Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007766.1 Hibiscus syriacus cultivar Beakdansim tig00110038_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: 442891
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:119 original size:19 final size:20
Alignment explanation
Indices: 95--133 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
85 CATAGAAGAA
*
95 AAATTGAATTTCAAA-AAAT
1 AAATTGAATCTCAAATAAAT
114 AAATTGAATCTCAAATAAAT
1 AAATTGAATCTCAAATAAAT
134 TGAACTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (20 bp):
AAATTGAATCTCAAATAAAT
Found at i:465 original size:1 final size:1
Alignment explanation
Indices: 459--513 Score: 92
Period size: 1 Copynumber: 55.0 Consensus size: 1
449 CTTGACCTTC
* *
459 TTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
514 CTTTCTTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (1 bp):
T
Found at i:474 original size:10 final size:10
Alignment explanation
Indices: 456--522 Score: 82
Period size: 10 Copynumber: 6.7 Consensus size: 10
446 CACCTTGACC
456 TTCTTTTTTT
1 TTCTTTTTTT
466 CTT-TTTTTTT
1 -TTCTTTTTTT
*
476 TTTTTTTTTT
1 TTCTTTTTTT
*
486 TTTTTTTTTT
1 TTCTTTTTTT
*
496 TTTTTTTTTT
1 TTCTTTTTTT
*
506 TTCTTTTTCT
1 TTCTTTTTTT
516 TTCTTTT
1 TTCTTTT
523 CTTCAAGCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
9 2 0.04
10 49 0.92
11 2 0.04
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:479 original size:15 final size:15
Alignment explanation
Indices: 459--525 Score: 95
Period size: 14 Copynumber: 4.7 Consensus size: 15
449 CTTGACCTTC
459 TTTTTTTC-TTTTTT
1 TTTTTTTCTTTTTTT
473 TTTTTTT-TTTTTTT
1 TTTTTTTCTTTTTTT
487 TTTTTTT-TTTTTTT
1 TTTTTTTCTTTTTTT
*
501 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTTT
*
516 TTCTTTTCTT
1 TTTTTTTCTT
526 CAAGCATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
14 34 0.69
15 15 0.31
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTTTTCTTTTTTT
Found at i:13277 original size:3 final size:3
Alignment explanation
Indices: 13269--13333 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
13259 AATATATATT
*
13269 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13317 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
13334 TGGGTAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13635 original size:19 final size:19
Alignment explanation
Indices: 13583--13627 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
13573 ACATGGATAG
*
13583 AATGCAATGCGAAAAGTAA
1 AATGCAATGCGAAAAATAA
13602 AATGCAATGCGAAAAATAA
1 AATGCAATGCGAAAAATAA
13621 AATGCAA
1 AATGCAA
13628 ATGCAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.11, G:0.18, T:0.16
Consensus pattern (19 bp):
AATGCAATGCGAAAAATAA
Found at i:18166 original size:15 final size:15
Alignment explanation
Indices: 18146--18174 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18136 AAAAAAAGTT
18146 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
18161 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
18175 CGGTTGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:18465 original size:19 final size:18
Alignment explanation
Indices: 18441--18476 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
18431 TAAAACTACC
*
18441 CACAAACAATGCATGCAAG
1 CACAAAAAATGCA-GCAAG
18460 CACAAAAAATGCAGCAA
1 CACAAAAAATGCAGCAA
18477 ACGTAATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.25, G:0.14, T:0.08
Consensus pattern (18 bp):
CACAAAAAATGCAGCAAG
Found at i:21562 original size:2 final size:2
Alignment explanation
Indices: 21546--21594 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
21536 ACTAACAATA
*
21546 AT AT -T AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21586 AT AT AT AT A
1 AT AT AT AT A
21595 GACACATGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23094 original size:41 final size:41
Alignment explanation
Indices: 23049--23151 Score: 100
Period size: 41 Copynumber: 2.5 Consensus size: 41
23039 AAGGTTTTAT
*
23049 AGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTGAC
1 AGATGGCCCGAAGGACTTATCATCATGCTTAAAAGACTGAC
* * * * * * *
23090 AGATGACCCG-AGAATTTAATCATCATGTTTGAAAGACTTAT
1 AGATGGCCCGAAGGACTT-ATCATCATGCTTAAAAGACTGAC
* *
23131 TGATGGCCCAAAGGACTTATC
1 AGATGGCCCGAAGGACTTATC
23152 CATTTTGGAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
40 5 0.11
41 37 0.79
42 5 0.11
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (41 bp):
AGATGGCCCGAAGGACTTATCATCATGCTTAAAAGACTGAC
Found at i:23546 original size:259 final size:256
Alignment explanation
Indices: 22962--24313 Score: 1544
Period size: 259 Copynumber: 5.2 Consensus size: 256
22952 TTTTTCTTTA
** ** * *
22962 AAAAATATTTTAAATGAGAAACTTTGAAAAT-TGTCTTCTCATTTTCTTACAAACACCATATGAA
1 AAAAATA--TTAAATGAGAAACTTTGAAAATCACT-TTCTCATTTT-TTTGAAA-ATCATGTGAA
* * * * *
23026 AGCATCTTGCCTGAAGGTTTTATAGATGGCCCGAAGGACTTATCATCTTGCTTAAAAGACTGACA
61 AACATCATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACA
* ** * * *
23091 GATGACCCGAGA-ATTTAATCATCATGTTTGAAAGACTTATTGATGGCCCAAAGGACTTATCC-A
126 GATGACCCGAAAGATTTAATCATCATG-CCGAAAGGCTTACTGATGGCCCGAAGGACTTA-CCAA
* * * * * * *
23154 TTTTGGAAATAGTCTACTGGGTATGAAACATTGGAAATCACTTTCATGCTTTTCAAAGATTTCAT
189 TTTTGGAAATAGTCTA-TTGGTAAGAAAC-TTTGAAATCATTTTCTTACTTTTCAAAAATTTCAT
23219 TTTCT
252 TTTCT
* * * * * *
23224 AAAAATATTAAGTGAGAGACTATGGAAATAACTTTCTCATTTTTTCGAAAATCATGTGAAAACAT
1 AAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTGAAAACAT
* * * * * *
23289 CATGCCCGAAGGTCTTATAGATGGTCTGAAGTACTTATCATCTTGCTCGAAAGAATGACAGGTGA
66 CATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGA
* * * * * *
23354 CACGAAGGAATTAATCATCATGCCGAAAGGCTTACTCATGGCCCGAATGACTTACCAATTTTTGA
131 CCCGAAAGATTTAATCATCATGCCGAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
* * * *
23419 AATTGTCTATTGTGTAAGAAACTGTTGAAATCGTTTTCTTACTTTTCAAAAAATTAATTTTCT
196 AATAGTCTATTG-GTAAGAAACT-TTGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCT
* * * * * * **
23482 AAAAAATATTAAGTGGGAAACTTTGGAAATCATTTTCTCAGTTTTTAGAATTTCATGTGAAAACA
1 -AAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTGAAAACA
* * * * *
23547 TCCTGCCCGAAGGTCTTATAGATGGCCCGAAGAACTTATCATCTTGCTCGAAAGGCTGACAAATG
65 TCATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATG
* * * * *
23612 TCTCGAAAGATTTAATCATCATGCTCGAAAGGCTTACTGATGGCCCGAATGACTTATCAATTTCG
130 ACCCGAAAGATTTAATCATCATGC-CGAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTG
* * * *
23677 TAAATAGTCTACATGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAATTTTCGTTTTCT
194 GAAATAGTCTA-TTGGTAAGAAACTTT-GAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCT
* * ** *
23742 GAAAATACTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTTTAAAATCATGTGAAAACAT
1 AAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTGAAAACAT
* * *
23807 CATTCCCGAAGGTCTTATAGATGGCCCGAATGACTTATCATCTTGCTCAAAAGACTAACAGATGA
66 CATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGA
* *
23872 CCCAAAAGATTTAATCATCATGCTCAAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTGG
131 CCCGAAAGATTTAATCATCATGC-CGAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTGG
*
23937 AAATAGTCTATTGAGTAAGAAACTTTGGAAATCATTTTCTTACTTTCCAAAAATTTCATTTTCT
195 AAATAGTCTATTG-GTAAGAAACTTT-GAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCT
* * * *
24001 TAAAATAATAAATGAAAAACTTTGAAAATCACTTTCTCCTTTTTTTGAAAATCATGTGAAAACAT
1 AAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTGAAAACAT
* * *
24066 CATGCCCAAAGATCTTATAGATGGTCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGA
66 CATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGA
* ** * * **
24131 CCCGAAGGATTTAATCATCATGTTGGAAAGACTTTCTGATGGCCCGAAGGACTTAAAAATTTTGG
131 CCCGAAAGATTTAATCATCATG-CCGAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTGG
* * * * * *
24196 AAATAGTTTACTAGGTAAGAAACCTTGGGAATCACTTTCTTACTTTTGAAAAATTTCATTTTCT
195 AAATAGTCTA-TTGGTAAGAAA-CTTTGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCT
* * *
24260 AAAAATACTAAATGAGAAAACTTTGAAAAGT-GCTTTTTCATTTTTTT-AAAATCA
1 AAAAATATTAAATGAG-AAACTTTGAAAA-TCACTTTCTCATTTTTTTGAAAATCA
24314 CGTGTGTAGA
Statistics
Matches: 930, Mismatches: 145, Indels: 33
0.84 0.13 0.03
Matches are distributed among these distances:
257 5 0.01
258 152 0.16
259 617 0.66
260 145 0.16
261 4 0.00
262 7 0.01
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (256 bp):
AAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTTGAAAATCATGTGAAAACAT
CATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGA
CCCGAAAGATTTAATCATCATGCCGAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTGGA
AATAGTCTATTGGTAAGAAACTTTGAAATCATTTTCTTACTTTTCAAAAATTTCATTTTCT
Found at i:23870 original size:41 final size:41
Alignment explanation
Indices: 23825--23926 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
23815 AAGGTCTTAT
* *
23825 AGATGGCCCGAATGACTTATCATCTTGCTCAAAAGACTAAC
1 AGATGGCCCGAAAGACTTATCATCATGCTCAAAAGACTAAC
* * * * *
23866 AGATGACCCAAAAGATTTAATCATCATGCTCAAAAGGCTTAC
1 AGATGGCCCGAAAGACTT-ATCATCATGCTCAAAAGACTAAC
* *
23908 TGATGGCCCGAAGGACTTA
1 AGATGGCCCGAAAGACTTA
23927 CCAATTTTGG
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (41 bp):
AGATGGCCCGAAAGACTTATCATCATGCTCAAAAGACTAAC
Found at i:24129 original size:41 final size:41
Alignment explanation
Indices: 24084--24185 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 41
24074 AAGATCTTAT
* *
24084 AGATGGTCCGAAGGACTTATCATCTTGCTCAAAAGACTGAC
1 AGATGGCCCGAAGGACTTATCATCATGCTCAAAAGACTGAC
* * * ** **
24125 AGATGACCCGAAGGATTTAATCATCATGTTGGAAAGACTTTC
1 AGATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGACTGAC
*
24167 TGATGGCCCGAAGGACTTA
1 AGATGGCCCGAAGGACTTA
24186 AAAATTTTGG
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (41 bp):
AGATGGCCCGAAGGACTTATCATCATGCTCAAAAGACTGAC
Found at i:24370 original size:3 final size:3
Alignment explanation
Indices: 24356--24424 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
24346 ATATTCATTT
* * *
24356 TTA TTT TTA TTA TTA TTA TTA TTA CTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
24404 TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA
24425 CAGGCCCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:29083 original size:14 final size:15
Alignment explanation
Indices: 29045--29083 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29035 TTGCATTTTC
29045 ATTTTGCATTGCACA
1 ATTTTGCATTGCACA
*
29060 ATTTTACATTGC-CA
1 ATTTTGCATTGCACA
*
29074 TTTTTGCATT
1 ATTTTGCATT
29084 TTTCGCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (15 bp):
ATTTTGCATTGCACA
Found at i:33703 original size:54 final size:54
Alignment explanation
Indices: 33629--33770 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 54
33619 TGTGTAGAAA
* * *
33629 CCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAGAAG
1 CCACAAGAAAGGATAAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
* * *
33683 CCGCAAGATAGGATAAATGTGTTGTCAAATGTTTTACGAACATCTGTGCAAAAG
1 CCACAAGAAAGGATAAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
** * *
33737 CCACTGGAAAGGATAAATATGTTGTCAAGTGTTT
1 CCACAAGAAAGGATAAATGTGTTGTCAAATGTTT
33771 CATGAACCAG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (54 bp):
CCACAAGAAAGGATAAATGTGTTGTCAAATGTTTTACGAACATCTGGGCAAAAG
Found at i:35223 original size:222 final size:221
Alignment explanation
Indices: 34838--35518 Score: 1009
Period size: 222 Copynumber: 3.1 Consensus size: 221
34828 AAGTCCTCCC
* * *
34838 GGCCATCCATAAGACCTC-CGGGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAGCTTTTCAT
1 GGCCATCCATAAGACCTCTAGTGCA-GATGTTTTCAAATGAGATTTTAGAAACTAAGCTTTTCAG
* *
34902 GGGTTTCTTAATTATCTC-AAAGAGTTGTGAAAGGAAGCTAAGCCTTTTAAGGGGTTCCTTAACA
65 GGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTAAGGGGTTCCTTGACA
*
34966 ACCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCATCCGGTTCATCTGTAAT
130 ACCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGTTCATCTGTAAT
** *
35031 CATTCTAAGGAAGATGATAAGACCTCTG
195 C-TTCCGAGCAAGATGATAAGACCTCTG
*
35059 GGCCATCCATAAGACCTCTAGTGCAGATTTTTTCAAATGAGATTTTAGAAACTAAGCTTTTCAGG
1 GGCCATCCATAAGACCTCTAGTGCAGATGTTTTCAAATGAGATTTTAGAAACTAAGCTTTTCAGG
* * *
35124 GGATTATTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTAAGGGGCTCCTTGACAA
66 GGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTAAGGGGTTCCTTGACAA
*
35189 CCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCTGG-TCATCTATAAG
131 CCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCC-GGTTCATCTGTAA-
*
35253 CCTTCCGAGCAAGATGATAAGACCT-TCG
194 TCTTCCGAGCAAGATGATAAGACCTCT-G
* * *
35281 GGCAATCCCTAAGACCTCTAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAGGTTTT-AG
1 GGCCATCCATAAGACCTCTAGTGC-AGATGTTTTCAAATGAGATTTTAGAAACTAAGCTTTTCAG
35345 GGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTAAGGGGTTCCTTGACA
65 GGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTAAGGGGTTCCTTGACA
* * * *
35410 ACCAAGAAACTAAGTTTTATTTTCAAGGG-TTCTTGATATTTAAATCCTCTGGTT-ATCTGTAAG
130 ACCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGTTCATCTGTAA-
*
35473 TCTTCCGAGCAAGATGATAAGTCCTCCT-
194 TCTTCCGAGCAAGATGATAAGACCT-CTG
* *
35501 GGCTATTCATAAGACCTC
1 GGCCATCCATAAGACCTC
35519 CAGGTAGAAT
Statistics
Matches: 419, Mismatches: 32, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
220 48 0.11
221 92 0.22
222 241 0.58
223 38 0.09
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (221 bp):
GGCCATCCATAAGACCTCTAGTGCAGATGTTTTCAAATGAGATTTTAGAAACTAAGCTTTTCAGG
GGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTAAGGGGTTCCTTGACAA
CCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGTTCATCTGTAATC
TTCCGAGCAAGATGATAAGACCTCTG
Found at i:36258 original size:223 final size:223
Alignment explanation
Indices: 35858--36628 Score: 1188
Period size: 223 Copynumber: 3.5 Consensus size: 223
35848 TTCAACCTTT
* * * *
35858 GCTTGATTCATCAAGGGTTTCTTGATGTTTAAATCCTCCAGGTCATCTATAAGCCTCCTGAGCAA
1 GCTTGATT-TTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCTTCTGAGCAA
* **
35923 GATGATAAAACCTCCGGGCCATCCATAAGACCTCCAGTGCGGGATGTTTTCAAATGAGATTTTAG
65 GATGATAAGACCTCCGGGCCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAG
* * *
35988 AAATTAAGCTTTTCA-GGGTTTACTTAATTATCTCAAAAGAATTGTTAAAGGAAGCTAAGCCTTT
130 AAACTAAGATTTTCAGGGGTTT-CTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTT
* *
36052 TAAGGTGTTCCTTGACAACTAAGAAACTAA
194 TAAGGGGTTCCTTGACAACCAAGAAACTAA
*
36082 GCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAACCTTCTGAGCAAG
1 GCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCTTCTGAGCAAG
** *
36147 ATGATAAGACCTCCAAGCCTTCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGA
66 ATGATAAGACCTCCGGGCCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGA
36212 AACTAAGATTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTA
131 AACTAAGATTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTA
*
36277 AGGGGTTCCTTGACAACCAATAAACTAA
196 AGGGGTTCCTTGACAACCAAGAAACTAA
* * *
36305 GCTTGATTTTCAAGGGTTTGTTGATGTTTAAATCCTCTGGGTCATCTGTAAGCATTCCT-AGCAA
1 GCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCTT-CTGAGCAA
* *
36369 GATGATAAGACCTCCGGGCCATCCATAAGACCTTCAGTGCATGATGTTTTCAAATGTGATTTTAG
65 GATGATAAGACCTCCGGGCCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAG
* * *
36434 AAACTAAGATTTTTAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGTTGAGCCTTTT
130 AAACTAAGATTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCC-TTT
36499 TAAGGGGTT-CTTGACAACCAAGAAACTAA
194 TAAGGGGTTCCTTGACAACCAAGAAACTAA
* * * * *
36528 GTTTTATTTTCAAGGGTTTCTTGATATTTAAATCCTCCGGGTCATCTGTAAGTCTTCCGAGCAAG
1 GCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCTTCTGAGCAAG
* * *
36593 ATGATAAGTCCTTCGGGCCATTCATAAGACCTCCAG
66 ATGATAAGACCTCCGGGCCATCCATAAGACCTCCAG
36629 GCAGAATATT
Statistics
Matches: 501, Mismatches: 42, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
222 1 0.00
223 472 0.94
224 28 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (223 bp):
GCTTGATTTTCAAGGGTTTCTTGATGTTTAAATCCTCCGGGTCATCTGTAAGCCTTCTGAGCAAG
ATGATAAGACCTCCGGGCCATCCATAAGACCTCCAGTGCATGATGTTTTCAAATGAGATTTTAGA
AACTAAGATTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTTA
AGGGGTTCCTTGACAACCAAGAAACTAA
Found at i:37148 original size:3 final size:3
Alignment explanation
Indices: 37140--37202 Score: 81
Period size: 3 Copynumber: 21.0 Consensus size: 3
37130 TGATTATACG
* * * *
37140 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TAA TAA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
37188 GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
37203 ATTAATTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:37922 original size:23 final size:25
Alignment explanation
Indices: 37876--37924 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
37866 TTAATTTCAA
37876 TATTTTAAGTTATTAATTTAATTTT
1 TATTTTAAGTTATTAATTTAATTTT
* *
37901 TATTTT-A-TTATTATTTTCATTTT
1 TATTTTAAGTTATTAATTTAATTTT
37924 T
1 T
37925 GTCATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 1 0.05
25 6 0.27
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
TATTTTAAGTTATTAATTTAATTTT
Found at i:49065 original size:2 final size:2
Alignment explanation
Indices: 49054--49086 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
49044 ACTAACAATA
*
49054 AT AT -T AT AT AT AC 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
49087 TGTATAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58517 original size:7 final size:6
Alignment explanation
Indices: 58488--58521 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
58478 ACTAAGTAAT
*
58488 AAAATA AGAATA AAAATA AAAATA ATAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAA
58522 CTATCCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:61247 original size:3 final size:3
Alignment explanation
Indices: 61241--61286 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
61231 ATTATTTATT
* *
61241 TAA TAA TAG TAA -AA -AA TAA TAA TAT TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61286 T
1 T
61287 TAAAAACTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:61632 original size:123 final size:123
Alignment explanation
Indices: 61413--61912 Score: 835
Period size: 123 Copynumber: 4.1 Consensus size: 123
61403 GATTAAGACA
* * * *
61413 GAAATGTTGATGTTGCTCTATCTCCTTCTGCAATAAAGTCAAACAAAAGGTTGAATAAGTTCTTC
1 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
* *
61478 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAATTCCTTTTG
66 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTG
** * *
61536 GAAATGACGATGCTGCTCTATCTCCTTCTGTGATAGAGTCAAGCAAAAGGTTGAATAAGTTCATC
1 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
61601 AGATTATGAACTTCTTCTTCCTCTTCAGATGAG---TTCTTATTACGAACTCCTTCTG
66 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTG
61656 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
1 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
61721 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTG
66 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTG
* *
61779 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAATCATGCAAAAGGTTGAATAAGTTCTTC
1 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
* * * *
61844 ATATTATAAACTTCTTCTTCCTCTTCAGATGAGTTTTTCTTATTACGAACTCTTTCTG
66 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTG
61902 GAAATGTTGAT
1 GAAATGTTGAT
61913 CCATCGAGTG
Statistics
Matches: 354, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
120 114 0.32
123 240 0.68
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (123 bp):
GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTG
Found at i:61858 original size:243 final size:244
Alignment explanation
Indices: 61413--61912 Score: 840
Period size: 243 Copynumber: 2.0 Consensus size: 244
61403 GATTAAGACA
*
61413 GAAATGTTGATGTTGCTCTATCTCCTTCTGCAATAAAGTCAAACAAAAGGTTGAATAAGTTCTTC
1 GAAATGTTGATGCTGCTCTATCTCCTTCTGCAATAAAGTCAAACAAAAGGTTGAATAAGTTCTTC
* *
61478 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAATTCCTTTTGGAAATGA
66 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGAAATGA
* *
61543 CGATGCTGCTCTATCTCCTTCTGTGATAGAGTCAAGCAAAAGGTTGAATAAGTTCATCAGATTAT
131 CGATGCTGCTCTATCTCCTTCTGCGATAGAATCAAGCAAAAGGTTGAATAAGTTCATCAGATTAT
*
61608 GAACTTCTTCTTCCTCTTCAGATGAG-TTCTTATTACGAACTCCTTCTG
196 AAACTTCTTCTTCCTCTTCAGATGAGTTTCTTATTACGAACTCCTTCTG
* * *
61656 GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCTTC
1 GAAATGTTGATGCTGCTCTATCTCCTTCTGCAATAAAGTCAAACAAAAGGTTGAATAAGTTCTTC
*
61721 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGAAATGT
66 AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGAAATGA
* * * *
61786 TGATGCTGCTCTATCTCCTTCTGCGATAGAATCATGCAAAAGGTTGAATAAGTTCTTCATATTAT
131 CGATGCTGCTCTATCTCCTTCTGCGATAGAATCAAGCAAAAGGTTGAATAAGTTCATCAGATTAT
*
61851 AAACTTCTTCTTCCTCTTCAGATGAGTTTTTCTTATTACGAACTCTTTCTG
196 AAACTTCTTCTTCCTCTTCAGATGAG--TTTCTTATTACGAACTCCTTCTG
61902 GAAATGTTGAT
1 GAAATGTTGAT
61913 CCATCGAGTG
Statistics
Matches: 239, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
243 207 0.87
246 32 0.13
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (244 bp):
GAAATGTTGATGCTGCTCTATCTCCTTCTGCAATAAAGTCAAACAAAAGGTTGAATAAGTTCTTC
AGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTGGAAATGA
CGATGCTGCTCTATCTCCTTCTGCGATAGAATCAAGCAAAAGGTTGAATAAGTTCATCAGATTAT
AAACTTCTTCTTCCTCTTCAGATGAGTTTCTTATTACGAACTCCTTCTG
Found at i:72812 original size:16 final size:17
Alignment explanation
Indices: 72791--72822 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
72781 TTTAAAAATA
72791 AATAAATAT-TATTTTC
1 AATAAATATATATTTTC
72807 AATAAATATATATTTT
1 AATAAATATATATTTT
72823 TATATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATAAATATATATTTTC
Found at i:72904 original size:23 final size:22
Alignment explanation
Indices: 72853--72905 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
72843 ATACTTAATT
*
72853 TAAAAAATTTAAATAAAAATAA
1 TAAAAATTTTAAATAAAAATAA
* *
72875 TATAAAATTTTAATTAAAAAGTGA
1 TA-AAAATTTTAAATAAAAA-TAA
72899 TAAAAAT
1 TAAAAAT
72906 AAAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.08
23 20 0.77
24 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
TAAAAATTTTAAATAAAAATAA
Found at i:81461 original size:132 final size:130
Alignment explanation
Indices: 81026--81474 Score: 415
Period size: 132 Copynumber: 3.4 Consensus size: 130
81016 AGAGTGGTGG
* * * * *
81026 AGTGAATCAAATTTCTTTAAAGATCTGGTTTTCCCTAAAGAGTAA-TGGAGCATATCCTCTTTTT
1 AGTGAATCAAAATT-TTT-AAGATCT-GATTACCCTAAA-A--AAGTGGAGCAAATCCTC-TTTC
* * * *
81090 TTTTAGATTTGGTCTTGCTGAAGAGCAACGAAGTAAATCAAGTT-TGATTCAATCTTCCTTGAAG
59 TTTTAGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCT-ATTCAATCTTCCCTGAAG
* *
81154 AGAAGCAA
123 AGCAGCGA
* * * * ** * *
81162 AGTGAATCAGTAATTTTCAAGATCTGAATACCC-GAAAAAGTGGAATATATTCT-TTTCCTTTTA
1 AGTGAATCA-AAATTTTTAAGATCTGATTACCCTAAAAAAGTGGAGCAAATCCTCTTT-CTTTTA
* * * *
81225 GATTTGGTCTTCCTGAAGAGTAGCGAAGCAAATCACGTTCGATTCAATCTTCCCTGAAGAGCAAC
64 GATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCTATTCAATCTTCCCTGAAGAGCAGC
81290 GA
129 GA
* ** * * * * *
81292 AGTGGATCAAAATTTACAA-TTTTGATCTCCCCTAAAAAGTAGTGGAGCAAATCCTCCTTCTTTC
1 AGTGAATCAAAATTTTTAAGATCTGAT-TACCCTAAAAA--AGTGGAGCAAATCCTCTTTCTTTT
* * *
81356 AGATTTGGTATTCCTTAAGAGCAGTGAAGCAAATCAAGTTCTATTCAATCTTCCCTGAAGAGCAG
63 AGATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCTATTCAATCTTCCCTGAAGAGCAG
*
81421 TGA
128 CGA
81424 AGTGAATCAAAATTTTTAGAGATCTGATTACCC-AAAAAAGTGGAGCAAATC
1 AGTGAATCAAAATTTTTA-AGATCTGATTACCCTAAAAAAGTGGAGCAAATC
81475 AAGTCTAACC
Statistics
Matches: 253, Mismatches: 49, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
128 4 0.02
129 15 0.06
130 88 0.35
131 10 0.04
132 96 0.38
133 9 0.04
134 10 0.04
135 7 0.03
136 11 0.04
137 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (130 bp):
AGTGAATCAAAATTTTTAAGATCTGATTACCCTAAAAAAGTGGAGCAAATCCTCTTTCTTTTAGA
TTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCTATTCAATCTTCCCTGAAGAGCAGCGA
Found at i:83764 original size:2 final size:2
Alignment explanation
Indices: 83757--83797 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
83747 TAAATCTTAC
83757 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83798 TTTAAGTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:83845 original size:2 final size:2
Alignment explanation
Indices: 83838--83868 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
83828 CATATGTGCG
83838 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83869 TAATTGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85564 original size:2 final size:2
Alignment explanation
Indices: 85559--85611 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
85549 ACACACATAG
85559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85601 -T AT A- AT AT AT A
1 AT AT AT AT AT AT A
85612 GTCAATAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85938 original size:2 final size:2
Alignment explanation
Indices: 85933--85982 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
85923 TTTTTTTTCC
* * *
85933 AT AT AT TT AT AT AT AT AT AT AT AT AC AT AT -T AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
85974 -T AC AT AT AT
1 AT AT AT AT AT
85983 GTTATCATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87207 original size:64 final size:63
Alignment explanation
Indices: 87044--87233 Score: 362
Period size: 63 Copynumber: 3.0 Consensus size: 63
87034 TTGCTAAAAG
87044 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTT-AAAAAACATTTAATTTGGTCCCCAAATCGGTT
*
87108 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGTTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
87171 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
87234 TAGTTCCCTT
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
63 93 0.75
64 31 0.25
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (63 bp):
GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTTAATTTGGTCCCCAAATCGGTT
Found at i:91023 original size:2 final size:2
Alignment explanation
Indices: 91016--91045 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91006 AATATTCAGA
91016 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
91046 GTGTGTGTGT
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:91977 original size:12 final size:14
Alignment explanation
Indices: 91957--91988 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
91947 AAGTACAATA
91957 AAAAGTTA-TTTTT
1 AAAAGTTATTTTTT
91970 AAAA-TTATTTTTT
1 AAAAGTTATTTTTT
91983 AAAAGT
1 AAAAGT
91989 GCAGTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 13 0.76
14 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
AAAAGTTATTTTTT
Found at i:92675 original size:16 final size:16
Alignment explanation
Indices: 92654--92711 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
92644 ATCATGCTAC
92654 TTCATTTAAGCATG-A
1 TTCATTTAAGCATGCA
*
92669 GTTCATTAAAGCATGCA
1 -TTCATTTAAGCATGCA
*
92686 TTGCATTTAAGCATGTA
1 TT-CATTTAAGCATGCA
92703 TTTCATTTA
1 -TTCATTTA
92712 GGGAAGTAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 15 0.42
17 19 0.53
18 2 0.06
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (16 bp):
TTCATTTAAGCATGCA
Found at i:92738 original size:17 final size:17
Alignment explanation
Indices: 92718--92776 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
92708 TTTAGGGAAG
92718 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
92735 TAG-TCATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
92751 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
92768 TAGTTCATT
1 TAGTTCATT
92777 GGATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:92808 original size:17 final size:17
Alignment explanation
Indices: 92786--92834 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
92776 TGGATAAAGT
*
92786 TGGTTCATTAATTAAAC
1 TGGTTCATTTATTAAAC
*
92803 TGGTTCATTTATCAAAC
1 TGGTTCATTTATTAAAC
**
92820 TACTTCATTTATTAA
1 TGGTTCATTTATTAA
92835 TATATCTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (17 bp):
TGGTTCATTTATTAAAC
Found at i:94188 original size:10 final size:9
Alignment explanation
Indices: 94154--94187 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
94144 CCAGGTTAGT
*
94154 AAAAAATTA
1 AAAAAAATA
*
94163 ATAAAAATA
1 AAAAAAATA
94172 AAAAAAATA
1 AAAAAAATA
94181 AAAAAAA
1 AAAAAAA
94188 AAGTTTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAAAAATA
Found at i:96224 original size:18 final size:18
Alignment explanation
Indices: 96138--96245 Score: 61
Period size: 17 Copynumber: 6.3 Consensus size: 18
96128 AATCATGTAT
* *
96138 TTCATTT-AGGAAAGTAG
1 TTCATTTAATGAAATTAG
*
96155 TTCATTT-ATG-CATCTAG
1 TTCATTTAATGAAAT-TAG
* *
96172 -TCATTTAAT-AAAATAC
1 TTCATTTAATGAAATTAG
* **
96188 TTCATTCAA-GCCATTAG
1 TTCATTTAATGAAATTAG
96205 TTCATTTAAT-AAAGTTAG
1 TTCATTTAATGAAA-TTAG
*
96223 TTCA-TTAATGAAATTGG
1 TTCATTTAATGAAATTAG
96240 TTCATT
1 TTCATT
96246 CATTAAACTA
Statistics
Matches: 67, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
16 9 0.13
17 46 0.69
18 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TTCATTTAATGAAATTAG
Found at i:99568 original size:17 final size:16
Alignment explanation
Indices: 99525--99582 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 16
99515 ATCATGCTAC
99525 TTCATTTAAGCATGAG
1 TTCATTTAAGCATGAG
* *
99541 TTCATTAAAGCATGCG
1 TTCATTTAAGCATGAG
*
99557 TTGCATTTAAGCATGTAT
1 TT-CATTTAAGCATG-AG
99575 TTCATTTA
1 TTCATTTA
99583 GGGAAGTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 16 0.46
17 17 0.49
18 2 0.06
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (16 bp):
TTCATTTAAGCATGAG
Found at i:100080 original size:5 final size:5
Alignment explanation
Indices: 100063--100137 Score: 50
Period size: 5 Copynumber: 15.4 Consensus size: 5
100053 TAGATATAAA
* * * * **
100063 AAAAT AAAA- AAAAT AAAAA ATAAAT -AAAT -AAAT TAATT CAACC AAAAT
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAAT
100111 AAAA- AGAAAT AAAAT AAAAT AAAAT AA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AA
100138 TAAATAAATG
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 13 0.23
5 39 0.70
6 4 0.07
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:100195 original size:21 final size:21
Alignment explanation
Indices: 100171--100219 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
100161 AAAATGATAG
100171 TAAATAATAGTATAAATA-AAA
1 TAAATAA-AGTATAAATATAAA
* *
100192 TAAA-AAGGTATATATATAAA
1 TAAATAAAGTATAAATATAAA
100212 TAAATAAA
1 TAAATAAA
100220 ATACACATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.35
20 9 0.39
21 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
TAAATAAAGTATAAATATAAA
Found at i:100913 original size:35 final size:36
Alignment explanation
Indices: 100842--100941 Score: 130
Period size: 35 Copynumber: 2.8 Consensus size: 36
100832 GTGCTTGTGG
* * *
100842 ATCCTATTTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
100879 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
*
100914 ATCCTATTTTTGAGAGTTTGAATCCTAG
1 ATCCTATTTTAG-GAGTTTGAATCCTAG
100942 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.48
36 12 0.21
37 17 0.30
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:102043 original size:98 final size:98
Alignment explanation
Indices: 101893--102372 Score: 451
Period size: 105 Copynumber: 4.8 Consensus size: 98
101883 TGTTGATAAC
* * *
101893 CAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTATCTCGAGTCCAATATCCTTCGATGTGAAG
1 CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
* *
101958 TTGAGATTGGCTCCGAAATTGCTTGTCGACAGT
66 TTGAAATTGGCTCCGAAATTGATTGTCGACAGT
* * * *
101991 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCAATATCCTTCGCTGTGAAG
1 CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
* * **
102056 TTGAAATTGGC-CCTGAAACTGGGAAATTATTGTTGACAAC
66 TTGAAATTGGCTCC-GAAA-T------TGATTGTCGACAGT
* * * * * * * *
102096 CAGCCGTCCATTCGTTGTGAATTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGTTGTGAAG
1 CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
* * *
102161 TTGAGATTGGCTCCGAAATTGTTTGTCGATAGT
66 TTGAAATTGGCTCCGAAATTGATTGTCGACAGT
* * * *
102194 CAGCCGCCCCTTCGCTGTGGAGTTGAGCTTGTGCTATCTTGGGTCCAATATCCTTCGCTGTGAAG
1 CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
* * * **
102259 TTAAAATTGGCCCTGGAACTGGGAAATT-ATTGTTGACAAC
66 TTGAAATTGG--CT----C--CGAAATTGATTGTCGACAGT
* * * * *
102299 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAG
1 CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
*
102364 TCGAAATTG
66 TTGAAATTG
102373 ACTCTAGCTA
Statistics
Matches: 304, Mismatches: 61, Indels: 27
0.78 0.16 0.07
Matches are distributed among these distances:
97 2 0.01
98 141 0.46
99 1 0.00
100 2 0.01
104 2 0.01
105 148 0.49
106 8 0.03
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (98 bp):
CAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTATCTCGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGGCTCCGAAATTGATTGTCGACAGT
Found at i:102145 original size:105 final size:105
Alignment explanation
Indices: 101402--102372 Score: 779
Period size: 109 Copynumber: 9.3 Consensus size: 105
101392 AATATTGTTC
* ** * ** * *
101402 CGAGTCCAATATCCTCCATTGTGAAGTTCAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATT-ATTGTTGACA
** *
101467 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
65 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * *
101508 CGAGTCTAATATCCTTCGCTGTGAAGATGAAATTGACTCTG-AAC---GAAA-TCTTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
* * ** * *
101568 TCAGCCGTCCCTTCATTGTGAAATTGAACTTGTGTTGTCT
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * **
101608 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT-TTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAA-CTGGGAAAT-TATTGTTGAC
** * *
101672 AACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 AACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * ** * *
101714 CGAGTGGCACGATATCCTCCG-TCGTGGAGTTGAAA-TCGCGGATGAAACT-GAAAAGTTGTTCG
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-CCTGAAACTGGGAAA-TTATT-G
* * ** *
101776 TTGACAACCAGTCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
59 TTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * * * * * *
101823 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCCCTGAAACTGGGAAATT-ATTGTT
* * * *
101887 GATAACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTATCT
61 GACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * ** *
101932 CGAGTCCAATATCCTTCGATGTGAAGTTGAGATTGGCTCC-GAAA-T------TGCTTGTCGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAACTGGGAAATTATTGTTGACA
** *
101989 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
65 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* *
102030 TGGGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
* * * * *
102095 CCAGCCGTCCATTCGTTGTGAATTTGAACTTGTGTTGTCT
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * * * *
102135 CGAGTTCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCC-GAAA-T-TG----T-TTGTCGATA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGC-CCTGAAACTGGGAAATTATTGTTGACA
** * * *
102192 GTCAGCCGCCCCTTCGCTGTGGAGTTGAGCTTGTGCTATCT
65 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
* * * *
102233 TGGGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGGAACTGGGAAATTATTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
* * * *
102298 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCT
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
*
102338 CGAGTCCAATATCCTTCGCTGTGAAGTCGAAATTG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
102373 ACTCTAGCTA
Statistics
Matches: 701, Mismatches: 127, Indels: 75
0.78 0.14 0.08
Matches are distributed among these distances:
97 4 0.01
98 151 0.22
99 4 0.01
100 81 0.12
101 3 0.00
102 4 0.01
103 1 0.00
104 2 0.00
105 155 0.22
106 113 0.16
107 9 0.01
108 9 0.01
109 157 0.22
110 8 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAA
CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCT
Found at i:102189 original size:203 final size:203
Alignment explanation
Indices: 101405--102372 Score: 1012
Period size: 203 Copynumber: 4.7 Consensus size: 203
101395 ATTGTTCCGA
* ** * * * **
101405 GTCCAATATCCTCCATTGTGAAGTTCAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATT-ATTGTTGACAACC
* * * * * *
101470 AGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGA
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * *
101535 TGAAATTGACTCTGAACGAAA-T-CTTGTTGACAATCAGCCGTCCCTTCATTGTGAAATTGAACT
130 TGAAATTGGCTC----CGAAATTGCTTGTCGACAATCAGCCGCCCCTTCACTGTGAAGTTGAACT
* *
101598 TGTGTTGTCTCGA
191 TGTGCTGTCTCGG
* * * **
101611 GTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGT-TTGTTGACAAC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAA-CTGGGAAAT-TATTGTTGACAAC
* * *
101675 CAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCG-TCGT
64 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT--C-CAATATCCTTCGCT-GT
* * * * * * * * *
101739 GGAGTTGAAATCGCGGATGAAACTGAAAAGTTG-TTCGTTGACAACCAGTCGTCCCTTCATTGTG
125 GAAGTTGAAAT--TGGCT----CCG-AAA-TTGCTT-GTCGACAATCAGCCGCCCCTTCACTGTG
*
101803 AAGTTGAACTTGTGTTGTCTCGG
181 AAGTTGAACTTGTGCTGTCTCGG
* * * * * * *
101826 GTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGAT
1 GT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGGAACTGGGAAATT-ATTGTTGAC
* * *
101890 AACCAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTATCTCGAGTCCAATATCCTTCGATGTG
61 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTG
* * * *
101955 AAGTTGAGATTGGCTCCGAAATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCT
126 AAGTTGAAATTGGCTCCGAAATTGCTTGTCGACAATCAGCCGCCCCTTCACTGTGAAGTTGAACT
*
102020 TGTGCTGTCTTGG
191 TGTGCTGTCTCGG
* *
102033 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTGTTGACAACCA
* * * *
102098 GCCGTCCATTCGTTGTGAATTTGAACTTGTGTTGTCTCGAGTTCAATATCCTTCGTTGTGAAGTT
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
* * * * * * *
102163 GAGATTGGCTCCGAAATTGTTTGTCGATAGTCAGCCGCCCCTTCGCTGTGGAGTTGAGCTTGTGC
131 GAAATTGGCTCCGAAATTGCTTGTCGACAATCAGCCGCCCCTTCACTGTGAAGTTGAACTTGTGC
* *
102228 TATCTTGG
196 TGTCTCGG
* *
102236 GTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCCCTGGAACTGGGAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTGTTGACAACCA
* *
102301 GCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTC
66 GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
102366 GAAATTG
131 GAAATTG
102373 ACTCTAGCTA
Statistics
Matches: 649, Mismatches: 87, Indels: 55
0.82 0.11 0.07
Matches are distributed among these distances:
203 268 0.41
204 39 0.06
205 2 0.00
206 82 0.13
207 52 0.08
208 8 0.01
209 22 0.03
211 3 0.00
212 3 0.00
213 3 0.00
214 3 0.00
215 71 0.11
216 3 0.00
217 9 0.01
218 81 0.12
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (203 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTGTTGACAACCA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
GAAATTGGCTCCGAAATTGCTTGTCGACAATCAGCCGCCCCTTCACTGTGAAGTTGAACTTGTGC
TGTCTCGG
Found at i:102922 original size:65 final size:65
Alignment explanation
Indices: 102818--102983 Score: 305
Period size: 65 Copynumber: 2.6 Consensus size: 65
102808 GACAAAATTT
102818 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
102883 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
102948 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
102984 TTGTTTCGAG
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:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:102989 original size:102 final size:102
Alignment explanation
Indices: 102883--103340 Score: 781
Period size: 102 Copynumber: 4.5 Consensus size: 102
102873 TCAATGTTTA
* *
102883 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
102948 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
102985 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
103050 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
103087 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTCCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
103152 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* *
103189 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
103254 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
103291 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
103341 CTATCTCAAG
Statistics
Matches: 333, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 333 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:102999 original size:37 final size:37
Alignment explanation
Indices: 102948--103358 Score: 242
Period size: 37 Copynumber: 11.9 Consensus size: 37
102938 TCAATGTTTA
* *
102948 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
102985 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
103021 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* *
103049 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
103087 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * **
103123 CATTTCAAGGGAAA-TGTTTC--------CAATGTTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* **
103151 ATGTTTCAAGAGAAACTGTCTCAATG-GAGACGGAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTT
* * *
103189 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
103225 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
103253 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
103291 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
103327 TGTTTCAAGGGAAACTATCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
103359 TGGTGAGCAC
Statistics
Matches: 278, Mismatches: 57, Indels: 78
0.67 0.14 0.19
Matches are distributed among these distances:
27 3 0.01
28 5 0.02
29 39 0.14
30 11 0.04
32 2 0.01
33 2 0.01
34 2 0.01
35 8 0.03
36 81 0.29
37 115 0.41
38 10 0.04
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:103073 original size:167 final size:169
Alignment explanation
Indices: 102783--103100 Score: 532
Period size: 167 Copynumber: 1.9 Consensus size: 169
102773 AAGATGATGC
*
102783 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
102848 GAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
102913 GAAA-TTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
131 AAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* * *
102951 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCGAGGGAAACTATCTCAAGAGAGAT
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
* *
103015 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
66 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
**
103080 AAAATTTTGTTTCAAGGGAAA
131 AAAATTTCATTTCAAGGGAAA
103101 CTATCTCAAG
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 117 0.84
168 22 0.16
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (169 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:103586 original size:8 final size:8
Alignment explanation
Indices: 103569--103611 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
103559 CTCTTTTTTC
103569 TTTG-TTT
1 TTTGCTTT
103576 TTTGCTTT
1 TTTGCTTT
103584 TTTGCTTT
1 TTTGCTTT
103592 TTTGCTTCT
1 TTTGCTT-T
103601 TTT-CTTT
1 TTTGCTTT
103608 TTTG
1 TTTG
103612 TTCTTGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 8 0.24
8 21 0.64
9 4 0.12
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.77
Consensus pattern (8 bp):
TTTGCTTT
Found at i:103594 original size:16 final size:17
Alignment explanation
Indices: 103569--103616 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 17
103559 CTCTTTTTTC
103569 TTTG-TTTTTTGCTT-T
1 TTTGCTTTTTTGCTTCT
103584 TTTGCTTTTTTGCTTCT
1 TTTGCTTTTTTGCTTCT
103601 TTT-CTTTTTTG-TTCT
1 TTTGCTTTTTTGCTTCT
103616 T
1 T
103617 GATTGAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.29
16 18 0.58
17 4 0.13
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.77
Consensus pattern (17 bp):
TTTGCTTTTTTGCTTCT
Found at i:104811 original size:8 final size:8
Alignment explanation
Indices: 104795--104833 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
104785 AATGCAGATG
104795 AAAATGCA
1 AAAATGCA
*
104803 AAAAGGCA
1 AAAATGCA
104811 AAAATGC-
1 AAAATGCA
104818 AAAATGCA
1 AAAATGCA
*
104826 AGAATGCA
1 AAAATGCA
104834 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:104821 original size:15 final size:15
Alignment explanation
Indices: 104795--104833 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
104785 AATGCAGATG
104795 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
104811 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
104826 AGAATGCA
1 AAAATGCA
104834 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:108116 original size:15 final size:15
Alignment explanation
Indices: 108093--108169 Score: 52
Period size: 15 Copynumber: 5.0 Consensus size: 15
108083 TTAGATATAA
108093 AAAAAATAAA-AAAT
1 AAAAAATAAATAAAT
108107 AAATAAATAAATAAATT
1 AAA-AAATAAATAAA-T
* **
108124 CAACCA-AAATAAA-
1 AAAAAATAAATAAAT
*
108137 AAGAAATAAAATAAAAT
1 AAAAAAT-AAAT-AAAT
108154 AAAATAATAAATAAAT
1 AAAA-AATAAATAAAT
108170 GAATAAAGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
13 2 0.04
14 3 0.06
15 18 0.38
16 11 0.23
17 10 0.21
18 3 0.06
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (15 bp):
AAAAAATAAATAAAT
Found at i:108120 original size:12 final size:11
Alignment explanation
Indices: 108091--108168 Score: 56
Period size: 10 Copynumber: 7.2 Consensus size: 11
108081 TGTTAGATAT
108091 AAAAA-AAATA
1 AAAAATAAATA
108101 AAAAATAAATA
1 AAAAATAAATA
*
108112 AATAAATAAATTC
1 AA-AAATAAA-TA
**
108125 AACCA-AAAT-
1 AAAAATAAATA
*
108134 AAAAAGAAATA
1 AAAAATAAATA
*
108145 AAATA-AAATA
1 AAAAATAAATA
108155 AAATAATAAATA
1 AAA-AATAAATA
108167 AA
1 AA
108169 TGAATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 3 0.06
10 18 0.33
11 15 0.28
12 15 0.28
13 3 0.06
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:108148 original size:5 final size:5
Alignment explanation
Indices: 108089--108160 Score: 53
Period size: 5 Copynumber: 14.8 Consensus size: 5
108079 CATGTTAGAT
* * * **
108089 ATAAA A-AAA ATAAA AAATAA AT-AA AT-AA ATAAA TTCAA CCAAA ATAAA
1 ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
108137 A-AGAA ATAAA ATAAA ATAAA ATAA
1 ATA-AA ATAAA ATAAA ATAAA ATAA
108161 TAAATAAATG
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 13 0.25
5 36 0.68
6 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.01, T:0.18
Consensus pattern (5 bp):
ATAAA
Found at i:108941 original size:35 final size:36
Alignment explanation
Indices: 108871--108970 Score: 123
Period size: 35 Copynumber: 2.8 Consensus size: 36
108861 GTGCTTGTGG
* * *
108871 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAATTCT
*
108908 ATCCTATTTTAGGAG-TTGAATCCTAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
108943 ATCCTAATTTT-GAGAGTTTGAATCCTAG
1 ATCCT-ATTTTAG-GAGTTTGAATCCTAG
108971 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
35 22 0.39
36 16 0.29
37 18 0.32
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAATTCT
Found at i:109551 original size:21 final size:22
Alignment explanation
Indices: 109526--109569 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
109516 TTAAGGCCAA
* *
109526 ATTCAACTTCAAATTG-TCTAG
1 ATTCAACCTCAAAATGATCTAG
*
109547 ATTCATCCTCAAAATGATCTAG
1 ATTCAACCTCAAAATGATCTAG
109569 A
1 A
109570 ATATTCAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (22 bp):
ATTCAACCTCAAAATGATCTAG
Found at i:112303 original size:17 final size:17
Alignment explanation
Indices: 112247--112321 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 17
112237 ACCATGCTAC
* *
112247 TTCATTTGAGCATG-AT
1 TTCATTTAAGCAAGTAT
* * *
112263 TTCATTAAAGCATGCAT
1 TTCATTTAAGCAAGTAT
112280 TGT-ATTTAAGCAAGTAT
1 T-TCATTTAAGCAAGTAT
* * *
112297 TTCATTTAGGGAAGTAG
1 TTCATTTAAGCAAGTAT
112314 TTCATTTA
1 TTCATTTA
112322 TGCATCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
16 13 0.27
17 34 0.71
18 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (17 bp):
TTCATTTAAGCAAGTAT
Found at i:112331 original size:17 final size:17
Alignment explanation
Indices: 112311--112369 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
112301 TTTAGGGAAG
112311 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
112328 TAG-TCATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
112344 TACTTCATTCATGCATT
1 TAGTTCATTTATGCATC
112361 TAGTTCATT
1 TAGTTCATT
112370 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:116876 original size:30 final size:29
Alignment explanation
Indices: 116837--116912 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
116827 TTAACTTTAA
* *
116837 ATTTT-TAATAATTTA-TATATATATATTTG
1 ATTTTATAATAATTTATTA-AAATA-ACTTG
*
116866 ATTTTATAATAATTAACTTAAAATAACTTG
1 ATTTTATAATAATTTA-TTAAAATAACTTG
116896 ATTTTATAATAATTTAT
1 ATTTTATAATAATTTAT
116913 GCAAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 6 0.15
30 28 0.70
31 4 0.10
32 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTTTATAATAATTTATTAAAATAACTTG
Found at i:118053 original size:5 final size:5
Alignment explanation
Indices: 118038--118067 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
118028 AAAAATGAAG
118038 TTAAA TT-AA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
118068 ACTATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:118085 original size:26 final size:26
Alignment explanation
Indices: 118051--118100 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
118041 AATTAATTAA
118051 ATTAAATTAAATTAAATACTATAATT
1 ATTAAATTAAATTAAATACTATAATT
* * * *
118077 ATTATATTATATTACATATTATAA
1 ATTAAATTAAATTAAATACTATAA
118101 ACTATACCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAAATTAAATTAAATACTATAATT
Found at i:119426 original size:17 final size:18
Alignment explanation
Indices: 119399--119432 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
119389 CAATTTACTG
119399 ATTACATTTAATATAAAC
1 ATTACATTTAATATAAAC
119417 ATTA-ATTTAATATAAA
1 ATTACATTTAATATAAA
119433 AATAATATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTACATTTAATATAAAC
Found at i:119770 original size:20 final size:20
Alignment explanation
Indices: 119745--119807 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
119735 CTTCTACTTA
119745 TTTCTTTCTCTTTTCTCTTC
1 TTTCTTTCTCTTTTCTCTTC
* *
119765 TTTCTTCCTCGTTTCTCTTC
1 TTTCTTTCTCTTTTCTCTTC
*
119785 TTTC-TTCTCCTCTTCT-TTC
1 TTTCTTTCT-CTTTTCTCTTC
119804 TTTC
1 TTTC
119808 ACTCCTGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTCTTTCTCTTTTCTCTTC
Found at i:126754 original size:28 final size:29
Alignment explanation
Indices: 126699--126754 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
126689 CAGTCGAATG
* * * *
126699 GGTGTTACTTTGGGAAATATTGGGAAAAC
1 GGTGTTACATCGGGAAATATTAGAAAAAC
126728 GGTGTTACATCGGG-AATATTAGAAAAA
1 GGTGTTACATCGGGAAATATTAGAAAAA
126755 TAGGGTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (29 bp):
GGTGTTACATCGGGAAATATTAGAAAAAC
Found at i:127894 original size:13 final size:14
Alignment explanation
Indices: 127876--127905 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
127866 CGGTCACGAC
127876 TCGACCCGACCC-A
1 TCGACCCGACCCGA
127889 TCGACCCGACCCGA
1 TCGACCCGACCCGA
127903 TCG
1 TCG
127906 TTGACCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.50, G:0.20, T:0.10
Consensus pattern (14 bp):
TCGACCCGACCCGA
Found at i:127970 original size:29 final size:29
Alignment explanation
Indices: 127926--128006 Score: 135
Period size: 29 Copynumber: 2.8 Consensus size: 29
127916 ACCGTTGACC
* *
127926 GGTGCTTTTCTAGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
127955 GGTGCTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCAGTTTT
*
127984 GGTGCTATTCTGGTAATTAATTC
1 GGTGCTATTCTGGTAAATAATTC
128007 GAAATGAGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCAGTTTT
Found at i:128017 original size:29 final size:29
Alignment explanation
Indices: 127926--128050 Score: 99
Period size: 29 Copynumber: 4.3 Consensus size: 29
127916 ACCGTTGACC
* * * ***
127926 GGTGCTTTTCTAGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAATTAATTCAGAAAT
* ***
127955 GGTGCTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAATTAATTCAGAAAT
127984 GGTGCTATTCTGGTAATTAATTC-GAAAT
1 GGTGCTATTCTGGTAATTAATTCAGAAAT
* * * * *
128012 GAGTGCTATTTTGGTAATTATTTTAAAAAG
1 G-GTGCTATTCTGGTAATTAATTCAGAAAT
128042 GGTGCTATT
1 GGTGCTATT
128051 TGTGTAAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.04
29 76 0.92
30 4 0.05
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (29 bp):
GGTGCTATTCTGGTAATTAATTCAGAAAT
Found at i:135361 original size:17 final size:18
Alignment explanation
Indices: 135329--135363 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
135319 TGACCGGTCA
135329 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
135347 CGACCCGA-TCGTTGACC
1 CGACCCGACCCGTTGACC
135364 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:135462 original size:29 final size:29
Alignment explanation
Indices: 135400--135467 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
135390 ATTCGGTTTT
* * *
135400 GGTGCTATTCTAGTAATTAATTCGAAATG
1 GGTGCTATTTTAGTAATTAATTCAAAAAG
* * *
135429 AGTGCTATTTTAGTAATTATTTTAAAAAG
1 GGTGCTATTTTAGTAATTAATTCAAAAAG
135458 GGTGCTATTT
1 GGTGCTATTT
135468 GTGTAAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTAGTAATTAATTCAAAAAG
Found at i:141415 original size:266 final size:265
Alignment explanation
Indices: 140956--141475 Score: 853
Period size: 266 Copynumber: 2.0 Consensus size: 265
140946 CATCGTCGTG
* *
140956 GATTCTTTGTGTACTTATTATAAAGCCTAAAAAGATAAGCTTACAAAACAAGTAATTGTCCATGT
1 GATTCTTTGTGCACTTATTATAAACCCTAAAAAGATAAGCTTACAAAACAAGTAATTGTCCATGT
* * * *
141021 TAGCATAAAAGTGTTATCGTTGGAGAACATTAAGAACCGAGTGGAAGTGGGAGAGATATAAATCA
66 TAGCATAAAAGTGTTATCATTGGAGAACATCAAGAACCAAGTGGAAGTGGGAGAGATAAAAATCA
*
141086 AAAGAAGGTGAGTAGATAAGAATATCATCAAAGTAAACAACATACTTACCTTTGGCATGGTTAGT
131 AAAGAAGATGAGTAGATAAGAATATCATCAAAGTAAACAACATACTTACCTTTGGCATGGTTA--
* *
141151 GCTATTGTTTCATCAATGAGATGGCACAATGACTAAGGCTTTCCTGGATGTAGCCTTTTCAGCAT
194 GCTATTGTTTCATCAATAAGATGGAACAATGACTAAGGCTTTCCTGGATGTAGCCTTTTCAGCAT
141216 CGACAAA
259 CGACAAA
*
141223 GATTCTTTGTGCACTTATTATAAACCCTAAAAAGATAAGCTTACAAAA-AAGTATTTGTCCATGT
1 GATTCTTTGTGCACTTATTATAAACCCTAAAAAGATAAGCTTACAAAACAAGTAATTGTCCATGT
* *
141287 TAGCATAAAAGTGTTCTCATTGGAGAACATCAAGAATCAAGTGGAAGTGGGAGAGATAAAAATCA
66 TAGCATAAAAGTGTTATCATTGGAGAACATCAAGAACCAAGTGGAAGTGGGAGAGATAAAAATCA
* * * * *
141352 AGAGAATATGAGTAGATAAGAATATCATGAAAGTAAACAACATACTTATCTTTGGCTTGGTTAGC
131 AAAGAAGATGAGTAGATAAGAATATCATCAAAGTAAACAACATACTTACCTTTGGCATGGTTAGC
*
141417 TATTGTTTCATCACTAAGATGGAACAATGACTAAGGCTTTCCTGGATGTAGCCTTTTCA
196 TATTGTTTCATCAATAAGATGGAACAATGACTAAGGCTTTCCTGGATGTAGCCTTTTCA
141476 CAGCAAATCT
Statistics
Matches: 235, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
264 58 0.25
266 131 0.56
267 46 0.20
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (265 bp):
GATTCTTTGTGCACTTATTATAAACCCTAAAAAGATAAGCTTACAAAACAAGTAATTGTCCATGT
TAGCATAAAAGTGTTATCATTGGAGAACATCAAGAACCAAGTGGAAGTGGGAGAGATAAAAATCA
AAAGAAGATGAGTAGATAAGAATATCATCAAAGTAAACAACATACTTACCTTTGGCATGGTTAGC
TATTGTTTCATCAATAAGATGGAACAATGACTAAGGCTTTCCTGGATGTAGCCTTTTCAGCATCG
ACAAA
Found at i:142022 original size:19 final size:19
Alignment explanation
Indices: 141994--142033 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
141984 GTATAGTTCG
141994 TAATGGTAT-GTACAAATGA
1 TAATGGTATGGTA-AAATGA
*
142013 TAATGTTATGGTAAAATGA
1 TAATGGTATGGTAAAATGA
142032 TA
1 TA
142034 TGGATGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (19 bp):
TAATGGTATGGTAAAATGA
Found at i:155483 original size:20 final size:20
Alignment explanation
Indices: 155458--155509 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
155448 TGCGAAATAA
155458 AATCGCAACGCGG-TCTCCAG
1 AATCGCAACGCGGTTC-CCAG
** *
155478 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGCGGTTCCCAG
155498 AATCGCAACGCG
1 AATCGCAACGCG
155510 ATTATGAAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGGTTCCCAG
Found at i:155589 original size:20 final size:20
Alignment explanation
Indices: 155561--155870 Score: 152
Period size: 20 Copynumber: 15.5 Consensus size: 20
155551 AATTTTCCAG
* *
155561 AATCACAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
155581 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
155601 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * * *
155621 TATCTCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* *
155642 AATCGCAACGCGTAT-CCATA
1 AATCGCAACGCGAATACGA-A
*
155662 AATTGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * * *
155683 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
155703 AATCGCAACG-AAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
155722 ATTCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
155742 AATCGCAACGAGAATACG-T
1 AATCGCAACGCGAATACGAA
* *
155761 AATCGTAATGCGAATAC-ATA
1 AATCGCAACGCGAATACGA-A
* * *
155781 AATCACAATGCGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
155801 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
155821 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
155841 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
155861 AATCGCAACG
1 AATCGCAACG
155871 AGATTCTGAC
Statistics
Matches: 229, Mismatches: 44, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
19 34 0.15
20 161 0.70
21 33 0.14
22 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:155743 original size:60 final size:59
Alignment explanation
Indices: 155682--155868 Score: 227
Period size: 59 Copynumber: 3.2 Consensus size: 59
155672 ACAATACGTA
* * * * *
155682 AAATCGCAATGCGTATCCGTAAATCGCAA-CGAAATACGTAATTCGCAACGCGTATCTGT
1 AAATCGCAATGCGAATACGTAAATCGCAAGCG-AATACGTAAATCGCAATGCGAATCTGT
* * * * *
155741 AAATCGCAACGAGAATACGT-AATCGTAATGCGAATACATAAATCACAATGCGAATAC-GT
1 AAATCGCAATGCGAATACGTAAATCGCAA-GCGAATACGTAAATCGCAATGCGAAT-CTGT
155800 AAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGT
1 AAATCGCAATGCGAATACGTAAATCGCAA-GCGAATACGTAAATCGCAATGCGAATCTGT
155860 AAATCGCAA
1 AAATCGCAA
155869 CGAGATTCTG
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
58 7 0.06
59 55 0.51
60 46 0.43
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (59 bp):
AAATCGCAATGCGAATACGTAAATCGCAAGCGAATACGTAAATCGCAATGCGAATCTGT
Found at i:155758 original size:40 final size:39
Alignment explanation
Indices: 155626--155873 Score: 248
Period size: 40 Copynumber: 6.2 Consensus size: 39
155616 CTGACTATCT
* * * * * *
155626 CAACGAGTATCCGTAAAATCGCAACGCGTATCCATAAATTG
1 CAACGAGAATACGT-AAATCGCAATGCGAAT-CGTAAATCG
* *
155667 CAACGACAATACGTAAAATCGCAATGCGTATCCGTAAATCG
1 CAACGAGAATACGT-AAATCGCAATGCGAAT-CGTAAATCG
* * *
155708 CAACGA-AATACGTAATTCGCAACGCGTATCTGTAAATCG
1 CAACGAGAATACGTAAATCGCAATGCGAATC-GTAAATCG
* * *
155747 CAACGAGAATACGT-AATCGTAATGCGAATACATAAATCA
1 CAACGAGAATACGTAAATCGCAATGCGAAT-CGTAAATCG
* *
155786 CAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCG
1 CAACGAGAATACGTAAATCGCAATGCGAAT-CGTAAATCG
* *
155826 CAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCG
1 CAACGAGAATACGTAAATCGCAATGCGAATC-GTAAATCG
155866 CAACGAGA
1 CAACGAGA
155874 TTCTGACTAT
Statistics
Matches: 181, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 58 0.32
40 81 0.45
41 41 0.23
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (39 bp):
CAACGAGAATACGTAAATCGCAATGCGAATCGTAAATCG
Found at i:155886 original size:60 final size:59
Alignment explanation
Indices: 155714--155889 Score: 166
Period size: 60 Copynumber: 2.9 Consensus size: 59
155704 ATCGCAACGA
* * * * *
155714 AATACGTAATTCGCAACGCGTATCTGTAAATCGCAACGAGA-AT-ACGTAATCGTAATGCG
1 AATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATCTGAC-T-ATCGCAATGCG
* * *
155773 AATACATAAATCACAATGCGAATAC-GTAAATCGCAATGCGA-ATAC-GTA-AATCGCAATGCG
1 AATACGTAAATCGCAATGCGAAT-CTGTAAATCGCAA--CGAGAT-CTG-ACTATCGCAATGCG
155833 AATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCTGACTATCGCAAT
1 AATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGA-TCTGACTATCGCAAT
155890 ACTGAATTTC
Statistics
Matches: 94, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
58 3 0.03
59 33 0.35
60 54 0.57
61 3 0.03
63 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (59 bp):
AATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATCTGACTATCGCAATGCG
Found at i:156768 original size:24 final size:24
Alignment explanation
Indices: 156717--156770 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
156707 GTATTCGAAA
*
156717 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
156741 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
156765 TTTGAT
1 TTTGAT
156771 GATTTTTCAG
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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:159329 original size:33 final size:33
Alignment explanation
Indices: 159290--159470 Score: 218
Period size: 33 Copynumber: 5.3 Consensus size: 33
159280 GGAAATTACT
159290 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * * *
159323 ACCGCAACGTGAAAATCGCAATGCGAATATGAAT
1 ATCGCAACGAGAGAATCGCAATGCGAA-ATGAAA
*
159357 ATCGCAATGCGGAAATGACTATCGCAATGCGAAATGAAA
1 ATCGCAA--C-GAGA-GA--ATCGCAATGCGAAATGAAA
159396 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* ** *
159429 ATCGCAACGAGGGAATCGCAAAACAAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
159462 ATCGCAACG
1 ATCGCAACG
159471 CGAATTTAGT
Statistics
Matches: 127, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
33 81 0.64
34 11 0.09
35 2 0.02
36 4 0.03
37 3 0.02
38 1 0.01
39 12 0.09
40 13 0.10
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:159355 original size:20 final size:19
Alignment explanation
Indices: 159303--159435 Score: 133
Period size: 19 Copynumber: 7.4 Consensus size: 19
159293 GCAACGAGAG
159303 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
159322 AACCGCAA--CG---TGAA
1 AATCGCAATGCGAAATGAA
159336 AATCGCAATGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
* *
159356 TATCGCAATGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
*
159376 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
159395 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
159409 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
159428 AATCGCAA
1 AATCGCAA
159436 CGAGGGAATC
Statistics
Matches: 94, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
14 21 0.22
15 1 0.01
16 4 0.04
17 4 0.04
18 1 0.01
19 31 0.33
20 29 0.31
21 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:159527 original size:33 final size:33
Alignment explanation
Indices: 159480--159559 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
159470 GCGAATTTAG
* * * *
159480 TTTCGCGTTGCGATTTTGTCGTTGTGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
*
159513 TTTCGCATTACGATTCTCTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
159546 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
159560 AGTCATTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
Found at i:159558 original size:19 final size:19
Alignment explanation
Indices: 159505--159559 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
159495 TTGTCGTTGT
*
159505 GATTTTCATTTCGCATTAC
1 GATTTTCATTTCGCATTGC
*
159524 GA--TTC-TCTCG--TTGC
1 GATTTTCATTTCGCATTGC
159538 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
159557 GAT
1 GAT
159560 AGTCATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 10
0.68 0.07 0.24
Matches are distributed among these distances:
14 5 0.18
16 7 0.25
17 7 0.25
19 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.45
Consensus pattern (19 bp):
GATTTTCATTTCGCATTGC
Found at i:160270 original size:94 final size:94
Alignment explanation
Indices: 160117--160587 Score: 799
Period size: 94 Copynumber: 5.1 Consensus size: 94
160107 ATGGATTACA
** * * *
160117 TTAC-TTCAACC-AAAGACAAAACAAAGAC-AATACTATTTTCAGAGTATCAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
160179 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
160208 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
160273 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
160302 TTACTTTCAATCAAAAGACAAAAC-AAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
160366 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
160395 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
160460 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
160489 TTAC-TTCAACCAAAAGACAGAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
160553 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
160583 TTACT
1 TTACT
160588 AAGCAATCTA
Statistics
Matches: 363, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
91 4 0.01
92 7 0.02
93 127 0.35
94 225 0.62
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:160443 original size:187 final size:186
Alignment explanation
Indices: 160117--160587 Score: 793
Period size: 187 Copynumber: 2.5 Consensus size: 186
160107 ATGGATTACA
** * * *
160117 TTACTTCAACC-AAAGACAAAACAAAGAC-AATACTATTTTCAGAGTATCAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAAC-AAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
160180 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
65 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
160245 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
130 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
160302 TTACTTTCAATCAAAAGACAAAACAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
1 TTAC-TTCAACCAAAAGACAAAACAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
160367 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
65 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
160432 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
130 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
* *
160489 TTACTTCAACCAAAAGACAGAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGT
1 TTACTTCAACCAAAAGACA-AA-ACAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
160554 TTAGCAGTATTGGCAGCAACCGAATAAATTTACT
64 TTAGCAGAATTGGCAGCAACCGAACAAATTTACT
160588 AAGCAATCTA
Statistics
Matches: 269, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
185 4 0.01
186 25 0.09
187 168 0.62
188 72 0.27
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.21
Consensus pattern (186 bp):
TTACTTCAACCAAAAGACAAAACAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
ACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:162317 original size:17 final size:18
Alignment explanation
Indices: 162277--162328 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
162267 ACAACGAGAG
162277 AATGACTATCGCAACGCGGA
1 AATGACTATCGCAA--CGGA
162297 AATGACTATCGCAAC-GA
1 AATGACTATCGCAACGGA
**
162314 AATGAAAATCGCAAC
1 AATGACTATCGCAAC
162329 AAGAGAATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 15 0.50
18 1 0.03
20 14 0.47
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.15
Consensus pattern (18 bp):
AATGACTATCGCAACGGA
Found at i:162357 original size:18 final size:19
Alignment explanation
Indices: 162255--162378 Score: 77
Period size: 20 Copynumber: 6.8 Consensus size: 19
162245 GTCTTTTGTT
*
162255 GAAATGAAAATCACAACGA-
1 GAAATGAAAATCGCAAC-AC
** *
162274 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACAC
**
162294 GGAAATGACTATCGC-A-AC
1 -GAAATGAAAATCGCAACAC
162312 GAAATGAAAATCGC-A-AC
1 GAAATGAAAATCGCAACAC
*
162329 --AA-GAGAATCGCAACAC
1 GAAATGAAAATCGCAACAC
* *
162345 GAAAT-TAAATCGCAACGC
1 GAAATGAAAATCGCAACAC
162363 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
162379 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 15 0.18
18 18 0.21
19 12 0.14
20 24 0.29
21 2 0.02
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACAC
Found at i:162414 original size:14 final size:14
Alignment explanation
Indices: 162395--162451 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
162385 TTTGGTTTCG
162395 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
162409 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
162428 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
162442 CGTTGCGATT
1 CGTTGCGATT
162452 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:162427 original size:33 final size:33
Alignment explanation
Indices: 162379--162459 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
162369 AAAATCGCAA
**
162379 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
162412 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
162445 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
162460 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:162462 original size:21 final size:20
Alignment explanation
Indices: 162443--162514 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
162433 CGATTCTCTC
162443 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
162463 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
162484 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
162504 GTTGCGATTTT
1 GTTGCGATTTT
162515 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:163095 original size:20 final size:20
Alignment explanation
Indices: 163070--163280 Score: 226
Period size: 20 Copynumber: 10.4 Consensus size: 20
163060 TAAAAATCGT
163070 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
163090 GTTGCGATTTTACGTAT-TGTC
1 GTTGCGA-TTTACGGATACG-C
163111 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * * *
163131 ATTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGC
*
163151 GTTGCGATTTACAGATACGC
1 GTTGCGATTTACGGATACGC
* * *
163171 GTTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGC
*
163191 TTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* ***
163211 GTTGCGATTTTACGTATTTTC
1 GTTGCGA-TTTACGGATACGC
*
163232 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
163252 GTTGCGATTTTACGGATACTC
1 GTTGCGA-TTTACGGATACGC
163273 GTTGCGAT
1 GTTGCGAT
163281 AGTTAGAATC
Statistics
Matches: 155, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
20 103 0.66
21 52 0.34
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:163153 original size:40 final size:41
Alignment explanation
Indices: 163070--163280 Score: 336
Period size: 41 Copynumber: 5.2 Consensus size: 41
163060 TAAAAATCGT
*
163070 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
*
163111 GTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
*
163151 GTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* *
163191 TTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTTTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
* * *
163232 GTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTC
1 GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
163273 GTTGCGAT
1 GTTGCGAT
163281 AGTTAGAATC
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 75 0.48
41 82 0.52
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
GTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTC
Found at i:163339 original size:21 final size:21
Alignment explanation
Indices: 163315--163367 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
163305 ATGTTCGCGT
163315 TGCGATTCTGGAAAATCGCAA
1 TGCGATTCTGGAAAATCGCAA
* ** *
163336 TGCGAATT-TGTACTATCGCAT
1 TGCG-ATTCTGGAAAATCGCAA
163357 TGCGATTCTGG
1 TGCGATTCTGG
163368 GAACTGATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (21 bp):
TGCGATTCTGGAAAATCGCAA
Found at i:163399 original size:20 final size:20
Alignment explanation
Indices: 163309--163403 Score: 61
Period size: 20 Copynumber: 4.7 Consensus size: 20
163299 ATTTATATGT
* *
163309 TCGCGTTGCGATTCTGGAAAA
1 TCGCATTGCGATTCTGG-AGA
* * *
163330 TCGCAATGCGAATT-TGTACTA
1 TCGCATTGCG-ATTCTGGA-GA
163351 TCGCATTGCGATTCTGG-GA
1 TCGCATTGCGATTCTGGAGA
*
163370 ACTG-ATTTGCGATTCTGGAGA
1 TC-GCA-TTGCGATTCTGGAGA
*
163391 TCGCGTTGCGATT
1 TCGCATTGCGATT
163404 TTTATTTCTC
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
19 3 0.05
20 26 0.46
21 25 0.44
22 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATTCTGGAGA
Found at i:164200 original size:2 final size:2
Alignment explanation
Indices: 164193--164230 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
164183 AATTTTAAAT
164193 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
164231 ACACTACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:166082 original size:13 final size:13
Alignment explanation
Indices: 166049--166088 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 13
166039 TAAAAATTAA
166049 AATATTATTCTATTT
1 AATATT-TT-TATTT
166064 ATATATTTTTATTT
1 A-ATATTTTTATTT
166078 AATATTTTTAT
1 AATATTTTTAT
166089 CCATAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 6 0.25
15 3 0.12
16 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
AATATTTTTATTT
Found at i:166452 original size:27 final size:27
Alignment explanation
Indices: 166421--166473 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
166411 TAAATCACGC
166421 TCACCCATTCGACATCATAGATCACCA
1 TCACCCATTCGACATCATAGATCACCA
** *
166448 TCACCTGTTCGACGTCATAGATCACC
1 TCACCCATTCGACATCATAGATCACC
166474 CTTTTTGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.25
Consensus pattern (27 bp):
TCACCCATTCGACATCATAGATCACCA
Found at i:166558 original size:24 final size:24
Alignment explanation
Indices: 166516--166618 Score: 127
Period size: 24 Copynumber: 4.3 Consensus size: 24
166506 TTCGATATCG
* * *
166516 TAGATGTCTATCACCTATGTGTCA
1 TAGATCTCCATCACCTATGCGTCA
* *
166540 TAAATCTCCTTCACCTATGCGTCA
1 TAGATCTCCATCACCTATGCGTCA
*
166564 TAGATCTCCATCA-CTATGCGTCC
1 TAGATCTCCATCACCTATGCGTCA
* *
166587 TAGATCTCCATCACCTATGCATCG
1 TAGATCTCCATCACCTATGCGTCA
166611 TAGATCTC
1 TAGATCTC
166619 GTTCGCCAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 22 0.32
24 46 0.68
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (24 bp):
TAGATCTCCATCACCTATGCGTCA
Found at i:166594 original size:47 final size:48
Alignment explanation
Indices: 166516--166618 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 48
166506 TTCGATATCG
* * * * *
166516 TAGATGTCTATCACCTATGTGTCATAAATCTCCTTCACCTATGCGTCA
1 TAGATCTCCATCACCTATGCGTCATAAATCTCCATCACCTATGCATCA
* * *
166564 TAGATCTCCATCA-CTATGCGTCCTAGATCTCCATCACCTATGCATCG
1 TAGATCTCCATCACCTATGCGTCATAAATCTCCATCACCTATGCATCA
166611 TAGATCTC
1 TAGATCTC
166619 GTTCGCCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 36 0.77
48 11 0.23
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (48 bp):
TAGATCTCCATCACCTATGCGTCATAAATCTCCATCACCTATGCATCA
Found at i:169650 original size:11 final size:12
Alignment explanation
Indices: 169631--169664 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
169621 ACATCCGTAT
169631 CATCCGCAACCG
1 CATCCGCAACCG
169643 CA-CCGCAACCG
1 CATCCGCAACCG
169654 CATCCGCAACC
1 CATCCGCAACC
169665 ATAATTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.26, C:0.53, G:0.15, T:0.06
Consensus pattern (12 bp):
CATCCGCAACCG
Found at i:172030 original size:21 final size:21
Alignment explanation
Indices: 172006--172066 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
171996 CCAACTTTGA
172006 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
172027 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
172041 AAATGATTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
172062 AAATG
1 AAATG
172067 TTTCTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:172051 original size:35 final size:35
Alignment explanation
Indices: 172000--172105 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 35
171990 TGGCAACCAA
*
172000 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
172035 CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
172070 CTTTAAAAAATGTTTTTTCAAAGTTTGGTAAA-GTTT
1 CTTT-GAAAATG-ATTTTCAAAGTTTGGTAAATGTTT
172106 GGTAGATGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 38 0.58
36 10 0.15
37 18 0.27
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (35 bp):
CTTTGAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:176621 original size:21 final size:21
Alignment explanation
Indices: 176595--176657 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
176585 AACCAACTTT
176595 GAAAATGGTTTTCAAAGTTTG
1 GAAAATGGTTTTCAAAGTTTG
*
176616 GTAAAT-G-TTTC----TTT-
1 GAAAATGGTTTTCAAAGTTTG
176630 GAAAATGGTTTTCAAAGTTTG
1 GAAAATGGTTTTCAAAGTTTG
176651 GAAAATG
1 GAAAATG
176658 TTTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 4 0.12
21 12 0.36
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (21 bp):
GAAAATGGTTTTCAAAGTTTG
Found at i:176637 original size:35 final size:35
Alignment explanation
Indices: 176591--176696 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
176581 TGGCAACCAA
176591 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
176626 CTTTGAAAATGGTTTTCAAAGTTTGGAAAATGTTT
1 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
176661 CTTTGAAAAATGTTTTTTCAAAGTTTGGTAAA-GTTT
1 CTTTG-AAAATG-GTTTTCAAAGTTTGGTAAATGTTT
176697 GGTAGATGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 39 0.59
36 10 0.15
37 17 0.26
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (35 bp):
CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:182534 original size:43 final size:42
Alignment explanation
Indices: 182486--182581 Score: 156
Period size: 43 Copynumber: 2.3 Consensus size: 42
182476 GATGAAAACA
* * *
182486 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTATT
1 TTTTGTCACTAGTCTTAGTTGGTAATTTGTGACGACAA-TAAT
182529 TTTTGTCACTAGTCTTAGTTGGTAATTTGTGACGACAATAAT
1 TTTTGTCACTAGTCTTAGTTGGTAATTTGTGACGACAATAAT
182571 TTTTGTCACTA
1 TTTTGTCACTA
182582 TTGAAGTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
42 14 0.28
43 36 0.72
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTGGTAATTTGTGACGACAATAAT
Found at i:184959 original size:60 final size:60
Alignment explanation
Indices: 184843--184962 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 60
184833 TCTATACTTC
* * * * *
184843 TTTATTAGTCATCTATTTTGACTGATATATTTTAAAATTTAAAACATTCTTGTCAAAATA
1 TTTATAAGCCATCCATTTTGACTGATATATTTTAAAATTTAAAACATACATGTCAAAATA
* *
184903 TTTATAAGCCATCCATTTTGACTGATATATTTTTTAATTTTAAAACATACAT-TCAAAATA
1 TTTATAAGCCATCCATTTTGACTGATATA-TTTTAAAATTTAAAACATACATGTCAAAATA
184963 GATATCTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 34 0.65
61 18 0.35
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (60 bp):
TTTATAAGCCATCCATTTTGACTGATATATTTTAAAATTTAAAACATACATGTCAAAATA
Found at i:185816 original size:18 final size:18
Alignment explanation
Indices: 185786--185827 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
185776 CTTTAAAAAC
185786 ATTATATTTATTATTATA
1 ATTATATTTATTATTATA
*
185804 ATTAT-TTTGATTATTATT
1 ATTATATTT-ATTATTATA
185822 ATTATA
1 ATTATA
185828 AGTATTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTATATTTATTATTATA
Found at i:185825 original size:24 final size:24
Alignment explanation
Indices: 185793--185854 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
185783 AACATTATAT
185793 TTATTATTATAATTATT-TTGATTA
1 TTATTATTATAATTATTGTTG-TTA
*
185817 TTATTATTATAAGTATTGTTGTTA
1 TTATTATTATAATTATTGTTGTTA
*
185841 TTAGTATTAATAAT
1 TTATTATT-ATAAT
185855 AATATTACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 26 0.79
25 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (24 bp):
TTATTATTATAATTATTGTTGTTA
Found at i:187148 original size:2 final size:2
Alignment explanation
Indices: 187141--187167 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
187131 ATTAATTTGA
187141 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
187168 AAACATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:188592 original size:22 final size:21
Alignment explanation
Indices: 188539--188595 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
188529 GATCCTTTTA
*
188539 TTGATTTTT-TTTGTACTTCAT
1 TTGATTTTTGTTT-TACTACAT
* *
188560 TTTATTATTGTTTTACTAACAT
1 TTGATTTTTGTTTTACT-ACAT
188582 TTGATTTTTGTTTT
1 TTGATTTTTGTTTT
188596 CAGATCGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.18, C:0.07, G:0.09, T:0.67
Consensus pattern (21 bp):
TTGATTTTTGTTTTACTACAT
Found at i:198281 original size:9 final size:8
Alignment explanation
Indices: 198269--198311 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
198259 AAAAAGAAAA
198269 AAAAAGATG
1 AAAAA-ATG
198278 -AAAAATG
1 AAAAAATG
198285 AAAAAATG
1 AAAAAATG
198293 AAAAAAATG
1 -AAAAAATG
198302 AAAAAATG
1 AAAAAATG
198310 AA
1 AA
198312 GAGAGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.09
8 21 0.66
9 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:198290 original size:17 final size:17
Alignment explanation
Indices: 198278--198311 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
198268 AAAAAAGATG
198278 AAAAATGAAAAAATGAA
1 AAAAATGAAAAAATGAA
198295 AAAAATGAAAAAATGAA
1 AAAAATGAAAAAATGAA
198312 GAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAAATGAAAAAATGAA
Found at i:199436 original size:136 final size:132
Alignment explanation
Indices: 199183--199528 Score: 403
Period size: 136 Copynumber: 2.6 Consensus size: 132
199173 GAGGTGAACC
**
199183 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAAAAGTTCATAA
1 AACATTTCCAAAAGAG-GTTCATAATGAGAAGAACTCATCCGAC-AA-GGAG-AAAAGTTCATAA
* * * *
199248 TGAGAAGAGTTTGTTCGACCCATCACTCGATTCACGACATTTAGAGTCAGTGACACCTCGCTTGA
62 TGAGAAGAGCTTGTTCGACCCATCACTCGATTCACGACATTTAGAATCAGTGACACCCCGCTGGA
199313 GGGATT
127 GGGATT
* *
199319 GATATTTCCAAAAGAGGGTTCATAATGAGAAGAACTCATCCGACAGAGAGAGAAGAAGTTCATAA
1 AACATTTCCAAAAGA-GGTTCATAATGAGAAGAACTCATCCGACA-AG-GAGAA-AAGTTCATAA
* * * * *
199384 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCAC-AGTATTTCGAATTAGTGATACCCCGCTGG
62 TGAGAAGAGCTTGTTCGACCCATCACTCGATTCACGA-CATTTAGAATCAGTGACACCCCGCTGG
*
199448 ATGGATT
126 AGGGATT
* * ** *
199455 AACATTTCTAGAAGA-GTTCATAATGAGAAGAACTCATCTTA-AAGGAG-AAAGTTCATAATGAT
1 AACATTTCCAAAAGAGGTTCATAATGAGAAGAACTCATCCGACAAGGAGAAAAGTTCATAATGAG
*
199517 AAGAACTTGTTC
66 AAGAGCTTGTTC
199529 CTTTCAAGTC
Statistics
Matches: 183, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
129 24 0.13
130 1 0.01
131 3 0.02
132 2 0.01
133 1 0.01
134 24 0.13
135 5 0.03
136 122 0.67
137 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (132 bp):
AACATTTCCAAAAGAGGTTCATAATGAGAAGAACTCATCCGACAAGGAGAAAAGTTCATAATGAG
AAGAGCTTGTTCGACCCATCACTCGATTCACGACATTTAGAATCAGTGACACCCCGCTGGAGGGA
TT
Found at i:199732 original size:20 final size:20
Alignment explanation
Indices: 199670--199732 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
199660 CAATGGAAAG
*
199670 TTCATAATGAGAAGAACTCA
1 TTCATAATGAGAAGAACTAA
* *
199690 TCCA-ACAAG-GAAGAA-TAA
1 TTCATA-ATGAGAAGAACTAA
*
199708 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTAA
199729 TTCA
1 TTCA
199733 ACCTTGCATC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
18 2 0.06
19 12 0.38
20 16 0.50
21 2 0.06
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTAA
Found at i:199752 original size:91 final size:90
Alignment explanation
Indices: 199557--199823 Score: 394
Period size: 91 Copynumber: 2.9 Consensus size: 90
199547 AAGGAGATGT
* * *
199557 ATCAGTGTTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCA
1 ATCAGTGTTTCCAATGGAAAGTTCATAATGAGAAGAACTCATC-CACA-AGGAAGAAGAAGTTCA
199622 TAATGAGAAGAACTTGTTCAACCGTAC
64 TAATGAGAAGAACTTGTTCAACCGTAC
*
199649 ATCAGTGTTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCCAACAAGGAAGAATAAGTTCAT
1 ATCAGTGTTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCC-ACAAGGAAGAAGAAGTTCAT
* * *
199714 AATGAGAAGAACTTATTCAACCTTGC
65 AATGAGAAGAACTTGTTCAACCGTAC
* *
199740 ATCAGTATTTCCAAT-GAAGAGTTCATAATGAGAAGAACTCATCCACAA-TAGAGAAGAAGTTCA
1 ATCAGTGTTTCCAATGGAA-AGTTCATAATGAGAAGAACTCATCCACAAGGA-AGAAGAAGTTCA
199803 TAATGAGAAGAACTTGTTCAA
64 TAATGAGAAGAACTTGTTCAA
199824 TCAAATAACG
Statistics
Matches: 161, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
89 1 0.01
90 38 0.24
91 77 0.48
92 45 0.28
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (90 bp):
ATCAGTGTTTCCAATGGAAAGTTCATAATGAGAAGAACTCATCCACAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCGTAC
Found at i:199821 original size:20 final size:19
Alignment explanation
Indices: 199760--199822 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
199750 CCAATGAAGA
199760 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* * *
199779 CATCCACAATAGAGAAGAA--
1 -GTTCATAAT-GAGAAGAACT
199798 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
199818 GTTCA
1 GTTCA
199823 ATCAAATAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
20 11 0.33
21 8 0.24
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:202088 original size:14 final size:15
Alignment explanation
Indices: 202059--202092 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
202049 ATCTTTAAAG
202059 ATTA-AAATATTATT
1 ATTATAAATATTATT
202073 ATTATAAATATT-TT
1 ATTATAAATATTATT
202087 ATTATA
1 ATTATA
202093 TTTTCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATAAATATTATT
Found at i:202698 original size:21 final size:21
Alignment explanation
Indices: 202673--202723 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
202663 GTTACGGCAA
202673 CAACGCAGAATTTGTAAATCG
1 CAACGCAGAATTTGTAAATCG
*
202694 CAACGC-GAATTTGTAATTCG
1 CAACGCAGAATTTGTAAATCG
* *
202714 AAACACAGAA
1 CAACGCAGAA
202724 GTCAAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (21 bp):
CAACGCAGAATTTGTAAATCG
Done.