Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 80 of 109
Found at i:25735144 original size:19 final size:19
Alignment explanation
Indices: 25735120--25735194 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
25735110 AATCATATCT
25735120 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
25735139 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
25735160 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
25735179 TCTAAGATTACATATC
1 TCTAAGATTACATATC
25735195 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:25735157 original size:21 final size:21
Alignment explanation
Indices: 25735131--25735193 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
25735121 CTAAGATTAC
25735131 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
25735152 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
25735171 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
25735192 AT
1 AT
25735194 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:25736178 original size:16 final size:16
Alignment explanation
Indices: 25736157--25736187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25736147 TTCATTATTA
*
25736157 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
25736173 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
25736188 GCACTCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:25739595 original size:9 final size:9
Alignment explanation
Indices: 25739581--25739605 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25739571 GTTTTGTTTC
25739581 CTTTATTCT
1 CTTTATTCT
25739590 CTTTATTCT
1 CTTTATTCT
25739599 CTTTATT
1 CTTTATT
25739606 TTCCTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (9 bp):
CTTTATTCT
Found at i:25754697 original size:1 final size:1
Alignment explanation
Indices: 25754646--25754677 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
25754636 TAAAGGCCAA
25754646 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25754678 GGGCCAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:25755288 original size:13 final size:13
Alignment explanation
Indices: 25755270--25755319 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
25755260 TCTTCATTGC
25755270 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
25755283 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
* *
25755296 TGTGGAAAAGTGT
1 TTTTGAAAAGTGT
25755309 TTTTGAAAAGT
1 TTTTGAAAAGT
25755320 TTGGTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:25756543 original size:16 final size:18
Alignment explanation
Indices: 25756508--25756552 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 18
25756498 ATTATATTTC
25756508 AAAATATTAATTTGAATA
1 AAAATATTAATTTGAATA
25756526 AAAATATT-ATTT-AAT-
1 AAAATATTAATTTGAATA
25756541 AAAAT-TTAATTT
1 AAAATATTAATTT
25756553 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.08
15 9 0.35
16 3 0.12
17 4 0.15
18 8 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AAAATATTAATTTGAATA
Found at i:25759017 original size:14 final size:14
Alignment explanation
Indices: 25758978--25759017 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
25758968 ATGAATATGA
25758978 TAATATATTTTAATT
1 TAAT-TATTTTAATT
* *
25758993 TAATAAATTTAATT
1 TAATTATTTTAATT
25759007 TAATTATTTTA
1 TAATTATTTTA
25759018 TAGATCAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTATTTTAATT
Found at i:25761207 original size:21 final size:21
Alignment explanation
Indices: 25761181--25761226 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
25761171 TACACGGTCG
*
25761181 TGTGACCAA-TCCACATGACCA
1 TGTGACCAACT-CACACGACCA
*
25761202 TGTGACCCACTCACACGACCA
1 TGTGACCAACTCACACGACCA
25761223 TGTG
1 TGTG
25761227 TCTTGTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (21 bp):
TGTGACCAACTCACACGACCA
Found at i:25762218 original size:90 final size:90
Alignment explanation
Indices: 25762084--25762324 Score: 288
Period size: 90 Copynumber: 2.7 Consensus size: 90
25762074 TGCCAAACGA
* * * * *
25762084 TTGTGAATGCACAACATATTTGTATATAAGAGCTGCCAGAAAATGGATGGGTGAACCACCAGTGT
1 TTGTGAATGCACAACATATTTGCACATAAGAGCTGCAAAAAAATGGATGGATGAACCACCAGTGT
* *
25762149 TGCAGATTAATACATTGTCAGATGG
66 TGCAGATTAATACACTGCCAGATGG
* * * *
25762174 TTGTGAATGCAGAACGTATTTGCACATAAGAGCTGCAAAAAAATGGGTTGATGAACCACCAGTGT
1 TTGTGAATGCACAACATATTTGCACATAAGAGCTGCAAAAAAATGGATGGATGAACCACCAGTGT
* **
25762239 TGCAGGTTAATATGCTGCCAGATGG
66 TGCAGATTAATACACTGCCAGATGG
* * * **
25762264 TTGTGAATGCATAACATATTTGCAGATAAGAGCTGTC--AGAAATCTATGGATGAACCACCAG
1 TTGTGAATGCACAACATATTTGCACATAAGAGCTG-CAAAAAAATGGATGGATGAACCACCAG
25762325 AGCTGCAAAT
Statistics
Matches: 128, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
89 19 0.15
90 108 0.84
91 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (90 bp):
TTGTGAATGCACAACATATTTGCACATAAGAGCTGCAAAAAAATGGATGGATGAACCACCAGTGT
TGCAGATTAATACACTGCCAGATGG
Found at i:25765807 original size:17 final size:17
Alignment explanation
Indices: 25765785--25765825 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
25765775 CATGTAGTAG
25765785 GCCGTGTATGACACACA
1 GCCGTGTATGACACACA
25765802 GCCGTGTATGACACACA
1 GCCGTGTATGACACACA
25765819 GCCGTGT
1 GCCGTGT
25765826 GCCAGTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (17 bp):
GCCGTGTATGACACACA
Found at i:25766441 original size:3 final size:3
Alignment explanation
Indices: 25766433--25766462 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25766423 ATAACAAAAT
25766433 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25766463 GTGATAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25767882 original size:2 final size:2
Alignment explanation
Indices: 25767875--25767902 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25767865 GTCTTTGCCC
25767875 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25767903 TTCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25776242 original size:17 final size:16
Alignment explanation
Indices: 25776193--25776245 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
25776183 AATAATTTTA
*
25776193 TTTTTAAAATTATAGAT
1 TTTTTAAAATTA-AAAT
*
25776210 TTTATAAAGATATAAAAT
1 TTTTTAAA-AT-TAAAAT
25776228 TTATTTAAAATTAAAAT
1 TT-TTTAAAATTAAAAT
25776245 T
1 T
25776246 AAAAAACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.47
18 9 0.30
19 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTTTAAAATTAAAAT
Found at i:25776287 original size:35 final size:35
Alignment explanation
Indices: 25776248--25776315 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
25776238 TTAAAATTAA
25776248 AAAACT-ATTTTTTTTAATTTTAACT-TCAAATCTGC
1 AAAACTCATTTTTTTTAA-TTTAA-TATCAAATCTGC
* *
25776283 AAAACTCGTTTTTTTTCATTTAATATCAAATCT
1 AAAACTCATTTTTTTTAATTTAATATCAAATCT
25776316 ATAGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 19 0.66
36 9 0.31
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.49
Consensus pattern (35 bp):
AAAACTCATTTTTTTTAATTTAATATCAAATCTGC
Found at i:25776482 original size:12 final size:13
Alignment explanation
Indices: 25776457--25776503 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
25776447 TTATCGAACA
*
25776457 AAATAAATAAATAT
1 AAATAAA-ATATAT
25776471 AAATAAAAATATAT
1 AAAT-AAAATATAT
25776485 AAAATAAAATATAT
1 -AAATAAAATATAT
25776499 AAATA
1 AAATA
25776504 GAATGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 18 0.60
15 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAAATATAT
Found at i:25776495 original size:20 final size:20
Alignment explanation
Indices: 25776456--25776492 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25776446 GTTATCGAAC
25776456 AAAATAAATAAATATAAATA
1 AAAATAAATAAATATAAATA
*
25776476 AAAATATATAAA-ATAAA
1 AAAATAAATAAATATAAA
25776493 ATATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAAATAAATATAAATA
Found at i:25786851 original size:28 final size:28
Alignment explanation
Indices: 25786820--25786878 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
25786810 TCATAAAGGC
25786820 ATTCCTTTCAGA-TTTCGCCACAAAAGCT
1 ATTCCTTTCAGAGTTT-GCCACAAAAGCT
*
25786848 ATT-CTTTCATAGTTTGCCACAAAAGCT
1 ATTCCTTTCAGAGTTTGCCACAAAAGCT
25786875 ATTC
1 ATTC
25786879 TTAGTTGTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (28 bp):
ATTCCTTTCAGAGTTTGCCACAAAAGCT
Found at i:25799733 original size:9 final size:9
Alignment explanation
Indices: 25799669--25799803 Score: 58
Period size: 10 Copynumber: 14.2 Consensus size: 9
25799659 TTTTATACTT
25799669 AAAATCATAA
1 AAAAT-ATAA
*
25799679 AAATATTTAA
1 AAA-ATATAA
25799689 AATAATAATAA
1 AA-AAT-ATAA
*
25799700 AAAAT-TAC
1 AAAATATAA
* *
25799708 AAATTACAA
1 AAAATATAA
*
25799717 AAACTATAA
1 AAAATATAA
25799726 AAAATATATA
1 AAAATATA-A
* **
25799736 AAAGT-GCA
1 AAAATATAA
*
25799744 AAAATAATTA
1 AAAAT-ATAA
*
25799754 AAAATATTAT
1 AAAATA-TAA
25799764 AAAATATAA
1 AAAATATAA
*
25799773 AAAAGTGTAA
1 AAAA-TATAA
*
25799783 AAAATTTATA
1 AAAATATA-A
*
25799793 AAATTATAA
1 AAAATATAA
25799802 AA
1 AA
25799804 TTACATGAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 21
0.68 0.16 0.15
Matches are distributed among these distances:
8 11 0.12
9 28 0.30
10 46 0.49
11 8 0.09
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAATATAA
Found at i:25799768 original size:38 final size:36
Alignment explanation
Indices: 25799708--25799804 Score: 104
Period size: 38 Copynumber: 2.6 Consensus size: 36
25799698 AAAAAATTAC
* *
25799708 AAATTACAAAAACTATAAAAAATATATAAAAGTGCAAAA
1 AAATTA-AAAAA-T-TATAAAATATAAAAAAGTGCAAAA
*
25799747 ATAATTAAAAATATTATAAAATATAAAAAAGTGTAAAA
1 A-AATTAAAAA-ATTATAAAATATAAAAAAGTGCAAAA
* *
25799785 AATTTATAAAATTATAAAAT
1 AAATTAAAAAATTATAAAAT
25799805 TACATGAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 10 0.20
37 7 0.14
38 22 0.43
39 6 0.12
40 6 0.12
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (36 bp):
AAATTAAAAAATTATAAAATATAAAAAAGTGCAAAA
Found at i:25800115 original size:2 final size:2
Alignment explanation
Indices: 25800108--25800134 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25800098 NNNNNNNNNN
25800108 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
25800135 AACAATTTTT
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:25800361 original size:22 final size:22
Alignment explanation
Indices: 25800333--25800380 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
25800323 AAATTTTTAA
25800333 ATTTTTTTTGTAATTTTATATC
1 ATTTTTTTTGTAATTTTATATC
* * *
25800355 ATTTTTTTTGTATTTTTGTATT
1 ATTTTTTTTGTAATTTTATATC
25800377 ATTT
1 ATTT
25800381 ATTTGAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (22 bp):
ATTTTTTTTGTAATTTTATATC
Found at i:25802388 original size:13 final size:14
Alignment explanation
Indices: 25802357--25802387 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25802347 TTAGATGTGA
25802357 TTTTAAAATAATTT
1 TTTTAAAATAATTT
25802371 TTTTAAAATAATTT
1 TTTTAAAATAATTT
25802385 TTT
1 TTT
25802388 AGGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAAAATAATTT
Found at i:25805916 original size:90 final size:89
Alignment explanation
Indices: 25805822--25806008 Score: 286
Period size: 89 Copynumber: 2.1 Consensus size: 89
25805812 GAAAAATAAT
25805822 AAATA-ATAAAACTTTAAAAATTAAAAAAGATATACATTTAAAAGTTCATTTTTTCAATAAAAGT
1 AAATACAT-AAACTTTAAAAATTAAAAAAGATATACA-TTAAAAGTTCATTTTTTCAATAAAAGT
25805886 ACATAAGATTTTATAAAAATACATGC
64 ACATAAGATTTTATAAAAATACATGC
* * **** *
25805912 AAATACATGAAGTTTTTTTATTAAAATAGATATACATTAAAAGTTCATTTTTTCAATAAAAGTAC
1 AAATACATAAACTTTAAAAATTAAAAAAGATATACATTAAAAGTTCATTTTTTCAATAAAAGTAC
25805977 ATAAGATTTTATAAAAATACATGC
66 ATAAGATTTTATAAAAATACATGC
25806001 AAATACAT
1 AAATACAT
25806009 GAAGTTTTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
89 61 0.69
90 26 0.29
91 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (89 bp):
AAATACATAAACTTTAAAAATTAAAAAAGATATACATTAAAAGTTCATTTTTTCAATAAAAGTAC
ATAAGATTTTATAAAAATACATGC
Found at i:25805975 original size:89 final size:90
Alignment explanation
Indices: 25805841--25806028 Score: 360
Period size: 89 Copynumber: 2.1 Consensus size: 90
25805831 AACTTTAAAA
*
25805841 ATTAAAAAAGATATACATTTAAAAGTTCATTTTTTCAATAAAAGTACATAAGATTTTATAAAAAT
1 ATTAAAATAGATATACATTTAAAAGTTCATTTTTTCAATAAAAGTACATAAGATTTTATAAAAAT
25805906 ACATGCAAATACATGAAGTTTTTTT
66 ACATGCAAATACATGAAGTTTTTTT
25805931 ATTAAAATAGATATACA-TTAAAAGTTCATTTTTTCAATAAAAGTACATAAGATTTTATAAAAAT
1 ATTAAAATAGATATACATTTAAAAGTTCATTTTTTCAATAAAAGTACATAAGATTTTATAAAAAT
25805995 ACATGCAAATACATGAAGTTTTTTT
66 ACATGCAAATACATGAAGTTTTTTT
25806020 ATTAAAATA
1 ATTAAAATA
25806029 ATACTTTTAT
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 81 0.84
90 16 0.16
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (90 bp):
ATTAAAATAGATATACATTTAAAAGTTCATTTTTTCAATAAAAGTACATAAGATTTTATAAAAAT
ACATGCAAATACATGAAGTTTTTTT
Found at i:25806854 original size:32 final size:32
Alignment explanation
Indices: 25806810--25806877 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
25806800 ACGTGGAGGA
* *
25806810 TTTAATTAATTTTTT-TAATTATTTTACAAATT
1 TTTAATTAATTTTTTAAAATTATTTTA-AAATG
*
25806842 TTTAATTGATTTTTTAAAATTATTTTAAAATG
1 TTTAATTAATTTTTTAAAATTATTTTAAAATG
25806874 TTTA
1 TTTA
25806878 TAAATTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (32 bp):
TTTAATTAATTTTTTAAAATTATTTTAAAATG
Found at i:25806934 original size:19 final size:20
Alignment explanation
Indices: 25806910--25806957 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
25806900 TCTATAAAAA
25806910 ATAAAAACTATTAA-ATATT
1 ATAAAAACTATTAATATATT
* *
25806929 ATAAAATATTATTAATATGTT
1 ATAAAA-ACTATTAATATATT
25806950 ATTAAAAA
1 A-TAAAAA
25806958 TGAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 7 0.29
21 6 0.25
22 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAAAACTATTAATATATT
Found at i:25807394 original size:20 final size:21
Alignment explanation
Indices: 25807357--25807400 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
25807347 GTAGTAATTT
**
25807357 TTATTAAAAAATTTTAAAA-A
1 TTATTAAAAAATACTAAAATA
*
25807377 TTATTAGAAAATACTAAAATA
1 TTATTAAAAAATACTAAAATA
25807398 TTA
1 TTA
25807401 CAATTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TTATTAAAAAATACTAAAATA
Found at i:25807530 original size:32 final size:32
Alignment explanation
Indices: 25807494--25807555 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
25807484 ATATAATCCC
25807494 TAAAAATCAATTAAGACCTCT-TAAAATAATTT
1 TAAAAATCAATTAAGACCT-TATAAAATAATTT
*
25807526 TAAAAATCAATTAAGTCCTTATAAAATAAT
1 TAAAAATCAATTAAGACCTTATAAAATAAT
25807556 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAAAATCAATTAAGACCTTATAAAATAATTT
Found at i:25807568 original size:30 final size:31
Alignment explanation
Indices: 25807495--25807569 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 31
25807485 TATAATCCCT
*
25807495 AAAAATCAATTAAGACCTCTTAAAATAATTTT
1 AAAAATCAATTAAGACCTCTTAAAATAA-TTA
*
25807527 AAAAATCAATTAAGTCCT-TATAAAATAA-TA
1 AAAAATCAATTAAGACCTCT-TAAAATAATTA
*
25807557 AAAAATTAATTAA
1 AAAAATCAATTAA
25807570 TCTCTCTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 13 0.33
31 1 0.03
32 25 0.64
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAAATCAATTAAGACCTCTTAAAATAATTA
Found at i:25812089 original size:26 final size:26
Alignment explanation
Indices: 25812060--25812111 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
25812050 TATAATATAA
*
25812060 TAAAAATTATTTTAATTATATT-TCAT
1 TAAAAATTA-TTGAATTATATTATCAT
25812086 TAAAAATTATTGAATTATATTATCAT
1 TAAAAATTATTGAATTATATTATCAT
25812112 ATAATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
TAAAAATTATTGAATTATATTATCAT
Found at i:25812090 original size:25 final size:25
Alignment explanation
Indices: 25812034--25812111 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 25
25812024 GAATTTAAAT
* * *
25812034 ATTAAAATTATATTAA-TATAATATA
1 ATTAAAATTATTTTAATTAT-ATTTC
*
25812059 ATAAAAATTATTTTAATTATATTTC
1 ATTAAAATTATTTTAATTATATTTC
*
25812084 ATTAAAAATTA-TTGAATTATATTATC
1 ATT-AAAATTATTTTAATTATATT-TC
25812110 AT
1 AT
25812112 ATAATGATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 30 0.68
26 14 0.32
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (25 bp):
ATTAAAATTATTTTAATTATATTTC
Found at i:25814277 original size:24 final size:23
Alignment explanation
Indices: 25814245--25814300 Score: 89
Period size: 21 Copynumber: 2.5 Consensus size: 23
25814235 GAAAATACAA
25814245 GCAAAACAAGAACATGTGCCTCAT
1 GCAAAACAA-AACATGTGCCTCAT
25814269 GCAAAAC--AACATGTGCCTCAT
1 GCAAAACAAAACATGTGCCTCAT
25814290 GCAAAACAAAA
1 GCAAAACAAAA
25814301 GACCATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 21 0.70
23 2 0.07
24 7 0.23
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (23 bp):
GCAAAACAAAACATGTGCCTCAT
Found at i:25819982 original size:123 final size:124
Alignment explanation
Indices: 25819834--25820080 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 124
25819824 TTTAATTAAT
25819834 ATCTAATTTTAATTTACATTCGAATAAGCCTTCACTACTACAAATTAAAAGAAAAGTAATAATAA
1 ATCTAATTTTAATTTACATTCGAATAAGCCTTCACTACTACAAATTAAAAGAAAAGTAATAATAA
25819899 TTTAAATAAAAGAAAAGAGAATAATAATCCAACAAGTTAAGCCTAAAATTATCGAAAGG
66 TTTAAATAAAAGAAAAGAGAATAATAATCCAACAAGTTAAGCCTAAAATTATCGAAAGG
25819958 ATCTAATTTT-ATTTACATTCGAATAAGCCTTCACTACTACAAATTAAAAGAAAAGTAATAATAA
1 ATCTAATTTTAATTTACATTCGAATAAGCCTTCACTACTACAAATTAAAAGAAAAGTAATAATAA
25820022 TTTAAATAAAAGAAAAGAGAATAATAATCCAACAAGTTAAGCCTAAAATTATCGAAAGG
66 TTTAAATAAAAGAAAAGAGAATAATAATCCAACAAGTTAAGCCTAAAATTATCGAAAGG
25820081 GATGAATTGG
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 113 0.92
124 10 0.08
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.28
Consensus pattern (124 bp):
ATCTAATTTTAATTTACATTCGAATAAGCCTTCACTACTACAAATTAAAAGAAAAGTAATAATAA
TTTAAATAAAAGAAAAGAGAATAATAATCCAACAAGTTAAGCCTAAAATTATCGAAAGG
Found at i:25821057 original size:25 final size:25
Alignment explanation
Indices: 25821029--25821107 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
25821019 GAATCTTCTC
25821029 CGAGCTGAATAAAGGGAAGCTCATG
1 CGAGCTGAATAAAGGGAAGCTCATG
**
25821054 CGAGCT-AAGTAACTGGAAGCTCATG
1 CGAGCTGAA-TAAAGGGAAGCTCATG
* * * *
25821079 TGAGCTGTATAATGGGAAGCTCATA
1 CGAGCTGAATAAAGGGAAGCTCATG
25821104 CGAG
1 CGAG
25821108 TTGTGGTGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 2 0.05
25 41 0.93
26 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.20
Consensus pattern (25 bp):
CGAGCTGAATAAAGGGAAGCTCATG
Found at i:25826310 original size:227 final size:227
Alignment explanation
Indices: 25825915--25826364 Score: 767
Period size: 227 Copynumber: 2.0 Consensus size: 227
25825905 TTTACTCAAT
* *
25825915 CGAACAAATTCTAGTTCATATTCGGACATTGTCATATGACCCTGTTTAAGCTCCAAGAATTTTTT
1 CGAACAAATTCTAGTTCATATTCGGACATTGTCATATGACCCTATTTAAGCTCCAAGAATTCTTT
*
25825980 ACGTTTCTGGTCGAGAAACCTCTGACTGATGTATTTCTTTCAGAACTCAATTTGAAAGAATTCCC
66 ACGTTTCTGGTCGAGAAACCTCTGACTGATATATTTCTTTCAGAACTCAATTTGAAAGAATTCCC
* *
25826045 AAGTAATCTTCTCTTTCGGCACAACAGAAGTTAATGTATTCCATCACTGGTAAGCTGAATCTTTT
131 AAGTAATCCTCTCTTTCGGCACAACAGAAGTTAATGTATTCCACCACTGGTAAGCTGAATCTTTT
25826110 AACAGAGATACTGCACACTTAAGACATTTAGC
196 AACAGAGATACTGCACACTTAAGACATTTAGC
25826142 CGAACAAATTCTAGTTCATATTCGGACATTGTCATATGACCCTATTTAAGCTCCAAGAATTCTTT
1 CGAACAAATTCTAGTTCATATTCGGACATTGTCATATGACCCTATTTAAGCTCCAAGAATTCTTT
* * *
25826207 ACGTTTCTGGTCGAGAAATCTCTGACTGATATATTTCTTT-TGAAACTCAGTTTGAAAGAATTCC
66 ACGTTTCTGGTCGAGAAACCTCTGACTGATATATTTCTTTCAG-AACTCAATTTGAAAGAATTCC
* * *
25826271 CAAGTAATCCTCTCTTTTGGCACAACAGAAGTTAATGTATTCCACCATTGGTAATCTGAATCTTT
130 CAAGTAATCCTCTCTTTCGGCACAACAGAAGTTAATGTATTCCACCACTGGTAAGCTGAATCTTT
* *
25826336 TGACAGAGATATTGCACACTTAAGACATT
195 TAACAGAGATACTGCACACTTAAGACATT
25826365 CAACCAATGA
Statistics
Matches: 209, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
226 1 0.00
227 208 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (227 bp):
CGAACAAATTCTAGTTCATATTCGGACATTGTCATATGACCCTATTTAAGCTCCAAGAATTCTTT
ACGTTTCTGGTCGAGAAACCTCTGACTGATATATTTCTTTCAGAACTCAATTTGAAAGAATTCCC
AAGTAATCCTCTCTTTCGGCACAACAGAAGTTAATGTATTCCACCACTGGTAAGCTGAATCTTTT
AACAGAGATACTGCACACTTAAGACATTTAGC
Found at i:25827692 original size:25 final size:25
Alignment explanation
Indices: 25827608--25827695 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
25827598 ATTCATGTCT
25827608 GCTCATACGAG-TGTA-AACGGGAA
1 GCTCATACGAGCTGTATAACGGGAA
* * *
25827631 GCTCCTCCGAGCT-TAATAAAGGGAA
1 GCTCATACGAGCTGT-ATAACGGGAA
* **
25827656 GCACATGTGAGCTGTATAACGGGAA
1 GCTCATACGAGCTGTATAACGGGAA
25827681 GCTCATACGAGCTGT
1 GCTCATACGAGCTGT
25827696 GGTGTGTCTG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 10 0.20
24 2 0.04
25 37 0.74
26 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
GCTCATACGAGCTGTATAACGGGAA
Found at i:25831149 original size:99 final size:100
Alignment explanation
Indices: 25831025--25831220 Score: 385
Period size: 99 Copynumber: 2.0 Consensus size: 100
25831015 AAGTTATATG
25831025 TTTTATAATTAATTAAATTAAGGTTAAAGTAGTCAAGTAATTAAAATATATATTAGTTAAATAAC
1 TTTTATAATTAATTAAATTAAGGTTAAAGTAGTCAAGTAATTAAAATATATATTAGTTAAATAAC
25831090 TTAAGAAAAGATGATTTTATCATCTTCTCCAAGCC
66 TTAAGAAAAGATGATTTTATCATCTTCTCCAAGCC
25831125 TTTTATAATTAA-TAAATTAAGGTTAAAGTAGTCAAGTAATTAAAATATATATTAGTTAAATAAC
1 TTTTATAATTAATTAAATTAAGGTTAAAGTAGTCAAGTAATTAAAATATATATTAGTTAAATAAC
25831189 TTAAGAAAAGATGATTTTATCATCTTCTCCAA
66 TTAAGAAAAGATGATTTTATCATCTTCTCCAA
25831221 ACCGAATGTT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 84 0.88
100 12 0.12
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (100 bp):
TTTTATAATTAATTAAATTAAGGTTAAAGTAGTCAAGTAATTAAAATATATATTAGTTAAATAAC
TTAAGAAAAGATGATTTTATCATCTTCTCCAAGCC
Found at i:25838795 original size:19 final size:19
Alignment explanation
Indices: 25838767--25838807 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
25838757 AGTGAAGAAA
* *
25838767 AAATATATTGTATAAAAAT
1 AAATAAATTGCATAAAAAT
*
25838786 AAATAAATTGCATTAAAAT
1 AAATAAATTGCATAAAAAT
25838805 AAA
1 AAA
25838808 AAAAGGGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATAAATTGCATAAAAAT
Found at i:25845181 original size:1 final size:1
Alignment explanation
Indices: 25845175--25845205 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
25845165 CTGTATTAAG
25845175 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25845206 ACTAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:25852949 original size:3 final size:3
Alignment explanation
Indices: 25852932--25853000 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
25852922 CTCTTTTTGT
*
25852932 TTA TT- TTA TTTA TTA TTA -TA TTA GTT- TTA TTA -TA TTG TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
**
25852975 TTA CCA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
25853001 TCCATTTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 8 0.15
3 41 0.76
4 5 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25852963 original size:14 final size:14
Alignment explanation
Indices: 25852941--25852993 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
25852931 TTTATTTTAT
25852941 TTATTATTATATTAG
1 TTATTATTATATT-G
25852956 TT-TTATTATATTG
1 TTATTATTATATTG
* *
25852969 TTATTATTACCATTA
1 TTATTATTA-TATTG
25852984 TTATTATTAT
1 TTATTATTAT
25852994 TATTATTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 3 0.09
14 16 0.48
15 14 0.42
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (14 bp):
TTATTATTATATTG
Found at i:25853069 original size:15 final size:15
Alignment explanation
Indices: 25853051--25853112 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
25853041 AGATTTTTTG
25853051 TTATTTTCTTTTTAA
1 TTATTTTCTTTTTAA
*** *
25853066 TTATTTAAATTTTAT
1 TTATTTTCTTTTTAA
*
25853081 TTAGTTTTATTTTTTAA
1 TTA-TTTT-CTTTTTAA
25853098 TTAATTTTCTTTTTA
1 TT-ATTTTCTTTTTA
25853113 TTTCTATTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
15 14 0.40
16 9 0.26
17 11 0.31
18 1 0.03
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (15 bp):
TTATTTTCTTTTTAA
Found at i:25853199 original size:17 final size:18
Alignment explanation
Indices: 25853177--25853210 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25853167 TTATATGTTT
*
25853177 TATTTTA-TTTTATTATG
1 TATTTTACTGTTATTATG
25853194 TATTTTACTGTTATTAT
1 TATTTTACTGTTATTAT
25853211 TTTGTTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (18 bp):
TATTTTACTGTTATTATG
Found at i:25853199 original size:22 final size:20
Alignment explanation
Indices: 25853143--25853200 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 20
25853133 TTTCTTGTTA
25853143 TTATTATTATTTTATTTTTT
1 TTATTATTATTTTATTTTTT
** *
25853163 AGACTTATATGTTTTATTTTATT
1 TTA-TTAT-TATTTTATTTT-TT
25853186 TTATTATGTATTTTA
1 TTATTAT-TATTTTA
25853201 CTGTTATTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 1 0.04
21 4 0.14
22 20 0.71
23 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (20 bp):
TTATTATTATTTTATTTTTT
Found at i:25873880 original size:47 final size:47
Alignment explanation
Indices: 25873815--25873909 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
25873805 AGCTATTTGA
* * *
25873815 AAGTTTTCATTAATTCACTAAATTATTTAGAAGTTTTTATTTCAATC
1 AAGTTTTCATCAAGTCACTAAACTATTTAGAAGTTTTTATTTCAATC
25873862 AAGTTTTCATCAAGTCACTAAACTATTTAGAAGTTTTTATTTCAATC
1 AAGTTTTCATCAAGTCACTAAACTATTTAGAAGTTTTTATTTCAATC
25873909 A
1 A
25873910 CTAGGCACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (47 bp):
AAGTTTTCATCAAGTCACTAAACTATTTAGAAGTTTTTATTTCAATC
Found at i:25880496 original size:26 final size:26
Alignment explanation
Indices: 25880455--25880529 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
25880445 TCTCATCTCT
*
25880455 ATTTTA-CCCTCAGTAAAATTTTGACG
1 ATTTTACCCCT-AGTAAAATTTTGACA
* * *
25880481 ATTTTACCCCTGGTAAATTTTTTGATA
1 ATTTTACCCCTAGTAAA-ATTTTGACA
*
25880508 ATTTTACCCCTATTAAAATTTT
1 ATTTTACCCCTAGTAAAATTTT
25880530 CAAAAATATG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.38
27 25 0.62
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.45
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:25880688 original size:6 final size:6
Alignment explanation
Indices: 25880677--25880710 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
25880667 AAATGAATCG
* *
25880677 TTTTCA TTTTCA TTTCCA TTTCCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
25880711 GGAAACCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTTCA
Found at i:25881900 original size:18 final size:18
Alignment explanation
Indices: 25881863--25881907 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
25881853 AATAAAAAAC
25881863 AAATAA-AAATCATAAAT
1 AAATAAGAAATCATAAAT
25881880 AAATAAGAAAT-ATAAATT
1 AAATAAGAAATCATAAA-T
*
25881898 AAAAAAGAAA
1 AAATAAGAAA
25881908 AATGGATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAGAAATCATAAAT
Found at i:25883936 original size:35 final size:35
Alignment explanation
Indices: 25883874--25883959 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
25883864 TTTTATTTGT
*
25883874 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
25883907 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
* *
25883943 -TGATATTATATTATTAA
1 TTTATATTATATAATTAA
25883960 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.09
34 11 0.24
35 25 0.56
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:25883945 original size:25 final size:23
Alignment explanation
Indices: 25883901--25883961 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
25883891 TGATATTTAA
*
25883901 ATATAATTTATATTATATGA-ATTT
1 ATATAA-TTAAATTATATGATA-TT
25883925 ATGATAATTAAATTATAATGATATT
1 AT-ATAATTAAATTAT-ATGATATT
*
25883950 ATATTATTAAAT
1 ATATAATTAAAT
25883962 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.59
25 12 0.38
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTAAATTATATGATATT
Found at i:25889586 original size:35 final size:34
Alignment explanation
Indices: 25889524--25889593 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 34
25889514 TTTTATTTGT
*
25889524 TTTAATTATATAATTAATGATATTTAAA-TATAA
1 TTTAATTATATAATTAATGATAATTAAATTATAA
*
25889557 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTA-ATTATAT-AATTAATGATAATTAAATTATAA
25889593 T
1 T
25889594 GATATTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 4 0.12
34 7 0.22
35 15 0.47
36 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (34 bp):
TTTAATTATATAATTAATGATAATTAAATTATAA
Found at i:25889599 original size:35 final size:34
Alignment explanation
Indices: 25889528--25889609 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
25889518 ATTTGTTTTA
* *
25889528 ATTATATAATTAATGATATTTAAATATAATTTAT
1 ATTATATAATTAATGATAATTAAATATAATTGAT
*
25889562 ATTATATGAATTTATGATAATTAAATTATAA-TGAT
1 ATTATAT-AATTAATGATAATTAAA-TATAATTGAT
* *
25889597 ATTGTATTATTAA
1 ATTATATAATTAA
25889610 ATAAATCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 11 0.28
35 24 0.60
36 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (34 bp):
ATTATATAATTAATGATAATTAAATATAATTGAT
Found at i:25890621 original size:6 final size:6
Alignment explanation
Indices: 25890610--25890650 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
25890600 GTGTGTTGAA
*
25890610 TACTGT TACTGT TACTGT TACTGC TACTGT TACTGAT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACT
25890651 ATTTAGGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:25895330 original size:18 final size:17
Alignment explanation
Indices: 25895289--25895335 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
25895279 GTCGTTCGTT
*
25895289 TTCAAAACATTATTCAT
1 TTCAAAACATTATTCAA
*
25895306 TTACAAAATCGTTATTCAA
1 TT-CAAAA-CATTATTCAA
25895325 TTCAAAACATT
1 TTCAAAACATT
25895336 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 10 0.40
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (17 bp):
TTCAAAACATTATTCAA
Found at i:25895544 original size:14 final size:15
Alignment explanation
Indices: 25895468--25895544 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
25895458 GATTGCCAGT
*
25895468 AAAATG-TTTTCCGG
1 AAAATGATTTTCTGG
25895482 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
25895496 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
25895516 AAAATGATTTGCTGG
1 AAAATGATTTTCTGG
25895531 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
25895545 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.51
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:25902379 original size:475 final size:472
Alignment explanation
Indices: 25901489--25902438 Score: 1747
Period size: 475 Copynumber: 2.0 Consensus size: 472
25901479 AACAAGGGAT
* *
25901489 TGTGAATGTAGTAAAAAGTTTGATGTTTAGTTATTTCATCATGTAAAAGTATAGACGAAAAATGG
1 TGTGAATGTAGTAAAAAGTTTGATGTTTAGTTATTTCATCATGTAAAAGTACAAACGAAAAATGG
25901554 AAAAACATTATGTAGGCCCCGAAAGAACTTACATGTGAATGACATGTTGGTGCCCTAGAACAGAC
66 AAAAACATTATGTAGGCCCCGAAAGAACTTACATGTGAATGACATGTTGGTGCCCTAGAACAGAC
* *
25901619 AACACTGCAACAAAATTATGAACAAAATTTCAGATCGGCAAGACATGGTAATGGTCGAGAAATAT
131 AACACTGCAACAAAATTATGAAAAAAATTTCAGATCGGCAAGACATGGTAATGGTCGAGAAACAT
* * *
25901684 ATAAGATACAAGTCAGTAATATTTTATAGTGATATACTTACAAAGACCAAGCAGGGCCAAAATTA
196 ATAAAATACAAGTCAGTAATATCTTATAGTGATATACTTACAAAGACCAAGCAAGGCCAAAATTA
* * *
25901749 GCATCACTGCTGCCACGGAGATCAATGCCAATTGCCTGAAAACAAATTTGAAATACTTTTATTTG
261 GCATCACTGCTGCCACGGAGATCAATGCCAATCGCCTGAAAACAAATTCGAAATACTTTGATTTG
25901814 CATACTAGTTTGACAATAATGAGGCAATATCAAATGGTTTAGGGGGACTATACACAGCATTGAAG
326 CATACTAGTTTGACAATAATGAGGCAATATCAAATGGTTTAGGGGGACTATACACAGCATTGAAG
*
25901879 ACTCTTCTTATTTTGACAGCGTTTTCATCGGTCTTCTCTCTAAGTGTATCTGCTGCTGCATTTAG
391 ACTCTTCTTATTTTGACAGCGTTTTCATCGGTCTTCTCTATAAGTGTA--T-CTGCTGCATTTAG
25901944 ATCTATGTTCAACTTGTCAG
453 ATCTATGTTCAACTTGTCAG
*
25901964 TGTGAATGTAGTAAAAAGTTTGATGTTTAGTTATTTCATCATGTAAAAGTACAAACGGAAAATGG
1 TGTGAATGTAGTAAAAAGTTTGATGTTTAGTTATTTCATCATGTAAAAGTACAAACGAAAAATGG
25902029 AAAAACATTATGTAGGCCCCGAAAGAACTTACATGTGAATGACATGTTGGTGCCCTAGAACAGAC
66 AAAAACATTATGTAGGCCCCGAAAGAACTTACATGTGAATGACATGTTGGTGCCCTAGAACAGAC
25902094 AACACTGCAACAAAATTATGAAAAAAATTTCAGATCGGCAAGACATGGTAATGGTCGAGAAACAT
131 AACACTGCAACAAAATTATGAAAAAAATTTCAGATCGGCAAGACATGGTAATGGTCGAGAAACAT
25902159 ATAAAATACAAGTCAGTAATATCTTATAGTGATATACTTACAAAGACCAAGCAAGGCCAAAATTA
196 ATAAAATACAAGTCAGTAATATCTTATAGTGATATACTTACAAAGACCAAGCAAGGCCAAAATTA
25902224 GCATCACTGCTGCCACGGAGATCAATGCCAATCGCCTGAAAACAAATTCGAAATACTTTGATTTG
261 GCATCACTGCTGCCACGGAGATCAATGCCAATCGCCTGAAAACAAATTCGAAATACTTTGATTTG
*
25902289 CATGCTAGTTTGACAATAATGAGGCAATATCAAATGGTTTAGGGGGACTATACACAGCATTGAAG
326 CATACTAGTTTGACAATAATGAGGCAATATCAAATGGTTTAGGGGGACTATACACAGCATTGAAG
25902354 ACTCTTCTTATTTTGACAGCGTTTTCATCGGTCTTCTCTATAAGTGTATCTGCTGCATTTAGATC
391 ACTCTTCTTATTTTGACAGCGTTTTCATCGGTCTTCTCTATAAGTGTATCTGCTGCATTTAGATC
*
25902419 TATGTTCAACTTGTCGG
456 TATGTTCAACTTGTCAG
25902436 TGT
1 TGT
25902439 CAGTAATGAC
Statistics
Matches: 461, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
472 35 0.08
473 1 0.00
475 425 0.92
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (472 bp):
TGTGAATGTAGTAAAAAGTTTGATGTTTAGTTATTTCATCATGTAAAAGTACAAACGAAAAATGG
AAAAACATTATGTAGGCCCCGAAAGAACTTACATGTGAATGACATGTTGGTGCCCTAGAACAGAC
AACACTGCAACAAAATTATGAAAAAAATTTCAGATCGGCAAGACATGGTAATGGTCGAGAAACAT
ATAAAATACAAGTCAGTAATATCTTATAGTGATATACTTACAAAGACCAAGCAAGGCCAAAATTA
GCATCACTGCTGCCACGGAGATCAATGCCAATCGCCTGAAAACAAATTCGAAATACTTTGATTTG
CATACTAGTTTGACAATAATGAGGCAATATCAAATGGTTTAGGGGGACTATACACAGCATTGAAG
ACTCTTCTTATTTTGACAGCGTTTTCATCGGTCTTCTCTATAAGTGTATCTGCTGCATTTAGATC
TATGTTCAACTTGTCAG
Found at i:25903054 original size:14 final size:14
Alignment explanation
Indices: 25903035--25903065 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25903025 TAATGATATG
25903035 CCAAAAGAACCAAA
1 CCAAAAGAACCAAA
25903049 CCAAAAGAACCAAA
1 CCAAAAGAACCAAA
25903063 CCA
1 CCA
25903066 CAACGCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.32, G:0.06, T:0.00
Consensus pattern (14 bp):
CCAAAAGAACCAAA
Found at i:25904325 original size:18 final size:18
Alignment explanation
Indices: 25904302--25904349 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
25904292 AGGAATGAAG
*
25904302 GAAGGGAGAAGATTGGAT
1 GAAGGGAGAAGACTGGAT
***
25904320 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGACTGGAT
25904338 GAAGGGAGAAGA
1 GAAGGGAGAAGA
25904350 ATGCCTGAGA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.44, T:0.15
Consensus pattern (18 bp):
GAAGGGAGAAGACTGGAT
Found at i:25907868 original size:17 final size:18
Alignment explanation
Indices: 25907842--25907875 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25907832 AAATTTGAGA
25907842 ATAAAAAAATAA-AAATC
1 ATAAAAAAATAAGAAATC
*
25907859 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
25907876 AGAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATC
Found at i:25912785 original size:12 final size:12
Alignment explanation
Indices: 25912768--25912796 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
25912758 AGTAAATAAA
25912768 TAAATGAAATAT
1 TAAATGAAATAT
25912780 TAAATGAAATAT
1 TAAATGAAATAT
25912792 TAAAT
1 TAAAT
25912797 AACACAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
TAAATGAAATAT
Found at i:25914572 original size:51 final size:51
Alignment explanation
Indices: 25914517--25914966 Score: 376
Period size: 51 Copynumber: 8.9 Consensus size: 51
25914507 GTGAAAGTGT
* *
25914517 TGGTCACTTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * * * *
25914568 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * *
25914619 TGGTCACGTGTGTAGTACTGTGTGAATGCTACTACGTGAATTGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * ** * * * * *
25914670 TGGTCACATGTGTAGTACCAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * *
25914721 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * ** * * *
25914772 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATATGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TAA
* * * * *
25914823 TAGTCACGTATGTAGTACTATGTGAAGACTACTACGTGAATTG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-A
* * * *
25914873 TGATCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* *
25914922 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
25914967 ATGATAATAG
Statistics
Matches: 307, Mismatches: 81, Indels: 22
0.75 0.20 0.05
Matches are distributed among these distances:
50 85 0.28
51 219 0.71
52 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:25914693 original size:102 final size:102
Alignment explanation
Indices: 25914516--25914960 Score: 610
Period size: 102 Copynumber: 4.4 Consensus size: 102
25914506 AGTGAAAGTG
* *
25914516 TTGGTCACTTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
*
25914581 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
*
25914618 TTGGTCACGTGTGTAGTACTGTGTGAATGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
*
25914683 AGTACCAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
*
25914720 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
* *
25914785 AGTACTAAGTGAAGGCTACTATATGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* * * * * * * *
25914822 TTAGTCACGTATGTAGTACTATGTGAAGACTACTACGTGAATTG-TAAA-ACTTGATCACGTGTA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATA-ATGGTCACATGTG
* ** ** * **
25914885 TAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATATGTACCG-AGAAGCT
* *
25914922 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
25914961 TATCGAATGA
Statistics
Matches: 311, Mismatches: 30, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
100 35 0.11
101 41 0.13
102 235 0.76
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
Found at i:25921049 original size:11 final size:11
Alignment explanation
Indices: 25921033--25921067 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
25921023 TCCCTTTGAC
25921033 AAAATAGAGAG
1 AAAATAGAGAG
25921044 AAAATAGAGACAG
1 AAAATAGAG--AG
25921057 AAAATAGAGAG
1 AAAATAGAGAG
25921068 GCCTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.63, C:0.03, G:0.26, T:0.09
Consensus pattern (11 bp):
AAAATAGAGAG
Found at i:25921060 original size:13 final size:12
Alignment explanation
Indices: 25921033--25921066 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
25921023 TCCCTTTGAC
25921033 AAAATAGAG-AG
1 AAAATAGAGAAG
25921044 AAAATAGAGACAG
1 AAAATAGAGA-AG
25921057 AAAATAGAGA
1 AAAATAGAGA
25921067 GGCCTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
13 12 0.57
ACGTcount: A:0.65, C:0.03, G:0.24, T:0.09
Consensus pattern (12 bp):
AAAATAGAGAAG
Found at i:25921443 original size:36 final size:35
Alignment explanation
Indices: 25921403--25921474 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
25921393 CATCTCCGGA
25921403 GCTTGGCAAATAAGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTG-AGATAT
* *
25921439 GCTTGGCAAATATGGAAGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
25921474 G
1 G
25921475 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
Found at i:25921847 original size:48 final size:48
Alignment explanation
Indices: 25921772--25921866 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
25921762 TAAAGGAATT
* *
25921772 CTGTTGAATCCTTTATTATTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
25921820 CTGTTGAATCCTTTATTACTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTT
25921867 GAGCAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:25926523 original size:36 final size:35
Alignment explanation
Indices: 25926483--25926554 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
25926473 CATCTCCGGA
25926483 GCTTGGCAAATAAGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTG-AGATAT
* *
25926519 GCTTGGCAAATATGGAAGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
25926554 G
1 G
25926555 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
Found at i:25926927 original size:48 final size:48
Alignment explanation
Indices: 25926852--25926946 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
25926842 TAAGGGAATT
** *
25926852 CTGTTGAATCCTTTATTGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
25926900 CTGTTGAATCCTTTATTACTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTT
25926947 GAGCAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:25927268 original size:5 final size:6
Alignment explanation
Indices: 25927250--25927274 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25927240 GTTTTTGAGC
25927250 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
25927275 CAGAGGCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:25929618 original size:29 final size:28
Alignment explanation
Indices: 25929535--25929618 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
25929525 TTTCGACATG
* *
25929535 TTTTTATTTTTGATGTTTCATTTAAAACTA
1 TTTTTATTTTTGATATTTTA-TT-AAACTA
* * *
25929565 TTTTAAGCTTTTAATATATTT-TTAAACTA
1 TTTTTA-TTTTTGATAT-TTTATTAAACTA
25929594 TTTTTATTTTTGATATCTTTATTAA
1 TTTTTATTTTTGATAT-TTTATTAA
25929619 TTTATGTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
28 11 0.26
29 15 0.36
30 7 0.17
31 7 0.17
32 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (28 bp):
TTTTTATTTTTGATATTTTATTAAACTA
Found at i:25930247 original size:15 final size:15
Alignment explanation
Indices: 25930227--25930257 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25930217 AAACACATTA
25930227 TTTTCTTTTCTTTTT
1 TTTTCTTTTCTTTTT
25930242 TTTTCTTTTCTTTTT
1 TTTTCTTTTCTTTTT
25930257 T
1 T
25930258 GGGTGATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTCTTTTCTTTTT
Found at i:25933595 original size:16 final size:16
Alignment explanation
Indices: 25933574--25933612 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
25933564 TGAATTACTG
25933574 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
25933590 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
25933606 ATTACAG
1 ATTACAG
25933613 TGAACTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:25935858 original size:15 final size:15
Alignment explanation
Indices: 25935838--25935892 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
25935828 CCCTTTTTTA
25935838 TTTTAATTTTAAAAT
1 TTTTAATTTTAAAAT
* *
25935853 TTTTAATTTTTATAT
1 TTTTAATTTTAAAAT
**
25935868 TTCAAATTTTAAAA-
1 TTTTAATTTTAAAAT
25935882 -TTTAATTTTAA
1 TTTTAATTTTAA
25935893 TTATTAGTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
13 9 0.28
15 23 0.72
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTAATTTTAAAAT
Found at i:25935861 original size:21 final size:21
Alignment explanation
Indices: 25935831--25935892 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
25935821 CCCTCCTCCC
*
25935831 TTTTTTATTTTAATTTTAAAA
1 TTTTTAATTTTAATTTTAAAA
* *
25935852 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTAAT-TTTAAAA
* *
25935874 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTAATTTTAA
25935893 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTTAATTTTAATTTTAAAA
Found at i:25936124 original size:28 final size:27
Alignment explanation
Indices: 25936093--25936148 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
25936083 CTATTAAAAT
25936093 AGTAAAATCATTTTTTTTCTATCATAAA
1 AGTAAAATCA-TTTTTTTCTATCATAAA
* *
25936121 AGTAAATTTATTTTTTTCTATCATAAA
1 AGTAAAATCATTTTTTTCTATCATAAA
25936148 A
1 A
25936149 AAATGGGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (27 bp):
AGTAAAATCATTTTTTTCTATCATAAA
Found at i:25937308 original size:2 final size:2
Alignment explanation
Indices: 25937301--25937328 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25937291 TAAGAACTAA
25937301 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
25937329 TACAATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25946728 original size:98 final size:98
Alignment explanation
Indices: 25946515--25946732 Score: 339
Period size: 98 Copynumber: 2.2 Consensus size: 98
25946505 ATAGTGAAAA
* *
25946515 CCATCATTGTCGGGCCATCCGGAATGGTAGAATGAATTGATCATGAATTTCATCATTGTAGAGCC
1 CCATCATTGTCGGGCCATCCGGAATGATAGAATGAATTGATCATGAATTTCATAATTGTAGAGCC
25946580 ATTCGGGATGGTAATATAGGTAAAGTGTGGAAG
66 ATTCGGGATGGTAATATAGGTAAAGTGTGGAAG
* * * *
25946613 CCATCGTCGTCGAGCCATCCGGAATGATAGAATGAATTGATCATGAATGTT-ATAATTGTCGAGC
1 CCATCATTGTCGGGCCATCCGGAATGATAGAATGAATTGATCATGAAT-TTCATAATTGTAGAGC
*
25946677 CATTCGGGATGGTAGTATAGGTAAAGTGTGGAAG
65 CATTCGGGATGGTAATATAGGTAAAGTGTGGAAG
* *
25946711 CCATTATTTTCGGGCCATCCGG
1 CCATCATTGTCGGGCCATCCGG
25946733 GATGGTAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 105 0.98
99 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (98 bp):
CCATCATTGTCGGGCCATCCGGAATGATAGAATGAATTGATCATGAATTTCATAATTGTAGAGCC
ATTCGGGATGGTAATATAGGTAAAGTGTGGAAG
Found at i:25947928 original size:15 final size:15
Alignment explanation
Indices: 25947905--25947936 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25947895 TAATATATAT
*
25947905 ATGCCACAATAATAA
1 ATGCAACAATAATAA
25947920 ATGCAACAATAATAA
1 ATGCAACAATAATAA
25947935 AT
1 AT
25947937 ATAACAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (15 bp):
ATGCAACAATAATAA
Found at i:25947942 original size:15 final size:15
Alignment explanation
Indices: 25947910--25947944 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25947900 TATATATGCC
*
25947910 ACAATAATAAATGCA
1 ACAATAATAAATACA
*
25947925 ACAATAATAAATATA
1 ACAATAATAAATACA
25947940 ACAAT
1 ACAAT
25947945 GGCATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:25949955 original size:44 final size:44
Alignment explanation
Indices: 25949807--25950652 Score: 400
Period size: 44 Copynumber: 19.5 Consensus size: 44
25949797 CTCTAATCCA
* * * *
25949807 CTCCACTACAACTTTAGG-GAGACAAGATTTG-TTCATTTAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTC--TTAGTCTG
* * * * *
25949851 CCCCACTACAATTTTAGG-GGGATAAGACTTGCTTTCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGC-TTCTT-AGTCTG
*
25949896 C-CTCACTGCAGCTTCAGGAG-GATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
* * * * *
25949940 CTCCACCGCAACTTCAAG-GAGATAAGACTAGATTC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* ** * *
25949981 CT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGGTT-TTAATCCT-
1 CTCCACTGCAACTTCAGGAGAGATAAGA--CTTGCTTCTTAGT-CTG
* * * * *
25950024 CTCCACTGCAACTTCAGG-GAGATAAAATTTTCCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CTTGCTTCTT-AGTCTG
25950069 C-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
** * * * * *
25950113 CTCCACCACAACTTCAAG-GAGATAAGACTAGATTC-GA-TCTA
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* ** * *
25950154 CT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGGTT-TTAATCCT-
1 CTCCACTGCAACTTCAGGAGAGATAAGA--CTTGCTTCTTAGT-CTG
* * *
25950197 CTCCACTGCAACTTCAGG-GAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTCTTAGTCTG
* * * * *
25950241 CTCCACTACAACTTCA-GAGAGATAAAATTTTCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CTTGCTTCTT-AGTCTG
25950286 C-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
* * * *
25950330 CTCCACTGCAACTTCAGG-GAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* * * *
25950371 CT-CTCTGCAACTTCA-GAGAGATAAGATCTAAGGTT-TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTCTTAGTCTG
** * * *
25950414 CTCCACTGTTACTTCAGG-GAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTCTTAGTCTG
* * *
25950458 CTCCAATGCAACTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTCTT-AGTCTG
* *
25950503 C-CTCACTGCAACTTTAGGA-TGATAAGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-CTTAGTCTG
* * * * *
25950547 CTCCACTGCAACTTTAGG-GAGATAAGACTAGATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
* * * * *
25950588 CT-CTCTACAACTTCA-GAGAGATGAGATCTGTGATT-TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTCTTAGTCTG
25950631 CTCCACTGCAACTTCAGG-GAGA
1 CTCCACTGCAACTTCAGGAGAGA
25950653 CAGGATTATT
Statistics
Matches: 628, Mismatches: 103, Indels: 142
0.72 0.12 0.16
Matches are distributed among these distances:
39 4 0.01
40 78 0.12
41 28 0.04
42 26 0.04
43 34 0.05
44 319 0.51
45 131 0.21
46 8 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTCTTAGTCTG
Found at i:25950174 original size:173 final size:173
Alignment explanation
Indices: 25949885--25950220 Score: 636
Period size: 173 Copynumber: 1.9 Consensus size: 173
25949875 AGACTTGCTT
* * *
25949885 TCTTCAGTCTGCCTCACTGCAGCTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCA
1 TCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACA
*
25949950 ACTTCAAGGAGATAAGACTAGATTCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
66 ACTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
25950015 TTTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTTTCCA
131 TTTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTTTCCA
25950058 TCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACA
1 TCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACA
25950123 ACTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
66 ACTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
25950188 TTTAATCCTCTCCACTGCAACTTCAGGGAGATA
131 TTTAATCCTCTCCACTGCAACTTCAGGGAGATA
25950221 GGATTATCGG
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 159 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (173 bp):
TCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACA
ACTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGT
TTTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTTTCCA
Found at i:25950286 original size:173 final size:173
Alignment explanation
Indices: 25949886--25950314 Score: 555
Period size: 173 Copynumber: 2.5 Consensus size: 173
25949876 GACTTGCTTT
* * * * * * *
25949886 CTTCAGTCTGCCTCACTGCAGCTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCGCAA
1 CTTCAATCTACCTCACTACAACTTCAGGAGGATAAAACTTCCATACTTAGTCTGCTCCACCGCAA
*
25949951 CTTCAAGGAGATAAGACTAGATTCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT
66 CTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT
* *
25950016 TTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTTTCCAT
131 TTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTATCCAG
* * * * * *
25950059 CTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACCACAA
1 CTTCAATCTACCTCACTACAACTTCAGGAGGATAAAACTTCCATACTTAGTCTGCTCCACCGCAA
25950124 CTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT
66 CTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT
** *
25950189 TTAATCCTCTCCACTGCAACTTCAGGGAGATAGGATTAT-CGG
131 TTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTATCCAG
* * *
25950231 CTTTAATCT-GCTCCACTACAACTTCA-GAGAGATAAAATTTTCCAT-CTTCAGTCTGC-CTCAC
1 CTTCAATCTACCT-CACTACAACTTCAGGAG-GATAAAA-CTTCCATACTT-AGTCTGCTC-CAC
*
25950292 TGCAACTTC-AGGAGGATAAGACT
61 CGCAACTTCAAGGA-GATAAGACT
25950315 TGCTTACTTA
Statistics
Matches: 231, Mismatches: 19, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
171 5 0.02
172 34 0.15
173 192 0.83
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (173 bp):
CTTCAATCTACCTCACTACAACTTCAGGAGGATAAAACTTCCATACTTAGTCTGCTCCACCGCAA
CTTCAAGGAGATAAGACTAGATTCGATCTACTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTT
TTAATCCTCTCCACTGCAACTTCAGGGAGATAAAATTATCCAG
Found at i:25950660 original size:217 final size:217
Alignment explanation
Indices: 25949807--25950661 Score: 1068
Period size: 217 Copynumber: 3.9 Consensus size: 217
25949797 CTCTAATCCA
* * * * * * * * * *
25949807 CTCCACTACAACTTTAGGGAGACAAGATTTGTTCAT-TT-AGTCTGCCCCACTACAATTTTAGGG
1 CTCCACTGCAACTTCAGGGAGATAAAATTT-TCCATCTTCAGTCTGCCTCACTGCAACTTCAGGA
* * * * *
25949870 GGATAAGACTTGCTTTCTTCAGTCTGC-CTCACTGCAGCTTCA-GGAGGATAAGACTTGCTTACT
65 GGATAAGACTTGCTTACTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTAG-ATGC-
* * * * ** *
25949933 TAGTCTGCTCCACCGCAACTTCA-AGGAGATAAGA-CT-A-GATTCGATCTGCT-CTCTGCAACT
125 GA-TCTGCT-CTCTGCAACTTCAGA-GAGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACT
* * * * *
25949993 TCAGAGAGATAAGATCCA-AGGTTTTAATCCT-
187 TCAGGGAGATAGGAT-TATCGGCTTTAAT-CTG
*
25950024 CTCCACTGCAACTTCAGGGAGATAAAATTTTCCATCTTCAGTCTACCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAAATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
** * * *
25950089 GATAAGACTTGCTTACTTAGTCTGCTCCACCACAACTTCAAGGAGATAAGACTAGATTCGATCTA
66 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
*
25950154 CTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCT-CTCCACTGCAACTTCAGGGAG
131 CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAAT-CTGCTCCACTGCAACTTCAGGGAG
25950218 ATAGGATTATCGGCTTTAATCTG
195 ATAGGATTATCGGCTTTAATCTG
* *
25950241 CTCCACTACAACTTCAGAGAGATAAAATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAAATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
25950306 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
66 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
**
25950371 CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCTCCACTGTTACTTCAGGGAGA
131 CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
25950436 TAGGATTATCGGCTTTAATCTG
196 TAGGATTATCGGCTTTAATCTG
* * * * *
25950458 CTCCAATGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAT
1 CTCCACTGCAACTTCAGGGAGATAAAATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
*
25950523 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTG
66 GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
* * ** *
25950588 CTCTCTACAACTTCAGAGAGATGAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGGGAGA
131 CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
25950653 CAGGATTAT
196 TAGGATTAT
25950662 TGGCCACCGA
Statistics
Matches: 566, Mismatches: 59, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
213 20 0.04
214 7 0.01
215 2 0.00
216 18 0.03
217 478 0.84
218 41 0.07
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAAAATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAGGATTATCGGCTTTAATCTG
Found at i:25952945 original size:22 final size:22
Alignment explanation
Indices: 25952917--25952960 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25952907 AATTTCCTTA
25952917 GCCTCTACAGCATCCACGCATC
1 GCCTCTACAGCATCCACGCATC
25952939 GCCTCTACAGCATCCACGCATC
1 GCCTCTACAGCATCCACGCATC
25952961 TCAACAGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
GCCTCTACAGCATCCACGCATC
Found at i:25962006 original size:5 final size:5
Alignment explanation
Indices: 25961996--25962022 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25961986 TACGACCCTT
25961996 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
25962023 AAAATGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:25962550 original size:13 final size:14
Alignment explanation
Indices: 25962532--25962568 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
25962522 ACGATGGCAT
25962532 AAATAATATAAAC-
1 AAATAATATAAACG
25962545 AAATAA-ATAAACG
1 AAATAATATAAACG
25962558 AAACTAATATA
1 AAA-TAATATA
25962569 CATGAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:25965074 original size:19 final size:19
Alignment explanation
Indices: 25965045--25965086 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
25965035 TTTTTAGGAT
*
25965045 TTTTTTAAAAAAATTTATAA
1 TTTTTTAAAAAAATATA-AA
25965065 TTTTTT-AAAAAATATAAA
1 TTTTTTAAAAAAATATAAA
25965083 TTTT
1 TTTT
25965087 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTTTAAAAAAATATAAA
Found at i:25969141 original size:12 final size:12
Alignment explanation
Indices: 25969111--25969143 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25969101 ATGCAACAAG
25969111 AAACCAGCA-GC
1 AAACCAGCATGC
25969122 AAACCAGCATGC
1 AAACCAGCATGC
*
25969134 AGACCAGCAT
1 AAACCAGCAT
25969144 CCAAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.42, C:0.33, G:0.18, T:0.06
Consensus pattern (12 bp):
AAACCAGCATGC
Found at i:25970967 original size:29 final size:29
Alignment explanation
Indices: 25970935--25970990 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
25970925 ACCAATAAAA
25970935 GCCG-TTTCTTTCAAAATTTACCGAAATTG
1 GCCGATTT-TTTCAAAATTTACCGAAATTG
* **
25970964 GCCGATTTTTTGATTATTTACCGAAAT
1 GCCGATTTTTTCAAAATTTACCGAAAT
25970991 GGTCCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (29 bp):
GCCGATTTTTTCAAAATTTACCGAAATTG
Found at i:25971257 original size:51 final size:51
Alignment explanation
Indices: 25971196--25971310 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
25971186 TCCTCTCTAA
*
25971196 TCCTTTCAATTTCCCTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCCTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
25971247 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCCTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
25971298 TCCCCTCAATTTC
1 TCCTCTCAATTTC
25971311 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCCTCTCAATTTCCCTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:25971445 original size:18 final size:18
Alignment explanation
Indices: 25971422--25971484 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
25971412 TAAGTATTAA
25971422 ATTTAATTTTTAAATATT
1 ATTTAATTTTTAAATATT
**
25971440 ATTTAAGATTTTTTTAT-TT
1 ATTT-A-ATTTTTAAATATT
*
25971459 ATTT-ATTTTTAGATAATT
1 ATTTAATTTTTAAAT-ATT
25971477 A-TTAATTT
1 ATTTAATTT
25971485 ATTATTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 8 0.22
17 2 0.06
18 11 0.31
19 7 0.19
20 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTAATTTTTAAATATT
Found at i:25972267 original size:7 final size:7
Alignment explanation
Indices: 25972255--25972279 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25972245 AGTCGATTGA
25972255 TATTTAG
1 TATTTAG
25972262 TATTTAG
1 TATTTAG
25972269 TATTTAG
1 TATTTAG
25972276 TATT
1 TATT
25972280 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:25972957 original size:18 final size:18
Alignment explanation
Indices: 25972931--25972965 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25972921 AGGTGTGTTT
* *
25972931 CCTATCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
25972949 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
25972966 TCCTTTTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:25973168 original size:29 final size:29
Alignment explanation
Indices: 25973124--25973212 Score: 135
Period size: 29 Copynumber: 3.0 Consensus size: 29
25973114 CCACCCACTG
25973124 CCCTAACCTAATTTAATTAAAAACCCTAA
1 CCCTAACCTAATTTAATTAAAAACCCTAA
* *
25973153 CCCTAACCTAACTTAATTAAAAACCC-ACTG
1 CCCTAACCTAATTTAATTAAAAACCCTA--A
25973183 CCCTAACCTAATTTAATTAAAAACCCTAA
1 CCCTAACCTAATTTAATTAAAAACCCTAA
25973212 C
1 C
25973213 TTAATTTTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 26 0.49
30 25 0.47
31 1 0.02
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (29 bp):
CCCTAACCTAATTTAATTAAAAACCCTAA
Found at i:25973189 original size:30 final size:30
Alignment explanation
Indices: 25973116--25973208 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
25973106 ACCAATCGCC
25973116 ACCCACTGCCCTAACCTAATTTAATTAAAA
1 ACCCACTGCCCTAACCTAATTTAATTAAAA
* *
25973146 A-CC-CTAACCCTAACCTAACTTAATTAAAA
1 ACCCACT-GCCCTAACCTAATTTAATTAAAA
25973175 ACCCACTGCCCTAACCTAATTTAATTAAAA
1 ACCCACTGCCCTAACCTAATTTAATTAAAA
25973205 ACCC
1 ACCC
25973209 TAACTTAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.04
29 24 0.43
30 28 0.50
31 2 0.04
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.25
Consensus pattern (30 bp):
ACCCACTGCCCTAACCTAATTTAATTAAAA
Found at i:25973254 original size:29 final size:29
Alignment explanation
Indices: 25973222--25973320 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
25973212 CTTAATTTTA
* *
25973222 CTAACAATTAACTAACTTAATTAAAAACC
1 CTAACCATTAACTAATTTAATTAAAAACC
* *
25973251 CTAACC-CTAGCCTAATTTAATTAAAAACC
1 CTAACCATTA-ACTAATTTAATTAAAAACC
* *
25973280 CTAACCCTAAACTAATTTAATTAAAAACC
1 CTAACCATTAACTAATTTAATTAAAAACC
25973309 CTAACCATTAAC
1 CTAACCATTAAC
25973321 ACAATTTTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.03
29 56 0.95
30 1 0.02
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (29 bp):
CTAACCATTAACTAATTTAATTAAAAACC
Found at i:25973472 original size:55 final size:55
Alignment explanation
Indices: 25973309--25973517 Score: 307
Period size: 55 Copynumber: 3.8 Consensus size: 55
25973299 ATTAAAAACC
** *
25973309 CTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTC-ATAAATTTTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTA-CATAATTCGAT-AATTTTA
* *
25973365 CTAACCATTAATACAATTTTTGG-CTTAACTAATTTTAC-TAATTTGATAATTTTA
1 CTAACCATTAACACAATTTTTGGACTTAA-TAATTTTACATAATTCGATAATTTTA
*
25973419 CTAACCATTAACATAATTTTTGGACTTAATAATTTTACATAATTCGATAATTTTA
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTCGATAATTTTA
*
25973474 CTAACCATTAACACAATTGTTGGACTTAATAATTTTACATAATT
1 CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATT
25973518 TTACATAATG
Statistics
Matches: 140, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
54 41 0.29
55 69 0.49
56 30 0.21
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (55 bp):
CTAACCATTAACACAATTTTTGGACTTAATAATTTTACATAATTCGATAATTTTA
Found at i:25973517 original size:10 final size:10
Alignment explanation
Indices: 25973502--25973526 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25973492 GTTGGACTTA
25973502 ATAATTTTAC
1 ATAATTTTAC
25973512 ATAATTTTAC
1 ATAATTTTAC
25973522 ATAAT
1 ATAAT
25973527 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:25973549 original size:109 final size:109
Alignment explanation
Indices: 25973326--25973530 Score: 245
Period size: 109 Copynumber: 1.9 Consensus size: 109
25973316 TTAACACAAT
** * * *
25973326 TTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACTAACCATTAATACAATTTTTGGCTT
1 TTTTGGACTTAATAATTTTAGCATAATTCATAAATTTTACTAACCATTAACACAATTGTTGGCTT
* * * * *
25973391 AACTAATTTTACTAATTTGATAATTTTACTAACCATTAACATAAT
66 AACTAATTTTACTAATTTCATAATGTTACGAACCAGTAACAT-AG
25973436 TTTTGGACTTAATAATTTTA-CATAATTCGAT-AATTTTACTAACCATTAACACAATTGTTGGAC
1 TTTTGGACTTAATAATTTTAGCATAATTC-ATAAATTTTACTAACCATTAACACAATTGTTGG-C
25973499 TTAA-TAATTTTACATAATTTTACATAATGTTA
64 TTAACTAATTTTAC-TAA-TTT-CATAATGTTA
25973531 GATTTGGTAA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
109 42 0.51
110 30 0.36
111 3 0.04
112 8 0.10
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (109 bp):
TTTTGGACTTAATAATTTTAGCATAATTCATAAATTTTACTAACCATTAACACAATTGTTGGCTT
AACTAATTTTACTAATTTCATAATGTTACGAACCAGTAACATAG
Found at i:25976939 original size:124 final size:124
Alignment explanation
Indices: 25976629--25976979 Score: 614
Period size: 124 Copynumber: 2.8 Consensus size: 124
25976619 CCCAAACTTG
*
25976629 CTACTGTAGCAAAATCGCGTCCACGATGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGACGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
25976694 TAGAAGCGATTTTATACTATTTGTTCAGAAATGTCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
* *
25976754 CAACTGTAGCAAAATTGCGTCCACGACGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGACGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
25976819 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
*
25976878 CTACTGTAGCAAAATCGCGTCCACGA-GGACGCGATTTCACAATTTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAATCGCGTCCACGACGG-CACGATTTCACAATTTCTTCTCAAATAGCATCCTG
*
25976942 GTAGAAGTGATTTTATACTATTTGCTCAGAAACGTCAA
65 GTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
25976980 CTCAAAATAA
Statistics
Matches: 216, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
123 2 0.01
124 119 0.55
125 95 0.44
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGACGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:25977470 original size:13 final size:13
Alignment explanation
Indices: 25977452--25977477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25977442 TTATAAAATT
25977452 TTTACATTTTACA
1 TTTACATTTTACA
25977465 TTTACATTTTACA
1 TTTACATTTTACA
25977478 AAGCTCCAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACATTTTACA
Found at i:25997211 original size:21 final size:20
Alignment explanation
Indices: 25997175--25997236 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
25997165 TTATTACATA
*
25997175 TTTAAATTTTTT-AATAATT
1 TTTAACTTTTTTAAATAATT
25997194 TTTATACTTTTTTAAATAATT
1 TTTA-ACTTTTTTAAATAATT
* *
25997215 ATTAACTTTTTTATAT-ATT
1 TTTAACTTTTTTAAATAATT
25997234 TTT
1 TTT
25997237 TTTAATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.24
20 18 0.49
21 10 0.27
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAACTTTTTTAAATAATT
Found at i:25997244 original size:32 final size:31
Alignment explanation
Indices: 25997192--25997254 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
25997182 TTTTTAATAA
25997192 TTTTTATACTTTTTTAAATAATTATTA-ACTT
1 TTTTTATACTTTTTTAAATAATT-TTACACTT
* *
25997223 TTTTATATATTTTTTTTAATAATTTTACACTT
1 TTTT-TATACTTTTTTAAATAATTTTACACTT
25997255 ACCTAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTATACTTTTTTAAATAATTTTACACTT
Found at i:26008867 original size:14 final size:14
Alignment explanation
Indices: 26008848--26008876 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26008838 TTCTTTTCTT
26008848 CATTTCAGGTAATA
1 CATTTCAGGTAATA
26008862 CATTTCAGGTAATA
1 CATTTCAGGTAATA
26008876 C
1 C
26008877 TAAATTGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (14 bp):
CATTTCAGGTAATA
Found at i:26012621 original size:23 final size:23
Alignment explanation
Indices: 26012595--26012639 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
26012585 AAAATTTTAA
*
26012595 TTAAATTTTAAAGAAAACATAAG
1 TTAAAGTTTAAAGAAAACATAAG
**
26012618 TTAAAGTTTAATTAAAACATAA
1 TTAAAGTTTAAAGAAAACATAA
26012640 AATAAACATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAAGTTTAAAGAAAACATAAG
Found at i:26015772 original size:3 final size:3
Alignment explanation
Indices: 26015752--26015816 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
26015742 TAATCACTTA
* * *
26015752 ATT ATT TTT ATC ATT ATT ATT -TGCT ATT ATT ATT ATT ATTT ACT ATTT
1 ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT A-TT ATT A-TT
*
26015800 ATT ATT GTT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
26015817 ATTTGATTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 1 0.02
3 41 0.84
4 6 0.12
5 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:26015786 original size:19 final size:20
Alignment explanation
Indices: 26015758--26015890 Score: 78
Period size: 19 Copynumber: 6.5 Consensus size: 20
26015748 CTTAATTATT
* *
26015758 TTTATCATTATTATTTGCTA
1 TTTATTATTATTATTTACTA
26015778 -TTATTATTATTATTTACTA
1 TTTATTATTATTATTTACTA
* *
26015797 TTTATTATTGTTA-TTATTA
1 TTTATTATTATTATTTACTA
*
26015816 TATT-TGATTA-TATTTAGCTA
1 T-TTATTATTATTATTTA-CTA
*
26015836 TATATATATATGTATTACTTTATTA
1 T-T-TAT-TAT-TATTA-TTTACTA
* * * *
26015861 TTTACTATAATTTTTTACTG
1 TTTATTATTATTATTTACTA
26015881 TTT-TTATTAT
1 TTTATTATTAT
26015891 ATATGTTCAT
Statistics
Matches: 87, Mismatches: 16, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
18 2 0.02
19 35 0.40
20 26 0.30
21 4 0.05
22 4 0.05
23 4 0.05
24 3 0.03
25 5 0.06
26 4 0.05
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTATTATTATTATTTACTA
Found at i:26016125 original size:2 final size:2
Alignment explanation
Indices: 26016118--26016147 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26016108 TGAAACTCTC
26016118 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
26016148 TATTTGCTTT
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:26020411 original size:35 final size:35
Alignment explanation
Indices: 26020346--26020423 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
26020336 GAGTTCAGAT
26020346 TCAATAAAAAAGAAAAAAAAGAAATCAAAATCAAAAA
1 TCAA-AAAAAAGAAAAAAAAGAAATCAAAAT-AAAAA
* * * *
26020383 TCAAAAAAAAGAGAAAAAA-TAATTAAAATGAAAA
1 TCAAAAAAAAGAAAAAAAAGAAATCAAAATAAAAA
26020417 T-AAAAAA
1 TCAAAAAA
26020424 TGATGAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 6 0.16
34 5 0.14
35 8 0.22
36 14 0.38
37 4 0.11
ACGTcount: A:0.76, C:0.05, G:0.06, T:0.13
Consensus pattern (35 bp):
TCAAAAAAAAGAAAAAAAAGAAATCAAAATAAAAA
Found at i:26020421 original size:22 final size:21
Alignment explanation
Indices: 26020396--26020437 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26020386 AAAAAAAGAG
26020396 AAAAAATAATTAAAATGAAAAT
1 AAAAAATAA-TAAAATGAAAAT
* *
26020418 AAAAAATGATGAAATGAAAA
1 AAAAAATAATAAAATGAAAA
26020438 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (21 bp):
AAAAAATAATAAAATGAAAAT
Found at i:26021357 original size:7 final size:7
Alignment explanation
Indices: 26021345--26021387 Score: 77
Period size: 7 Copynumber: 6.0 Consensus size: 7
26021335 GAAAAAAATG
26021345 TGAAAAA
1 TGAAAAA
26021352 TGAAAAAA
1 TG-AAAAA
26021360 TGAAAAA
1 TGAAAAA
26021367 TGAAAAA
1 TGAAAAA
26021374 TGAAAAA
1 TGAAAAA
26021381 TGAAAAA
1 TGAAAAA
26021388 GTAAAAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 28 0.80
8 7 0.20
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:26021539 original size:42 final size:42
Alignment explanation
Indices: 26021490--26021590 Score: 193
Period size: 42 Copynumber: 2.4 Consensus size: 42
26021480 TTGATCGAAA
26021490 TGGGGCATGAGGTGATCAGTACAACTCGAATTTTGATCATAT
1 TGGGGCATGAGGTGATCAGTACAACTCGAATTTTGATCATAT
*
26021532 TGGGGCATGAGGTGATCAGTGCAACTCGAATTTTGATCATAT
1 TGGGGCATGAGGTGATCAGTACAACTCGAATTTTGATCATAT
26021574 TGGGGCATGAGGTGATC
1 TGGGGCATGAGGTGATC
26021591 TTGTTATACC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (42 bp):
TGGGGCATGAGGTGATCAGTACAACTCGAATTTTGATCATAT
Found at i:26023126 original size:44 final size:44
Alignment explanation
Indices: 26022672--26023110 Score: 567
Period size: 44 Copynumber: 10.0 Consensus size: 44
26022662 GGTAAAACCA
* * *
26022672 CAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTA
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * * *
26022716 CAATTCCTATCTCCTTGAACAGCAGTTGGAATAGGTTGAAAATTA
1 CAAGTCCTATCTCCCTGACCAGCAG-TGGAATAGGTTGAAGATTG
* *
26022761 CAAATCCTATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* *
26022805 TAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTT--CGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* *
26022847 CAAGTCTTATCTCCCTGACCAGCAGTGGAATAGGTTAAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * *
26022891 CAAGTCCTATCTCCCTGACCAGTAGTGAAATAGGTTAAAGTTTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
*
26022935 CAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * * *
26022979 TAAGTCCTATCTTCCTGGCTAGCAGTGGAATAGGTGGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * *
26023023 TAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
* * * * *
26023067 TATGTCCTATCTCCCTGAACAACAGTTGAATAGGTTGAAGATTG
1 CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
26023111 TAGATTCTGT
Statistics
Matches: 352, Mismatches: 40, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
42 39 0.11
44 273 0.78
45 40 0.11
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CAAGTCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTG
Found at i:26023644 original size:44 final size:44
Alignment explanation
Indices: 26023368--26023642 Score: 365
Period size: 44 Copynumber: 6.3 Consensus size: 44
26023358 AAGGTACAAA
*
26023368 TCCTATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTGTAAG
1 TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
* * *
26023412 TCCTATTTCCCTGACCAGCAGTGGAATAGGTTAAAGATTGCAAG
1 TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
* *
26023456 TCCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGCAAG
1 TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
* * *
26023500 TCCTATCTCCCTAACCAGCAGTGGAATAGGTGGAGGATTGTAAG
1 TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
* * * * *
26023544 TCCTATCTCCCTGAACAGTAAT-GAATAGGTGGAAGATTGTATG
1 TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
* * *
26023587 TCCTATCTCCCTAAACAGCAGTGGAATAGGTTAAAGATTGT-AG
1 TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
*
26023630 ATCCTGTCTCCCT
1 -TCCTATCTCCCT
26023643 AAGCAGTAGT
Statistics
Matches: 204, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
43 39 0.19
44 165 0.81
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TCCTATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG
Found at i:26023827 original size:516 final size:516
Alignment explanation
Indices: 26022854--26023893 Score: 1724
Period size: 516 Copynumber: 2.0 Consensus size: 516
26022844 TTGCAAGTCT
* *
26022854 TATCTCCCTGACCAGCAGTGGAATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAGTAGTGA
1 TATCTCCCTGACCAGCAGTGAAATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAGCAGTGA
* *
26022919 AATAGGTTAAAGTTTGCAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGTAAGT
66 AATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
* ** * *
26022984 CCTATCTTCCTGGCTAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGAACAGCAGT
131 CCTATCTCCCTAACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGAACAGCAAT
* * *
26023049 GGAATAGGTGGAAGATTGTATGTCCTATCTCCCTGAACAACAGTTGAATAGGTTGAAGATTGTAG
196 GGAATAGGTGGAAGATTGTATGTCCTATCTCCCTAAACAACAGTGGAATAGGTTAAAGATTGTAG
* * * *
26023114 ATTCTGTCTCCCTAGGCTGTAGTGGAGTAGATCGAAGACGGCGAATCTTACTTCCCCAACATTGC
261 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACTTCCCCAACATTGC
* *
26023179 AGTCAAATAGATTGAAGCTACAACAACAAATCTTATTTCTCTGGAGTTGCAGTAGAGTAGATCGC
326 AGTCAAATAGATTGAAGCTACAACAACAAATCTTATTTCTCTGGAGTTGCAGTAGAGCAAATCGC
26023244 ATCAGACTTATCTTTAAAGTTGCAGCAGAACAAGTTGAAGCTACAAGTCTTATCTCTCTAAAGTT
391 ATCAGACTTATCTTTAAAGTTGCAGCAGAACAAGTTGAAGCTACAAGTCTTATCTCTCTAAAGTT
*
26023309 GCAGTGGAGCAGGCTAAAGATAGCAAATTTTGTTCTTTTGAGAAGCTACAAGGTACAAATCC
456 GCAGTGGAGCAGGATAAAGATAGCAAATTTTGTTCTTTTGAGAAGCTA-AAGGTACAAATCC
* * * *
26023371 TATCTCCCTGACCAGCAGTGAAATAGGTTGAAGATTGTAAGTCCTATTTCCCTGACCAGCAGTGG
1 TATCTCCCTGACCAGCAGTGAAATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAGCAGTGA
**
26023436 AATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAGTAGTGGAATAGGTTGAAGATTGCAAGT
66 AATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
* *
26023501 CCTATCTCCCTAACCAGCAGTGGAATAGGTGGAGGATTGTAAGTCCTATCTCCCTGAACAGTAAT
131 CCTATCTCCCTAACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGAACAGCAAT
*
26023566 -GAATAGGTGGAAGATTGTATGTCCTATCTCCCTAAACAGCAGTGGAATAGGTTAAAGATTGTAG
196 GGAATAGGTGGAAGATTGTATGTCCTATCTCCCTAAACAACAGTGGAATAGGTTAAAGATTGTAG
*
26023630 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACTTCCCCAACGTTGC
261 ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACTTCCCCAACATTGC
* * * * *
26023695 AGTCAAATAGGTTGAAGCTACAATAGCGAATCTTATTTCTCTGGAGTTGCGGTAGAGCAAATCGC
326 AGTCAAATAGATTGAAGCTACAACAACAAATCTTATTTCTCTGGAGTTGCAGTAGAGCAAATCGC
* *
26023760 GTCAGACTTATCTTTAAAGTTGCAGCAGAACAAGTTGAAGCTACAAGTCTTATCTC-CTTGAAGT
391 ATCAGACTTATCTTTAAAGTTGCAGCAGAACAAGTTGAAGCTACAAGTCTTATCTCTC-TAAAGT
26023824 TGCAGTGGAGCAGGATAAAGATAGCAAATTTTGTTCTTTTGAGAAGCTAAAGGTACAAATCC
455 TGCAGTGGAGCAGGATAAAGATAGCAAATTTTGTTCTTTTGAGAAGCTAAAGGTACAAATCC
26023886 TATCTCCC
1 TATCTCCC
26023894 CGACATTGCA
Statistics
Matches: 486, Mismatches: 36, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
515 22 0.05
516 286 0.59
517 178 0.37
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (516 bp):
TATCTCCCTGACCAGCAGTGAAATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAGCAGTGA
AATAGGTTAAAGATTGCAAGTCCTATCTCCCTGACCAACAGTGGAATAGGTTGAAGATTGCAAGT
CCTATCTCCCTAACCAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTATCTCCCTGAACAGCAAT
GGAATAGGTGGAAGATTGTATGTCCTATCTCCCTAAACAACAGTGGAATAGGTTAAAGATTGTAG
ATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTACTTCCCCAACATTGC
AGTCAAATAGATTGAAGCTACAACAACAAATCTTATTTCTCTGGAGTTGCAGTAGAGCAAATCGC
ATCAGACTTATCTTTAAAGTTGCAGCAGAACAAGTTGAAGCTACAAGTCTTATCTCTCTAAAGTT
GCAGTGGAGCAGGATAAAGATAGCAAATTTTGTTCTTTTGAGAAGCTAAAGGTACAAATCC
Found at i:26025234 original size:3 final size:3
Alignment explanation
Indices: 26025226--26025278 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
26025216 TAATCACTTA
* *
26025226 ATT ATT ATT ATT ATT ATT ATT ATT -TT ACT ATTT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
26025271 ATT ATT AT
1 ATT ATT AT
26025279 ATTTGATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:26025262 original size:24 final size:24
Alignment explanation
Indices: 26025233--26025288 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
26025223 TTAATTATTA
26025233 TTATTATTATTATTATT-TTACTAT
1 TTATTATTATTATTATTATTA-TAT
*
26025257 TTATTATTGTTATTATTATTATAT
1 TTATTATTATTATTATTATTATAT
26025281 TTGATTAT
1 TT-ATTAT
26025289 ATTTAGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (24 bp):
TTATTATTATTATTATTATTATAT
Found at i:26031437 original size:18 final size:18
Alignment explanation
Indices: 26031414--26031482 Score: 93
Period size: 18 Copynumber: 3.8 Consensus size: 18
26031404 ACATTTAGTA
26031414 TGGAGTTCTAATATGATG
1 TGGAGTTCTAATATGATG
*
26031432 TGGAGTTCTGATATGATG
1 TGGAGTTCTAATATGATG
* * * *
26031450 TGGAGTTATGATATTATA
1 TGGAGTTCTAATATGATG
26031468 TGGAGTTCTAATATG
1 TGGAGTTCTAATATG
26031483 TGATCCCCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.41
Consensus pattern (18 bp):
TGGAGTTCTAATATGATG
Found at i:26041165 original size:2 final size:2
Alignment explanation
Indices: 26041158--26041224 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
26041148 GGTTCAGAGG
26041158 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26041200 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
26041225 TCTTTTCTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Done.