Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007917.1 Hibiscus syriacus cultivar Beakdansim tig00110320_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: 409361
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:1315 original size:21 final size:21
Alignment explanation
Indices: 1289--1333 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1279 GATTTCTGGG
* *
1289 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1310 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1331 CAA
1 CAA
1334 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:3058 original size:13 final size:13
Alignment explanation
Indices: 3040--3102 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
3030 TCTACGGGCA
3040 CTACGGTGCAATT
1 CTACGGTGCAATT
3053 CTACGG-GC-A--
1 CTACGGTGCAATT
3062 CTACGGTGCAATT
1 CTACGGTGCAATT
3075 CTACGG-GC-A--
1 CTACGGTGCAATT
*
3084 CTTCGGTGCAATT
1 CTACGGTGCAATT
3097 CTACGG
1 CTACGG
3103 GCACTTCGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
9 11 0.28
10 4 0.10
11 4 0.10
12 4 0.10
13 17 0.43
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:3123 original size:22 final size:22
Alignment explanation
Indices: 3027--3115 Score: 160
Period size: 22 Copynumber: 4.0 Consensus size: 22
3017 TTATGGACAT
3027 AATTCTACGGGCACTACGGTGC
1 AATTCTACGGGCACTACGGTGC
3049 AATTCTACGGGCACTACGGTGC
1 AATTCTACGGGCACTACGGTGC
*
3071 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTACGGTGC
*
3093 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTACGGTGC
3115 A
1 A
3116 TTTATACGAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (22 bp):
AATTCTACGGGCACTACGGTGC
Found at i:8343 original size:39 final size:40
Alignment explanation
Indices: 8300--8378 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
8290 TTACTTGCAA
8300 ATTTAACATTTATCCTACATTAGC-ATGCATATTGGTAAT
1 ATTTAACATTTATCCTACATTAGCAATGCATATTGGTAAT
* *
8339 ATTTAACATTTATCCTACTTTAGCATATGCATTTTGGTAA
1 ATTTAACATTTATCCTACATTAGCA-ATGCATATTGGTAA
8379 AGCTCCTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 23 0.64
41 13 0.36
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (40 bp):
ATTTAACATTTATCCTACATTAGCAATGCATATTGGTAAT
Found at i:15127 original size:23 final size:25
Alignment explanation
Indices: 15081--15129 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
15071 TGTAATCGAA
*
15081 TTTAGAATTAAAATATATTCTAAAT
1 TTTAGAATTAAAAGATATTCTAAAT
*
15106 TTTA-AATT-AAAGATATTGTAAAT
1 TTTAGAATTAAAAGATATTCTAAAT
15129 T
1 T
15130 AAACATACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 4 0.18
25 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
TTTAGAATTAAAAGATATTCTAAAT
Found at i:15342 original size:32 final size:32
Alignment explanation
Indices: 15292--15352 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
15282 CATATTTTTA
*
15292 AAAATCTAAATATATATATATATATATATATG
1 AAAATCTAAATATATATATATAAATATATATG
* *
15324 AAAATCTAAA-ATTTTATATTTAAATATAT
1 AAAATCTAAATA-TATATATATAAATATAT
15353 CTAAAACAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (32 bp):
AAAATCTAAATATATATATATAAATATATATG
Found at i:21043 original size:5 final size:5
Alignment explanation
Indices: 21033--21069 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
21023 TAGCTAACTA
* *
21033 TCGGT TCGGT TCGGT TCGGT TCGGT TTGGA TCGGT TC
1 TCGGT TCGGT TCGGT TCGGT TCGGT TCGGT TCGGT TC
21070 CGGATATTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.03, C:0.19, G:0.38, T:0.41
Consensus pattern (5 bp):
TCGGT
Found at i:21154 original size:16 final size:17
Alignment explanation
Indices: 21133--21165 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21123 ACATACTAAA
21133 TCGGTT-TCGGTTTTTT
1 TCGGTTATCGGTTTTTT
21149 TCGGTTATCGGTTTTTT
1 TCGGTTATCGGTTTTTT
21166 GGATCGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.12, G:0.24, T:0.61
Consensus pattern (17 bp):
TCGGTTATCGGTTTTTT
Found at i:21204 original size:23 final size:24
Alignment explanation
Indices: 21160--21204 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21150 CGGTTATCGG
*
21160 TTTTTTGGATCGGTTTTCGATTAT
1 TTTTTTGGATCGGTATTCGATTAT
*
21184 TTTTTTGGATCGG-ATTGGATT
1 TTTTTTGGATCGGTATTCGATT
21205 TGAACACCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.13, C:0.07, G:0.24, T:0.56
Consensus pattern (24 bp):
TTTTTTGGATCGGTATTCGATTAT
Found at i:23935 original size:182 final size:180
Alignment explanation
Indices: 23700--24395 Score: 813
Period size: 182 Copynumber: 3.8 Consensus size: 180
23690 CGATACAAAT
* * * * *
23700 AAAAAATGTATCGATC-CATATCAATTTAACATGTAAAAATATGACAAAACCGGTCTCAAAATGA
1 AAAAAATGTATCGA-CACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGA
* * * * * *
23764 CCAAACCGGTAAAGCGCTACCGGAAATTGCAAAAGTGTCGATACTTTATTAAAAGTATCGACACT
65 CAAAACCGATAAAGCGCCACCAGAAATTG-AAAAGTATCGATACTTTATTATAAGTATCGACACT
* *
23829 TTTGCAATTTAAAAGAAAAACAATTATAGCGCCTATAAAGTGTCAATACTTTA
129 TTTG-AATTTAAAAGACAAACAATTATAGCGCCTATAAAGTGTCGATACTTTA
* *
23882 AAAAAATGTATCGACACTTAACAATATAATAGGTAAAAATATGATACAACCGGTCTCAAAATGAC
1 AAAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGAC
* * * *
23947 AAAACCGATAAAGAGCCACCAGATATGTTG-AAAGTGTCGATACTTTATTATAAGTGTCGACACT
66 AAAACCGATAAAGCGCCACCAGA-A-ATTGAAAAGTATCGATACTTTATTATAAGTATCGACACT
* * * * * *
24011 TTTGAAATTTAAAAGACAAGCAGTCATAGAGCCTATAAGGTGTCGATACTTTT
129 TTTG-AATTTAAAAGACAAACAATTATAGCGCCTATAAAGTGTCGATACTTTA
* * * *
24064 AAAAAATGTATCGACACTTAACAATATAAAAGGTAAAAAATGTGATAAAACCAGTCTGAAAATGA
1 AAAAAATGTATCGACACTTAACAATATAACAGGT-AAAAATATGATAAAACCGGTCTCAAAATGA
* * * * * *
24129 CAAAACCGATAAAGTGCCACCATATATGTTAAAAAATATCGATACTTTATTATAAGTATTGACAC
65 CAAAACCGATAAAGCGCCACCAGA-A-ATTGAAAAGTATCGATACTTTATTATAAGTATCGACAC
* *
24194 TTTTGGAATTTAAAAGACAAAC-ATTAATAACGCCTATAAAGTGTCGATACTCTA
128 TTTT-GAATTTAAAAGACAAACAATT-ATAGCGCCTATAAAGTGTCGATACTTTA
* * * * *
24248 AAAAAATGTACCGACACTTAATAATATAACAGGTAAAAATATGGTAAAATCGATCTCAAAATGAC
1 AAAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGAC
* * * * * * *
24313 AAAACTGGTACAGCGCCACCGGATATGTTAAAAGTATCGATACTTTATTATAAGTATCAACACTT
66 AAAACCGATAAAGCGCCACCAGAAAT-TGAAAAGTATCGATACTTTATTATAAGTATCGACACTT
24378 TTAGAATTTAAAAGACAA
130 TT-GAATTTAAAAGACAA
24396 GTAATCATAG
Statistics
Matches: 440, Mismatches: 66, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
181 2 0.00
182 234 0.53
183 98 0.22
184 105 0.24
185 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (180 bp):
AAAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGAC
AAAACCGATAAAGCGCCACCAGAAATTGAAAAGTATCGATACTTTATTATAAGTATCGACACTTT
TGAATTTAAAAGACAAACAATTATAGCGCCTATAAAGTGTCGATACTTTA
Found at i:25353 original size:30 final size:30
Alignment explanation
Indices: 25317--25388 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
25307 CCCGAAGGAC
*
25317 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
*
25347 CTATCCAGAGGTCATAAAGATCCTTGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
25377 CTGTCCATAGGT
1 CTATCCAGAGGT
25389 TCCGAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:25413 original size:31 final size:31
Alignment explanation
Indices: 25375--25499 Score: 114
Period size: 31 Copynumber: 4.0 Consensus size: 31
25365 GATCCTTGGC
*
25375 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTTCCGAAGAACATAGGTA
* **
25406 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTTCCGAAGAACATAGGTA
*
25437 TACTGTCCATA--TATCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGT-TC-CGAAGA-ACATAGGTA
* *
25468 ATTCTGTCCATATGTTCC-ATAGAACATAGGTA
1 A-ACTGTCCATAGGTTCCGA-AGAACATAGGTA
25500 TACCCTCGAC
Statistics
Matches: 77, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.01
30 3 0.04
31 49 0.64
32 20 0.26
33 3 0.04
34 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (31 bp):
AACTGTCCATAGGTTCCGAAGAACATAGGTA
Found at i:26771 original size:64 final size:64
Alignment explanation
Indices: 26619--26775 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
26609 AAATAAGGGT
* * ** *
26619 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATACATTCGATGTTGTATTATTATTGGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
* * * *
26683 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATACATTCGATG-TTCTATTATTAAAG
26744 AG
63 AG
26746 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACCTGTGCATCGAT
26776 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
63 3 0.04
64 62 0.82
65 11 0.14
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAGAG
Found at i:28141 original size:19 final size:19
Alignment explanation
Indices: 28117--28165 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
28107 AATGTAGGGT
*
28117 TAATTTTTTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
28136 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
28155 TAATTTTGTAT
1 TAATTTTGTAT
28166 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:28979 original size:198 final size:197
Alignment explanation
Indices: 28524--29822 Score: 1726
Period size: 198 Copynumber: 6.5 Consensus size: 197
28514 GAATAGACAC
* *
28524 GCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATACCGAAAACT-ATAATTATA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCG-AAACTCATAATTATA
* * ** * *
28588 ATGTAATAGTTAATTTTTTAATGTAACCGGTATAATTTTATCGGTTTATGAGAAAACAAGTCTAC
65 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAGTCTAC
* * *
28653 ATAATGTACCTACACTTGTGTAACTTGTGTCAATACTTTTTGTCCATAATGAATGCCCAAAATGA
130 ATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-G-
28718 CTGCAG
193 -TGCAG
* * * *
28724 GAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTATAA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
* * * * * *
28789 TGTAATAGGTAATTTTTCAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCTAC
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGG-TTTATGAGAAAACAAGTCTAC
* * * * *
28854 ATAATGTATCAACAATT-TTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGT
130 ATAATGTACCGACACTTGTGT-AACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGT
28918 GCAG
194 GCAG
* * * * *
28922 GAAAAAAGTGTCGATGCATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTATAA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
* * * * *
28987 TGTAATAGATAATTTTTCAATGTAACCGGTATAAATTTACCAGTTTATGAGAAAA-TAGATCTAC
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAG-TCTAC
* * * *
29051 ATAATGTATCGACACTTATGTAACTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAGAAGGG
130 ATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCA-AA-AG
*
29116 TGCAC
193 TGCAG
* ** *
29121 GCATAAAGTGTCGATGCATTTATAAAAAGTATCGATCCCAAAAACGTCGAAACCCATAATTATAA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
* * * *
29186 TGTAGTAGATAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACAAATCTACA
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAGTCTACA
****
29251 TAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAAAT-CCCTTTGGGT
131 TAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATG-AATGCCC-AAAAGT
*
29315 GCAC
194 GCAG
* *
29319 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATGATAA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
* * *
29384 TGTAATAAGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACATGTCTACA
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAGTCTACA
* ****
29449 TAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCTTTGAGTG
131 TAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCCAAAAGTG
29514 CACG
195 CA-G
* * *
29518 G-ATAAAGTGTCGATACATTTCTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
*** * *
29582 TGTAATAGGTAAATTTACAATGTAACAATTAGAAATTTACCGGTTTATGAGAAAACATGTCTACA
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAGTCTACA
* * *
29647 TAATGTACCGACACTTGTGTAACTTGTGTCGATATTTTTTGTCCAGAATGAATGTCCAACGAGGT
131 TAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAA--AAGT
*
29712 GCAT
194 GCAG
* *
29716 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTTATAATTATAA
1 GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
29781 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCG
66 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCG
29823 TAAATTTATC
Statistics
Matches: 994, Mismatches: 89, Indels: 33
0.89 0.08 0.03
Matches are distributed among these distances:
196 1 0.00
197 72 0.07
198 471 0.47
199 280 0.28
200 99 0.10
201 71 0.07
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (197 bp):
GCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACTCATAATTATAA
TGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAGTCTACA
TAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGTGC
AG
Found at i:29365 original size:397 final size:396
Alignment explanation
Indices: 28521--29822 Score: 1783
Period size: 397 Copynumber: 3.3 Consensus size: 396
28511 AGAGAATAGA
*
28521 CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATACCGAAAACT-ATAATT
1 CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATC-AAAACTCATAATT
* * ** * *
28585 ATAATGTAATAGTTAATTTTTTAATGTAACCGGTATAATTTTATCGGTTTATGAGAAAACA-AGT
65 ATAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAGA-T
* * * *
28649 CTACATAATGTACCTACACTTGTGTAACTTGTGTCAATACTTTTTGTCCATAATGAATGCCCAAA
129 CTACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
* * * * * * *
28714 ATGACTGCAGGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTC
194 A-GAGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCC
* * * *
28779 ATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATATACCGGTTTTATGAGAAA
258 ATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATTTACCGG-TTTATGAGAAA
* * * * * * *
28844 ATAGGTCTACATAATGTATCAACAATT-TTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAT
322 ACAAGTCTACATAATGTACCGACACTTGTGT-AACTTGTGTCGATACTTTTTGTCCAGAATGAAT
**
28908 GCCCAAAAGTG
386 GCCCAAGGGTG
* * * *
28919 CAGGAAAAAAGTGTCGATGCATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTA
1 CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTA
* * * *
28984 TAATGTAATAGATAATTTTTCAATGTAACCGGTATAAATTTACCAGTTTATGAGAAAATAGATCT
66 TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAGATCT
* * *
29049 ACATAATGTATCGACACTTATGTAACTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAGAAG
131 ACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG
* * * *
29114 GGTGCACGCATAAAGTGTCGATGCATTTATAAAAAGTATCGATCCCAAAAACGTCGAAACCCATA
196 AGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATA
* * *
29179 ATTATAATGTAGTAGATAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACAA
261 ATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATTTACCGGTTTATGAGAAAACAA
*
29244 ATCTACATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAAAT-CCC
326 GTCTACATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATG-AATGCCC
**
29308 TTTGGGTG
390 -AAGGGTG
* * * *
29316 CACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATGA
1 CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTA
*
29381 TAATGTAATA-AGTAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACATG-T
66 TAATGTAATAGA-TAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACA-GAT
* **
29444 CTACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGTCC-TT
129 CTACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
* * *
29508 TGAGTGCACGGATAAAGTGTCGATACATTTCTAAAAAGTATCGATCCCAAAAACATCGAAACCCA
194 AGAGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCA
*
29573 TAATTATAATGTAATAGGTAAATTTACAATGTAA-CAATTAGAAATTTACCGGTTTATGAGAAAA
259 TAATTATAATGTAATAGGTAAATTTACAATGTAACCGA-TAGAAATTTACCGGTTTATGAGAAAA
* * *
29637 CATGTCTACATAATGTACCGACACTTGTGTAACTTGTGTCGATATTTTTTGTCCAGAATGAATGT
323 CAAGTCTACATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGC
29702 CCAACGAGGTG
388 CCAA-G-GGTG
* * * * *
29713 CATGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTTATAATTA
1 CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTA
*
29778 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCG
66 TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCG
29823 TAAATTTATC
Statistics
Matches: 803, Mismatches: 89, Indels: 25
0.88 0.10 0.03
Matches are distributed among these distances:
395 4 0.00
396 242 0.30
397 388 0.48
398 168 0.21
399 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (396 bp):
CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCATAATTA
TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAGATCT
ACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG
AGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATA
ATTATAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATTTACCGGTTTATGAGAAAACAA
GTCTACATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCA
AGGGTG
Found at i:29661 original size:595 final size:596
Alignment explanation
Indices: 28521--29822 Score: 1844
Period size: 595 Copynumber: 2.2 Consensus size: 596
28511 AGAGAATAGA
* * * *
28521 CACGCATAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATACCGAAAACTATAATTA
1 CACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTA
* * ** * * *
28586 TAATGTAATAGTTAATTTTTTAATGTAACCGGTATAATTTTATCGGTTTATGAGAAAACAAGTCT
66 TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAATCT
* *
28651 ACATAATGTACCTACACTTGTGTAACTTGTGTCAATACTTTTTGTCCATAATGAATGCCCAAAAT
131 ACATAATGTACCGACACTTGTGTAACTTGTGTCAATACTTTTTGTCCAGAATGAATGCCC-AAAT
* *
28716 GACTGCAGGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACTCAT
195 GACTGCACGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACCCAT
* * * * * *
28781 AATTATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATATACCGGTTTTATGAGAAAAT
260 AATGATAATGTAATAAGTAAATTTACAATGTAACCGATAGAAATATACCGGTTTTATGAGAAAAC
* * *
28846 AGGTCTACATAATGTATCAACAATTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCC
325 AGGTCTACATAATGTACCAACAATTTGTAAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCC
* * *
28911 CAAAAGTGCAGGAAAAAAGTGTCGATGCATTTATAAAAAATATCGATCCCAAAAATATCAAAACT
390 CAAAAGTGCAGGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCAAAACC
* * ** *
28976 CATAATTATAATGTAATAGATAATTTTTCAATGTAACCGGTATAAATTTACCAGTTTATGAGAAA
455 CATAATTATAATGTAATAGATAAATTTACAATGTAACAAGTAGAAATTTACCAGTTTATGAGAAA
* * *
29041 ATAGATCTACATAATGTATCGACACTTATGTAACTTGTGTCGATACTTTTTGTCTAGAATGAATG
520 ACAGATCTACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATG
29106 CCCAGAAG-GGTG
585 CCCA-AAGAGGTG
* * *
29118 CACGCATAAAGTGTCGATGCATTTATAAAAAGTATCGATCCCAAAAACGTCGAAACCCATAATTA
1 CACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTA
* *
29183 TAATGTAGTAGATAAATTTACAATGTAACCGGTAGAAATTTACCGGTTTATGAGAAAACAAATCT
66 TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAATCT
* **
29248 ACATAATGTACCGACACTTGTGTAACTTGTGTCGATACTTTTTGTCCAGAATGAAAT-CCC-TTT
131 ACATAATGTACCGACACTTGTGTAACTTGTGTCAATACTTTTTGTCCAGAATG-AATGCCCAAAT
** * * * *
29311 GGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCAT
195 GACTGCACGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACCCAT
* *
29376 AATGATAATGTAATAAGTAAATTTACAATGTAACCGGTAGAAATTTACCGG-TTTATGAGAAAAC
260 AATGATAATGTAATAAGTAAATTTACAATGTAACCGATAGAAATATACCGGTTTTATGAGAAAAC
* * *
29440 ATGTCTACATAATGTACCGACACTTATGT-AACTTGTGTCGATACTTTTTGTCCAGAATGAATGT
325 AGGTCTACATAATGTACCAACAATT-TGTAAACTTGTGTCGATACTTTTTGTCCAGAATGAATG-
**** * * * *
29504 CCTTTGAGTGCACGG-ATAAAGTGTCGATACATTTCTAAAAAGTATCGATCCCAAAAACATCGAA
388 CCCAAAAGTGCA-GGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCAAA
* * *
29568 ACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACAATTAGAAATTTACCGGTTTATGAG
452 ACCCATAATTATAATGTAATAGATAAATTTACAATGTAACAAGTAGAAATTTACCAGTTTATGAG
* *
29633 AAAACATG-TCTACATAATGTACCGACACTTGTGTAACTTGTGTCGATATTTTTTGTCCAGAATG
517 AAAACA-GATCTACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATG
* *
29697 AATGTCCAACGAGGTG
581 AATGCCCAAAGAGGTG
* *
29713 CATGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTTATAATTA
1 CACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTA
*
29778 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATTTACCG
66 TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCG
29823 TAAATTTATC
Statistics
Matches: 622, Mismatches: 77, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
594 68 0.11
595 381 0.61
596 3 0.00
597 167 0.27
598 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (596 bp):
CACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCTATAATTA
TAATGTAATAGATAAATTTACAATGTAACCGGTATAAATTTACCGGTTTATGAGAAAACAAATCT
ACATAATGTACCGACACTTGTGTAACTTGTGTCAATACTTTTTGTCCAGAATGAATGCCCAAATG
ACTGCACGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAATATCAAAACCCATA
ATGATAATGTAATAAGTAAATTTACAATGTAACCGATAGAAATATACCGGTTTTATGAGAAAACA
GGTCTACATAATGTACCAACAATTTGTAAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC
AAAAGTGCAGGAAAAAAGTGTCGATACATTTATAAAAAATATCGATCCCAAAAACATCAAAACCC
ATAATTATAATGTAATAGATAAATTTACAATGTAACAAGTAGAAATTTACCAGTTTATGAGAAAA
CAGATCTACATAATGTACCGACACTTATGTAACTTGTGTCGATACTTTTTGTCCAGAATGAATGC
CCAAAGAGGTG
Found at i:30269 original size:19 final size:20
Alignment explanation
Indices: 30232--30271 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30222 CCAAAAGAAA
*
30232 AAAAATGCATAGTATATATG
1 AAAAATGCATAATATATATG
30252 AAAAATGCATAATA-ATATG
1 AAAAATGCATAATATATATG
30271 A
1 A
30272 TAATAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (20 bp):
AAAAATGCATAATATATATG
Found at i:30415 original size:34 final size:36
Alignment explanation
Indices: 30371--30472 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
30361 TTTCGTCCTA
30371 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
* *
30406 -TAGGATTCAAACTCCTAAAAATAAGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
30441 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
30473 GTTATACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 28 0.47
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:30890 original size:18 final size:17
Alignment explanation
Indices: 30851--30893 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
30841 ATAATATGGA
30851 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
30867 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
30885 TATTATTAT
1 TATTATTAT
30894 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:30898 original size:2 final size:2
Alignment explanation
Indices: 30891--30972 Score: 64
Period size: 2 Copynumber: 41.5 Consensus size: 2
30881 TTATTATTAT
* *
30891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA T- TA T- TT TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * *
30932 TT TA TT TT TA CTA TA T- TA GTA T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
30973 TTCTTTAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
1 4 0.06
2 57 0.86
3 5 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:31392 original size:2 final size:2
Alignment explanation
Indices: 31385--31414 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31375 TAATACTTTG
31385 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
31415 TTATCCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31860 original size:13 final size:13
Alignment explanation
Indices: 31842--31866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31832 TTTCATCTAA
31842 AGCTCTGAACCCG
1 AGCTCTGAACCCG
31855 AGCTCTGAACCC
1 AGCTCTGAACCC
31867 ATTTTAAATG
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:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (13 bp):
AGCTCTGAACCCG
Found at i:33749 original size:8 final size:8
Alignment explanation
Indices: 33736--33774 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
33726 GAACATTTCA
*
33736 TGCATTCT
1 TGCATTTT
33744 TGCA-TTT
1 TGCATTTT
33751 TGCATTTT
1 TGCATTTT
*
33759 TGCCTTTT
1 TGCATTTT
33767 TGCATTTT
1 TGCATTTT
33775 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:34944 original size:16 final size:16
Alignment explanation
Indices: 34918--34951 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
34908 AGATCCAATC
34918 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGTAA
34933 AAGAAGCAAAAAAGTAA
1 AAGAA-CAAAAAAGTAA
34950 AA
1 AA
34952 AAAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAGAACAAAAAAGTAA
Found at i:34953 original size:8 final size:7
Alignment explanation
Indices: 34924--35014 Score: 56
Period size: 8 Copynumber: 11.7 Consensus size: 7
34914 AATCAAGAAC
34924 AAAAAAG
1 AAAAAAG
34931 AAAAGAAG
1 AAAA-AAG
34939 CAAAAAAG
1 -AAAAAAG
*
34947 TAAAAAAA
1 -AAAAAAG
34955 AAACAAAG
1 AAA-AAAG
*
34963 AAAGAGAG
1 AAA-AAAG
*
34971 AAACAAG
1 AAAAAAG
34978 AACAAAAG
1 AA-AAAAG
34986 AAAAAAAG
1 -AAAAAAG
*
34994 AGCAAAAAT
1 A--AAAAAG
*
35003 CAAAAAG
1 AAAAAAG
35010 AAAAA
1 AAAAA
35015 GGGACAAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
7 21 0.32
8 33 0.51
9 11 0.17
ACGTcount: A:0.77, C:0.07, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:34994 original size:31 final size:31
Alignment explanation
Indices: 34924--34994 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
34914 AATCAAGAAC
34924 AAAAAAGAAAAGAAGCAAAAAAGTAAAAAAA
1 AAAAAAGAAAAGAAGCAAAAAAGTAAAAAAA
*
34955 AAACAAAG-AAAGAGAG-AAACAAG-AACAAAAGA
1 AAA-AAAGAAAAGA-AGCAAAAAAGTAA-AAAA-A
34987 AAAAAAGA
1 AAAAAAGA
34995 GCAAAAATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 2 0.06
31 22 0.65
32 10 0.29
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.01
Consensus pattern (31 bp):
AAAAAAGAAAAGAAGCAAAAAAGTAAAAAAA
Found at i:35681 original size:22 final size:22
Alignment explanation
Indices: 35653--35703 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
35643 CCCCATCAAT
35653 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
35675 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
35697 CCTTTGA
1 CCTTTGA
35704 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:36648 original size:37 final size:37
Alignment explanation
Indices: 36563--36672 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
36553 GTGCTCACTA
36563 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
36599 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
36636 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
36673 ATTGGAAACA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 31 0.46
37 34 0.50
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:36750 original size:37 final size:37
Alignment explanation
Indices: 36683--36769 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
36673 ATTGGAAACA
** * *
36683 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
36719 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
36756 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
36770 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:36757 original size:102 final size:102
Alignment explanation
Indices: 36581--36936 Score: 640
Period size: 102 Copynumber: 3.5 Consensus size: 102
36571 CTTGAGACAG
** * *
36581 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
36646 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
36683 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
36748 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
*
36785 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
36850 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
36887 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
36937 TAAACATTGA
Statistics
Matches: 245, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 245 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:36842 original size:37 final size:37
Alignment explanation
Indices: 36799--36871 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
36789 CCTTGAAATG
* *
36799 AATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
* *
36836 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACA
36872 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAA
Found at i:36926 original size:65 final size:65
Alignment explanation
Indices: 36836--37001 Score: 305
Period size: 65 Copynumber: 2.6 Consensus size: 65
36826 CTCGAAACAA
* *
36836 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
*
36901 AATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
36966 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
37002 AAATTTTGTC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 97 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (65 bp):
AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
Found at i:36927 original size:167 final size:169
Alignment explanation
Indices: 36719--37036 Score: 541
Period size: 167 Copynumber: 1.9 Consensus size: 169
36709 CTTGAGATAG
*
36719 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
36784 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
36849 TTGAGACAG-TTTCTCTTGAAACATAAACATTGAAAACA
131 TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
** * *
36887 TTTCCCTTGAAA-TGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
36951 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
37016 TTGAGACAGTTTTCTCTTGAA
131 TTGAGACAGTTTTCTCTTGAA
37037 GCATCATCTT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 117 0.84
168 23 0.16
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:37009 original size:204 final size:195
Alignment explanation
Indices: 36565--37027 Score: 579
Period size: 204 Copynumber: 2.3 Consensus size: 195
36555 GCTCACTATT
* *
36565 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAAC
*
36630 AAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGGAAACATTTCCCTTGAAA
66 AAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
* ** * *
36695 TGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTC
131 TGAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAACATTGTCTCCCTTGAAACAATTTC
* ** *
36760 -TCTTGAAACATAAACATTGAAAACA-TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTT
1 GTC-T----C-T---C-TTG-AGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTT
36823 TCCCTCGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
55 TCCCTCGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
*
36888 TTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACAT
120 TTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAACATTG------T
* *
36953 TTCCCTTGAAATGAATTTC
178 CTCCCTTGAAA-CAATTTC
* *
36972 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTT
37028 TCTCTTGAAG
Statistics
Matches: 225, Mismatches: 21, Indels: 35
0.80 0.07 0.12
Matches are distributed among these distances:
194 2 0.01
195 1 0.00
199 1 0.00
200 1 0.00
202 4 0.02
203 15 0.07
204 171 0.76
205 10 0.04
207 1 0.00
208 1 0.00
211 10 0.04
212 6 0.03
213 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (195 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTCGAAAC
AAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
TGAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAACATTGTCTCCCTTGAAACAATTTC
Found at i:37179 original size:37 final size:37
Alignment explanation
Indices: 37109--37180 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
37099 TGGAACTAAG
* * **
37109 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
37146 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAA
37181 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:37946 original size:105 final size:105
Alignment explanation
Indices: 37784--38438 Score: 919
Period size: 105 Copynumber: 6.2 Consensus size: 105
37774 GCCATCTGCG
* * * * * *
37784 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
37849 GGGA-CGATTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCG-CTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
37892 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
37957 ACCGCTGCTTGTCAACAACAACTTCTTAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
37997 ATTTCAACTTCACAACAAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
38062 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* * *
38102 ATTTCAACTTCACAACGAAGGATATTAGACTCCATACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
38167 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
38207 ATTTCAATTTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
38272 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* * *
38307 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * ** *
38372 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* *
38413 ATTTCAACTTCACGACGGAGGATATT
1 ATTTCAACTTCACAACGAAGGATATT
38439 AGAGTTGGAA
Statistics
Matches: 499, Mismatches: 40, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
99 2 0.00
100 79 0.16
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 347 0.70
106 36 0.07
108 22 0.04
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
Found at i:39025 original size:34 final size:36
Alignment explanation
Indices: 38982--39079 Score: 155
Period size: 37 Copynumber: 2.8 Consensus size: 36
38972 GTCCTACTAT
38982 GATTCAAACTCCTAAAAATAGGATAGAA-TTT-TAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTTTCTAG
* *
39016 GATTCAAACTCCTAAAAATATGATAAAATTTTGCTAG
1 GATTCAAACTCCTAAAAATAGGATAGAATTTT-CTAG
39053 GATTCAAACTCCTAAAAATAGGATAGA
1 GATTCAAACTCCTAAAAATAGGATAGA
39080 GTTATACTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
34 26 0.46
35 3 0.05
37 28 0.49
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (36 bp):
GATTCAAACTCCTAAAAATAGGATAGAATTTTCTAG
Found at i:39557 original size:2 final size:2
Alignment explanation
Indices: 39552--39602 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
39542 ATATTAGTAT
39552 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39594 TA TA TA TA T
1 TA TA TA TA T
39603 TTTAATATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:40025 original size:2 final size:2
Alignment explanation
Indices: 40018--40051 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
40008 TAATACTTTG
40018 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
40052 TTTTCCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41621 original size:21 final size:21
Alignment explanation
Indices: 41581--41621 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
41571 TTTCCAGATT
*
41581 CGCAACGCAAACTCCTACTAA
1 CGCAACGCAAACTCCGACTAA
* *
41602 CGCAACGCGAACTTCGACTA
1 CGCAACGCAAACTCCGACTA
41622 TCACATTGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
CGCAACGCAAACTCCGACTAA
Found at i:41711 original size:20 final size:21
Alignment explanation
Indices: 41688--41735 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
41678 AGAAACCGAT
*
41688 TTGCGATA-CCGGAGATCGCG
1 TTGCGATAGCCGAAGATCGCG
* *
41708 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGCCGAAGATCGCG
41729 TTGCGAT
1 TTGCGAT
41736 TTATTCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (21 bp):
TTGCGATAGCCGAAGATCGCG
Found at i:42657 original size:42 final size:40
Alignment explanation
Indices: 42598--42691 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
42588 TGCGATTTTG
* *
42598 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACAAACTTGGAAT--ATCACAACGCGAACTTC
*
42640 GACTATCGCAACAAACTTGGACTATCACAACGCGAACTTC
1 GACTATCGCAACAAACTTGGAATATCACAACGCGAACTTC
42680 GACTATCGCAAC
1 GACTATCGCAAC
42692 GCGAACTTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 28 0.57
42 21 0.43
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (40 bp):
GACTATCGCAACAAACTTGGAATATCACAACGCGAACTTC
Found at i:42690 original size:61 final size:62
Alignment explanation
Indices: 42623--42818 Score: 245
Period size: 63 Copynumber: 3.1 Consensus size: 62
42613 CTTGGAATAA
* * * * *
42623 ATCGCAACGCGAACTTCGACTATCGCAACAAACTTGGACT-ATCACAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAATCGCAACGCGAACTTCGACT
* *
42684 ATCGCAACGCGAACTTGGACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTTGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT-AATCGCAACGCGAACTTCGACT
* * *
42747 ATCACAA--CGAACTTGGACTATCGCAACGCGAATTTGGAATAAATCGCAACGCGGACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAAT-AATCGCAACGCGAACTTCGACT
42810 ATCGCAACG
1 ATCGCAACG
42819 AATTTAGAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
61 54 0.46
63 63 0.54
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (62 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAATCGCAACGCGAACTTCGACT
Found at i:42774 original size:103 final size:104
Alignment explanation
Indices: 42595--42823 Score: 352
Period size: 103 Copynumber: 2.2 Consensus size: 104
42585 CGTTGCGATT
* *
42595 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACAAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACAAACTTGG
*
42660 ACTATCACAACGCGAACTTCGACT-ATCGCAACGCGAAC
66 ACTATCACAACGCGAACTTCGAATAATCGCAACGCGAAC
* * *
42698 TTGGACTATCGCAATGAATTTGGAATAAATCGCAACGCGAACTTTGACTATCACAACGAACTTGG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACAAACTTGG
* * * *
42763 ACTATCGCAACGCGAATTTGGAATAAATCGCAACGCGGAC
66 ACTATCACAACGCGAACTTCGAAT-AATCGCAACGCGAAC
42803 TTGGACTATCGCAACGAATTT
1 TTGGACTATCGCAACGAATTT
42824 AGAAAATCGT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
103 80 0.71
105 33 0.29
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (104 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACAAACTTGG
ACTATCACAACGCGAACTTCGAATAATCGCAACGCGAAC
Found at i:42818 original size:21 final size:21
Alignment explanation
Indices: 42595--42818 Score: 221
Period size: 21 Copynumber: 10.8 Consensus size: 21
42585 CGTTGCGATT
42595 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
42614 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
42637 TTCGACTATCGCAA--CAAAC
1 TTGGACTATCGCAACGCGAAC
*
42656 TTGGACTATCACAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
42677 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
42698 TTGGACTATCGCAA--TGAAT
1 TTGGACTATCGCAACGCGAAC
*
42717 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
42740 TTTGACTATCACAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
42759 TTGGACTATCGCAACGCGAAT
1 TTGGACTATCGCAACGCGAAC
* *
42780 TTGGAATAAATCGCAACGCGGAC
1 TTGGACT--ATCGCAACGCGAAC
42803 TTGGACTATCGCAACG
1 TTGGACTATCGCAACG
42819 AATTTAGAAA
Statistics
Matches: 166, Mismatches: 25, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
19 48 0.29
21 82 0.49
23 36 0.22
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:43115 original size:35 final size:35
Alignment explanation
Indices: 43076--43146 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
43066 GTTGGATGCT
43076 TCATGAGTACTTTCATCTCTGGCCATTAGTGAGAC
1 TCATGAGTACTTTCATCTCTGGCCATTAGTGAGAC
**
43111 TCATGAGTTTTTTCATCTCTGGCCATTAGTGAGAC
1 TCATGAGTACTTTCATCTCTGGCCATTAGTGAGAC
43146 T
1 T
43147 ACAACACGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (35 bp):
TCATGAGTACTTTCATCTCTGGCCATTAGTGAGAC
Found at i:56469 original size:84 final size:84
Alignment explanation
Indices: 56279--56442 Score: 265
Period size: 84 Copynumber: 2.0 Consensus size: 84
56269 ATCTTCAGTT
* * ** *
56279 TTGGGTTTTGCGTATGAATCATCGTACGCATAATTACCAAATTCAGGATCATTGATTCCTTTATT
1 TTGGATTTTGCGTATGAATCATCGTACCCATAAGCACCAAATTCAGGATCATTGATTCCTTTACT
*
56344 GTCGGGTGAATCCTTAGTG
66 GTCGGGAGAATCCTTAGTG
*
56363 TTGGATTTTGCGTATGAATCATCGTACCCATAAGCACCAAATTCAGGATCATTGATTCCTTTGCT
1 TTGGATTTTGCGTATGAATCATCGTACCCATAAGCACCAAATTCAGGATCATTGATTCCTTTACT
56428 GTCGGGAGAATCCTT
66 GTCGGGAGAATCCTT
56443 GGTATTTGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 73 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (84 bp):
TTGGATTTTGCGTATGAATCATCGTACCCATAAGCACCAAATTCAGGATCATTGATTCCTTTACT
GTCGGGAGAATCCTTAGTG
Found at i:61887 original size:21 final size:21
Alignment explanation
Indices: 61843--61887 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61833 GATTTCTGGG
* * *
61843 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
61864 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
61885 CAA
1 CAA
61888 ACGAACCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:61960 original size:23 final size:22
Alignment explanation
Indices: 61912--61960 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
61902 ACAGAATGTC
61912 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
61933 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
61956 AAGGA
1 AAGGA
61961 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:63230 original size:103 final size:103
Alignment explanation
Indices: 63051--63268 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
63041 GTTGAGGGTC
** *
63051 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCAAGACATATATGTATTATTTGGAACATGTGTGAAGTATGGTGAGACACATAC
63116 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
63154 TATGTGGTCCTTCAAGACATATATGTATTATTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAAGACATATATGTATTATTTGGAACATGTGTGAAGTATGGTGAGACACATAC
63219 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
63257 TATGTGGTCCTT
1 TATGTGGTCCTT
63269 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCAAGACATATATGTATTATTTGGAACATGTGTGAAGTATGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:63329 original size:23 final size:23
Alignment explanation
Indices: 63275--63329 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
63265 CCTTATGGAC
*
63275 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* *
63299 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
63322 TTTATATG
1 ATTATATG
63330 AGTTGTGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:64465 original size:19 final size:19
Alignment explanation
Indices: 64441--64523 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
64431 AGGAGCCGTT
*
64441 TGAGCCGAGCCGCTTGAGC
1 TGAGCCGAGCCGTTTGAGC
64460 TGAGCCGAGCCG-TT----
1 TGAGCCGAGCCGTTTGAGC
64474 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
64493 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
64512 TGAGCCAAGCCG
1 TGAGCCGAGCCG
64524 AGCCGCCTAG
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
14 12 0.21
15 2 0.03
18 2 0.03
19 42 0.72
ACGTcount: A:0.17, C:0.29, G:0.36, T:0.18
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:64470 original size:33 final size:33
Alignment explanation
Indices: 64433--64517 Score: 152
Period size: 33 Copynumber: 2.6 Consensus size: 33
64423 GAAGCCTGAG
64433 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
*
64466 GAGCCGTTTGAGCCGAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
*
64499 GAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCC
64518 AAGCCGAGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.20
Consensus pattern (33 bp):
GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
Found at i:64517 original size:14 final size:14
Alignment explanation
Indices: 64433--64499 Score: 80
Period size: 14 Copynumber: 4.4 Consensus size: 14
64423 GAAGCCTGAG
64433 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
64447 GAGCCGCTTGAGCTGAGCC
1 GAGCCG-TT----TGAGCC
64466 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
64480 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
64494 GAGCCG
1 GAGCCG
64500 AGCCGTTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
14 31 0.66
15 2 0.04
18 2 0.04
19 12 0.26
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.19
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:65704 original size:18 final size:18
Alignment explanation
Indices: 65678--65712 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65668 TCGAAAGGAC
*
65678 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
65696 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
65713 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:69489 original size:19 final size:19
Alignment explanation
Indices: 69465--69547 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
69455 AGGAGCCGTT
*
69465 TGAGCCGAGCCGCTTGAGC
1 TGAGCCGAGCCGTTTGAGC
69484 TGAGCCGAGCCG-TT----
1 TGAGCCGAGCCGTTTGAGC
69498 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
69517 TGAGCCGAGCCGTTTGAGC
1 TGAGCCGAGCCGTTTGAGC
*
69536 TGAGCCAAGCCG
1 TGAGCCGAGCCG
69548 AGCCGCCTAG
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
14 12 0.21
15 2 0.03
18 2 0.03
19 42 0.72
ACGTcount: A:0.17, C:0.29, G:0.36, T:0.18
Consensus pattern (19 bp):
TGAGCCGAGCCGTTTGAGC
Found at i:69494 original size:33 final size:33
Alignment explanation
Indices: 69457--69541 Score: 152
Period size: 33 Copynumber: 2.6 Consensus size: 33
69447 GAAGCCTGAG
69457 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
*
69490 GAGCCGTTTGAGCCGAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
*
69523 GAGCCGTTTGAGCTGAGCC
1 GAGCCGTTTGAGCCGAGCC
69542 AAGCCGAGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.20
Consensus pattern (33 bp):
GAGCCGTTTGAGCCGAGCCGCTTGAGCTGAGCC
Found at i:69541 original size:14 final size:14
Alignment explanation
Indices: 69457--69523 Score: 80
Period size: 14 Copynumber: 4.4 Consensus size: 14
69447 GAAGCCTGAG
69457 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
69471 GAGCCGCTTGAGCTGAGCC
1 GAGCCG-TT----TGAGCC
69490 GAGCCGTTTGAGCC
1 GAGCCGTTTGAGCC
*
69504 GAGCCGTTTGAGCT
1 GAGCCGTTTGAGCC
69518 GAGCCG
1 GAGCCG
69524 AGCCGTTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
14 31 0.66
15 2 0.04
18 2 0.04
19 12 0.26
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.19
Consensus pattern (14 bp):
GAGCCGTTTGAGCC
Found at i:70727 original size:18 final size:18
Alignment explanation
Indices: 70701--70735 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70691 TCGAAAGGAC
*
70701 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
70719 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
70736 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:75082 original size:30 final size:31
Alignment explanation
Indices: 75046--75111 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
75036 ACGACTGAGA
** * *
75046 GACTAAAATTGAATGAATCGGTAACATTAG-
1 GACTAAAACCGAACGAATCGATAACATTAGC
*
75076 GACTAAAACCGAACGAATCGATAACGTTAGC
1 GACTAAAACCGAACGAATCGATAACATTAGC
75107 GACTA
1 GACTA
75112 TGTACCCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (31 bp):
GACTAAAACCGAACGAATCGATAACATTAGC
Found at i:75786 original size:21 final size:22
Alignment explanation
Indices: 75753--75794 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
75743 CAAAATATTT
*
75753 AATCGATTCAATTTCTCAATTC
1 AATCGATTCAATTTCTAAATTC
*
75775 AATC-ATTTAATTTCTAAATT
1 AATCGATTCAATTTCTAAATT
75795 TGAGGGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (22 bp):
AATCGATTCAATTTCTAAATTC
Found at i:85916 original size:20 final size:20
Alignment explanation
Indices: 85878--85918 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
85868 ATTTGTACGG
* *
85878 TGCAGACGTGATCTTATATC
1 TGCAGACGTCATCTAATATC
*
85898 TGCAGACGTCTTCTAATATC
1 TGCAGACGTCATCTAATATC
85918 T
1 T
85919 TCAAAGAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (20 bp):
TGCAGACGTCATCTAATATC
Found at i:85949 original size:6 final size:6
Alignment explanation
Indices: 85935--85977 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
85925 AGGTTTTATA
* *
85935 TTTAA- TTTAAT TTT-AT ATTATT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTT
85978 TTTAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 9 0.28
6 23 0.72
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:85950 original size:17 final size:17
Alignment explanation
Indices: 85928--85976 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
85918 TTCAAAGAGG
85928 TTTTATATTTAATTTAA
1 TTTTATATTTAATTTAA
*
85945 TTTTATA-TTATTTTTAA
1 TTTTATATTTA-ATTTAA
85962 TTTTA-ATTTTAATTT
1 TTTTATA-TTTAATTT
85977 TTTTAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 4 0.15
17 20 0.74
18 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTATATTTAATTTAA
Found at i:85960 original size:22 final size:22
Alignment explanation
Indices: 85930--86017 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 22
85920 CAAAGAGGTT
*
85930 TTATATTTAATTTAATTTTATA
1 TTATTTTTAATTTAATTTTATA
85952 TTATTTTTAATTTTAATTTTA-A
1 TTATTTTTAA-TTTAATTTTATA
* * **
85974 TT-TTTTTAAATAAATTAAATA
1 TTATTTTTAATTTAATTTTATA
*
85995 TTA-TTTT--TTTAATATTATA
1 TTATTTTTAATTTAATTTTATA
86014 TTAT
1 TTAT
86018 AGATATTAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
19 10 0.19
20 6 0.12
21 14 0.27
22 12 0.23
23 10 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTTTTAATTTAATTTTATA
Found at i:86023 original size:14 final size:12
Alignment explanation
Indices: 86005--86092 Score: 54
Period size: 13 Copynumber: 6.9 Consensus size: 12
85995 TTATTTTTTT
86005 AATATTATATTATA
1 AATATTA-ATT-TA
*
86019 GATATTAATTTA
1 AATATTAATTTA
*
86031 AATATTAATTTTT
1 AATATTAA-TTTA
*
86044 AA-A-TAACTTA
1 AATATTAATTTA
*
86054 AATATTAATTTTT
1 AATATTAA-TTTA
86067 AATATTATATTATA
1 AATATTA-ATT-TA
*
86081 GATATTTAATTT
1 AATA-TTAATTT
86093 TATATCATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
10 4 0.07
11 4 0.07
12 13 0.22
13 20 0.34
14 14 0.24
15 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (12 bp):
AATATTAATTTA
Found at i:86066 original size:62 final size:65
Alignment explanation
Indices: 85957--86092 Score: 206
Period size: 63 Copynumber: 2.1 Consensus size: 65
85947 TTATATTATT
* * *
85957 TTTAATTTTAATTTTAATTTTTTTAAATAAATTAAATATTATTTTTTTAATATTATATTATAGAT
1 TTTAATTTAAATATTAA-TTTTTTAAATAAATTAAATATTATATTTTTAATATTATATTATAGAT
86022 A
65 A
*
86023 -TTAATTTAAATATTAA-TTTTTAAATAACTTAAATATTA-ATTTTTAATATTATATTATAGATA
1 TTTAATTTAAATATTAATTTTTTAAATAAATTAAATATTATATTTTTAATATTATATTATAGATA
86085 TTTAATTT
1 TTTAATTT
86093 TATATCATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
62 23 0.35
63 28 0.43
65 14 0.22
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (65 bp):
TTTAATTTAAATATTAATTTTTTAAATAAATTAAATATTATATTTTTAATATTATATTATAGATA
Found at i:87426 original size:21 final size:21
Alignment explanation
Indices: 87381--87426 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
87371 TTATGTAACG
**
87381 TTAATTTTGAAGAAAAATGTT
1 TTAATTTTGAAGAAAAATGAA
87402 TTAATTTTGAAGAAAAAAT-AA
1 TTAATTTTGAAG-AAAAATGAA
87423 TTAA
1 TTAA
87427 GTGATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (21 bp):
TTAATTTTGAAGAAAAATGAA
Found at i:90671 original size:16 final size:17
Alignment explanation
Indices: 90650--90687 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
90640 TATTTTAAAT
90650 AAATAAT-AAT-TTTATA
1 AAATAATGAATATTT-TA
90666 AAATAATGAATATTTTA
1 AAATAATGAATATTTTA
90683 AAATA
1 AAATA
90688 CTTATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 10 0.50
18 3 0.15
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
AAATAATGAATATTTTA
Found at i:93239 original size:140 final size:137
Alignment explanation
Indices: 93061--93339 Score: 522
Period size: 140 Copynumber: 2.0 Consensus size: 137
93051 GATGATGTTG
93061 ATGCAGATTACGAGGAGGAAGATGGTAATACACTTGTCCCTTTGTCCTCATATGCTGCCTTATTT
1 ATGCAGATTACGAGGAGGAAGATGGTAATACACTTGTCCCTTTGTCCTCATATGCTGCCTTATTT
93126 CTTATTACATCATTTTTTATTGAGTCACTAAGACTGAATAAATATTACGATATATTACGATTGAT
66 CTTATTACATCATTTTTTATTGAGTCACTAAGACTGAATAAATATTACGATATATTACGATTGAT
93191 CCATTAC
131 CCATTAC
93198 ATGCAGATTACGAGGAGGAAGAAGATGGTAATACACTTGTCCCTTTGTCCTCATATGCTGCCTTA
1 ATGCAGATTACGAGGA-G--GAAGATGGTAATACACTTGTCCCTTTGTCCTCATATGCTGCCTTA
93263 TTTCTTATTACATCATTTTTTATTGAGTCACTAAGACTGAATAAATATTACGATATATTACGATT
63 TTTCTTATTACATCATTTTTTATTGAGTCACTAAGACTGAATAAATATTACGATATATTACGATT
*
93328 GATCCGTTAC
128 GATCCATTAC
93338 AT
1 AT
93340 ATAATCCTAG
Statistics
Matches: 138, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
137 16 0.12
138 1 0.01
140 121 0.88
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (137 bp):
ATGCAGATTACGAGGAGGAAGATGGTAATACACTTGTCCCTTTGTCCTCATATGCTGCCTTATTT
CTTATTACATCATTTTTTATTGAGTCACTAAGACTGAATAAATATTACGATATATTACGATTGAT
CCATTAC
Found at i:98615 original size:17 final size:16
Alignment explanation
Indices: 98582--98616 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
98572 TTCTTCTGTC
*
98582 AAAATTTTATTTATAT
1 AAAATTTTATGTATAT
98598 AAAATTTGTATGTATAT
1 AAAATTT-TATGTATAT
98615 AA
1 AA
98617 TGTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (16 bp):
AAAATTTTATGTATAT
Found at i:107633 original size:21 final size:22
Alignment explanation
Indices: 107593--107633 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
107583 TAAATAAAGA
*
107593 ATTTAACAATTTTTAATTAGGT
1 ATTTAACAATTTTCAATTAGGT
*
107615 ATTTAA-AATTTTCATTTAG
1 ATTTAACAATTTTCAATTAG
107634 TGTAATTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
ATTTAACAATTTTCAATTAGGT
Found at i:120506 original size:8 final size:8
Alignment explanation
Indices: 120493--120519 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
120483 TCCAATGTTT
120493 TGATTTCA
1 TGATTTCA
120501 TGATTTCA
1 TGATTTCA
120509 TGATTTCA
1 TGATTTCA
120517 TGA
1 TGA
120520 ATACTAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (8 bp):
TGATTTCA
Found at i:120674 original size:14 final size:16
Alignment explanation
Indices: 120638--120676 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
120628 TGTTACATGA
*
120638 TCTATGTGACTATATG
1 TCTATGTGACTATAAG
120654 TCTATGTGA-TATAAG
1 TCTATGTGACTATAAG
120669 -CTATGTGA
1 TCTATGTGA
120677 AATGGTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (16 bp):
TCTATGTGACTATAAG
Found at i:120815 original size:23 final size:23
Alignment explanation
Indices: 120757--120808 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
120747 TGAGGGTTCA
*
120757 ACGTGGTCCTTTGGGACATATCT
1 ACGTGGTCCTTCGGGACATATCT
* *
120780 ATGTGGTCCTTCGGGACATTTCT
1 ACGTGGTCCTTCGGGACATATCT
120803 ACGTGG
1 ACGTGG
120809 CACTTCGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (23 bp):
ACGTGGTCCTTCGGGACATATCT
Found at i:123356 original size:20 final size:20
Alignment explanation
Indices: 123327--123373 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
123317 ATTCCATCAC
*
123327 ATGCAACTATATGCTTCTAA
1 ATGCAACTATATGCTCCTAA
* *
123347 ATGCATCTATATGGTCCTAA
1 ATGCAACTATATGCTCCTAA
123367 ATG-AACT
1 ATGCAACT
123374 TTTAGACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGCAACTATATGCTCCTAA
Found at i:133445 original size:28 final size:28
Alignment explanation
Indices: 133401--133503 Score: 154
Period size: 28 Copynumber: 3.6 Consensus size: 28
133391 TCCACATTCG
*
133401 AAAATTTCCA-AATTGTCATTTTTTCACA
1 AAAATTCCCAGAA-TGTCATTTTTTCACA
* *
133429 AAAATTCCCAGAATGTCACCTTTTCCACA
1 AAAATTCCCAGAATGTCA-TTTTTTCACA
133458 AAAATTCCCAGAATGTCATTTTTTCACA
1 AAAATTCCCAGAATGTCATTTTTTCACA
133486 AAAATTCCCAGAATGTCA
1 AAAATTCCCAGAATGTCA
133504 CTGGGTCGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
28 40 0.59
29 28 0.41
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAATTCCCAGAATGTCATTTTTTCACA
Found at i:133534 original size:17 final size:18
Alignment explanation
Indices: 133506--133543 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
133496 GAATGTCACT
*
133506 GGGTCGGGTCAACGGGTC
1 GGGTCGGGTCAACGAGTC
133524 GGGTC-GGTCAACGAGTC
1 GGGTCGGGTCAACGAGTC
133541 GGG
1 GGG
133544 CCGAGTCGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.13, C:0.21, G:0.50, T:0.16
Consensus pattern (18 bp):
GGGTCGGGTCAACGAGTC
Found at i:133573 original size:19 final size:19
Alignment explanation
Indices: 133549--133588 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
133539 TCGGGCCGAG
133549 TCGGACCGGTCAAACCGGT
1 TCGGACCGGTCAAACCGGT
* *
133568 TCGGACCGGTTAAATCGGT
1 TCGGACCGGTCAAACCGGT
133587 TC
1 TC
133589 AGACTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.23
Consensus pattern (19 bp):
TCGGACCGGTCAAACCGGT
Found at i:135248 original size:21 final size:21
Alignment explanation
Indices: 135224--135272 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
135214 ATTGTCTTCG
135224 TTGTTGCAATAAACTCTTGCA
1 TTGTTGCAATAAACTCTTGCA
135245 TTGTTGCAATAAACTCTTGCA
1 TTGTTGCAATAAACTCTTGCA
135266 TTGTTGC
1 TTGTTGC
135273 CTCCAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (21 bp):
TTGTTGCAATAAACTCTTGCA
Found at i:137153 original size:184 final size:185
Alignment explanation
Indices: 136844--137212 Score: 715
Period size: 184 Copynumber: 2.0 Consensus size: 185
136834 GAATGTTGTG
136844 ACAAAATGGAATGTCTGATGTGGAAATGGAATGGTGGTAGTGTGGTAGCAATGGATATATCGAGA
1 ACAAAATGGAATGTCTGATGTGGAAATGGAATGGTGGTAGTGTGGTAGCAATGGATATATCGAGA
136909 CAAATTATATTGTGATGTGTGTGAACAAATTGAAATGTCAAGGCAAACACAACACAACAACAAAA
66 CAAATTATATTGTGATGTGTGTGAACAAATTGAAATGTCAAGGCAAACACAACACAACAACAAAA
136974 CCCTATTCCCATATACAAT-GGGTAAGAGGGGGTAGAGTTGTAGGCTGCCCCCAA
131 CCCTATTCCCATATACAATGGGGTAAGAGGGGGTAGAGTTGTAGGCTGCCCCCAA
137028 ACAAAATGGAATGTCTGATGTGGAAATGGAATGGTGGTAGTGTGGTAGCAATGGATATATCGAGA
1 ACAAAATGGAATGTCTGATGTGGAAATGGAATGGTGGTAGTGTGGTAGCAATGGATATATCGAGA
137093 CAAATTATATTGTGATGTGTGTGAACAAATTGAAATGTCAAGGC-AACACAACAACAACAACAAA
66 CAAATTATATTGTGATGTGTGTGAACAAATTGAAATGTCAAGGCAAACACAAC-ACAACAACAAA
137157 ACCCTATTCCCATATACAATGGGGTAAGAGGGGGTAGAGTTGTAGGCTGCCCCCAA
130 ACCCTATTCCCATATACAATGGGGTAAGAGGGGGTAGAGTTGTAGGCTGCCCCCAA
137213 TGCATGGTTA
Statistics
Matches: 183, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
183 8 0.04
184 140 0.77
185 35 0.19
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (185 bp):
ACAAAATGGAATGTCTGATGTGGAAATGGAATGGTGGTAGTGTGGTAGCAATGGATATATCGAGA
CAAATTATATTGTGATGTGTGTGAACAAATTGAAATGTCAAGGCAAACACAACACAACAACAAAA
CCCTATTCCCATATACAATGGGGTAAGAGGGGGTAGAGTTGTAGGCTGCCCCCAA
Found at i:142302 original size:20 final size:19
Alignment explanation
Indices: 142274--142320 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
142264 TTAAATTTAA
*
142274 TAATTATTTTTAAAACAATT
1 TAATAATTTTTAAAA-AATT
142294 TAATAA-TTTTAAAAAATT
1 TAATAATTTTTAAAAAATT
142312 TAA-AATTTT
1 TAATAATTTT
142321 AATAGCTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 10 0.40
19 8 0.32
20 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAATTTTTAAAAAATT
Found at i:142313 original size:18 final size:18
Alignment explanation
Indices: 142281--142322 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 18
142271 TAATAATTAT
142281 TTTTAAAACAATTTAATAA
1 TTTTAAAACAATTTAA-AA
142300 TTTTAAAA-AATTTAAAA
1 TTTTAAAACAATTTAAAA
142317 TTTTAA
1 TTTTAA
142323 TAGCTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 8 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTTAAAACAATTTAAAA
Found at i:143868 original size:19 final size:19
Alignment explanation
Indices: 143791--143868 Score: 50
Period size: 20 Copynumber: 3.8 Consensus size: 19
143781 CTAAAAACAT
143791 AATG-AAAATAAATAAATA
1 AATGAAAAATAAATAAATA
* * *
143809 GTATAAAAAATAAAAAATACTA
1 -AATGAAAAATAAATAA-A-TA
*
143831 AATAGTAACAATAATAATAAATA
1 AAT-G-AAAAAT-A-AATAAATA
143854 AATGAAAAATAAATA
1 AATGAAAAATAAATA
143869 TACATATAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
19 6 0.14
20 11 0.25
21 8 0.18
22 3 0.07
23 10 0.23
24 2 0.05
25 4 0.09
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (19 bp):
AATGAAAAATAAATAAATA
Found at i:143895 original size:45 final size:44
Alignment explanation
Indices: 143795--143895 Score: 98
Period size: 45 Copynumber: 2.2 Consensus size: 44
143785 AAACATAATG
*
143795 AAAATAAATAAATAGTATAAAAAATAAAAAATACTAAATAGTAAC
1 AAAA-AAATAAATAGAATAAAAAATAAAAAATACTAAATAGTAAC
* * * *
143840 AATAATAATAAATA-AATGAAAAAT-AAATATACATATAATATTAAC
1 AA-AAAAATAAATAGAATAAAAAATAAAAAATAC-TA-AATAGTAAC
143885 TAAAAAAATAA
1 -AAAAAAATAA
143896 TAATCATAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
43 7 0.15
44 10 0.22
45 25 0.54
46 4 0.09
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (44 bp):
AAAAAAATAAATAGAATAAAAAATAAAAAATACTAAATAGTAAC
Found at i:143898 original size:33 final size:34
Alignment explanation
Indices: 143811--143898 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 34
143801 AATAAATAGT
* *
143811 ATAAAAAAT-AAAAAATACTAAATAGTAACAATA
1 ATAATAAATAAAAAAATAATAAATAGTAACAATA
*
143844 ATAATAAATAAATGAAA-AATAAATA-T-ACATATA
1 ATAATAAATAAA-AAAATAATAAATAGTAACA-ATA
* *
143877 ATATTAACTAAAAAAATAATAA
1 ATAATAAATAAAAAAATAATAA
143899 TCATAGAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
32 6 0.13
33 27 0.60
34 9 0.20
35 3 0.07
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (34 bp):
ATAATAAATAAAAAAATAATAAATAGTAACAATA
Found at i:144618 original size:37 final size:37
Alignment explanation
Indices: 144525--144626 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
144515 ATGCTTGTGG
* * ** * *
144525 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
* *
144562 ATCATATTTTTAGGAGTTTGAATCCTAGAAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
144599 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
144627 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAAACTCT
Found at i:145563 original size:106 final size:106
Alignment explanation
Indices: 145378--146537 Score: 1747
Period size: 106 Copynumber: 11.0 Consensus size: 106
145368 AGCATTGTTC
* * **
145378 CGAGTCCAATATCCTCCGTCT-TGAAGTTGAAATTGGCTCTGGAATCAGGAAATTGTTTGTTGAC
1 CGAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* * *
145442 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
145484 CGAGTTCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTAACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
145549 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
145590 CGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTAACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
145655 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
145696 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
145761 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
145802 GGAGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCAGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
145867 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
145908 CGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGG----G-AA----G---TTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
145961 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
146002 GGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
146067 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
146108 GGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * *
146173 ACCAGTGTTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
146214 TGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTAATTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTT-GTTGAC
146279 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
146321 GGAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
* *
146385 AACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCG
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
146427 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
146492 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
146533 CGAGT
1 CGAGT
146538 GGCACGATAT
Statistics
Matches: 982, Mismatches: 55, Indels: 34
0.92 0.05 0.03
Matches are distributed among these distances:
94 87 0.09
97 1 0.00
98 1 0.00
99 2 0.00
101 2 0.00
102 1 0.00
103 1 0.00
105 1 0.00
106 787 0.80
107 99 0.10
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:146155 original size:412 final size:412
Alignment explanation
Indices: 145379--146537 Score: 1665
Period size: 412 Copynumber: 2.8 Consensus size: 412
145369 GCATTGTTCC
* * * **
145379 GAGTCCAATATCCTCCGTCT-TGAAGTTGAAATTGGCTCTGGAATCAGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTC-ACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * * * *
145443 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTTGTTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
*
145508 AGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTAACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTGG----G-AA----G---TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* * *
145573 TTGAACTTGCGTTGTCTCGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGG
183 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
145638 GAAATTGTTTGTTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCC
248 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCC
* *
145703 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCG
313 AATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTATTGACAACCAGCG
*
145768 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
378 GTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
* *
145803 GAGTCCAATATCTTTCACTGTGAAGTTGAAATTGGCTCAGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
145868 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTCGAGTCCAATATCATTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
145933 GTTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
131 GTTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
* * *
145998 GTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTT
196 GTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTT
*
146063 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGCT
261 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCATTCGCT
* * * *
146128 GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGTGTTCCCTTCGTCAT
326 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCAT
*
146193 GAAGTTGAACTTGCGTTGTCTT
391 GAAGTTGAACTTGCGTTGTCTG
** * *
146215 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTAATTGACA
1 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTT-GTTGACA
*
146280 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCG-C-T--
* *
146345 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCCTCGTCGTGAAG
126 -G-TG-AA---G-T-TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
* *
146410 TTGAACTTGCGTTGTCGGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGG
183 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
* *
146475 GAAGTTGTTTGTTGACAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
248 GAAGTTGTTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
146538 GGCACGATAT
Statistics
Matches: 668, Mismatches: 52, Indels: 29
0.89 0.07 0.04
Matches are distributed among these distances:
412 301 0.45
413 62 0.09
414 1 0.00
415 2 0.00
418 1 0.00
419 4 0.01
420 3 0.00
423 3 0.00
424 124 0.19
425 166 0.25
426 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (412 bp):
GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAA
GTTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
GTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTT
GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCATTCGCT
GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCAT
GAAGTTGAACTTGCGTTGTCTG
Found at i:146377 original size:213 final size:212
Alignment explanation
Indices: 145935--146568 Score: 1002
Period size: 213 Copynumber: 3.0 Consensus size: 212
145925 GCTGTGAAGT
145935 TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
146000 CTGGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
*
146065 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCG-CTG
131 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTC-G
146129 TGAAGTTGAAATTGGCTC
195 TGAAGTTGAAATTGGCTC
* * * *
146147 TGAAATTGGGAAGTTGTTTATTGACAACCAGTGTTCCCTTCGTCATGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * *
146212 CTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTAATTG
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTT-GTTG
146277 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCG
130 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCG
146342 TGAAGTTGAAATTGGCTC
195 TGAAGTTGAAATTGGCTC
* *
146360 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
146425 CGGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAGTTGTTTGTTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
* * * * *
146490 CAACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCG
131 CAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT--C-CAATATCCTTCG
*
146554 TCGTGGAGTTGAAAT
192 TCGTGAAGTTGAAAT
146569 CACGGATGGT
Statistics
Matches: 386, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
212 163 0.42
213 197 0.51
214 2 0.01
215 24 0.06
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (212 bp):
TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGT
GAAGTTGAAATTGGCTC
Found at i:147511 original size:22 final size:22
Alignment explanation
Indices: 147485--147539 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
147475 TTGTGTTTGG
147485 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
147507 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
147529 TCAAAGGTTTG
1 TCAAAGGTTTG
147540 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:148174 original size:28 final size:33
Alignment explanation
Indices: 148143--148207 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
148133 TTTTTGTCCA
148143 TTTTTCTTTT-TTA-ATTTTG-TTC-TTTCTTT
1 TTTTTCTTTTCTTATATTTTGATTCTTTTCTTT
* *
148172 TTTTTGTTTTCTTATTTTTTGATTCTTTTCTTT
1 TTTTTCTTTTCTTATATTTTGATTCTTTTCTTT
148205 TTT
1 TTT
148208 GTTTTTGCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 3 0.10
31 5 0.17
32 3 0.10
33 10 0.33
ACGTcount: A:0.06, C:0.09, G:0.05, T:0.80
Consensus pattern (33 bp):
TTTTTCTTTTCTTATATTTTGATTCTTTTCTTT
Found at i:148176 original size:16 final size:16
Alignment explanation
Indices: 148157--148207 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 16
148147 TCTTTTTTAA
148157 TTTTGTTCTTTCTTTT
1 TTTTGTTCTTTCTTTT
148173 TTTTG-T-TTTCTTATT
1 TTTTGTTCTTTCTT-TT
148188 TTTTGATTCTTTTCTTTT
1 TTTTG-TTC-TTTCTTTT
148206 TT
1 TT
148208 GTTTTTGCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.20
15 8 0.27
16 5 0.17
17 1 0.03
18 4 0.13
19 6 0.20
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTTGTTCTTTCTTTT
Found at i:148208 original size:16 final size:15
Alignment explanation
Indices: 148157--148210 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
148147 TCTTTTTTAA
*
148157 TTTTGTTCTTTCTTTT
1 TTTTGTTCTTT-TATT
148173 TTTTGTT-TTCTTATT
1 TTTTGTTCTT-TTATT
*
148188 TTTTGATTCTTTTCTT
1 TTTTG-TTCTTTTATT
148204 TTTTGTT
1 TTTTGTT
148211 TTTGCCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 12 0.36
16 19 0.58
17 2 0.06
ACGTcount: A:0.04, C:0.09, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTGTTCTTTTATT
Found at i:152713 original size:3 final size:3
Alignment explanation
Indices: 152705--152730 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
152695 GTTAAAAGAA
152705 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
152731 AAGAAAGTAA
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:152953 original size:19 final size:19
Alignment explanation
Indices: 152923--152989 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
152913 AAACATAATG
152923 AAAATAAATAAATAATAAAA
1 AAAAT-AATAAATAATAAAA
* * *
152943 AAAATACTAAATAGTAACA
1 AAAATAATAAATAATAAAA
*
152962 ATAATAATAAATAAATGAAAA
1 AAAATAATAAAT-AAT-AAAA
152983 ATAAATA
1 A-AAATA
152990 TACATATAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 21 0.58
20 7 0.19
21 4 0.11
22 4 0.11
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATAATAAATAATAAAA
Found at i:153090 original size:13 final size:13
Alignment explanation
Indices: 153072--153097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
153062 TATATTTAGG
153072 AAAATATAGTAAA
1 AAAATATAGTAAA
153085 AAAATATAGTAAA
1 AAAATATAGTAAA
153098 TAAGTAAACA
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:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATATAGTAAA
Found at i:153123 original size:61 final size:61
Alignment explanation
Indices: 153048--153172 Score: 225
Period size: 61 Copynumber: 2.0 Consensus size: 61
153038 AAATGAAGTA
*
153048 AGAATATATATATATATA-TTTAGGAAAATATAGTAAAAAAATATAGTAAATAAGTAAACAT
1 AGAATATATATATATA-ACGTTAGGAAAATATAGTAAAAAAATATAGTAAATAAGTAAACAT
153109 AGAATATATATATATAACGTTAGGAAAATATAGTAAAAAAATATAGTAAATAAGTAAACAT
1 AGAATATATATATATAACGTTAGGAAAATATAGTAAAAAAATATAGTAAATAAGTAAACAT
153170 AGA
1 AGA
153173 TAAAAAATAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 1 0.02
61 61 0.98
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (61 bp):
AGAATATATATATATAACGTTAGGAAAATATAGTAAAAAAATATAGTAAATAAGTAAACAT
Found at i:153151 original size:13 final size:13
Alignment explanation
Indices: 153133--153158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
153123 TAACGTTAGG
153133 AAAATATAGTAAA
1 AAAATATAGTAAA
153146 AAAATATAGTAAA
1 AAAATATAGTAAA
153159 TAAGTAAACA
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:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATATAGTAAA
Found at i:153221 original size:22 final size:22
Alignment explanation
Indices: 153178--153225 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
153168 ATAGATAAAA
* *
153178 AATAATAATATAATATATATAT
1 AATAATAATAGAAAATATATAT
153200 AATAATAATAGGAAAATA-ATAT
1 AATAATAATA-GAAAATATATAT
153222 AATA
1 AATA
153226 TAACACAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATAATAATAGAAAATATATAT
Found at i:160530 original size:21 final size:21
Alignment explanation
Indices: 160501--160553 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
160491 ATTCTGACTA
160501 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
160522 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
160543 TCGCAATGCGA
1 TCGCATTGCGA
160554 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:160568 original size:20 final size:20
Alignment explanation
Indices: 160543--160656 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
160533 TTTTCCTAAT
160543 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
160563 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
160584 TCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
160604 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
160624 TTGCAATGC-AATTACGTAAA
1 TCGCAATGCGAA-TACGTAAA
160644 TCGCAATGCGAAT
1 TCGCAATGCGAAT
160657 CTGACTATCG
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
19 2 0.03
20 59 0.77
21 16 0.21
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:160670 original size:40 final size:39
Alignment explanation
Indices: 160543--160672 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 39
160533 TTTTCCTAAT
* *
160543 TCGCAATGCGAA-TACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGC-AATTACGTAAATCGCAATGCGAATCT-G-AAA
* *
160584 TCGTAATGCGATTACGTAAATCGCAATGCGAATAC-GTAAA
1 TCGCAATGCAATTACGTAAATCGCAATGCGAAT-CTG-AAA
* *
160624 TTGCAATGCAATTACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCAATTACGTAAATCGCAATGCGAATCTGA-AA
160664 TCGCAATGC
1 TCGCAATGC
160673 GATTTACATA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
39 2 0.03
40 45 0.60
41 28 0.37
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (39 bp):
TCGCAATGCAATTACGTAAATCGCAATGCGAATCTGAAA
Found at i:161267 original size:34 final size:34
Alignment explanation
Indices: 161224--161290 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
161214 TGAAACCGAG
*
161224 AATGACTATCGCAACGAGTGAACCGCAACGCGAA
1 AATGACTATCGCAACGAGAGAACCGCAACGCGAA
* * *
161258 AATGACTATCGCAATGAGAGAATCGCAATGCGA
1 AATGACTATCGCAACGAGAGAACCGCAACGCGA
161291 TTTTCATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (34 bp):
AATGACTATCGCAACGAGAGAACCGCAACGCGAA
Found at i:161351 original size:20 final size:20
Alignment explanation
Indices: 161286--161352 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
161276 AGAATCGCAA
*
161286 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGTGT
**
161305 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
*
161325 TGTGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
161345 TGCGATTT
1 TGCGATTT
161353 AAAGTTTCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 9 0.22
20 31 0.77
ACGTcount: A:0.12, C:0.15, G:0.22, T:0.51
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGTGT
Found at i:161360 original size:20 final size:20
Alignment explanation
Indices: 161317--161360 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
161307 CGATAGTCAT
* ** *
161317 TTTCGTGTTGTGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
161337 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
161357 TTTC
1 TTTC
161361 ATAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:163258 original size:20 final size:20
Alignment explanation
Indices: 163233--163322 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
163223 AGAATAGTTT
*
163233 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
163253 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
163273 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
** *
163293 ACTATCGCAATGCGAATTTA
1 ACTATCGCAATGCGAAAATG
163313 ACTATCGCAA
1 ACTATCGCAA
163323 CGAAAGAATC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:163394 original size:20 final size:20
Alignment explanation
Indices: 163369--163497 Score: 162
Period size: 20 Copynumber: 6.8 Consensus size: 20
163359 GATTCTCTCG
163369 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
163389 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
163409 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
163429 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
163449 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
** *
163463 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCA
163483 TTGCGATAGTCATTT
1 TTGCGATAGTCATTT
163498 GCATATTCTA
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
14 7 0.08
16 6 0.06
18 4 0.04
20 76 0.82
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:163491 original size:54 final size:57
Alignment explanation
Indices: 163369--163497 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 57
163359 GATTCTCTCG
* ** **
163369 TTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCATTGCGATA-TCA-TCTCG-ATTGCGATAGTCAAATTCACA
*
163429 TTGTGATAGTCATTTTCGCATTGCGAT-TC-TCTCG-TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCATTTTCGCATTGCGATATCATCTCGATTGCGATAGTCAAATTCACA
163483 TTGCGATAGTCATTT
1 TTGCGATAGTCATTT
163498 GCATATTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 30 0.48
56 4 0.06
58 2 0.03
60 26 0.42
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (57 bp):
TTGCGATAGTCATTTTCGCATTGCGATATCATCTCGATTGCGATAGTCAAATTCACA
Found at i:165624 original size:33 final size:34
Alignment explanation
Indices: 165574--165648 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
165564 AAAACAGACT
* **
165574 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
165608 ATCGCAATGC-GAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
165641 ATTGCAAT
1 ATCGCAAT
165649 ACGATTCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 27 0.75
34 9 0.25
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:165684 original size:20 final size:20
Alignment explanation
Indices: 165659--165752 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
165649 ACGATTCTCT
165659 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
165679 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
165699 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
165719 TGTTGCGATAGTCATATT-TG
1 CGTTGCGATAGTCAT-TTCCG
165739 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
165753 AATGAATGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 64 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:168191 original size:24 final size:24
Alignment explanation
Indices: 168157--168210 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
168147 CTGAAAAATC
*
168157 ATCAAAATCCGAGTATTGACCATG
1 ATCAAAATCCGAGTATTGACCAAG
* *
168181 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
168205 ATCAAA
1 ATCAAA
168211 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:169552 original size:32 final size:31
Alignment explanation
Indices: 169501--169561 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
169491 TTTTTAAATA
** *
169501 ATTATAAAATGTTTATTAAAATTTATCAAACT
1 ATTATAAAATAATTATT-AAACTTATCAAACT
*
169533 ATTATAAAATAATTCTTAAACTTATCAAA
1 ATTATAAAATAATTATTAAACTTATCAAA
169562 ATTTATGGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (31 bp):
ATTATAAAATAATTATTAAACTTATCAAACT
Found at i:171017 original size:31 final size:31
Alignment explanation
Indices: 170976--171058 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
170966 TAATTGTTAA
*
170976 AATTTTATAAATTTAATGATCATTTTATAAC
1 AATTTCATAAATTTAATGATCATTTTATAAC
* * * *
171007 AATTTGATAAATTTATATAATCGTTTTATAAT
1 AATTTCATAAATTTA-ATGATCATTTTATAAC
* *
171039 AACTCCATAAATTTAATGAT
1 AATTTCATAAATTTAATGAT
171059 TTTTAAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 18 0.42
32 25 0.58
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (31 bp):
AATTTCATAAATTTAATGATCATTTTATAAC
Found at i:178950 original size:6 final size:6
Alignment explanation
Indices: 178939--178963 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
178929 ATTTTATCGA
178939 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
178964 ATAATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:183222 original size:3 final size:3
Alignment explanation
Indices: 183214--183240 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
183204 TTTTATTTCA
183214 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
183241 CGGCGGCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:187392 original size:2 final size:2
Alignment explanation
Indices: 187385--187416 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
187375 ACCCAAAGAA
187385 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
187417 TGGATGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192786 original size:18 final size:19
Alignment explanation
Indices: 192763--192802 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
192753 TTAAGCATTG
*
192763 AATTTTAAT-TTGTATATC
1 AATTTTAATATTGTAGATC
*
192781 AATTTTATTATTGTAGATC
1 AATTTTAATATTGTAGATC
192800 AAT
1 AAT
192803 CGTCATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (19 bp):
AATTTTAATATTGTAGATC
Found at i:193850 original size:12 final size:12
Alignment explanation
Indices: 193833--193868 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
193823 ATAAAGGAAT
193833 CATACATACATG
1 CATACATACATG
* *
193845 CATACATGCATT
1 CATACATACATG
193857 CATACATACATG
1 CATACATACATG
193869 TTTGTAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (12 bp):
CATACATACATG
Done.