Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 67 of 160
Found at i:13902608 original size:25 final size:27
Alignment explanation
Indices: 13902553--13902615 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
13902543 AGGGTATCAG
* *
13902553 TTTAGGATTTTAATCTTAGTGTTTCGA
1 TTTAGGGTTTTAATCTTAGGGTTTCGA
**
13902580 TTTAGGGTTTT-ATC-TAGGGTTTCTT
1 TTTAGGGTTTTAATCTTAGGGTTTCGA
13902605 TTTAGGGTTTT
1 TTTAGGGTTTT
13902616 GGGTGTCACC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.59
26 3 0.09
27 10 0.31
ACGTcount: A:0.16, C:0.06, G:0.22, T:0.56
Consensus pattern (27 bp):
TTTAGGGTTTTAATCTTAGGGTTTCGA
Found at i:13902829 original size:23 final size:23
Alignment explanation
Indices: 13902777--13902829 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
13902767 TTACTAAAAC
* * *
13902777 TTATTATTCTTATTATTTATTAT
1 TTATTTTTCTTATTATTTAATAA
13902800 TTATTTTTCTTATTATTTAATAA
1 TTATTTTTCTTATTATTTAATAA
*
13902823 TTCTTTT
1 TTATTTT
13902830 AACATCTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTTTCTTATTATTTAATAA
Found at i:13912626 original size:23 final size:24
Alignment explanation
Indices: 13912589--13912642 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
13912579 ATTTTTATAT
*
13912589 TTTATATTTGGATTATT-TATTTA
1 TTTATATTTGGATTATTATAATTA
**
13912612 TTTATATTTTTATTATTATAATTA
1 TTTATATTTGGATTATTATAATTA
*
13912636 TTAATAT
1 TTTATAT
13912643 GGCCATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTATATTTGGATTATTATAATTA
Found at i:13912916 original size:6 final size:6
Alignment explanation
Indices: 13912901--13912949 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
13912891 AGAAGCATTT
*
13912901 TTTTTG -TTTTG TTTTTG TTTGTGCTT TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTT-T--TG TTTTTG TTTTTG TTTTTG TTTTT
13912950 TTGCTTTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.14
6 26 0.70
7 1 0.03
8 1 0.03
9 4 0.11
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (6 bp):
TTTTTG
Found at i:13912957 original size:27 final size:27
Alignment explanation
Indices: 13912902--13912964 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
13912892 GAAGCATTTT
*
13912902 TTTTG-TTTTGTTTTTGTTTGTGCTT-T
1 TTTTGTTTTTGTTTTTGTTTGT-CTTGC
*
13912928 TTTTGTTTTTGTTTTTGTTT-TTTTGC
1 TTTTGTTTTTGTTTTTGTTTGTCTTGC
13912954 TTTTGCTTTTT
1 TTTTG-TTTTT
13912965 TTTAGTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 11 0.34
27 19 0.59
ACGTcount: A:0.00, C:0.05, G:0.16, T:0.79
Consensus pattern (27 bp):
TTTTGTTTTTGTTTTTGTTTGTCTTGC
Found at i:13912963 original size:21 final size:20
Alignment explanation
Indices: 13912898--13912964 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
13912888 CTAAGAAGCA
13912898 TTTTT-TTTGTTTTGTTTTTG
1 TTTTTGTTT-TTTTGTTTTTG
*
13912918 TTTGTGCTTTTTTTGTTTTTG
1 TTTTTG-TTTTTTTGTTTTTG
*
13912939 TTTTTGTTTTTTTGCTTTTG
1 TTTTTGTTTTTTTGTTTTTG
13912959 CTTTTT
1 -TTTTT
13912965 TTTAGTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 17 0.41
21 21 0.51
22 3 0.07
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.81
Consensus pattern (20 bp):
TTTTTGTTTTTTTGTTTTTG
Found at i:13913062 original size:35 final size:35
Alignment explanation
Indices: 13913021--13913360 Score: 208
Period size: 35 Copynumber: 9.7 Consensus size: 35
13913011 CATAAGTTAG
13913021 AAAATAAAAATGACTGAGATGAAACTGCAAGTCAA
1 AAAATAAAAATGACTGAGATGAAACTGCAAGTCAA
** * * *
13913056 TGAATAAAGATGACTTG-GA-CAAAAT-CAAAAGTCAA
1 AAAATAAAAATGAC-TGAGATGAAACTGC--AAGTCAA
* * *
13913091 AAAATAAAGATGACTGAGATAAAACTGCAAGTGAGA
1 AAAATAAAAATGACTGAGATGAAACTGCAAGTCA-A
* * * * *
13913127 AAAAGAAAAGATAACTGAGATG-AAGTCGTAAGTCGA
1 AAAATAAAA-ATGACTGAGATGAAACT-GCAAGTCAA
** * * *
13913163 GGAATAAAAATGA-TCAGGATGAAACCGTAAGTCAA
1 AAAATAAAAATGACTGA-GATGAAACTGCAAGTCAA
* * **
13913198 AAAATAAAAATGACCGAGATGAAGCCACAAGTCAA
1 AAAATAAAAATGACTGAGATGAAACTGCAAGTCAA
* * * *
13913233 AAAATAAAGATGACT-AGGATAAAACTGTAAGTCAT
1 AAAATAAAAATGACTGA-GATGAAACTGCAAGTCAA
* * * *
13913268 AAAATAAAAATGACTAAGATGAAGCTGCAAGTTAG
1 AAAATAAAAATGACTGAGATGAAACTGCAAGTCAA
* * * ** *
13913303 AAAATAAAGATGAC-CAGGATAAAACTATAAGCCAA
1 AAAATAAAAATGACTGA-GATGAAACTGCAAGTCAA
* *
13913338 AAAATAAAAATAACCGAGATGAA
1 AAAATAAAAATGACTGAGATGAA
13913361 GCCACAATTC
Statistics
Matches: 229, Mismatches: 60, Indels: 32
0.71 0.19 0.10
Matches are distributed among these distances:
33 1 0.00
34 10 0.04
35 173 0.76
36 29 0.13
37 16 0.07
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.17
Consensus pattern (35 bp):
AAAATAAAAATGACTGAGATGAAACTGCAAGTCAA
Found at i:13913218 original size:70 final size:68
Alignment explanation
Indices: 13913084--13913362 Score: 263
Period size: 70 Copynumber: 4.0 Consensus size: 68
13913074 ACAAAATCAA
* * * * * * *
13913084 AAGTCAAAAAATAAAGATGACTGAGATAAAACTGCAAGTGAGAAAAAGAAAAGATAACTGAGATG
1 AAGTCAAGAAATAAAGATGACAG-GATAAAACTGTAAGTCA-AAAAATAAAA-ATGACCGAGATG
*
13913149 AAGTCGT
63 AAG-CGC
* * * * *
13913156 AAGTCGAGGAATAAAAATGATCAGGATGAAACCGTAAGTCAAAAAATAAAAATGACCGAGATGAA
1 AAGTCAAGAAATAAAGATGA-CAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAA
*
13913221 GCCAC
65 G-CGC
* * **
13913226 AAGTCAAAAAATAAAGATGACTAGGATAAAACTGTAAGTCATAAAATAAAAATGACTAAGATGAA
1 AAGTCAAGAAATAAAGATGAC-AGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAA
13913291 GCTGC
65 GC-GC
* * * *
13913296 AAGT-TAGAAAATAAAGATGACCAGGATAAAACTATAAGCCAAAAAATAAAAATAACCGAGATGA
1 AAGTCAAG-AAATAAAGATGA-CAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGA
13913360 AGC
64 AGC
13913363 CACAATTCAG
Statistics
Matches: 169, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
69 3 0.02
70 125 0.74
71 10 0.06
72 29 0.17
73 2 0.01
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.16
Consensus pattern (68 bp):
AAGTCAAGAAATAAAGATGACAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAAG
CGC
Found at i:13913378 original size:70 final size:70
Alignment explanation
Indices: 13913165--13913381 Score: 274
Period size: 70 Copynumber: 3.1 Consensus size: 70
13913155 TAAGTCGAGG
* * * * *
13913165 AATAAAAATGATCAGGATGAAACCGTAAGTCAAAAAATAAAAATGACCGAGATGAAGCCACAAGT
1 AATAAAGATGACCAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAAGCCACAATT
*
13913230 CAAAA
66 CAGAA
* * ** **
13913235 AATAAAGATGACTAGGATAAAACTGTAAGTCATAAAATAAAAATGACTAAGATGAAGCTGCAAGT
1 AATAAAGATGACCAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAAGCCACAA-T
13913300 T-AGAA
65 TCAGAA
* * *
13913305 AATAAAGATGACCAGGATAAAACTATAAGCCAAAAAATAAAAATAACCGAGATGAAGCCACAATT
1 AATAAAGATGACCAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAAGCCACAATT
*
13913370 CAGCA
66 CAGAA
13913375 AATAAAG
1 AATAAAG
13913382 TTGATCAAGA
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
69 2 0.02
70 120 0.98
71 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.17, T:0.17
Consensus pattern (70 bp):
AATAAAGATGACCAGGATAAAACTGTAAGTCAAAAAATAAAAATGACCGAGATGAAGCCACAATT
CAGAA
Found at i:13913656 original size:35 final size:34
Alignment explanation
Indices: 13913469--13913728 Score: 154
Period size: 35 Copynumber: 7.4 Consensus size: 34
13913459 AATAAATATG
*** *
13913469 AAATAAAGATGA-TAGGGATGAAATTGTAAGTCAAG
1 AAATAAAGATGACTA-GGATGAAA-CACAAGTCAAA
* * * * *
13913504 AAATAAAAATAACTGGGATGAAACCACTAGTCAAT
1 AAATAAAGATGACTAGGATGAAA-CACAAGTCAAA
*
13913539 AAATAAAGATGATTATGGCA--AAACCACAAGTCAAA
1 AAATAAAGATGACTA-GG-ATGAAA-CACAAGTCAAA
* * *
13913574 AAATAAAGATAACTAGGACGAAGCAACAAGTCAAA
1 AAATAAAGATGACTAGGATGAAAC-ACAAGTCAAA
* *
13913609 AAATAAAAATGACTAGGATGAAATAGCAAGTCAAA
1 AAATAAAGATGACTAGGATGAAACA-CAAGTCAAA
* * * *
13913644 AAATAAAGATGACTTA-GTTGAAGC-CGTAAGTTAGA
1 AAATAAAGATGAC-TAGGATGAAACAC--AAGTCAAA
* * * *
13913679 AAATAAATATGATTAAGAT-AAAGCCATAAGTCAAA
1 AAATAAAGATGACTAGGATGAAA--CACAAGTCAAA
13913714 AAATAAAGATGACTA
1 AAATAAAGATGACTA
13913729 CTAATCTAGG
Statistics
Matches: 173, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
33 2 0.01
34 8 0.05
35 156 0.90
36 6 0.03
37 1 0.01
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (34 bp):
AAATAAAGATGACTAGGATGAAACACAAGTCAAA
Found at i:13913756 original size:22 final size:22
Alignment explanation
Indices: 13913728--13913787 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
13913718 AAAGATGACT
*
13913728 ACTAATCTAGGTTTACGTGCCA
1 ACTAATCTAGGTTTACATGCCA
*
13913750 ACTAATCTAGACTTT-CATGCCA
1 ACTAATCTAG-GTTTACATGCCA
*
13913772 ACTAATTCTACGTTTA
1 ACTAA-TCTAGGTTTA
13913788 TGTGTTAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 24 0.77
23 7 0.23
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (22 bp):
ACTAATCTAGGTTTACATGCCA
Found at i:13914085 original size:65 final size:65
Alignment explanation
Indices: 13913968--13914197 Score: 187
Period size: 66 Copynumber: 3.5 Consensus size: 65
13913958 CATTTCATAA
* * * * * ** *
13913968 GTGCTAGATAAATTGGGCTT-AAATTTAACTGGGTTCAAG-ATAATACGAGGCTTAAATCTTCAT
1 GTGCTAGCTAAATTGGGCTTAAAATTTCATTGGGTGCTAGCA-AA-ACTTGGCTTAAATCTTAAT
13914031 TG
64 TG
* * * * * **
13914033 GTGCCAACTAAATTGGTCTTAAATATTTCATTGGGTGCTTGCAAAAC-TGGCTTAAAACTTTTTT
1 GTGCTAGCTAAATTGGGCTTAAA-ATTTCATTGGGTGCTAGCAAAACTTGGCTTAAATCTTAATT
13914097 G
65 G
** * * * *
13914098 GTTGCTAGCTAGTTTGGGCTTAAACTTTCATTGAGTGCTAGCTAAACTTGGCTTAAATTTTAACT
1 G-TGCTAGCTAAATTGGGCTTAAAATTTCATTGGGTGCTAGCAAAACTTGGCTTAAATCTTAA-T
13914163 TG
64 TG
* *
13914165 GTGCTAGCTAAGTTGGGCTTAAAACTTCATTGG
1 GTGCTAGCTAAATTGGGCTTAAAATTTCATTGG
13914198 TGCCAAATAA
Statistics
Matches: 128, Mismatches: 31, Indels: 11
0.75 0.18 0.06
Matches are distributed among these distances:
65 50 0.39
66 59 0.46
67 18 0.14
68 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (65 bp):
GTGCTAGCTAAATTGGGCTTAAAATTTCATTGGGTGCTAGCAAAACTTGGCTTAAATCTTAATTG
Found at i:13914118 original size:33 final size:31
Alignment explanation
Indices: 13914081--13914187 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 31
13914071 TTGCAAAACT
13914081 GGCTTAAAACTTTTTTGGTTGCTAGCT-AGTTTG
1 GGCTT-AAACTTTTTTGG-TGCTAGCTAAG-TTG
* *
13914114 GGCTTAAACTTTCATTGAGTGCTAGCTAAACTT-
1 GGCTTAAACTTT-TTTG-GTGCTAGCT-AAGTTG
13914147 GGCTTAAA-TTTTAACTTGGTGCTAGCTAAGTTG
1 GGCTTAAACTTTT---TTGGTGCTAGCTAAGTTG
13914180 GGCTTAAA
1 GGCTTAAA
13914188 ACTTCATTGG
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
32 14 0.23
33 41 0.66
34 6 0.10
35 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (31 bp):
GGCTTAAACTTTTTTGGTGCTAGCTAAGTTG
Found at i:13914314 original size:33 final size:33
Alignment explanation
Indices: 13914229--13914314 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 33
13914219 AAGCTGAGTA
* * *
13914229 CCAGCTAAATTAGGCTTAAATCTTTCTTAAGTG
1 CCAGCTAAACTAGGCTTAAATCTTTCATAAGAG
*** **
13914262 CCAAAAAAACTAGATTTAAAT-TTTCATAGAGAG
1 CCAGCTAAACTAGGCTTAAATCTTTCATA-AGAG
13914295 CCAGCTAAACTAGGCTTAAA
1 CCAGCTAAACTAGGCTTAAA
13914315 ATGGTGCTAG
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
32 6 0.15
33 33 0.85
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
CCAGCTAAACTAGGCTTAAATCTTTCATAAGAG
Found at i:13915247 original size:9 final size:9
Alignment explanation
Indices: 13915229--13915287 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 9
13915219 CAACCATTAA
13915229 TTTC-TTTT
1 TTTCTTTTT
13915237 TTTCTTTTT
1 TTTCTTTTT
13915246 TTTCTATTTCTT
1 TTTC--TTT-TT
13915258 TTTCTTTGTT
1 TTTCTTT-TT
*
13915268 TTTCTTTCT
1 TTTCTTTTT
13915277 TTTCATTTTT
1 TTTC-TTTTT
13915287 T
1 T
13915288 CACTTTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
8 4 0.09
9 13 0.30
10 17 0.40
11 3 0.07
12 6 0.14
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:13915257 original size:15 final size:15
Alignment explanation
Indices: 13915237--13915284 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
13915227 AATTTCTTTT
13915237 TTTCTTTTTTTTCTA
1 TTTCTTTTTTTTCTA
* *
13915252 TTTCTTTTTCTTTGTT
1 TTTCTTTTT-TTTCTA
*
13915268 TTTCTTTCTTTTC-A
1 TTTCTTTTTTTTCTA
13915282 TTT
1 TTT
13915285 TTTCACTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.11
15 12 0.44
16 12 0.44
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTTTCTA
Found at i:13915957 original size:25 final size:25
Alignment explanation
Indices: 13915911--13915959 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13915901 AATTTATTAT
*
13915911 GAGAAAAGGGTAATGTGAAATGAAG
1 GAGAAAAGGGTAATATGAAATGAAG
* *
13915936 GAGAAAAGGGTCATATGGAATGAA
1 GAGAAAAGGGTAATATGAAATGAA
13915960 CCCATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.35, T:0.16
Consensus pattern (25 bp):
GAGAAAAGGGTAATATGAAATGAAG
Found at i:13916545 original size:14 final size:14
Alignment explanation
Indices: 13916526--13916573 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
13916516 CTTTTTCCAT
13916526 TTTTTTCCTTTTTC
1 TTTTTTCCTTTTTC
13916540 TTTTTTCTCTTTTT-
1 TTTTTTC-CTTTTTC
*
13916554 TTTTTTACTTTTTC
1 TTTTTTCCTTTTTC
13916568 ATTTTT
1 -TTTTT
13916574 AAAGGTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.20
14 13 0.43
15 11 0.37
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCCTTTTTC
Found at i:13916545 original size:15 final size:14
Alignment explanation
Indices: 13916513--13916573 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
13916503 ATCACAAAAC
13916513 TTTCTTTTTCCATTTT
1 TTTCTTTTT-C-TTTT
13916529 TTTCCTTTTTCTTTT
1 TTT-CTTTTTCTTTT
13916544 TTCTCTTTTT-TTTT
1 TT-TCTTTTTCTTTT
*
13916558 TTACTTTTTCATTTT
1 TTTCTTTTTC-TTTT
13916573 T
1 T
13916574 AAAGGTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
13 6 0.15
14 6 0.15
15 17 0.43
16 5 0.12
17 6 0.15
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:13917413 original size:49 final size:49
Alignment explanation
Indices: 13917341--13917442 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 49
13917331 TCATTTCGCC
* * * *
13917341 CTTCAACAATAATCTTTTGGGCATATC-CTTCGAAAATATTCCCTTGCCT
1 CTTCAACAATAATCTTTTAGGCATATCTATTAG-AAATATTCCCTTACCT
*
13917390 CTTCAACAATTATCTTTTAGGCATATCTATTAGAAATATTCCCTTACCT
1 CTTCAACAATAATCTTTTAGGCATATCTATTAGAAATATTCCCTTACCT
13917439 -TTCA
1 CTTCA
13917443 TTAGGAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
48 4 0.09
49 40 0.85
50 3 0.06
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (49 bp):
CTTCAACAATAATCTTTTAGGCATATCTATTAGAAATATTCCCTTACCT
Found at i:13920552 original size:26 final size:25
Alignment explanation
Indices: 13920492--13920550 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
13920482 ATGTATTTTT
13920492 TTAAGAAATTAAAAAAAAGAATTAAA
1 TTAA-AAATTAAAAAAAAGAATTAAA
**
13920518 TTAAAAATTAAATAAAACTAATTAAA
1 TTAAAAATTAAA-AAAAAGAATTAAA
13920544 TCTAAAA
1 T-TAAAA
13920551 TTTTTAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.28
26 16 0.55
27 5 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (25 bp):
TTAAAAATTAAAAAAAAGAATTAAA
Found at i:13921622 original size:25 final size:27
Alignment explanation
Indices: 13921565--13921627 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
13921555 TTAGGGTTTT
*
13921565 GATTTAGTGTTTTACTCTTAAGGCTTC
1 GATTTAGGGTTTTACTCTTAAGGCTTC
*
13921592 GATTTAGGGTTTTAC-C-TAAGGTTTC
1 GATTTAGGGTTTTACTCTTAAGGCTTC
13921617 -ATTTTAGGGTT
1 GA-TTTAGGGTT
13921628 CTAGGTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 1 0.03
25 17 0.52
26 1 0.03
27 14 0.42
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (27 bp):
GATTTAGGGTTTTACTCTTAAGGCTTC
Found at i:13923668 original size:3 final size:3
Alignment explanation
Indices: 13923660--13923688 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13923650 TTTGATATTT
13923660 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13923689 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13923695 original size:3 final size:3
Alignment explanation
Indices: 13923689--13923730 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13923679 AATAATAATA
13923689 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13923731 ATATGTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13929077 original size:25 final size:25
Alignment explanation
Indices: 13929049--13929103 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
13929039 CCCAGTTAAT
13929049 ATAATGCT-AACTTAGTTGATTTTTG
1 ATAA-GCTAAACTTAGTTGATTTTTG
*
13929074 ATAAGTTAAACTTAGTTGATTTTTG
1 ATAAGCTAAACTTAGTTGATTTTTG
13929099 ATAAG
1 ATAAG
13929104 TTAATCAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (25 bp):
ATAAGCTAAACTTAGTTGATTTTTG
Found at i:13929104 original size:25 final size:25
Alignment explanation
Indices: 13929057--13929107 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
13929047 ATATAATGCT
13929057 AACTTAGTTGATTTTTGATAAGTTA
1 AACTTAGTTGATTTTTGATAAGTTA
13929082 AACTTAGTTGATTTTTGATAAGTTA
1 AACTTAGTTGATTTTTGATAAGTTA
13929107 A
1 A
13929108 TCAAGTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (25 bp):
AACTTAGTTGATTTTTGATAAGTTA
Found at i:13930021 original size:44 final size:44
Alignment explanation
Indices: 13929958--13930055 Score: 160
Period size: 44 Copynumber: 2.2 Consensus size: 44
13929948 TTTTTTACAT
* *
13929958 AGATTATATGTATGGATTAGAGATGGACTAATTTCACATGTATA
1 AGATTGTATATATGGATTAGAGATGGACTAATTTCACATGTATA
*
13930002 AGATTGTATATATGGATTAGAGATGGATTAATTTCACATGTATA
1 AGATTGTATATATGGATTAGAGATGGACTAATTTCACATGTATA
13930046 AGAATTGTAT
1 AG-ATTGTAT
13930056 GAAATTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
44 43 0.86
45 7 0.14
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (44 bp):
AGATTGTATATATGGATTAGAGATGGACTAATTTCACATGTATA
Found at i:13932427 original size:313 final size:313
Alignment explanation
Indices: 13931859--13932464 Score: 840
Period size: 313 Copynumber: 1.9 Consensus size: 313
13931849 TAACAAGTAA
*
13931859 CTAAAAACTTCAAGACTTTTAAAACTACTCAAAGTCAAGAAAAGAGGAGATGTACCATTTAAGAA
1 CTAAAAACTTCAAAACTTTTAAAACTACTCAAAGTCAAGAAAAGAGGAGATGTACCATTTAAGAA
* * * * * * *
13931924 AGCAGCTCAAGTTAGGACGTTGAGAGCTAATTGAAAGAGTTTAAAAGAAAATAAGACTATTCTTA
66 AACAGCTCAAGTTAAGACGTTGAAAACTAATCGAAAGAGTTTAAAAGAAAAGAAAACTATTCTTA
* * * *** * *
13931989 ATAAAAAGAGGTTAGTTGTATGACACTCTTGTCATGTAAGTGCCTAGTCAACAAAATTAAAGACA
131 ACAAAAAGAAGCTAGCCATATGACACTCTTGTCATGTAAGTACCAAGTCAACAAAATTAAAGACA
* * *
13932054 AGTTAGCACTTAATGTTTCAAAGAATCAATCTATATACATTAAGAAAGCCAAGATAAATTAGCAC
196 AGTCAGCACTTAATGTTTCAAAGAATCAATCTACATACATTAAAAAAGCCAAGATAAATTAGCAC
*
13932119 AACAAAGATTTAAGTCAAGAAGACTTATTCATTCAAGAATTAAAGCTTGGTAG
261 AACAAAGATTCAAGTCAAGAAGACTTATTCATTCAAGAATTAAAGCTTGGTAG
* * * *
13932172 CTAAAAACTTTAAAACTTTTAAAACTTCTCAAAGTCAAGAAAATAGGAGATTTACCATTTAAGAA
1 CTAAAAACTTCAAAACTTTTAAAACTACTCAAAGTCAAGAAAAGAGGAGATGTACCATTTAAGAA
* *
13932237 AACAGCTCACA-TTAAGAC-TTCGAAAACTACTCGAAAGAGTTTAAAAGAGAAGAAAACTATTCT
66 AACAGCTCA-AGTTAAGACGTT-GAAAACTAATCGAAAGAGTTTAAAAGAAAAGAAAACTATTCT
* * * * * * *
13932300 TAAC-AAAAGAAAGCTAGCCATATGAGATTTTTGTCTTGTAAGTACCAAGTCAATAAGATTGAAG
129 TAACAAAAAG-AAGCTAGCCATATGACACTCTTGTCATGTAAGTACCAAGTCAACAAAATTAAAG
*
13932364 ACAAGTCAGCACTTAATGTTTCCAAGAATCAATCTACATACATTAAAAAAGCCAAGATAAATTAG
193 ACAAGTCAGCACTTAATGTTTCAAAGAATCAATCTACATACATTAAAAAAGCCAAGATAAATTAG
* *
13932429 CACAACATAGATTCAAGTCAAGAAGACTTTTTCATT
258 CACAACAAAGATTCAAGTCAAGAAGACTTATTCATT
13932465 TAAAAATTTA
Statistics
Matches: 254, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
312 7 0.03
313 246 0.97
314 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (313 bp):
CTAAAAACTTCAAAACTTTTAAAACTACTCAAAGTCAAGAAAAGAGGAGATGTACCATTTAAGAA
AACAGCTCAAGTTAAGACGTTGAAAACTAATCGAAAGAGTTTAAAAGAAAAGAAAACTATTCTTA
ACAAAAAGAAGCTAGCCATATGACACTCTTGTCATGTAAGTACCAAGTCAACAAAATTAAAGACA
AGTCAGCACTTAATGTTTCAAAGAATCAATCTACATACATTAAAAAAGCCAAGATAAATTAGCAC
AACAAAGATTCAAGTCAAGAAGACTTATTCATTCAAGAATTAAAGCTTGGTAG
Found at i:13932979 original size:51 final size:52
Alignment explanation
Indices: 13932918--13933035 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 52
13932908 TTTAAATTTC
* * * *
13932918 AATTTCAATTTCAAGTTTTTATTTCTATTTTCTTTGCAATTTTTAATTTTAG
1 AATTTAAATTTCAAGTTTCTATTTCTATTTTATTTGCAATCTTTAATTTTAG
*
13932970 ATTTAAATTTAAATTTCAAGTTTCTATTTCTCTTTTATTTGCAATCTTTAATTTTAG
1 -----AATTTAAATTTCAAGTTTCTATTTCTATTTTATTTGCAATCTTTAATTTTAG
13933027 -ATTTAAATT
1 AATTTAAATT
13933036 ATTTTTAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 9 0.16
57 47 0.84
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (52 bp):
AATTTAAATTTCAAGTTTCTATTTCTATTTTATTTGCAATCTTTAATTTTAG
Found at i:13942731 original size:22 final size:22
Alignment explanation
Indices: 13942706--13942749 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13942696 TATGTATTTA
* *
13942706 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
13942728 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
13942750 GATAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:13943041 original size:25 final size:25
Alignment explanation
Indices: 13943008--13943069 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
13942998 AACTTCTATT
13943008 TTAAG-CCTTCATTGTCGAACCTTG
1 TTAAGACCTTCATTGTCGAACCTTG
* *
13943032 TTTAGACCTTCATTGTCGAATCTTG
1 TTAAGACCTTCATTGTCGAACCTTG
*
13943057 TTAAGGCCTTCAT
1 TTAAGACCTTCAT
13943070 AGCCATTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (25 bp):
TTAAGACCTTCATTGTCGAACCTTG
Found at i:13946815 original size:22 final size:22
Alignment explanation
Indices: 13946789--13946832 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13946779 TATGTATTTA
* *
13946789 TATTTGTATCTCTGGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
13946811 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
13946833 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:13954643 original size:20 final size:19
Alignment explanation
Indices: 13954618--13954661 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
13954608 AAACCATGAA
13954618 AATTTTAAAACATATATTTT-
1 AATTTTAAAA-A-ATATTTTG
13954638 AATTTTTAAAAAATATTTTG
1 AA-TTTTAAAAAATATTTTG
13954658 AATT
1 AATT
13954662 AAAAATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
AATTTTAAAAAATATTTTG
Found at i:13954646 original size:21 final size:20
Alignment explanation
Indices: 13954620--13954661 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
13954610 ACCATGAAAA
13954620 TTTTAAAACATATATTTT-AAT
1 TTTTAAAA-A-ATATTTTGAAT
13954641 TTTTAAAAAATATTTTGAAT
1 TTTTAAAAAATATTTTGAAT
13954661 T
1 T
13954662 AAAAATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 5 0.25
21 8 0.40
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAATATTTTGAAT
Found at i:13955826 original size:22 final size:23
Alignment explanation
Indices: 13955801--13955843 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
13955791 ACATTATTTA
13955801 ATTTAATTCTAT-TTATAATATT
1 ATTTAATTCTATCTTATAATATT
*
13955823 ATTTTATTCTATCTTATAATA
1 ATTTAATTCTATCTTATAATA
13955844 ATCTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTAATTCTATCTTATAATATT
Found at i:13957327 original size:16 final size:16
Alignment explanation
Indices: 13957293--13957342 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
13957283 GAAATGCTCT
13957293 AAAATTATAAATAATA
1 AAAATTATAAATAATA
* *
13957309 AAAAGTTATAATTAAAA
1 AAAA-TTATAAATAATA
*
13957326 AAAATTAT-TATAATA
1 AAAATTATAAATAATA
13957341 AA
1 AA
13957343 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 14 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAATTATAAATAATA
Found at i:13958691 original size:71 final size:72
Alignment explanation
Indices: 13958582--13958747 Score: 183
Period size: 71 Copynumber: 2.3 Consensus size: 72
13958572 AACCAGTACT
* * *
13958582 ATATTTTTAAAATAAAAAAATAAAATAGATGTTGAAATTATATTTTTAAAATTTTAATATCTTAA
1 ATATTTTTAAAAT-AAAAAATAAAATAGATATTAAAATTATATTTTTAAAATTTTAAAATCTTAA
13958647 TAAAAATC
65 TAAAAATC
* * * * * *
13958655 ATATTTTTTAAAT-AAAAATATAGTAGATATTAAAATTTTATTTTTGAAATTTTAAAATTTTAAT
1 ATATTTTTAAAATAAAAAATAAAATAGATATTAAAATTATATTTTTAAAATTTTAAAATCTTAAT
* *
13958719 AAAGATT
66 AAAAATC
* *
13958726 ACT-TTTTTAAGACAAAAAATAA
1 A-TATTTTTAAAATAAAAAATAA
13958748 TAAATATTGT
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
71 56 0.74
72 8 0.11
73 12 0.16
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (72 bp):
ATATTTTTAAAATAAAAAATAAAATAGATATTAAAATTATATTTTTAAAATTTTAAAATCTTAAT
AAAAATC
Found at i:13958854 original size:37 final size:38
Alignment explanation
Indices: 13958779--13958856 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
13958769 AAATTAAAAT
*
13958779 AAAATATAAAATATTTTTATTTAATACTATCATATATA
1 AAAATATAAAATATTTTTATTTAATACTATAATATATA
* *
13958817 AAAATTTAAAATA-TTTTATTTAATATTAATAAT-TATA
1 AAAATATAAAATATTTTTATTTAATACT-ATAATATATA
13958854 AAA
1 AAA
13958857 TTTGTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 20 0.56
38 16 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (38 bp):
AAAATATAAAATATTTTTATTTAATACTATAATATATA
Found at i:13968255 original size:90 final size:90
Alignment explanation
Indices: 13968105--13968272 Score: 255
Period size: 90 Copynumber: 1.9 Consensus size: 90
13968095 AAGGGTAGCT
* * *
13968105 ACCCAACTCGATTTCTCAAACCTCAAAGTAAGGACTTATGAGTGCCTATCAGGCTTTTGTGCACT
1 ACCCAACTCAATTTCTCAAACCTCAAAGCAAGGACTTATGAGTGCCTATCAGGCTCTTGTGCACT
13968170 ATTACAAGACCCAGCTGAGGTAGTA
66 ATTACAAGACCCAGCTGAGGTAGTA
* ** * *
13968195 ACCCAACTCAATTTCTCAAATCTTGAAGCAGGGACTTATGAGTGCCTATTAGGCTCTTGTGCACT
1 ACCCAACTCAATTTCTCAAACCTCAAAGCAAGGACTTATGAGTGCCTATCAGGCTCTTGTGCACT
*
13968260 ATTATAAGACCCA
66 ATTACAAGACCCA
13968273 ACAAGACCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (90 bp):
ACCCAACTCAATTTCTCAAACCTCAAAGCAAGGACTTATGAGTGCCTATCAGGCTCTTGTGCACT
ATTACAAGACCCAGCTGAGGTAGTA
Found at i:13968911 original size:16 final size:17
Alignment explanation
Indices: 13968886--13968918 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13968876 AAGAAAGAGC
13968886 TTTTT-TTTTTTGATAA
1 TTTTTATTTTTTGATAA
13968902 TTTTTATTTTTTGATAA
1 TTTTTATTTTTTGATAA
13968919 AATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTTTGATAA
Found at i:13980123 original size:20 final size:19
Alignment explanation
Indices: 13980090--13980139 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
13980080 GAATAGCTCG
13980090 AAAAGAAGACAGCAAATCAAA
1 AAAAGAAG--AGCAAATCAAA
13980111 AAAAGGAAGAGCAAATCAAA
1 AAAA-GAAGAGCAAATCAAA
13980131 AAAAGAAGA
1 AAAAGAAGA
13980140 CAGTTACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.18
20 15 0.54
21 4 0.14
22 4 0.14
ACGTcount: A:0.68, C:0.10, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAAGAAGAGCAAATCAAA
Found at i:13980131 original size:19 final size:20
Alignment explanation
Indices: 13980090--13980139 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
13980080 GAATAGCTCG
13980090 AAAAGAAGACAGCAAATCAAAA
1 AAAAGAAG--AGCAAATCAAAA
*
13980112 AAAGGAAGAGCAAATC-AAA
1 AAAAGAAGAGCAAATCAAAA
13980131 AAAAGAAGA
1 AAAAGAAGA
13980140 CAGTTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 11 0.42
20 8 0.31
22 7 0.27
ACGTcount: A:0.68, C:0.10, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAAGAAGAGCAAATCAAAA
Found at i:13985673 original size:16 final size:16
Alignment explanation
Indices: 13985654--13985700 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
13985644 GAAATTTTTT
13985654 GCTTAAAAAAAGAAAA
1 GCTTAAAAAAAGAAAA
13985670 GCTTAAAACAAA-AAAA
1 GCTTAAAA-AAAGAAAA
*
13985686 -TTTAAAAAAAGAAAA
1 GCTTAAAAAAAGAAAA
13985701 AAATGAGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 12 0.43
17 3 0.11
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (16 bp):
GCTTAAAAAAAGAAAA
Found at i:13986985 original size:35 final size:34
Alignment explanation
Indices: 13986878--13986986 Score: 139
Period size: 35 Copynumber: 3.2 Consensus size: 34
13986868 CCCAATCTTA
*
13986878 TTTATTCTTCGACTCA-AATTCAATCATATTATT
1 TTTATTCTTCGACTCATAATTCAATCCTATTATT
* * * *
13986911 TTCATTCTTCGACTCATAATTTAATCCTAGTCTT
1 TTTATTCTTCGACTCATAATTCAATCCTATTATT
*
13986945 ATTTATTCTTCGACTCATAGTTCAATCCTGATTATT
1 -TTTATTCTTCGACTCATAATTCAATCCT-ATTATT
13986981 TTTATT
1 TTTATT
13986987 TTCATTCTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
33 15 0.24
34 13 0.21
35 31 0.49
36 4 0.06
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (34 bp):
TTTATTCTTCGACTCATAATTCAATCCTATTATT
Found at i:13986998 original size:41 final size:37
Alignment explanation
Indices: 13986873--13987007 Score: 115
Period size: 35 Copynumber: 3.8 Consensus size: 37
13986863 TTGATCCCAA
*
13986873 TCTTA-TTT-ATTCTTCGACTCA-AATTCAAT-C-A-
1 TCTTATTTTCATTCTTCGACTCATAGTTCAATCCTAG
* * *
13986904 TATTATTTTCATTCTTCGACTCATAATTTAATCCTAG
1 TCTTATTTTCATTCTTCGACTCATAGTTCAATCCTAG
*
13986941 TCTTA-TTT-ATTCTTCGACTCATAGTTCAATCCTGATTAT
1 TCTTATTTTCATTCTTCGACTCATAGTTCAATCC----TAG
* *
13986980 TTTTATTTTCATTCTTCGACTCAAAGTT
1 TCTTATTTTCATTCTTCGACTCATAGTT
13987008 TGGTCCTCAG
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
31 4 0.05
32 3 0.04
33 13 0.15
34 7 0.08
35 23 0.27
36 4 0.05
37 4 0.05
39 6 0.07
40 3 0.04
41 17 0.20
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (37 bp):
TCTTATTTTCATTCTTCGACTCATAGTTCAATCCTAG
Found at i:13987059 original size:77 final size:75
Alignment explanation
Indices: 13986898--13987064 Score: 169
Period size: 77 Copynumber: 2.2 Consensus size: 75
13986888 GACTCAAATT
* *
13986898 CAATCA-TATTATTTTCATTCTTCGACTCATAATTTAATCCTAGTCTTATTTATTCTTCGACTCA
1 CAATCATTTTTATTTTCATTCTTCGACTCATAATTTAATCCTAGTCTTATTTATTCTTCAACTCA
13986962 TAGTTCAATC
66 TAGTTCAATC
* * ** *
13986972 CTGATTATTTTTATTTTCATTCTTCGACTCA-AAGTTTGGTCCTCAGTCATT-TTTATTCTTTAA
1 C-AATCATTTTTATTTTCATTCTTCGACTCATAA-TTTAATCCT-AGTC-TTATTTATTCTTCAA
** *
13987035 CTTGTAGTTCAATAG
62 CTCATAGTTCAAT-C
*
13987050 CAATCATTTTCATTT
1 CAATCATTTTTATTT
13987065 CCTGACTTAC
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
74 1 0.01
75 5 0.07
76 29 0.39
77 36 0.49
78 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.49
Consensus pattern (75 bp):
CAATCATTTTTATTTTCATTCTTCGACTCATAATTTAATCCTAGTCTTATTTATTCTTCAACTCA
TAGTTCAATC
Found at i:13987197 original size:70 final size:69
Alignment explanation
Indices: 13987015--13987204 Score: 186
Period size: 70 Copynumber: 2.7 Consensus size: 69
13987005 GTTTGGTCCT
* * * * *
13987015 CAGTCATTTTTATTCTTTAACTTGTAGTTCAATAGCAATCATTTTCATTTCCTGACTTACGGCTC
1 CAGTCATATTTATTCTTAAACTTGTGGTTCAAT-CCAATCATTTTCATTTCCTGACTTACAGCTC
13987080 AATCC
65 AATCC
* * *
13987085 CAATCATATTTATT-TGTAAACTTGTGGTTCAATCTAGGTCATTTTCATTT-CTCGACTTACAGC
1 CAGTCATATTTATTCT-TAAACTTGTGGTTCAATCCA-ATCATTTTCATTTCCT-GACTTACAGC
* **
13987148 TCAGTTT
63 TCAATCC
* * * *
13987155 TAGTCATATTTATTCTTCAACTTGTGGCTCAATCCCAATCATTTTTATTT
1 CAGTCATATTTATTCTTAAACTTGTGGTTCAAT-CCAATCATTTTCATTT
13987205 TTCAACTAGT
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
69 4 0.04
70 90 0.93
71 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.45
Consensus pattern (69 bp):
CAGTCATATTTATTCTTAAACTTGTGGTTCAATCCAATCATTTTCATTTCCTGACTTACAGCTCA
ATCC
Found at i:13987202 original size:35 final size:35
Alignment explanation
Indices: 13987158--13987235 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
13987148 TCAGTTTTAG
* *
13987158 TCATATTTATTCTTCAACTTGTGGCTCAATCCCAA
1 TCATTTTTATTCTTCAACTAGTGGCTCAATCCCAA
* * * * *
13987193 TCATTTTTATTTTTCAACTAGTGGTTTAATCCTAG
1 TCATTTTTATTCTTCAACTAGTGGCTCAATCCCAA
13987228 TCATTTTT
1 TCATTTTT
13987236 TATTTTTGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (35 bp):
TCATTTTTATTCTTCAACTAGTGGCTCAATCCCAA
Found at i:13987618 original size:25 final size:23
Alignment explanation
Indices: 13987575--13987621 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
13987565 AAGCCTAAAC
13987575 AAAGCCCATTTAAAGCCCATAAG
1 AAAGCCCATTTAAAGCCCATAAG
13987598 AAAGCCCACTTTAAAAGCCCATAA
1 AAAGCCCA-TTT-AAAGCCCATAA
13987622 ATGCATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.36
24 3 0.14
25 11 0.50
ACGTcount: A:0.45, C:0.28, G:0.11, T:0.17
Consensus pattern (23 bp):
AAAGCCCATTTAAAGCCCATAAG
Found at i:13987728 original size:30 final size:30
Alignment explanation
Indices: 13987694--13987750 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
13987684 ACTCTTTTGC
13987694 ATGAGATTTATATGGAGACTACATTTTTAA
1 ATGAGATTTATATGGAGACTACATTTTTAA
13987724 ATGAGATTTATATGGAGACTACATTTT
1 ATGAGATTTATATGGAGACTACATTTT
13987751 CACAGGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (30 bp):
ATGAGATTTATATGGAGACTACATTTTTAA
Found at i:13990312 original size:3 final size:3
Alignment explanation
Indices: 13990306--13990331 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13990296 CAACAACAAC
13990306 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13990332 ATGTTATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14004155 original size:20 final size:20
Alignment explanation
Indices: 14004126--14004165 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14004116 TTCTTTATGG
*
14004126 ATTTTGCTATTTTAGACATA
1 ATTTTACTATTTTAGACATA
*
14004146 ATTTTACTATTTTATACATA
1 ATTTTACTATTTTAGACATA
14004166 GAGGATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTTTACTATTTTAGACATA
Found at i:14006381 original size:20 final size:20
Alignment explanation
Indices: 14006356--14006396 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14006346 AAGCTGATAC
14006356 AATCACAGAATATCCATAAA
1 AATCACAGAATATCCATAAA
14006376 AATCACAGAATATCCATAAA
1 AATCACAGAATATCCATAAA
14006396 A
1 A
14006397 GGAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.20
Consensus pattern (20 bp):
AATCACAGAATATCCATAAA
Found at i:14006506 original size:31 final size:32
Alignment explanation
Indices: 14006419--14006509 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 32
14006409 ATATGTAAAG
* *
14006419 TAACTAAAATCAATTAAAACAAA-ATA-TATCA
1 TAACTAAAATCAAATAAAACAAACA-AGTAACA
* * * *
14006450 AAATTAAAATTCTAATAAAAAAAACAAGTAAC-
1 TAACTAAAA-TCAAATAAAACAAACAAGTAACA
14006482 TAACTAAAATCAAATAAAACAAACAAGT
1 TAACTAAAATCAAATAAAACAAACAAGT
14006510 CATGAAAAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
31 24 0.51
32 19 0.40
33 4 0.09
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (32 bp):
TAACTAAAATCAAATAAAACAAACAAGTAACA
Found at i:14010179 original size:13 final size:13
Alignment explanation
Indices: 14010153--14010207 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
14010143 ACCCTACATC
14010153 AAACCTAAAA-CCT
1 AAACC-AAAACCCT
*
14010166 AAACCCAAACCCT
1 AAACCAAAACCCT
*
14010179 AAACTAAAACCCT
1 AAACCAAAACCCT
*
14010192 AAATCAAAACCCT
1 AAACCAAAACCCT
14010205 AAA
1 AAA
14010208 TTAAACAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
12 3 0.08
13 33 0.92
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.13
Consensus pattern (13 bp):
AAACCAAAACCCT
Found at i:14010185 original size:25 final size:26
Alignment explanation
Indices: 14010157--14010212 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
14010147 TACATCAAAC
*
14010157 CTAAAA-CCTAAACCCAAACCCTAAA
1 CTAAAACCCTAAACCAAAACCCTAAA
*
14010182 CTAAAACCCTAAATCAAAACCCTAAA
1 CTAAAACCCTAAACCAAAACCCTAAA
*
14010208 TTAAA
1 CTAAA
14010213 CAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (26 bp):
CTAAAACCCTAAACCAAAACCCTAAA
Found at i:14010219 original size:25 final size:25
Alignment explanation
Indices: 14010172--14010233 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
14010162 ACCTAAACCC
** *
14010172 AAACCCTAAACTAAAACCCTAAATCA
1 AAACCCTAAACTAAAACAATAAA-AA
*
14010198 AAACCCTAAA-TTAAACAATAAAAA
1 AAACCCTAAACTAAAACAATAAAAA
14010222 ACAACCCTAAAC
1 A-AACCCTAAAC
14010234 CTTAACTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 2 0.07
25 18 0.60
26 10 0.33
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (25 bp):
AAACCCTAAACTAAAACAATAAAAA
Found at i:14010412 original size:27 final size:27
Alignment explanation
Indices: 14010374--14010431 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
14010364 GTGATTCATA
*
14010374 TTATACTGTCATGCAT-TCAT-CATATT
1 TTATAATGTCATGCATCTCATGCAT-TT
14010400 TTATAATGTTCATGCATCTCATGCATTT
1 TTATAATG-TCATGCATCTCATGCATTT
14010428 TTAT
1 TTAT
14010432 TTAAAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 7 0.25
27 8 0.29
28 10 0.36
29 3 0.11
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (27 bp):
TTATAATGTCATGCATCTCATGCATTT
Found at i:14011429 original size:25 final size:25
Alignment explanation
Indices: 14011392--14011474 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
14011382 GTGTGTTTTT
* *
14011392 TGTCATTTTATGCAGATTTTAATTA
1 TGTCATTTCATGCATATTTTAATTA
* *
14011417 TGCCATTTCATGCATATTTTGATTA
1 TGTCATTTCATGCATATTTTAATTA
*
14011442 TGTCATTTCATGCATCTTTTAATTA
1 TGTCATTTCATGCATATTTTAATTA
14011467 TGTCATTT
1 TGTCATTT
14011475 ATTATGTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (25 bp):
TGTCATTTCATGCATATTTTAATTA
Found at i:14023087 original size:47 final size:47
Alignment explanation
Indices: 14022950--14023090 Score: 149
Period size: 48 Copynumber: 3.0 Consensus size: 47
14022940 AAACCAAATT
* *
14022950 AGCCCTTTTCTAGAAAGATTTTTAAAGTTTGTTACTTATTTTCATAAG
1 AGCCC-TTTCAAGAAAGATTTTTAAAGTTTGTTACCTATTTTCATAAG
* * * **
14022998 AG-TCTTTTATTGAAAGATTATTTAAAGTTTGTTTTCTATTTTCATAAG
1 AGCCCTTTCA-AGAAAGATT-TTTAAAGTTTGTTACCTATTTTCATAAG
* ** *
14023046 AGCCCTTTCAAGATAGATTTTTAAAGTTCATTGCCTATTTTCATA
1 AGCCCTTTCAAGAAAGATTTTTAAAGTTTGTTACCTATTTTCATA
14023091 GCTTATTTTC
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
46 3 0.04
47 31 0.41
48 36 0.48
49 5 0.07
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (47 bp):
AGCCCTTTCAAGAAAGATTTTTAAAGTTTGTTACCTATTTTCATAAG
Found at i:14023173 original size:108 final size:108
Alignment explanation
Indices: 14022984--14023199 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
14022974 AAGTTTGTTA
14022984 CTTATTTTCATAAGAGTCTTTTATTGAAAGATTATTTAAAGTTTGTTTTCTATTTTCATAAGAGC
1 CTTATTTTCATAAGAGTCTTTTATTGAAAGATTATTTAAAGTTTGTTTTCTATTTTCATAAGAGC
*
14023049 CCTTTCAAGATAGATTTTTAAAGTTCATTGCCTATTTTCATAG
66 CCTTTCAAGAGAGATTTTTAAAGTTCATTGCCTATTTTCATAG
14023092 CTTATTTTCATAAGAGTCTTTTATTGAAAGATTATTTAAAGTTTGTTTTCTATTTTCATAAGAGC
1 CTTATTTTCATAAGAGTCTTTTATTGAAAGATTATTTAAAGTTTGTTTTCTATTTTCATAAGAGC
14023157 CCTTTCAAGAGAGATTTTTAAAGTTCATTGCCTATTTTCATAG
66 CCTTTCAAGAGAGATTTTTAAAGTTCATTGCCTATTTTCATAG
14023200 GAGCCTTTTC
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (108 bp):
CTTATTTTCATAAGAGTCTTTTATTGAAAGATTATTTAAAGTTTGTTTTCTATTTTCATAAGAGC
CCTTTCAAGAGAGATTTTTAAAGTTCATTGCCTATTTTCATAG
Found at i:14023195 original size:47 final size:47
Alignment explanation
Indices: 14023117--14023498 Score: 291
Period size: 47 Copynumber: 8.0 Consensus size: 47
14023107 GTCTTTTATT
** **
14023117 GAAAGATTATTTAAAGTTTGTTTTCTAT-TTTCATAAGAGCCCTTTCAA
1 GAAAGATT-TTTAAAGTTCATTGCCTATGTTT-ATAAGAGCCCTTTCAA
* * * *
14023165 GAGAGATTTTTAAAGTTCATTGCCTAT-TTTCATAGGAGCCTTTTCTA
1 GAAAGATTTTTAAAGTTCATTGCCTATGTTT-ATAAGAGCCCTTTCAA
* *
14023212 GAAAGATTTTTAAAGTTTATTACCTATGTTTATAAGAG-CCTTATCTAGA
1 GAAAGATTTTTAAAGTTCATTGCCTATGTTTATAAGAGCCCTT-TC-A-A
* *
14023261 TAAAGATTTTTAAAG-TCACTTGCCTATGTTTAT-AGAAGCCCTTTCTA
1 GAAAGATTTTTAAAGTTCA-TTGCCTATGTTTATAAG-AGCCCTTTCAA
* *
14023308 GATAGATTTTTAAAGTCTCA-TGCCTATGTTTATAAGAGCACTTTCAA
1 GAAAGATTTTTAAAGT-TCATTGCCTATGTTTATAAGAGCCCTTTCAA
* * * * *
14023355 TAAAGAGATTTTTAAAG-TCGTTTGCTTATGTTTATAGGTGCCCTTTCCAAA
1 -GAA-AGATTTTTAAAGTTC-ATTGCCTATGTTTATAAGAGCCCTTT-C-AA
* * **
14023406 CAAAGATTTTTAAAG-TCACCTATCTATGTTTATAAGAGCCCTTTTCAA
1 GAAAGATTTTTAAAGTTCA-TTGCCTATGTTTATAAGAGCCC-TTTCAA
* *
14023454 -AATTA-ATTTTTAAAGTTACA-TGCCTATGCTTATAAGAGCTCTTTC
1 GAA--AGATTTTTAAAGTT-CATTGCCTATGTTTATAAGAGCCCTTTC
14023499 TTAAAAAACA
Statistics
Matches: 271, Mismatches: 41, Indels: 45
0.76 0.11 0.13
Matches are distributed among these distances:
46 3 0.01
47 108 0.40
48 46 0.17
49 100 0.37
50 12 0.04
51 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (47 bp):
GAAAGATTTTTAAAGTTCATTGCCTATGTTTATAAGAGCCCTTTCAA
Found at i:14023287 original size:49 final size:48
Alignment explanation
Indices: 14023168--14023499 Score: 256
Period size: 49 Copynumber: 6.9 Consensus size: 48
14023158 CTTTCAAGAG
*
14023168 AGATTTTTAAAGTTCA-TTGCCTAT-TTTCATAGGAGCCTTTTCTAG--AA
1 AGATTTTTAAAG-TCACTTGCCTATGTTT-ATAAGAGCC-TTTCTAGATAA
* *
14023215 AGATTTTTAAAGTTTA-TTACCTATGTTTATAAGAGCCTTATCTAGATAA
1 AGATTTTTAAAG-TCACTTGCCTATGTTTATAAGAGCCTT-TCTAGATAA
14023264 AGATTTTTAAAGTCACTTGCCTATGTTTAT-AGAAGCCCTTTCTAGAT--
1 AGATTTTTAAAGTCACTTGCCTATGTTTATAAG-AG-CCTTTCTAGATAA
* *
14023311 AGATTTTTAAAGTCTCATGCCTATGTTTATAAGAGCACTTTC-A-ATAAA
1 AGATTTTTAAAGTCACTTGCCTATGTTTATAAGAGC-CTTTCTAGAT-AA
** * * * * * *
14023359 GAGATTTTTAAAGTCGTTTGCTTATGTTTATAGGTGCCCTTTCCAAACAA
1 -AGATTTTTAAAGTCACTTGCCTATGTTTATAAGAG-CCTTTCTAGATAA
* ** * * *
14023409 AGATTTTTAAAGTCACCTATCTATGTTTATAAGAGCCCTTTTCAAAAT-T
1 AGATTTTTAAAGTCACTTGCCTATGTTTATAAGAG-CC-TTTCTAGATAA
* * *
14023458 A-ATTTTTAAAGTTACATGCCTATGCTTATAAGAGCTCTTTCT
1 AGATTTTTAAAGTCACTTGCCTATGTTTATAAGAGC-CTTTCT
14023500 TAAAAAACAA
Statistics
Matches: 236, Mismatches: 31, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.01
46 4 0.02
47 75 0.32
48 38 0.16
49 101 0.43
50 15 0.06
51 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (48 bp):
AGATTTTTAAAGTCACTTGCCTATGTTTATAAGAGCCTTTCTAGATAA
Found at i:14023306 original size:96 final size:92
Alignment explanation
Indices: 14023117--14023499 Score: 321
Period size: 96 Copynumber: 4.0 Consensus size: 92
14023107 GTCTTTTATT
** ** * *
14023117 GAAAGATTATTTAAAGTTTGTTTTCTAT-TTTCATAAGAGCCCTTTCAAGAGAGATTTTTAAAGT
1 GAAAGATT-TTTAAAGTTCATTACCTATGTTT-ATAAGAG-CCTTTCAATAAAGATTTTTAAAG-
*
14023181 TCATTGCCTAT-TTTCATAGGAGCCTTTTCTA
62 TCATTGCCTATGTTT-ATAGGAGCCCTTTCTA
*
14023212 GAAAGATTTTTAAAGTTTATTACCTATGTTTATAAGAGCCTTATCTAGATAAAGATTTTTAAAGT
1 GAAAGATTTTTAAAGTTCATTACCTATGTTTATAAGAGCCTT-TC-A-ATAAAGATTTTTAAAGT
*
14023277 CACTTGCCTATGTTTATAGAAGCCCTTTCTA
63 CA-TTGCCTATGTTTATAGGAGCCCTTTCTA
* *
14023308 GATAGATTTTTAAAGTCTCA-TGCCTATGTTTATAAGAGCACTTTCAATAAAGAGATTTTTAAAG
1 GAAAGATTTTTAAAGT-TCATTACCTATGTTTATAAGAGC-CTTTCAAT-AA-AGATTTTTAAAG
* * * *
14023372 TCGTTTGCTTATGTTTATAGGTGCCCTTTCCAAA
62 TC-ATTGCCTATGTTTATAGGAGCCCTTT-C-TA
* * *
14023406 CAAAGATTTTTAAAG-TCACCTATCTATGTTTATAAGAGCCCTTTTCAA-AATTA-ATTTTTAAA
1 GAAAGATTTTTAAAGTTCA-TTACCTATGTTTATAAGAG-CC-TTTCAATAA--AGATTTTTAAA
* * *
14023468 GTTACA-TGCCTATGCTTATAAGAGCTCTTTCT
61 G-T-CATTGCCTATGTTTATAGGAGCCCTTTCT
14023500 TAAAAAACAA
Statistics
Matches: 241, Mismatches: 27, Indels: 40
0.78 0.09 0.13
Matches are distributed among these distances:
93 4 0.02
94 27 0.11
95 18 0.07
96 111 0.46
97 40 0.17
98 33 0.14
99 8 0.03
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (92 bp):
GAAAGATTTTTAAAGTTCATTACCTATGTTTATAAGAGCCTTTCAATAAAGATTTTTAAAGTCAT
TGCCTATGTTTATAGGAGCCCTTTCTA
Found at i:14023853 original size:20 final size:20
Alignment explanation
Indices: 14023828--14023868 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
14023818 ACATGGTCAT
14023828 CAAAGTCAAAATTAGTCAAA
1 CAAAGTCAAAATTAGTCAAA
*
14023848 CAAAGTCAAAATTGGTCAAA
1 CAAAGTCAAAATTAGTCAAA
14023868 C
1 C
14023869 TTGGTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (20 bp):
CAAAGTCAAAATTAGTCAAA
Found at i:14024513 original size:142 final size:141
Alignment explanation
Indices: 14024278--14024543 Score: 324
Period size: 142 Copynumber: 1.9 Consensus size: 141
14024268 ACTCGAAGGG
* *** * *
14024278 TGTGAAATTATCAAAATACCCTTTATGTGTAATTTGTAATTTGACGTTCTCAAGGTCAATTTTTT
1 TGTGAAATTAGCAAAATACCCTTTAAAAGTAATTTGTAATTTGACCTTCTCAAGGTCAATTTTTC
* * * * * * *
14024343 ACAAATTTTTCATATTATGATTTTATAATATTTGAT-ATTTTTTGTGCATTTGAAATCATGACAG
66 ACAAATTTCTCAAATTATAATTTCATAATATTTCATGATTTTTTATGC-TTTAAAATCATGACAG
14024407 TACCTCAAAATA
130 TACCTCAAAATA
* *
14024419 TGTGAAATTAGCAAAATACCCTTTAAAAGTAATTTTGTAATTTGACCTTCTCGATGTCGAA-TTT
1 TGTGAAATTAGCAAAATACCCTTTAAAAGTAA-TTTGTAATTTGACCTTCTCAAGGTC-AATTTT
14024483 TCACAAAATTTCT-AAATCT-TAATTTCATAATATTTCATGATTTTTTATGCTTTAAAATCAT
64 TCAC-AAATTTCTCAAAT-TATAATTTCATAATATTTCATGATTTTTTATGCTTTAAAATCAT
14024544 AAAAATGAGC
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
141 28 0.27
142 57 0.54
143 20 0.19
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (141 bp):
TGTGAAATTAGCAAAATACCCTTTAAAAGTAATTTGTAATTTGACCTTCTCAAGGTCAATTTTTC
ACAAATTTCTCAAATTATAATTTCATAATATTTCATGATTTTTTATGCTTTAAAATCATGACAGT
ACCTCAAAATA
Found at i:14024915 original size:15 final size:15
Alignment explanation
Indices: 14024876--14024917 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
14024866 CTAGCTTATG
14024876 AAAAAGA-GAAAAAA
1 AAAAAGAGGAAAAAA
*
14024890 AAAACAAAGGAAAAAA
1 AAAA-AGAGGAAAAAA
*
14024906 ATAAAGAGGAAA
1 AAAAAGAGGAAA
14024918 TCGTGAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 9 0.39
16 10 0.43
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAAAGAGGAAAAAA
Found at i:14026033 original size:19 final size:18
Alignment explanation
Indices: 14025974--14026022 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
14025964 AATTTCCATG
* *
14025974 AAACCCTAGACCAAGAC-C
1 AAACCCTAAACCAA-ACTT
14025992 AAACCCTAAACCAAATCTT
1 AAACCCTAAACCAAA-CTT
14026011 AAACCCTAAACC
1 AAACCCTAAACC
14026023 CTAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 12 0.44
ACGTcount: A:0.47, C:0.37, G:0.04, T:0.12
Consensus pattern (18 bp):
AAACCCTAAACCAAACTT
Found at i:14026067 original size:19 final size:20
Alignment explanation
Indices: 14025992--14026080 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
14025982 GACCAAGACC
*
14025992 AAACCCT-AAACCAAATCTT
1 AAACCCTAAAACCAAACCTT
*
14026011 AAACCCTAAACCCTAAA--TT
1 AAACCCTAAAACC-AAACCTT
* * *
14026030 AAACGCTAAAAAACTAACCTT
1 AAACCCT-AAAACCAAACCTT
* *
14026051 AAACCCTAAAACCAACCCTC
1 AAACCCTAAAACCAAACCTT
*
14026071 AAACCTTAAA
1 AAACCCTAAA
14026081 CTAATCATGC
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
19 17 0.31
20 26 0.48
21 11 0.20
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.18
Consensus pattern (20 bp):
AAACCCTAAAACCAAACCTT
Found at i:14027248 original size:22 final size:22
Alignment explanation
Indices: 14027217--14027265 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14027207 AAATATATTG
* *
14027217 AAAAACTAAAAATATAAAATTA
1 AAAAACTAAAAATACAAAATCA
*
14027239 AAAAATTAAAAATACAAAATCA
1 AAAAACTAAAAATACAAAATCA
14027261 AAAAA
1 AAAAA
14027266 ACATAAATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAAACTAAAAATACAAAATCA
Found at i:14027604 original size:15 final size:16
Alignment explanation
Indices: 14027575--14027611 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
14027565 CCACATATAC
14027575 AAAATAATATCTTTTT
1 AAAATAATATCTTTTT
14027591 AAAAT-ATAT-TTTTT
1 AAAATAATATCTTTTT
14027605 -AAATAAT
1 AAAATAAT
14027612 TTTAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 7 0.35
15 4 0.20
16 5 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAATAATATCTTTTT
Found at i:14033826 original size:24 final size:24
Alignment explanation
Indices: 14033792--14033839 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14033782 AACCATTTAC
14033792 ATAAAACTCCTATCACATACTATT
1 ATAAAACTCCTATCACATACTATT
* **
14033816 ATAAAATTCCTATCATGTACTATT
1 ATAAAACTCCTATCACATACTATT
14033840 GCATAATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.38
Consensus pattern (24 bp):
ATAAAACTCCTATCACATACTATT
Found at i:14036400 original size:26 final size:27
Alignment explanation
Indices: 14036371--14036422 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
14036361 GATTATTTTG
14036371 ACACTTATCACCATAGTATTC-CCATA
1 ACACTTATCACCATAGTATTCTCCATA
*
14036397 ACACTTATCACTATAGTATTCTCCAT
1 ACACTTATCACCATAGTATTCTCCAT
14036423 TATAGACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (27 bp):
ACACTTATCACCATAGTATTCTCCATA
Found at i:14038557 original size:19 final size:19
Alignment explanation
Indices: 14038533--14038571 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14038523 GAACTTAAGA
14038533 ATGAAAGTGCAAAAACCAT
1 ATGAAAGTGCAAAAACCAT
*
14038552 ATGAAAGTGTAAAAACCAT
1 ATGAAAGTGCAAAAACCAT
14038571 A
1 A
14038572 CCCTCTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (19 bp):
ATGAAAGTGCAAAAACCAT
Found at i:14041833 original size:158 final size:158
Alignment explanation
Indices: 14041613--14041915 Score: 366
Period size: 158 Copynumber: 1.9 Consensus size: 158
14041603 GAGACATCAT
* * * *
14041613 AAAAAATATTTTTCCTTTTCATTTATTTATTTTTAAAGTTGGTCATTCCACTCATTTAAACATCC
1 AAAAAATATTTTTCCTTTTCATTTATTTATTTTCAAAGCTAGTCATTCCACTCAGTTAAACATCC
* *
14041678 TCCATCATAAAAATAT-AGTTCTTTACATGAAGTACCAAGGAAAGTATA-TT-GCTT-CCATTAA
66 TCCATCATAAAAATATAAGTTCTTTACAAGAACTACCAAGGAAA--ATAGTTAG-TTCCCATTAA
*
14041739 GATACATGATATTGTTGCTTTCATTTACTAA
128 GATACATAATATTGTTGCTTTCATTTACTAA
* * *
14041770 AAAAAATATTTCTTCC-TTTCACTTTGTTTGA-TTTCAAAGCTAGTCCTTCCACTCGGTTAAACA
1 AAAAAATATTT-TTCCTTTTCA-TTTATTT-ATTTTCAAAGCTAGTCATTCCACTCAGTTAAACA
* * * ** *
14041833 TCTTCCATTATAAAAATATAAGTTTTTTTTAAGAACTACCAAGGAAAATAGTTAGTTCCCATTGA
63 TCCTCCATCATAAAAATATAAGTTCTTTACAAGAACTACCAAGGAAAATAGTTAGTTCCCATTAA
14041898 GATACATAATATTGTTGC
128 GATACATAATATTGTTGC
14041916 ACTTACTCAC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
157 19 0.15
158 57 0.46
159 47 0.38
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (158 bp):
AAAAAATATTTTTCCTTTTCATTTATTTATTTTCAAAGCTAGTCATTCCACTCAGTTAAACATCC
TCCATCATAAAAATATAAGTTCTTTACAAGAACTACCAAGGAAAATAGTTAGTTCCCATTAAGAT
ACATAATATTGTTGCTTTCATTTACTAA
Found at i:14041931 original size:158 final size:157
Alignment explanation
Indices: 14041613--14041975 Score: 364
Period size: 159 Copynumber: 2.3 Consensus size: 157
14041603 GAGACATCAT
* * *
14041613 AAAAAATATTT-TTCCTTTTCATTTATTT-ATTTTTAAAGTTGGTCATTCCACTCATTTAAACAT
1 AAAAAATATTTCTTCC-TTTCATTTATTTGA-TTTCAAAGTTGGTCCTTCCACTCAGTTAAACAT
* *
14041676 CCTCCATCATAAAAATATAGTTCTTTACATGAAGTACCAAGGAAAGTATATTGCTTCCATTAAGA
64 CCTCCATCATAAAAATATAGTTCTTTACAAGAACTACCAAGGAAAG-ATATTGCTTCCATTAAGA
* * * *
14041741 TACATGATATTGTTGCTTTCATTTACT-AA
128 TACATAATATTGTTGCCTTCACTCACTAAA
* * * *
14041770 AAAAAATATTTCTTCCTTTCACTTTGTTTGATTTCAAAGCTAGTCCTTCCACTCGGTTAAACATC
1 AAAAAATATTTCTTCCTTTCA-TTTATTTGATTTCAAAGTTGGTCCTTCCACTCAGTTAAACATC
* * * ** *
14041835 TTCCATTATAAAAATATAAGTTTTTTTTAAGAACTACCAAGGAAA-ATAGTTAG-TTCCCATTGA
65 CTCCATCATAAAAATAT-AGTTCTTTACAAGAACTACCAAGGAAAGATA-TT-GCTT-CCATTAA
*
14041898 GATACATAATATTGTTGCACTT-ACTCAC-CAA
126 GATACATAATATTGTTGC-CTTCACTCACTAAA
* ** *
14041929 AAAAAACATTTCACCCTTTCATTTTCTTTG-TTTCAAAGTTGGTCCTT
1 AAAAAATATTTCTTCCTTTCA-TTTATTTGATTTCAAAGTTGGTCCTT
14041976 ACATTCTATC
Statistics
Matches: 171, Mismatches: 26, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
157 19 0.11
158 72 0.42
159 78 0.46
160 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (157 bp):
AAAAAATATTTCTTCCTTTCATTTATTTGATTTCAAAGTTGGTCCTTCCACTCAGTTAAACATCC
TCCATCATAAAAATATAGTTCTTTACAAGAACTACCAAGGAAAGATATTGCTTCCATTAAGATAC
ATAATATTGTTGCCTTCACTCACTAAA
Found at i:14048130 original size:158 final size:158
Alignment explanation
Indices: 14047441--14049267 Score: 847
Period size: 159 Copynumber: 11.5 Consensus size: 158
14047431 CATCTTTCCA
* * * * *
14047441 CATAAAAATCTATGATCCTTTT-ATGAGAAACCAAGCAAAATAGATCGTTCCTATTTGGATACAT
1 CATAAAAATCTAT-ATTCTTTTCATGAAAAACCAAGCAAAATAAATTGTTCCTATTGGGATACA-
* *** * * * *
14047505 A-ATA-TATTGCTTTTATTTTTAAAAAAAAGCATTTCTC-CTATTCTTTTTTTTTTTTTGTTTCA
64 AGATATTATTGCTTTCATTTACCAAAAAAAGCAATTCTCTCT-TTC---ATTTTGTTTGGTTTCA
** *
14047567 AAGTTGGTTTTTTCACTTGGTCAAACTTCC--CT
125 AAGTTGGTCCTTCCACTTGGTCAAACTTCCTTCT
* * ** * **
14047599 CATTGTAAAATATA-AGTTCTTTTCATGAAGTACCAAGCAAAAT-AGTTAGTTACCT-TTATGAT
1 CA-T-AAAAATCTATA-TTCTTTTCATGAAAAACCAAGCAAAATAAATT-GTT-CCTATTGGGAT
* * * * * * **
14047661 ACATGATATTATTGCTTTCATTGACC-AAAAAACCATTTCTC-CTTCCATTTTATTTGAATTCAA
61 ACAAGATATTATTGCTTTCATTTACCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAA
* * * * *
14047724 AGTTAGTCTTTCAACTTGATCAAACTTCCTCCAT
126 AGTTGGTCCTTCCACTTGGTCAAACTTCCTTC-T
* * * * * * * * * * * **
14047758 CATAAAAATATTTGTTATTTTCTTGAAGAACCAAGCAAAATAGATAGCTCCCACTATGATACACA
1 CATAAAAATCTATATTCTTTTCATGAAAAACCAAGCAAAATAAATTGTTCCTATTGGGATACA-A
* * * * *
14047823 -A-AGTTGTTGCACTT-ATTTACCAAAAAAAGCACTTCTCCCTTTCTTTTTGTTTGGTTTCAAAG
65 GATA-TTATTGC-TTTCATTTACCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAAAG
* * * * *
14047885 TTGATCCTTCCACTCGGTTAAACTACCTTCCA
128 TTGGTCCTTCCACTTGGTCAAACTTCCTT-CT
* * * * *
14047917 CATAAAAGTCTATATTCTTTTCA-CAAATAACAAAGGAAAATATATAT-TTCCTATTGGGATACA
1 CATAAAAATCTATATTCTTTTCATGAAA-AACCAAGCAAAATAAAT-TGTTCCTATTGGGATACA
* * * *
14047980 GGATACTATTGCTTTCGTTTATCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTT-AAAGT
64 AGATATTATTGCTTTCATTTACCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAAAGT
* **
14048044 TGGCCCTTTAACTTGGTCAAACTTCCTTCGT
129 TGGTCCTTCCACTTGGTCAAACTTCCTTC-T
* * *
14048075 CATAAAAATATATATTCTTTTCATGAAAAACCAAGCAAACTAAATTGTTCTTATTGGGATACAAG
1 CATAAAAATCTATATTCTTTTCATGAAAAACCAAGCAAAATAAATTGTTCCTATTGGGATACAAG
* * * * * * * *
14048140 ATATTGTTGCTTTCATTTACCAAAAAAAGTATTTCTC-CCTTCAATTTGTTTTGTTTCAAAATTA
66 ATATTATTGCTTTCATTTACCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAAAGTTG
* *
14048204 GTTCTTCCA-TTAAGTCAAACTT-CTTCCAT
131 GTCCTTCCACTT-GGTCAAACTTCCTT-C-T
* * * * * * * *
14048233 CATAAAAATCTATGTTCATTTCATGAAGAACCAACCAAAATAGATTGTTCCCATTAGGACACAAG
1 CATAAAAATCTATATTCTTTTCATGAAAAACCAAGCAAAATAAATTGTTCCTATTGGGATACAAG
* * ***
14048298 ATATTATTGCTTTCATTTACCAAAAAATA-C-ATTTTTTCATTTCATTTTGTTTACCTTCAAAGT
66 ATATTATTGCTTTCATTTACCAAAAAA-AGCAATTCTCTC-TTTCATTTTGTTTGGTTTCAAAGT
* * *
14048361 TGGTCCTTTCACTTGATCAAACATCCTCTCT
129 TGGTCCTTCCACTTGGTCAAACTTCCT-TCT
* * * ** * * *
14048392 CATAAAAATCTACATTCTTTTCATGAAAAACCAAGCATATTAGGTAGTTTCC-ATTGGAATACAT
1 CATAAAAATCTATATTCTTTTCATGAAAAACCAAGCAAAATAAATTG-TTCCTATTGGGATACAA
* ** ** * * * * * * *
14048456 GATATTGTTGCTTTTGTTTAGTGAAAAAAAACATTTCACACTTTCATTTTATTTAGATTCAAAGT
65 GATATTATTGCTTTCATTTA-CCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAAAGT
* * * *
14048521 TAGACCTTCCATTTGGTCCAACTT-CTTCCAT
129 TGGTCCTTCCACTTGGTCAAACTTCCTT-C-T
* * * * * * * * * *
14048552 CATAAGAGTTTTTATACTTTTCTAT-AAGAACTAAGCAAAATAGATAGCTT--TAATTAGGATAC
1 CATAAAAATCTATATTCTTTTC-ATGAAAAACCAAGCAAAATAAATTG-TTCCT-ATTGGGATAC
* * * * * * * *
14048614 TCA-ATATTGTTGAATTT-ATTTACCCAAATAAA-CATTTCTCCCTTTCTTTTTGTTTAGTTTCA
63 -AAGATATTATTG-CTTTCATTTA-CCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCA
** * *** * *
14048676 AAAATGATCCTTCCACTCAATTAAACTTTCTTC-
125 AAGTTGGTCCTTCCACTTGGTCAAACTTCCTTCT
* * * * * * *
14048709 CACGTAAAAATCTATGTTCTTTTCA-CAAATAACTAAGGAAAATAGATAT-TTCTTGTTGGGATA
1 CA--TAAAAATCTATATTCTTTTCATGAAA-AACCAAGCAAAATAAAT-TGTTCCTATTGGGATA
* * * * *
14048772 CAATATATTATTACTTTCATTTA-CAGAAAAAGGC-ATATCTCCCTTTCATTTTATTTGGTTTCA
62 CAAGATATTATTGCTTTCATTTACCA-AAAAAAGCAAT-TCTCTCTTTCATTTTGTTTGGTTTCA
* * * * * * * * *
14048835 AAGTTAGTCCATCGACTAGGTTAGACATCTTTTAT
125 AAGTTGGTCCTTCCACTTGGTCAAACTTC-CTTCT
* * * * * *
14048870 CATAAAAATATA-AGTACTTTTCA--AAAGTACTAAGCAAAAT-AGTTAGTTACC-ATT-TGATA
1 CATAAAAATCTATA-TTCTTTTCATGAAA-AACCAAGCAAAATAAATT-GTT-CCTATTGGGATA
* * * * * * * *
14048929 CACGTTATTGTTACTTTCGTTTACTAAAAAAAAGCATTTCTCAT-TTTCATTTTGTTTGTTTTCA
62 CAAGATATTATTGCTTTCATTTAC-CAAAAAAAGCAATTCTC-TCTTTCATTTTGTTTGGTTTCA
* * *
14048993 AAGTTGGTCCTCCCA-TTCAGTCAAACTTTCTTCT
125 AAGTTGGTCCTTCCACTT-GGTCAAACTTCCTTCT
* ** * * * * *
14049027 ACGTAAAAATCTATATTCTCATCA-CAAAGAACCAAGC-AAATAGATAGTTCCCATTCGGATACA
1 -CATAAAAATCTATATTCTTTTCATGAAA-AACCAAGCAAAATAAATTGTTCCTATTGGGATACA
** * * * * * * * * * *
14049090 CCATACTATTGCTTTCGTTTACC--AAAAAGTATTTTTCTTTTTTATTTTATTTGGTTTTAATGT
64 AGATATTATTGCTTTCATTTACCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAAAGT
* * *
14049153 TGGTCCTTCCACTCGATCAAACTTCCTCTAT
129 TGGTCCTTCCACTTGGTCAAACTTCCT-TCT
* * * * **
14049184 CTTAAAAATCAACA-TCATTTTCAT-AAAGAACCAAGCAAAATAAATAGTT-CTCATTATGATAC
1 CATAAAAATCTATATTC-TTTTCATGAAA-AACCAAGCAAAATAAATTGTTCCT-ATTGGGATAC
*
14049246 AAGATATTGTTGCTTTCATTTA
63 AAGATATTATTGCTTTCATTTA
14049268 TTAAAAATAA
Statistics
Matches: 1250, Mismatches: 334, Indels: 171
0.71 0.19 0.10
Matches are distributed among these distances:
155 3 0.00
156 119 0.10
157 153 0.12
158 339 0.27
159 432 0.35
160 178 0.14
161 26 0.02
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (158 bp):
CATAAAAATCTATATTCTTTTCATGAAAAACCAAGCAAAATAAATTGTTCCTATTGGGATACAAG
ATATTATTGCTTTCATTTACCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTCAAAGTTG
GTCCTTCCACTTGGTCAAACTTCCTTCT
Found at i:14048149 original size:317 final size:317
Alignment explanation
Indices: 14047665--14048428 Score: 712
Period size: 317 Copynumber: 2.4 Consensus size: 317
14047655 TATGATACAT
* * * * * * *
14047665 GATATTATTGCTTTCATTGACCAAAAAA-CCATT-TCTCCTTCCATTTTATTTGA-ATTCAAAGT
1 GATACTATTGCTTTCATTTACCAAAAAATACATTCTCTCATTTCATTTTGTTT-ACCTTCAAAGT
* * * *** * * *
14047727 TAG-TCTTTCAACTTGATCAAACTTCCTC-CATCATAAAAATATTTGTTATTTTCTTGAAGAACC
65 TGGCCCTTT-AACTTGATCAAACATCCTCTC-TCATAAAAATATACATTCTTTTCATGAAAAACC
* * * * ** * **
14047790 AAGCAAAATAGATAGCTCCCACTATGATACACA-A-AGTTGTTGCACTT-ATTTACCAAAAAAAG
128 AAGCAAACTAAATTGTTCTTATTGGGATACA-AGATA-TTGTTGC-CTTCATTTACCAAAAAAAG
** * ** *
14047852 CACTTCTCCCTTTCTTTTTGTTTGGTTTCAAAGTT-GATCCTTCCACTCGGTTAAACTACCTTCC
190 CACTTCTCCC-TTCAATTTGTTTGGTTTCAAAATTAG-TCCTTCCACTAAGTCAAACT-CCTTCC
* * * ** * * * *
14047916 A-CATAAAAGTCTATATTCTTTTCACAAATAACAAAGGAAAATATATAT-TTCCTATTGGGATAC
252 ATCATAAAAATCTATATTCATTTCACAAAGAACAAACCAAAATAGAT-TGTTCCCATTAGGACAC
*
14047979 AG
316 AA
* * ** *
14047981 GATACTATTGCTTTCGTTTATCAAAAAA-AGCAATTCTCTC-TTTCATTTTGTTT-GGTTTAAAG
1 GATACTATTGCTTTCATTTACCAAAAAATA-C-ATTCTCTCATTTCATTTTGTTTACCTTCAAAG
* * *
14048043 TTGGCCCTTTAACTTGGTCAAACTTCCT-TCGTCATAAAAATATATATTCTTTTCATGAAAAACC
64 TTGGCCCTTTAACTTGATCAAACATCCTCTC-TCATAAAAATATACATTCTTTTCATGAAAAACC
* * *
14048107 AAGCAAACTAAATTGTTCTTATTGGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAGTAT
128 AAGCAAACTAAATTGTTCTTATTGGGATACAAGATATTGTTGCCTTCATTTACCAAAAAAAGCAC
* * * *
14048172 TTCTCCCTTCAATTTGTTTTGTTTCAAAATTAGTTCTTCCATTAAGTCAAACTTCTTCCATCATA
193 TTCTCCCTTCAATTTGTTTGGTTTCAAAATTAGTCCTTCCACTAAGTCAAACTCCTTCCATCATA
* ** *
14048237 AAAATCTATGTTCATTTCATGAAGAACCAACCAAAATAGATTGTTCCCATTAGGACACAA
258 AAAATCTATATTCATTTCACAAAGAACAAACCAAAATAGATTGTTCCCATTAGGACACAA
* * *
14048297 GATATTATTGCTTTCATTTACCAAAAAATACATTTTTTCATTTCATTTTGTTTACCTTCAAAGTT
1 GATACTATTGCTTTCATTTACCAAAAAATACATTCTCTCATTTCATTTTGTTTACCTTCAAAGTT
* * *
14048362 GGTCCTTTCACTTGATCAAACATCCTCTCTCATAAAAATCTACATTCTTTTCATGAAAAACCAAG
66 GGCCCTTTAACTTGATCAAACATCCTCTCTCATAAAAATATACATTCTTTTCATGAAAAACCAAG
14048427 CA
131 CA
14048429 TATTAGGTAG
Statistics
Matches: 364, Mismatches: 68, Indels: 31
0.79 0.15 0.07
Matches are distributed among these distances:
315 13 0.04
316 149 0.41
317 177 0.49
318 21 0.06
319 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (317 bp):
GATACTATTGCTTTCATTTACCAAAAAATACATTCTCTCATTTCATTTTGTTTACCTTCAAAGTT
GGCCCTTTAACTTGATCAAACATCCTCTCTCATAAAAATATACATTCTTTTCATGAAAAACCAAG
CAAACTAAATTGTTCTTATTGGGATACAAGATATTGTTGCCTTCATTTACCAAAAAAAGCACTTC
TCCCTTCAATTTGTTTGGTTTCAAAATTAGTCCTTCCACTAAGTCAAACTCCTTCCATCATAAAA
ATCTATATTCATTTCACAAAGAACAAACCAAAATAGATTGTTCCCATTAGGACACAA
Found at i:14048462 original size:317 final size:312
Alignment explanation
Indices: 14047605--14050105 Score: 816
Period size: 316 Copynumber: 7.9 Consensus size: 312
14047595 CCCTCATTGT
* * * * * * *
14047605 AAAATATAAGTTCTTTTCATGAAGTACCAAGCAAAATAG-TTAGTTACCTTTATGATACATGATA
1 AAAATCTATGTTCTTTTCATGAAGAACCAAGCAAAATAGATT-GTTCCCATTAGGATACAAGATA
* * * * *
14047669 TTATTGCTTTCATTGACCAAAAAACCA-TTTCTCCTTCCATTTTATTTGAATTCAAAGTTAGT-C
65 TTATTGCTTTCATTTACCAAAAAAACATTTTCT-CTTTCATTTTGTTT-AATTCAAAGTTGGTCC
* * * * *
14047732 TTTCAACTTGATCAAACTTCCTC-CATCATAAAAATATTTGTTATTTTCTTGAAGAACCAAGCAA
128 TTTC-ACTTGATCAAACTTCCTCTCATCATAAAAATATATATTCTTTTCATGAAAAACCAAGCAA
* * * *
14047796 AATAGATAGCTCCCACTAT-GATACACAAAGTTGTTGCACTTATTTACCAAAAAAAGCACTTCTC
192 AATAGATAG-TTCCA-T-TGGATACAGATA-TTGTTGC-TTTATTTACCAAAAAAAGCACTTCTC
** * ** *
14047860 CCTTTCTTTTTGTTTGGTTTCAAAGTTGATCCTTCCACTCGGTTAAACTACCTTCCACATA
252 CCTTTCAATTTGTTTGGTTTCAAAATTGATCCTTCCACTAAGTCAAACTACCTTCCACATA
* * ** * * * * * * *
14047921 AAAGTCTATATTCTTTTCACAAATAACAAAGGAAAATATATAT-TTCCTATTGGGATACAGGATA
1 AAAATCTATGTTCTTTTCATGAAGAACCAAGCAAAATAGAT-TGTTCCCATTAGGATACAAGATA
* * * * ** * *
14047985 CTATTGCTTTCGTTTATCAAAAAAAGCAATTCTCTCTTTCATTTTGTTTGGTTTAAAGTTGGCCC
65 TTATTGCTTTCATTTACCAAAAAAA-C-ATTTTCTCTTTCATTTTGTTTAATTCAAAGTTGGTCC
* * *
14048050 TTTAACTTGGTCAAACTTCCT-TCGTCATAAAAATATATATTCTTTTCATGAAAAACCAAGCAAA
128 TTTCACTTGATCAAACTTCCTCTCATCATAAAAATATATATTCTTTTCATGAAAAACCAAGCAAA
* * * * * *
14048114 CTAAATTGTTCTTATTGGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAGTATTTCTCCC
193 ATAGATAGTTC-CATT-GGATAC-AGATATTGTTGCTTT-ATTTACCAAAAAAAGCACTTCTCCC
* * * *
14048179 -TTCAATTTGTTTTGTTTCAAAATT-AGTTCTTCCATTAAGTCAAACT-TCTTCCATCATA
254 TTTCAATTTGTTTGGTTTCAAAATTGA-TCCTTCCACTAAGTCAAACTACCTTCCA-CATA
* * *
14048237 AAAATCTATGTTCATTTCATGAAGAACCAACCAAAATAGATTGTTCCCATTAGGACACAAGATAT
1 AAAATCTATGTTCTTTTCATGAAGAACCAAGCAAAATAGATTGTTCCCATTAGGATACAAGATAT
* *
14048302 TATTGCTTTCATTTACCAAAAAATACATTTTTTCATTTCATTTTGTTTACCTTCAAAGTTGGTCC
66 TATTGCTTTCATTTACCAAAAAA-ACATTTTCTC-TTTCATTTTGTTTA-ATTCAAAGTTGGTCC
* * * *
14048367 TTTCACTTGATCAAACATCCTCTC-TCATAAAAATCTACATTCTTTTCATGAAAAACCAAGCATA
128 TTTCACTTGATCAAACTTCCTCTCATCATAAAAATATATATTCTTTTCATGAAAAACCAAGCAAA
* * * ** * * * *
14048431 TTAGGTAGTTTCCATTGGAATACATGATATTGTTGCTTTTGTTTAGTGAAAAAAAACATTTCACA
193 ATAGATAG-TTCCATTGG-ATACA-GATATTGTTGC-TTTATTTA-CCAAAAAAAGCACTTCTCC
* * * * * * ** * *
14048496 CTTTCATTTTATTTAGATTCAAAGTTAGA-CCTTCCATTTGGTCCAACT-TCTTCCATCATA
253 CTTTCAATTTGTTTGGTTTCAAAATT-GATCCTTCCACTAAGTCAAACTACCTTCCA-CATA
* * * * * * * * ** *
14048556 AGAGTTTTTATACTTTTCTAT-AAGAACTAAGCAAAATAGATAGCTT-TAATTAGGATACTCA-A
1 AAAATCTATGTTCTTTTC-ATGAAGAACCAAGCAAAATAGATTG-TTCCCATTAGGATAC-AAGA
* * * * * * **
14048618 TATTGTTGAATTT-ATTTACCCAAATAAACATTTCTCCCTTTCTTTTTGTTTAGTTTCAAAAATG
63 TATTATTG-CTTTCATTTA-CCAAAAAAACATTT-TCTCTTTCATTTTGTTTA-ATTCAAAGTTG
* * ** * * * * * * *
14048682 ATCCTTCCACTCAATTAAACTTTCT-TCCA-CGTAAAAATCTATGTTCTTTTCA-CAAATAACTA
124 GTCCTTTCACTTGATCAAACTTCCTCT-CATCATAAAAATATATATTCTTTTCATGAAA-AACCA
* * ** * * * *
14048744 AGGAAAATAGATATTTCTTGTTGGGATACAATATATTATTACTTTCATTTA-CAGAAAAAGGCA-
187 AGCAAAATAGATAGTTC-CATT-GGATAC-AGATATTGTTGCTTT-ATTTACCA-AAAAAAGCAC
* * * * * * * * * **
14048807 TATCTCCCTTTCATTTTATTTGGTTTCAAAGTT-AGTCCATCGACTAGGTTAGAC-ATCTTTTAT
247 T-TCTCCCTTTCAATTTGTTTGGTTTCAAAATTGA-TCCTTCCACTAAGTCAAACTACCTTCCA-
14048870 CATA
309 CATA
* * * * * * * * * *
14048874 AAAATATAAGTACTTTTCA-AAAGTACTAAGCAAAATAG-TTAGTTACCATT-TGATACACGTTA
1 AAAATCTATGTTCTTTTCATGAAGAACCAAGCAAAATAGATT-GTTCCCATTAGGATACAAGATA
* * * * **
14048936 TTGTTACTTTCGTTTACTAAAAAAAAGCA-TTTCTCATTTTCATTTTGTTTGTTTTCAAAGTTGG
65 TTATTGCTTTCATTTAC-CAAAAAAA-CATTTTCTC--TTTCATTTTGTTT-AATTCAAAGTTGG
** * * * * ** *
14049000 TCCTCCCA-TTCAGTCAAACTTTCT-TC-TACGTAAAAATCTATATTCTCATCA-CAAAGAACCA
125 TCCTTTCACTTGA-TCAAACTTCCTCTCAT-CATAAAAATATATATTCTTTTCATGAAA-AACCA
* * * * * *
14049061 AGC-AAATAGATAGTTCCCATTCGGATACACCATACTATTGCTTTCGTTTACC--AAAAAGTATT
187 AGCAAAATAGATAGTT-CCATT-GGATACA-GATATTGTTGCTTT-ATTTACCAAAAAAAGCACT
* ** * * * * ** * * * * *
14049123 TTTCTTTTTTATTTTATTTGGTTTTAATGTTGGTCCTTCCACT-CGATCAAACTTCC-TCTATCT
248 TCTCCCTTTCAATTTGTTTGGTTTCAAAATTGATCCTTCCACTAAG-TCAAACTACCTTCCA-CA
14049186 TA
311 TA
*** * * * * *
14049188 AAAATC-AACATCATTTTCATAAAGAACCAAGCAAAATAAATAGTTCTCATTATGATACAAGATA
1 AAAATCTATGTTC-TTTTCATGAAGAACCAAGCAAAATAGATTGTTCCCATTAGGATACAAGATA
* ** * * *
14049252 TTGTTGCTTTCATTTATTAAAAATAAAAAAGCATTTCTCCCTTCCATTTTGTTTAGTTTC-AA--
65 TTATTGCTTTCA--T-TT-ACCA-AAAAAA-CATTT-TCTCTTTCATTTTGTTTA-ATTCAAAGT
* * ** *
14049314 ----CAC--TCA---G-TCAAACTT-CTTTCAT-GT-AAAA-ATAT-TT-TTTTCACAAAAAACT
122 TGGTC-CTTTCACTTGATCAAACTTCCTCTCATCATAAAAATATATATTCTTTTCATGAAAAACC
* ** * * ** *
14049363 AAGCAAAATAGATAGTTTCCATTAGGATATACGATATCATTACCTTCATTTA-CTGAAAAAGCAT
186 AAGCAAAATAGATAG-TTCCATT-GGATACA-GATATTGTT-GCTTTATTTACCAAAAAAAGCAC
** * * * * * * * **
14049427 TTCTTTCTTTCATTTTGTTTGATTTTAAAGTT-TTTCTTTCACTCAA-TCAAACTTTC-TCCA-A
247 TTCTCCCTTTCAATTTGTTTGGTTTCAAAATTGATCCTTCCACT-AAGTCAAACTACCTTCCACA
14049488 TGTA
311 --TA
* * * * * * * * * *
14049492 AAACTTTACGTTCATTTCATGAA-ACATCGAGCAAAATAGATAGTTTCCATTGGGATACATGATA
1 AAAATCTATGTTCTTTTCATGAAGA-ACCAAGCAAAATAGATTGTTCCCATTAGGATACAAGATA
* ** * * *** *
14049556 TTGTTGCTTTTGTTTCCCAAAAAAAAGGCATTTCTCTCATTCATTTTGATTGGTTTCAAAGTTGC
65 TTATTGCTTTCATTTACC-AAAAAAA--CATTT-TCTCTTTCATTTTG-TTTAATTCAAAGTTGG
* * * * * * * * *
14049621 TCCTTTAAC-TCAGTCAATCTTCTTC-CAT-ATTAAAAATCTAGGTTTTTTTTTTTATGAAGAAC
125 TCCTTTCACTTGA-TCAAACTTCCTCTCATCA-TAAAAATATA---TATTCTTTTCATGAAAAAC
* ** * ** * * **
14049683 AAAATAAAATAGATATTTCCTAATAAGATAAATGATATTGTTGCTTTCATTTATCAAAAAAATTA
185 CAAGCAAAATAGATAGTTCC--ATTGGATACA-GATATTGTTGCTTT-ATTTACCAAAAAAAGCA
* * * * * * * * * *
14049748 ATTTTCCCTTTTATTTTGTTTGGTTGCCAAATTGGTCCTTCCACT-AGACCAAACTTCC-TCAAT
246 CTTCTCCCTTTCAATTTGTTTGGTTTCAAAATTGATCCTTCCACTAAG-TCAAACTACCTTCCA-
**
14049811 TGTA
309 CATA
* * * * * ** ** *
14049815 AAAATCTATATT-TTTACATAAAGTACTAAGCAAAATAGATAATTCTAATTGGGATACAAGATAT
1 AAAATCTATGTTCTTTTCATGAAGAACCAAGCAAAATAGATTGTTCCCATTAGGATACAAGATAT
* * * * *
14049879 TGTTG-TGTTCATTTGCCAAAAAAAGCATATTTTTCCTTTCATTTTGCTTAGTTTCAAAGTTGGT
66 TATTGCT-TTCATTTACCAAAAAAA-CAT-TTTCT-CTTTCATTTTGTTTA-ATTCAAAGTTGGT
* * * * * ** * ** *
14049943 -C-TCCACTTGGTCAAACTACGT-GCATTGTAAATATATA-AGCACTTTTCATGAAATACCAAGC
126 CCTTTCACTTGATCAAACTTCCTCTCATCATAAAAATATATA-TTCTTTTCATGAAAAACCAAGC
*
14050004 AAAATAGTTAGTTACCATTGGGATACATGATATTGTTGCTTTCATTTA-CAAAAAAAGCACTTCT
190 AAAATAGATAGTT-CCATT-GGATACA-GATATTGTTGCTTT-ATTTACCAAAAAAAGCACTTCT
* ** * *
14050068 CTCACTCATTTTGTTTGGTTTCAAAGTTTG-TCCTTCCA
251 CCCTTTCAATTTGTTTGGTTTCAAA-ATTGATCCTTCCA
14050106 TTTTGTCATA
Statistics
Matches: 1637, Mismatches: 410, Indels: 277
0.70 0.18 0.12
Matches are distributed among these distances:
300 6 0.00
301 25 0.02
302 5 0.00
303 13 0.01
304 112 0.07
305 44 0.03
306 4 0.00
307 5 0.00
308 11 0.01
309 3 0.00
312 2 0.00
313 15 0.01
314 64 0.04
315 93 0.06
316 335 0.20
317 297 0.18
318 121 0.07
319 228 0.14
320 64 0.04
321 75 0.05
322 86 0.05
323 29 0.02
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (312 bp):
AAAATCTATGTTCTTTTCATGAAGAACCAAGCAAAATAGATTGTTCCCATTAGGATACAAGATAT
TATTGCTTTCATTTACCAAAAAAACATTTTCTCTTTCATTTTGTTTAATTCAAAGTTGGTCCTTT
CACTTGATCAAACTTCCTCTCATCATAAAAATATATATTCTTTTCATGAAAAACCAAGCAAAATA
GATAGTTCCATTGGATACAGATATTGTTGCTTTATTTACCAAAAAAAGCACTTCTCCCTTTCAAT
TTGTTTGGTTTCAAAATTGATCCTTCCACTAAGTCAAACTACCTTCCACATA
Found at i:14048637 original size:319 final size:317
Alignment explanation
Indices: 14047619--14048669 Score: 679
Period size: 317 Copynumber: 3.3 Consensus size: 317
14047609 TATAAGTTCT
* * * * * * * *
14047619 TTTCATGAAGTACCAAGCAAAATAGTTAGTTACC-TTTATGATACATGATATTATTGCTTTCATT
1 TTTCATGAAGAACCAACCAAAATAGATAGTT-CCAATTAGGACACAAGATATTATTGATTTCATT
* * * * * * *
14047683 GA-CCAAAAAACCATTTCTCC-TTCCATTTTATTTGA-ATTCAAAGTTAG-TCTTTCAACTTGAT
65 TACCCAAAAAAACATTTCTCCATTTCATTTTGTTT-ACCTTCAAAGTTGGCCCTTT-AACTTGAT
* * * *** * * * * * * *
14047744 CAAACTTCCTCCATCATAAAAATATTTGTTATTTTCTTGAAGAACCAAGCAAAATAGATAGCTCC
128 CAAACATCCTTCGTCATAAAAATATACATTCTTTTCATGAAAAACCAAGCAAACTAAATAGTTCT
* * * * **
14047809 CACTAT-G-ATACACA-A-AGTTGTTGCACTT-ATTTACCAAAAAAAGCACTTCTCCCTTTCTTT
193 CA-T-TGGAATACA-AGATA-TTGTTGC-TTTCATTTACCAAAAAAAACATTTCACCC-TTCAAT
* * * * * ** * * *
14047869 TTGTTTGGTTTCAAAGTT-GATCCTTCCACTCGGTTAAACTACCTTCCA-CATAAAAGTCTATAT
252 TTATTTAGATTCAAAATTAGA-CCTTCCATTAAGTCAAACT-TCTTCCATCATAAAAATCTATAT
* *
14047932 TCT
315 ACA
** * * ** * * * * * * * * *
14047935 TTTCACAAATAACAAAGGAAAATATATATTTCCTATTGGGATACAGGATACTATTGCTTTCGTTT
1 TTTCATGAAGAACCAACCAAAATAGATAGTTCCAATTAGGACACAAGATATTATTGATTTCATTT
* * ** * *
14048000 A-TCAAAAAAAGCAATTCTCTC-TTTCATTTTGTTT-GGTTTAAAGTTGGCCCTTTAACTTGGTC
66 ACCCAAAAAAA-CATTTCTC-CATTTCATTTTGTTTACCTTCAAAGTTGGCCCTTTAACTTGATC
* * * *
14048062 AAACTTCCTTCGTCATAAAAATATATATTCTTTTCATGAAAAACCAAGCAAACTAAATTGTTCTT
129 AAACATCCTTCGTCATAAAAATATACATTCTTTTCATGAAAAACCAAGCAAACTAAATAGTTCTC
* ** * * *
14048127 ATTGGGATACAAGATATTGTTGCTTTCATTTACCAAAAAAAGTATTTCTCCCTTCAATTTGTTTT
194 ATTGGAATACAAGATATTGTTGCTTTCATTTACCAAAAAAAACATTTCACCCTTCAATTTATTTA
* ** * *
14048192 GTTTCAAAATTAGTTCTTCCATTAAGTCAAACTTCTTCCATCATAAAAATCTATGTTCA
259 GATTCAAAATTAGACCTTCCATTAAGTCAAACTTCTTCCATCATAAAAATCTATATACA
* * *
14048251 TTTCATGAAGAACCAACCAAAATAGATTGTTCCCATTAGGACACAAGATATTATTGCTTTCATTT
1 TTTCATGAAGAACCAACCAAAATAGATAGTTCCAATTAGGACACAAGATATTATTGATTTCATTT
* * * *
14048316 A-CCAAAAAATACATTTTTTCATTTCATTTTGTTTACCTTCAAAGTTGGTCCTTTCACTTGATCA
66 ACCCAAAAAA-ACATTTCTCCATTTCATTTTGTTTACCTTCAAAGTTGGCCCTTTAACTTGATCA
* * * **
14048380 AACATCCTCTC-TCATAAAAATCTACATTCTTTTCATGAAAAACCAAGCATATTAGGTAGTT-TC
130 AACATCCT-TCGTCATAAAAATATACATTCTTTTCATGAAAAACCAAGCAAACTAAATAGTTCT-
* ** ** * *
14048443 CATTGGAATACATGATATTGTTGCTTTTGTTTAGTGAAAAAAAACATTTCACACTTTCATTTTAT
193 CATTGGAATACAAGATATTGTTGCTTTCATTTA-CCAAAAAAAACATTTCAC-CCTTCAATTTAT
* ** * * * * * *
14048508 TTAGATTCAAAGTTAGACCTTCCATTTGGTCCAACTTCTTCCATCATAAGAGTTTTTATACT
256 TTAGATTCAAAATTAGACCTTCCATTAAGTCAAACTTCTTCCATCATAAAAATCTATATACA
* * * * * *
14048570 TTTCTAT-AAGAACTAAGCAAAATAGATAGCTT-TAATTAGGATACTCA-ATATTGTTGAATTT-
1 TTTC-ATGAAGAACCAACCAAAATAGATAG-TTCCAATTAGGACAC-AAGATATTATTG-ATTTC
* * *
14048631 ATTTACCCAAATAAACATTTCTCCCTTTCTTTTTGTTTA
62 ATTTACCCAAAAAAACATTTCTCCATTTCATTTTGTTTA
14048670 GTTTCAAAAA
Statistics
Matches: 580, Mismatches: 131, Indels: 45
0.77 0.17 0.06
Matches are distributed among these distances:
315 10 0.02
316 185 0.32
317 216 0.37
318 32 0.06
319 122 0.21
320 15 0.03
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (317 bp):
TTTCATGAAGAACCAACCAAAATAGATAGTTCCAATTAGGACACAAGATATTATTGATTTCATTT
ACCCAAAAAAACATTTCTCCATTTCATTTTGTTTACCTTCAAAGTTGGCCCTTTAACTTGATCAA
ACATCCTTCGTCATAAAAATATACATTCTTTTCATGAAAAACCAAGCAAACTAAATAGTTCTCAT
TGGAATACAAGATATTGTTGCTTTCATTTACCAAAAAAAACATTTCACCCTTCAATTTATTTAGA
TTCAAAATTAGACCTTCCATTAAGTCAAACTTCTTCCATCATAAAAATCTATATACA
Found at i:14049190 original size:156 final size:157
Alignment explanation
Indices: 14048957--14049238 Score: 340
Period size: 156 Copynumber: 1.8 Consensus size: 157
14048947 GTTTACTAAA
* *
14048957 AAAAAGCATTTCTCATTTTCATTTTGTTTGTTTTCAAAGTTGGTCCTCCCATTCAGTCAAACTTT
1 AAAAAGCATTTCTCATTTTCATTTTATTTGTTTTCAAAGTTGGTCCTCCCACTCAGTCAAACTTT
* * * *
14049022 CTTCTACGTAAAAATCTATATTC-TCATCACAAAGAACCAAGC-AAATAGATAGTTCCCATTCGG
66 CCTCTACGTAAAAATCAACA-TCATCATCACAAAGAACCAAGCAAAATAAATAGTTCCCATTCGG
14049085 ATACACCATACTATTGCTTTCGTTTACC
130 ATACACCATACTATTGCTTTCGTTTACC
* * * * * *
14049113 AAAAAGTATTTTTCTTTTTTATTTTATTTGGTTTT-AATGTTGGTCCTTCCACTC-GATCAAAC-
1 AAAAAGCATTTCTCATTTTCATTTTATTT-GTTTTCAAAGTTGGTCCTCCCACTCAG-TCAAACT
* ** * *
14049175 TTCCTCTATCTTAAAAATCAACATCATTTTCATAAAGAACCAAGCAAAATAAATAGTTCTCATT
64 TTCCTCTA-CGTAAAAATCAACATCATCATCACAAAGAACCAAGCAAAATAAATAGTTCCCATT
14049239 ATGATACAAG
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
155 10 0.10
156 73 0.70
157 21 0.20
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (157 bp):
AAAAAGCATTTCTCATTTTCATTTTATTTGTTTTCAAAGTTGGTCCTCCCACTCAGTCAAACTTT
CCTCTACGTAAAAATCAACATCATCATCACAAAGAACCAAGCAAAATAAATAGTTCCCATTCGGA
TACACCATACTATTGCTTTCGTTTACC
Found at i:14049882 original size:158 final size:157
Alignment explanation
Indices: 14049716--14050062 Score: 350
Period size: 158 Copynumber: 2.2 Consensus size: 157
14049706 TAAGATAAAT
** * * *
14049716 GATATTGTTGCTTTCATTTATCAAAAAAATTA-ATTTTCCCTTTTATTTTGTTTGGTTGCCAAA-
1 GATATTGTTGCTTTCATTTA-CAAAAAAAGCATATTTTCCCTTTCATTTTGCTTAGTT-CCAAAG
* * * *
14049779 TTGGTCCTTCCACTAGACCAAACTTCCT-CAATTGTAAAAATCT-A-TATTTTTACAT-AAAGTA
64 TTGGT-C-TCCACTAGACCAAACTACCTGC-ATTGTAAAAATATAAGCACTTTT-CATGAAA-TA
*
14049840 CTAAGCAAAATAGATAATT-CTAATTGGGATACAA
124 CCAAGCAAAATAGATAATTAC-AATTGGGATACAA
* * *
14049874 GATATTGTTG-TGTTCATTTGCCAAAAAAAGCATATTTTTCCTTTCATTTTGCTTAGTTTCAAAG
1 GATATTGTTGCT-TTCATTT-ACAAAAAAAGCATATTTTCCCTTTCATTTTGCTTAGTTCCAAAG
* ** * *
14049938 TTGGTCTCCACTTGGTCAAACTACGTGCATTGTAAATATATAAGCACTTTTCATGAAATACCAAG
64 TTGGTCTCCACTAGACCAAACTACCTGCATTGTAAAAATATAAGCACTTTTCATGAAATACCAAG
* * * *
14050003 CAAAATAGTTAGTTACCATTGGGATACAT
129 CAAAATAGATAATTACAATTGGGATACAA
14050032 GATATTGTTGCTTTCATTTACAAAAAAAGCA
1 GATATTGTTGCTTTCATTTACAAAAAAAGCA
14050063 CTTCTCTCAC
Statistics
Matches: 156, Mismatches: 23, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
157 38 0.24
158 82 0.53
159 36 0.23
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (157 bp):
GATATTGTTGCTTTCATTTACAAAAAAAGCATATTTTCCCTTTCATTTTGCTTAGTTCCAAAGTT
GGTCTCCACTAGACCAAACTACCTGCATTGTAAAAATATAAGCACTTTTCATGAAATACCAAGCA
AAATAGATAATTACAATTGGGATACAA
Found at i:14051063 original size:26 final size:26
Alignment explanation
Indices: 14051022--14051072 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
14051012 AGGCTTATGA
*
14051022 GGTGGCTTATTTAGGT-TTT-TGGGT
1 GGTGGCTTATTAAGGTATTTATGGGT
14051046 GGTGGCCTATATTAAGGTATTTATGGG
1 GGTGG-CT-TATTAAGGTATTTATGGG
14051073 GTAATGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 8 0.36
27 3 0.14
28 4 0.18
ACGTcount: A:0.16, C:0.06, G:0.35, T:0.43
Consensus pattern (26 bp):
GGTGGCTTATTAAGGTATTTATGGGT
Found at i:14053176 original size:43 final size:43
Alignment explanation
Indices: 14053124--14053210 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
14053114 TTAATTGATG
*
14053124 AAAATTCCATACTAAACCTTATACTACAGTCAAGGTTCAAATC
1 AAAAATCCATACTAAACCTTATACTACAGTCAAGGTTCAAATC
*
14053167 AAAAATCCATACTAAACCTTATACTATAGTCAAGGTTCAAATC
1 AAAAATCCATACTAAACCTTATACTACAGTCAAGGTTCAAATC
14053210 A
1 A
14053211 TAATATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.28
Consensus pattern (43 bp):
AAAAATCCATACTAAACCTTATACTACAGTCAAGGTTCAAATC
Found at i:14054104 original size:2 final size:2
Alignment explanation
Indices: 14054097--14054204 Score: 75
Period size: 2 Copynumber: 56.5 Consensus size: 2
14054087 AAAGCTCCTA
*
14054097 AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT CT A- AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * * * ** *
14054137 AC AT AT AT AT GT AT AT AT GT AT AT GT AT AT GC AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
14054179 AT AT TT AT -T AT AT -T AT A- AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14054205 GATACTTAGT
Statistics
Matches: 80, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
1 6 0.08
2 72 0.90
3 2 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14056564 original size:22 final size:22
Alignment explanation
Indices: 14056539--14056735 Score: 114
Period size: 22 Copynumber: 9.0 Consensus size: 22
14056529 AAATCAATAT
*
14056539 TATAAGCACTATGTATATATCC
1 TATAAGCACTATGTACATATCC
* * **
14056561 TATAAACATTATGTACATATTA
1 TATAAGCACTATGTACATATCC
* * * *
14056583 TGTGACCATTATG--CATATACC
1 TATAAGCACTATGTACATAT-CC
* *
14056604 TA-AAGGTACTATGTACATATTAC
1 TATAA-GCACTATGTACATA-TCC
* *
14056627 TATAAGTACTATGTACATATCT
1 TATAAGCACTATGTACATATCC
* *
14056649 TATAAGCACTAAT-TACGTATCT
1 TATAAGCACT-ATGTACATATCC
* * * *
14056671 TATGAGTATTATGAACATATCC
1 TATAAGCACTATGTACATATCC
* * *
14056693 TATAAACACTATCTACGTATCC
1 TATAAGCACTATGTACATATCC
* *
14056715 TATAAGTAATATGTACATATC
1 TATAAGCACTATGTACATATC
14056736 ACAAATGAGT
Statistics
Matches: 129, Mismatches: 38, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
20 6 0.05
21 8 0.06
22 89 0.69
23 23 0.18
24 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (22 bp):
TATAAGCACTATGTACATATCC
Found at i:14056691 original size:44 final size:44
Alignment explanation
Indices: 14056626--14056735 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
14056616 GTACATATTA
* * *
14056626 CTATAAGTACTATGTACATATCTTATAAGCACTAAT-TACGTATC
1 CTATAAGTAATATGTACATATCCTATAAACACT-ATCTACGTATC
* * * *
14056670 TTATGAGTATTATGAACATATCCTATAAACACTATCTACGTATC
1 CTATAAGTAATATGTACATATCCTATAAACACTATCTACGTATC
14056714 CTATAAGTAATATGTACATATC
1 CTATAAGTAATATGTACATATC
14056736 ACAAATGAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.04
44 53 0.96
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (44 bp):
CTATAAGTAATATGTACATATCCTATAAACACTATCTACGTATC
Found at i:14058778 original size:40 final size:40
Alignment explanation
Indices: 14058715--14058796 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
14058705 CCCATCAATG
* * *
14058715 CATGGCAAAACTCCCTCTTAATTTGTGCATCCTAATCCAA
1 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
14058755 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
1 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
14058795 CA
1 CA
14058797 CAACTCAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.32, C:0.33, G:0.09, T:0.27
Consensus pattern (40 bp):
CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCCAA
Found at i:14059443 original size:16 final size:16
Alignment explanation
Indices: 14059409--14059443 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14059399 ATACAAGCTC
**
14059409 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
14059425 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
14059441 ATA
1 ATA
14059444 TGCCATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:14062217 original size:20 final size:20
Alignment explanation
Indices: 14062179--14062221 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14062169 TTTTCATTCA
14062179 TCAAATCATCAAATTTCTTTT
1 TCAAATCA-CAAATTTCTTTT
14062200 TCAAATCA-AAATTTTCTTTT
1 TCAAATCACAAA-TTTCTTTT
14062220 TC
1 TC
14062222 TAAAAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TCAAATCACAAATTTCTTTT
Found at i:14066913 original size:3 final size:3
Alignment explanation
Indices: 14066905--14066940 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14066895 TACTTTTTCT
14066905 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14066941 ATTTTTTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14068619 original size:13 final size:14
Alignment explanation
Indices: 14068584--14068626 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
14068574 CGATGTGGTA
14068584 CTAG-TAAATGAAT
1 CTAGATAAATGAAT
*
14068597 CAAGATAAATGAAT
1 CTAGATAAATGAAT
*
14068611 CTA-ATAAATGTAT
1 CTAGATAAATGAAT
14068624 CTA
1 CTA
14068627 TAGTAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (14 bp):
CTAGATAAATGAAT
Found at i:14073061 original size:7 final size:7
Alignment explanation
Indices: 14073046--14073076 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14073036 AACAGGAATT
*
14073046 GGGAGTG
1 GGGATTG
14073053 GGGATTG
1 GGGATTG
14073060 GGGATTG
1 GGGATTG
14073067 GGGATTG
1 GGGATTG
14073074 GGG
1 GGG
14073077 GCACTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.65, T:0.23
Consensus pattern (7 bp):
GGGATTG
Found at i:14074119 original size:34 final size:34
Alignment explanation
Indices: 14074051--14074126 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
14074041 GAATTTCGTA
** *
14074051 AAGTTATATAATTTTTTAAAAATTTATTTTTAAT
1 AAGTTATATAATTTTTTAAAAATAAATTTGTAAT
*
14074085 AAGTTTTATAATTTTTTAAAAATAAATTTGTAAT
1 AAGTTATATAATTTTTTAAAAATAAATTTGTAAT
*
14074119 AAATTATA
1 AAGTTATA
14074127 AATCCTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (34 bp):
AAGTTATATAATTTTTTAAAAATAAATTTGTAAT
Found at i:14075953 original size:80 final size:80
Alignment explanation
Indices: 14075812--14075970 Score: 212
Period size: 80 Copynumber: 2.0 Consensus size: 80
14075802 GCAACCTTTA
* ** * *
14075812 CTGGGGATCTCATTCTTACTGCTTATTGTATTCTTTTAACTCTATTACTAATTTGCCAAATCATA
1 CTGGGGATCTCATCCTTACTGCTTATTGTATTCTTTTAACAATATAACTAACTTGCCAAATCATA
*
14075877 CATTGAGCAGTGTGC
66 CATTGAGAAGTGTGC
** * *
14075892 CTGGGGATCTCATCCTTTGTGCTTATTGTATTCTTATT-GCAATATAACTAACTTGCTAAATCAT
1 CTGGGGATCTCATCCTTACTGCTTATTGTATTCTT-TTAACAATATAACTAACTTGCCAAATCAT
14075956 ACATTGAGAAGTGTG
65 ACATTGAGAAGTGTG
14075971 TCTATTCAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 66 0.97
81 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (80 bp):
CTGGGGATCTCATCCTTACTGCTTATTGTATTCTTTTAACAATATAACTAACTTGCCAAATCATA
CATTGAGAAGTGTGC
Found at i:14089114 original size:25 final size:26
Alignment explanation
Indices: 14089063--14089116 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
14089053 TATAAAAGAG
*
14089063 ATTGTATTGAGAAGAATTTAACGAACA
1 ATTGTATTGAG-AGAATTTAACAAACA
14089090 ATTGTATTGAG-GAATTTAGA-AAACA
1 ATTGTATTGAGAGAATTTA-ACAAACA
14089115 AT
1 AT
14089117 CTTGTATCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 11 0.44
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (26 bp):
ATTGTATTGAGAGAATTTAACAAACA
Found at i:14093069 original size:5 final size:5
Alignment explanation
Indices: 14093059--14093091 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14093049 ACAGTATTGG
14093059 TTCCA TTCCA TTCCA TTCCA TTCCA TT-CA TTCC
1 TTCCA TTCCA TTCCA TTCCA TTCCA TTCCA TTCC
14093092 TTATTTTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (5 bp):
TTCCA
Found at i:14095074 original size:11 final size:11
Alignment explanation
Indices: 14095058--14095082 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14095048 AAGACCTGTA
14095058 TTTTTACTCAC
1 TTTTTACTCAC
14095069 TTTTTACTCAC
1 TTTTTACTCAC
14095080 TTT
1 TTT
14095083 GGGTTGTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTACTCAC
Found at i:14097469 original size:27 final size:27
Alignment explanation
Indices: 14097431--14097485 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
14097421 ACAATGAAAA
14097431 AGCAATAATGTTGAAACATCTCTTATC
1 AGCAATAATGTTGAAACATCTCTTATC
*
14097458 AGCAATAATGTTGAAATATCTCTTATC
1 AGCAATAATGTTGAAACATCTCTTATC
14097485 A
1 A
14097486 TAATTATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (27 bp):
AGCAATAATGTTGAAACATCTCTTATC
Found at i:14108526 original size:261 final size:261
Alignment explanation
Indices: 14108062--14108598 Score: 1056
Period size: 261 Copynumber: 2.1 Consensus size: 261
14108052 TTAGTCTAGG
14108062 TTAGTTGAGAATTTTTTGTTTTGCAATGTTGTTTGTATTTTGCATTTTTATCAATTCAATTTTAC
1 TTAGTTGAGAATTTTTTGTTTTGCAATGTTGTTTGTATTTTGCATTTTTATCAATTCAATTTTAC
14108127 TTCAAATTTGTCTTTTCATTAATTTAGCCACTGTATTTTATATTTTATGGCATGCATTTACTTTT
66 TTCAAATTTGTCTTTTCATTAATTTAGCCACTGTATTTTATATTTTATGGCATGCATTTACTTTT
14108192 TGTTTTTGTTTATTTTCTCTTTTACTTAGCTTTATATTTTTTATACTTAATTCACTTTTATTTTC
131 TGTTTTTGTTTATTTTCTCTTTTACTTAGCTTTATATTTTTTATACTTAATTCACTTTTATTTTC
14108257 ATAGTTAATTTTCATGCTTATTTTTTGATCAAGCCAACTTTAGAAGGGTGTAGGGATAAAAGGTA
196 ATAGTTAATTTTCATGCTTATTTTTTGATCAAGCCAACTTTAGAAGGGTGTAGGGATAAAAGGTA
14108322 T
261 T
14108323 TTAGTTGAGAATTTTTTGTTTTGCAATGTTGTTTGTATTTTGCATTTTTATCAATTCAATTTTAC
1 TTAGTTGAGAATTTTTTGTTTTGCAATGTTGTTTGTATTTTGCATTTTTATCAATTCAATTTTAC
14108388 TTCAAATTTGTCTTTTCATTAATTTAGCCACTGTATTTTATATTTTATGGCATGCATTTACTTTT
66 TTCAAATTTGTCTTTTCATTAATTTAGCCACTGTATTTTATATTTTATGGCATGCATTTACTTTT
14108453 TGTTTTTGTTTATTTTCTCTTTTACTTAGCTTTATATTTTTTATACTTAATTCACTTTTATTTTC
131 TGTTTTTGTTTATTTTCTCTTTTACTTAGCTTTATATTTTTTATACTTAATTCACTTTTATTTTC
14108518 ATAGTTAATTTTCATGCTTATTTTTTGATCAAGCCAACTTTAGAAGGGTGTAGGGATAAAAGGTA
196 ATAGTTAATTTTCATGCTTATTTTTTGATCAAGCCAACTTTAGAAGGGTGTAGGGATAAAAGGTA
14108583 T
261 T
*
14108584 TTAGTTTAAGAATTT
1 TTAG-TTGAGAATTT
14108599 CTTTAACTAA
Statistics
Matches: 274, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
261 265 0.97
262 9 0.03
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.54
Consensus pattern (261 bp):
TTAGTTGAGAATTTTTTGTTTTGCAATGTTGTTTGTATTTTGCATTTTTATCAATTCAATTTTAC
TTCAAATTTGTCTTTTCATTAATTTAGCCACTGTATTTTATATTTTATGGCATGCATTTACTTTT
TGTTTTTGTTTATTTTCTCTTTTACTTAGCTTTATATTTTTTATACTTAATTCACTTTTATTTTC
ATAGTTAATTTTCATGCTTATTTTTTGATCAAGCCAACTTTAGAAGGGTGTAGGGATAAAAGGTA
T
Found at i:14110191 original size:82 final size:83
Alignment explanation
Indices: 14110028--14110199 Score: 213
Period size: 82 Copynumber: 2.0 Consensus size: 83
14110018 TCTTGAATCT
* * * *
14110028 AGTTTCAAGCTTAAGAATGATAAAGAACTCATTAGGAAAGAACTTACTTGTTTAGTAGCTTTTTC
1 AGTTTCAAGCTTAAGAATGAGAAAGAACTCATT---AAAGAAATAACTTGTTTAGTAGCTTTTCC
* *
14110093 GTTCCTTAATCTTATG-CTCGA
63 ATTCCTTAATCCTATGCCT-GA
** *
14110114 AGTTTCAAGCTTAAGAATGAGAATTAACTCATT-AAGAAATAACTTGTTTTGTAGCTTTTCCATT
1 AGTTTCAAGCTTAAGAATGAGAAAGAACTCATTAAAGAAATAACTTGTTTAGTAGCTTTTCCATT
14110178 CCTTAATCCTATGCCTGA
66 CCTTAATCCTATGCCTGA
14110196 AGTT
1 AGTT
14110200 ATAGGCACCT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
82 44 0.58
83 2 0.03
86 30 0.39
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (83 bp):
AGTTTCAAGCTTAAGAATGAGAAAGAACTCATTAAAGAAATAACTTGTTTAGTAGCTTTTCCATT
CCTTAATCCTATGCCTGA
Found at i:14116099 original size:22 final size:21
Alignment explanation
Indices: 14116061--14116101 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14116051 AATGAAACAC
**
14116061 AAAGGAGAAAACCAAAGAAGA
1 AAAGGAGAAAAAAAAAGAAGA
14116082 AAAGTGAGAAAAAAAAAGAA
1 AAAG-GAGAAAAAAAAAGAA
14116102 TAAGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (21 bp):
AAAGGAGAAAAAAAAAGAAGA
Found at i:14119105 original size:23 final size:23
Alignment explanation
Indices: 14119079--14119122 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
14119069 ATCTCATGAT
*
14119079 TCTACTAT-ATGTTATTTTCAGTC
1 TCTACT-TGATGTTAATTTCAGTC
*
14119102 TCTAGTTGATGTTAATTTCAG
1 TCTACTTGATGTTAATTTCAG
14119123 CGTAGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (23 bp):
TCTACTTGATGTTAATTTCAGTC
Found at i:14119553 original size:26 final size:27
Alignment explanation
Indices: 14119514--14119569 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
14119504 CTCTGGTTCT
**
14119514 TTTCTTTTTGTTAGAAGAAAGGGT-AG
1 TTTCTTTTACTTAGAAGAAAGGGTAAG
14119540 TTTCTTTTACTTAGAAGAAAGGGTAAG
1 TTTCTTTTACTTAGAAGAAAGGGTAAG
14119567 TTT
1 TTT
14119570 AATGCCTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (27 bp):
TTTCTTTTACTTAGAAGAAAGGGTAAG
Found at i:14121048 original size:28 final size:28
Alignment explanation
Indices: 14120991--14121050 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
14120981 AAAAAGATAG
**
14120991 TTTATTAGGTTGTTTTGGTTGATTTCTT
1 TTTATTAGGTTGTTTTGACTGATTTCTT
* *
14121019 TTTATTGATGTTGTTTTGACTGATTTTTT
1 TTTATT-AGGTTGTTTTGACTGATTTCTT
14121048 TTT
1 TTT
14121051 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.12, C:0.03, G:0.18, T:0.67
Consensus pattern (28 bp):
TTTATTAGGTTGTTTTGACTGATTTCTT
Found at i:14121348 original size:7 final size:7
Alignment explanation
Indices: 14121332--14121463 Score: 55
Period size: 7 Copynumber: 19.6 Consensus size: 7
14121322 CTATAATTTG
*
14121332 AAACACT
1 AAACCCT
*
14121339 AAACCTT
1 AAACCCT
14121346 AAACCCT
1 AAACCCT
14121353 AATA--CT
1 AA-ACCCT
*
14121359 AAACCAT
1 AAACCCT
14121366 AAACCCT
1 AAACCCT
*
14121373 AAACCCG
1 AAACCCT
* *
14121380 ATACCCC
1 AAACCCT
14121387 AAACCCT
1 AAACCCT
**
14121394 -AATTCT
1 AAACCCT
*
14121400 AAACACT
1 AAACCCT
*
14121407 AAA-TCT
1 AAACCCT
14121413 AAAACCCT
1 -AAACCCT
*
14121421 AAACCAT
1 AAACCCT
14121428 -AA-CCT
1 AAACCCT
*
14121433 AAATCCT
1 AAACCCT
*
14121440 AAA-ACT
1 AAACCCT
14121446 -AACCCTT
1 AAACCC-T
*
14121453 AGACCCT
1 AAACCCT
14121460 AAAC
1 AAAC
14121464 TAATCATGCA
Statistics
Matches: 92, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
5 5 0.05
6 17 0.18
7 63 0.68
8 7 0.08
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:14121359 original size:20 final size:20
Alignment explanation
Indices: 14121336--14121374 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14121326 AATTTGAAAC
*
14121336 ACTAAACCTTAAACCCTAAT
1 ACTAAACCATAAACCCTAAT
14121356 ACTAAACCATAAACCCTAA
1 ACTAAACCATAAACCCTAA
14121375 ACCCGATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (20 bp):
ACTAAACCATAAACCCTAAT
Found at i:14121522 original size:18 final size:18
Alignment explanation
Indices: 14121497--14121561 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
14121487 TTATCTTGTC
*
14121497 ATTA-CATGCATTTTTAT
1 ATTATCATGCATTATTAT
14121514 ATTATCATGCATTCA-TACT
1 ATTATCATGCATT-ATTA-T
* *
14121533 -TTGTCATTC-TTATTAT
1 ATTATCATGCATTATTAT
14121549 ATTATCATGCATT
1 ATTATCATGCATT
14121562 CATCATATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
16 2 0.05
17 15 0.41
18 19 0.51
19 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTATCATGCATTATTAT
Found at i:14124139 original size:27 final size:27
Alignment explanation
Indices: 14124108--14124160 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
14124098 CCAAGAATAG
14124108 TTAATAGATCATTAAACACAATTTCTC
1 TTAATAGATCATTAAACACAATTTCTC
*
14124135 TTAATAGATTATTAAACACAATTTCT
1 TTAATAGATCATTAAACACAATTTCT
14124161 TTATTACTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (27 bp):
TTAATAGATCATTAAACACAATTTCTC
Found at i:14134772 original size:65 final size:65
Alignment explanation
Indices: 14134696--14134861 Score: 197
Period size: 65 Copynumber: 2.5 Consensus size: 65
14134686 TTTAATCTCA
* * *
14134696 GCTCAATCCAAATCATTTTATTTTTTTGATTTGCGACTCAATCTTGGTTACTTGTTTTGATCTTG
1 GCTCAATCCAAATCATTTTATTTTTTTGATTTGCGACTCAATCTTAGTCACTTATTTTGATCTTG
* * ** **
14134761 GCTCAATCCAAATCATTTTACTTTTTTGATTTGTGGTTTGATCTTAGTCACTTATTTTGATCTTG
1 GCTCAATCCAAATCATTTTATTTTTTTGATTTGCGACTCAATCTTAGTCACTTATTTTGATCTTG
* * * * *
14134826 GCTCGATCTAGATAATTTTATTTTTTTTTATTTGCG
1 GCTCAATCCAAATCATTTTA-TTTTTTTGATTTGCG
14134862 GTATGATCTC
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
65 72 0.86
66 12 0.14
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (65 bp):
GCTCAATCCAAATCATTTTATTTTTTTGATTTGCGACTCAATCTTAGTCACTTATTTTGATCTTG
Found at i:14134884 original size:66 final size:66
Alignment explanation
Indices: 14134750--14134916 Score: 183
Period size: 66 Copynumber: 2.5 Consensus size: 66
14134740 TGGTTACTTG
* * * * * * * *
14134750 TTTTGATCTTGGCTCAATCCAAATCATTTTA-CTTTTTTGATTTGTGGTTTGATCTTAGTCACTT
1 TTTTGATCTTGGCTCGATCTAGATCATTTTATTTTTTTTGATTTGCGGTATGATCTCAGTCACTC
14134814 A
66 A
* * *
14134815 TTTTGATCTTGGCTCGATCTAGATAATTTTATTTTTTTTTATTTGCGGTATGATCTCGGTCACTC
1 TTTTGATCTTGGCTCGATCTAGATCATTTTATTTTTTTTGATTTGCGGTATGATCTCAGTCACTC
14134880 A
66 A
*** * *
14134881 TTTTGATCTCAACTCGTTTTAGATCATTTTATTTTT
1 TTTTGATCTTGGCTCGATCTAGATCATTTTATTTTT
14134917 CTAATTCACA
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
65 27 0.32
66 57 0.68
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.52
Consensus pattern (66 bp):
TTTTGATCTTGGCTCGATCTAGATCATTTTATTTTTTTTGATTTGCGGTATGATCTCAGTCACTC
A
Found at i:14135014 original size:64 final size:64
Alignment explanation
Indices: 14134903--14135045 Score: 164
Period size: 64 Copynumber: 2.2 Consensus size: 64
14134893 CTCGTTTTAG
* ** * *
14134903 ATCATTTTATTTTTCTAATTCACAATTTGATCCCAGTCATTTATTTTGATCTCAGCTCTA-TCCA
1 ATCATTTTAATTTT-TAATTCACAATTCAATCCCAATCACTTATTTTGATCTCAGCT-TAGTCCA
14134967 A
64 A
* * * * *
14134968 ATTATTTTAATTTTTGATTCACAATTCAATCCCAATCACTTGTTTTGATCTCGGCTTAGTCCAG
1 ATCATTTTAATTTTTAATTCACAATTCAATCCCAATCACTTATTTTGATCTCAGCTTAGTCCAA
14135032 ATCATTTT-ATTTTT
1 ATCATTTTAATTTTT
14135046 CTTACCTGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 8 0.12
64 46 0.70
65 12 0.18
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.48
Consensus pattern (64 bp):
ATCATTTTAATTTTTAATTCACAATTCAATCCCAATCACTTATTTTGATCTCAGCTTAGTCCAA
Found at i:14135651 original size:3 final size:3
Alignment explanation
Indices: 14135637--14135667 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14135627 GCCCAATCAA
*
14135637 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14135668 TATTCTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14136814 original size:13 final size:13
Alignment explanation
Indices: 14136796--14136820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14136786 TTTTCTAAAA
14136796 AAAATCTTATAAT
1 AAAATCTTATAAT
14136809 AAAATCTTATAA
1 AAAATCTTATAA
14136821 AACTATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATCTTATAAT
Found at i:14143599 original size:23 final size:21
Alignment explanation
Indices: 14143556--14143601 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
14143546 AAAGAGAAGA
*
14143556 AAGAAAAAAAAAAAAGGAATG
1 AAGAAAAAAAAAAAAGCAATG
*
14143577 AAGAAAAGAAAAAAGAATCAATG
1 AAGAAAA-AAAAAA-AAGCAATG
14143600 AA
1 AA
14143602 AGATAGGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 6 0.29
23 8 0.38
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (21 bp):
AAGAAAAAAAAAAAAGCAATG
Found at i:14143602 original size:20 final size:20
Alignment explanation
Indices: 14143560--14143602 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14143550 AGAAGAAAGA
*
14143560 AAAAAAAAAAAGGAATGAAG
1 AAAAAAAAAAAGGAATCAAG
*
14143580 AAAAGAAAAAA-GAATCAATG
1 AAAAAAAAAAAGGAATCAA-G
14143600 AAA
1 AAA
14143603 GATAGGGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAAAGGAATCAAG
Found at i:14145137 original size:14 final size:15
Alignment explanation
Indices: 14145107--14145139 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14145097 TTAAAATTTC
*
14145107 AAATGTGAATCTTTT
1 AAATGTAAATCTTTT
14145122 AAATGTAAAT-TTTT
1 AAATGTAAATCTTTT
14145136 AAAT
1 AAAT
14145140 TTTGGATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (15 bp):
AAATGTAAATCTTTT
Found at i:14145142 original size:21 final size:22
Alignment explanation
Indices: 14145118--14145161 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14145108 AATGTGAATC
14145118 TTTTAAATGTAAA-TTTTTAAA
1 TTTTAAATGTAAATTTTTTAAA
**
14145139 TTTTGGATGTAAATTTTTTAAA
1 TTTTAAATGTAAATTTTTTAAA
14145161 T
1 T
14145162 GCGAATCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTTAAATGTAAATTTTTTAAA
Found at i:14145387 original size:20 final size:20
Alignment explanation
Indices: 14145346--14145442 Score: 67
Period size: 20 Copynumber: 5.0 Consensus size: 20
14145336 GTTTGAAATT
*
14145346 TTATTTGTGAATCTTTGAAA
1 TTATTTGTAAATCTTTGAAA
14145366 TTATTTGTAAATCTTT---A
1 TTATTTGTAAATCTTTGAAA
* * * *
14145383 -TAATTGCAAAACTTTGTAAT
1 TTATTTGTAAATCTTTG-AAA
* *
14145403 TTCTTTTGTGAATCTTTGAAA
1 TT-ATTTGTAAATCTTTGAAA
* *
14145424 TTATTTATAAATTTTTGAA
1 TTATTTGTAAATCTTTGAA
14145443 TTTTCACGTC
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
16 12 0.21
17 1 0.02
20 28 0.50
21 5 0.09
22 10 0.18
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (20 bp):
TTATTTGTAAATCTTTGAAA
Found at i:14145597 original size:12 final size:13
Alignment explanation
Indices: 14145580--14145608 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14145570 TTTCCTTTTA
14145580 TTTTA-TTTTATT
1 TTTTATTTTTATT
14145592 TTTTATTTTTATT
1 TTTTATTTTTATT
14145605 TTTT
1 TTTT
14145609 TGGTCAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTATT
Done.