Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005503.1 Hibiscus syriacus cultivar Beakdansim tig00012683_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: 167625
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:986 original size:1 final size:1
Alignment explanation
Indices: 980--1008 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
970 TTCCTCTCTC
980 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1009 ACATTTCGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7118 original size:28 final size:29
Alignment explanation
Indices: 7054--7120 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
7044 TATTAAAATT
*
7054 TCCAAAAAAACATCTTAAATTCCAGAAAA
1 TCCAAAAAAACATCCTAAATTCCAGAAAA
*
7083 TCTAAAAAAAC-TCCTAAATTCCTA-AAAA
1 TCCAAAAAAACATCCTAAATTCC-AGAAAA
*
7111 TCCCAAAAAA
1 TCCAAAAAAA
7121 TCATAAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.55, C:0.22, G:0.01, T:0.21
Consensus pattern (29 bp):
TCCAAAAAAACATCCTAAATTCCAGAAAA
Found at i:19553 original size:20 final size:20
Alignment explanation
Indices: 19528--19565 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
19518 GATTGCCCAG
19528 AGGGTACCGATACCCCTAAT
1 AGGGTACCGATACCCCTAAT
19548 AGGGTACCGATACCCCTA
1 AGGGTACCGATACCCCTA
19566 TGCAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (20 bp):
AGGGTACCGATACCCCTAAT
Found at i:21503 original size:2 final size:2
Alignment explanation
Indices: 21496--21548 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
21486 TCTCAGTAGC
21496 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
21538 AT AT AT AT AT A
1 AT AT AT AT AT A
21549 GAGAGAGAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21553 original size:2 final size:2
Alignment explanation
Indices: 21548--21595 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
21538 ATATATATAT
21548 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21590 AG AG AG
1 AG AG AG
21596 TTGTCACACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22423 original size:18 final size:19
Alignment explanation
Indices: 22390--22429 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
22380 TTTTATTATT
22390 TAAAATATTATGATAGT-A
1 TAAAATATTATGATAGTCA
* *
22408 TAAAATATTTTTATAGTCA
1 TAAAATATTATGATAGTCA
22427 TAA
1 TAA
22430 TTCAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (19 bp):
TAAAATATTATGATAGTCA
Found at i:24005 original size:18 final size:17
Alignment explanation
Indices: 23982--24019 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
23972 AACCCTAAAG
*
23982 AAATAACTAAATAAAATA
1 AAATAAATAAAT-AAATA
24000 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
24017 AAA
1 AAA
24020 GATTGAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:24276 original size:28 final size:28
Alignment explanation
Indices: 24245--24307 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
24235 AACACAAAAG
* * *
24245 AAAAGAAAATAACTACAAA-AAAACTACA
1 AAAAGAAAATAAATAAAAATAAAAATA-A
24273 AAAA-ATAAATAAATAAAAATAAAAATAA
1 AAAAGA-AAATAAATAAAAATAAAAATAA
24301 AAAAGAA
1 AAAAGAA
24308 GATTAAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
27 1 0.03
28 21 0.72
29 7 0.24
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (28 bp):
AAAAGAAAATAAATAAAAATAAAAATAA
Found at i:24293 original size:103 final size:104
Alignment explanation
Indices: 24179--24404 Score: 280
Period size: 112 Copynumber: 2.1 Consensus size: 104
24169 AAAGTAAAAG
* * *
24179 AAAATAGAAATAAAAT-AAAAAGAATATTAAACCGAAAAGAAACAGAAACAACGAAAAACAC-A-
1 AAAATAAAAATAAAATAAAAAAGAAGATTAAACC-AAAA-AAACAGAAACAAAGAAAAACACAAT
*
24241 AAAG-AAAAGAAAATAACTACAAAAAAACTACAAAAAATAA
64 AAAGTAAAAGAAAATAAATACAAAAAAACTACAAAAAATAA
24281 ATAAATAAAAATAAAAATAAAAAAGAAGATTAAACCAAAAAAACAGAAACAAAGAAAAACACAAA
1 A-AAATAAAAAT-AAAATAAAAAAGAAGATTAAACCAAAAAAACAGAAACAAAGAAAAACAC---
* *
24346 ATAAATAAAGTAAAATAAAATAAATATAAAAAAACTACAAAAAATAA
61 ---AATAAAGTAAAAGAAAATAAATACAAAAAAACTACAAAAAATAA
24393 AAAATAAAAATA
1 AAAATAAAAATA
24405 GAACACTATG
Statistics
Matches: 106, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
102 1 0.01
103 30 0.28
104 9 0.08
105 16 0.15
110 2 0.02
111 14 0.13
112 34 0.32
ACGTcount: A:0.74, C:0.08, G:0.06, T:0.12
Consensus pattern (104 bp):
AAAATAAAAATAAAATAAAAAAGAAGATTAAACCAAAAAAACAGAAACAAAGAAAAACACAATAA
AGTAAAAGAAAATAAATACAAAAAAACTACAAAAAATAA
Found at i:24320 original size:56 final size:55
Alignment explanation
Indices: 24284--24404 Score: 99
Period size: 56 Copynumber: 2.2 Consensus size: 55
24274 AAAATAAATA
* * *
24284 AATAAAAATAA-AAA-TAAAAAAGAAGATTAAA-CCAAAAAAAC-AGAAACAAAGAAAA
1 AATAAAAATAATAAAGTAAAAAA-AA-A-TAAATACAAAAAAACTACAAA-AAATAAAA
* * *
24339 ACA-CAAAATAAATAAAGTAAAATAAAATAAATATAAAAAAACTACAAAAAATAAAA
1 A-ATAAAAAT-AATAAAGTAAAAAAAAATAAATACAAAAAAACTACAAAAAATAAAA
24395 AATAAAAATA
1 AATAAAAATA
24405 GAACACTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
55 12 0.23
56 25 0.48
57 9 0.17
58 6 0.12
ACGTcount: A:0.76, C:0.07, G:0.04, T:0.13
Consensus pattern (55 bp):
AATAAAAATAATAAAGTAAAAAAAAATAAATACAAAAAAACTACAAAAAATAAAA
Found at i:24399 original size:25 final size:25
Alignment explanation
Indices: 24343--24402 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
24333 AGAAAAACAC
* *
24343 AAAATAAATAAAGTAAAATAAAATA
1 AAAATAAAAAAACTAAAATAAAATA
* *
24368 AATATAAAAAAACTACAA-AAAATAA
1 AAAATAAAAAAACTAAAATAAAAT-A
24393 AAAATAAAAA
1 AAAATAAAAA
24403 TAGAACACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAATAAAAAAACTAAAATAAAATA
Found at i:26408 original size:19 final size:20
Alignment explanation
Indices: 26384--26433 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
26374 AATGTCGAGT
26384 TAATTTTGTATAAGA-TTTA
1 TAATTTTGTATAAGATTTTA
*
26403 TAATTTTGTATACGATTTTA
1 TAATTTTGTATAAGATTTTA
*
26423 TATTTTTGTAT
1 TAATTTTGTAT
26434 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (20 bp):
TAATTTTGTATAAGATTTTA
Found at i:27303 original size:198 final size:199
Alignment explanation
Indices: 26511--27932 Score: 2663
Period size: 198 Copynumber: 7.1 Consensus size: 199
26501 TTAAGGGTCA
*
26511 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAAACAAGGTGCAC
*
26576 CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
65 CAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
* *
26641 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
129 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
26706 ATAATG
194 ATAATG
26712 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
26777 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
26842 TAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
26907 AATG
196 AATG
26911 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
26976 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
27041 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
27106 TAATG
195 TAATG
27111 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
27176 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
27240 TAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
27305 AATG
196 AATG
27309 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
27373 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
27438 GTAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
27502 TAATG
195 TAATG
27507 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
27572 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
27637 TAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
27701 AATG
196 AATG
27705 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
27770 AATAAAGTGTCGATCCATATGTAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
27835 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
27900 AATG
196 AATG
27904 TGTCGACACTAATATAGTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
27933 CTAATTTAAA
Statistics
Matches: 1194, Mismatches: 21, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
197 60 0.05
198 460 0.39
199 394 0.33
200 232 0.19
201 48 0.04
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
AATG
Found at i:27620 original size:397 final size:399
Alignment explanation
Indices: 26511--27932 Score: 2755
Period size: 397 Copynumber: 3.6 Consensus size: 399
26501 TTAAGGGTCA
*
26511 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAAACAAGGTGCAC
26576 CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
65 CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
26641 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
130 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
26706 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGG
195 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGG
26771 TGCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
260 TGCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
26836 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGT
325 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGT
26901 CTAAATAATG
390 CTAAATAATG
26911 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
26976 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
27041 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
27106 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
27171 GCACCAATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
261 GCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
27235 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTC
326 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTC
27300 TAAATAATG
391 TAAATAATG
27309 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
27373 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
27438 GTAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
27502 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
27567 GCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
261 GCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
27632 TAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTC
326 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTC
27696 TAAATAATG
391 TAAATAATG
27705 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
27770 AATAAAGTGTCGATCCATATGT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
27834 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
27899 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
27933 CTAATTTAAA
Statistics
Matches: 1014, Mismatches: 5, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
396 285 0.28
397 303 0.30
398 140 0.14
399 238 0.23
400 48 0.05
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (399 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
GCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
TAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTC
TAAATAATG
Found at i:29979 original size:184 final size:184
Alignment explanation
Indices: 29400--30109 Score: 1298
Period size: 184 Copynumber: 3.9 Consensus size: 184
29390 CTTTCAACAT
** * * *
29400 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
29465 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
29529 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
29583 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
29648 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
29712 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
29766 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
29831 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
29896 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
29950 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
* * *
30015 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
30080 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
30110 GTAATTTGAA
Statistics
Matches: 512, Mismatches: 13, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
182 39 0.08
183 224 0.44
184 249 0.49
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:32678 original size:23 final size:23
Alignment explanation
Indices: 32647--32710 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
32637 ATAGGTAAAC
*
32647 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
32670 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
32693 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
32711 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:32717 original size:23 final size:23
Alignment explanation
Indices: 32647--32719 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
32637 ATAGGTAAAC
* **
32647 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
32670 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
32693 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
32716 ATAT
1 ATAT
32720 TGTAAGTGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:33080 original size:23 final size:23
Alignment explanation
Indices: 33049--33112 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
33039 ATAGGTAAAC
*
33049 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
33072 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
33095 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
33113 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:33119 original size:23 final size:23
Alignment explanation
Indices: 33049--33121 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
33039 ATAGGTAAAC
* **
33049 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
33072 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
33095 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
33118 ATAT
1 ATAT
33122 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:33320 original size:403 final size:404
Alignment explanation
Indices: 32566--33759 Score: 2281
Period size: 403 Copynumber: 3.0 Consensus size: 404
32556 AAAAAAATTG
*
32566 AAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
1 AAACATGAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
32631 AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
66 AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
*
32696 TAATGTAATAGGTAGTGGTTATATTGT-AAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTTT
131 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
*
32760 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTTAGTGAGTTTTAAGATATTAATTTAGTAA
196 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
* *
32825 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTA
261 TTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
* *
32890 AATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
326 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
*
32955 ATATTGTAGGTGGA
391 ATATTATAGGTGGA
32969 AAACATGAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
1 AAACATGAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
33033 AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
66 AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
33098 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
131 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
33163 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
196 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
33228 TTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
261 TTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
33293 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
326 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
33358 ATATTATAGGTGGA
391 ATATTATAGGTGGA
33372 AAACATGAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
1 AAACATGAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
33437 AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
66 AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
33502 TAATGT-ATAGGTAGTGGTTATATTGTAAAGTGTCTAT-CTTTTTATAAAAGTGTCCATACTTTT
131 TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
33565 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
196 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
33630 TTATAGGCGTATAATGATTTA-TTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
261 TTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
33694 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
326 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
33759 A
391 A
33760 ATAATTCAAA
Statistics
Matches: 781, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
401 109 0.14
402 246 0.31
403 313 0.40
404 113 0.14
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.41
Consensus pattern (404 bp):
AAACATGAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
AATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATA
TAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTT
TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
TTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCA
ATATTATAGGTGGA
Found at i:33484 original size:23 final size:23
Alignment explanation
Indices: 33453--33515 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
33443 ATAGGTAAAC
*
33453 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
33476 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
33499 ATATAATGT-ATAGGTAG
1 ATATAATGTAATAGGTAG
33516 TGGTTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 7 0.20
23 28 0.80
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:33522 original size:22 final size:23
Alignment explanation
Indices: 33453--33524 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
33443 ATAGGTAAAC
* * **
33453 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
33476 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
33499 ATATAATGT-ATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
33521 ATAT
1 ATAT
33525 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 14 0.33
23 29 0.67
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:33825 original size:25 final size:25
Alignment explanation
Indices: 33791--33841 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
33781 ACAACAAATC
*
33791 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
33816 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
33841 A
1 A
33842 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:34111 original size:18 final size:18
Alignment explanation
Indices: 34090--34126 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34080 GTAATTGGAG
34090 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
34108 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
34126 T
1 T
34127 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:34134 original size:24 final size:24
Alignment explanation
Indices: 34082--34128 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34072 TTTCATATGT
* *
34082 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
34106 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
34129 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:34426 original size:39 final size:39
Alignment explanation
Indices: 34383--34469 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
34373 TCCGATGCTC
*
34383 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
34422 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
34461 ATCAAAATC
1 ATCAAAATC
34470 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:34904 original size:21 final size:23
Alignment explanation
Indices: 34873--34934 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
34863 ATAGGTAAAC
*
34873 ATATGATGTAATAGGTAGC-CCT
1 ATATAATGTAATAGGTAGCGCCT
* **
34895 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
34917 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
34935 TGGTTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:34941 original size:23 final size:23
Alignment explanation
Indices: 34895--34943 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
34885 AGGTAGCCCT
*
34895 TATAATGTAATAGGTATCGTTTA
1 TATAATGTAATAGGTATCGGTTA
34918 TATAATGTAATAGGTAGT-GGTTA
1 TATAATGTAATAGGTA-TCGGTTA
34941 TAT
1 TAT
34944 TGTAAAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (23 bp):
TATAATGTAATAGGTATCGGTTA
Found at i:34947 original size:21 final size:21
Alignment explanation
Indices: 34879--34948 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
34869 AAACATATGA
** *
34879 TGTAATAGGTAGCCCTTATAA
1 TGTAATAGGTAGTGCTTATAT
*
34900 TGTAATAGGTA-TCGTTTATAT
1 TGTAATAGGTAGT-GCTTATAT
*
34921 AATGTAATAGGTAGTGGTTATAT
1 --TGTAATAGGTAGTGCTTATAT
34944 TGTAA
1 TGTAA
34949 AGTGTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 21 0.52
23 18 0.45
24 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:35756 original size:31 final size:31
Alignment explanation
Indices: 35720--35779 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
35710 AACTTAAAAG
35720 AGTTTT-GCAATACTGAAATTTAAATAATTTT
1 AGTTTTAG-AATACTGAAATTTAAATAATTTT
35751 AGTTTTAGAATACTGAAATTTAAATAATT
1 AGTTTTAGAATACTGAAATTTAAATAATT
35780 CATACAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTAGAATACTGAAATTTAAATAATTTT
Found at i:36147 original size:22 final size:21
Alignment explanation
Indices: 36122--36163 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36112 ATTTATCAAA
*
36122 TTAATTTATGATTATTTTTTAT
1 TTAA-TTATGATTATATTTTAT
*
36144 TTAATTGTGATTATATTTTA
1 TTAATTATGATTATATTTTA
36164 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTAATTATGATTATATTTTAT
Found at i:36382 original size:20 final size:20
Alignment explanation
Indices: 36334--36395 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
36324 AACTTAAGTA
*
36334 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
36354 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
36372 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
36391 AAAAT
1 AAAAT
36396 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:36428 original size:27 final size:24
Alignment explanation
Indices: 36391--36454 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 24
36381 TATATGATAT
36391 AAAATTAAATATCTATAATATAGTATT-A
1 AAAATT-AATAT-T-TAATATA-T-TTAA
*
36419 AAAATTAATATTTAATTTATTTAA
1 AAAATTAATATTTAATATATTTAA
36443 AAAATTAATATT
1 AAAATTAATATT
36455 AAAATTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 2 0.06
24 14 0.41
25 6 0.18
26 1 0.03
27 5 0.15
28 6 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
AAAATTAATATTTAATATATTTAA
Found at i:45378 original size:9 final size:10
Alignment explanation
Indices: 45366--45403 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
45356 TTTTTTTCAA
45366 CAAAAAAAA-
1 CAAAAAAAAG
45375 CAAAAAAAAGG
1 CAAAAAAAA-G
45386 CACAAAAAAAG
1 CA-AAAAAAAG
45397 CAAAAAA
1 CAAAAAA
45404 GCCAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 5 0.19
11 5 0.19
12 7 0.27
ACGTcount: A:0.79, C:0.13, G:0.08, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAG
Found at i:54716 original size:29 final size:30
Alignment explanation
Indices: 54647--54705 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
54637 CAATTTAAGG
*
54647 CAAAAGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
54677 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
54706 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:54807 original size:21 final size:20
Alignment explanation
Indices: 54781--54879 Score: 119
Period size: 21 Copynumber: 4.8 Consensus size: 20
54771 AAGGTGTCAA
54781 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
54802 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
*
54823 AATGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* *
54844 TAGTGCATCGATGCACCATGC
1 -AGTGCATCCATGCACCCTGC
54865 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
54880 TCAAACACCG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.06
20 14 0.21
21 35 0.51
22 12 0.18
23 3 0.04
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.21
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:54925 original size:20 final size:20
Alignment explanation
Indices: 54900--54973 Score: 112
Period size: 20 Copynumber: 3.6 Consensus size: 20
54890 AATGCAATTA
*
54900 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTGCT
*
54920 GTGCATCGATGCATCATGGCT
1 GTGCATCGATGCATCCT-GCT
54941 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
54961 GTGCATCCATGCA
1 GTGCATCGATGCA
54974 CGAAGGCTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 31 0.63
21 18 0.37
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:54982 original size:41 final size:41
Alignment explanation
Indices: 54900--54982 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
54890 AATGCAATTA
* * *
54900 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCATGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCATCAAGGCT
54941 GTGCATCGATGCATCCTGCTGTGCATCCATGCA-CGAAGGCT
1 GTGCATCGATGCATCCTGCTGTGCATCCATGCATC-AAGGCT
54982 G
1 G
54983 CAACGGCTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.28
Consensus pattern (41 bp):
GTGCATCGATGCATCCTGCTGTGCATCCATGCATCAAGGCT
Found at i:55373 original size:34 final size:32
Alignment explanation
Indices: 55334--55403 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
55324 TTTTGTAAAG
* *
55334 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
55368 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
55400 GGGA
1 GGGA
55404 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:56283 original size:19 final size:20
Alignment explanation
Indices: 56259--56306 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56249 AATGATTTTC
*
56259 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
56278 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
56298 TTTTGAAAA
1 TTTTGAAAA
56307 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:58085 original size:21 final size:21
Alignment explanation
Indices: 58061--58117 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
58051 TTTTACACGG
*
58061 ATGCACCGATGCACTATGGAT
1 ATGCATCGATGCACTATGGAT
*
58082 ATGCATCGATGCACCATGGAT
1 ATGCATCGATGCACTATGGAT
58103 ATGCATCGATGCACT
1 ATGCATCGATGCACT
58118 GACGCTCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
ATGCATCGATGCACTATGGAT
Found at i:66148 original size:10 final size:10
Alignment explanation
Indices: 66135--66175 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
66125 TTAAAAATGA
66135 GTAAAATTGT
1 GTAAAATTGT
66145 GTAAAATTG-
1 GTAAAATTGT
* *
66154 GTAAATTTAT
1 GTAAAATTGT
66164 GTAAAATTGT
1 GTAAAATTGT
66174 GT
1 GT
66176 TTTAAGATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (10 bp):
GTAAAATTGT
Found at i:66150 original size:19 final size:18
Alignment explanation
Indices: 66128--66170 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
66118 AGAAGTGTTA
*
66128 AAAATGAGTAAAATTGTGT
1 AAAATG-GTAAAATTATGT
*
66147 AAAATTGGTAAATTTATGT
1 AAAA-TGGTAAAATTATGT
66166 AAAAT
1 AAAAT
66171 TGTGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.86
20 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (18 bp):
AAAATGGTAAAATTATGT
Found at i:66746 original size:21 final size:21
Alignment explanation
Indices: 66716--66812 Score: 90
Period size: 21 Copynumber: 4.6 Consensus size: 21
66706 GGTATCAAAA
66716 TGCATCCATGCACCCCTACAG
1 TGCATCCATGCACCCCTACAG
* * *
66737 TGCATTCATGCATCCCTGCAG
1 TGCATCCATGCACCCCTACAG
*
66758 TGCATCCATGCACCTGC-ACTAG
1 TGCATCCATGCACC-CCTAC-AG
* * * *
66780 TGTATCGATGCA-CCATGCAG
1 TGCATCCATGCACCCCTACAG
66800 TGCATCCATGCAC
1 TGCATCCATGCAC
66813 TCAAACACCG
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
20 12 0.21
21 33 0.57
22 13 0.22
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
TGCATCCATGCACCCCTACAG
Found at i:66790 original size:22 final size:23
Alignment explanation
Indices: 66756--66812 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
66746 GCATCCCTGC
66756 AGTGCATCCATGCACC-TGCACT
1 AGTGCATCCATGCACCATGCACT
* *
66778 AGTGTATCGATGCACCATG--C-
1 AGTGCATCCATGCACCATGCACT
66798 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
66813 TCAAACACCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
21 1 0.03
22 14 0.47
23 2 0.07
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (23 bp):
AGTGCATCCATGCACCATGCACT
Found at i:66858 original size:20 final size:19
Alignment explanation
Indices: 66833--66906 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
66823 AATGCAATTA
66833 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTT-T
**
66853 GTGCATCGATGCATCAAGGTT
1 GTGCATCGATGCATC--CTTT
66874 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCT-TT
*
66894 GTGCATCCATGCA
1 GTGCATCGATGCA
66907 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
20 29 0.63
21 16 0.35
22 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATCCTTT
Found at i:68977 original size:21 final size:22
Alignment explanation
Indices: 68899--68995 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 22
68889 AAATAAAAAG
68899 AAAATA-ATAATAATATATTATTC
1 AAAATATATAAT-ATATATT-TTC
* *
68922 GAAATATATAATATGTATTTTC
1 AAAATATATAATATATATTTTC
**
68944 AATAA-A-ACCATATATATTTT-
1 AA-AATATATAATATATATTTTC
68964 AAAATATATAATATATA-TTTC
1 AAAATATATAATATATATTTTC
68985 AAAACTATATA
1 AAAA-TATATA
68996 TGTTTAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.03
20 6 0.10
21 23 0.38
22 11 0.18
23 13 0.22
24 5 0.08
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATATATAATATATATTTTC
Found at i:68994 original size:17 final size:16
Alignment explanation
Indices: 68974--69064 Score: 64
Period size: 17 Copynumber: 5.5 Consensus size: 16
68964 AAAATATATA
68974 ATATATATTTCAAAACT
1 ATATATATTT-AAAACT
*
68991 ATATATGTTTAAAA--
1 ATATATATTTAAAACT
* *
69005 A-ATATATATAATA-T
1 ATATATATTTAAAACT
69019 ATATTGATATTTAAAAACTAT
1 ATA-T-ATATTT-AAAAC--T
69040 ATATATATTTCAAAACT
1 ATATATATTT-AAAACT
69057 ATATATAT
1 ATATATAT
69065 ATATATTAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
13 9 0.15
14 2 0.03
15 1 0.02
16 5 0.08
17 23 0.39
18 3 0.05
19 11 0.19
20 1 0.02
21 4 0.07
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATATATTTAAAACT
Found at i:68996 original size:19 final size:18
Alignment explanation
Indices: 68946--69066 Score: 82
Period size: 19 Copynumber: 6.9 Consensus size: 18
68936 GTATTTTCAA
*
68946 TAAAACCATATATAT-TT
1 TAAAACTATATATATATT
*
68963 TAAAATATATAATATATATT
1 TAAAA-CTAT-ATATATATT
*
68983 TCAAAAC--TATATATGTT
1 T-AAAACTATATATATATT
69000 TAAAA--A-ATATATA--
1 TAAAACTATATATATATT
*
69013 TAATA-TATAT-TGATATT
1 TAAAACTATATAT-ATATT
69030 TAAAAACTATATATATATT
1 T-AAAACTATATATATATT
69049 TCAAAACTATATATATAT
1 T-AAAACTATATATATAT
69067 ATATTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
13 4 0.05
14 2 0.02
15 11 0.13
16 4 0.05
17 15 0.18
18 6 0.07
19 33 0.40
20 4 0.05
21 4 0.05
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAAACTATATATATATT
Found at i:69042 original size:21 final size:20
Alignment explanation
Indices: 69016--69077 Score: 81
Period size: 19 Copynumber: 3.0 Consensus size: 20
69006 ATATATATAA
69016 TATATATTGATATTTAAAAAC
1 TATATATT-ATATTTAAAAAC
*
69037 TATATA-TATATTTCAAAAC
1 TATATATTATATTTAAAAAC
69056 TATATATATATATATTAAAAAC
1 TATATAT-TATAT-TTAAAAAC
69078 CAAAATAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 17 0.47
20 1 0.03
21 11 0.31
22 7 0.19
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
TATATATTATATTTAAAAAC
Found at i:71626 original size:25 final size:26
Alignment explanation
Indices: 71577--71626 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
71567 TTACATTCAA
* *
71577 AACTTCAAACACACCTAAAAGAATTT
1 AACTTCAAACAAACATAAAAGAATTT
*
71603 AACTTCAAA-AAACATAAAATAATT
1 AACTTCAAACAAACATAAAAGAATT
71627 CCCTAAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.56, C:0.18, G:0.02, T:0.24
Consensus pattern (26 bp):
AACTTCAAACAAACATAAAAGAATTT
Found at i:74044 original size:47 final size:44
Alignment explanation
Indices: 73969--74058 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
73959 CAGAAATATG
* *
73969 AATTTAAGTCCTTATCTGTAATACATACTACTTATTACTGAAAATTT
1 AATTGAAGTCCTTACCTGT-A-ACATA-TACTTATTACTGAAAATTT
*
74016 AATTGAAGTCCTTACCTGTAATATATACTTATTACTGAAAATT
1 AATTGAAGTCCTTACCTGTAACATATACTTATTACTGAAAATT
74059 GCACATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 1 0.03
47 17 0.43
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (44 bp):
AATTGAAGTCCTTACCTGTAACATATACTTATTACTGAAAATTT
Found at i:75250 original size:17 final size:19
Alignment explanation
Indices: 75228--75262 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
75218 TTTTTATTAA
75228 ATTTAA-TAAATT-TAACC
1 ATTTAATTAAATTGTAACC
75245 ATTTAATTAAATTGTAAC
1 ATTTAATTAAATTGTAAC
75263 ATGTATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTTAATTAAATTGTAACC
Found at i:75351 original size:43 final size:44
Alignment explanation
Indices: 75279--75365 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 44
75269 CTATCTATAA
* *
75279 TTAGATAATTAATTTTTTTTTATATTTATTAAATTTATTTTCCT
1 TTAGATAATTAATATTTGTTTATATTTATTAAATTTATTTTCCT
75323 TTAGATAATTAA-ATTTGTTTATATTTATTAAATTTATTTTCCT
1 TTAGATAATTAATATTTGTTTATATTTATTAAATTTATTTTCCT
75366 AGGTGTCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 29 0.71
44 12 0.29
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (44 bp):
TTAGATAATTAATATTTGTTTATATTTATTAAATTTATTTTCCT
Found at i:76289 original size:79 final size:78
Alignment explanation
Indices: 76153--76313 Score: 227
Period size: 79 Copynumber: 2.1 Consensus size: 78
76143 CCCCACCAAT
*
76153 TTTTGTTATCATTAAAGAATAACAAGACAATTATCTATTTAGGCCTTTAAATTTTAATTTATTTT
1 TTTTGTTATCATTAAAGAATAACAAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTTT
*
76218 GATTTTCCCCCTCAA
66 -ATTTTACCCCTC-A
* * * *
76233 TTTT-TTATCATTAATGAATAATGAGGA-AATTACCTATTTAGGCCTTTAGATTTTAATTTATTT
1 TTTTGTTATCATTAAAGAATAA-CAAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTT
76296 TATTTTACCCCTCA
65 TATTTTACCCCTCA
76310 TTTT
1 TTTT
76314 CTATTGTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
77 5 0.07
78 11 0.15
79 51 0.69
80 7 0.09
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (78 bp):
TTTTGTTATCATTAAAGAATAACAAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTTT
ATTTTACCCCTCA
Found at i:81005 original size:23 final size:23
Alignment explanation
Indices: 80978--81039 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
80968 GCTCATATAG
*
80978 ATGCACCAAAGTGCCACGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
* * *
81001 TTGCACCGTAGTGCCGCGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
81024 ATGCACCGAAGTGCCA
1 ATGCACCGAAGTGCCA
81040 TATAAGATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.26, T:0.16
Consensus pattern (23 bp):
ATGCACCGAAGTGCCACGTAGAA
Found at i:85390 original size:23 final size:23
Alignment explanation
Indices: 85363--85424 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
85353 GCTCGTATAG
85363 ATGCACCGAAGTGCCACGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
* * *
85386 TTGCACCGTAGTGCCGCGTAGAA
1 ATGCACCGAAGTGCCACGTAGAA
*
85409 ATGCACCAAAGTGCCA
1 ATGCACCGAAGTGCCA
85425 TATAAGATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.26, T:0.16
Consensus pattern (23 bp):
ATGCACCGAAGTGCCACGTAGAA
Found at i:86460 original size:24 final size:20
Alignment explanation
Indices: 86403--86480 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
86393 TTTCCCTTGA
*
86403 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
86423 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
86446 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
86467 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
86481 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:87852 original size:24 final size:24
Alignment explanation
Indices: 87807--87856 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
87797 ATAAAGAACC
*
87807 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
87831 AAAATAAAGTTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
87855 AA
1 AA
87857 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:93307 original size:24 final size:24
Alignment explanation
Indices: 93262--93311 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
93252 ATAAAGAACC
*
93262 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
93286 AAAATAAAGTTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
93310 AA
1 AA
93312 CCAACTACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:103390 original size:3 final size:3
Alignment explanation
Indices: 103382--103410 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
103372 TATTTTAATT
103382 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
103411 TAATTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:106559 original size:220 final size:219
Alignment explanation
Indices: 106147--106564 Score: 739
Period size: 220 Copynumber: 1.9 Consensus size: 219
106137 TGTAATGAAG
106147 TGTTGCGGAAGACGACTATCGGATAAAGCAAAATCGCAACTGATAATTTGAGAAAATAAAAATAA
1 TGTTGCGGAAGACGACTATCGGATAAAGCAAAATCGCAACTGATAATTTGAGAAAATAAAAATAA
*
106212 AAATAAAAGAGACACAAAATTTATGTGAAAAACCCTAAATAATATAGGGTAAAAACCACAGGCAA
66 AAATAAAAGAGACACAAAATTTACGTGAAAAACCCTAAATAATATAGGGTAAAAACCACAGGCAA
*
106277 CGGTAAAAAAATTTCACTATGAGAAAATAGGAATTACAATTTCTCTCGATCTACCAAGGAGAAAA
131 CGGTAAAAAAATTTCACTATGAGAAAATAGGAATTACAACTTCTCTCGATCTACCAAGGAGAAAA
106342 CAATAATAATTCTCTGATACCAAT
196 CAATAATAATTCTCTGATACCAAT
* *
106366 TGTTGCGGAAGACGACTATCGGATAGAGTAAAATCGCAACTGATAATTTGAGAAAATAAAAATAA
1 TGTTGCGGAAGACGACTATCGGATAAAGCAAAATCGCAACTGATAATTTGAGAAAATAAAAATAA
* *
106431 AGATAAAAGAGACACAAAATTTACGTGAAAACCCCCTAAATAATATAGGGTAAAAACCAC-GGAC
66 AAATAAAAGAGACACAAAATTTACGTGAAAA-ACCCTAAATAATATAGGGTAAAAACCACAGG-C
* *
106495 AACGGTAAAAGAATTTCACTATGAGAAAATAGGAATTACAACTTCTCTCGATCTATCAAGGAGAA
129 AACGGTAAAAAAATTTCACTATGAGAAAATAGGAATTACAACTTCTCTCGATCTACCAAGGAGAA
106560 AACAA
194 AACAA
106565 CTCTCAAGAA
Statistics
Matches: 189, Mismatches: 8, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
219 94 0.50
220 95 0.50
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (219 bp):
TGTTGCGGAAGACGACTATCGGATAAAGCAAAATCGCAACTGATAATTTGAGAAAATAAAAATAA
AAATAAAAGAGACACAAAATTTACGTGAAAAACCCTAAATAATATAGGGTAAAAACCACAGGCAA
CGGTAAAAAAATTTCACTATGAGAAAATAGGAATTACAACTTCTCTCGATCTACCAAGGAGAAAA
CAATAATAATTCTCTGATACCAAT
Found at i:106746 original size:18 final size:16
Alignment explanation
Indices: 106723--106768 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
106713 TGTTTATGAG
*
106723 GGAATTGGAATTTGTGAA
1 GGAATTGGAATCTGT--A
*
106741 GGAATTGAAATCTGTA
1 GGAATTGGAATCTGTA
106757 GGAATTGGAATC
1 GGAATTGGAATC
106769 CAATTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
18 13 0.52
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (16 bp):
GGAATTGGAATCTGTA
Found at i:124829 original size:17 final size:16
Alignment explanation
Indices: 124808--124849 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
124798 TATAAAGTAA
124808 TAAGATATTAGAAGTG
1 TAAGATATTAGAAGTG
* *
124824 TCAAGAAAATAGAAGTG
1 T-AAGATATTAGAAGTG
124841 T-AGATATTA
1 TAAGATATTA
124850 TTAAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
15 6 0.29
16 1 0.05
17 14 0.67
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (16 bp):
TAAGATATTAGAAGTG
Found at i:126209 original size:70 final size:70
Alignment explanation
Indices: 126084--126222 Score: 181
Period size: 70 Copynumber: 2.0 Consensus size: 70
126074 CCAGAAATTT
* ** * *
126084 ATATCTTTCCGGGATTGAAATTTGGAGGTGATTAGATCTTCGAAAATTGACGAGGTGATAGTTTA
1 ATATCTTTCCGGGATTGAAATCTGGAGACGATTAGATCTTAGAAAATAGACGAGGTGATAGTTTA
126149 CGATA
66 CGATA
* * * *
126154 ATATTTTTCTGGGATTGAAATCTGGAGACGATTAGAATTTTAG-AAATAGATGAGGTGATAGTTT
1 ATATCTTTCCGGGATTGAAATCTGGAGACGATTAG-ATCTTAGAAAATAGACGAGGTGATAGTTT
126218 ACGAT
65 ACGAT
126223 CATTTGTACA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 54 0.92
71 5 0.08
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (70 bp):
ATATCTTTCCGGGATTGAAATCTGGAGACGATTAGATCTTAGAAAATAGACGAGGTGATAGTTTA
CGATA
Found at i:127865 original size:32 final size:31
Alignment explanation
Indices: 127826--127898 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
127816 GGCCTGAGAA
* * *
127826 CCTACCCAAGACAATTCTCGGGGCCACAGAGG
1 CCTACCCAAGAAAAATCTCAGGGCCACAGA-G
* * *
127858 CTTACCCAATAAAAATCTCAGGGCCGCAGAG
1 CCTACCCAAGAAAAATCTCAGGGCCACAGAG
127889 CCTACCCAAG
1 CCTACCCAAG
127899 GGTCGCCTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.32, C:0.34, G:0.21, T:0.14
Consensus pattern (31 bp):
CCTACCCAAGAAAAATCTCAGGGCCACAGAG
Found at i:129362 original size:22 final size:22
Alignment explanation
Indices: 129331--129384 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
129321 AAAATACGGT
*
129331 ATGAACAGTACCATGAACATTA
1 ATGAACAGTACCATGAACAGTA
* *
129353 ATGAATAGTACCGTGAACAGTA
1 ATGAACAGTACCATGAACAGTA
129375 ATGAACAGTA
1 ATGAACAGTA
129385 TTGAACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (22 bp):
ATGAACAGTACCATGAACAGTA
Found at i:129381 original size:10 final size:10
Alignment explanation
Indices: 129331--129391 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
129321 AAAATACGGT
129331 ATGAACAGTA
1 ATGAACAGTA
*
129341 CCATGAACATTA
1 --ATGAACAGTA
*
129353 ATGAATAGTA
1 ATGAACAGTA
*
129363 CCGTGAACAGTA
1 --ATGAACAGTA
129375 ATGAACAGTA
1 ATGAACAGTA
*
129385 TTGAACA
1 ATGAACA
129392 ATACCGTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
10 23 0.57
12 17 0.43
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (10 bp):
ATGAACAGTA
Found at i:129397 original size:32 final size:33
Alignment explanation
Indices: 129332--129405 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
129322 AAATACGGTA
* * *
129332 TGAACAGTACCATGAACATTAATGAATAGTACCG
1 TGAACAGTA-CATGAACAGTAATGAACAATACCG
*
129366 TGAACAGTA-ATGAACAGTATTGAACAATACCG
1 TGAACAGTACATGAACAGTAATGAACAATACCG
129398 TGAACAGT
1 TGAACAGT
129406 GAAAAAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 27 0.75
34 9 0.25
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (33 bp):
TGAACAGTACATGAACAGTAATGAACAATACCG
Found at i:130120 original size:31 final size:31
Alignment explanation
Indices: 130069--130224 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
130059 CCCGAATGAC
* *
130069 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
* * *
130100 TAGTCTATATGTCCCGAAGAACATAGGTAAG
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
130131 CAGTCTATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
130162 TAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
130193 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
130224 C
1 C
130225 CCTCGACCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 113 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:131516 original size:21 final size:21
Alignment explanation
Indices: 131483--131523 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
131473 TTCTGGGCAA
* *
131483 GGGAATCGGTACCCATTCAAG
1 GGGAACCGATACCCATTCAAG
*
131504 GGGAACCGATACCCCTTCAA
1 GGGAACCGATACCCATTCAA
131524 ACGAACAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGAACCGATACCCATTCAAG
Found at i:133201 original size:149 final size:149
Alignment explanation
Indices: 133021--133335 Score: 562
Period size: 149 Copynumber: 2.1 Consensus size: 149
133011 GAGTCGAGGG
* *
133021 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAAACACAT
*
133086 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
*
133150 ATATGGCACTACGGTGTAAT
130 ATATGGCACTACGGTGCAAT
133170 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAAACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAAACACAT
133235 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
133300 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
133319 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
133336 TTTAATTATA
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAAACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:136641 original size:21 final size:21
Alignment explanation
Indices: 136608--136648 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
136598 TTCTGGGCAA
* *
136608 GGGAATCGGTACCCATTCAAG
1 GGGAACCGATACCCATTCAAG
*
136629 GGGAACCGATACCCCTTCAA
1 GGGAACCGATACCCATTCAA
136649 ACGAACAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGAACCGATACCCATTCAAG
Found at i:138331 original size:149 final size:149
Alignment explanation
Indices: 138150--138464 Score: 562
Period size: 149 Copynumber: 2.1 Consensus size: 149
138140 GAGTCGAGGG
* *
138150 TCTACGCGATCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
138215 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATTATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATT
138279 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
138299 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
138364 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATTA
138429 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
138448 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
138465 TGCAATTATA
Statistics
Matches: 160, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATAGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:138465 original size:23 final size:23
Alignment explanation
Indices: 138432--138476 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
138422 ATCATTATAT
*
138432 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
138455 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
138477 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:144494 original size:29 final size:29
Alignment explanation
Indices: 144462--144528 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
144452 TCTCTCCTAT
144462 TTTGCTCACCAAACTTTCAATTTTTCTAA
1 TTTGCTCACCAAACTTTCAATTTTTCTAA
144491 TTTGCTCACCAAACTTTCAATTTTTCTAA
1 TTTGCTCACCAAACTTTCAATTTTTCTAA
144520 TTTGCTCAC
1 TTTGCTCAC
144529 TTAACCTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (29 bp):
TTTGCTCACCAAACTTTCAATTTTTCTAA
Found at i:148850 original size:6 final size:6
Alignment explanation
Indices: 148839--148870 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
148829 CTCCTCTGCA
148839 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CT
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTCC CT
148871 CAGGCCTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTTCC
Found at i:149790 original size:2 final size:2
Alignment explanation
Indices: 149783--149811 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
149773 ATAAAGATAA
149783 AT 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 AT A
149812 AAAGTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:150047 original size:118 final size:119
Alignment explanation
Indices: 149878--150104 Score: 402
Period size: 118 Copynumber: 1.9 Consensus size: 119
149868 TCCGAATCTC
149878 ATATTGATAAATTAATATTTTTTTTAAAAAATTCAAAACTTAGAAGTACATAATACAAATCTAAG
1 ATATTGATAAATTAATA--TTTTTTAAAAAATTCAAAACTTAGAAGTACATAATACAAATCTAAG
*
149943 AAAAAATTAGGAATTTAAATTTAATTTTAAAATAAAAAATATAATTTAATATATAT
64 AAAAAATTAGGAATTTAAATTTAATTTTAAAACAAAAAATATAATTTAATATATAT
*
149999 ATATTGATAAATTAATA-TTTTTAAAAAATTCAAAACTTAGAAGTACATAATACAATTCTAAGAA
1 ATATTGATAAATTAATATTTTTTAAAAAATTCAAAACTTAGAAGTACATAATACAAATCTAAGAA
*
150063 AAATTTAGGAATTTAAATTTAATTTTAAAACAAAAAATATAA
66 AAAATTAGGAATTTAAATTTAATTTTAAAACAAAAAATATAA
150105 AAAACTTAGA
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
118 86 0.83
121 17 0.17
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (119 bp):
ATATTGATAAATTAATATTTTTTAAAAAATTCAAAACTTAGAAGTACATAATACAAATCTAAGAA
AAAATTAGGAATTTAAATTTAATTTTAAAACAAAAAATATAATTTAATATATAT
Found at i:150527 original size:25 final size:25
Alignment explanation
Indices: 150493--150553 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
150483 TCAAATTTTA
150493 TTAACCGAATCTTTCCCATTAACCG
1 TTAACCGAATCTTTCCCATTAACCG
150518 TTAACCGAATCTTTCCCATTAACCG
1 TTAACCGAATCTTTCCCATTAACCG
150543 TTAACCGAATC
1 TTAACCGAATC
150554 AAATGTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (25 bp):
TTAACCGAATCTTTCCCATTAACCG
Found at i:150717 original size:24 final size:24
Alignment explanation
Indices: 150681--150728 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
150671 ATTTGGTCGG
150681 TTAGTTCGATAAAAATCGAGTTCA
1 TTAGTTCGATAAAAATCGAGTTCA
*
150705 TTAGTTCGGTAAAAATCGAGTTCA
1 TTAGTTCGATAAAAATCGAGTTCA
150729 AACACCCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (24 bp):
TTAGTTCGATAAAAATCGAGTTCA
Found at i:153321 original size:45 final size:46
Alignment explanation
Indices: 153225--153332 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 46
153215 ATGCACATAC
* * *
153225 CATGCATCGATGCACTGAGGGTTTTATGAAAACATAGAATGCATTT
1 CATGCATCGATGCACTCAGGCTTTTATGAAAACATAGAATGCACTT
*
153271 GATGCATCGATGCACTCAGGCTATTT-TG-AAACATCA-AATGCACTT
1 CATGCATCGATGCACTCAGGCT-TTTATGAAAACAT-AGAATGCACTT
153316 CATGCATCGATGCACTC
1 CATGCATCGATGCACTC
153333 TTAGTGCACC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 30 0.55
46 22 0.40
47 3 0.05
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGCTTTTATGAAAACATAGAATGCACTT
Found at i:153330 original size:17 final size:19
Alignment explanation
Indices: 153308--153350 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
153298 GAAACATCAA
*
153308 ATGCACT-TCA-TGCATCG
1 ATGCACTCTCAGTGCACCG
*
153325 ATGCACTCTTAGTGCACCG
1 ATGCACTCTCAGTGCACCG
153344 ATGCACT
1 ATGCACT
153351 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (19 bp):
ATGCACTCTCAGTGCACCG
Found at i:153580 original size:17 final size:18
Alignment explanation
Indices: 153551--153592 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
153541 ATTGATCAAC
153551 AACAAGAAACAATA-AGA
1 AACAAGAAACAATAGAGA
* *
153568 AAGAAGAATCAATAGAGA
1 AACAAGAAACAATAGAGA
153586 AACAAGA
1 AACAAGA
153593 GAGAAAGCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.67, C:0.10, G:0.17, T:0.07
Consensus pattern (18 bp):
AACAAGAAACAATAGAGA
Found at i:160177 original size:26 final size:26
Alignment explanation
Indices: 160119--160168 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
160109 GAACATCGAA
*
160119 TGCATTTTATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACTCAG
160145 TGCATTTGATGCATCGATGCACTC
1 TGCATTTGATGCATCGATGCACTC
160169 TGGCTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (26 bp):
TGCATTTGATGCATCGATGCACTCAG
Found at i:160211 original size:17 final size:19
Alignment explanation
Indices: 160189--160231 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
160179 GAAACATGGA
*
160189 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
160206 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
160225 ATGCACT
1 ATGCACT
160232 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:160460 original size:17 final size:18
Alignment explanation
Indices: 160431--160472 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
160421 ATTGATCAAC
160431 AACAAGAAACAATA-AGA
1 AACAAGAAACAATAGAGA
* *
160448 AAGAAGAATCAATAGAGA
1 AACAAGAAACAATAGAGA
160466 AACAAGA
1 AACAAGA
160473 GAGAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.67, C:0.10, G:0.17, T:0.07
Consensus pattern (18 bp):
AACAAGAAACAATAGAGA
Found at i:164276 original size:15 final size:15
Alignment explanation
Indices: 164253--164289 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
164243 AAAACGCTTT
164253 AAAACAATTTTAAGA
1 AAAACAATTTTAAGA
*
164268 AAAATAATTTTAAGA
1 AAAACAATTTTAAGA
*
164283 CAAACAA
1 AAAACAA
164290 AATTGGTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAAACAATTTTAAGA
Done.