Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008371.1 Hibiscus syriacus cultivar Beakdansim tig00111127_pilon, 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: 546649
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 3
Found at i:314 original size:21 final size:21
Alignment explanation
Indices: 288--330 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
278 TTTATGGGTT
* *
288 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
309 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
330 A
1 A
331 CGAAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:428 original size:66 final size:67
Alignment explanation
Indices: 310--460 Score: 198
Period size: 66 Copynumber: 2.3 Consensus size: 67
300 ACCCATTCAA
* *
310 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCCCA-
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
374 GG
66 GG
* * * **
376 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGA-GGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCA
440 GGGG
65 -GGG
*
444 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
461 ATGAGAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
66 38 0.51
67 18 0.24
68 18 0.24
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCCAG
GG
Found at i:860 original size:30 final size:31
Alignment explanation
Indices: 818--877 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
808 AGAAAAAGTT
*
818 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
* *
849 ATATGC-CTATGTGTTAAAGTTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
878 ACTATGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:1125 original size:22 final size:22
Alignment explanation
Indices: 1097--1141 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1087 TTATGGACAT
1097 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1119 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1141 A
1 A
1142 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:1149 original size:22 final size:22
Alignment explanation
Indices: 1097--1149 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
1087 TTATGGACAT
*
1097 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
1119 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
1141 ATTTATACG
1 AATTATACG
1150 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:1795 original size:23 final size:22
Alignment explanation
Indices: 1744--1786 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1734 AAAAATATTC
1744 AAATAAAATCTTAAATAATAGA
1 AAATAAAATCTTAAATAATAGA
1766 AAGATAAAAT-TCTAAATAATA
1 AA-ATAAAATCT-TAAATAATA
1787 AATTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (22 bp):
AAATAAAATCTTAAATAATAGA
Found at i:4883 original size:21 final size:21
Alignment explanation
Indices: 4831--4902 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
4821 TTTCTAGCTC
* *
4831 AAAGGATTGATCCC-TT-ACT
1 AAAGGATCGACCCCTTTGACT
*
4850 AAGAGGATTGACCCCTTTGACT
1 AA-AGGATCGACCCCTTTGACT
**
4872 AAAGGATCGACCCCTTTGAAA
1 AAAGGATCGACCCCTTTGACT
4893 AAAGGATCGA
1 AAAGGATCGA
4903 TCTCTTGGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.04
20 11 0.24
21 28 0.61
22 5 0.11
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (21 bp):
AAAGGATCGACCCCTTTGACT
Found at i:4988 original size:21 final size:21
Alignment explanation
Indices: 4964--5017 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
4954 TTCATTAACT
*
4964 AAAAGGATCGATCCCTCGA-G
1 AAAATGATCGATCCCTCGATG
4984 AAAAATGATCGATCCCTCGATG
1 -AAAATGATCGATCCCTCGATG
5006 AAAATGATCGAT
1 AAAATGATCGAT
5018 ATTTTCCCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAATGATCGATCCCTCGATG
Found at i:7302 original size:2 final size:2
Alignment explanation
Indices: 7295--7350 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
7285 GTCTGCGTAG
7295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7337 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7351 TAACACGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9940 original size:19 final size:19
Alignment explanation
Indices: 9901--9940 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9891 TATTAACTTA
* * *
9901 ATTTAAAAATATTTTTTTT
1 ATTTAAAAATATGTATCTT
9920 ATTTAAAAATATGTATCTT
1 ATTTAAAAATATGTATCTT
9939 AT
1 AT
9941 GCTAAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTAAAAATATGTATCTT
Found at i:13182 original size:30 final size:30
Alignment explanation
Indices: 13148--13208 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13138 ATATATTAAA
13148 ATACTTCAATTTAAGTTAAATTTTATTTAG
1 ATACTTCAATTTAAGTTAAATTTTATTTAG
13178 ATACTTCAATTTAAGTTAAATTTTATTTAG
1 ATACTTCAATTTAAGTTAAATTTTATTTAG
13208 A
1 A
13209 CGATGACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (30 bp):
ATACTTCAATTTAAGTTAAATTTTATTTAG
Found at i:18627 original size:238 final size:238
Alignment explanation
Indices: 18209--18684 Score: 844
Period size: 238 Copynumber: 2.0 Consensus size: 238
18199 GCTAACAAAC
*
18209 TTACATTACTAATCAATTTGAATAACTTGCAACAAAAACAATATACTTTGTCAACATTTTTGGAA
1 TTACATTACTAATCAATTTGAACAACTTGCAACAAAAACAATATACTTTGTCAACATTTTTGGAA
*
18274 TAAACTAACCATTTTCTATCACTAGTCTCACAATTGCTCAACTTTCTAGAATAACATTCATATGA
66 TAAACTAACCATTTTCTATCACTAGTCTCACAATTGATCAACTTTCTAGAATAACATTCATATGA
* *
18339 GAAATGTCTATAATATTTATCAACACGAAATTCAATATCCATTTCTCTTATGGGCCCTTTTTTAA
131 GAAATGTCTATAATATTTATCAACACGAAATTCAAGATCCATTTCTCTTATGGGCCCTTTTTCAA
*
18404 CAAATATATCCCTCGCATTATTGTCAAGATTCTCCTAATTTAT
196 CAAATATATCCCTCGCATTATTGTCAAGATTCTCCCAATTTAT
* *
18447 TTACATTACTAATCGATTTGAACAACTTGCAACAAAAACAATATACTTTGTCAACATTTTTTGAA
1 TTACATTACTAATCAATTTGAACAACTTGCAACAAAAACAATATACTTTGTCAACATTTTTGGAA
*
18512 TAAACTAACCATTTTCTATCACTAGTCTCACCATTGATCAACTTTCTAGAATAACATTCATATGA
66 TAAACTAACCATTTTCTATCACTAGTCTCACAATTGATCAACTTTCTAGAATAACATTCATATGA
* * *
18577 GAAATGTCTATAATATTTATCAATAGGAAATTCAAGATCGATTTCTCTTATGGGCCCTTTTTCAA
131 GAAATGTCTATAATATTTATCAACACGAAATTCAAGATCCATTTCTCTTATGGGCCCTTTTTCAA
*
18642 CTAATATATCCCTCGCATTATTGTCAAGATTCTCCCAATTTAT
196 CAAATATATCCCTCGCATTATTGTCAAGATTCTCCCAATTTAT
18685 AGGATCGTAT
Statistics
Matches: 226, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
238 226 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (238 bp):
TTACATTACTAATCAATTTGAACAACTTGCAACAAAAACAATATACTTTGTCAACATTTTTGGAA
TAAACTAACCATTTTCTATCACTAGTCTCACAATTGATCAACTTTCTAGAATAACATTCATATGA
GAAATGTCTATAATATTTATCAACACGAAATTCAAGATCCATTTCTCTTATGGGCCCTTTTTCAA
CAAATATATCCCTCGCATTATTGTCAAGATTCTCCCAATTTAT
Found at i:26788 original size:3 final size:3
Alignment explanation
Indices: 26780--26810 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26770 TTTAAATCAG
26780 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA C
26811 ACTGATACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:30232 original size:245 final size:245
Alignment explanation
Indices: 29867--30353 Score: 787
Period size: 245 Copynumber: 2.0 Consensus size: 245
29857 CACTGAACCA
*
29867 CTTATCTACTCTTAACATATACAAATAAATAGCAATATCCAAGTTCCAGAGAAGAACTAGGGATG
1 CTTATCTACTCTTAACATATACAAATAAATAGCAATATCCAAGTTCCAGAGAACAACTAGGGATG
* **
29932 AAGTTGATAGTAAGAATTTTATGTTGCCGAGGCATAAGTTTGTTGCTGTCATTGTAGAACACATT
66 AAGTTGATAATAAGAATTTTATGTTGCCGAGGCATAAGTTTGTTGCTAACATTGTAGAACACATT
* *
29997 ATAGTATTTGCAAAAAAATGAATCCTATTGCCAGTCACTTCCTCAAGCATGATCTGGAAAATATA
131 ATAGTATTTGCAAAAAAATGAATCCTATTGCCAGTCACTTCCTCAAGAATGATATGGAAAATATA
* * *
30062 AAGGTACACCAGATCCTACGCTTACTAGGTTTGAGTCGGGACAGAAACTG
196 AAGGTACACCAGATCCTACACTTACTAGGCTTGAGTCAGGACAGAAACTG
* * *
30112 CTTATCTACTTTTAACATATACAAATAAATAGCAATATCCAAGTTCCAGAGAACAATTAGTGATG
1 CTTATCTACTCTTAACATATACAAATAAATAGCAATATCCAAGTTCCAGAGAACAACTAGGGATG
*
30177 AAGTTGATAATAAGAATTTTAATGTTG-TGAGGCATAAGTTTGTTGCTAACATTGTAGAACACAT
66 AAGTTGATAATAAGAATTTT-ATGTTGCCGAGGCATAAGTTTGTTGCTAACATTGTAGAACACAT
* * * * *
30241 TATGGTATTTGCAAACAATTGAATCCTATTGCCAGTCACTTCCTGAAGAATGATATGGCAAATAT
130 TATAGTATTTGCAAAAAAATGAATCCTATTGCCAGTCACTTCCTCAAGAATGATATGGAAAATAT
*
30306 AGAGGTACACCAGATCCTACACTTACTAGGCTTGAGTCAGGACAGAAA
195 AAAGGTACACCAGATCCTACACTTACTAGGCTTGAGTCAGGACAGAAA
30354 GGTGTAATAG
Statistics
Matches: 222, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
245 216 0.97
246 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (245 bp):
CTTATCTACTCTTAACATATACAAATAAATAGCAATATCCAAGTTCCAGAGAACAACTAGGGATG
AAGTTGATAATAAGAATTTTATGTTGCCGAGGCATAAGTTTGTTGCTAACATTGTAGAACACATT
ATAGTATTTGCAAAAAAATGAATCCTATTGCCAGTCACTTCCTCAAGAATGATATGGAAAATATA
AAGGTACACCAGATCCTACACTTACTAGGCTTGAGTCAGGACAGAAACTG
Found at i:31906 original size:8 final size:8
Alignment explanation
Indices: 31895--31940 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
31885 CAAAATAAAA
*
31895 GGGAGAGC
1 GGGAGGGC
31903 GGGAGGGC
1 GGGAGGGC
31911 GGGAGGGC
1 GGGAGGGC
*
31919 GGGAGGGA
1 GGGAGGGC
* *
31927 GGAAGGGA
1 GGGAGGGC
31935 GGGAGG
1 GGGAGG
31941 AGAGAGGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.72, T:0.00
Consensus pattern (8 bp):
GGGAGGGC
Found at i:31928 original size:4 final size:4
Alignment explanation
Indices: 31903--31956 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
31893 AAGGGAGAGC
* * *
31903 GGGA GGGC GGGA GGGC GGGA GGGA GGAA GGGA GGGA GGAGA GAGGA GAGGA
1 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GG-GA G-GGA G-GGA
31954 GGG
1 GGG
31957 TTTGGTGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
4 30 0.71
5 11 0.26
6 1 0.02
ACGTcount: A:0.26, C:0.04, G:0.70, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:32966 original size:17 final size:17
Alignment explanation
Indices: 32941--32991 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
32931 TTAAATTCAT
32941 ATTTAAAATTT-TAAATA
1 ATTTAAAATTTATAAA-A
*
32958 ATTTTAAATTTATAAAA
1 ATTTAAAATTTATAAAA
*
32975 ATTTAAAAATTA-AAAA
1 ATTTAAAATTTATAAAA
32991 A
1 A
32992 AATAAAATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 5 0.17
17 21 0.70
18 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTTATAAAA
Found at i:33590 original size:13 final size:13
Alignment explanation
Indices: 33572--33597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33562 TCATGTGCCA
33572 TGTGACAATATCT
1 TGTGACAATATCT
33585 TGTGACAATATCT
1 TGTGACAATATCT
33598 GAATGGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTGACAATATCT
Found at i:37215 original size:102 final size:102
Alignment explanation
Indices: 37087--37275 Score: 265
Period size: 102 Copynumber: 1.8 Consensus size: 102
37077 ATACTCATAA
* * * *
37087 GAGTATCAATACCTAGGGTAGTGTATCGATACTCCTAGTAGGGGTATCGATACTAAGGTATTTTT
1 GAGTATCAATACCTAGGGTAGGGTATCGATACTCCTAGGAGGAGTATCAATACTAA-GTATTTTT
37152 T-AAAACATCGAATGTAATTTTAATATCGGTATTGTAT
65 TCAAAACATCGAATGTAATTTTAATATCGGTATTGTAT
* * *
37189 GAGTATCGATA-CTGAGGGTAGGGTATCGATACTCTTAGGAGGAGTATCAATACTAAGTTTTTTT
1 GAGTATCAATACCT-AGGGTAGGGTATCGATACTCCTAGGAGGAGTATCAATACTAAGTATTTTT
*
37253 TCCGAAACATCGAATGTAATTTT
65 T-CAAAACATCGAATGTAATTTT
37276 GGTATCGATA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 10 0.13
102 47 0.62
103 19 0.25
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (102 bp):
GAGTATCAATACCTAGGGTAGGGTATCGATACTCCTAGGAGGAGTATCAATACTAAGTATTTTTT
CAAAACATCGAATGTAATTTTAATATCGGTATTGTAT
Found at i:39757 original size:32 final size:31
Alignment explanation
Indices: 39721--39838 Score: 132
Period size: 32 Copynumber: 3.7 Consensus size: 31
39711 GTTCTACGGA
* *
39721 ACATATAGACAGAATTACCTATGTCTTTTGAG
1 ACATATGGACAGAA-TACCTATGTCTTTCGAG
* *
39753 ACATATGGACAGTATACCTATGT-TCTACG-G
1 ACATATGGACAGAATACCTATGTCT-TTCGAG
*
39783 AACATATGGACATAATTACCTATGTCTTTCGAG
1 -ACATATGGACAGAA-TACCTATGTCTTTCGAG
*
39816 ACATATGGACAGTATACCTATGT
1 ACATATGGACAGAATACCTATGT
39839 TCTAAGGAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
30 2 0.03
31 32 0.44
32 36 0.50
33 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (31 bp):
ACATATGGACAGAATACCTATGTCTTTCGAG
Found at i:39774 original size:31 final size:31
Alignment explanation
Indices: 39701--39872 Score: 179
Period size: 31 Copynumber: 5.5 Consensus size: 31
39691 AGAGTCGAGG
* *
39701 GTATACCTATGTTCTACGGAACATATAGACA
1 GTATACCTATGTTCTATGGAACATATGGACA
* * *
39732 GAATTACCTATG-TCTTTTGAGACATATGGACA
1 GTA-TACCTATGTTCTATGGA-ACATATGGACA
*
39764 GTATACCTATGTTCTACGGAACATATGGACA
1 GTATACCTATGTTCTATGGAACATATGGACA
* *
39795 -TAATTACCTATG-TCTTTCGAGACATATGGACA
1 GT-A-TACCTATGTTCTATGGA-ACATATGGACA
*
39827 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTATGGAACATATGGACA
* *
39858 GTTTACCTAGGTTCT
1 GTATACCTATGTTCT
39873 TCAGAACCTA
Statistics
Matches: 116, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.01
31 64 0.55
32 50 0.43
33 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
GTATACCTATGTTCTATGGAACATATGGACA
Found at i:39800 original size:63 final size:63
Alignment explanation
Indices: 39701--39866 Score: 280
Period size: 63 Copynumber: 2.7 Consensus size: 63
39691 AGAGTCGAGG
* *
39701 GTATACCTATGTTCTACGGAACATATAGACAGAATTACCTATGTCTTTTGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
*
39764 GTATACCTATGTTCTACGGAACATATGGACATAATTACCTATGTCTTTCGAGACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
* *
39827 GTATACCTATGTTCTAAGGAACATATGGACAG-TTTACCTA
1 GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTA
39867 GGTTCTTCAG
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 7 0.07
63 90 0.93
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (63 bp):
GTATACCTATGTTCTACGGAACATATGGACAGAATTACCTATGTCTTTCGAGACATATGGACA
Found at i:41295 original size:13 final size:13
Alignment explanation
Indices: 41277--41308 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
41267 TTTTATGAAT
41277 AGTGAACAATAAC
1 AGTGAACAATAAC
41290 AGTGAACAATAAC
1 AGTGAACAATAAC
41303 AGTGAA
1 AGTGAA
41309 TAGTACCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.19, T:0.16
Consensus pattern (13 bp):
AGTGAACAATAAC
Found at i:41846 original size:46 final size:45
Alignment explanation
Indices: 41722--41874 Score: 236
Period size: 45 Copynumber: 3.4 Consensus size: 45
41712 TTCAAAATAT
* *
41722 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACTAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
41767 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
* * *
41812 TTACCACTTATTCCCATAAGCTCGTAAGCTTATTTTACCAATACAC
1 TTACCATTTATT-CCATAAGCTCGTAAGCTTATTTTACCAACATAC
*
41858 TTGCCA-TTATTCCATAA
1 TTACCATTTATTCCATAA
41875 CCATATACCA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
44 6 0.06
45 59 0.58
46 36 0.36
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
Found at i:42063 original size:61 final size:61
Alignment explanation
Indices: 41956--42070 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
41946 GTAGTGCTAA
* *
41956 ACCTGCACTAAGCTTACACCATAGTGCTAATCCGGACAATACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCGGACAATACACATAAAGTCGTGCCCACC
* * *
42017 ACCTACACTAAGCTTACGCTATAGTGCTAATCCGGAC-ATGATACATAAAGTCGT
1 ACCTACACTAAGCTTACACCATAGTGCTAATCCGGACAAT-ACACATAAAGTCGT
42071 ATCCACCTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 2 0.04
61 46 0.96
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (61 bp):
ACCTACACTAAGCTTACACCATAGTGCTAATCCGGACAATACACATAAAGTCGTGCCCACC
Found at i:44696 original size:31 final size:31
Alignment explanation
Indices: 44661--44740 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 31
44651 TTCAACATCC
*
44661 AAGTGAGCAAAACTTAATAAAACAATAACAT
1 AAGTGAACAAAACTTAATAAAACAATAACAT
* *
44692 AAGTGATAAAAAAAACTTAATAAAACGATAACAT
1 AAGTG---AACAAAACTTAATAAAACAATAACAT
*
44726 -AGTGACCAAAACTTA
1 AAGTGAACAAAACTTA
44741 TGTTTTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
30 9 0.22
31 5 0.12
33 4 0.10
34 23 0.56
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (31 bp):
AAGTGAACAAAACTTAATAAAACAATAACAT
Found at i:45941 original size:33 final size:33
Alignment explanation
Indices: 45868--45941 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 33
45858 ATTATAGCTA
*
45868 TAATT-TTATAAATAAAATTATTAAGATTATTG
1 TAATTATTATAAATAAAATTATTAAAATTATTG
*
45900 TATTTTATTA-AAATAAAATTATTATAAATTATAT-
1 TA-ATTATTATAAATAAAATTATTA-AAATTAT-TG
45934 TAATTATT
1 TAATTATT
45942 TACTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
32 2 0.06
33 21 0.60
34 11 0.31
35 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (33 bp):
TAATTATTATAAATAAAATTATTAAAATTATTG
Found at i:45942 original size:38 final size:38
Alignment explanation
Indices: 45903--46008 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 38
45893 ATTATTGTAT
45903 TTTATTAAAATAA-AATTATTATAAATTATATTAATTA
1 TTTATTAAAATAATAATTATTATAAATTATATTAATTA
* * *
45940 TTTACTAAAATAAGAATAATATATTTTTAATTATATTAATTA
1 TTTATTAAAAT---AATAAT-TATTATAAATTATATTAATTA
*
45982 CTTATT-AAATAATAA-TATTATTAAATT
1 TTTATTAAAATAATAATTATTA-TAAATT
46009 TTTGATAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
36 4 0.07
37 15 0.27
38 5 0.09
40 2 0.04
41 7 0.12
42 23 0.41
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (38 bp):
TTTATTAAAATAATAATTATTATAAATTATATTAATTA
Found at i:46133 original size:327 final size:328
Alignment explanation
Indices: 45683--46333 Score: 1044
Period size: 327 Copynumber: 2.0 Consensus size: 328
45673 ACGGTGTTTA
* * *
45683 GATAAATTGTGTAACTCATTTTCCATTGGTTGATAAATTCTTTTTATAAAAAATTCTTTATTGTA
1 GATAAATTGTGTAACACATTTTCCATTGGTTGATAAATTCTTTTTATAAAAAACTCTTTATCGTA
* * *
45748 AACATCAAATATAATAAATAATATTATTTTTTAACCAAAATAATAATATTATTTTTAAAATA-TT
66 AACATCAAATATAATAAATAATATTATTTATTAACCAAAAAAATAATAATATTTTTAAAATATTT
* * *
45812 AGAATACTTTATTTAATAGTATTTATATCAATATTATTATTAAAATATTATAGCTATAATTTTAT
131 A-AATAATTTATTTAATAGTATTTATATCAATATTATTATTAAAATATTATAACTATAATGTTAT
* *
45877 AAATAAAATTATTAAGATTATTGTATTTTATTAAAATAAAATTATTATAAATTATATTAATTATT
195 AAAT-AAA-TATTAAGATTATTATATTTTATTAAAATAAAAGTATTATAAATTATATTAATTATT
*
45942 TACT-AA-AATAAGAATAATATATTTTTAATTATATTAATTACTTATTAAATAATAATATTATTA
258 TAATAAATAATAAGAATAATATATTTTTAATTATATTAATTACTTATTAAA-AATAATATTATTA
46005 AATTTTT
322 AATTTTT
* *
46012 GATAAATTGTGTAACACATTTTTCACTT-GTTGATAAATTCTTTTTAT-AGAAACTCTTTATCGT
1 GATAAATTGTGTAACACATTTTCCA-TTGGTTGATAAATTCTTTTTATAAAAAACTCTTTATCGT
46075 AAACATCAAATATAATAAATAATATT-TTTATTAACCAAAAAAATAATAATATTTTTAAAATATT
65 AAACATCAAATATAATAAATAATATTATTTATTAACCAAAAAAATAATAATATTTTTAAAATATT
* *
46139 TAAATAATTTATTTAATATTATTTATATCAATATTATTATTCAAATATTATAACTATAATGTTAT
130 TAAATAATTTATTTAATAGTATTTATATCAATATTATTATTAAAATATTATAACTATAATGTTAT
*
46204 AAATAAATATTAAGATTATTATATTTTATTAAAGTAAAAGTATTATAAATTATATTAATTATTTA
195 AAATAAATATTAAGATTATTATATTTTATTAAAATAAAAGTATTATAAATTATATTAATTATTTA
*
46269 ATAAAATAATAATAATAATATATTTTTAATTATATTAATTACTTATTAAAAATAATATTATTAAA
260 AT-AAATAATAAGAATAATATATTTTTAATTATATTAATTACTTATTAAAAATAATATTATTAAA
46334 ATATTAAACA
Statistics
Matches: 299, Mismatches: 18, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
325 56 0.19
326 3 0.01
327 112 0.37
328 84 0.28
329 42 0.14
330 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (328 bp):
GATAAATTGTGTAACACATTTTCCATTGGTTGATAAATTCTTTTTATAAAAAACTCTTTATCGTA
AACATCAAATATAATAAATAATATTATTTATTAACCAAAAAAATAATAATATTTTTAAAATATTT
AAATAATTTATTTAATAGTATTTATATCAATATTATTATTAAAATATTATAACTATAATGTTATA
AATAAATATTAAGATTATTATATTTTATTAAAATAAAAGTATTATAAATTATATTAATTATTTAA
TAAATAATAAGAATAATATATTTTTAATTATATTAATTACTTATTAAAAATAATATTATTAAATT
TTT
Found at i:46153 original size:22 final size:23
Alignment explanation
Indices: 46119--46173 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
46109 CCAAAAAAAT
46119 AATAATATTTTTAA-AATATTTA
1 AATAATATTTTTAATAATATTTA
*
46141 AATAAT-TTATTTAATATTATTTA
1 AATAATATT-TTTAATAATATTTA
*
46164 TATCAATATT
1 AAT-AATATT
46174 ATTATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.07
22 11 0.41
23 9 0.33
24 3 0.11
25 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAATATTTTTAATAATATTTA
Found at i:46164 original size:14 final size:14
Alignment explanation
Indices: 46135--46189 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
46125 ATTTTTAAAA
*
46135 TATTTAA-ATAATT
1 TATTTAATATTATT
46148 TATTTAATATTATT
1 TATTTAATATTATT
*
46162 TATATCAATATTA-T
1 TAT-TTAATATTATT
*
46176 TATTCAAATATTAT
1 TATT-TAATATTAT
46190 AACTATAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 8 0.23
14 19 0.54
15 8 0.23
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTAATATTATT
Found at i:46570 original size:14 final size:14
Alignment explanation
Indices: 46551--46634 Score: 57
Period size: 14 Copynumber: 6.1 Consensus size: 14
46541 ATATAATATG
46551 TTATAATAATATAA
1 TTATAATAATATAA
* *
46565 TTATAACAATAAAA
1 TTATAATAATATAA
* * *
46579 ATATTATATTAT-A
1 TTATAATAATATAA
* *
46592 TTATATTAATAAAA
1 TTATAATAATATAA
*
46606 TTTTCAATAATTATAA
1 TTAT-AATAA-TATAA
46622 TT-TAATAAT-TAA
1 TTATAATAATATAA
46634 T
1 T
46635 ATTTTTGATA
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
12 4 0.08
13 9 0.17
14 28 0.54
15 5 0.10
16 6 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
TTATAATAATATAA
Found at i:47276 original size:23 final size:21
Alignment explanation
Indices: 47221--47270 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
47211 TTTTTTAATA
47221 TTTTTTTGAAATACTTATAGGG
1 TTTTTTTGAAATACTTATA-GG
* *
47243 TTTTTCTGAAATACTTTTAGG
1 TTTTTTTGAAATACTTATAGG
47264 TTTTTTT
1 TTTTTTT
47271 ATGAAAACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (21 bp):
TTTTTTTGAAATACTTATAGG
Found at i:50914 original size:18 final size:18
Alignment explanation
Indices: 50891--50931 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
50881 AGGATTACAC
*
50891 CATCATCA-AAGGTTGCAA
1 CATCATCACAA-GCTGCAA
50909 CATCATCACAAGCTGCAA
1 CATCATCACAAGCTGCAA
50927 CATCA
1 CATCA
50932 CAACCACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (18 bp):
CATCATCACAAGCTGCAA
Found at i:60037 original size:17 final size:16
Alignment explanation
Indices: 60015--60048 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
60005 TATTTGAATT
60015 TAAAAAAATCAGAAAAA
1 TAAAAAAATCA-AAAAA
60032 TAAAAAAATCAAAAAA
1 TAAAAAAATCAAAAAA
60048 T
1 T
60049 TTACAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
TAAAAAAATCAAAAAA
Found at i:61985 original size:23 final size:25
Alignment explanation
Indices: 61933--61986 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
61923 TATCATATAA
*
61933 TCATATACTTATCGTTTATACAAAT
1 TCATATACTTATCGTTAATACAAAT
61958 T-ATATACTTCAT-G-TAATAC-AAT
1 TCATATACTT-ATCGTTAATACAAAT
61980 TCATATA
1 TCATATA
61987 ACTAAAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.15
23 10 0.38
24 9 0.35
25 3 0.12
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.43
Consensus pattern (25 bp):
TCATATACTTATCGTTAATACAAAT
Found at i:63341 original size:25 final size:27
Alignment explanation
Indices: 63308--63359 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
63298 GACAAGTCAA
*
63308 ATTCATATTCCAAA-TTCA-TTTAAAC
1 ATTCATATTCAAAATTTCACTTTAAAC
*
63333 ATTCTTATTCAAAATTTCACTTTAAAC
1 ATTCATATTCAAAATTTCACTTTAAAC
63360 CCCATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.52
26 4 0.17
27 7 0.30
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTCATATTCAAAATTTCACTTTAAAC
Found at i:66000 original size:15 final size:17
Alignment explanation
Indices: 65969--66001 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
65959 ATGTATTTTT
65969 ATCTATCTTGTAATTTA
1 ATCTATCTTGTAATTTA
65986 ATCTA-CTTG-AATTTA
1 ATCTATCTTGTAATTTA
66001 A
1 A
66002 AAAAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (17 bp):
ATCTATCTTGTAATTTA
Found at i:66972 original size:42 final size:42
Alignment explanation
Indices: 66905--66987 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
66895 TGTATCCAAC
* * * *
66905 ATGGTGTACATGTTTTGTATTTTAGGGTCTAAAGTAGACAAT
1 ATGGTGTACATATTTTGCATCTTAGGGTCTAAAGTAAACAAT
* *
66947 ATGGTGTATATATTTTGCATCTTAGGGTTTAAAGTAAACAA
1 ATGGTGTACATATTTTGCATCTTAGGGTCTAAAGTAAACAA
66988 CGTGGTCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (42 bp):
ATGGTGTACATATTTTGCATCTTAGGGTCTAAAGTAAACAAT
Found at i:67173 original size:27 final size:27
Alignment explanation
Indices: 67143--67200 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
67133 AAATATTTTT
67143 ATATTCAATTATTAATTTAATTTAAAA
1 ATATTCAATTATTAATTTAATTTAAAA
** * * *
67170 ATATTTTATTTTTATTTTCATTTAAAA
1 ATATTCAATTATTAATTTAATTTAAAA
67197 ATAT
1 ATAT
67201 ATGTTTTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTCAATTATTAATTTAATTTAAAA
Found at i:80644 original size:2 final size:2
Alignment explanation
Indices: 80637--80670 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
80627 GTTGTAACTT
80637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80671 ATTTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82227 original size:30 final size:30
Alignment explanation
Indices: 82193--82268 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 30
82183 TTAAAACTTG
* *
82193 CAATATAGTCCCCAACATTTAGTCCGTTTA
1 CAATATGGTCCCCAACATTAAGTCCGTTTA
*
82223 CAATATGGTCCCCCAACATTAAGTCCGTTTG
1 CAATATGGT-CCCCAACATTAAGTCCGTTTA
82254 CAATATGGTCCCCAA
1 CAATATGGTCCCCAA
82269 TTTAACTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 14 0.33
31 28 0.67
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (30 bp):
CAATATGGTCCCCAACATTAAGTCCGTTTA
Found at i:83700 original size:24 final size:22
Alignment explanation
Indices: 83656--83726 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 22
83646 AGTCTATTTC
* *
83656 AATACTTGAATTTAGTGTTAATG
1 AATATTTGAATTTA-TTTTAATG
*
83679 AATGATTTGAATTTATTTTTAATTA
1 AAT-ATTTGAATTTA-TTTTAA-TG
* *
83704 AATATCTAAATTTATTTTAATG
1 AATATTTGAATTTATTTTAATG
83726 A
1 A
83727 TTCAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 2 0.05
23 9 0.23
24 24 0.62
25 4 0.10
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (22 bp):
AATATTTGAATTTATTTTAATG
Found at i:89519 original size:5 final size:5
Alignment explanation
Indices: 89506--89540 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
89496 AAAAACACCC
*
89506 TGACA TGACC TGACA TGACA TGACA TGACA TGACA
1 TGACA TGACA TGACA TGACA TGACA TGACA TGACA
89541 AGTAATATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (5 bp):
TGACA
Found at i:95878 original size:2 final size:2
Alignment explanation
Indices: 95871--95899 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95861 ATAGTTTTCC
95871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95900 TCCAAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100204 original size:31 final size:31
Alignment explanation
Indices: 100155--100222 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
100145 AAAATCGAAT
*
100155 TAAAC-GGGGACGGAGAAAAA-TCGTTTATGC
1 TAAACGGGGGACGGAGAAAAACT-ATTTATGC
*
100185 TAAACGGGGGAC-GAGGAAAAACTATTTATGT
1 TAAACGGGGGACGGA-GAAAAACTATTTATGC
100216 TAAACGG
1 TAAACGG
100223 AGATGGGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 7 0.21
31 25 0.76
32 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (31 bp):
TAAACGGGGGACGGAGAAAAACTATTTATGC
Found at i:102190 original size:64 final size:64
Alignment explanation
Indices: 102118--102296 Score: 234
Period size: 64 Copynumber: 2.8 Consensus size: 64
102108 TGGAACACTT
* * * *
102118 AGTGCATCGGTGCACT-AAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTA
1 AGTGCATCGATGCA-TGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTA
* * * *
102182 AGTGCATCGATGCATGGTGTGTGCATCGATGCATAAAATGCATTCGATATTTTCATTAAACCTG
1 AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTA
* * * *
102246 AGTGCATCGATGCATGGAGAGTGCATCGATGCATAAACTACATTCCATGTT
1 AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTT
102297 CAATTTATTC
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 1 0.01
64 99 0.99
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (64 bp):
AGTGCATCGATGCATGGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAACCTA
Found at i:102314 original size:64 final size:63
Alignment explanation
Indices: 102138--102325 Score: 164
Period size: 64 Copynumber: 2.9 Consensus size: 63
102128 TGCACTAAGT
* * * * * * * * *
102138 GTGCATCGATGCATAAAATGCATTC-GATGTTTTGAATAAGCCTAAGTGCATCGATGCATGGTGT
1 GTGCATCGATGCATAAAATACATTCACATG--TTCATTAAACATGAGTGCATCGATGCATGGAGA
* * * *
102202 GTGCATCGATGCATAAAATGCATTCGATATTTTCATTAAACCTGAGTGCATCGATGCATGGAGA
1 GTGCATCGATGCATAAAATACATTC-ACATGTTCATTAAACATGAGTGCATCGATGCATGGAGA
* ** *
102266 GTGCATCGATGCATAAACTACATTC-CATGTTCAATTTATTCATTAGTGCATCGATGCATG
1 GTGCATCGATGCATAAAATACATTCACATGTTC-A-TTAAACATGAGTGCATCGATGCATG
102326 AATTGGTGCA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
62 5 0.05
63 1 0.01
64 96 0.92
66 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATACATTCACATGTTCATTAAACATGAGTGCATCGATGCATGGAGA
Found at i:103807 original size:23 final size:22
Alignment explanation
Indices: 103778--103865 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 22
103768 ACATGGCCTT
103778 GTGCATCGATGCACATTAAAAG
1 GTGCATCGATGCACATTAAAAG
* * * *
103800 AGTGCATCGGTGCACCTT-CATG
1 -GTGCATCGATGCACATTAAAAG
* *
103822 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATT-AAAAG
103845 GATGCATCGATGCACTATTAA
1 G-TGCATCGATGCAC-ATTAA
103866 GTGTATCGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 14 0.27
22 2 0.04
23 18 0.35
24 14 0.27
25 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTAAAAG
Found at i:103870 original size:44 final size:44
Alignment explanation
Indices: 103782--103878 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
103772 GGCCTTGTGC
* *
103782 ATCGATGCACATTAAAAGAGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTAAAAGAGTGCATCGATGCACCTTCATAGTGT
* * *
103826 ATCGATGCACATTCAAAGGGATGCATCGATGCA-CTATTA-AGTGT
1 ATCGATGCACATTAAAAGAG-TGCATCGATGCACCT-TCATAGTGT
103870 ATCGATGCA
1 ATCGATGCA
103879 TTAAGCACAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTAAAAGAGTGCATCGATGCACCTTCATAGTGT
Found at i:104737 original size:15 final size:15
Alignment explanation
Indices: 104701--104731 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104691 GTTTTGATTC
104701 AAATTTAACAAAAGA
1 AAATTTAACAAAAGA
*
104716 AAATTTATCAAAAGA
1 AAATTTAACAAAAGA
104731 A
1 A
104732 GCTTTAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AAATTTAACAAAAGA
Found at i:106930 original size:19 final size:19
Alignment explanation
Indices: 106908--106997 Score: 171
Period size: 19 Copynumber: 4.7 Consensus size: 19
106898 ATAAGCCTAA
*
106908 GTGCATTGATGCATGGTGT
1 GTGCATCGATGCATGGTGT
106927 GTGCATCGATGCATGGTGT
1 GTGCATCGATGCATGGTGT
106946 GTGCATCGATGCATGGTGT
1 GTGCATCGATGCATGGTGT
106965 GTGCATCGATGCATGGTGT
1 GTGCATCGATGCATGGTGT
106984 GTGCATCGATGCAT
1 GTGCATCGATGCAT
106998 AAAATGCATT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 70 1.00
ACGTcount: A:0.17, C:0.16, G:0.36, T:0.32
Consensus pattern (19 bp):
GTGCATCGATGCATGGTGT
Found at i:107114 original size:20 final size:20
Alignment explanation
Indices: 107089--107126 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
107079 CAATTTATTC
107089 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
107109 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
107127 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:120093 original size:26 final size:26
Alignment explanation
Indices: 120039--120093 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
120029 TATATTCATT
**
120039 TTTATTTTATTTTATTTATAATATTA
1 TTTATTTTATTTTATTTATAATAAAA
120065 TTTA-TTTATTTATATGTTA-AATAAAA
1 TTTATTTTATTT-TAT-TTATAATAAAA
120091 TTT
1 TTT
120094 TATAGTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 7 0.28
26 15 0.60
27 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATTTTATTTATAATAAAA
Found at i:120274 original size:10 final size:10
Alignment explanation
Indices: 120259--120288 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
120249 ATATGAGAAA
120259 AAATTAATTT
1 AAATTAATTT
120269 AAATTAATTT
1 AAATTAATTT
*
120279 AATTTAATTT
1 AAATTAATTT
120289 TAAAATAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AAATTAATTT
Found at i:123929 original size:24 final size:24
Alignment explanation
Indices: 123866--123931 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
123856 CAATCTTATA
*
123866 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTACGGTGCAAATTCTACG
* * * *
123889 CGACACTTCTGTGCAAATTCTACG
1 TGGCACTACGGTGCAAATTCTACG
*
123913 TGGCACTACGGTACAAATT
1 TGGCACTACGGTGCAAATT
123932 TATACGAGCT
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTCTACG
Found at i:124814 original size:19 final size:20
Alignment explanation
Indices: 124767--124818 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
124757 GTATTGTTCA
*
124767 TTACTGTTCAAACAATATTG
1 TTACTGTTCATACAATATTG
*
124787 TTCACTGTTCATACCATATT-
1 TT-ACTGTTCATACAATATTG
124807 TTACTGTTCATA
1 TTACTGTTCATA
124819 AAACATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.34
20 4 0.14
21 15 0.52
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (20 bp):
TTACTGTTCATACAATATTG
Found at i:124825 original size:21 final size:22
Alignment explanation
Indices: 124767--124826 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
124757 GTATTGTTCA
*
124767 TTACTGTTCA-AACA-ATATTG
1 TTACTGTTCATAAAACATATTG
*
124787 TTCACTGTTCAT--ACCATATT-
1 TT-ACTGTTCATAAAACATATTG
124807 TTACTGTTCATAAAACATAT
1 TTACTGTTCATAAAACATAT
124827 ATTTTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
19 9 0.28
20 4 0.12
21 19 0.59
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (22 bp):
TTACTGTTCATAAAACATATTG
Found at i:128911 original size:18 final size:18
Alignment explanation
Indices: 128884--128919 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
128874 TTAAAATCAA
128884 AAGATAAAAGAGTTAGAG
1 AAGATAAAAGAGTTAGAG
* *
128902 AAGATTAAAGATTTAGAG
1 AAGATAAAAGAGTTAGAG
128920 TTTTTGAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
AAGATAAAAGAGTTAGAG
Found at i:132253 original size:15 final size:15
Alignment explanation
Indices: 132233--132289 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
132223 ACATGGGTAT
132233 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
132248 CGGGTACCCGCAAAATC
1 CGGGTACCCG-ATTA-C
*
132265 CGGGGACCCGATTAC
1 CGGGTACCCGATTAC
*
132280 AGGGTACCCG
1 CGGGTACCCG
132290 TAACATCCGG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
15 19 0.58
16 4 0.12
17 10 0.30
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:132279 original size:32 final size:32
Alignment explanation
Indices: 132233--132300 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
132223 ACATGGGTAT
* *
132233 CGGGTACCCGATTACCGGGTACCCGCAAAATC
1 CGGGGACCCGATTACAGGGTACCCGCAAAATC
* *
132265 CGGGGACCCGATTACAGGGTACCCGTAACATC
1 CGGGGACCCGATTACAGGGTACCCGCAAAATC
132297 CGGG
1 CGGG
132301 TCGGGACACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (32 bp):
CGGGGACCCGATTACAGGGTACCCGCAAAATC
Found at i:138212 original size:29 final size:27
Alignment explanation
Indices: 138177--138233 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
138167 TGAAGTATAT
*
138177 ATATCATATACACACATATAAGTATACAC
1 ATATCATATA-A-ACACATAAGTATACAC
*
138206 ATATCATATAAATACATAAGTATACAC
1 ATATCATATAAACACATAAGTATACAC
138233 A
1 A
138234 CACATCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 15 0.58
28 1 0.04
29 10 0.38
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.28
Consensus pattern (27 bp):
ATATCATATAAACACATAAGTATACAC
Found at i:140972 original size:22 final size:23
Alignment explanation
Indices: 140927--140972 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
140917 AAAAAATAGT
140927 CTTAAATATGTAGTGTTTTTCTAA
1 CTTAAATATGTAGTG-TTTTCTAA
140951 CTTAAATATGTAGTG-TTTCTAA
1 CTTAAATATGTAGTGTTTTCTAA
140973 AATTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.32
24 15 0.68
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (23 bp):
CTTAAATATGTAGTGTTTTCTAA
Found at i:141828 original size:29 final size:29
Alignment explanation
Indices: 141796--141851 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
141786 CTTTTAAAGT
*
141796 TTTAGATAAAAA-TAAAATATGTAAATATA
1 TTTA-ATAAAAAGTAAAATATCTAAATATA
*
141825 TTTAATAAAAAGTTAAATATCTAAATA
1 TTTAATAAAAAGTAAAATATCTAAATA
141852 AAAATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (29 bp):
TTTAATAAAAAGTAAAATATCTAAATATA
Found at i:141859 original size:29 final size:28
Alignment explanation
Indices: 141801--141859 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 28
141791 AAAGTTTTAG
* * **
141801 ATAAAAATAAAATATGTAAATATATTTA
1 ATAAAAATAAAATATCTAAATAAAAATA
*
141829 ATAAAAAGTTAAATATCTAAATAAAAATA
1 ATAAAAA-TAAAATATCTAAATAAAAATA
141858 AT
1 AT
141860 TTAAATGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
ATAAAAATAAAATATCTAAATAAAAATA
Found at i:142249 original size:168 final size:168
Alignment explanation
Indices: 141946--142281 Score: 656
Period size: 167 Copynumber: 2.0 Consensus size: 168
141936 AAAGGAGTGT
141946 GGATAAAACGTGAGTTTGATCAGCCAATCATATTGCAGAAAACAAAATCAGAATCCTCTCTCTAT
1 GGATAAAACGTGAGTTTGATCAGCCAATCATATTGCAGAAAACAAAATCAGAATCCTCTCTCTAT
142011 CCCCAATCCCATCATTAGTTGATCACTCCAAATTCCCACTTTTTTCCGTAACACGAAGCTTGAAT
66 CCCCAATCCCATCATTAGTTGATCACTCCAAATTCCCACTTTTTTCCGTAACACGAAGCTTGAAT
142076 TGACCCGACCCGACCCGTCAATTCTGATTTTCTGCTCA
131 TGACCCGACCCGACCCGTCAATTCTGATTTTCTGCTCA
142114 GGAT-AAACGTGAGTTTGATCAGCCAATCATATTGCAGAAAACAAAATCAGAATCCTCTCTCTAT
1 GGATAAAACGTGAGTTTGATCAGCCAATCATATTGCAGAAAACAAAATCAGAATCCTCTCTCTAT
142178 CCCCAATCCCATCATTAGTTGATCACTCCAAATTTCCCACTTTTTTCCGTAACACGAAGCTTGAA
66 CCCCAATCCCATCATTAGTTGATCACTCCAAA-TTCCCACTTTTTTCCGTAACACGAAGCTTGAA
142243 TTGACCCGACCCGACCCGTCAATTCTGATTTTCTGCTCA
130 TTGACCCGACCCGACCCGTCAATTCTGATTTTCTGCTCA
142282 TATCCATTAA
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
167 92 0.55
168 75 0.45
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (168 bp):
GGATAAAACGTGAGTTTGATCAGCCAATCATATTGCAGAAAACAAAATCAGAATCCTCTCTCTAT
CCCCAATCCCATCATTAGTTGATCACTCCAAATTCCCACTTTTTTCCGTAACACGAAGCTTGAAT
TGACCCGACCCGACCCGTCAATTCTGATTTTCTGCTCA
Found at i:144256 original size:24 final size:23
Alignment explanation
Indices: 144224--144282 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
144214 TAATTTGTTC
* *
144224 TATTAATTTATTAATTATGTGT-T
1 TATTTATTTATTAATTAT-TATCT
*
144247 TATTTCATTTATCAATTATTATCT
1 TATTT-ATTTATTAATTATTATCT
144271 TATTTATTTATT
1 TATTTATTTATT
144283 TATCTTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (23 bp):
TATTTATTTATTAATTATTATCT
Found at i:149413 original size:41 final size:42
Alignment explanation
Indices: 149356--149443 Score: 151
Period size: 41 Copynumber: 2.1 Consensus size: 42
149346 TCGAAAGGAG
149356 TTGGAATTTTACGAAGAAATTCAAGA-TTGGGAAGCAGATGT
1 TTGGAATTTTACGAAGAAATTCAAGATTTGGGAAGCAGATGT
149397 TTGGAATTTTACGAAGAAATTCAAGATTCTTGGGAAGCAGATGT
1 TTGGAATTTTACGAAGAAATTCAAGA-T-TTGGGAAGCAGATGT
149441 TTG
1 TTG
149444 TGCCACGGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
41 26 0.59
44 18 0.41
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (42 bp):
TTGGAATTTTACGAAGAAATTCAAGATTTGGGAAGCAGATGT
Found at i:152213 original size:39 final size:41
Alignment explanation
Indices: 152144--152223 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
152134 TCACACCCTG
152144 TCCTGATGTCCCCTATCCCAGGAAAACCTCTG-TTTTGTAT
1 TCCTGATGTCCCCTATCCCAGGAAAACCTCTGTTTTTGTAT
152184 TCCTGATGTCCCCTA-CCCAGGAAAACCTCTGTTTTTGTAT
1 TCCTGATGTCCCCTATCCCAGGAAAACCTCTGTTTTTGTAT
152224 CTCTCCATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 16 0.41
40 23 0.59
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (41 bp):
TCCTGATGTCCCCTATCCCAGGAAAACCTCTGTTTTTGTAT
Found at i:155327 original size:27 final size:26
Alignment explanation
Indices: 155292--155349 Score: 107
Period size: 27 Copynumber: 2.2 Consensus size: 26
155282 GTCAACAAAC
155292 ACTTCTCAATTTCAGAGCCAATTTCAA
1 ACTTCTCAATTTCAGAGCCAATTTC-A
155319 ACTTCTCAATTTCAGAGCCAATTTCA
1 ACTTCTCAATTTCAGAGCCAATTTCA
155345 ACTTC
1 ACTTC
155350 ACAACGAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (26 bp):
ACTTCTCAATTTCAGAGCCAATTTCA
Found at i:155673 original size:104 final size:105
Alignment explanation
Indices: 155321--155766 Score: 613
Period size: 105 Copynumber: 4.3 Consensus size: 105
155311 AATTTCAAAC
*
155321 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
155386 CAACTTCACGACGAAGGGACCGCTGCTTGTCAAC--AAA-
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAT
** *
155423 TT-TC-A-TTCAGATTCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
155485 CAAACTTCACGACGAA-GGACCGCTGGTTGTC-ACAAAACAT
66 C-AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAA-AT
* *
155525 TTCTCAATTTCAGAGCCAATTTCAACTTCACCATGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
155590 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAT
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAT
** * ****
155630 TTCTCAATTTCAGAGCC-ATTTCAACTTCACCGCGAAGGATATTGGACTCAAGACAGTATAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
** * * *
155694 CAACTTCACGACGAAGGGACCGCTGACTGTCAACCGACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAAAAAT
*
155735 TTCTCAATTTCGGAGCCAATTTCAACTTCACA
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACA
155767 GTGAATGATA
Statistics
Matches: 306, Mismatches: 26, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
98 2 0.01
99 68 0.22
100 17 0.06
101 3 0.01
102 4 0.01
103 2 0.01
104 86 0.28
105 106 0.35
106 18 0.06
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (105 bp):
TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAT
Found at i:157361 original size:32 final size:34
Alignment explanation
Indices: 157325--157404 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 34
157315 CTATTGTGTG
157325 TTATTTTATTTATATGTA-TAT-TTTTC-TTAATT
1 TTATTTTATTTATAT-TACTATATTTTCTTTAATT
*
157357 TTA--TTATTTATATTACTATCATTTTCTTTTATT
1 TTATTTTATTTATATTACTAT-ATTTTCTTTAATT
*
157390 TTATTTT-TTTCTATT
1 TTATTTTATTTATATT
157405 CTTTTTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
29 2 0.05
30 13 0.32
32 8 0.20
33 8 0.20
34 7 0.17
35 2 0.05
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (34 bp):
TTATTTTATTTATATTACTATATTTTCTTTAATT
Found at i:157876 original size:22 final size:23
Alignment explanation
Indices: 157851--157893 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
157841 TGTTCTATTA
* *
157851 ATTTATTAA-TTATGTTATTTTC
1 ATTTATCAATTTATCTTATTTTC
157873 ATTTATCAATTTATCTTATTT
1 ATTTATCAATTTATCTTATTT
157894 ATTTTATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTATCAATTTATCTTATTTTC
Found at i:158660 original size:22 final size:22
Alignment explanation
Indices: 158632--158675 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
158622 TGACCTGTTC
158632 ACAATCTTTAGATGTTTAGAAT
1 ACAATCTTTAGATGTTTAGAAT
158654 ACAATCTTTAGATGTTTAGAAT
1 ACAATCTTTAGATGTTTAGAAT
158676 TTTAGAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
ACAATCTTTAGATGTTTAGAAT
Found at i:159022 original size:18 final size:17
Alignment explanation
Indices: 158993--159033 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
158983 CTGGGTGTAA
*
158993 GTGTCAAACATGGGTAT
1 GTGTCAAACATGGATAT
159010 GTGTCAGAACATGGATAT
1 GTGTCA-AACATGGATAT
159028 GT-TCAA
1 GTGTCAA
159034 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 9 0.41
18 12 0.55
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (17 bp):
GTGTCAAACATGGATAT
Found at i:168778 original size:33 final size:34
Alignment explanation
Indices: 168727--168890 Score: 165
Period size: 33 Copynumber: 4.7 Consensus size: 34
168717 CGGAAATTAC
* *
168727 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
* *
168760 AATCCCAAC-ATGAAAATCGTAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
168794 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
168832 AATCGCAACGA-GAGAATCGCAATGCGAAATG-A
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
168864 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
168891 CGAGAGAATC
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
32 10 0.09
33 39 0.35
34 17 0.15
36 3 0.03
37 10 0.09
38 16 0.15
39 15 0.14
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:168810 original size:19 final size:19
Alignment explanation
Indices: 168741--168928 Score: 201
Period size: 19 Copynumber: 10.7 Consensus size: 19
168731 GCAACGAGAG
168741 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
168760 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
168774 AATCGTAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
168794 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
168813 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
168832 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
168846 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
168864 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
168883 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
168897 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
168916 AATCGCATTGCGA
1 AATCGCAATGCGA
168929 TTCTCCCGTT
Statistics
Matches: 142, Mismatches: 10, Indels: 34
0.76 0.05 0.18
Matches are distributed among these distances:
14 31 0.22
15 2 0.01
16 5 0.04
17 5 0.04
18 19 0.13
19 65 0.46
20 15 0.11
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:168829 original size:72 final size:70
Alignment explanation
Indices: 168741--168890 Score: 239
Period size: 72 Copynumber: 2.1 Consensus size: 70
168731 GCAACGAGAG
*
168741 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGTAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAAAATCGCAATGC-GAAATG-AAATCGCAATGC
168805 GAAATGAA
63 GAAATGAA
* *
168813 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAATCGCAATGCGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAA
168878 ATGAA
66 ATGAA
168883 AATCGCAA
1 AATCGCAA
168891 CGAGAGAATC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
70 28 0.38
71 6 0.08
72 39 0.53
73 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (70 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAAAATCGCAATGCGAAATGAAATCGCAATGCGAA
ATGAA
Found at i:168851 original size:14 final size:15
Alignment explanation
Indices: 168832--168909 Score: 52
Period size: 14 Copynumber: 4.8 Consensus size: 15
168822 GCGAAATGAA
168832 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
*
168846 AATCGCAATGCGAAATG
1 AATCGCAA-GCGAGA-G
*
168863 AAATCGCAATGCGAAATGAA
1 -AATCGCAA-GCG--A-GAG
168883 AATCGCAA-CGAGAG
1 AATCGCAAGCGAGAG
168897 AATCGCAATGCGA
1 AATCGCAA-GCGA
168910 AATTAAAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.14
17 3 0.06
18 12 0.24
19 8 0.16
20 1 0.02
21 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (15 bp):
AATCGCAAGCGAGAG
Found at i:168882 original size:51 final size:52
Alignment explanation
Indices: 168727--168928 Score: 263
Period size: 51 Copynumber: 3.9 Consensus size: 52
168717 CGGAAATTAC
*
168727 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
168774 AATCGTAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
168832 AATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
168883 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
168929 TTCTCCCGTT
Statistics
Matches: 136, Mismatches: 7, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
47 7 0.05
49 1 0.01
50 1 0.01
51 50 0.37
52 33 0.24
53 29 0.21
55 2 0.01
56 1 0.01
58 12 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:168904 original size:33 final size:33
Alignment explanation
Indices: 168794--168922 Score: 111
Period size: 33 Copynumber: 3.8 Consensus size: 33
168784 CGGAAATGAA
* *
168794 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
168826 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATG
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CGAGA-G
168863 AAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 -AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
168897 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
168923 TTGCGATTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
31 7 0.09
32 7 0.09
33 33 0.43
34 1 0.01
35 6 0.08
37 8 0.11
38 7 0.09
39 7 0.09
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:168977 original size:19 final size:19
Alignment explanation
Indices: 168937--169034 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
168927 GATTCTCCCG
168937 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
168957 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
168976 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
168990 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169009 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
169028 TTGCGAT
1 TTGCGAT
169035 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:169031 original size:52 final size:53
Alignment explanation
Indices: 168918--169034 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
168908 GAAATTAAAA
168918 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
168971 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
169023 TCGCATTGCGAT
1 TCGCATTGCGAT
169035 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:169160 original size:14 final size:14
Alignment explanation
Indices: 169141--169177 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
169131 CATCAATTAC
169141 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
169155 ACAAATCATCTTTT
1 ACAAATCAACTTTT
169169 ACAAATCAA
1 ACAAATCAA
169178 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:171168 original size:14 final size:14
Alignment explanation
Indices: 171149--171205 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
171139 GCGAAATGAA
*
171149 AATCGCAACGACAG
1 AATCGCAACGAAAG
171163 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
171180 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
171196 AATCGCAACG
1 AATCGCAACG
171206 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:171176 original size:33 final size:33
Alignment explanation
Indices: 171130--171222 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
171120 GCGAAACCAA
*
171130 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
171163 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
171196 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
171223 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:171187 original size:19 final size:19
Alignment explanation
Indices: 171093--171227 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
171083 TAGTTTACTT
* *
171093 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
171113 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
171132 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
171151 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
171165 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
171184 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
171198 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
171217 TCGCAATGCGA
1 TCGCAACGCGA
171228 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:171245 original size:19 final size:19
Alignment explanation
Indices: 171223--171350 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
171213 AAAATCGCAA
171223 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
171242 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
171256 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
171275 TGCGA-TCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
171288 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
171307 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
171326 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
171346 TGCGA
1 TGCGA
171351 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 8 0.09
14 13 0.15
15 2 0.02
16 1 0.01
17 3 0.03
18 3 0.03
19 45 0.51
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:171291 original size:32 final size:33
Alignment explanation
Indices: 171223--171312 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 33
171213 AAAATCGCAA
171223 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
171256 TGCGATTTTGGTTTCGCGTTGCGATC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
**
171288 TGCGATTTTCATTTCGCGTTGCGAT
1 TGCGATTTTGGTTTCGCGTTGCGAT
171313 TTTGGTTTCG
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 29 0.53
33 26 0.47
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.44
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
Found at i:171915 original size:184 final size:186
Alignment explanation
Indices: 171398--172138 Score: 1417
Period size: 184 Copynumber: 4.0 Consensus size: 186
171388 ATGGATTGCA
171398 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171462 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
171527 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
171583 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171648 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
171713 A-TTCACAGTGTT-AAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
171767 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171831 TAGCAGAA-TGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
171895 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC-AAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
171950 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
172015 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
172079 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA-CGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
172134 TTACT
1 TTACT
172139 AAGCAATCTA
Statistics
Matches: 549, Mismatches: 1, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
182 57 0.10
183 90 0.16
184 223 0.41
185 53 0.10
186 126 0.23
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:171987 original size:92 final size:93
Alignment explanation
Indices: 171398--172138 Score: 1417
Period size: 93 Copynumber: 8.1 Consensus size: 93
171388 ATGGATTGCA
171398 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171462 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
171490 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171555 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
171583 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171648 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
171676 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTT-AAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171739 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
171767 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG-T
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171831 TAGCAGAA-TGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
171858 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
171923 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
171950 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
172015 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
172043 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
172107 TAGCAGAATTGGCAGCAA-CGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
172134 TTACT
1 TTACT
172139 AAGCAATCTA
Statistics
Matches: 642, Mismatches: 1, Indels: 13
0.98 0.00 0.02
Matches are distributed among these distances:
91 175 0.27
92 199 0.31
93 268 0.42
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:173848 original size:14 final size:14
Alignment explanation
Indices: 173829--173918 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
173819 TTGAAATGAA
173829 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
173843 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
173862 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
173876 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
173895 AATCGCAACGAGAG
1 AATCGCAACGAGAG
173909 AATCGCAACG
1 AATCGCAACG
173919 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:173863 original size:33 final size:33
Alignment explanation
Indices: 173821--173935 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
173811 TCTTTTGGTT
173821 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
173854 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
173887 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
173920 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
173936 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:173867 original size:19 final size:19
Alignment explanation
Indices: 173843--173940 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
173833 GCAACGAGAG
173843 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
173862 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
173876 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
173895 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
173909 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
173928 AATCGCAATGCGA
1 AATCGCAACGCGA
173941 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:173971 original size:14 final size:14
Alignment explanation
Indices: 173952--174041 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
173942 TTTGGTTTCG
173952 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
173966 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
173985 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
173999 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
174018 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
174032 CGTTGCGATT
1 CGTTGCGATT
174042 TTCATTCTCT
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
16 6 0.10
17 6 0.10
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:173990 original size:19 final size:19
Alignment explanation
Indices: 173963--174098 Score: 139
Period size: 19 Copynumber: 7.6 Consensus size: 19
173953 GTTGCGATTC
173963 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
*
173982 TCGCGTTGCGA--TTC---
1 TCTCGTTGCGATTTTCATT
173996 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
*
174015 TCGCGTTGCGA--TTC---
1 TCTCGTTGCGATTTTCATT
174029 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
***
174048 CTCTCGTTGCGACAGTCATT
1 -TCTCGTTGCGATTTTCATT
174068 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
174087 ATCTCGTTGCGA
1 -TCTCGTTGCGA
174099 CTCTTCTGCA
Statistics
Matches: 95, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
14 20 0.21
16 6 0.06
17 6 0.06
19 36 0.38
20 27 0.28
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (19 bp):
TCTCGTTGCGATTTTCATT
Found at i:174099 original size:39 final size:33
Alignment explanation
Indices: 173936--174098 Score: 218
Period size: 33 Copynumber: 4.7 Consensus size: 33
173926 AAAATCGCAA
**
173936 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
173969 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
174002 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
* *
174035 TGCGATTTTCATTCTCTCGTTGCGACAGTCATTTCTCGT
1 TGCGATTTTCATT-TCGCGTTGCG--A-T--TCTCTCGT
*
174074 TGCGATTTTCATTATCTCGTTGCGA
1 TGCGATTTTCATT-TCGCGTTGCGA
174099 CTCTTCTGCA
Statistics
Matches: 119, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
33 77 0.65
34 9 0.08
36 1 0.01
37 2 0.02
39 30 0.25
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:174219 original size:33 final size:33
Alignment explanation
Indices: 174177--174247 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
174167 AATACTAACT
*
174177 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
174210 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
174243 TGAAA
1 TGAAA
174248 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:174478 original size:22 final size:22
Alignment explanation
Indices: 174426--174480 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
174416 TGGTTGTGAG
**
174426 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
174448 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
174470 GGATTTCTTCG
1 GGATTTCTTCG
174481 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:174655 original size:20 final size:20
Alignment explanation
Indices: 174630--174780 Score: 162
Period size: 20 Copynumber: 7.5 Consensus size: 20
174620 TAAATATCGT
174630 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
174650 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
174671 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
174691 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATACGC
174711 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
174731 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
174751 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
174771 GTTGCGATTT
1 GTTGCGATTT
174781 TGGAAAATCG
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 91 0.83
21 15 0.14
22 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:174754 original size:40 final size:40
Alignment explanation
Indices: 174630--174780 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
174620 TAAATATCGT
*
174630 GTTGCGATTTACGGATACGCGTTGCGATTTTATGTATT-ATC
1 GTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGTTCA-C
* * *
174671 GTTGCGATTTACGGATACGCGTTGCGATATACG-GATACAC
1 GTTGCGATTTACGGATACGCGTTGCGATTTATGTG-TTCAC
*
174711 GTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGC
1 GTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCAC
* ** *
174751 GTTGCGATTTTCATATTCGCGTTGCGATTT
1 GTTGCGATTTACGGATACGCGTTGCGATTT
174781 TGGAAAATCG
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
40 66 0.69
41 29 0.31
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (40 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCAC
Found at i:174797 original size:21 final size:21
Alignment explanation
Indices: 174773--174870 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 21
174763 ATATTCGCGT
174773 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * **
174794 TGCGAATTTGTACTATCGCAA
1 TGCGATTTTGGAAAATCGCAA
* * ** *
174815 TGCGAATTTGTATTATCGCAT
1 TGCGATTTTGGAAAATCGCAA
* **
174836 TGCGATTTT-CAAGAATCGCGT
1 TGCGATTTTGGAA-AATCGCAA
174857 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
174871 CTGATTTGCG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.02
21 60 0.95
22 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (21 bp):
TGCGATTTTGGAAAATCGCAA
Found at i:176630 original size:64 final size:65
Alignment explanation
Indices: 176529--176658 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 65
176519 GGACACTGAG
176529 GCGGGTAGCTGAAACAAGGATAAAAAGAACACTGGTAAATTGCAAAGGAC-ATTTAATTAGCGTA
1 GCGGGTAGCTGAAACAAGGATAAAAAGAACACTGGTAAATTGCAAAGGACAATTTAATTAGCGTA
176593 GCGGGTAGCTGAAACAAGGATAAAAAGAACACTGGTAAATTGCAAAGGACATATTTAATTAGCGT
1 GCGGGTAGCTGAAACAAGGATAAAAAGAACACTGGTAAATTGCAAAGGACA-ATTTAATTAGCGT
176658 A
65 A
176659 ATACGACCCT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 50 0.78
66 14 0.22
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (65 bp):
GCGGGTAGCTGAAACAAGGATAAAAAGAACACTGGTAAATTGCAAAGGACAATTTAATTAGCGTA
Found at i:177382 original size:87 final size:86
Alignment explanation
Indices: 177216--177471 Score: 309
Period size: 87 Copynumber: 3.0 Consensus size: 86
177206 ATTTAATCGG
* * * ** *
177216 AAACATTCTCAAGCGCAATAACATATTAAATACCGCTTATATAATGTAATAGGTAGTGCTTATAT
1 AAACATTATCAAACACAATAACATATTAGGTA-CGCTTATATAATGTAATAGGTAGCGCTTATAT
*
177281 AATAAAATAGGTTAATTACT-A
65 AATAAAATATGTTAATTACTGA
* * * * * * *
177302 GAAATATTATCAAATACAATAACATATTAGGTACAACTTATATAATATAATATGTAACGTTTATA
1 -AAACATTATCAAACACAATAACATATTAGGTAC-GCTTATATAATGTAATAGGTAGCGCTTATA
177367 TAATAAAATATGTTAATTACTGA
64 TAATAAAATATGTTAATTACTGA
* * *
177390 AAACATTATCAACCACAATAACATATTAGGTAGCGCATATA-AACGTAATAGGTAGCGCTTATAT
1 AAACATTATCAAACACAATAACATATTAGGTA-CGCTTATATAATGTAATAGGTAGCGCTTATAT
177454 AATAAAATATGTTAATTA
65 AATAAAATATGTTAATTA
177472 TTTAATTTGT
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
86 37 0.26
87 103 0.73
88 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (86 bp):
AAACATTATCAAACACAATAACATATTAGGTACGCTTATATAATGTAATAGGTAGCGCTTATATA
ATAAAATATGTTAATTACTGA
Found at i:178109 original size:111 final size:112
Alignment explanation
Indices: 177713--178184 Score: 730
Period size: 112 Copynumber: 4.2 Consensus size: 112
177703 GTACCGATAC
* *
177713 TTTATAAAAATATATCGATACTATACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTA
1 TTTATAAAAATA-ATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTA
* * *
177778 TGACAAAACTGGTAAAATTTACCTGATATGTTGAAAATATCGATCCTT
65 TGACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCCTT
* *
177826 TTTATAAAAATGATCGATACTTTACAATATAGCAGGTAAAAATATGACAAAATCAGTTTCATTAT
1 TTTATAAAAATAATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTAT
* *
177891 AATAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCCTT
66 GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCCTT
** * *
177938 TTTATAAAAAGGATCGATATTTTACAATATAACAGGTAAAAATATGACAAAATCAATTTCATTAT
1 TTTATAAAAATAATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTAT
* * * * *
178003 GACAAAACCAGTAAAATTTACTTAATATGTTTAAAGTATCGAT-CTT
66 GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCCTT
* *
178049 TTTATAAAAATAATAGATACTTTACAATATAACAGGTAAAAATATTACAAAATCAGTTTCATTAT
1 TTTATAAAAATAATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTAT
*
178114 GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATACTT
66 GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCCTT
178161 TTTATAAAAATATATCGATACTTT
1 TTTATAAAAATA-ATCGATACTTT
178185 GTTGAAAGTT
Statistics
Matches: 325, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
111 100 0.31
112 204 0.63
113 21 0.06
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (112 bp):
TTTATAAAAATAATCGATACTTTACAATATAACAGGTAAAAATATGACAAAATCAGTTTCATTAT
GACAAAACCGGTAAAATTTACCTGATATGTTGAAAGTATAGATCCTT
Found at i:178134 original size:223 final size:224
Alignment explanation
Indices: 177726--178170 Score: 730
Period size: 223 Copynumber: 2.0 Consensus size: 224
177716 ATAAAAATAT
* **
177726 ATCGATACTATACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACTGGT
1 ATCGATACTATACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCAGT
* * *
177791 AAAATTTACCTGATATGTTGAAAATATCGATCCTTTTTATAAAAATGATCGATACTTTACAATAT
66 AAAATTTACCTAATATGTTGAAAATATCGATCCTTTTTATAAAAATAATAGATACTTTACAATAT
* *
177856 AGCAGGTAAAAATATGACAAAATCAGTTTCATTATAATAAAACCGGTAAAATTTACCTGATATGT
131 AACAGGTAAAAATATGACAAAATCAGTTTCATTATAACAAAACCGGTAAAATTTACCTGATATGT
*
177921 TGAAAGTATAGATCCTTTTTATAAAAAGG
196 TGAAAGTATAGATACTTTTTATAAAAAGG
* * *
177950 ATCGATATTTTACAATATAACAGGTAAAAATATGACAAAATCAATTTCATTATGACAAAACCAGT
1 ATCGATACTATACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCAGT
* * *
178015 AAAATTTACTTAATATGTTTAAAGTATCGAT-CTTTTTATAAAAATAATAGATACTTTACAATAT
66 AAAATTTACCTAATATGTTGAAAATATCGATCCTTTTTATAAAAATAATAGATACTTTACAATAT
* *
178079 AACAGGTAAAAATATTACAAAATCAGTTTCATTATGACAAAACCGGTAAAATTTACCTGATATGT
131 AACAGGTAAAAATATGACAAAATCAGTTTCATTATAACAAAACCGGTAAAATTTACCTGATATGT
178144 TGAAAGTATAGATACTTTTTATAAAAA
196 TGAAAGTATAGATACTTTTTATAAAAA
178171 TATATCGATA
Statistics
Matches: 204, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
223 118 0.58
224 86 0.42
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (224 bp):
ATCGATACTATACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCAGT
AAAATTTACCTAATATGTTGAAAATATCGATCCTTTTTATAAAAATAATAGATACTTTACAATAT
AACAGGTAAAAATATGACAAAATCAGTTTCATTATAACAAAACCGGTAAAATTTACCTGATATGT
TGAAAGTATAGATACTTTTTATAAAAAGG
Found at i:178581 original size:23 final size:23
Alignment explanation
Indices: 178555--178613 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
178545 ATCAAGCACA
* * *
178555 ATAACATATTAGGTATCGCTTAT
1 ATAACATAATAGGCAGCGCTTAT
* *
178578 ATAATATAATAGGCAGCGTTTAT
1 ATAACATAATAGGCAGCGCTTAT
* *
178601 ATAATAAAATAGG
1 ATAACATAATAGG
178614 TTAATTACTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGCAGCGCTTAT
Found at i:178656 original size:87 final size:87
Alignment explanation
Indices: 178508--178707 Score: 328
Period size: 87 Copynumber: 2.3 Consensus size: 87
178498 CAGAGGTAGT
*
178508 GCTTATATAATAAAATATGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTATCG
1 GCTTATATAATAAAATATGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCG
*
178573 CTTATATAATATAATAGGCAGC
66 CTTATATAACATAATAGGCAGC
* * *
178595 GTTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAGCACAATAGCATATTAGGTAGCG
1 GCTTATATAATAAAATATGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCG
* *
178660 CTTATATAACGTAATAGGTAGC
66 CTTATATAACATAATAGGCAGC
*
178682 GCTTATGTAATAAAATATGTTAATTA
1 GCTTATATAATAAAATATGTTAATTA
178708 TTTAATTTGT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (87 bp):
GCTTATATAATAAAATATGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTAGCG
CTTATATAACATAATAGGCAGC
Found at i:178698 original size:23 final size:23
Alignment explanation
Indices: 178651--178698 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
178641 AATAGCATAT
**
178651 TAGGTAGCGCTTATATAACGTAA
1 TAGGTAGCGCTTATATAACAAAA
* *
178674 TAGGTAGCGCTTATGTAATAAAA
1 TAGGTAGCGCTTATATAACAAAA
178697 TA
1 TA
178699 TGTTAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAACAAAA
Found at i:178925 original size:112 final size:113
Alignment explanation
Indices: 178720--178946 Score: 332
Period size: 112 Copynumber: 2.0 Consensus size: 113
178710 TAATTTGTTA
* *
178720 TTACAATATAATAAGTAAAAATATAACAAAACCAGTTTCATTATGACAAAACCGGTAAAATTTAC
1 TTACAATATAACAAGTAAAAATATAACAAAACCAGTTTCATTATGACAAAACCAGTAAAATTTAC
*
178785 CTAATATGTTGAAAGTATCGATCATTTTTATAAAAA-GGATCGATACT
66 CTAATATGTTGAAAGTATAGATCATTTTTATAAAAATGGATCGATACT
* * * * *
178832 TTACAATATACCAAGTAAAAATATGACAAAATCAGTTTCATTATGATAAAACCAGTAAAATTTGC
1 TTACAATATAACAAGTAAAAATATAACAAAACCAGTTTCATTATGACAAAACCAGTAAAATTTAC
* * *
178897 CTGATATGTTGAAATTATAGAT-ACTTTTTATAAAAATGTATCGATACT
66 CTAATATGTTGAAAGTATAGATCA-TTTTTATAAAAATGGATCGATACT
178945 TT
1 TT
178947 GTTAAAAGTT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 1 0.01
112 89 0.87
113 12 0.12
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (113 bp):
TTACAATATAACAAGTAAAAATATAACAAAACCAGTTTCATTATGACAAAACCAGTAAAATTTAC
CTAATATGTTGAAAGTATAGATCATTTTTATAAAAATGGATCGATACT
Found at i:178952 original size:22 final size:22
Alignment explanation
Indices: 178908--178958 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
178898 TGATATGTTG
*
178908 AAATTATAGATACTTTTTATAA
1 AAATTATAGATACTTTGTATAA
*
178930 AAATGTATCGATACTTTGT-TAA
1 AAAT-TATAGATACTTTGTATAA
*
178952 AAGTTAT
1 AAATTAT
178959 GTAATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 10 0.40
23 12 0.48
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (22 bp):
AAATTATAGATACTTTGTATAA
Found at i:186119 original size:31 final size:31
Alignment explanation
Indices: 186081--186158 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
186071 AAAATTGAAA
186081 AGTTTAGGTACTAAATTAGACCAAAACTAAT
1 AGTTTAGGTACTAAATTAGACCAAAACTAAT
186112 AGTTTAGGTACTAAATTAGACCAAAACTAAT
1 AGTTTAGGTACTAAATTAGACCAAAACTAAT
186143 AGTTTAGGTACTAAAT
1 AGTTTAGGTACTAAAT
186159 GCATTGATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (31 bp):
AGTTTAGGTACTAAATTAGACCAAAACTAAT
Found at i:186515 original size:22 final size:22
Alignment explanation
Indices: 186489--186531 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
186479 TAAATTTATT
186489 TTATAA-AATAATTATTATAATA
1 TTATAATAAT-ATTATTATAATA
*
186511 TTATAATAATATTTTTATAAT
1 TTATAATAATATTATTATAAT
186532 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATAATAATATTATTATAATA
Found at i:194678 original size:159 final size:159
Alignment explanation
Indices: 194469--194779 Score: 550
Period size: 159 Copynumber: 2.0 Consensus size: 159
194459 AGCGTACTGC
* *
194469 CTGTTGTTGTTCCTCGTATTGCTAATGATTCTGCTTATGATGCTGGTCATAGCACTGATGTTGTT
1 CTGTTATTGTTCCTCGTATTGCTAATGATTCTGCTTATGATGCTGGTCATAGCACTGAAGTTGTT
*
194534 GTTCCTTCGAACAATGAAGAGATAATTCATGGTAATACTGTTAATTCCCCTGTAGTCTCTGTGGC
66 GCTCCTTCGAACAATGAAGAGATAATTCATGGTAATACTGTTAATTCCCCTGTAGTCTCTGTGGC
194599 TCCAGAATTTGTGGAACCACCTGTGCAAT
131 TCCAGAATTTGTGGAACCACCTGTGCAAT
*
194628 CTGTTATTGTTCCTCGTATTGCTAATGATTCTGCTTATGATGTTGGTCATAGCACTGAAGTTGTT
1 CTGTTATTGTTCCTCGTATTGCTAATGATTCTGCTTATGATGCTGGTCATAGCACTGAAGTTGTT
* * * *
194693 GCTCTTTCGAACAATGAAGAGATAATTCATGGTAATGCTGTTAATTCTCCTGTTGTCTCTGTGGC
66 GCTCCTTCGAACAATGAAGAGATAATTCATGGTAATACTGTTAATTCCCCTGTAGTCTCTGTGGC
194758 TCCAGAATTTGTGGAACCACCT
131 TCCAGAATTTGTGGAACCACCT
194780 AGTACACTTC
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
159 144 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (159 bp):
CTGTTATTGTTCCTCGTATTGCTAATGATTCTGCTTATGATGCTGGTCATAGCACTGAAGTTGTT
GCTCCTTCGAACAATGAAGAGATAATTCATGGTAATACTGTTAATTCCCCTGTAGTCTCTGTGGC
TCCAGAATTTGTGGAACCACCTGTGCAAT
Found at i:209961 original size:19 final size:19
Alignment explanation
Indices: 209918--209968 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
209908 GATGTTTCAG
*
209918 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAAAAT-AA
209938 AATCGCAACGCGAACAAT-A
1 AATCGCAACGCGAA-AATAA
209957 AATCGCAACGCG
1 AATCGCAACGCG
209969 TATCCGTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAAATAA
Found at i:209998 original size:39 final size:39
Alignment explanation
Indices: 209955--210101 Score: 187
Period size: 39 Copynumber: 3.8 Consensus size: 39
209945 ACGCGAACAA
209955 TAAATCGCAACGCGTATCCGT-AATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACG-GTATCCG
*
209994 TAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACG-GTATCCG
* ** *
210034 TATA-CGCAACGCGTATCCGTAAATCGCAACGACA-ACG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGGTATCCG
210071 TAAAATCGCAA--CGTATCCGTAAATCGCAACG
1 T-AAATCGCAACGCGTATCCGTAAATCGCAACG
210102 CGATTTTTAA
Statistics
Matches: 97, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
37 23 0.24
38 3 0.03
39 52 0.54
40 19 0.20
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (39 bp):
TAAATCGCAACGCGTATCCGTAAATCGCAACGGTATCCG
Found at i:210042 original size:59 final size:58
Alignment explanation
Indices: 209918--210103 Score: 202
Period size: 59 Copynumber: 3.2 Consensus size: 58
209908 GATGTTTCAG
* ** *
209918 AATCGCAACGCGAATATGAAAATCGCAACGCGAACAATAAATCGCAACGCGTATCCGT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACAATAAATCGCAACGCGTATCCGT
* * ** *
209976 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACAATAAATCGCAACGCGTATCCGT
*
210035 -ATACGCAACGCGTATCCGTAAATCGCAACGAC-AAC-GTAAAATCGCAA--CGTATCCGT
1 AAT-CGCAACGCGTATCCGTAAATCGCAACG-CGAACAAT-AAATCGCAACGCGTATCCGT
210091 AAATCGCAACGCG
1 -AATCGCAACGCG
210104 ATTTTTAAAG
Statistics
Matches: 111, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
56 9 0.08
57 11 0.10
58 42 0.38
59 48 0.43
60 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.18
Consensus pattern (58 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACAATAAATCGCAACGCGTATCCGT
Found at i:210091 original size:19 final size:19
Alignment explanation
Indices: 209955--210099 Score: 158
Period size: 19 Copynumber: 7.5 Consensus size: 19
209945 ACGCGAACAA
209955 TAAATCGCAACGCGTATCCG
1 TAAATCGCAA-GCGTATCCG
*
209975 T-AATCGCAACGTGTATCCG
1 TAAATCGCAA-GCGTATCCG
209994 TAAATCGCAACGCGTATCCG
1 TAAATCGCAA-GCGTATCCG
210014 TAAATCGCAATGCGTATCCG
1 TAAATCGCAA-GCGTATCCG
*
210034 TATA-CGCAACGCGTATCCG
1 TAAATCGCAA-GCGTATCCG
210053 TAAATCGCAA-CG-A-CAACG
1 TAAATCGCAAGCGTATC--CG
210071 TAAAATCGCAA-CGTATCCG
1 T-AAATCGCAAGCGTATCCG
210090 TAAATCGCAA
1 TAAATCGCAA
210100 CGCGATTTTT
Statistics
Matches: 112, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.01
17 1 0.01
18 14 0.12
19 49 0.44
20 46 0.41
21 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (19 bp):
TAAATCGCAAGCGTATCCG
Found at i:210509 original size:33 final size:33
Alignment explanation
Indices: 210472--210542 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
210462 TTCACTTAGA
210472 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
210505 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
210538 TTTCA
1 TTTCA
210543 AGTTTAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:210697 original size:14 final size:14
Alignment explanation
Indices: 210678--210733 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
210668 AACGAGAAAA
210678 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
210692 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
210711 AATCGC-ACGAGAG
1 AATCGCAACGAGAG
210724 AATCGCAACG
1 AATCGCAACG
210734 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 8 0.24
14 12 0.35
16 4 0.12
18 2 0.06
19 8 0.24
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Done.