAAAA
13651472 CAAGTAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 6 0.27
25 12 0.55
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAACAAAACAAAAAAAACAAAA
Found at i:13652496 original size:27 final size:25
Alignment explanation
Indices: 13652462--13652514 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
13652452 AACCGGTACT
13652462 GAACCGTCGAACCAACCAGACCGAACC
1 GAACCGTCGAACCAACC-G-CCGAACC
*
13652489 GAACCGTCGATCCAACCGCCGAACC
1 GAACCGTCGAACCAACCGCCGAACC
13652514 G
1 G
13652515 GTCAGACCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 1 0.04
27 16 0.64
ACGTcount: A:0.32, C:0.42, G:0.21, T:0.06
Consensus pattern (25 bp):
GAACCGTCGAACCAACCGCCGAACC
Found at i:13652597 original size:3 final size:3
Alignment explanation
Indices: 13652591--13652628 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
13652581 ATTTTCTAAT
* *
13652591 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13652629 TTAAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13653039 original size:33 final size:32
Alignment explanation
Indices: 13653002--13653063 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
13652992 CTAGGTTTCT
13653002 AAAACC-CTTAAAAATCCAAAATCCATTAAATCC
1 AAAACCGC-TAAAAATCCAAAATCC-TTAAATCC
**
13653035 AAAACCGCTCGAAATCCAAAATCCTTAAA
1 AAAACCGCTAAAAATCCAAAATCCTTAAA
13653064 GTTCAAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.19
33 20 0.77
34 1 0.04
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.19
Consensus pattern (32 bp):
AAAACCGCTAAAAATCCAAAATCCTTAAATCC
Found at i:13665143 original size:48 final size:47
Alignment explanation
Indices: 13665073--13665383 Score: 485
Period size: 45 Copynumber: 6.7 Consensus size: 47
13665063 CAAATGAGAT
13665073 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
13665121 TTTTAAAGTGTGTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
1 TTTTAAAGT-TGTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
*
13665169 TTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGC-TTTTCAA-AGAGAA
1 TTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
*
13665214 TTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTTC-A-AATGAA
1 TTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
13665259 TTTTAAAGTT-TGGAGCCTCTGTTGAGAGGAGCTTTTTCAAG--AG-A
1 TTTTAAAGTTGT-GAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
*
13665303 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGAGAA
1 TTTTAAAGTTGT-GAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAA
13665352 TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAG
1 TTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAG
13665384 AATTTTAAAG
Statistics
Matches: 248, Mismatches: 4, Indels: 21
0.91 0.01 0.08
Matches are distributed among these distances:
44 12 0.05
45 110 0.44
46 13 0.05
47 23 0.09
48 56 0.23
49 33 0.13
50 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (47 bp):
TTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAAGAA
Found at i:13665229 original size:45 final size:46
Alignment explanation
Indices: 13665063--13665499 Score: 484
Period size: 45 Copynumber: 9.9 Consensus size: 46
13665053 AATTTGAAAA
*
13665063 CAAATGAGATTTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTT
1 CAAA-GAGAATTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGCTTTTT
*
13665111 CAAGAAAGAATTTTAAAGTGTGTGAGCCTCTGTTGAGAGGAGCTTTTT
1 CAA-AGAGAATTTTAAAGT-TGTGAGCCTCTGTTGAGAGGAGCTTTTT
*
13665159 CAAGAAAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGC-TTTT
1 CAA-AGAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTT
13665205 CAAAGAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTT
1 CAAAGAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTT
*
13665251 CAAA-TGAATTTTAAAGTT-TGGAGCCTCTGTTGAGAGGAGCTTTTT
1 CAAAGAGAATTTTAAAGTTGT-GAGCCTCTGTTGAGAGGAGCTTTTT
13665296 C-AAGAG-ATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTT
1 CAAAGAGAATTTTAAAGTTGT-GAGCCTCTGTTGAGAGGAGCTTTTT
**
13665341 CAAGATGAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGAATTTT
1 CAA-A-GAGAATTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGCTTTTT
**
13665390 --AA-AG----TT---G-TG-GAGCCTCTGTTGAGAGGAGAATTTT
1 CAAAGAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTT
13665424 --AA-AG----TT---G-TG-GAGCCTCTGTTGAGAGGAGCTTTTT
1 CAAAGAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTT
13665458 C-AAGAAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGC
1 CAAAG-AGAATTTTAAAGTTG-TGAGCCTCTGTTGAGAGGAGC
13665500 CCTTTTCTGT
Statistics
Matches: 356, Mismatches: 9, Indels: 49
0.86 0.02 0.12
Matches are distributed among these distances:
34 57 0.16
35 2 0.01
36 2 0.01
37 3 0.01
40 2 0.01
41 2 0.01
44 17 0.05
45 107 0.30
46 17 0.05
47 45 0.13
48 63 0.18
49 38 0.11
50 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (46 bp):
CAAAGAGAATTTTAAAGTTGTGAGCCTCTGTTGAGAGGAGCTTTTT
Found at i:13665387 original size:34 final size:34
Alignment explanation
Indices: 13665347--13665451 Score: 201
Period size: 34 Copynumber: 3.1 Consensus size: 34
13665337 TTTTCAAGAT
*
13665347 GAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGAG
1 GAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
13665381 GAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
1 GAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
13665415 GAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
1 GAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
13665449 GAG
1 GAG
13665452 CTTTTTCAAG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (34 bp):
GAGAATTTTAAAGTTGTGGAGCCTCTGTTGAGAG
Found at i:13665680 original size:5 final size:5
Alignment explanation
Indices: 13665670--13665719 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
13665660 AATATTTAAA
* *
13665670 AAAAC AAAAC AAAA- AAAAA AAAAA AAAAC -AAAC AGAAA- AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC A-AAAC AAAAC AAAAC
13665718 AA
1 AA
13665720 GTAAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
4 11 0.28
5 26 0.65
6 3 0.08
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:13665691 original size:19 final size:19
Alignment explanation
Indices: 13665667--13665719 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
13665657 AATAATATTT
13665667 AAAAAAACAAAACAAAAAA
1 AAAAAAACAAAACAAAAAA
* * *
13665686 AAAAAAAAAAAACAAACAG
1 AAAAAAACAAAACAAAAAA
13665705 AAAAAAACAAAACAA
1 AAAAAAACAAAACAA
13665720 GTAAAACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAACAAAAAA
Found at i:13665711 original size:28 final size:27
Alignment explanation
Indices: 13665667--13665739 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
13665657 AATAATATTT
13665667 AAAA-AAACAAAACAAAAAAAAAAAAAA
1 AAAACAAACAAAA-AAAAAAAAAAAAAA
* * **
13665694 AAAACAAACAGAAAAAAACAAAACAAGT
1 AAAACAAACA-AAAAAAAAAAAAAAAAA
13665722 AAAACAAACAAAAAAAAA
1 AAAACAAACAAAAAAAAA
13665740 GAAAGAAGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 11 0.28
28 25 0.64
29 3 0.08
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (27 bp):
AAAACAAACAAAAAAAAAAAAAAAAAA
Found at i:13665739 original size:14 final size:14
Alignment explanation
Indices: 13665667--13665739 Score: 71
Period size: 14 Copynumber: 5.3 Consensus size: 14
13665657 AATAATATTT
13665667 AAAA-AAACAAAACA
1 AAAACAAACAAAA-A
*
13665681 AAAA-AAAAAAAAA
1 AAAACAAACAAAAA
*
13665694 AAAACAAACAGAAA
1 AAAACAAACAAAAA
**
13665708 AAAACAAA-ACAAGT
1 AAAACAAACA-AAAA
13665722 AAAACAAACAAAAA
1 AAAACAAACAAAAA
13665736 AAAA
1 AAAA
13665740 GAAAGAAGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.12
14 41 0.85
15 1 0.02
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (14 bp):
AAAACAAACAAAAA
Found at i:13666703 original size:39 final size:36
Alignment explanation
Indices: 13666633--13666709 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 36
13666623 CCGGTTCATA
* * *
13666633 CGAACCGCCTATCGACCGCCGAACGGTCAGATCGCC
1 CGAACCGCCGATCAACCGCCGAACGGTCAGATCACC
13666669 CGAACCGCCGATCCAACCGCCGCAACCGGTCAGATCACC
1 CGAACCGCCGAT-CAACCGCCG-AA-CGGTCAGATCACC
13666708 CG
1 CG
13666710 GACCATCGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 11 0.31
37 8 0.23
38 2 0.06
39 14 0.40
ACGTcount: A:0.23, C:0.44, G:0.23, T:0.09
Consensus pattern (36 bp):
CGAACCGCCGATCAACCGCCGAACGGTCAGATCACC
Found at i:13667256 original size:16 final size:16
Alignment explanation
Indices: 13667199--13667256 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
13667189 AAACCCTTAA
13667199 AAATCCAAAATCCATT-
1 AAATCCAAAATCC-TTG
* *
13667215 AAATCCAAAACCGCTCG
1 AAATCCAAAATC-CTTG
13667232 AAATCCAAAATCCTTG
1 AAATCCAAAATCCTTG
*
13667248 AAGTCCAAA
1 AAATCCAAA
13667257 GTCCGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 23 0.66
17 12 0.34
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.19
Consensus pattern (16 bp):
AAATCCAAAATCCTTG
Found at i:13667578 original size:141 final size:142
Alignment explanation
Indices: 13667385--13667667 Score: 532
Period size: 141 Copynumber: 2.0 Consensus size: 142
13667375 TCATAATTCA
* *
13667385 TATTAATAATAAGATTAATAAATAAAAAAGTATAATAAAATTGGGATTTTAAATATAAACAGTCG
1 TATTAAAAATAAGATTAATAAATAAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
*
13667450 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGATCTCATTATATTTAAGAATCCAACTCT
13667515 TAAATTGCATTT
131 TAAATTGCATTT
13667527 TATTAAAAATAAGATTAATAAAT-AAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
1 TATTAAAAATAAGATTAATAAATAAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
13667591 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGATCTCATTATATTTAAGAATCCAACTCT
66 CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGATCTCATTATATTTAAGAATCCAACTCT
13667656 TAAATTGCATTT
131 TAAATTGCATTT
13667668 CATTTTACAT
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
141 116 0.84
142 22 0.16
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (142 bp):
TATTAAAAATAAGATTAATAAATAAAAAAGTATAATAAAATTGGGATCTTAAATATAAACAGTCG
CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGATCTCATTATATTTAAGAATCCAACTCT
TAAATTGCATTT
Found at i:13669827 original size:2 final size:2
Alignment explanation
Indices: 13669780--13669808 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13669770 ATTTTAACTA
13669780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13669809 GTACATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13670556 original size:59 final size:59
Alignment explanation
Indices: 13670472--13670583 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
13670462 TATACATCAA
13670472 TTTTTTTATTTTGTCAAAAACTTTTTTTCAA-AGTATATTATATTACTATTACAATTTGG
1 TTTTTTTATTTTGTCAAAAACTTTTTTTCAAGA-TATATTATATTACTATTACAATTTGG
* ** * * *
13670531 TTTTTTTTTTTTGTTTATAACTTTTTTTCAAGATATATTTTATTATTATTACA
1 TTTTTTTATTTTGTCAAAAACTTTTTTTCAAGATATATTATATTACTATTACA
13670584 GTTTCATTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 45 0.98
60 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (59 bp):
TTTTTTTATTTTGTCAAAAACTTTTTTTCAAGATATATTATATTACTATTACAATTTGG
Found at i:13671727 original size:32 final size:32
Alignment explanation
Indices: 13671690--13671754 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
13671680 CGTGTCCTTA
* * *
13671690 GGATTTTTAGGACTTTGGATTTCATGGATTTT
1 GGATTTTGAGGACTTTGGATTTAAGGGATTTT
* *
13671722 GGATTTTGGGGAGTTTGGATTTAAGGGATTTT
1 GGATTTTGAGGACTTTGGATTTAAGGGATTTT
13671754 G
1 G
13671755 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.46
Consensus pattern (32 bp):
GGATTTTGAGGACTTTGGATTTAAGGGATTTT
Found at i:13671749 original size:16 final size:16
Alignment explanation
Indices: 13671703--13671754 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
13671693 TTTTTAGGAC
* *
13671703 TTTGGATTTCATGGAT
1 TTTGGATTTAAGGGAT
** *
13671719 TTTGGATTTTGGGGAG
1 TTTGGATTTAAGGGAT
13671735 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAT
13671751 TTTG
1 TTTG
13671755 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (16 bp):
TTTGGATTTAAGGGAT
Found at i:13673259 original size:31 final size:32
Alignment explanation
Indices: 13673195--13673259 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
13673185 CCTTAATTTT
* *
13673195 TTTTTTTATCTTTTGTTTTTTTTTGTTTGGTA
1 TTTTTTTATCTTTTGTTTTTTTGTATTTGGTA
*
13673227 TTTTTTTAT-TTTT-TTTGTTTTGTATTTTGTA
1 TTTTTTTATCTTTTGTTT-TTTTGTATTTGGTA
13673258 TT
1 TT
13673260 ACTTTTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 3 0.10
31 17 0.59
32 9 0.31
ACGTcount: A:0.08, C:0.02, G:0.11, T:0.80
Consensus pattern (32 bp):
TTTTTTTATCTTTTGTTTTTTTGTATTTGGTA
Found at i:13673265 original size:24 final size:24
Alignment explanation
Indices: 13673205--13673265 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
13673195 TTTTTTTATC
*
13673205 TTTTGT-TTTTTTTTGTTTGGTAT
1 TTTTGTATTCTTTTTGTTTGGTAT
* * *
13673228 TTTTTTATTTTTTTTGTTTTGTA-
1 TTTTGTATTCTTTTTGTTTGGTAT
13673251 TTTTGTATTACTTTT
1 TTTTGTATT-CTTTT
13673266 GTATTTCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.08, C:0.02, G:0.11, T:0.79
Consensus pattern (24 bp):
TTTTGTATTCTTTTTGTTTGGTAT
Found at i:13673614 original size:73 final size:72
Alignment explanation
Indices: 13673506--13676799 Score: 2883
Period size: 73 Copynumber: 46.2 Consensus size: 72
13673496 GAATAATAAA
* * * * ** * *
13673506 GAAAGTGATCGGGATGACACCGCAAGTCAAGGATTAAAGATGACAAGGACTGAATCGCGAGTCGA
1 GAAA-TGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-A
*
13673571 AGAGTTAAT
64 AGAATTAAT
* * * * *
13673580 GAAATTACCGGGATTAAACCACGAGTCAAAGATT-AAGAATGACTGGGACTGAACTGTAAGTCAG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAG-ATGACTGGGACTGAACCGCAAGTCA-
13673644 AGAA-T-A-
64 AGAATTAAT
* * * ** * *
13673650 -AAATGACCAGTATTAAACCATGAGTCAAAGGA-TAAAGATGACTAGGACTGAACTGCAAGTC-A
1 GAAATGATCGGGATTAAACCGCGAGTCAAA-GATTAAAGATGACTGGGACTGAACCGCAAGTCAA
*
13673712 -AA-GAAT
65 GAATTAAT
* *
13673718 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGACTAAACCGCAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13673783 GAATTAAT
65 GAATTAAT
* * *
13673791 GAAATGATCGGGATTAAACCGCGAGTC-AAGAATTAAAAATGATTGGGACTGAACCGTAAGTCAA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAG-ATTAAAGATGACTGGGACTGAACCGCAAGTC-A
13673855 AGAATTAAT
64 AGAATTAAT
* * * *
13673864 GAAATGATCGGGTTTAAATCGCGAGTCAAAGATTAAA-ATGACTGGAACTGAACCACAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
*
13673928 GAATAAAAT
65 GAAT-TAAT
* * *
13673937 GAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGTAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13674002 GAA-T-A-
65 GAATTAAT
* * ** * * *
13674007 -AAATGACCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTAGGACTGAACCGCAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
*
13674071 GAATAAAAT
65 GAAT-TAAT
* * *
13674080 GAAATGA-CTGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGTAAGTCAG
1 GAAATGATC-GGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-
13674144 AGAA-T-A-
64 AGAATTAAT
* ** * *
13674150 -AAATGA-CTAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAG
1 GAAATGATC-GGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-
13674213 AGAA-T--T
64 AGAATTAAT
** * * * *
13674219 --AATGATCGGGATTAAACCATGAGTCAAGGATTAAAAATGATTGGGACTGAACCGTAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13674282 GAA-T--T
65 GAATTAAT
* * * *
13674287 --AATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGTAAGTC-AG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
13674349 AA--AAT
66 AATTAAT
*
13674354 GAAATGATCAGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCGAA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-AA
13674419 GAATTAAT
65 GAATTAAT
* * * * * *
13674427 GAAATGATCGGGATTAAACCGCGAGTCAAGGATTAAATATGACTGGGAATAAATCGTAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13674492 GAA-T-A-
65 GAATTAAT
* * * * * *
13674497 -AAATGACCAGGATTAAACCAG-AAGTCAAGGATTAGAGATGACTGGGACTGAATCGCAAGTCAG
1 GAAATGATCGGGATTAAACC-GCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-
13674560 AGAA-T--T
64 AGAATTAAT
* * * ** *
13674566 --AATGATCGGGATTAAACCGTGAGTCAAGGATTAAAAATGACTACGATTGAACCGCAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
* *
13674629 TAATAAAAT
65 GAAT-TAAT
* * *
13674638 AAAATGA-CTGGGATTAAATCGCGAGTC-AAGAATTAAAGATGACTGGGACTGAACCACAAGTCA
1 GAAATGATC-GGGATTAAACCGCGAGTCAAAG-ATTAAAGATGACTGGGACTGAACCGCAAGTCA
13674701 GAGAA-T-A-
64 -AGAATTAAT
* * ** * * *
13674708 -AAATGACCAGGATTAAACCATGAGTCAAGGATTAAAAATGACTGGGACTGAACCGCAAGTTAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13674772 GAA-T--T
65 GAATTAAT
* * * * *
13674777 --AATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACTGCAAGTCAA-
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
13674839 AA--AAT
66 AATTAAT
*
13674844 GAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCGAA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-AA
13674909 GAATTAAT
65 GAATTAAT
* * * * * * *
13674917 GAAATGACCGGGATTAAATCGCGAGTCAAGGATTAAAGATGACTGGGAATAAATCGTAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13674982 GAA-T-A-
65 GAATTAAT
** * * *
13674987 -AAATGATCAAGATTAAACCAG-GAGTCAAGGATTAGAGATGACTGGGACTGAATCGCAAGTCAG
1 GAAATGATCGGGATTAAACC-GCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-
13675050 AGAA-T--T
64 AGAATTAAT
* * * *
13675056 --AATGATCGGGATTAAACCGCGAGTCAAGGATTAAAAATGACTGCGATTGAACCGCAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
*
13675119 GAATGAAAT
65 GAAT-TAAT
*
13675128 GAAATGATCGGGATTAAACCGCGAGTC-AAGAATTAAAGATGACTGGGATTGAACCGCAAGTCAG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAG-ATTAAAGATGACTGGGACTGAACCGCAAGTCA-
13675192 AGAA-T-A-
64 AGAATTAAT
* * ** * *
13675198 -AAATGACCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13675262 GAA-T--T
65 GAATTAAT
* * * *
13675267 --AATGATCGAGATTAAACCGCGAGTCAAGGATTAAAAATGACTGGGACTGAACCGCAAGTTAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13675330 GAA-T-A-
65 GAATTAAT
* * * *
13675335 -AAATGATCGAGATTAATCCGTGAGTCAAAGCTTAAAGATGACTGGGACTGAACCGCAAGTC-AG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13675398 -A-GAAT
66 AATTAAT
* * * * * *
13675403 GAAATGACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGAGATTGAACCGCATGTCAAA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-AA
*
13675468 GAAATAAT
65 GAATTAAT
* * *
13675476 GAAATGA-CTGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGCAAGTCAG
1 GAAATGATC-GGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-
*
13675540 AGAATGAAAT
64 AGAAT-TAAT
* * * * **
13675550 GAAATGACCGGAATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATTGCAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
*
13675615 GAATGAAAT
65 GAAT-TAAT
* * * * * *
13675624 GAAATGACCGGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGA-TTAA---AAATGAT-T
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAA-G-TCA
* *
13675684 GGGATTGAAT
64 AGAATT-AAT
* * * * *
13675694 CGCAA-G-TCAGAGAAATAATGAAATGACCGGGATTAAATCACGAGTTAAAGATTAAAGA-TGAT
1 -GAAATGATC-G-G-GAT--T--AA--ACCGCGAGTCAA--A-GA-TTAAAGA-T---GACTG--
* * *
13675756 TGAGATTGAACAGCAAGTCAGAGAAATAAT
46 -G-GACTGAACCGCAAGTCA-AGAATTAAT
* * * * * **
13675786 GAAATGATCGGGATTAAACCACAAGTCAAAGATTAAAGATGATTGGGATTGAACCACAAGTCGGG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
13675851 TAATTAAT
66 -AATTAAT
* * * * *
13675859 GAAATGATTGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTAGGATTGAACCACAAGTCAAG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13675924 ----CAT
66 AATTAAT
* * * * * * *
13675927 GAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGATTGGAATTGAATCGGAAGTC-AG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13675991 -A-GAAT
66 AATTAAT
* * * * * *
13675996 GAAATGATCGGGATTAAACCACGAGTCGAAGATTAAAGATCACTGGGATTGAACCGTAAGTCAAT
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13676061 AAATAAT
66 AATTAAT
* * * * *
13676068 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGATTGAGATTGAACAGCAAGTTAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
*
13676133 GAAATAAT
65 GAATTAAT
* * * * **
13676141 GAAATGA-CGGGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTGAACCACAAGTCGG
1 GAAATGATC-GGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAA
13676205 GTAATTAAT
65 G-AATTAAT
* * * * *
13676214 GAAATGATTGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGATTGAATCACAAGTCAAG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13676279 ----CAT
66 AATTAAT
* * * * *
13676282 GAAATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTC-AG
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13676346 -A-GAAT
66 AATTAAT
* * * * * * *
13676351 GAAATGATCGGGATTAAACCACGAGTCGAAGATTAAAGATCACTGGGATTGAATCGTAAGTCAAT
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
*
13676416 AAATAAT
66 AATTAAT
*
13676423 GAAATGATCGGGATTAAACCGCGAGTCAAAGGA-TAAAGATGACTGGGATTGAACCGCAAGTCAG
1 GAAATGATCGGGATTAAACCGCGAGTCAAA-GATTAAAGATGACTGGGACTGAACCGCAAGTCA-
13676487 AGAATTAAT
64 AGAATTAAT
* **
13676496 GAAATGATCGGGATTAAATCGCGAGTCAAAGGA-TAAAGATGACTGGGACTGAACCATAAGTCAA
1 GAAATGATCGGGATTAAACCGCGAGTCAAA-GATTAAAGATGACTGGGACTGAACCGCAAGTC-A
13676560 AGAATTAAT
64 AGAATTAAT
* * *
13676569 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAATATGATTGGGACTGAACCACAAGTCAGA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCA-A
13676634 GAATTAAT
65 GAATTAAT
* * *
13676642 GAAATGATTGGGATTAAACCGCGAGTCAAAGATTAAATATGACTGGGATTGAACCGCAAGTCGAA
1 GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-AA
13676707 GAATTAAT
65 GAATTAAT
* * * * *
13676715 GTAATGA-CTGGGATTAAACTGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGTTAA
1 GAAATGATC-GGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAA
13676779 -AATT-AT
65 GAATTAAT
*
13676785 AGAATTGATCGGGAT
1 -GAAATGATCGGGAT
13676800 AATATCGCGA
Statistics
Matches: 2739, Mismatches: 340, Indels: 285
0.81 0.10 0.08
Matches are distributed among these distances:
66 9 0.00
67 14 0.01
68 454 0.17
69 784 0.29
70 28 0.01
71 38 0.01
72 173 0.06
73 834 0.30
74 328 0.12
75 1 0.00
76 4 0.00
77 2 0.00
78 8 0.00
79 1 0.00
80 8 0.00
81 4 0.00
82 8 0.00
83 1 0.00
84 7 0.00
85 2 0.00
86 4 0.00
88 2 0.00
89 2 0.00
90 5 0.00
91 5 0.00
92 6 0.00
93 7 0.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (72 bp):
GAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAAG
AATTAAT
Found at i:13673691 original size:69 final size:69
Alignment explanation
Indices: 13673515--13676775 Score: 2726
Period size: 69 Copynumber: 45.8 Consensus size: 69
13673505 AGAAAGTGAT
* * * ** * *
13673515 CGGGATGACACCGCAAGTCAAGGATTAAAGATGACAAGGACTGAATCGCGAGTCGAAGAGTTAAT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC--AGAG--AAT
* *
13673580 GAAATTAC
62 AAAATGAC
* * * *
13673588 CGGGATTAAACCACGAGTCAAAGATT-AAGAATGACTGGGACTGAACTGTAAGTCAGAGAATAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAG-ATGACTGGGACTGAACCGCAAGTCAGAGAATAAA
13673652 ATGAC
65 ATGAC
* * ** * * * *
13673657 CAGTATTAAACCATGAGTCAAAGGA-TAAAGATGACTAGGACTGAACTGCAAGTCAAAGAATGAA
1 CGGGATTAAACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAA
*
13673721 ATGAT
65 ATGAC
* * *
13673726 CGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGACTAAACCGCAAGTCAGAGAATTAAT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAA-T-A-
*
13673791 GAAATGAT
63 -AAATGAC
* * * * *
13673799 CGGGATTAAACCGCGAGTCAAGAATTAAAAATGATTGGGACTGAACCGTAAGTCAAAGAATTAAT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAA-T-A-
*
13673864 GAAATGAT
63 -AAATGAC
* * * * *
13673872 CGGGTTTAAATCGCGAGTCAAAGATTAAA-ATGACTGGAACTGAACCACAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---A
13673936 TGAAATGAC
63 --AAATGAC
*
13673945 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGTAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13674010 TGAC
66 TGAC
* ** * *
13674014 CAGGATTAAACCATGAGTCAAGGATTAGAGATGACTAGGACTGAACCGCAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---A
13674079 TGAAATGAC
63 --AAATGAC
* * *
13674088 TGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGTAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13674153 TGAC
66 TGAC
** ** * *
13674157 TAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAGAAT-TAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13674221 TGAT
66 TGAC
** * * * *
13674225 CGGGATTAAACCATGAGTCAAGGATTAAAAATGATTGGGACTGAACCGTAAGTCAGAGAAT-TAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13674289 TGAT
66 TGAC
* * * * *
13674293 CGGGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGTAAGTCAGAAAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13674358 TGAT
66 TGAC
* *
13674362 CAGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-GAAGAATTAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAG-AGAA-T-A
*
13674426 TGAAATGAT
63 --AAATGAC
* * * * *
13674435 CGGGATTAAACCGCGAGTCAAGGATTAAATATGACTGGGAATAAATCGTAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13674500 TGAC
66 TGAC
* * * * *
13674504 CAGGATTAAACCAG-AAGTCAAGGATTAGAGATGACTGGGACTGAATCGCAAGTCAGAGAAT-TA
1 CGGGATTAAACC-GCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAA
*
13674567 ATGAT
65 ATGAC
* * ** * *
13674572 CGGGATTAAACCGTGAGTCAAGGATTAAAAATGACTACGATTGAACCGCAAGTCAGATAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAG-----AGAA
13674637 TAAAATGAC
61 TAAAATGAC
* * * *
13674646 TGGGATTAAATCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCACAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13674711 TGAC
66 TGAC
* ** * * *
13674715 CAGGATTAAACCATGAGTCAAGGATTAAAAATGACTGGGACTGAACCGCAAGTTAGAGAAT-TAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13674779 TGAT
66 TGAC
* * * * * * *
13674783 CGAGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACTGCAAGTCAAAAAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13674848 TGAC
66 TGAC
*
13674852 CGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-GAAGAATTAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAG-AGAA-T-A
13674916 TGAAATGAC
63 --AAATGAC
* * * * *
13674925 CGGGATTAAATCGCGAGTCAAGGATTAAAGATGACTGGGAATAAATCGTAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13674990 TGAT
66 TGAC
** * * *
13674994 CAAGATTAAACCAG-GAGTCAAGGATTAGAGATGACTGGGACTGAATCGCAAGTCAGAGAAT-TA
1 CGGGATTAAACC-GCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAA
*
13675057 ATGAT
65 ATGAC
* * *
13675062 CGGGATTAAACCGCGAGTCAAGGATTAAAAATGACTGCGATTGAACCGCAAGTCAGAGAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---A
*
13675127 TGAAATGAT
63 --AAATGAC
* *
13675136 CGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13675201 TGAC
66 TGAC
* ** * *
13675205 CAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAGAAT-TAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13675269 TGAT
66 TGAC
* * *
13675273 CGAGATTAAACCGCGAGTCAAGGATTAAAAATGACTGGGACTGAACCGCAAGTTAGAGAATAAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13675338 TGAT
66 TGAC
* * * * * *
13675342 CGAGATTAATCCGTGAGTCAAAGCTTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
13675407 TGAC
66 TGAC
* * * * * * *
13675411 CGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGAGATTGAACCGCATGTCAAAGAAATAAT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG-AAT-A-
13675476 GAAATGAC
63 -AAATGAC
* * * * *
13675484 TGGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGCAAGTCAGAGAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---A
13675549 TGAAATGAC
63 --AAATGAC
* * * * **
13675558 CGGAATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATTGCAAGTCAGAGAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---A
13675623 TGAAATGAC
63 --AAATGAC
* * * * * ** * **
13675632 CGGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTAAAAATG--ATTGGGATTGAATC
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACT-GAACCGCAAGTCAGA--GAAT-
** *
13675695 GCAA-GTC
62 AAAATGAC
* * * * * * *
13675702 AGAGAAATAATGAAATGACCGGGATTAAATCACGAGTTAAAGATTAAAGA-TGATTGAGATTGAA
1 CG-G-GAT--T--AA--ACCGCGAGT-CA--AGGA-TTAAAGA-T---GACTG---G-GACTGAA
* *
13675766 CAGCAAGTCAGAGAAATAATGAAATGAT
46 CCGCAAGTCAGAG-AAT-A--AAATGAC
* * * * * * *
13675794 CGGGATTAAACCACAAGTCAAAGATTAAAGATGATTGGGATTGAACCACAAGTC-GGGTAATTAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG-AA-T-A
*
13675858 TGAAATGAT
63 --AAATGAC
* * * * * * * *
13675867 TGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTAGGATTGAACCACAAGTCA-AGCATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13675931 TGAT
66 TGAC
* * * * * * * * *
13675935 CGAGATTAAACCACGAGTCAAAGATTAAAGATGATTGGAATTGAATCGGAAGTCAGAGAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13676000 TGAT
66 TGAC
* * * * *
13676004 CGGGATTAAACCACGAGTCGAA-GATTAAAGATCACTGGGATTGAACCGTAAGTCA-ATAAATAA
1 CGGGATTAAACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGA-GAAT-A
*
13676067 TGAAATGAT
63 --AAATGAC
* * * * * *
13676076 CGGGATTAAACCGCGAGTCAAAGATTAAAGATGATTGAGATTGAACAGCAAGTTAGAGAAATAAT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG-AAT-A-
13676141 GAAATGAC
63 -AAATGAC
* * * * * * *
13676149 GGGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTGAACCACAAGTC-GGGTAATTAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG-AA-T-A
*
13676213 TGAAATGAT
63 --AAATGAC
* * * * * * * *
13676222 TGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGATTGAATCACAAGTCA-AGCATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13676286 TGAT
66 TGAC
* * * * * * *
13676290 CGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTCAGAGAATGAAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
*
13676355 TGAT
66 TGAC
* * * * * *
13676359 CGGGATTAAACCACGAGTCGAA-GATTAAAGATCACTGGGATTGAATCGTAAGTCA-ATAAATAA
1 CGGGATTAAACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGA-GAAT-A
*
13676422 TGAAATGAT
63 --AAATGAC
*
13676431 CGGGATTAAACCGCGAGTCAAAGGA-TAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAA
1 CGGGATTAAACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAA-T-A
*
13676495 TGAAATGAT
63 --AAATGAC
* ** *
13676504 CGGGATTAAATCGCGAGTCAAAGGA-TAAAGATGACTGGGACTGAACCATAAGTCAAAGAATTAA
1 CGGGATTAAACCGCGAGTC-AAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAA-T-A
*
13676568 TGAAATGAT
63 --AAATGAC
* * * *
13676577 CGGGATTAAACCGCGAGTCAAAGATTAAATATGATTGGGACTGAACCACAAGTCAGAGAATTAAT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAA-T-A-
*
13676642 GAAATGAT
63 -AAATGAC
* * * *
13676650 TGGGATTAAACCGCGAGTCAAAGATTAAATATGACTGGGATTGAACCGCAAGTC-GAAGAATTAA
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAG-AGAA-TAA
13676714 TGTAATGAC
64 ---AATGAC
* * *
13676723 TGGGATTAAACTGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAGT
1 CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGT
13676776 TAAAATTATA
Statistics
Matches: 2707, Mismatches: 371, Indels: 220
0.82 0.11 0.07
Matches are distributed among these distances:
67 2 0.00
68 463 0.17
69 827 0.31
70 23 0.01
71 17 0.01
72 160 0.06
73 806 0.30
74 330 0.12
75 8 0.00
76 4 0.00
77 2 0.00
78 6 0.00
79 2 0.00
80 7 0.00
81 6 0.00
82 7 0.00
83 2 0.00
84 5 0.00
85 2 0.00
86 4 0.00
88 6 0.00
89 7 0.00
90 6 0.00
91 3 0.00
92 2 0.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (69 bp):
CGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAAAA
TGAC
Found at i:13673711 original size:35 final size:35
Alignment explanation
Indices: 13673603--13673714 Score: 88
Period size: 35 Copynumber: 3.2 Consensus size: 35
13673593 TTAAACCACG
* * *
13673603 AGTCAAA-GATTAAGAATGACTGGGACTGAACTGTA
1 AGTCAAAGGATAAAG-ATGACTAGGACTGAACTGCA
* * * * * *
13673638 AGTCAGAGAATAAA-ATGACCAGTATTAAAC--CA
1 AGTCAAAGGATAAAGATGACTAGGACTGAACTGCA
13673670 TGAGTCAAAGGATAAAGATGACTAGGACTGAACTGCA
1 --AGTCAAAGGATAAAGATGACTAGGACTGAACTGCA
13673707 AGTCAAAG
1 AGTCAAAG
13673715 AATGAAATGA
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
32 1 0.02
34 23 0.41
35 26 0.46
36 4 0.07
37 2 0.04
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (35 bp):
AGTCAAAGGATAAAGATGACTAGGACTGAACTGCA
Found at i:13674312 original size:33 final size:32
Alignment explanation
Indices: 13674207--13674320 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 32
13674197 CTGAACCGCA
13674207 AGTCAGAGAATTAATGATCGGGATTAAACCATG
1 AGTCA-AGAATTAATGATCGGGATTAAACCATG
* * * * * *
13674240 AGTCAAGGATTAAAAATGATTGGGACTGAACCGTA
1 AGTCAAGAATT---AATGATCGGGATTAAACCATG
*
13674275 AGTCAGAGAATTAATGATCGGGATTAAACCACG
1 AGTCA-AGAATTAATGATCGGGATTAAACCATG
*
13674308 AGTCAAGGATTAA
1 AGTCAAGAATTAA
13674321 AGATGACTAG
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
32 12 0.19
33 25 0.40
35 21 0.33
36 5 0.08
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (32 bp):
AGTCAAGAATTAATGATCGGGATTAAACCATG
Found at i:13674504 original size:490 final size:490
Alignment explanation
Indices: 13673530--13676775 Score: 3368
Period size: 490 Copynumber: 6.5 Consensus size: 490
13673520 TGACACCGCA
** * * * *
13673530 AGTCAAGGATTAAAGATGACAAGGACTGAATCGCGAGTC-GAAGAGTTAATGAAATTACCGGGAT
1 AGTCAAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAG-AGAATTAATGAAATGACTGGGAT
* * * * *
13673594 TAAACCACGAGTCAAAGATT-AAGAATGACTGGGACTGAACTGTAAGTCAGAGAATAAAATGACC
65 TAAACCGCGAGTCAAAGATTAAAG-ATGACTGGGATTGAACCGCAAGTCAGAGAATAAAATGACT
* * * * * * *
13673658 AGTATTAAACCATGAGTCAAAGGA-TAAAGATGACTAGGACTGAACTGCAAGTCAAAGAATGA-A
129 GGGATTAAACCACGAGTC-AAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAT-ATA
* * * *
13673721 ATGATCGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGACTAAACCGCAAGTCAGAGAA
192 ATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAA
* * * * * *
13673786 TTAATGAAATGATCGGGATTAAACCGCGAGTCAAGAATTAAAAATGATTGGGACTGAACCGTAAG
257 -T-AT--AATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAG
* * *
13673851 TCAAAGAATTAATGAAATGATCGGGTTTAAATCGCGAGTCAAAGATTAAA-ATGACTGGAACTGA
318 TC--AGAA--AATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGA
* *
13673915 ACCACAAGTCAGAGAATAAAATGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGAC
379 ACCGCAAGTCA-AGAAT-TAATGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGAC
* *
13673980 TGGGACTGAACCGTAAGTCAGAGAATAAAATGACCAGGATTAAACCATG
442 TGGGAATGAACCGTAAGTCAGAGAATAAAATGACCAGGATTAAACCACG
* * * *
13674029 AGTCAAGGATTAGAGATGACTAGGACTGAACCGCAAGTCAGAGAATAAAATGAAATGACTGGGAT
1 AGTCAAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAAT-TAATGAAATGACTGGGAT
* * * * *
13674094 TAAACCGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGTAAGTCAGAGAATAAAATGACTA
65 TAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATAAAATGACTG
* * *
13674159 GGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAGAAT-TAATG
130 GGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATATAATG
* * * *
13674223 ATCGGGATTAAACCATGAGTCAAGGATTAAAAATGATTGGGACTGAACCGTAAGTCAGAGAAT-T
195 ATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATAT
* * *
13674287 AATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACCGTAAGTCAGAAA
260 AATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAAA
*
13674352 ATGAAATGATCAGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCG
325 ATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTC-
* * * *
13674417 AAGAATTAATGAAATGATCGGGATTAAACCGCGAGTCAAGGATTAAATATGACTGGGAATAAATC
389 AAGAATTAATGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGAATGAACC
13674482 GTAAGTCAGAGAATAAAATGACCAGGATTAAACCA-G
454 GTAAGTCAGAGAATAAAATGACCAGGATTAAACCACG
*
13674518 AAGTCAAGGATTAGAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATG--AT--C-GGGAT
1 -AGTCAAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATGAAATGACTGGGAT
* * * ** *
13674578 TAAACCGTGAGTCAAGGATTAAAAATGACTACGATTGAACCGCAAGTCAGATAATAAAATAAAAT
65 TAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAG-----AGAATAAAAT
* * * * *
13674643 GACTGGGATTAAATCGCGAGTCAAGAATTAAAGATGACTGGGACTGAACCACAAGTCAGAGAATA
125 GACTGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATA
* * * * * *
13674708 AAATGACCAGGATTAAACCATGAGTCAAGGATTAAAAATGACTGGGACTGAACCGCAAGTTAGAG
190 TAATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* *
13674773 AAT-TAATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTAGGACTGAACTGCAAGTC
255 AATATAATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC
* *
13674837 AAAAAATGAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCA
320 AGAAAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCA
*
13674902 AGTCGAAGAATTAATGAAATGACCGGGATTAAATCGCGAGTCAAGGATTAAAGATGACTGGGAAT
385 AGTC-AAGAATTAATGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGAAT
* * * * *
13674967 AAATCGTAAGTCAGAGAATAAAATGATCAAGATTAAACCAGG
449 GAACCGTAAGTCAGAGAATAAAATGACCAGGATTAAACCACG
*
13675009 AGTCAAGGATTAGAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATG--AT--C-GGGATT
1 AGTCAAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATGAAATGACTGGGATT
* * *
13675069 AAACCGCGAGTCAAGGATTAAAAATGACTGCGATTGAACCGCAAGTCAGAGAATGAAATGAAATG
66 AAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAT---A--AAATG
* *
13675134 A-TCGGGATTAAACCGCGAGTCAAGAATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATA
126 ACT-GGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATA
* * * * *
13675198 AAATGACCAGGATTAAACCATGAGTCAAGGATTAGAGATGACTGGGACTGAACCGCAAGTCAGAG
190 TAATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAG
* * *
13675263 AAT-TAATGATCGAGATTAAACCGCGAGTCAAGGATTAAAAATGACTGGGACTGAACCGCAAGTT
255 AATATAATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTC
* * * * * *
13675327 AGAGAATAAAATGATCGAGATTAATCCGTGAGTCAAAGCTTAAAGATGACTGGGACTGAACCGCA
320 AGAAAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCA
* * * * * *
13675392 AGTC-AG-A-GAATGAAATGACCGGGATTAAACCGTGAGTCAAAGATTAAAGATGATTGAGATTG
385 AGTCAAGAATTAATGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGAATG
* * * **
13675454 AACCGCATGTCAAAGAAATAATGAAATGACTGGGATTAAACCACG
450 AACCGTAAGTCAGAG-AAT-A--AAATGACCAGGATTAAACCACG
* * * * *
13675499 AGTCAAAGATTAAAGATGACTGGGATTGAATCGCAAGTCAGAGAATGAAATGAAATGACCGGAAT
1 AGTCAAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAAT-TAATGAAATGACTGGGAT
* **
13675564 TAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATTGCAAGTCAGAGAATGAAATGAAAT
65 TAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAAT---A--AAAT
* * * *
13675629 GACCGGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTAAAAATGATTGGGATTGAAT
125 GACTGGGATTAAACCACGAGTC-----------A--A---GGATTAAAGATGACTGGGATTGAAC
* * * * * *
13675694 CGCAAGTCAGAGAAATAATGAAATGACCGGGATTAAATCACGAGTTAAAGATTAAAGATGATTGA
174 CGCAAGTCAGAG-AAT-AT--AATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGG
* * * * *
13675759 GATTGAACAGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCACAAGTCAAAGATTAAAG
235 GACTGAACCGCAAGTCAGAG-AAT-AT--AATGATCGAGATTAAACCACGAGTCAAGGATTAAAG
* * * * *
13675824 ATGATTGGGATTGAACCACAAGTCGGGTAATTAATGAAATGATTGGGATTAAACCGCGAGTCAAA
296 ATGACTGGGACTGAACCGCAAGTC-AG-AA--AATGAAATGATCGGGATTAAACCGCGAGTCAAA
* * * * * * * *
13675889 GATTAGAGATGACTAGGATTGAACCACAAGTCAAG----CATGAAATGATCGAGATTAAACCACG
357 GATTAAAGATGACTGGGACTGAACCGCAAGTCAAGAATTAATGAAATGACCGGGATTAAACCGCG
* * * * * * *
13675950 AGTCAAAGATTAAAGATGA-TTGGAATTGAATCGGAAGTCAGAGAATGAAATGATCGGGATTAAA
422 AGTCAAGGATTAAAGATGACTGGGAA-TGAACCGTAAGTCAGAGAATAAAATGACCAGGATTAAA
13676014 CCACG
486 CCACG
* * * * * *
13676019 AGTCGAA-GATTAAAGATCACTGGGATTGAACCGTAAGTCA-ATAAATAATGAAATGA-TCGGGA
1 AGTC-AAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATGAAATGACT-GGGA
* * * *
13676081 TTAAACCGCGAGTCAAAGATTAAAGATGATTGAGATTGAACAGCAAGTTAGAGAAATAATGAAAT
64 TTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAG-AAT-A--AAAT
* * * * *
13676146 GACGGGGATTAAACCACGAGTCAAAGATTAAAGATGATTGGGATTGAACCACAAGTC-GGGTAAT
125 GACTGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAG-AA-
* * * * * * *
13676210 TAATGAAATGATTGGGATTAAACCGCGAGTCAAAGATTAGAGATGACTGGGATTGAATCACAAGT
188 T-AT--AATGATCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGT
* * * *
13676275 CA-AGCATGA-AATGATCGAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCG
250 CAGAGAAT-ATAATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCG
* * * * * *
13676338 AAAGTCAGAGAATGAAATGATCGGGATTAAACCACGAGTCGAAGATTAAAGATCACTGGGATTGA
314 CAAGTCAGAAAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGA
* * * * *
13676403 ATCGTAAGTCAATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGGA-TAAAGATGACT
379 ACCGCAAGTCAAGAATTAATGAAATGACCGGGATTAAACCGCGAGTC-AAGGATTAAAGATGACT
* * * * * *
13676467 GGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAATCGCG
443 GGGAATGAACCGTAAGTCAGAGAA-T-A--AAATGACCAGGATTAAACCACG
* ** *
13676519 AGTCAAAGGA-TAAAGATGACTGGGACTGAACCATAAGTCAAAGAATTAATGAAATGA-TCGGGA
1 AGTC-AAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATGAAATGACT-GGGA
* * * *
13676582 TTAAACCGCGAGTCAAAGATTAAATATGATTGGGACTGAACCACAAGTCAGAGAATTAATGAAAT
64 TTAAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAA-T-A--AAAT
* * * *
13676647 GATTGGGATTAAACCGCGAGTCAAAGATTAAATATGACTGGGATTGAACCGCAAGTC-GAAGAAT
125 GACTGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAG-AGAAT
** *
13676711 -TAATGTAATGACTGGGATTAAACTGCGAGTCAAGGATTAAAGATGACTGGGACTAAACCGCAAG
189 ATAATG--AT--C-GGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAG
13676775 T
249 T
13676776 TAAAATTATA
Statistics
Matches: 2391, Mismatches: 270, Indels: 170
0.84 0.10 0.06
Matches are distributed among these distances:
484 48 0.02
485 5 0.00
486 58 0.02
487 6 0.00
488 4 0.00
489 72 0.03
490 864 0.36
491 32 0.01
492 63 0.03
493 2 0.00
494 56 0.02
495 2 0.00
496 194 0.08
497 9 0.00
498 4 0.00
499 105 0.04
500 182 0.08
501 265 0.11
502 1 0.00
504 1 0.00
506 1 0.00
507 1 0.00
509 1 0.00
512 33 0.01
513 3 0.00
514 1 0.00
516 54 0.02
517 32 0.01
518 60 0.03
519 7 0.00
520 54 0.02
521 53 0.02
522 1 0.00
523 7 0.00
524 53 0.02
525 55 0.02
526 2 0.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (490 bp):
AGTCAAGGATTAAAGATGACTGGGACTGAATCGCAAGTCAGAGAATTAATGAAATGACTGGGATT
AAACCGCGAGTCAAAGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATAAAATGACTGG
GATTAAACCACGAGTCAAGGATTAAAGATGACTGGGATTGAACCGCAAGTCAGAGAATATAATGA
TCGGGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAGAATATA
ATGATCGAGATTAAACCACGAGTCAAGGATTAAAGATGACTGGGACTGAACCGCAAGTCAGAAAA
TGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAAAGATGACTGGGACTGAACCGCAAGTCAA
GAATTAATGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAAGATGACTGGGAATGAACCGT
AAGTCAGAGAATAAAATGACCAGGATTAAACCACG
Found at i:13675148 original size:39 final size:36
Alignment explanation
Indices: 13673718--13676775 Score: 724
Period size: 35 Copynumber: 85.7 Consensus size: 36
13673708 GTCAAAGAAT
* *
13673718 GAAATGA-TCGGGATTAAACCGCGAGTCAA-AGAT-TA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGA-ATAAA
* * *
13673753 GAGATGACTGGGACTAAACCGCAAGTCAGAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAA-TAAA
* *
13673791 GAAATGA-TCGGGATTAAACCGCGAGTCAAGAATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGAATAAA
* * * * *
13673827 -AAATGATTGGGACTGAACCGTAAGTCAAAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAA-TAAA
* * * *
13673864 GAAATGA-TCGGGTTTAAATCGCGAGTCAA-AGAT-TA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGA-ATAAA
* * * *
13673899 -AAATGACTGGAACTGAACCACAAGTCAGAGAATAAAA
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAAT-AAA
* * *
13673936 TGAAATGACCGGGATTAAACCGCGAGTCAAGGATTAAA
1 -GAAATGACTGGGATTAAACCGCAAGTCAA-GAATAAA
* * *
13673974 G--ATGACTGGGACTGAACCGTAAGTCAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
** *** * *
13674007 -AAATGACCAGGATTAAACCATGAGTCAAGGAT-TA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * * *
13674041 GAGATGACTAGGACTGAACCGCAAGTCAGAGAATAAAA
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAAT-AAA
* *
13674079 TGAAATGACTGGGATTAAACCGCGAGTCAAGGATTAAA
1 -GAAATGACTGGGATTAAACCGCAAGTCAA-GAATAAA
* *
13674117 G--ATGACTGGGACTAAACCGTAAGTCAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* *** * *
13674150 -AAATGACTAGGATTAAACCATGAGTCAAGGAT-TA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * *
13674184 GAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* *** * *
13674218 -TAATGA-TCGGGATTAAACCATGAGTCAAGGATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGAATAAA
* * * *
13674253 -AAATGATTGGGACTGAACCGTAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * * *
13674286 -TAATGA-TCGGGATTAAACCACGAGTCAAGGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAA-GAATAAA
* * * * *
13674322 G--ATGACTAGGACTGAACCGTAAGTC-AGAA-AAT
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * *
13674354 GAAATGA-TCAGGATTAAACCGCGAGTCAAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * *
13674391 G--ATGACTGGGACTGAACCGCAAGTCGAAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAA-TAAA
* * *
13674427 GAAATGA-TCGGGATTAAACCGCGAGTCAAGGATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGAATAAA
* * * *
13674463 -ATATGACTGGGAATAAATCGTAAGTCAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
** * *
13674497 -AAATGACCAGGATTAAACCAG-AAGTCAAGGAT-TA
1 GAAATGACTGGGATTAAACC-GCAAGTCAAGAATAAA
* * * *
13674531 GAGATGACTGGGACTGAATCGCAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* ** * *
13674565 -TAATGA-TCGGGATTAAACCGTGAGTCAAGGATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGAATAAA
** * *
13674600 -AAATGACTACGATTGAACCGCAAGTCAGATAATAAAA
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAAT-AAA
* * *
13674637 TAAAATGACTGGGATTAAATCGCGAGTCAAGAATTAAA
1 -GAAATGACTGGGATTAAACCGCAAGTCAAGAA-TAAA
* * *
13674675 G--ATGACTGGGACTGAACCACAAGTCAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
** *** * *
13674708 -AAATGACCAGGATTAAACCATGAGTCAAGGATTAA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * *
13674743 -AAATGACTGGGACTGAACCGCAAGTTAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * * * *
13674776 -TAATGA-TCGAGATTAAACCACGAGTCAAGGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAA-GAATAAA
* * * * *
13674812 G--ATGACTAGGACTGAACTGCAAGTCAA-AA-AAT
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * *
13674844 GAAATGACCGGGATTAAACCGCGAGTCAAAGATTAAA
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAATAAA
* * *
13674881 G--ATGACTGGGACTGAACCGCAAGTCGAAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAA-TAAA
* * * *
13674917 GAAATGACCGGGATTAAATCGCGAGTCAAGGATTAAA
1 GAAATGACTGGGATTAAACCGCAAGTCAA-GAATAAA
* * *
13674954 G--ATGACTGGGAATAAATCGTAAGTCAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
** * * *
13674987 -AAATGA-TCAAGATTAAACCAG-GAGTCAAGGAT-TA
1 GAAATGACT-GGGATTAAACC-GCAAGTCAAGAATAAA
* * * *
13675021 GAGATGACTGGGACTGAATCGCAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * * *
13675055 -TAATGA-TCGGGATTAAACCGCGAGTCAAGGATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGAATAAA
* *
13675090 -AAATGACTGCGATTGAACCGCAAGTCAGAGAATGAAA
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAAT-AAA
*
13675127 TGAAATGA-TCGGGATTAAACCGCGAGTCAAGAATTAAA
1 -GAAATGACT-GGGATTAAACCGCAAGTCAAGAA-TAAA
*
13675165 G--ATGACTGGGATTGAACCGCAAGTCAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
** *** * *
13675198 -AAATGACCAGGATTAAACCATGAGTCAAGGAT-TA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * *
13675232 GAGATGACTGGGACTGAACCGCAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * * * *
13675266 -TAATGA-TCGAGATTAAACCGCGAGTCAAGGATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGAATAAA
* * *
13675301 -AAATGACTGGGACTGAACCGCAAGTTAGAGAAT--A
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * ** **
13675335 -AAATGA-TCGAGATTAATCCGTGAGTCAAAGCTTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* *
13675371 G--ATGACTGGGACTGAACCGCAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* ** *
13675403 GAAATGACCGGGATTAAACCGTGAGTCAAAGATTAAA
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAATAAA
* * * * *
13675440 G--ATGATTGAGATTGAACCGCATGTCAAAGAAATAAT
1 GAAATGACTGGGATTAAACCGCAAGTC-AAG-AATAAA
* * *
13675476 GAAATGACTGGGATTAAACCACGAGTCAAAGATTAAA
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAATAAA
* *
13675513 G--ATGACTGGGATTGAATCGCAAGTCAGAGAATGAAA
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAAT-AAA
* * * * *
13675549 TGAAATGACCGGAATTAAACCACGAGTCAAAGATTAAA
1 -GAAATGACTGGGATTAAACCGCAAGTC-AAGAATAAA
* **
13675587 G--ATGACTGGGATTGAATTGCAAGTCAGAGAATGAAA
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAAT-AAA
* * * *
13675623 TGAAATGACCGGGATTAAACCACGAGTCAAAGATTAAA
1 -GAAATGACTGGGATTAAACCGCAAGTC-AAGAATAAA
* ** * * *
13675661 G--ATGATTGGGATTAAAAATG-ATTGGGATTGAATCGCAAGTCAGA
1 GAAATGACTGGGATT-AAACCGCA-----AGTCAA--G-AA-T-AAA
* * * * * * * *
13675705 GAAAT-AAT-GAAAT-GACCGGGATTAAATCACGAGTTAAA
1 GAAATGACTGGGATTAAACC--G--CAAGTCAAGA-ATAAA
* * * * *
13675743 GATTAAAGATGATTGAGATTGAACAGCAAGTCAGAGAAATAAT
1 G----AA-ATGACTGGGATTAAACCGCAAGTCA-AG-AATAAA
* *
13675786 GAAATGA-TCGGGATTAAACCACAAGTCAAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * * ** *
13675823 G--ATGATTGGGATTGAACCACAAGTCGGGTAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTCAAG-AA-TAAA
* * *
13675859 GAAATGATTGGGATTAAACCGCGAGTCAA-AGAT-TA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGA-ATAAA
* * * * *
13675894 GAGATGACTAGGATTGAACCACAAGTCAAGCAT---
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * * *
13675927 GAAATGA-TCGAGATTAAACCACGAGTCAAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * * * *
13675964 G--ATGATTGGAATTGAATCGGAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * *
13675996 GAAATGA-TCGGGATTAAACCACGAGTCGAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * * * *
13676033 G--ATCACTGGGATTGAACCGTAAGTCAATAAATAAT
1 GAAATGACTGGGATTAAACCGCAAGTCAA-GAATAAA
* *
13676068 GAAATGA-TCGGGATTAAACCGCGAGTCAAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * * * * *
13676105 G--ATGATTGAGATTGAACAGCAAGTTAGAGAAATAAT
1 GAAATGACTGGGATTAAACCGCAAGTCA-AG-AATAAA
* * * *
13676141 GAAATGACGGGGATTAAACCACGAGTCAAAGATTAAA
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAATAAA
* * * ** *
13676178 G--ATGATTGGGATTGAACCACAAGTCGGGTAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTCAAG-AA-TAAA
* * *
13676214 GAAATGATTGGGATTAAACCGCGAGTCAA-AGAT-TA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGA-ATAAA
* * * * *
13676249 GAGATGACTGGGATTGAATCACAAGTCAAGCAT---
1 GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
* * * *
13676282 GAAATGA-TCGAGATTAAACCACGAGTCAAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * *
13676319 G--ATGACTGGGATTGAATCGAAAGTCAGAGAAT---
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAATAAA
* * *
13676351 GAAATGA-TCGGGATTAAACCACGAGTCGAAGATTAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * * * * *
13676388 G--ATCACTGGGATTGAATCGTAAGTCAATAAATAAT
1 GAAATGACTGGGATTAAACCGCAAGTCAA-GAATAAA
* *
13676423 GAAATGA-TCGGGATTAAACCGCGAGTCAAAGGATAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* *
13676460 G--ATGACTGGGATTGAACCGCAAGTCAGAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAA-TAAA
* * *
13676496 GAAATGA-TCGGGATTAAATCGCGAGTCAAAGGATAAA
1 GAAATGACT-GGGATTAAACCGCAAGTC-AAGAATAAA
* * ** *
13676533 G--ATGACTGGGACTGAACCATAAGTCAAAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAA-TAAA
* *
13676569 GAAATGA-TCGGGATTAAACCGCGAGTCAA-AGATTAA
1 GAAATGACT-GGGATTAAACCGCAAGTCAAGA-ATAAA
* * * * * *
13676605 -ATATGATTGGGACTGAACCACAAGTCAGAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTCA-AGAA-TAAA
* * *
13676642 GAAATGATTGGGATTAAACCGCGAGTCAA-AGATTAA
1 GAAATGACTGGGATTAAACCGCAAGTCAAGA-ATAAA
* * *
13676678 -ATATGACTGGGATTGAACCGCAAGTCGAAGAATTAAT
1 GAAATGACTGGGATTAAACCGCAAGTC-AAGAA-TAAA
* * * *
13676715 GTAATGACTGGGATTAAACTGCGAGTCAAGGATTAAA
1 GAAATGACTGGGATTAAACCGCAAGTCAA-GAATAAA
*
13676752 G--ATGACTGGGACTAAACCGCAAGT
1 GAAATGACTGGGATTAAACCGCAAGT
13676776 TAAAATTATA
Statistics
Matches: 2155, Mismatches: 593, Indels: 550
0.65 0.18 0.17
Matches are distributed among these distances:
32 35 0.02
33 194 0.09
34 283 0.13
35 857 0.40
36 155 0.07
37 133 0.06
38 303 0.14
39 149 0.07
40 5 0.00
41 1 0.00
42 12 0.01
43 8 0.00
44 11 0.01
45 4 0.00
46 4 0.00
47 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (36 bp):
GAAATGACTGGGATTAAACCGCAAGTCAAGAATAAA
Found at i:13675675 original size:16 final size:16
Alignment explanation
Indices: 13675654--13675689 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13675644 ACGAGTCAAA
*
13675654 GATTAAAGATGATTGG
1 GATTAAAAATGATTGG
13675670 GATTAAAAATGATTGG
1 GATTAAAAATGATTGG
13675686 GATT
1 GATT
13675690 GAATCGCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (16 bp):
GATTAAAAATGATTGG
Found at i:13675744 original size:89 final size:89
Alignment explanation
Indices: 13675579--13675762 Score: 289
Period size: 89 Copynumber: 2.1 Consensus size: 89
13675569 CACGAGTCAA
* *
13675579 AGATTAAAGATGACTGGGATTGAATTGCAAGTCAGAGAATGAAATGAAATGACCGGGATTAAACC
1 AGATTAAAAATGACTGGGATTGAATCGCAAGTCAGAGAAT-AAATGAAATGACCGGGATTAAACC
13675644 ACGAGTCAAAGATTAAAGATGATTG
65 ACGAGTCAAAGATTAAAGATGATTG
* * *
13675669 GGATTAAAAATGATTGGGATTGAATCGCAAGTCAGAGAA-ATAATGAAATGACCGGGATTAAATC
1 AGATTAAAAATGACTGGGATTGAATCGCAAGTCAGAGAATA-AATGAAATGACCGGGATTAAACC
*
13675733 ACGAGTTAAAGATTAAAGATGATTG
65 ACGAGTCAAAGATTAAAGATGATTG
13675758 AGATT
1 AGATT
13675763 GAACAGCAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 1 0.01
89 50 0.58
90 35 0.41
ACGTcount: A:0.42, C:0.09, G:0.25, T:0.24
Consensus pattern (89 bp):
AGATTAAAAATGACTGGGATTGAATCGCAAGTCAGAGAATAAATGAAATGACCGGGATTAAACCA
CGAGTCAAAGATTAAAGATGATTG
Found at i:13675750 original size:163 final size:162
Alignment explanation
Indices: 13675506--13675835 Score: 511
Period size: 163 Copynumber: 2.0 Consensus size: 162
13675496 ACGAGTCAAA
*
13675506 GATTAAAGATGACTGGGATTGAATCGCAAGTCAGAGAATGAAATGAAATGACCGGAATTAAACCA
1 GATTAAAAATGACTGGGATTGAATCGCAAGTCAGAGAAT-AAATGAAATGACCGGAATTAAACCA
* **
13675571 CGAGTCAAAGATTAAAGATGACTGGGATTGAATTGCAAGTCAGAG-AATGAAATGAAATGACCGG
65 CGAGTCAAAGATTAAAGATGACTGAGATTGAACAGCAAGTCAGAGAAAT--AATGAAATGACCGG
*
13675635 GATTAAACCACGAGTCAAAGATTAAAGATGATTGG
128 GATTAAACCACAAGTCAAAGATTAAAGATGATTGG
* * *
13675670 GATTAAAAATGATTGGGATTGAATCGCAAGTCAGAGAA-ATAATGAAATGACCGGGATTAAATCA
1 GATTAAAAATGACTGGGATTGAATCGCAAGTCAGAGAATA-AATGAAATGACCGGAATTAAACCA
* * *
13675734 CGAGTTAAAGATTAAAGATGATTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGATCGGGA
65 CGAGTCAAAGATTAAAGATGACTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGACCGGGA
13675799 TTAAACCACAAGTCAAAGATTAAAGATGATTGG
130 TTAAACCACAAGTCAAAGATTAAAGATGATTGG
13675832 GATT
1 GATT
13675836 GAACCACAAG
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
162 52 0.34
163 62 0.41
164 39 0.25
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.22
Consensus pattern (162 bp):
GATTAAAAATGACTGGGATTGAATCGCAAGTCAGAGAATAAATGAAATGACCGGAATTAAACCAC
GAGTCAAAGATTAAAGATGACTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGACCGGGAT
TAAACCACAAGTCAAAGATTAAAGATGATTGG
Found at i:13676357 original size:355 final size:355
Alignment explanation
Indices: 13675683--13676762 Score: 1596
Period size: 355 Copynumber: 3.0 Consensus size: 355
13675673 TAAAAATGAT
* * * * * *
13675683 TGGGATTGAATCGCAAGTCAGAGAAATAATGAAATGACCGGGATTAAATCACGAGTTAAAGATTA
1 TGGGATTGAATCGTAAGTCA-ATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTA
*
13675748 AAGATGATTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCACAAGTC
65 AAGATGATTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCACGAGTC
13675813 AAAGATTAAAGATGATTGGGATTGAACCACAAGTCGGGTAATTAATGAAATGATTGGGATTAAAC
130 AAAGATTAAAGATGATTGGGATTGAACCACAAGTCGGGTAATTAATGAAATGATTGGGATTAAAC
*
13675878 CGCGAGTCAAAGATTAGAGATGACTAGGATTGAACCACAAGTCAAGCATGAAATGATCGAGATTA
195 CGCGAGTCAAAGATTAGAGATGACTGGGATTGAACCACAAGTCAAGCATGAAATGATCGAGATTA
* * *
13675943 AACCACGAGTCAAAGATTAAAGATGATTGGAATTGAATCGGAAGTCAGAGAATGAAATGATCGGG
260 AACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTCAGAGAATGAAATGATCGGG
13676008 ATTAAACCACGAGTCGAAGATTAAAGATCAC
325 ATTAAACCACGAGTCGAAGATTAAAGATCAC
*
13676039 TGGGATTGAACCGTAAGTCAATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAA
1 TGGGATTGAATCGTAAGTCAATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAA
*
13676104 AGATGATTGAGATTGAACAGCAAGTTAGAGAAATAATGAAATGA-CGGGGATTAAACCACGAGTC
66 AGATGATTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGATC-GGGATTAAACCACGAGTC
13676168 AAAGATTAAAGATGATTGGGATTGAACCACAAGTCGGGTAATTAATGAAATGATTGGGATTAAAC
130 AAAGATTAAAGATGATTGGGATTGAACCACAAGTCGGGTAATTAATGAAATGATTGGGATTAAAC
*
13676233 CGCGAGTCAAAGATTAGAGATGACTGGGATTGAATCACAAGTCAAGCATGAAATGATCGAGATTA
195 CGCGAGTCAAAGATTAGAGATGACTGGGATTGAACCACAAGTCAAGCATGAAATGATCGAGATTA
13676298 AACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTCAGAGAATGAAATGATCGGG
260 AACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTCAGAGAATGAAATGATCGGG
13676363 ATTAAACCACGAGTCGAAGATTAAAGATCAC
325 ATTAAACCACGAGTCGAAGATTAAAGATCAC
13676394 TGGGATTGAATCGTAAGTCAATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGGA-TA
1 TGGGATTGAATCGTAAGTCAATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAA-GATTA
* * * * * *
13676458 AAGATGACTGGGATTGAACCGCAAGTCAGAGAATTAATGAAATGATCGGGATTAAATCGCGAGTC
65 AAGATGATTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCACGAGTC
* * * ** *
13676523 AAAGGA-TAAAGATGACTGGGACTGAACCATAAGTCAAAG-AATTAATGAAATGATCGGGATTAA
130 AAA-GATTAAAGATGATTGGGATTGAACCACAAGTC-GGGTAATTAATGAAATGATTGGGATTAA
* * * * * *
13676586 ACCGCGAGTCAAAGATTAAATATGATTGGGACTGAACCACAAGTCAGAGAATTAATGAAATGATT
193 ACCGCGAGTCAAAGATTAGAGATGACTGGGATTGAACCACAAGTCA-AG----CATGAAATGATC
* * * * * *
13676651 GGGATTAAACCGCGAGTCAAAGATTAAATATGACTGGGATTGAACCGCAAGTCGAAGAATTAATG
253 GAGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTC--AG-A-GAATG
* ** *
13676716 TAATGA-CTGGGATTAAACTGCGAGTC-AAGGATTAAAGATGAC
314 AAATGATC-GGGATTAAACCACGAGTCGAA-GATTAAAGATCAC
13676758 TGGGA
1 TGGGA
13676763 CTAAACCGCA
Statistics
Matches: 663, Mismatches: 45, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
354 1 0.00
355 530 0.80
356 26 0.04
360 58 0.09
362 2 0.00
363 4 0.01
364 42 0.06
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (355 bp):
TGGGATTGAATCGTAAGTCAATAAATAATGAAATGATCGGGATTAAACCGCGAGTCAAAGATTAA
AGATGATTGAGATTGAACAGCAAGTCAGAGAAATAATGAAATGATCGGGATTAAACCACGAGTCA
AAGATTAAAGATGATTGGGATTGAACCACAAGTCGGGTAATTAATGAAATGATTGGGATTAAACC
GCGAGTCAAAGATTAGAGATGACTGGGATTGAACCACAAGTCAAGCATGAAATGATCGAGATTAA
ACCACGAGTCAAAGATTAAAGATGACTGGGATTGAATCGAAAGTCAGAGAATGAAATGATCGGGA
TTAAACCACGAGTCGAAGATTAAAGATCAC
Found at i:13676886 original size:36 final size:36
Alignment explanation
Indices: 13676838--13676907 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
13676828 GGTCTTACAG
13676838 AATTGACTGGGATAACACCGC-AAGTCAAAATTATAA
1 AATTGACTGGGATAACACCGCGAA-TCAAAATTATAA
* *
13676874 AATTGA-TCGGGATAACATCGCGAATCAAATTTAT
1 AATTGACT-GGGATAACACCGCGAATCAAAATTAT
13676908 GCCCGAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.03
36 27 0.90
37 2 0.07
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (36 bp):
AATTGACTGGGATAACACCGCGAATCAAAATTATAA
Found at i:13676900 original size:87 final size:87
Alignment explanation
Indices: 13676754--13676921 Score: 284
Period size: 87 Copynumber: 1.9 Consensus size: 87
13676744 GGATTAAAGA
* * *
13676754 TGACTGGGACTAAACCGCAAGTTAAAATTATAGAATTGATCGGGATAATATCGCGAATCAAATTT
1 TGACTGGGACTAAACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCGCGAATCAAATTT
*
13676819 ATGCCCGGAGGTCTTACAGAAT
66 ATGCCCGAAGGTCTTACAGAAT
13676841 TGACTGGGA-TAACACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCGCGAATCAAATT
1 TGACTGGGACTAA-ACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCGCGAATCAAATT
13676905 TATGCCCGAAGGTCTTA
65 TATGCCCGAAGGTCTTA
13676922 AAAATCATGA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 3 0.04
87 73 0.96
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (87 bp):
TGACTGGGACTAAACCGCAAGTCAAAATTATAAAATTGATCGGGATAACATCGCGAATCAAATTT
ATGCCCGAAGGTCTTACAGAAT
Found at i:13677014 original size:109 final size:109
Alignment explanation
Indices: 13676823--13677059 Score: 393
Period size: 109 Copynumber: 2.2 Consensus size: 109
13676813 AAATTTATGC
* *
13676823 CCGGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAATTATAAAATTGATCGGGATA
1 CCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTCAAAATTATAAAATTGATCAGGATA
* * *
13676888 ACATCGCGAATCAAATTTATGCCCGAAGGTCTTAAAAATCATGA
66 ACACCACGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATGA
*
13676932 CCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTCAAAATTATAGAATTGATCAGGATA
1 CCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTCAAAATTATAAAATTGATCAGGATA
* * *
13676997 ACACCACGAATCAAATTTATGCTCAAAGGTCTTAGAAATCATGT
66 ACACCACGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATGA
13677041 CCGGAGGTCTTACAGAATT
1 CCGGAGGTCTTACAGAATT
13677060 GTGCCCGGAG
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 119 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (109 bp):
CCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTCAAAATTATAAAATTGATCAGGATA
ACACCACGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATGA
Found at i:13677048 original size:22 final size:23
Alignment explanation
Indices: 13677023--13677081 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
13677013 TTATGCTCAA
* *
13677023 AGGTCTTAGA-AATCATGTCCGG
1 AGGTCTTACAGAATCATGCCCGG
**
13677045 AGGTCTTACAGAATTGTGCCCGG
1 AGGTCTTACAGAATCATGCCCGG
13677068 AGGTCTTACAGAAT
1 AGGTCTTACAGAAT
13677082 TGACTGGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (23 bp):
AGGTCTTACAGAATCATGCCCGG
Found at i:13677169 original size:132 final size:132
Alignment explanation
Indices: 13676909--13677192 Score: 435
Period size: 132 Copynumber: 2.2 Consensus size: 132
13676899 CAAATTTATG
* ** *
13676909 CCCGAAGGTCTTA-AAAATCATGACCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTC
1 CCCGGAGGTCTTACAAAATTGTGCCCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTC
*
13676973 AAAATTATAGAATTGATCAGGATAACACCACGAATCAAATTTATGCTCAAAGGTCTTAGAAATCA
66 AAAATTATAGAATTGACCAGGATAACACCACGAATCAAATTTATGCTCAAAGGTCTTAGAAATCA
*
13677038 TG
131 TA
* * *
13677040 TCCGGAGGTCTTACAGAATTGTGCCCGGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTC
1 CCCGGAGGTCTTACAAAATTGTGCCCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTC
* * ***
13677105 AAAATTATAGAATTGACCGGGATAACACCTCGAATCAAATTTATGCTTGGAGGTCTTAGAAATCA
66 AAAATTATAGAATTGACCAGGATAACACCACGAATCAAATTTATGCTCAAAGGTCTTAGAAATCA
13677170 TA
131 TA
13677172 CCCGGAGGTCTTACAAAATTG
1 CCCGGAGGTCTTACAAAATTG
13677193 CCCGAAGTCT
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 11 0.08
132 125 0.92
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (132 bp):
CCCGGAGGTCTTACAAAATTGTGCCCGGAGGTCTTACAGAATTAACTGGGATAACACCGCAAGTC
AAAATTATAGAATTGACCAGGATAACACCACGAATCAAATTTATGCTCAAAGGTCTTAGAAATCA
TA
Found at i:13677226 original size:22 final size:22
Alignment explanation
Indices: 13677155--13677226 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
13677145 TTATGCTTGG
* * *
13677155 AGGTCTTAGAAATCATACCCGG
1 AGGTCTTAAAAATCATGCCCGA
13677177 AGGTCTTACAAAAT--TGCCCGA
1 AGGTCTTA-AAAATCATGCCCGA
*
13677198 A-GTCTTAAAAATCATGTCCGA
1 AGGTCTTAAAAATCATGCCCGA
13677219 AGGTCTTA
1 AGGTCTTA
13677227 TAGAATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 5 0.12
20 6 0.14
21 13 0.31
22 14 0.33
23 4 0.10
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (22 bp):
AGGTCTTAAAAATCATGCCCGA
Found at i:13679253 original size:10 final size:10
Alignment explanation
Indices: 13679238--13679266 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13679228 AATATGTCCC
13679238 TTTTGTTTTT
1 TTTTGTTTTT
13679248 TTTTGTTTTT
1 TTTTGTTTTT
13679258 TTTT-TTTTT
1 TTTTGTTTTT
13679267 ATGCCTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:13684804 original size:26 final size:27
Alignment explanation
Indices: 13684751--13684804 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
13684741 TTATCTTCTG
*
13684751 TTTTTTTTTTGTTTGGTATTTTTTTAT
1 TTTTTTTTTTGTTTGGTATTTTTGTAT
*
13684778 TTTTTTTTTTGTTTTGTA-TTTTGTAT
1 TTTTTTTTTTGTTTGGTATTTTTGTAT
13684804 T
1 T
13684805 ACTTTTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.81
Consensus pattern (27 bp):
TTTTTTTTTTGTTTGGTATTTTTGTAT
Found at i:13684810 original size:27 final size:27
Alignment explanation
Indices: 13684753--13684810 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
13684743 ATCTTCTGTT
* *
13684753 TTTTTTTTGTTTGGTATTTTTTTATTT
1 TTTTTTTTGTTTGGTATTTTTGTATTC
*
13684780 TTTTTTTTGTTTTGTA-TTTTGTATTAC
1 TTTTTTTTGTTTGGTATTTTTGTATT-C
13684807 TTTT
1 TTTT
13684811 GTATTTCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.09, C:0.02, G:0.10, T:0.79
Consensus pattern (27 bp):
TTTTTTTTGTTTGGTATTTTTGTATTC
Found at i:13686117 original size:14 final size:14
Alignment explanation
Indices: 13686100--13686128 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13686090 AAAAATAAAT
13686100 AATTGAAAATTTTA
1 AATTGAAAATTTTA
13686114 AATTGAAAATTTTA
1 AATTGAAAATTTTA
13686128 A
1 A
13686129 TTCAATAGAT
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTGAAAATTTTA
Found at i:13690323 original size:20 final size:20
Alignment explanation
Indices: 13690298--13690336 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13690288 AATGCCTATG
13690298 AAGTAAGGAATTTACTTAAA
1 AAGTAAGGAATTTACTTAAA
13690318 AAGTAAGGAATTTACTTAA
1 AAGTAAGGAATTTACTTAA
13690337 TTAATCTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (20 bp):
AAGTAAGGAATTTACTTAAA
Found at i:13697778 original size:21 final size:20
Alignment explanation
Indices: 13697752--13697790 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13697742 TCTTAAAAAA
*
13697752 ATGAGTTGAGTTAAAAATAAC
1 ATGAGTTAAG-TAAAAATAAC
13697773 ATGAGTTAAGTAAAAATA
1 ATGAGTTAAGTAAAAATA
13697791 TAGTCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.18, T:0.28
Consensus pattern (20 bp):
ATGAGTTAAGTAAAAATAAC
Found at i:13701709 original size:36 final size:40
Alignment explanation
Indices: 13701669--13701757 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 40
13701659 GAAAAAGATG
* *
13701669 AGAAAAAGAAAAGAAT-AA-AAAAAAAGTTGTGAAA-A-A
1 AGAAAAAGAAAAGAATGAAGAAAAAAAATGGTGAAATAGA
13701705 AG-AAAAGAAAAAGAATGAATGAAAAAAAATGGTGAAATAGA
1 AGAAAAAG-AAAAGAATGAA-GAAAAAAAATGGTGAAATAGA
*
13701746 AAAAAAAGAAAA
1 AGAAAAAGAAAA
13701758 TGATATGCAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
35 5 0.12
36 10 0.23
37 2 0.05
39 14 0.33
40 1 0.02
41 6 0.14
42 5 0.12
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (40 bp):
AGAAAAAGAAAAGAATGAAGAAAAAAAATGGTGAAATAGA
Found at i:13701714 original size:41 final size:39
Alignment explanation
Indices: 13701658--13701757 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 39
13701648 GAAAAAAGAA
** *
13701658 TGAAAAAGATGAGAAAAAGAAAAGAATAAAAAAAAAGTTG
1 TGAAAAAGAAAAGAAAAAGAAAAGAATAAAAAAAAA-TGG
* *
13701698 TGAAAAAAGAAAAGAAAAAG-AATGAATGAAAAAAAATGG
1 TG-AAAAAGAAAAGAAAAAGAAAAGAATAAAAAAAAATGG
*
13701737 TGAAATAG-AAA-AAAAAGAAAA
1 TGAAAAAGAAAAGAAAAAGAAAA
13701758 TGATATGCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
36 6 0.12
37 5 0.10
38 5 0.10
39 4 0.08
40 16 0.31
41 15 0.29
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.11
Consensus pattern (39 bp):
TGAAAAAGAAAAGAAAAAGAAAAGAATAAAAAAAAATGG
Found at i:13702300 original size:17 final size:19
Alignment explanation
Indices: 13702278--13702313 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
13702268 AATAAAATAG
13702278 AACTTAAA-TG-ACTTGAA
1 AACTTAAATTGAACTTGAA
13702295 AACTTAAATTGAACTTGAA
1 AACTTAAATTGAACTTGAA
13702314 TTAAACTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (19 bp):
AACTTAAATTGAACTTGAA
Found at i:13703746 original size:10 final size:10
Alignment explanation
Indices: 13703733--13703762 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13703723 TCAAGAACTT
13703733 TCAAGATTCA
1 TCAAGATTCA
13703743 TCAAGATTCA
1 TCAAGATTCA
*
13703753 CCAAGATTCA
1 TCAAGATTCA
13703763 ATTTTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (10 bp):
TCAAGATTCA
Found at i:13709712 original size:15 final size:15
Alignment explanation
Indices: 13709692--13709722 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13709682 ACGTGCTCAT
*
13709692 AATATTTTGGGGTTC
1 AATATTTAGGGGTTC
13709707 AATATTTAGGGGTTC
1 AATATTTAGGGGTTC
13709722 A
1 A
13709723 TTAGGTAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (15 bp):
AATATTTAGGGGTTC
Found at i:13712603 original size:2 final size:2
Alignment explanation
Indices: 13712596--13712627 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13712586 TGGAAAAGTG
*
13712596 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13712628 CTTCTAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13713348 original size:14 final size:15
Alignment explanation
Indices: 13713323--13713352 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13713313 AATTAAAAGG
13713323 TAATATAAATATAAT
1 TAATATAAATATAAT
13713338 TAATA-AAATATAAT
1 TAATATAAATATAAT
13713352 T
1 T
13713353 CAGTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATATAAATATAAT
Found at i:13715942 original size:322 final size:321
Alignment explanation
Indices: 13715357--13716001 Score: 1042
Period size: 322 Copynumber: 2.0 Consensus size: 321
13715347 TTTTGGGTAC
*
13715357 CTATGAATTAATTAGAGAGAAGACAGCAGAATAACCATTTTATAAAGAGAGGCATTTTCATGCAC
1 CTATGAATTAATTAGAGAGAAGACAACAGAATAACCATTTTATAAAGAGAGGCATTTTCATGCAC
* *
13715422 TTCTGAAAAAAAGCCTAAAATTTTAGTTTTTATAATAACCCAATACGATGCCATTTTAAAACCCT
66 TTCTGAAAAAAAGCCTAAAATTTTAGTTTTTATAATAACCAAATACGACGCCATTTTAAAACCCT
13715487 TAAAGGCACCTATGTCCATGTGTTTTACCATACTCGCACCAAACCCTCAACGCAACCCGATTTTG
131 TAAAGGCACCTATGTCCATGTGTTTTACCATACTCGCACCAAACCCTCAACGCAACCCGATTTTG
*
13715552 AGCCGCTCCCTTTTTACTACACTGAGCCAAGCCATTCCAGAAGCTAAGTTCTAAGCCACTTGAGT
196 ACCCGCTCCCTTTTTACTACACTGAGCCAAGCCATTCCAGAAGCTAAGTTCTAAGCCACTTGAGT
* * * * *
13715617 TGATTTGTACCTATAGCCACCCTTTTTAACCGCCAAGCCAAGCCAATTACAAAGTACTTTTG
261 TGATTTGTAACTATAGCCACCCTCTTTAACAGCCAAGCCAAGCCAACTAC-AAGTAATTTTG
* *
13715679 CTATGAATTAATTAGAGAGAAGACAACAGAATAATCATTTTATAAAGAGAGGCATTTTCATGCAT
1 CTATGAATTAATTAGAGAGAAGACAACAGAATAACCATTTTATAAAGAGAGGCATTTTCATGCAC
13715744 TTCT-AAAGAAAAGCCTAAAATTTTAGTTTTTATAATAACCAAATACGACGCCATTTTAAAACCC
66 TTCTGAAA-AAAAGCCTAAAATTTTAGTTTTTATAATAACCAAATACGACGCCATTTTAAAACCC
* * * * ** *
13715808 TTAAGGGCACCTATGTCCATGTGTTTTACCATACTCGCACTAGACCCTTAGTGCAATCCGATTTT
130 TTAAAGGCACCTATGTCCATGTGTTTTACCATACTCGCACCAAACCCTCAACGCAACCCGATTTT
* * *
13715873 GACCCGTTCCTTTTTTACTACACTGAGCCAAGCCATT-CTGAAAGCTAAGTTCTAAGCCACTTGA
195 GACCCGCTCCCTTTTTACTACACTGAGCCAAGCCATTCCAG-AAGCTAAGTTCTAAGCCACTTGA
* *
13715937 GTTGATTTGTAACTATAGCCACCCTCTTTAATAGCCAAGCCAAGCCAACTGCAAGTAATTTTG
259 GTTGATTTGTAACTATAGCCACCCTCTTTAACAGCCAAGCCAAGCCAACTACAAGTAATTTTG
13716000 CT
1 CT
13716002 TTTCTTTATA
Statistics
Matches: 298, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
321 17 0.06
322 281 0.94
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (321 bp):
CTATGAATTAATTAGAGAGAAGACAACAGAATAACCATTTTATAAAGAGAGGCATTTTCATGCAC
TTCTGAAAAAAAGCCTAAAATTTTAGTTTTTATAATAACCAAATACGACGCCATTTTAAAACCCT
TAAAGGCACCTATGTCCATGTGTTTTACCATACTCGCACCAAACCCTCAACGCAACCCGATTTTG
ACCCGCTCCCTTTTTACTACACTGAGCCAAGCCATTCCAGAAGCTAAGTTCTAAGCCACTTGAGT
TGATTTGTAACTATAGCCACCCTCTTTAACAGCCAAGCCAAGCCAACTACAAGTAATTTTG
Found at i:13717332 original size:14 final size:13
Alignment explanation
Indices: 13717309--13717338 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
13717299 TAAAATCAAG
13717309 AATCAAAAACAAT
1 AATCAAAAACAAT
13717322 AATCAACAAACAAT
1 AATCAA-AAACAAT
13717336 AAT
1 AAT
13717339 TAGAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (13 bp):
AATCAAAAACAAT
Found at i:13717962 original size:30 final size:32
Alignment explanation
Indices: 13717888--13717962 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 32
13717878 TGCTTTTATG
**
13717888 TTTTGATTTATTTTTGTTTTATTTGATTATCTA
1 TTTTGATTT-TTTTCCTTTTATTTGATTATCTA
* *
13717921 TTTT-TTCTTTTTTCCTTTTA-TT-ATTGTCTA
1 TTTTGAT-TTTTTTCCTTTTATTTGATTATCTA
13717951 TTTTGATTTTTT
1 TTTTGATTTTTT
13717963 ATTATTTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
30 16 0.46
31 3 0.09
32 10 0.29
33 6 0.17
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (32 bp):
TTTTGATTTTTTTCCTTTTATTTGATTATCTA
Found at i:13718553 original size:182 final size:184
Alignment explanation
Indices: 13718241--13718603 Score: 572
Period size: 182 Copynumber: 2.0 Consensus size: 184
13718231 TGTAATTTTT
13718241 CTAAATTTAATTAAGGCATTGAAGCATTTAAAAAATGATATCAATATAAGAATTTTTATTTATTT
1 CTAAATTTAATTAAGGCATTGAAGCATTTAAAAAATGATATCAATATAAGAATTTTTATTTATTT
*
13718306 ATAATTTGAAACAAAAATAAAGAATAATGACTAAATTGTGATATGTTTAATTTTCTTTTATGATT
66 ATAATTTGAAACAAAAATAAAGAATAATGACTAAATTGTGATATGTTTAATTTTCTTTCATGATT
* *
13718371 AATTA-T-ATTGTGATTATTTAATGTTGTAAATTTTTTATATTCATTAACTTTG
131 AATTATTAATTGTGATTATTTAATGTTGAAAATTTTGTATATTCATTAACTTTG
*
13718423 CTAAATTTAATTAAGGCATTGAA-CGATTTAAAAAATGATATCACTATAAGAATTTTTATTTATT
1 CTAAATTTAATTAAGGCATTGAAGC-ATTTAAAAAATGATATCAATATAAGAATTTTTATTTATT
* * *
13718487 TTTAATTTGAAACAAAAATAAGGATTAATGGA-TAAATTGTGATATGTTTAATTTTCTTTCATGA
65 TATAATTTGAAACAAAAATAAAGAATAAT-GACTAAATTGTGATATGTTTAATTTTCTTTCATGA
*
13718551 TTAATTATTGAAAAATTGTGATTATTTATTGTTGAAAATTTTGTATATTCATT
129 TTAATTATT----AATTGTGATTATTTAATGTTGAAAATTTTGTATATTCATT
13718604 CTATCATTCA
Statistics
Matches: 165, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
181 1 0.01
182 125 0.76
183 3 0.02
188 36 0.22
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (184 bp):
CTAAATTTAATTAAGGCATTGAAGCATTTAAAAAATGATATCAATATAAGAATTTTTATTTATTT
ATAATTTGAAACAAAAATAAAGAATAATGACTAAATTGTGATATGTTTAATTTTCTTTCATGATT
AATTATTAATTGTGATTATTTAATGTTGAAAATTTTGTATATTCATTAACTTTG
Found at i:13720833 original size:24 final size:26
Alignment explanation
Indices: 13720805--13720861 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
13720795 AATTTCTATA
*
13720805 GGGTTTTGCATTTC-AGA-GATTT-TT
1 GGGTTTTGC-TTTCTAGACAATTTGTT
*
13720829 GGGTTTAGCTTTCTAGACAATTTGTT
1 GGGTTTTGCTTTCTAGACAATTTGTT
13720855 GGGTTTT
1 GGGTTTT
13720862 TAAAAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.15
24 11 0.41
25 4 0.15
26 8 0.30
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (26 bp):
GGGTTTTGCTTTCTAGACAATTTGTT
Found at i:13721139 original size:5 final size:5
Alignment explanation
Indices: 13721129--13721201 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
13721119 TCTCTTGATT
** * *
13721129 TTTTA TTTTA -TTTA TTTTATA TTTTA ACTTA TTTTA TTTTTA ATTTC
1 TTTTA TTTTA TTTTA -TTT-TA TTTTA TTTTA TTTTA -TTTTA TTTTA
13721176 TTTTA TTTTA TAATTTA TTTTA TTTT
1 TTTTA TTTTA T--TTTA TTTTA TTTT
13721202 TCCTAAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
4 4 0.07
5 33 0.61
6 10 0.19
7 7 0.13
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:13721169 original size:38 final size:38
Alignment explanation
Indices: 13721126--13721201 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
13721116 TTTTCTCTTG
* *
13721126 ATTTTTTATTT-TATTTATTTTATATTTTAACTTATTTT
1 ATTTTTAATTTCT-TTTATTTTATAATTTAACTTATTTT
**
13721164 ATTTTTAATTTCTTTTATTTTATAATTTATTTTATTTT
1 ATTTTTAATTTCTTTTATTTTATAATTTAACTTATTTT
13721202 TCCTAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (38 bp):
ATTTTTAATTTCTTTTATTTTATAATTTAACTTATTTT
Found at i:13721180 original size:33 final size:32
Alignment explanation
Indices: 13721129--13721202 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
13721119 TCTCTTGATT
13721129 TTTTA-TTTTATTTATTTTATATTT-TAACTTA
1 TTTTATTTTTATTTATTTTAT-TTTATAACTTA
* *
13721160 TTTTATTTTTAATTTCTTTTATTTTATAATTTA
1 TTTTATTTTT-ATTTATTTTATTTTATAACTTA
13721193 TTTTATTTTT
1 TTTTATTTTT
13721203 CCTAAATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 5 0.13
32 7 0.18
33 26 0.68
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTATTTTTATTTATTTTATTTTATAACTTA
Found at i:13728216 original size:32 final size:32
Alignment explanation
Indices: 13728167--13728242 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
13728157 TACATGGTAT
* *
13728167 TTATTTTTGCATG-AATTTGCATGCCTAATA-
1 TTATATTTGCATGAAATTTACATGCCTAATAC
** *
13728197 TTATATTTGCATGAAAATTTATTTGCTTAATAC
1 TTATATTTGCATG-AAATTTACATGCCTAATAC
13728230 TT-TATTTGCATGA
1 TTATATTTGCATGA
13728243 TTAGTAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
30 12 0.32
31 1 0.03
32 23 0.61
33 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.49
Consensus pattern (32 bp):
TTATATTTGCATGAAATTTACATGCCTAATAC
Found at i:13728221 original size:16 final size:17
Alignment explanation
Indices: 13728200--13728242 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13728190 CCTAATATTA
13728200 TATTTGCATGAA-AATT
1 TATTTGCATGAATAATT
* *
13728216 TATTTGC-TTAATACTT
1 TATTTGCATGAATAATT
13728232 TATTTGCATGA
1 TATTTGCATGA
13728243 TTAGTAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 17 0.77
17 2 0.09
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (17 bp):
TATTTGCATGAATAATT
Found at i:13728353 original size:20 final size:20
Alignment explanation
Indices: 13728230--13728354 Score: 103
Period size: 20 Copynumber: 6.3 Consensus size: 20
13728220 TGCTTAATAC
*
13728230 TTTATTTGCATGATTAGTAGA
1 TTTATTTGCATGATTATTA-A
* * *
13728251 TTTGTGTG-AT--TTATCAA
1 TTTATTTGCATGATTATTAA
* *
13728268 TATATTTGCATGACTATTAA
1 TTTATTTGCATGATTATTAA
* * *
13728288 TATGTTTGCATAATTATTAA
1 TTTATTTGCATGATTATTAA
* *
13728308 TTTATCTACATGATTATTAA
1 TTTATTTGCATGATTATTAA
* *
13728328 CTTATTTGCATGATTATCAA
1 TTTATTTGCATGATTATTAA
13728348 TTTATTT
1 TTTATTT
13728355 ATTTGTGTGA
Statistics
Matches: 79, Mismatches: 22, Indels: 7
0.73 0.20 0.06
Matches are distributed among these distances:
17 6 0.08
18 6 0.08
20 61 0.77
21 6 0.08
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTATTTGCATGATTATTAA
Found at i:13728437 original size:53 final size:53
Alignment explanation
Indices: 13728374--13728502 Score: 195
Period size: 53 Copynumber: 2.4 Consensus size: 53
13728364 ATTGTATGAT
* *
13728374 TATTACTATATATTTAATTGCATGTTTCTTTGCATGATTTATATTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTGCATGATTTATATTATTATTTG
** *
13728427 TATTATTATATATTTAATTATATGTTTATTTGCATGATTTGTATTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTGCATGATTTATATTATTATTTG
* *
13728480 CATGATTATATATTTAATTGCAT
1 TATTATTATATATTTAATTGCAT
13728503 ATTTTACATT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 67 1.00
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (53 bp):
TATTATTATATATTTAATTGCATGTTTATTTGCATGATTTATATTATTATTTG
Found at i:13728488 original size:41 final size:41
Alignment explanation
Indices: 13728443--13728544 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
13728433 TATATATTTA
* * *
13728443 ATTATATGTTTATTTGCATGATTTGT-ATTATTATTTGCATG
1 ATTATATATTTAATTGCATGATTT-TAATTATTAATTGCATG
*
13728484 ATTATATATTTAATTGCAT-ATTTTACATTGTTAATTGCATG
1 ATTATATATTTAATTGCATGATTTTA-ATTATTAATTGCATG
13728525 ATTATATATTTAATTGCATG
1 ATTATATATTTAATTGCATG
13728545 TCTATGTGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 4 0.07
41 49 0.91
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (41 bp):
ATTATATATTTAATTGCATGATTTTAATTATTAATTGCATG
Found at i:13728635 original size:24 final size:24
Alignment explanation
Indices: 13728608--13728669 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
13728598 TTATTATTGC
*
13728608 ATGATTTTATATTTATTGCATGAT
1 ATGATATTATATTTATTGCATGAT
13728632 ATGATATTATATGTTATTGCATGAT
1 ATGATATTATAT-TTATTGCATGAT
*
13728657 -TAATATTATATTT
1 ATGATATTATATTT
13728670 GAATGACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.60
25 12 0.34
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.53
Consensus pattern (24 bp):
ATGATATTATATTTATTGCATGAT
Found at i:13728638 original size:19 final size:19
Alignment explanation
Indices: 13728601--13728639 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13728591 TATGTGATTA
* *
13728601 TTATTGCATGATTTTATAT
1 TTATTGCATGATATGATAT
13728620 TTATTGCATGATATGATAT
1 TTATTGCATGATATGATAT
13728639 T
1 T
13728640 ATATGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATGATAT
Found at i:13728828 original size:20 final size:20
Alignment explanation
Indices: 13728771--13728828 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
13728761 ATGAATGGTT
* *
13728771 ATTAAAATATTTGCATGGTA
1 ATTAATATATTTGCATGATA
* *
13728791 TTTTATAT-TATTGCATGATA
1 ATTAATATAT-TTGCATGATA
13728811 ATTAATATATTTGCATGA
1 ATTAATATATTTGCATGA
13728829 CGTTCTTGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTAATATATTTGCATGATA
Found at i:13730560 original size:131 final size:131
Alignment explanation
Indices: 13730235--13730594 Score: 340
Period size: 131 Copynumber: 2.8 Consensus size: 131
13730225 ATGTATTTGC
* * * *
13730235 ATATACATATTTATCCATTTAAACATTTTTGTATATACATTATGTCATTTGTTTGGAAAATTCTT
1 ATATACATATTTATCCATTTAAACATTTTTGTATGTACATTATATTATTTGTTTGGGAAA-TCTT
* * * * * *
13730300 TGCCTTTTCAATTTTGTACATGGTTTTGGATATGAATTCTTGTTTTTCTCTATGTATTGCATACA
65 TG-CTTTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTTGTCTCTATGCATTACATACA
13730365 TGT
129 TGT
* * ** * ** * * *
13730368 ATTTGCATATAAAT--TTTTATTCATTTTTGTATGTACATTATTTTATTGGCTTGGGAGAATCTT
1 ATATACATATTTATCCATTTAAACATTTTTGTATGTACATTATATTATTTGTTTGGGA-AATCTT
* *
13730431 TGCATTTTCAATTTTGTACATAGTTGTGAATAT-AATTGTTG-TTGTCGT-TATGCATTATATAC
65 TGC-TTTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTTGTC-TCTATGCATTACATAC
*
13730493 TTGT
128 ATGT
* * * *
13730497 ATATACATTTTTATCCATGTAAACATTTTTGTATGTATATTATATTATTTGTTTGAGGCAATC-T
1 ATATACATATTTATCCATTTAAACATTTTTGTATGTACATTATATTATTTGTTTG-GGAAATCTT
* * *
13730561 T--TTTTCAATTTTGTAAATAGTCGTGAACATGAAT
65 TGCTTTTCAATTTTGTACATAGTTGTGAATATGAAT
13730595 GCATTGCATA
Statistics
Matches: 181, Mismatches: 39, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
127 26 0.14
128 3 0.02
129 27 0.15
130 11 0.06
131 100 0.55
132 4 0.02
133 10 0.06
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (131 bp):
ATATACATATTTATCCATTTAAACATTTTTGTATGTACATTATATTATTTGTTTGGGAAATCTTT
GCTTTTCAATTTTGTACATAGTTGTGAATATGAATTCTTGTTTGTCTCTATGCATTACATACATG
T
Found at i:13731801 original size:8 final size:8
Alignment explanation
Indices: 13731790--13731895 Score: 65
Period size: 8 Copynumber: 12.4 Consensus size: 8
13731780 TCAAAAGTCC
13731790 AAAAAAAG
1 AAAAAAAG
13731798 AAAAAAA-
1 AAAAAAAG
13731805 AAGAAAAAGG
1 AA-AAAAA-G
13731815 AAAAAAGAG
1 AAAAAA-AG
13731824 AAAGAAAAG
1 AAA-AAAAG
13731833 AAAAGAAA-
1 AAAA-AAAG
*
13731841 ATGAAAAATG
1 A--AAAAAAG
*
13731851 AAAAAATG
1 AAAAAAAG
*
13731859 AAAAAATG
1 AAAAAAAG
13731867 AAAAAAA-
1 AAAAAAAG
*
13731874 AAACGAAAAA
1 AAA--AAAAG
13731884 AGAAAAAAG
1 A-AAAAAAG
13731893 AAA
1 AAA
13731896 GATGGAAAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
7 5 0.06
8 37 0.45
9 27 0.33
10 11 0.13
11 2 0.02
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13731803 original size:7 final size:7
Alignment explanation
Indices: 13731801--13731895 Score: 81
Period size: 7 Copynumber: 13.4 Consensus size: 7
13731791 AAAAAAGAAA
13731801 AAAAAAG
1 AAAAAAG
*
13731808 AAAAAGG
1 AAAAAAG
13731815 AAAAAAG
1 AAAAAAG
13731822 AGAAAGAA-
1 A-AAA-AAG
13731830 AAGAAAAG
1 AA-AAAAG
*
13731838 -AAAATG
1 AAAAAAG
*
13731844 AAAAATG
1 AAAAAAG
13731851 AAAAAATG
1 AAAAAA-G
13731859 AAAAAATG
1 AAAAAA-G
13731867 -AAAAA-
1 AAAAAAG
*
13731872 AAAAACG
1 AAAAAAG
13731879 AAAAAAG
1 AAAAAAG
13731886 AAAAAAG
1 AAAAAAG
13731893 AAA
1 AAA
13731896 GATGGAAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
6 8 0.11
7 49 0.66
8 15 0.20
9 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:13731811 original size:16 final size:17
Alignment explanation
Indices: 13731792--13731897 Score: 78
Period size: 19 Copynumber: 6.1 Consensus size: 17
13731782 AAAAGTCCAA
13731792 AAAAAGAAAAAA-AAAG
1 AAAAAGAAAAAAGAAAG
13731808 AAAAAGGAAAAAAGAGAA-
1 AAAAA-GAAAAAAGA-AAG
*
13731826 AGAAAAGAAAAGAA-AATG
1 A-AAAAGAAAA-AAGAAAG
13731844 AAAAATGAAAAAATG-AA-
1 AAAAA-GAAAAAA-GAAAG
* *
13731861 AAAATGAAAAAAAAAACG
1 AAAAAGAAAAAAGAAA-G
13731879 AAAAAAGAAAAAAGAAAG
1 -AAAAAGAAAAAAGAAAG
13731897 A
1 A
13731898 TGGAAAATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 25
0.70 0.06 0.25
Matches are distributed among these distances:
16 14 0.20
17 19 0.27
18 16 0.23
19 22 0.31
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (17 bp):
AAAAAGAAAAAAGAAAG
Found at i:13731832 original size:35 final size:34
Alignment explanation
Indices: 13731790--13731893 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 34
13731780 TCAAAAGTCC
*
13731790 AAAAAAAGAAAAAAAAAGAAAAAGGAAAAAAGAG
1 AAAAAAAGAAAAAAAAAGAAAAAAGAAAAAAGAG
* * *
13731824 AAAGAAAAGAAAAGAAAATGAAAAATGAAAAAA-TG
1 AAA-AAAAGAAAA-AAAAAGAAAAAAGAAAAAAGAG
*
13731859 AAAAAATGAAAAAAAAAACGAAAAAAGAAAAAAGA
1 AAAAAAAG-AAAAAAAAA-GAAAAAAGAAAAAAGA
13731894 AAGATGGAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
34 11 0.19
35 30 0.52
36 17 0.29
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (34 bp):
AAAAAAAGAAAAAAAAAGAAAAAAGAAAAAAGAG
Found at i:13731836 original size:24 final size:23
Alignment explanation
Indices: 13731791--13731895 Score: 90
Period size: 24 Copynumber: 4.4 Consensus size: 23
13731781 CAAAAGTCCA
13731791 AAAAAAGAAAAAAAAAGAAAAAGG
1 AAAAAAGAAAAAAAAAGAAAAA-G
*
13731815 AAAAAAGAGAAAGAAAAG-AAAAG
1 AAAAAAGA-AAAAAAAAGAAAAAG
* ** *
13731838 -AAAATGAAAAATGAA-AAAATG
1 AAAAAAGAAAAAAAAAGAAAAAG
13731859 AAAAAATGAAAAAAAAAACGAAAAAAG
1 AAAAAA-G-AAAAAAAAA-G-AAAAAG
13731886 AAAAAAGAAA
1 AAAAAAGAAA
13731896 GATGGAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
21 9 0.14
22 10 0.16
23 2 0.03
24 19 0.30
25 11 0.17
26 1 0.02
27 11 0.17
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAAAAGAAAAAAAAAGAAAAAG
Found at i:13733401 original size:21 final size:22
Alignment explanation
Indices: 13733367--13733413 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
13733357 GATTTGAACT
*
13733367 TTTTAAATGTGAATCTCT-AAA
1 TTTTAAATGAGAATCTCTAAAA
*
13733388 TTTTAGATGAGAATCTCTAAAA
1 TTTTAAATGAGAATCTCTAAAA
13733410 TTTT
1 TTTT
13733414 TGAATCTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (22 bp):
TTTTAAATGAGAATCTCTAAAA
Found at i:13733604 original size:18 final size:18
Alignment explanation
Indices: 13733583--13733653 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
13733573 TTATTTGAGA
13733583 CTTTTGCGAATTTTGGAG
1 CTTTTGCGAATTTTGGAG
* *
13733601 CTTTTGTGAATTTTGGAA
1 CTTTTGCGAATTTTGGAG
* *
13733619 CCTTTGCGAATTTTAGAG
1 CTTTTGCGAATTTTGGAG
* *
13733637 CTTTGGCGAATCTTGGA
1 CTTTTGCGAATTTTGGA
13733654 ACCTTTACGA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.42
Consensus pattern (18 bp):
CTTTTGCGAATTTTGGAG
Done.