Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 407 of 410
Found at i:122727233 original size:26 final size:26
Alignment explanation
Indices: 122727204--122727254 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
122727194 ATAACAATTT
* * *
122727204 ATAATTAAAATATTAATATTATAAAA
1 ATAATCAAAATATTAAAACTATAAAA
*
122727230 ATAATCAAAATTTTAAAACTATAAA
1 ATAATCAAAATATTAAAACTATAAA
122727255 TGTAGAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATCAAAATATTAAAACTATAAAA
Found at i:122756825 original size:9 final size:9
Alignment explanation
Indices: 122756811--122756860 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
122756801 ATAAGTATAA
122756811 AATTAACCG
1 AATTAACCG
122756820 AATTAACCG
1 AATTAACCG
**
122756829 AATTAATTG
1 AATTAACCG
*
122756838 AATTAACCA
1 AATTAACCG
122756847 AATTAACCG
1 AATTAACCG
122756856 AATTA
1 AATTA
122756861 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:122756895 original size:5 final size:6
Alignment explanation
Indices: 122756880--122756920 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
122756870 AATTATATGT
*
122756880 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
122756921 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:122761682 original size:33 final size:33
Alignment explanation
Indices: 122761640--122761706 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
122761630 TCATCACCAC
122761640 ATCTCATTAATCAAAGGAAAAAGATCAGAAAAG
1 ATCTCATTAATCAAAGGAAAAAGATCAGAAAAG
122761673 ATCTCATTAATCAAAGGAAAAAGATCAGAAAAG
1 ATCTCATTAATCAAAGGAAAAAGATCAGAAAAG
122761706 A
1 A
122761707 AGAAGAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (33 bp):
ATCTCATTAATCAAAGGAAAAAGATCAGAAAAG
Found at i:122766007 original size:3 final size:3
Alignment explanation
Indices: 122766001--122766031 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
122765991 ATAATAAGGG
122766001 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
122766032 CGAAATGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:122766464 original size:20 final size:18
Alignment explanation
Indices: 122766431--122766472 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
122766421 ATAAGATTAA
122766431 TTTTAAATTTTTTTTTAT
1 TTTTAAATTTTTTTTTAT
122766449 TTTTAACATATTTTTTTTAT
1 TTTTAA-AT-TTTTTTTTAT
122766469 TTTT
1 TTTT
122766473 TTCTTTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 14 0.64
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTAAATTTTTTTTTAT
Found at i:122766565 original size:15 final size:14
Alignment explanation
Indices: 122766547--122766620 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 14
122766537 TAAATATTAA
122766547 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
122766562 ATTTTTTTATTTTTT
1 A-TTTTTAATTTTTT
* *
122766577 ATTTTTAAATTTTA
1 ATTTTTAATTTTTT
* * *
122766591 AATTTTAAATTTTG
1 ATTTTTAATTTTTT
*
122766605 A-GTTT-ATTTTTT
1 ATTTTTAATTTTTT
122766617 ATTT
1 ATTT
122766621 CGGTTTAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
14 23 0.49
15 8 0.17
16 6 0.13
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:122766589 original size:7 final size:7
Alignment explanation
Indices: 122766579--122766603 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
122766569 TATTTTTTAT
122766579 TTTTAAA
1 TTTTAAA
122766586 TTTTAAA
1 TTTTAAA
122766593 TTTTAAA
1 TTTTAAA
122766600 TTTT
1 TTTT
122766604 GAGTTTATTT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:122767207 original size:7 final size:7
Alignment explanation
Indices: 122767195--122767258 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
122767185 CCCATGGCCA
122767195 TTAAACC
1 TTAAACC
122767202 TTAAACC
1 TTAAACC
*
122767209 ATAAAACC
1 -TTAAACC
*
122767217 CTAAACC
1 TTAAACC
* *
122767224 ATAGACC
1 TTAAACC
122767231 TTAAACC
1 TTAAACC
**
122767238 TTAAATA
1 TTAAACC
122767245 TTAAACC
1 TTAAACC
*
122767252 GTAAACC
1 TTAAACC
122767259 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:122767215 original size:15 final size:15
Alignment explanation
Indices: 122767192--122767242 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
122767182 ATACCCATGG
*
122767192 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
122767207 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
122767222 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
122767236 CCTTAAA
1 CCATAAA
122767243 TATTAAACCG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:122767423 original size:37 final size:37
Alignment explanation
Indices: 122767372--122767442 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
122767362 ACATTTTTTG
* * *
122767372 GGGTTTAGGGTTTTAGAAGTTATGGTTTAGTGTTTAA
1 GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTTAA
* *
122767409 GGGTTTAGTATTTTAGGAGTTATAGATTAGTGTT
1 GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTT
122767443 CATGATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (37 bp):
GGGTTTAGGATTTTAGAAGTTATAGATTAGTGTTTAA
Found at i:122769841 original size:19 final size:18
Alignment explanation
Indices: 122769813--122769852 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
122769803 TATTTTTTTT
* *
122769813 AAAAACACAAAATATAAAA
1 AAAAAAACAAAA-ACAAAA
122769832 AAAAAAACAAAAACAAAA
1 AAAAAAACAAAAACAAAA
122769850 AAA
1 AAA
122769853 CATGCACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAAACAAAAACAAAA
Found at i:122771566 original size:29 final size:29
Alignment explanation
Indices: 122771513--122771577 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
122771503 AAATTTTAAA
*
122771513 TTAATAAATATAAAATTATATTTTAAT-TT
1 TTAA-AAATATAAAATTATAATTTAATCTT
122771542 CTTAAAAATATAATAATT-TAATTTAATCTT
1 -TTAAAAATATAA-AATTATAATTTAATCTT
122771572 TTAAAA
1 TTAAAA
122771578 TTTATAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAAAATATAAAATTATAATTTAATCTT
Found at i:122772352 original size:19 final size:19
Alignment explanation
Indices: 122772328--122772374 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
122772318 AGCAACAGTA
122772328 AAAAAAAAACACTGAAAAC-
1 AAAAAAAAA-ACTGAAAACG
*
122772347 AAAAAAAAAGCTGAAAACG
1 AAAAAAAAAACTGAAAACG
122772366 AAAAAAAAA
1 AAAAAAAAA
122772375 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.77, C:0.11, G:0.09, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAACTGAAAACG
Found at i:122772907 original size:29 final size:29
Alignment explanation
Indices: 122772873--122772936 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
122772863 ATTTTTTGCT
122772873 AAAATA-ATATAAAGAAATAAAATACGAAA
1 AAAATATATATAAA-AAATAAAATACGAAA
* * * *
122772902 ATAATATATTTTAAAAATAAGATACGAAA
1 AAAATATATATAAAAAATAAAATACGAAA
122772931 AAAATA
1 AAAATA
122772937 CGAAGAAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (29 bp):
AAAATATATATAAAAAATAAAATACGAAA
Found at i:122772978 original size:145 final size:146
Alignment explanation
Indices: 122772643--122773240 Score: 880
Period size: 146 Copynumber: 4.1 Consensus size: 146
122772633 TTAAAATAAT
* * *
122772643 ATACGAATAAAGTG-CTAAAATCAGGATTATTTATTGAAA-AAATATAAAAAATACTTAAATAAT
1 ATACGAAGAAAGTGTC-AAAATCAGGGTTATTTATT-AAATAAATATAAAAAACACTTAAATAAT
* *
122772706 ACATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAATATGAAAATAATATATTTTAAA
64 ACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAA
122772771 AAATAAGATACGAAAAAA
129 AAATAAGATACGAAAAAA
* * * *
122772789 ATACGAAGAATGTGTCAAAATCTGGGTTATTTATTAAATTAATATAAAAAACACTTACATAATAC
1 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATAATAC
* * *
122772854 ATTTGAAACATTTTTTGCTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTT-AAAA
66 ATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAA
122772918 ATAAGATACGAAAAAA
131 ATAAGATACGAAAAAA
* *
122772934 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTGAAA-AAATATAAATAATACTTAAATAATA
1 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATT-AAATAAATATAAAAAACACTTAAATAATA
* *
122772998 CATTTAAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAA
65 CATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAA
* *
122773063 AATAAGATAAGAAAGAA
130 AATAAGATACGAAAAAA
* * *
122773080 ATACGAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAAAAAACACTTACATAATA
1 ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATAAATAT-AAAAAACACTTAAATAATA
* * * * *
122773145 CATTTGAAATATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAA
65 CATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAA
*
122773210 AATAATATACGAAAAAA
130 AATAAGATACGAAAAAA
*
122773227 ATACGAATAAAGTG
1 ATACGAAGAAAGTG
122773241 CTTGGGTGCC
Statistics
Matches: 405, Mismatches: 41, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
145 136 0.34
146 167 0.41
147 102 0.25
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.29
Consensus pattern (146 bp):
ATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATAAATATAAAAAACACTTAAATAATAC
ATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAA
ATAAGATACGAAAAAA
Found at i:122773031 original size:291 final size:293
Alignment explanation
Indices: 122772643--122773242 Score: 1053
Period size: 291 Copynumber: 2.1 Consensus size: 293
122772633 TTAAAATAAT
122772643 ATACGAATAAAGTGCTAAAATCAGGATTATTTATTGAAAAAATATAAAAAATACTTAAATAATAC
1 ATACGAATAAAGTGCTAAAATCAGGATTATTTATTGAAAAAATATAAAAAATACTTAAATAATAC
* *
122772708 ATTTGAAACATTATGTACTAAAATAATATGAAGAAATAAAATATGAAAATAATATATTTTAAAAA
66 ATTTAAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAA
* * **
122772773 ATAAGATACGAAAAAAATACGAAGAATGTGTCAAAATCTGGGTTATTTATTAAATTAATAT-AAA
131 ATAAGATAAGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAAA
*
122772837 AAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAGAAATAAAATACGAAA
196 AAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAA
122772902 ATAATATATTTT-AAAAATAAGATACGAAAAAA
261 ATAATATATTTTAAAAAATAAGATACGAAAAAA
* * *
122772934 ATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTGAAAAAATATAAATAATACTTAAATAATA
1 ATACGAATAAAGTGCT-AAAATCAGGATTATTTATTGAAAAAATATAAAAAATACTTAAATAATA
122772998 CATTTAAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAA
65 CATTTAAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAA
*
122773063 AATAAGATAAGAAAGAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAA
130 AATAAGATAAGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAA
*
122773128 AAAACACTTACATAATACATTTGAAATATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAA
195 AAAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAA
*
122773193 AATAATATATTTTAAAAAATAATATACGAAAAAA
260 AATAATATATTTTAAAAAATAAGATACGAAAAAA
122773227 ATACGAATAAAGTGCT
1 ATACGAATAAAGTGCT
122773243 TGGGTGCCGC
Statistics
Matches: 291, Mismatches: 14, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
290 1 0.00
291 179 0.62
292 78 0.27
293 32 0.11
294 1 0.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (293 bp):
ATACGAATAAAGTGCTAAAATCAGGATTATTTATTGAAAAAATATAAAAAATACTTAAATAATAC
ATTTAAAACATTATGTACTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTAAAAA
ATAAGATAAGAAAAAAATACGAAGAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAAA
AAACACTTACATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACGAAA
ATAATATATTTTAAAAAATAAGATACGAAAAAA
Found at i:122773358 original size:18 final size:17
Alignment explanation
Indices: 122773337--122773383 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
122773327 TTTTTTATTA
122773337 TTTTTTTTCGTTTTCAGT-
1 TTTTTTTT--TTTTCAGTG
122773355 TTTTTTTTTTTTCAGTG
1 TTTTTTTTTTTTCAGTG
122773372 TTCTTTTTTTTT
1 TT-TTTTTTTTT
122773384 ACTGTTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.30
17 2 0.07
18 17 0.63
ACGTcount: A:0.04, C:0.09, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTTTTTTTTTCAGTG
Found at i:122773378 original size:16 final size:16
Alignment explanation
Indices: 122773347--122773382 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
122773337 TTTTTTTTCG
* *
122773347 TTTTCAGTTTTTTTTT
1 TTTTCAGTGTTCTTTT
122773363 TTTTCAGTGTTCTTTT
1 TTTTCAGTGTTCTTTT
122773379 TTTT
1 TTTT
122773383 TACTGTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTCAGTGTTCTTTT
Found at i:122789021 original size:14 final size:16
Alignment explanation
Indices: 122789002--122789035 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
122788992 TTATATAAAA
122789002 ATAATATAT-A-GTTT
1 ATAATATATAATGTTT
122789016 ATAATATATAATGTTT
1 ATAATATATAATGTTT
122789032 ATAA
1 ATAA
122789036 AAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 1 0.06
16 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAATATATAATGTTT
Found at i:122789035 original size:36 final size:36
Alignment explanation
Indices: 122788977--122789055 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
122788967 TTATAATTTT
* *
122788977 TTTATAATATGTAAATTATATAAAAATAA-TATATAG
1 TTTATAATATATAAATTATATAAAAA-AATTATAAAG
*
122789013 TTTATAATATAT-AATGTTTATAAAAAAATTATAAAG
1 TTTATAATATATAAAT-TATATAAAAAAATTATAAAG
*
122789049 GTTATAA
1 TTTATAA
122789056 CAATTTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (36 bp):
TTTATAATATATAAATTATATAAAAAAATTATAAAG
Found at i:122789853 original size:16 final size:17
Alignment explanation
Indices: 122789832--122789864 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
122789822 ACTAAATTAT
122789832 TAAAAAAATA-TAAAAA
1 TAAAAAAATATTAAAAA
122789848 TAAAAAAATATTAAAAA
1 TAAAAAAATATTAAAAA
122789865 ATTTGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAAAATATTAAAAA
Found at i:122793128 original size:8 final size:8
Alignment explanation
Indices: 122793112--122793142 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
122793102 GTCCCTATAC
*
122793112 TTTTCAAA
1 TTTTGAAA
122793120 TTTTGAAA
1 TTTTGAAA
122793128 TTTTGAAA
1 TTTTGAAA
122793136 TTTTGAA
1 TTTTGAA
122793143 CTTGACGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (8 bp):
TTTTGAAA
Found at i:122794801 original size:29 final size:28
Alignment explanation
Indices: 122794711--122794801 Score: 74
Period size: 30 Copynumber: 3.1 Consensus size: 28
122794701 GGCCTCACAA
* **
122794711 AATTTTTGGAAATTTTAATTTTTACCTTGA
1 AATTTTTTGAAATTTTAA-TTTT-CCTTTT
* * *
122794741 AATTTATTGAAAATTTTAATTTGCCCTCTT
1 AATTTTTTG-AAATTTTAATTT-TCCTTTT
*
122794771 AATTTTTTGAAATTTTCATTATTCCTTTT
1 AATTTTTTGAAATTTTAATT-TTCCTTTT
122794800 AA
1 AA
122794802 ACCCCAAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 17 0.35
30 22 0.46
31 9 0.19
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.54
Consensus pattern (28 bp):
AATTTTTTGAAATTTTAATTTTCCTTTT
Found at i:122795970 original size:2 final size:2
Alignment explanation
Indices: 122795963--122795991 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
122795953 CATTCACAAG
122795963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122795992 GTTTAGCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:122800853 original size:5 final size:5
Alignment explanation
Indices: 122800843--122800874 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
122800833 AATAGCACCA
*
122800843 AAAAG AAAAG AAAAG AAAAG AATAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
122800875 GATGATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:122810340 original size:16 final size:17
Alignment explanation
Indices: 122810319--122810352 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
122810309 TGTCAATAAA
122810319 ATGTG-AATAAAATGTC
1 ATGTGAAATAAAATGTC
122810335 ATGTGAAAATAAAATGTC
1 ATGTG-AAATAAAATGTC
122810353 TCATTGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
ATGTGAAATAAAATGTC
Found at i:122810447 original size:16 final size:16
Alignment explanation
Indices: 122810426--122810459 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
122810416 TAAATGCGTT
122810426 AGAGATCGTGTAATCG
1 AGAGATCGTGTAATCG
122810442 AGAGATCGTGTAATCG
1 AGAGATCGTGTAATCG
122810458 AG
1 AG
122810460 TTGCACGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (16 bp):
AGAGATCGTGTAATCG
Found at i:122811243 original size:17 final size:17
Alignment explanation
Indices: 122811223--122811257 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
122811213 AATTGGGTTG
122811223 AAAAAATT-ATTTAATT
1 AAAAAATTGATTTAATT
*
122811239 AAAAATTTGATTTAATT
1 AAAAAATTGATTTAATT
122811256 AA
1 AA
122811258 TTAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAAAAATTGATTTAATT
Found at i:122817184 original size:34 final size:34
Alignment explanation
Indices: 122817138--122817206 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
122817128 ACCAGTCTTA
122817138 GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
1 GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
* * *
122817172 GTTTGTACAATTTTGTCTTTTGATGGGCTACTTC
1 GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
122817206 G
1 G
122817207 ATGTTCATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.46
Consensus pattern (34 bp):
GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
Found at i:122823009 original size:31 final size:31
Alignment explanation
Indices: 122822950--122823009 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
122822940 TAGGAATAAA
* * **
122822950 TGTCAAGTTCATATACTAAATTTGGAAAATG
1 TGTCAAGTTCAAATACCAAATTAAGAAAATG
122822981 TGTCAAGTTCAAATACCAAATTAAGAAAA
1 TGTCAAGTTCAAATACCAAATTAAGAAAA
122823010 AAAAATATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (31 bp):
TGTCAAGTTCAAATACCAAATTAAGAAAATG
Found at i:122823084 original size:21 final size:20
Alignment explanation
Indices: 122823059--122823097 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
122823049 AATTTGATCA
122823059 TTTTTAATTCTAATAATTTTT
1 TTTTTAATTCTAA-AATTTTT
*
122823080 TTTTTAATTTTAAAATTT
1 TTTTTAATTCTAAAATTT
122823098 ATGTTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAATTCTAAAATTTTT
Found at i:122823104 original size:21 final size:21
Alignment explanation
Indices: 122823059--122823104 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
122823049 AATTTGATCA
*
122823059 TTTTTAATTCTAATAATTTTT
1 TTTTTAATTCTAATAATTTTG
*
122823080 TTTTTAATTTTAA-AATTTATG
1 TTTTTAATTCTAATAATTT-TG
122823101 TTTT
1 TTTT
122823105 GACACAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTAATTCTAATAATTTTG
Found at i:122828254 original size:20 final size:21
Alignment explanation
Indices: 122828229--122828273 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
122828219 AAAATAAAAT
*
122828229 AATATTTACATATTTTTAT-A
1 AATATTTAAATATTTTTATCA
122828249 AATATTTAAATATTTTTATCA
1 AATATTTAAATATTTTTATCA
122828270 AATA
1 AATA
122828274 AATAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTAAATATTTTTATCA
Found at i:122828279 original size:21 final size:20
Alignment explanation
Indices: 122828238--122828279 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
122828228 TAATATTTAC
**
122828238 ATATTTTTATAAATATTTAA
1 ATATTTTTATAAATAAATAA
122828258 ATATTTTTATCAAATAAATAA
1 ATATTTTTAT-AAATAAATAA
122828279 A
1 A
122828280 AATTCAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATATTTTTATAAATAAATAA
Found at i:122828725 original size:19 final size:19
Alignment explanation
Indices: 122828701--122828739 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
122828691 CAATAAAATA
*
122828701 TTTTAATTTTA-ATTTTAAC
1 TTTTAACTTTAGA-TTTAAC
122828720 TTTTAACTTTAGATTTAAC
1 TTTTAACTTTAGATTTAAC
122828739 T
1 T
122828740 ATTCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTAACTTTAGATTTAAC
Found at i:122830500 original size:69 final size:69
Alignment explanation
Indices: 122830389--122830525 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 69
122830379 GCACATCAAG
122830389 AAGTTAGTTTATTTTTCAGAAAAGAAAAACAATTTAATCTGTAAATAGAGTTTAATTTCCAATTT
1 AAGTTAGTTTATTTTTCAGAAAAGAAAAACAATTTAATCTGTAAATAGAGTTTAATTTCCAATTT
122830454 ATAC
66 ATAC
* *
122830458 AAGTTAGTTTATTTTTCAGAAAAGGAGAACAATTTAATCTGTAAATAGAGTTTAATTTCCAATTT
1 AAGTTAGTTTATTTTTCAGAAAAGAAAAACAATTTAATCTGTAAATAGAGTTTAATTTCCAATTT
122830523 ATA
66 ATA
122830526 TAAATTGGTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (69 bp):
AAGTTAGTTTATTTTTCAGAAAAGAAAAACAATTTAATCTGTAAATAGAGTTTAATTTCCAATTT
ATAC
Found at i:122834802 original size:33 final size:32
Alignment explanation
Indices: 122834697--122834814 Score: 114
Period size: 33 Copynumber: 3.7 Consensus size: 32
122834687 CGGTTAGTAC
* *
122834697 GGATGATGCTCCTTTAAGCAGGACAAGTAGCAG
1 GGATGATGC-CCCTTAAGCAGGCCAAGTAGCAG
* * * * * *
122834730 GGATG-TG-TCCATAAGCCGGCTAATTAGTAG
1 GGATGATGCCCCTTAAGCAGGCCAAGTAGCAG
122834760 GGATGATGCCCCTTCAAGCAGGCCAAGTAGCAG
1 GGATGATGCCCCTT-AAGCAGGCCAAGTAGCAG
*
122834793 GGATGATGCCCCTATAATCAGG
1 GGATGATGCCCCT-TAAGCAGG
122834815 TTGGGTACTG
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
30 20 0.30
31 2 0.03
32 5 0.08
33 38 0.58
34 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (32 bp):
GGATGATGCCCCTTAAGCAGGCCAAGTAGCAG
Found at i:122838168 original size:16 final size:16
Alignment explanation
Indices: 122838130--122838168 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
122838120 ACCATTTTGC
*
122838130 ATTTAAATTTTAGTTT
1 ATTTAATTTTTAGTTT
*
122838146 ATTTAATTTTTTGTTT
1 ATTTAATTTTTAGTTT
*
122838162 TTTTAAT
1 ATTTAAT
122838169 CTCTGAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (16 bp):
ATTTAATTTTTAGTTT
Found at i:122841901 original size:16 final size:15
Alignment explanation
Indices: 122841870--122841974 Score: 54
Period size: 16 Copynumber: 6.7 Consensus size: 15
122841860 GAATTCAATA
* *
122841870 CATACATAGATGGTGT
1 CATACATACATAGT-T
122841886 CATACATACATAGTGTTT
1 CATACATACATA--G-TT
122841904 CATACATACATA---
1 CATACATACATAGTT
* *
122841916 CATACATACATACATA
1 CATACATACATA-GTT
* *
122841932 CATACATACATACATA
1 CATACATACATA-GTT
* *
122841948 CATACATATATGGTGT
1 CATACATACATAGT-T
122841964 CATACATACAT
1 CATACATACAT
122841975 TCATACCTGC
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
12 12 0.16
15 1 0.01
16 46 0.62
18 14 0.19
19 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (15 bp):
CATACATACATAGTT
Found at i:122841908 original size:18 final size:20
Alignment explanation
Indices: 122841867--122841974 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
122841857 GTGGAATTCA
122841867 ATACATACATAGATGGTGTC
1 ATACATACATAGATGGTGTC
*
122841887 ATACATACATAG-T-GTTTC
1 ATACATACATAGATGGTGTC
* ** *
122841905 ATACATACATACATACAT-AC
1 ATACATACATAGAT-GGTGTC
* ** *
122841925 ATACATACATACATACAT-AC
1 ATACATACATAGAT-GGTGTC
*
122841945 ATACATACATATATGGTGTC
1 ATACATACATAGATGGTGTC
122841965 ATACATACAT
1 ATACATACAT
122841975 TCATACCTGC
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
18 15 0.20
19 3 0.04
20 57 0.75
21 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (20 bp):
ATACATACATAGATGGTGTC
Found at i:122841974 original size:4 final size:4
Alignment explanation
Indices: 122841904--122841955 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
122841894 CATAGTGTTT
122841904 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
122841952 CATA
1 CATA
122841956 TATGGTGTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:122845876 original size:30 final size:28
Alignment explanation
Indices: 122845832--122845891 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 28
122845822 ATGAAACTAC
122845832 AACAAAAACAGGAAAAAACCAAAGCAAA
1 AACAAAAACAGGAAAAAACCAAAGCAAA
*
122845860 AACAATAAAGCAGGAAAAAACCAGAGCAAA
1 AACAA-AAA-CAGGAAAAAACCAAAGCAAA
122845890 AA
1 AA
122845892 TAGGTAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 5 0.17
29 3 0.10
30 21 0.72
ACGTcount: A:0.68, C:0.17, G:0.13, T:0.02
Consensus pattern (28 bp):
AACAAAAACAGGAAAAAACCAAAGCAAA
Found at i:122850451 original size:1 final size:1
Alignment explanation
Indices: 122850447--122850472 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
122850437 GCTGAAAGCT
122850447 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
122850473 CTTAGCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:122858091 original size:60 final size:60
Alignment explanation
Indices: 122857998--122858118 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
122857988 CCATACAGAG
122857998 AGATGCAAGAAAGATTGAGGGACCTAAGTGAAGACAAAAATTAATAACAAGTAAATCTTT
1 AGATGCAAGAAAGATTGAGGGACCTAAGTGAAGACAAAAATTAATAACAAGTAAATCTTT
122858058 AGATGCAAGAAAGATTGAGGGACCTAAGTGAAGACAAAAATTAATAACAAGTAAATCTTT
1 AGATGCAAGAAAGATTGAGGGACCTAAGTGAAGACAAAAATTAATAACAAGTAAATCTTT
122858118 A
1 A
122858119 CTTACCCTCG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (60 bp):
AGATGCAAGAAAGATTGAGGGACCTAAGTGAAGACAAAAATTAATAACAAGTAAATCTTT
Found at i:122861501 original size:6 final size:6
Alignment explanation
Indices: 122861490--122861521 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
122861480 AGTCATCTTC
122861490 TTTTCT TTTTCT TTTTCT TTTT-T TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTT
122861522 CTATTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTCT
Found at i:122861503 original size:11 final size:11
Alignment explanation
Indices: 122861487--122861521 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
122861477 TGTAGTCATC
122861487 TTCTTTTCTTT
1 TTCTTTTCTTT
122861498 TTCTTTTTCTTT
1 TTC-TTTTCTTT
*
122861510 TTTTTTTCTTT
1 TTCTTTTCTTT
122861521 T
1 T
122861522 CTATTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:122861509 original size:17 final size:17
Alignment explanation
Indices: 122861487--122861521 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
122861477 TGTAGTCATC
122861487 TTCTTTTCTTTTTCTTT
1 TTCTTTTCTTTTTCTTT
*
122861504 TTCTTTTTTTTTTCTTT
1 TTCTTTTCTTTTTCTTT
122861521 T
1 T
122861522 CTATTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTCTTTTCTTTTTCTTT
Found at i:122867640 original size:2 final size:2
Alignment explanation
Indices: 122867633--122867657 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
122867623 TCAAAGAATA
122867633 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 A
122867658 ATAAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:122870861 original size:24 final size:24
Alignment explanation
Indices: 122870831--122870877 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
122870821 ATTAAAAACT
*
122870831 AAACCTTGAAACCTAAAAACAAAG
1 AAACCTTAAAACCTAAAAACAAAG
* *
122870855 AAACCTTAAAACGTAAACACAAA
1 AAACCTTAAAACCTAAAAACAAA
122870878 ATTCTCCAAA
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:0.60, C:0.21, G:0.06, T:0.13
Consensus pattern (24 bp):
AAACCTTAAAACCTAAAAACAAAG
Found at i:122872553 original size:14 final size:15
Alignment explanation
Indices: 122872534--122872563 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
122872524 TATTTGCTAA
122872534 AAAATATG-ATGCTC
1 AAAATATGTATGCTC
122872548 AAAATATGTATGCTC
1 AAAATATGTATGCTC
122872563 A
1 A
122872564 TTACCAGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAATATGTATGCTC
Found at i:122875950 original size:31 final size:31
Alignment explanation
Indices: 122875915--122876123 Score: 283
Period size: 31 Copynumber: 6.7 Consensus size: 31
122875905 CTTGTCATTT
* *
122875915 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
122875946 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
122875977 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
122876008 GTAGCCGAAGCTACCACTTTTCACTGATTGG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
122876039 GTAGCAGAAACTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
122876070 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
122876101 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
122876124 GTTGTCATTT
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 158 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:122876214 original size:50 final size:50
Alignment explanation
Indices: 122876160--122876320 Score: 259
Period size: 50 Copynumber: 3.2 Consensus size: 50
122876150 ATGTAGCCGA
** * * * *
122876160 ACTTATCACTTTCCCTTGTCCTTAATCAGATAAGTGTAGTCGAAGTTATT
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
122876210 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
*
122876260 ACTTATCACTTTCATTTGTCCTTGATCAAATAAGTGTAGCCGAAGCTATC
1 ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
122876310 ACTTATCACTT
1 ACTTATCACTT
122876321 GTTTCCATGG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 104 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (50 bp):
ACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATC
Found at i:122878731 original size:11 final size:11
Alignment explanation
Indices: 122878711--122878756 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
122878701 TTTGAGCTTG
*
122878711 AATCTCGCACA
1 AATCTTGCACA
122878722 AATCTTGCACA
1 AATCTTGCACA
**
122878733 AATCTTGCATG
1 AATCTTGCACA
*
122878744 AATCTGGCACA
1 AATCTTGCACA
122878755 AA
1 AA
122878757 CTTTCTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (11 bp):
AATCTTGCACA
Found at i:122879757 original size:32 final size:30
Alignment explanation
Indices: 122879680--122879802 Score: 95
Period size: 29 Copynumber: 3.8 Consensus size: 30
122879670 TCTAATATGC
*
122879680 AAGAAAAAAGGTTGCAACTTGAAACCAGCA
1 AAGAAAAAAGGTTGTAACTTGAAACCAGCA
** *
122879710 AA-AAAAAAGACTGTAACTTGAAACCAGAAGA
1 AAGAAAAAAGGTTGTAACTTGAAACCAG--CA
*
122879741 AAGAAAAAAGGTTGTAAGCTGTAAATTGAAACCAACA
1 AAGAAAAAAGGTTGTAA-C------TTGAAACCAGCA
* *
122879778 AAAAAAAAAGGCTGTAACTTGAAAC
1 AAGAAAAAAGGTTGTAACTTGAAAC
122879803 TAGTGGAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
29 22 0.30
30 9 0.12
31 3 0.04
32 12 0.16
33 1 0.01
36 1 0.01
37 16 0.22
39 9 0.12
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (30 bp):
AAGAAAAAAGGTTGTAACTTGAAACCAGCA
Found at i:122879794 original size:37 final size:39
Alignment explanation
Indices: 122879720--122879794 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
122879710 AAAAAAAAGA
* *
122879720 CTGTAACTTGAAACCAGAAGAAAGAAAAAAGGTTGTAAG
1 CTGTAAATTGAAACCAGAAGAAAGAAAAAAGGCTGTAAG
122879759 CTGTAAATTGAAACCA-ACA-AAA-AAAAAAGGCTGTAA
1 CTGTAAATTGAAACCAGA-AGAAAGAAAAAAGGCTGTAA
122879795 CTTGAAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 13 0.39
38 4 0.12
39 16 0.48
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.17
Consensus pattern (39 bp):
CTGTAAATTGAAACCAGAAGAAAGAAAAAAGGCTGTAAG
Found at i:122879884 original size:27 final size:27
Alignment explanation
Indices: 122879833--122879885 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
122879823 AAAATGGAGC
**
122879833 AACAATGGTTGAAACCAGCGGAAGAAT
1 AACAATGGTTGAAACCAGCAAAAGAAT
*
122879860 AACATTGGTTGAAACCAGCAAAAGAA
1 AACAATGGTTGAAACCAGCAAAAGAA
122879886 GAGATGTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (27 bp):
AACAATGGTTGAAACCAGCAAAAGAAT
Found at i:122881603 original size:11 final size:11
Alignment explanation
Indices: 122881586--122881615 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
122881576 ATGAATATCA
122881586 CACGAATTTCG
1 CACGAATTTCG
*
122881597 CATGAATTTCG
1 CACGAATTTCG
122881608 CACGAATT
1 CACGAATT
122881616 CTAAGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (11 bp):
CACGAATTTCG
Found at i:122888861 original size:7 final size:7
Alignment explanation
Indices: 122888851--122888878 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
122888841 CCCCAAAAGC
122888851 AAAAAAT
1 AAAAAAT
122888858 AAAAAAT
1 AAAAAAT
122888865 AAAAAAT
1 AAAAAAT
122888872 AAAAAAT
1 AAAAAAT
122888879 GAAGTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:122898852 original size:13 final size:12
Alignment explanation
Indices: 122898834--122898885 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
122898824 TCTATTCAAT
122898834 TCAATTAAATAAA
1 TCAATTAAA-AAA
122898847 TCAATTAAAAAA
1 TCAATTAAAAAA
*
122898859 TTTC-ATGAAAAAAA
1 --TCAAT-TAAAAAA
122898873 TCAATTAAAAAA
1 TCAATTAAAAAA
122898885 T
1 T
122898886 TCATGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 12 0.36
13 13 0.39
14 8 0.24
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (12 bp):
TCAATTAAAAAA
Found at i:122898869 original size:12 final size:12
Alignment explanation
Indices: 122898853--122898895 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
122898843 TAAATCAATT
122898853 AAAAAATTTCATG
1 AAAAAA-TTCATG
* *
122898866 AAAAAAATCAATT
1 AAAAAATTC-ATG
122898879 AAAAAATTCATG
1 AAAAAATTCATG
122898891 AAAAA
1 AAAAA
122898896 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAAAATTCATG
Found at i:122898888 original size:25 final size:26
Alignment explanation
Indices: 122898844--122898895 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
122898834 TCAATTAAAT
122898844 AAATCAATTAAAAAATTTCATGAAAA
1 AAATCAATTAAAAAATTTCATGAAAA
122898870 AAATCAATTAAAAAA-TTCATGAAAA
1 AAATCAATTAAAAAATTTCATGAAAA
122898895 A
1 A
122898896 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATCAATTAAAAAATTTCATGAAAA
Found at i:122904295 original size:15 final size:12
Alignment explanation
Indices: 122904265--122904292 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
122904255 AAAAACCCTC
122904265 AAAATAATAATT
1 AAAATAATAATT
122904277 AAAATAATAATT
1 AAAATAATAATT
122904289 AAAA
1 AAAA
122904293 AAAGTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:122904697 original size:2 final size:2
Alignment explanation
Indices: 122904692--122904725 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
122904682 CTTAAAAAAA
122904692 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
122904726 TTTTAAACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122905142 original size:19 final size:19
Alignment explanation
Indices: 122905096--122905143 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
122905086 GTATATATTT
122905096 TAAA-TTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
* * *
122905114 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGATAGA
122905133 TAAATTTTATT
1 TAAATTTTATT
122905144 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:122909876 original size:19 final size:19
Alignment explanation
Indices: 122909830--122909877 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
122909820 GTATATATTT
122909830 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
122909848 TAAATCTTATTT-GAGTAGA
1 TAAATTTTATTTAG-GTAGA
*
122909867 TAAGTTTTATT
1 TAAATTTTATT
122909878 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:122909939 original size:43 final size:43
Alignment explanation
Indices: 122909891--122909983 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
122909881 ATTCTAGAAA
122909891 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
122909934 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
122909977 TATTTTC
1 TATTTTC
122909984 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:122910249 original size:25 final size:25
Alignment explanation
Indices: 122910215--122910264 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122910205 CTTGAACAAG
122910215 CTCCTGCTTTTAATGGATATCATTT
1 CTCCTGCTTTTAATGGATATCATTT
122910240 CTCCTGCTTTTAATGGATATCATTT
1 CTCCTGCTTTTAATGGATATCATTT
122910265 AAGGGGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (25 bp):
CTCCTGCTTTTAATGGATATCATTT
Found at i:122915406 original size:19 final size:19
Alignment explanation
Indices: 122915374--122915410 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
122915364 TAAAAATTTG
**
122915374 GAAGGTATTTTCAAATATA
1 GAAGGTATAATCAAATATA
122915393 GAAGGTATAATCAAATAT
1 GAAGGTATAATCAAATAT
122915411 GGTCATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
GAAGGTATAATCAAATATA
Found at i:122915461 original size:24 final size:24
Alignment explanation
Indices: 122915423--122915473 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
122915413 TCATATTTGA
* * *
122915423 ATATTTGATTGTTTAATACTTTCC
1 ATATTTGAATATTTAATACCTTCC
122915447 ATATTTGAATATTTAATACCTTCC
1 ATATTTGAATATTTAATACCTTCC
122915471 ATA
1 ATA
122915474 AAAATATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATTTGAATATTTAATACCTTCC
Found at i:122924696 original size:18 final size:19
Alignment explanation
Indices: 122924648--122924711 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
122924638 AAGATATACA
* *
122924648 TGAATATACCTTCTATATT
1 TGAATAAACTTTCTATATT
*
122924667 TGAATAAGCTTTCTATATT
1 TGAATAAACTTTCTATATT
*
122924686 T-AATAAACTTTCCATATT
1 TGAATAAACTTTCTATATT
*
122924704 TGTATAAA
1 TGAATAAA
122924712 TGTAATACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 16 0.42
19 22 0.58
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (19 bp):
TGAATAAACTTTCTATATT
Found at i:122924832 original size:38 final size:38
Alignment explanation
Indices: 122924709--122924843 Score: 131
Period size: 38 Copynumber: 3.7 Consensus size: 38
122924699 ATATTTGTAT
* * *
122924709 AAATGTAATACAAATTTGGAATGTATTTTCAAATATAGA
1 AAATATAATACAAATATGGAAGGTATTTTCAAATATA-A
* *
122924748 AAATATAAT-CAAATATGGAAGGTA---T-ATAT-TAT
1 AAATATAATACAAATATGGAAGGTATTTTCAAATATAA
* * *
122924780 ACATTTAATACAAATTTGGAAGGTATTTTCAAATATAA
1 AAATATAATACAAATATGGAAGGTATTTTCAAATATAA
122924818 AAGATATAAT-CAAATATGGAAGGTAT
1 AA-ATATAATACAAATATGGAAGGTAT
122924844 ACCTTCCATA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
32 7 0.09
33 16 0.21
34 3 0.04
35 1 0.01
36 1 0.01
37 3 0.04
38 31 0.41
39 14 0.18
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (38 bp):
AAATATAATACAAATATGGAAGGTATTTTCAAATATAA
Found at i:122924844 original size:19 final size:19
Alignment explanation
Indices: 122924785--122924844 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
122924775 ATTATACATT
*
122924785 TAATACAAATTTGGAAGGTA
1 TAAT-CAAATATGGAAGGTA
** ** *
122924805 TTTTCAAATATAAAAGATA
1 TAATCAAATATGGAAGGTA
122924824 TAATCAAATATGGAAGGTA
1 TAATCAAATATGGAAGGTA
122924843 TA
1 TA
122924845 CCTTCCATAT
Statistics
Matches: 29, Mismatches: 11, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (19 bp):
TAATCAAATATGGAAGGTA
Found at i:122924910 original size:19 final size:19
Alignment explanation
Indices: 122924842--122924911 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
122924832 TATGGAAGGT
*
122924842 ATACCTTCCATATTAG-AA
1 ATACCTTCCATATTTGAAA
*
122924860 AT--CTTCCATATTTGATA
1 ATACCTTCCATATTTGAAA
122924877 ATACC-TCCTATATTTGAAA
1 ATACCTTCC-ATATTTGAAA
*
122924896 ATACCTTCCAAATTTG
1 ATACCTTCCATATTTG
122924912 TATTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 11 0.26
17 3 0.07
18 5 0.12
19 21 0.49
20 3 0.07
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (19 bp):
ATACCTTCCATATTTGAAA
Found at i:122925782 original size:98 final size:97
Alignment explanation
Indices: 122925613--122925793 Score: 301
Period size: 98 Copynumber: 1.8 Consensus size: 97
122925603 TATCTTCATA
* *
122925613 CATTTATCTATATATCTAAGCCATTCCCTAGTAGTCTCGTATGTCATTGATGAACTAAGATAAGA
1 CATTTATCTATATATCTAAGCCATTCCCTAGTAGTCACG-ATGTCACTGATGAACTAAGATAAGA
122925678 TACCATGTATTCCATCAGCCTACTATTAACAAT
65 TACCATGTATTCCATCAGCCTACTATTAACAAT
*
122925711 CATTTATCTCTATATCCTAAGCCATTCCCTAGTAGTCAC-ATGTCACTGATGAACTAAGAATAAG
1 CATTTATCTATATAT-CTAAGCCATTCCCTAGTAGTCACGATGTCACTGATGAACTAAG-ATAAG
122925775 ATACCATGTATTCCATCAG
64 ATACCATGTATTCCATCAG
122925794 TGTGCTTGAA
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
97 18 0.23
98 38 0.49
99 22 0.28
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (97 bp):
CATTTATCTATATATCTAAGCCATTCCCTAGTAGTCACGATGTCACTGATGAACTAAGATAAGAT
ACCATGTATTCCATCAGCCTACTATTAACAAT
Found at i:122930771 original size:11 final size:11
Alignment explanation
Indices: 122930755--122930780 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
122930745 TATCAGCCCA
122930755 ATACTTCATTC
1 ATACTTCATTC
122930766 ATACTTCATTC
1 ATACTTCATTC
122930777 ATAC
1 ATAC
122930781 AGTTACAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (11 bp):
ATACTTCATTC
Found at i:122934145 original size:22 final size:22
Alignment explanation
Indices: 122934095--122934147 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
122934085 AATTAAGTGG
122934095 TATATTTTACTATATTAAAAAT
1 TATATTTTACTATATTAAAAAT
* * * * *
122934117 AAAATTTTATTATTTTAATAAT
1 TATATTTTACTATATTAAAAAT
122934139 TATATTTTA
1 TATATTTTA
122934148 ATGATTAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTTTACTATATTAAAAAT
Found at i:122939766 original size:401 final size:399
Alignment explanation
Indices: 122938331--122939861 Score: 2401
Period size: 401 Copynumber: 3.8 Consensus size: 399
122938321 ATGAAAAAGA
* * * * * * *
122938331 GCTTTTGAAAAGTTTGATAGTGTTCA-CTATTACTGT-CAGAAAGCACTTTTAAAAATAATAAAG
1 GCTTTTGAAAAGTTTGATAATGTTTATC-ATTGCTGTAAAG-AAGTACTTTTGAAAA-AATAAAA
* ** * * * * *
122938394 TGTTAATTTTAAACATGGTGCTGTAAAGTGAAAGATTTACTTGGG-G-TATAAAAAGGTAACTTC
63 TGTTAATTTTAAACATGATATTATAAAGTGAAAGATTTA-ATGGGAGATAAAAAAAAGTAATTTC
**
122938457 GTTGAAAAATACTTTTTCAAAATTTTTTTACTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGT
127 GTTGAAAAATACTTTTTCAAAA-TTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGT
* *
122938522 TTAAAAAGCTACTTGCTTACCAAATTTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAA
191 TTAAAAAGCTGCTTGCTTACCAAA-TTTTTGTTGTTTACTGCTCTCCAGCCTCAATAGTAAACAA
*
122938587 AAAATTTGGTAAACAAAGAGCTCTTCAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAG
255 AAAATTTGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAG
* * *
122938652 CCAAATTTTTTAACCTTCGGCTTTTGGAAAAATGTTTTTTCAAGGAAGTTACCTTTTTATCTCCC
320 CCAAAATTTTTAACCTTCGGCTTTTGGAAAAAT-ATTTTTCAAGGAAGTTACCTTTTTATCTCTC
122938717 ATTAAATCTTTCATGT
384 ATTAAATCTTTCATGT
* * * * *
122938733 GCTTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAA-AAGTGCTTTTTAGAAGATAAAATG
1 GCTTTTGAAAAGTTTGATAATGTTTATCATTGCTGT-AAAGAAGTACTTTTGAAAAAATAAAATG
* * *
122938797 TTAATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAGTAATTTTGTT
65 TTAATTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAGTAATTTCGTT
*
122938862 GAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTAA
130 GAAAAATACTTTTTCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTAA
*
122938927 AAAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAAT
195 AAAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTCTCCAGCCTCAATAGTAAACAAAAAAT
*
122938992 TTGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGTCAAA
260 TTGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAA
*
122939057 ATTTTTAACCTTCGGCTTTTTGGAAAAATGTTTTTCAAGGAAGTTACCTTTTTATCTCTCATTAA
325 ATTTTTAACCTTCGGC-TTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCTCATTAA
122939122 ATCTTTCATGT
389 ATCTTTCATGT
*
122939133 GCTTTTGAAAAGTTTGATAATGTTTATCATTGTTGTAAAGAAGTACTTTTGAAAAAAATAAAATG
1 GCTTTTGAAAAGTTTGATAATGTTTATCATTGCTGTAAAGAAGTACTTTTG-AAAAAATAAAATG
* * * * *
122939198 TCAATTTTTAGACATGTTATTATAAAGTGAAAGATTTAATAGGAGATAAAAAAAAAGTAAATTCG
65 TTAA-TTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGAT-AAAAAAAAGTAATTTCG
122939263 TTGAAAAATACTTTTTCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTT
128 TTGAAAAATACTTTTTCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTT
122939328 AAAAAGCTGCTTGCTTA-CAAATTTTTGTTGTTTTACTGCTCTCCAGCCTCAATAGTAAACAAAA
193 AAAAAGCTGCTTGCTTACCAAATTTTTGTTG-TTTACTGCTCTCCAGCCTCAATAGTAAACAAAA
*
122939392 AATTTGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGTC
257 AATTTGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCC
*
122939457 AAAATTTTTAACCTTTGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCTCATT
322 AAAATTTTTAACCTTCGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCTCATT
*
122939522 AAATCTTTCGTGT
387 AAATCTTTCATGT
*
122939535 GCTTTTGAAAAGTTTGATAATGTTTATCATTGCTGTAAAGAAGTACTTTTGAAAAAATAAAATAT
1 GCTTTTGAAAAGTTTGATAATGTTTATCATTGCTGTAAAGAAGTACTTTTGAAAAAATAAAATGT
*
122939600 TAATTTTTAAATATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAAGTAATTTCGT
66 TAA-TTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGAT-AAAAAAAAGTAATTTCGT
*
122939665 TAAAAAATACTTTTTCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTA
129 TGAAAAATACTTTTTCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTA
* *
122939730 AAAAGCTGTTTGCTTACCAAATTTTTGTTGTTTACTGCTCTCCAGCCTCAATAGTAAAAAAAAAA
194 AAAAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTCTCCAGCCTCAATAGTAAACAAAAAA
* * *
122939795 TTTGGTAAACAAAGAGCTCTTCAAA-CCAAACCATGATTTTAAACTGTGATTCTAACCCAAGCCA
259 TTTGGTAAACAAAGAGCTCTT-AAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCA
122939859 AAA
323 AAA
122939862 AGCCAAAATT
Statistics
Matches: 1056, Mismatches: 60, Indels: 27
0.92 0.05 0.02
Matches are distributed among these distances:
399 3 0.00
400 215 0.20
401 374 0.35
402 251 0.24
403 212 0.20
404 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (399 bp):
GCTTTTGAAAAGTTTGATAATGTTTATCATTGCTGTAAAGAAGTACTTTTGAAAAAATAAAATGT
TAATTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAGTAATTTCGTTG
AAAAATACTTTTTCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTAAA
AAGCTGCTTGCTTACCAAATTTTTGTTGTTTACTGCTCTCCAGCCTCAATAGTAAACAAAAAATT
TGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAAA
TTTTTAACCTTCGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCTCATTAAAT
CTTTCATGT
Found at i:122940717 original size:13 final size:13
Alignment explanation
Indices: 122940699--122940728 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
122940689 TTTAAAGTAT
*
122940699 AATATTATCGAAA
1 AATATTATAGAAA
122940712 AATATTATAGAAA
1 AATATTATAGAAA
122940725 AATA
1 AATA
122940729 AAACCCGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (13 bp):
AATATTATAGAAA
Found at i:122941107 original size:21 final size:21
Alignment explanation
Indices: 122941058--122941113 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
122941048 TATTTTATAT
*
122941058 ATAAAA-AAATAATATTAGAA
1 ATAAAATAAATAATATTAAAA
**
122941078 ATATGATAAATCAA-ATTAAAA
1 ATAAAATAAAT-AATATTAAAA
*
122941099 ATAAAATAAAAAATA
1 ATAAAATAAATAATA
122941114 AATCAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 6 0.22
21 19 0.70
22 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
ATAAAATAAATAATATTAAAA
Found at i:122944943 original size:11 final size:10
Alignment explanation
Indices: 122944921--122944952 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
122944911 AATTCAAGAT
122944921 AATAAAAAAA
1 AATAAAAAAA
122944931 AATAAAAATAA
1 AATAAAAA-AA
122944942 AATAAAAAAA
1 AATAAAAAAA
122944952 A
1 A
122944953 TCAGCCCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:122954248 original size:14 final size:14
Alignment explanation
Indices: 122954231--122954276 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
122954221 AAGTAAAAAA
122954231 AGAAAGAAAAAGAG
1 AGAAAGAAAAAGAG
**
122954245 AGAAAGCCAAA-A-
1 AGAAAGAAAAAGAG
122954257 AGAAAGAAAAAGAG
1 AGAAAGAAAAAGAG
122954271 AGAAAG
1 AGAAAG
122954277 CTAAAACGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 15 0.58
ACGTcount: A:0.70, C:0.04, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAG
Found at i:122954256 original size:26 final size:26
Alignment explanation
Indices: 122954227--122954301 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
122954217 ACAAAAGTAA
122954227 AAAAAGAAAGAAAAAGAGAGAAAGCC
1 AAAAAGAAAGAAAAAGAGAGAAAGCC
*
122954253 AAAAAGAAAGAAAAAGAGAGAAAGCT
1 AAAAAGAAAGAAAAAGAGAGAAAGCC
* * * *
122954279 AAAACGAAACACAAAGAAAGAAA
1 AAAAAGAAAGAAAAAGAGAGAAA
122954302 AAGGAAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.71, C:0.08, G:0.20, T:0.01
Consensus pattern (26 bp):
AAAAAGAAAGAAAAAGAGAGAAAGCC
Found at i:122954282 original size:16 final size:15
Alignment explanation
Indices: 122954231--122954282 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 15
122954221 AAGTAAAAAA
122954231 AGAAAG-AAAAAGAG
1 AGAAAGCAAAAAGAG
*
122954245 AGAAAGC-CAAA-A-
1 AGAAAGCAAAAAGAG
122954257 AGAAAG-AAAAAGAG
1 AGAAAGCAAAAAGAG
*
122954271 AGAAAGCTAAAA
1 AGAAAGCAAAAA
122954283 CGAAACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
14 15 0.50
15 4 0.13
ACGTcount: A:0.69, C:0.06, G:0.23, T:0.02
Consensus pattern (15 bp):
AGAAAGCAAAAAGAG
Found at i:122968627 original size:15 final size:15
Alignment explanation
Indices: 122968607--122968637 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
122968597 AGGTTGCTCC
122968607 TTTCTTGTCTCCCTT
1 TTTCTTGTCTCCCTT
122968622 TTTCTTGTCTCCCTT
1 TTTCTTGTCTCCCTT
122968637 T
1 T
122968638 GGACTATTAA
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:0.32, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTCTTGTCTCCCTT
Found at i:122979330 original size:200 final size:195
Alignment explanation
Indices: 122979113--122979469 Score: 497
Period size: 200 Copynumber: 1.8 Consensus size: 195
122979103 TTAATATAAG
* *
122979113 AAGAAGAAGATAGTTGCATGCAATTATGTATTGTAAGATAAGTAGAATTTTACGTTTTCTCATTA
1 AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTTTAC---TTCT--TT-
* * *
122979178 ATTTTTTTC-TCTCTTGCTCTTGCT-T-TTGCTTGGAATTCTTGATCCTGTTT-TGAGGTTTCCA
60 -TTTTTTTCAT-TATTG-TCTTGCTCTCTTGCTTGGAATTCGTGAGCCTGTTTATGAGGTTTCCA
*
122979239 TTTCTTATTTTCCTTTATCATTGTAAGATAAGTAGAGTGTTTCTTTTTTAAAATTAATTTTTAAT
122 TTTCTTATTTTCCTTTATCACTGTAAGATAAGTAGAGTGTTTCTTTTTTAAAATTAATTTTTAAT
122979304 CTAAGCAGT
187 CTAAGCAGT
122979313 AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTTTACTTCTTTTTTTTT
1 AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTTTACTTCTTTTTTTTT
* * * * *
122979378 TCATTATTGTTTTTCTCTCTTTCTTGTAATTCGTGAGCCTGTTTATGAGGTTTCTATTTCTTATT
66 TCATTATTGTCTTGCTCTCTTGCTTGGAATTCGTGAGCCTGTTTATGAGGTTTCCATTTCTTATT
*
122979443 TTCCTTTATTACTGTAAGATAAGTAGA
131 TTCCTTTATCACTGTAAGATAAGTAGA
122979470 ATTTTACCTT
Statistics
Matches: 141, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
192 5 0.04
193 13 0.09
194 22 0.16
195 46 0.33
197 4 0.03
200 51 0.36
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (195 bp):
AAGAAGAAGACAGTTGCATGCAATTAGGTATTGTAAGATAAGTAGAATTTTACTTCTTTTTTTTT
TCATTATTGTCTTGCTCTCTTGCTTGGAATTCGTGAGCCTGTTTATGAGGTTTCCATTTCTTATT
TTCCTTTATCACTGTAAGATAAGTAGAGTGTTTCTTTTTTAAAATTAATTTTTAATCTAAGCAGT
Found at i:122979495 original size:9 final size:8
Alignment explanation
Indices: 122979478--122979504 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
122979468 GAATTTTACC
122979478 TTCTTTTT
1 TTCTTTTT
122979486 TTCTTTTT
1 TTCTTTTT
122979494 TTCTTTTT
1 TTCTTTTT
122979502 TTC
1 TTC
122979505 CCTTTCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTCTTTTT
Found at i:122984539 original size:12 final size:12
Alignment explanation
Indices: 122984522--122984546 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
122984512 CAACTAAATG
122984522 TTAGTTTATTTT
1 TTAGTTTATTTT
122984534 TTAGTTTATTTT
1 TTAGTTTATTTT
122984546 T
1 T
122984547 CTGATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTAGTTTATTTT
Found at i:122988112 original size:94 final size:95
Alignment explanation
Indices: 122987947--122988119 Score: 287
Period size: 96 Copynumber: 1.8 Consensus size: 95
122987937 GCAAATACAC
*
122987947 ATATAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAAATTATGAATGTGAAAAAGCC
1 ATATAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTC-AAATTATGAATGCGAAAAAGCC
122988012 AATTCAAGACCATATATACATACATACATAT
65 AATTCAAGACCATATATACATACATACATAT
* *
122988043 ATATAAAGG-AAACATGGTAGCTCAAGTCCCTTTGTTTAAGTC-AATTATGAATGCGAAAACGCC
1 ATAT-AAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAATTATGAATGCGAAAAAGCC
122988106 AATTCAAGACCATA
65 AATTCAAGACCATA
122988120 CATGCATGCA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
94 33 0.45
96 36 0.49
97 4 0.05
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (95 bp):
ATATAAGGAAAACATGGTAGCTCAAGTCCCTTCGTTTAAGTCAAATTATGAATGCGAAAAAGCCA
ATTCAAGACCATATATACATACATACATAT
Found at i:122988399 original size:107 final size:110
Alignment explanation
Indices: 122988143--122988411 Score: 391
Period size: 107 Copynumber: 2.5 Consensus size: 110
122988133 ACACGCAGAC
* *
122988143 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCACTTCAAGACCATATATACATGCATGCAT
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACATGCATGCAT
*
122988208 CCATAAACACACACATATATATACAAGGAAAACATGGTAGCTCAAGT
66 -CATAAACACACACACATATATA-AAGGAAAACATGGTAGCTCAAGT
* *
122988255 CCCTTTGTTTCAGTCAATTATGAATGTGGAAATGCCAATTCAAGACCATAAATACATGCATGCAT
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACATGCATGCAT
** **
122988320 -A-ACGCATTCACACATATAT-AAGGAAAACATGGTAGCTCAAGT
66 CATAAACACACACACATATATAAAGGAAAACATGGTAGCTCAAGT
* * *
122988362 CCCTTTGTTTCAATCACTTATGAACGTGAAAAGGCCAATTCAAGACCATA
1 CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATA
122988412 CATGCACACA
Statistics
Matches: 143, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
107 68 0.48
109 13 0.09
110 1 0.01
112 61 0.43
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (110 bp):
CCCTTTGTTTCAGTCAATTATGAATGTGAAAAGGCCAATTCAAGACCATAAATACATGCATGCAT
CATAAACACACACACATATATAAAGGAAAACATGGTAGCTCAAGT
Found at i:122991991 original size:23 final size:21
Alignment explanation
Indices: 122991963--122992024 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 21
122991953 AATTTCAAGA
122991963 TATTTTATTTATTTATTATTAT
1 TATTTTATTTATTTATTA-TAT
*
122991985 TAGTTTTA-TTATATTGTTATAT
1 TA-TTTTATTTAT-TTATTATAT
*
122992007 TATATTATATTATTTATT
1 TATTTTAT-TTATTTATT
122992025 CACGTAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.12
22 15 0.45
23 14 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TATTTTATTTATTTATTATAT
Found at i:122992009 original size:13 final size:14
Alignment explanation
Indices: 122991976--122992013 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
122991966 TTTATTTATT
*
122991976 TATTATTATTAGTTT
1 TATTA-TATTAGTTA
122991991 TATTATATT-GTTA
1 TATTATATTAGTTA
122992004 TATTATATTA
1 TATTATATTA
122992014 TATTATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
TATTATATTAGTTA
Found at i:122992858 original size:22 final size:22
Alignment explanation
Indices: 122992819--122992866 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
122992809 TTTTTATATA
122992819 TTTA-ATTATTTCTCATATATTT
1 TTTAGATTATTTCTCATAT-TTT
122992841 TTTAGATTATTTCT-ATATTTT
1 TTTAGATTATTTCTCATATTTT
*
122992862 ATTAG
1 TTTAG
122992867 TTCTTTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 8 0.33
23 9 0.38
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTAGATTATTTCTCATATTTT
Found at i:122992858 original size:39 final size:38
Alignment explanation
Indices: 122992794--122992870 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
122992784 TTAGATTTTA
*
122992794 CATATTTTTTTGAAATTTTTATATATTTAATTATTTCT
1 CATATTTTTTTGAAATTTTTATATATTTAATTAGTTCT
* * *
122992832 CATATATTTTTT-AGATTATTTCTATATTTTATTAGTTCT
1 CATAT-TTTTTTGAAATT-TTTATATATTTAATTAGTTCT
122992871 TTCCATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 9 0.27
39 24 0.73
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (38 bp):
CATATTTTTTTGAAATTTTTATATATTTAATTAGTTCT
Found at i:122992873 original size:20 final size:21
Alignment explanation
Indices: 122992823--122992882 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 21
122992813 TATATATTTA
*
122992823 ATTATTTCTCATATATTTTTTAG
1 ATTATTTCT-ATAT-TTTATTAG
122992846 ATTATTTCTATATTTTATTAG
1 ATTATTTCTATATTTTATTAG
* *
122992867 -TTCTTTCCAT-TTTTAT
1 ATTATTTCTATATTTTAT
122992883 AATTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
21 7 0.21
22 4 0.12
23 9 0.26
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.63
Consensus pattern (21 bp):
ATTATTTCTATATTTTATTAG
Found at i:123009541 original size:22 final size:23
Alignment explanation
Indices: 123009516--123009561 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
123009506 CAACCAAATC
123009516 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
123009538 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
123009561 A
1 A
123009562 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:123009567 original size:23 final size:23
Alignment explanation
Indices: 123009523--123009567 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
123009513 ATCAATTCAA
*
123009523 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
123009546 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
123009568 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:123012961 original size:31 final size:31
Alignment explanation
Indices: 123012924--123012987 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
123012914 TTTTAAACCT
123012924 ATTAATTGTCAAATCAACCCATATCAATGAA
1 ATTAATTGTCAAATCAACCCATATCAATGAA
123012955 ATTAATTGTCAAATCAACCCATATCAATGAA
1 ATTAATTGTCAAATCAACCCATATCAATGAA
123012986 AT
1 AT
123012988 CATTTCCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (31 bp):
ATTAATTGTCAAATCAACCCATATCAATGAA
Found at i:123013200 original size:17 final size:17
Alignment explanation
Indices: 123013172--123013204 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
123013162 TTCATTATAG
123013172 TTTTTAATTATATATGTT
1 TTTTTAATTATA-ATGTT
123013190 TTTTTAA-TATAATGT
1 TTTTTAATTATAATGT
123013205 ATAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTAATTATAATGTT
Found at i:123013587 original size:23 final size:23
Alignment explanation
Indices: 123013542--123013587 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
123013532 TACGTAGAAT
*
123013542 TCAAAATTAAAATCTTAAAATTA
1 TCAAAATTAAAATCCTAAAATTA
*
123013565 TCAAAATTTAAA-CCTAAAGATTA
1 TCAAAATTAAAATCCTAAA-ATTA
123013588 AGTTAAAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (23 bp):
TCAAAATTAAAATCCTAAAATTA
Found at i:123020355 original size:31 final size:31
Alignment explanation
Indices: 123020320--123020395 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
123020310 CTCATATATC
*
123020320 AAATTAAATATTAAAA-CTAAATTTATG-TACT
1 AAATTAAATATTAAAATC-AAACTTA-GATACT
123020351 AAATTAAATATTAAAATCAAACTTAGATACT
1 AAATTAAATATTAAAATCAAACTTAGATACT
123020382 AAA-TAATATATTAA
1 AAATTAA-ATATTAA
123020396 CCCTATTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
30 4 0.10
31 36 0.88
32 1 0.02
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.36
Consensus pattern (31 bp):
AAATTAAATATTAAAATCAAACTTAGATACT
Found at i:123020842 original size:14 final size:14
Alignment explanation
Indices: 123020823--123020850 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
123020813 ATATTTTTAT
123020823 TCGTTATATATTCA
1 TCGTTATATATTCA
123020837 TCGTTATATATTCA
1 TCGTTATATATTCA
123020851 GGTTCAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
TCGTTATATATTCA
Found at i:123028102 original size:4 final size:4
Alignment explanation
Indices: 123028095--123028198 Score: 61
Period size: 4 Copynumber: 25.2 Consensus size: 4
123028085 TTATGCATGC
* * *
123028095 ATGT ATGT ATG- A-GT ATGT AATGT ATGGC ATGGT ATGC A-GT TTTGT
1 ATGT ATGT ATGT ATGT ATGT -ATGT AT-GT AT-GT ATGT ATGT AT-GT
* * * *
123028140 ATGT ATGT ATGT ATGC ATGC ATGT ATGT GTGT ATGT AGGGT ATGTT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATG-T ATGT
*
123028190 ACGT ATGT A
1 ATGT ATGT A
123028199 AATAAGGTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
2 1 0.01
3 3 0.04
4 53 0.68
5 21 0.27
ACGTcount: A:0.24, C:0.05, G:0.29, T:0.42
Consensus pattern (4 bp):
ATGT
Found at i:123030405 original size:4 final size:4
Alignment explanation
Indices: 123030398--123030533 Score: 71
Period size: 4 Copynumber: 33.2 Consensus size: 4
123030388 TTATGCATGC
* *
123030398 ATGT ATGT ATGT ATGT ATG- -TGT ATGT AGGGC ATGT A-GTT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATG-T ATGT ATGT
* * * * * * * * * *
123030445 ATGT ATGT ATGC ATGC ATGC ACGC ATGC ATGT ATGT GTGT CTGT GTGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
123030493 ATGT AGGGT ATGGT ATGGT ATGGT ATGT ACGT ATGT ATGT A
1 ATGT A-TGT AT-GT AT-GT AT-GT ATGT ATGT ATGT ATGT A
123030534 AGGTAATTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.02
3 1 0.01
4 84 0.79
5 20 0.19
ACGTcount: A:0.22, C:0.07, G:0.31, T:0.40
Consensus pattern (4 bp):
ATGT
Found at i:123034558 original size:15 final size:16
Alignment explanation
Indices: 123034528--123034575 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
123034518 AAAATATTTG
123034528 AATGACCCAAATTTAA
1 AATGACCCAAATTTAA
123034544 AATGACCCAAA-TTAA
1 AATGACCCAAATTTAA
*
123034559 AAGTGATCCAAAATTTA
1 AA-TGA-CCCAAATTTA
123034576 TAACCCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 14 0.50
17 5 0.18
18 3 0.11
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (16 bp):
AATGACCCAAATTTAA
Found at i:123034982 original size:26 final size:25
Alignment explanation
Indices: 123034953--123035002 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
123034943 GTTCTTATAA
*
123034953 TTTAATTAATTAATTTTAGTCTTTTT
1 TTTAATTAATTAAATTTAGT-TTTTT
* *
123034979 TTTACTTGATTAAATTTAGTTTTT
1 TTTAATTAATTAAATTTAGTTTTT
123035003 ATACTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (25 bp):
TTTAATTAATTAAATTTAGTTTTTT
Found at i:123035007 original size:23 final size:22
Alignment explanation
Indices: 123034975--123035017 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
123034965 ATTTTAGTCT
*
123034975 TTTTTTTACTTGATTAAATTTAG
1 TTTTTATACTT-ATTAAATTTAG
*
123034998 TTTTTATACTTTTTAAATTT
1 TTTTTATACTTATTAAATTT
123035018 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTTTATACTTATTAAATTTAG
Found at i:123038958 original size:2 final size:2
Alignment explanation
Indices: 123038951--123038984 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
123038941 TCTATTTTAC
123038951 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
123038985 GGGAGAGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123046622 original size:242 final size:238
Alignment explanation
Indices: 123046189--123046802 Score: 807
Period size: 237 Copynumber: 2.6 Consensus size: 238
123046179 GTATAAGGGC
* * *
123046189 ATAGGAACATGATCTTTCAAAGACCACCAAATACATGAATTTTTTTAAAGAAAAATGGAACATAC
1 ATAGGAACATGATCTTTCAAAGACCTCCAAATACAT-ATTTTTTTTAAAGAAAAATGGAACAAAC
* * * * *
123046254 CCGTGTCCTAAATAGACTTACATCTGCCACTT-ATG-CTCGGGTCCGATTAACAAAAAAGTACTA
65 CCGTGTTCTAAATAGGCTTATATCTGACA-TTCA-GACTCGAGTCCGATTAACAAAAAAGTACTA
* * * *
123046317 ACATG---C-AACTATATGAAAGAATGGTTGCAATTAGAAGCTCCGACTCATCATTTCAATTGAA
128 GCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTCCGACTCATCATTTCAAGTGAA
123046378 GTACTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
193 GTACTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
*
123046424 ATAGGAATATGATCTTTCAAAGACCTCCAAATACATTATTTTTTTTTAAAGGAAAAATGGAACAA
1 ATAGGAACATGATCTTTCAAAGACCTCCAAATACA-TA-TTTTTTTTAAA-GAAAAATGGAACAA
* *
123046489 ACCCGTGTTCTAAATAGGCTTATATTTGGCATTCAGACTCGAGTCCGATTAACAGAAAAAGTACT
63 ACCCGTGTTCTAAATAGGCTTATATCTGACATTCAGACTCGAGTCCGATTAACA-AAAAAGTACT
* * *
123046554 AGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACTAGCTCCGACTCGTCGTTTCAAGTGA
127 AGCATGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTCCGACTCATCATTTCAAGTGA
* * * * * * * *
123046619 AGTATTCGTGTCTGATACGACACATATTCATGCAAGGGTATAAGGGT
192 AGTACTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
*
123046666 ATAGG-ACATGATCTTTCAAAGACCTCCAAATAC--ATTTTTTTTAATAGTAAAATGGAACAAAA
1 ATAGGAACATGATCTTTCAAAGACCTCCAAATACATATTTTTTTTAA-AGAAAAATGGAAC-AAA
* *
123046728 CCCGTGTTCTAAATAGGCTTATATCTAACATTCACACTCGAG-CCTGATTAACAAAAAAGTACTA
64 CCCGTGTTCTAAATAGGCTTATATCTGACATTCAGACTCGAGTCC-GATTAACAAAAAAGTACTA
123046792 GCATGTAACTA
128 GCATGTAACTA
123046803 TATGAAAGAA
Statistics
Matches: 335, Mismatches: 31, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
235 34 0.10
236 14 0.04
237 101 0.30
238 66 0.20
241 28 0.08
242 92 0.27
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (238 bp):
ATAGGAACATGATCTTTCAAAGACCTCCAAATACATATTTTTTTTAAAGAAAAATGGAACAAACC
CGTGTTCTAAATAGGCTTATATCTGACATTCAGACTCGAGTCCGATTAACAAAAAAGTACTAGCA
TGTAACTAACTATATGAAAGAACGGTTGCAATTACAAGCTCCGACTCATCATTTCAAGTGAAGTA
CTCATGTCAGATACAACACATATTCATGCAAAGGAACAAGAGT
Found at i:123047309 original size:7 final size:7
Alignment explanation
Indices: 123047293--123047323 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
123047283 GTATATGTAG
123047293 TTTC-TT
1 TTTCTTT
123047299 TTTCTTT
1 TTTCTTT
123047306 TTTCTTT
1 TTTCTTT
123047313 TTTCTTT
1 TTTCTTT
123047320 TTTC
1 TTTC
123047324 ATTCAAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTCTTT
Found at i:123055116 original size:12 final size:12
Alignment explanation
Indices: 123055099--123055128 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
123055089 CGTTGAATTT
123055099 ATCATCATCGGA
1 ATCATCATCGGA
*
123055111 ATCATCATCGTA
1 ATCATCATCGGA
123055123 ATCATC
1 ATCATC
123055129 TTTTGACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (12 bp):
ATCATCATCGGA
Found at i:123062217 original size:4 final size:4
Alignment explanation
Indices: 123062205--123062254 Score: 91
Period size: 4 Copynumber: 12.5 Consensus size: 4
123062195 CATGCATGCG
*
123062205 TGTA CGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
123062253 TG
1 TG
123062255 AAAGGTTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:123062667 original size:2 final size:2
Alignment explanation
Indices: 123062660--123062699 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
123062650 TGGATGAATA
123062660 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
123062700 ATGCACGTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:123067032 original size:20 final size:20
Alignment explanation
Indices: 123067003--123067040 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
123066993 CCCACGTTTC
123067003 TTTTTTTAAAA-ATTCTATT
1 TTTTTTTAAAATATTCTATT
123067022 TTTTCTTTAAAATATTCTA
1 TTTT-TTTAAAATATTCTA
123067041 CATTGAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTTAAAATATTCTATT
Found at i:123068978 original size:2 final size:2
Alignment explanation
Indices: 123068973--123069004 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
123068963 GGTCCACATG
123068973 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
123069005 TTGTTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123069236 original size:13 final size:13
Alignment explanation
Indices: 123069218--123069242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123069208 ATTATTATTA
123069218 AACACATATTTAG
1 AACACATATTTAG
123069231 AACACATATTTA
1 AACACATATTTA
123069243 ATTTTTATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
AACACATATTTAG
Found at i:123081138 original size:46 final size:46
Alignment explanation
Indices: 123081086--123081351 Score: 290
Period size: 46 Copynumber: 5.9 Consensus size: 46
123081076 TTCTGAAATG
* * *
123081086 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* * *
123081132 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* **
123081178 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-GG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* * ** * *
123081223 GAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
** * *
123081269 AAATGAACAAGACCATGGTTGAAAG--A--ATGGCAACCTGACAGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* * * *
123081311 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
123081352 TCAAAGATAA
Statistics
Matches: 190, Mismatches: 25, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
42 33 0.17
44 2 0.01
45 37 0.19
46 118 0.62
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
Found at i:123081282 original size:91 final size:90
Alignment explanation
Indices: 123081094--123081346 Score: 280
Period size: 91 Copynumber: 2.8 Consensus size: 90
123081084 TGAAATGTGT
** *
123081094 AAGACCATGGTTGAAAGACACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGA-ACCATGGCAACATGA-CGAAAATGAGTAAGACCATGGTTGAAAGAT
* * ***
123081159 ACCATGGCAACAGGATATAAAATGTGT
64 ACCATGGCAACAGAACATAAAATGAAC
** *
123081186 AAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGATA
1 AAGACCATGGTTGAAAGA-ACCATGGCAACATGACGAAAATGAGTAAGACCATGGTTGAAAGATA
* *
123081251 CCATGGCAA-TGTAACATGAAATGAAC
65 CCATGGCAACAG-AACATAAAATGAAC
* * *
123081277 AAGACCATGGTTGAAAG-A--ATGGCAACCTGACAGAAAATGAGTAAGACCATAGTTGAAAGACA
1 AAGACCATGGTTGAAAGAACCATGGCAACATGAC-GAAAATGAGTAAGACCATGGTTGAAAGATA
*
123081339 CTATGGCA
65 CCATGGCA
123081347 TCATGTCAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
87 12 0.09
88 32 0.23
89 1 0.01
90 1 0.01
91 59 0.43
92 33 0.24
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (90 bp):
AAGACCATGGTTGAAAGAACCATGGCAACATGACGAAAATGAGTAAGACCATGGTTGAAAGATAC
CATGGCAACAGAACATAAAATGAAC
Found at i:123081653 original size:16 final size:17
Alignment explanation
Indices: 123081632--123081664 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
123081622 ATGATGGAGC
123081632 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
123081648 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
123081665 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:123087489 original size:22 final size:22
Alignment explanation
Indices: 123087453--123087494 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
123087443 CGTGTAAATC
*
123087453 ATATCCAAATTTATTATGATCT
1 ATATCCAAATATATTATGATCT
* *
123087475 ATATCCAGATATATTTTGAT
1 ATATCCAAATATATTATGAT
123087495 TTTGATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATCCAAATATATTATGATCT
Done.