Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005189.1 Hibiscus syriacus cultivar Beakdansim tig00011718_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: 1183632
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:6028 original size:23 final size:23
Alignment explanation
Indices: 6002--6046 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
5992 AAATTATTTA
6002 AAAATTTAA-AGATGTAAAATTGT
1 AAAATTTAAGA-ATGTAAAATTGT
*
6025 AAAATTTAAGAATGTGAAATTG
1 AAAATTTAAGAATGTAAAATTG
6047 AATCAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (23 bp):
AAAATTTAAGAATGTAAAATTGT
Found at i:10654 original size:26 final size:25
Alignment explanation
Indices: 10621--10674 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 25
10611 TTGAATCAAC
10621 CAACAAAATGACTTAACAACAACAA
1 CAACAAAATGACTTAACAACAACAA
10646 CAACAAAAATGACTTAACAACAACAA
1 CAAC-AAAATGACTTAACAACAACAA
10672 CAA
1 CAA
10675 AACTCTATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.61, C:0.24, G:0.04, T:0.11
Consensus pattern (25 bp):
CAACAAAATGACTTAACAACAACAA
Found at i:21020 original size:14 final size:13
Alignment explanation
Indices: 21001--21053 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
20991 TAGGGAACAA
*
21001 AAAATACTAATAAT
1 AAAATAATAA-AAT
21015 AAAATAATAAAAT
1 AAAATAATAAAAT
*
21028 AAAAATAAAAATAAT
1 -AAAATAATAA-AAT
*
21043 GAAATAATAAA
1 AAAATAATAAA
21054 TTTAAGGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
13 4 0.12
14 26 0.79
15 3 0.09
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:21022 original size:8 final size:8
Alignment explanation
Indices: 21009--21053 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
20999 AAAAAATACT
21009 AATAATAA
1 AATAATAA
21017 AATAATAA
1 AATAATAA
21025 AAT-A-AA
1 AATAATAA
21031 AAT-A-AA
1 AATAATAA
*
21037 AATAATGA
1 AATAATAA
21045 AATAATAA
1 AATAATAA
21053 A
1 A
21054 TTTAAGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 11 0.33
7 2 0.06
8 20 0.61
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AATAATAA
Found at i:21031 original size:28 final size:28
Alignment explanation
Indices: 21000--21053 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
20990 TTAGGGAACA
**
21000 AAAAATACTAATAATAAAATAATAAAAT
1 AAAAATAAAAATAATAAAATAATAAAAT
*
21028 AAAAATAAAAATAATGAAATAATAAA
1 AAAAATAAAAATAATAAAATAATAAA
21054 TTTAAGGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (28 bp):
AAAAATAAAAATAATAAAATAATAAAAT
Found at i:21040 original size:20 final size:21
Alignment explanation
Indices: 21008--21054 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
20998 CAAAAAATAC
21008 TAAT-AAT-AAAATAATAAAA
1 TAATAAATAAAAATAATAAAA
*
21027 TAA-AAATAAAAATAATGAAA
1 TAATAAATAAAAATAATAAAA
21047 TAATAAAT
1 TAATAAAT
21055 TTAAGGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
20 14 0.58
21 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
TAATAAATAAAAATAATAAAA
Found at i:21098 original size:27 final size:26
Alignment explanation
Indices: 21009--21099 Score: 67
Period size: 28 Copynumber: 3.3 Consensus size: 26
20999 AAAAAATACT
**
21009 AATAATAAAATAATAAAATAAAAATAAA
1 AATAATAAAA-AAT-AAATAAAAGGAAA
* * *
21037 AATAATGAAATAATAAATTTAAGGGAAA
1 AATAAT-AAAAAATAAA-TAAAAGGAAA
*
21065 CCA-AATAAAAAATAAATAAAAGGAAA
1 -AATAATAAAAAATAAATAAAAGGAAA
21091 GAATAATAA
1 -AATAATAA
21100 TGAAAAATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
26 9 0.19
27 17 0.35
28 18 0.38
29 4 0.08
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (26 bp):
AATAATAAAAAATAAATAAAAGGAAA
Found at i:22335 original size:37 final size:37
Alignment explanation
Indices: 22272--22533 Score: 261
Period size: 37 Copynumber: 7.1 Consensus size: 37
22262 GACATCGTTT
* * *
22272 AAATGTTTTCAAAATTATATATTATATAAGTTTTCAA
1 AAATATTTTAAAAACTATATATTATATAAGTTTTCAA
* *
22309 AAATATTTTAAAAATTATATAATATATAAATGTTTTCAA
1 AAATATTTTAAAAACTATATATTATAT-AA-GTTTTCAA
* * * *
22348 AAATATTTTCAAAACTATATAATATATATGTTTTCAC
1 AAATATTTTAAAAACTATATATTATATAAGTTTTCAA
*
22385 AAATGTTTTCAAAAACTATATATTATATATA-TTTT-AA
1 AAATATTTT-AAAAACTATATATTATATA-AGTTTTCAA
* * *
22422 AAATGTTTAAAAAAACTATATATTATAT-A-TTCTC-A
1 AAATATTT-TAAAAACTATATATTATATAAGTTTTCAA
22457 AAATGATTTTAAAAACTATATATTATAT-A-TTTTC-A
1 AAAT-ATTTTAAAAACTATATATTATATAAGTTTTCAA
*
22492 AAATATTTTTAAAAACTATATAATATATAAATGTTTTCAA
1 AAATA-TTTTAAAAACTATATATTATAT-AA-GTTTTCAA
22532 AA
1 AA
22534 CTATATATTA
Statistics
Matches: 194, Mismatches: 18, Indels: 23
0.83 0.08 0.10
Matches are distributed among these distances:
34 1 0.01
35 58 0.30
36 3 0.02
37 67 0.35
38 24 0.12
39 38 0.20
40 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (37 bp):
AAATATTTTAAAAACTATATATTATATAAGTTTTCAA
Found at i:22442 original size:35 final size:35
Alignment explanation
Indices: 22353--22520 Score: 151
Period size: 35 Copynumber: 4.7 Consensus size: 35
22343 TTCAAAAATA
* * *
22353 TTTTCAAAACTATATAATATATATGTTTTCACAAATGT
1 TTTTAAAAACTATAT--TATATATATTTT-AAAAATGT
*
22391 TTTCAAAAACTATATATTATATATATTTTAAAAATGT
1 TTTTAAAAAC--TATATTATATATATTTTAAAAATGT
** * * *
22428 TTAAAAAAACTATA-TATTATATATTCTCAAAATGA
1 TTTTAAAAACTATATTA-TATATATTTTAAAAATGT
* *
22463 TTTTAAAAACTATA-TATTATATATTTTCAAAATAT
1 TTTTAAAAACTATATTA-TATATATTTTAAAAATGT
*
22498 TTTTAAAAACTATATAATATATA
1 TTTTAAAAACTATATTATATATA
22521 AATGTTTTCA
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
34 2 0.02
35 69 0.62
36 1 0.01
37 15 0.14
38 19 0.17
40 5 0.05
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (35 bp):
TTTTAAAAACTATATTATATATATTTTAAAAATGT
Found at i:22543 original size:62 final size:63
Alignment explanation
Indices: 22457--22582 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 63
22447 TATATTCTCA
* *
22457 AAATGATTTTAAAAACTATATATTATATATTT-TCAAAATATTTTTAAAAACTATATAATATAT
1 AAATGATTTTAAAAACTATATATTATAT-TTTGTCAAAACATTTTCAAAAACTATATAATATAT
* * *
22520 AAATG-TTTTCAAAACTATATATTATATTTTGTCAAAACATTTTCAAAAGCTATATTATATAT
1 AAATGATTTTAAAAACTATATATTATATTTTGTCAAAACATTTTCAAAAACTATATAATATAT
22582 A
1 A
22583 TATATATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
61 3 0.05
62 49 0.86
63 5 0.09
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (63 bp):
AAATGATTTTAAAAACTATATATTATATTTTGTCAAAACATTTTCAAAAACTATATAATATAT
Found at i:22611 original size:22 final size:22
Alignment explanation
Indices: 22583--22627 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
22573 ATTATATATA
22583 TATATATATATAATAAAATAAAAC
1 TATATATATAT-A-AAAATAAAAC
22607 TATATATATATAAAAATAAAA
1 TATATATATATAAAAATAAAA
22628 TAACTCCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 1 0.05
24 11 0.52
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TATATATATATAAAAATAAAAC
Found at i:23543 original size:38 final size:38
Alignment explanation
Indices: 23461--23544 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
23451 GTTCAATCCA
* * * *
23461 ACTCGACCTGAAAAATATATATCTTACATTCGAATTTG
1 ACTCGACCTAAAAAATATACATCTTACACTCGAATTCG
*
23499 ACTCGACCTAAAAAATATACATCTTCCACTC-AACTTCG
1 ACTCGACCTAAAAAATATACATCTTACACTCGAA-TTCG
*
23537 ATTCGACC
1 ACTCGACC
23545 CAATCCAACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 2 0.05
38 37 0.95
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (38 bp):
ACTCGACCTAAAAAATATACATCTTACACTCGAATTCG
Found at i:24327 original size:12 final size:12
Alignment explanation
Indices: 24312--24336 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24302 ATAAATATAA
24312 AAACTTTATTTT
1 AAACTTTATTTT
24324 AAACTTTATTTT
1 AAACTTTATTTT
24336 A
1 A
24337 TCGATTCACT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AAACTTTATTTT
Found at i:25751 original size:4 final size:4
Alignment explanation
Indices: 25742--28809 Score: 5877
Period size: 4 Copynumber: 771.8 Consensus size: 4
25732 TACCATGCAT
25742 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25790 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25838 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25886 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25934 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
25982 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26030 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26078 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26126 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26174 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26222 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26270 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26318 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26366 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26414 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26462 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26510 AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26556 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26604 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26652 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26700 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26748 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26796 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26844 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26892 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26940 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
26988 ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27035 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27083 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27131 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27179 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27227 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27275 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27323 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27371 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27419 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27467 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27515 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
27563 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
27611 ATAC ATAC ATAC ATAC ATAC --AC ACAC ACAC ACAC ACAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
27657 ATAC ATAC ATAC ATAC ACAC ACAC ACAC ACAC ACAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27705 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27753 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27801 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27849 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27895 --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27941 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
27989 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28037 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
28085 ATAC ATAC ATAC ATAC ATGC ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28131 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28179 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28227 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28275 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28323 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28369 ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28415 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28463 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28511 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28559 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28607 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28655 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28703 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
28751 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
28797 --AC ATGC ATAC ATA
1 ATAC ATAC ATAC ATA
28810 GAATAGAATA
Statistics
Matches: 3034, Mismatches: 11, Indels: 38
0.98 0.00 0.01
Matches are distributed among these distances:
2 18 0.01
3 3 0.00
4 3013 0.99
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:32221 original size:29 final size:29
Alignment explanation
Indices: 32156--32224 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
32146 AATAAATGGA
*
32156 TGAAATTCAATTCTCTTGATGGAGGAAAT
1 TGAAATTTAATTCTCTTGATGGAGGAAAT
32185 TGAAATTTAATTCTCTTGATGGAGGAAAT
1 TGAAATTTAATTCTCTTGATGGAGGAAAT
32214 TGAAATTTAAT
1 TGAAATTTAAT
32225 CATACTACCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (29 bp):
TGAAATTTAATTCTCTTGATGGAGGAAAT
Found at i:32329 original size:31 final size:31
Alignment explanation
Indices: 32291--32366 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
32281 TTTTTATTAT
*
32291 TTCGGGTCGGGTCGGGTTTCTAATTCAT-ATA
1 TTCGGGTCGGGTCGGGTTTCTAAGT-ATGATA
* ** * *
32322 TTCGGGTCGAGTCGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTCTAAGTATGATA
32353 TTCGGGTCGGGTCG
1 TTCGGGTCGGGTCG
32367 AGTTCGAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.13, C:0.14, G:0.33, T:0.39
Consensus pattern (31 bp):
TTCGGGTCGGGTCGGGTTTCTAAGTATGATA
Found at i:32613 original size:38 final size:37
Alignment explanation
Indices: 32550--32654 Score: 128
Period size: 38 Copynumber: 2.9 Consensus size: 37
32540 TTTATTTTGT
* **
32550 TCGGGTCGGGTTTTTTAAGCATGATATTCGGGTCGAG
1 TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAG
*
32587 TCGGGTCGGATTTTTTTAAGTGTGATATTCGGGTCGTG
1 TCGGGTCGG-TTTTTTTAAGTGTGATATTCGGGTCGAG
*
32625 TC----CGGTTTTTTTAAGTGTGATATTCAGGTC
1 TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTC
32655 TGGTCGAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
33 24 0.39
34 3 0.05
37 9 0.15
38 26 0.42
ACGTcount: A:0.15, C:0.12, G:0.31, T:0.41
Consensus pattern (37 bp):
TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:36061 original size:13 final size:12
Alignment explanation
Indices: 36038--36067 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
36028 CATAATATTC
36038 CAAAAAAAAAAA
1 CAAAAAAAAAAA
36050 CAAAAAACAAAAA
1 CAAAAAA-AAAAA
36063 CAAAA
1 CAAAA
36068 TCTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:41076 original size:18 final size:17
Alignment explanation
Indices: 41055--41088 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41045 TAGTAAAAAT
41055 AAAAATTAGTAGGAATAC
1 AAAAA-TAGTAGGAATAC
*
41073 AAAAATAGTATGAATA
1 AAAAATAGTAGGAATA
41089 TATAAAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.24
Consensus pattern (17 bp):
AAAAATAGTAGGAATAC
Found at i:50235 original size:12 final size:12
Alignment explanation
Indices: 50204--50235 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
50194 TATATTCAAA
*
50204 TTGTTGTGATTG
1 TTGTTGTTATTG
50216 TTGTTGTTATTG
1 TTGTTGTTATTG
50228 TTGTTGTT
1 TTGTTGTT
50236 GTTGCCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (12 bp):
TTGTTGTTATTG
Found at i:51188 original size:3 final size:3
Alignment explanation
Indices: 51180--51204 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51170 ATCAGCTAAC
51180 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
51205 GGATAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:52795 original size:29 final size:31
Alignment explanation
Indices: 52750--52842 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
52740 TTATTGCTTT
**
52750 ATTAAGTCCCTTGACTATTAAAAGTTACAAA
1 ATTAAGTCCCTCAACTATTAAAAGTTACAAA
* * ****
52781 ATT-A-T-CCTCCAACTATTGAATGTTATTTT
1 ATTAAGTCCCT-CAACTATTAAAAGTTACAAA
52810 ATTAAGTCCCTCAACTATTAAAAGTTACAAA
1 ATTAAGTCCCTCAACTATTAAAAGTTACAAA
52841 AT
1 AT
52843 GATCACTCGA
Statistics
Matches: 44, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
28 3 0.07
29 16 0.36
30 2 0.05
31 20 0.45
32 3 0.07
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (31 bp):
ATTAAGTCCCTCAACTATTAAAAGTTACAAA
Found at i:53110 original size:60 final size:60
Alignment explanation
Indices: 53055--53167 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
53045 AGTCAGGTGA
* * *
53055 CCATTTCATAATTTTTAATAGTTAAGGGACTTAACAAAGCAATATTCTATAGTCAGAGAT
1 CCATTTCATAATTTTTAATAGTCAAGAGACTTAACAAAGCAATATTATATAGTCAGAGAT
* *
53115 TCATTTCATAATTTTTAATAGTCGAGAGACTTAACAAAGCAATATTATATAGT
1 CCATTTCATAATTTTTAATAGTCAAGAGACTTAACAAAGCAATATTATATAGT
53168 TAGGGGACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (60 bp):
CCATTTCATAATTTTTAATAGTCAAGAGACTTAACAAAGCAATATTATATAGTCAGAGAT
Found at i:53784 original size:15 final size:15
Alignment explanation
Indices: 53764--53796 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
53754 GGTTCTCCCA
53764 GGCTCCCACCTAGAG
1 GGCTCCCACCTAGAG
53779 GGCTCCCACCTAGAG
1 GGCTCCCACCTAGAG
53794 GGC
1 GGC
53797 GTCCTCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.39, G:0.30, T:0.12
Consensus pattern (15 bp):
GGCTCCCACCTAGAG
Found at i:56562 original size:11 final size:11
Alignment explanation
Indices: 56546--56582 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
56536 CTACTAGGTT
56546 AAAAACAATTC
1 AAAAACAATTC
*
56557 AAAAACAACTC
1 AAAAACAATTC
56568 AAAAACCAATTC
1 AAAAA-CAATTC
56580 AAA
1 AAA
56583 GGAATTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.65, C:0.22, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAACAATTC
Found at i:57080 original size:13 final size:13
Alignment explanation
Indices: 57062--57095 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
57052 ATTCAAAACA
57062 AAAGATAATTCCT
1 AAAGATAATTCCT
57075 AAAGATAATTCCT
1 AAAGATAATTCCT
*
57088 AAAAATAA
1 AAAGATAA
57096 AAATAAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (13 bp):
AAAGATAATTCCT
Found at i:57966 original size:13 final size:14
Alignment explanation
Indices: 57943--57972 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
57933 GTTTCCAGAT
57943 TTCTCTTCTTCTTC
1 TTCTCTTCTTCTTC
57957 TTCT-TTCTTCTTC
1 TTCTCTTCTTCTTC
57970 TTC
1 TTC
57973 ACTGTGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCTCTTCTTCTTC
Found at i:58565 original size:64 final size:63
Alignment explanation
Indices: 58489--58608 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 63
58479 ATTGTTCAAG
*
58489 GTGTATCGATGCACATGAAGTGCATCGATGCACTCCT-TTAAAATAAAAACATCGAATATCATTA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCAC-CCTATT-AAATAAAAACATCGAATATCATTA
* *
58553 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCTATTAAATACAAACATCGAAT
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCTATTAAATAAAAACATCGAAT
58609 GAGATTTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 19 0.37
64 33 0.63
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (63 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCCTATTAAATAAAAACATCGAATATCATTA
Found at i:58628 original size:63 final size:63
Alignment explanation
Indices: 58495--58655 Score: 168
Period size: 63 Copynumber: 2.5 Consensus size: 63
58485 CAAGGTGTAT
* * ** *
58495 CGATGCACATGAAGTGCATCGATGCACTCCTTTAAAATAAAAACATCGAATATCATTAGTGTAT
1 CGATGCACAAGTAGTGCATCGATGCAC-CCTTTAAAATAAAAACATCGAATATCATTAGTACAC
* *
58559 CGATGCACAAGTAGTGCATCGATGCACCCTATT-AAATACAAACATCGAATGA-GATTTA-TACA
1 CGATGCACAAGTAGTGCATCGATGCACCCT-TTAAAATAAAAACATCGAAT-ATCA-TTAGTACA
58621 C
63 C
* *
58622 CGATGCA-TAGATAGTGCATCGATGCACCCGTTAA
1 CGATGCACAAG-TAGTGCATCGATGCACCCTTTAA
58656 GGGATGCATC
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
62 4 0.05
63 48 0.58
64 31 0.37
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (63 bp):
CGATGCACAAGTAGTGCATCGATGCACCCTTTAAAATAAAAACATCGAATATCATTAGTACAC
Found at i:59428 original size:23 final size:23
Alignment explanation
Indices: 59291--59420 Score: 242
Period size: 23 Copynumber: 5.7 Consensus size: 23
59281 CAATCTTATA
* *
59291 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAACTCTACG
59314 TGGCACTTCGGTGCAACTCTACG
1 TGGCACTTCGGTGCAACTCTACG
59337 TGGCACTTCGGTGCAACTCTACG
1 TGGCACTTCGGTGCAACTCTACG
59360 TGGCACTTCGGTGCAACTCTACG
1 TGGCACTTCGGTGCAACTCTACG
59383 TGGCACTTCGGTGCAACTCTACG
1 TGGCACTTCGGTGCAACTCTACG
59406 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
59421 TTTATACGAG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 105 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAACTCTACG
Found at i:62270 original size:9 final size:9
Alignment explanation
Indices: 62256--62347 Score: 85
Period size: 9 Copynumber: 9.8 Consensus size: 9
62246 GGCTGCTGAA
62256 AACCGGTTT
1 AACCGGTTT
62265 AACCGGTTT
1 AACCGGTTT
*
62274 GACCGGTTT
1 AACCGGTTT
*
62283 CAACCGGTTCG
1 -AACCGGTT-T
62294 AACCGGTTT
1 AACCGGTTT
* *
62303 GACCGGTCTG
1 AACCGGT-TT
62313 AACCGGTTT
1 AACCGGTTT
* *
62322 GACCGGTCTG
1 AACCGGT-TT
62332 AACCGGTTT
1 AACCGGTTT
*
62341 GACCGGT
1 AACCGGT
62348 CTGATCCGAC
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
9 37 0.56
10 29 0.44
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.27
Consensus pattern (9 bp):
AACCGGTTT
Found at i:62289 original size:19 final size:19
Alignment explanation
Indices: 62256--62351 Score: 133
Period size: 19 Copynumber: 5.1 Consensus size: 19
62246 GGCTGCTGAA
* *
62256 AACCGGTTTAACCGGTTTG
1 AACCGGTTTGACCGGTCTG
*
62275 -ACCGGTTTCAACCGGT-TCG
1 AACCGGTTT-GACCGGTCT-G
62294 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
62313 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
62332 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
62351 A
1 A
62352 TCCGACCCGA
Statistics
Matches: 72, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
18 9 0.12
19 54 0.75
20 9 0.12
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:62364 original size:38 final size:38
Alignment explanation
Indices: 62285--62364 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
62275 ACCGGTTTCA
****
62285 ACCGGTTCGAACCGGTTTGACCGGTCTGAACCGGTTTG
1 ACCGGTTCGAACCGGTTTGACCGGTCTGAACCGACCCG
*
62323 ACCGG-TCTGAACCGGTTTGACCGGTCTGATCCGACCCG
1 ACCGGTTC-GAACCGGTTTGACCGGTCTGAACCGACCCG
62361 ACCG
1 ACCG
62365 TTGACCCGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.16, C:0.31, G:0.30, T:0.23
Consensus pattern (38 bp):
ACCGGTTCGAACCGGTTTGACCGGTCTGAACCGACCCG
Found at i:62375 original size:17 final size:17
Alignment explanation
Indices: 62353--62386 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
62343 CCGGTCTGAT
62353 CCGACCCGACCGTTGAC
1 CCGACCCGACCGTTGAC
62370 CCGACCCGACCGTTGAC
1 CCGACCCGACCGTTGAC
62387 TGTTGACCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
CCGACCCGACCGTTGAC
Found at i:62393 original size:7 final size:7
Alignment explanation
Indices: 62377--62407 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
62367 GACCCGACCC
62377 GACCGTT
1 GACCGTT
*
62384 GACTGTT
1 GACCGTT
62391 GACCGTT
1 GACCGTT
62398 GACCGTT
1 GACCGTT
62405 GAC
1 GAC
62408 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:64661 original size:45 final size:45
Alignment explanation
Indices: 64605--64994 Score: 458
Period size: 45 Copynumber: 8.7 Consensus size: 45
64595 CTTATCAACA
* * *
64605 TAAGCCCCCTGTCTATGAACCACCAAAGAAAGAGAAACCAGAGCC
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * * * * *
64650 TAAGCCGCCTGTCTATGAACCTCCAAAGAAAGAGAAGCCTGAACC
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * *
64695 CAAACCACCGGTCTATGAACCACCAAAGAAAGAGAAACCTGAGCC
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * * * *
64740 TAAACCACCGGTCTATGAGCCCCCAAAGAAGGAGAAACCCGAGCA
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * *
64785 TAAGCCACCGGTTTATGAACCACCAAAGAAGGAGAAACCCGAGCA
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
** *
64830 TAAGCCACTAGTCTATGAACCACCAAAGAAGGAGAAACCCGAGCC
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * * **
64875 TAAGCCCCCAGTTTATGAACCACCAAAGAAAGAGAAACCTAAGCC
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * *
64920 TAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAACCTGAACC
1 TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
* * *
64965 CAAACCACCAGTCTATGAA-CATCCAAAGAA
1 TAAGCCACCGGTCTATGAACCA-CCAAAGAA
64995 GCCACCAGTC
Statistics
Matches: 304, Mismatches: 40, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
44 2 0.01
45 302 0.99
ACGTcount: A:0.40, C:0.30, G:0.18, T:0.12
Consensus pattern (45 bp):
TAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCC
Found at i:64995 original size:135 final size:134
Alignment explanation
Indices: 64605--64995 Score: 505
Period size: 135 Copynumber: 2.9 Consensus size: 134
64595 CTTATCAACA
* * *
64605 TAAGCCCCCTGTCTATGAACCACCAAAGAAAGAGAAACCAGAGCCTAAGCCGCCTGTCTATGAAC
1 TAAGCCCCCAGTCTATGAACCACCAAAGAAAGAGAAACCA-AGCCTAAGCCACCGGTCTATGAAC
* * * * *
64670 CTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTCTATGAACCACCAAAGAAAGAGAAACCT
65 CACCAAAGAAAGAGAAACCTGAACCCAAACCACCAGTCTATGAACCACCAAAGAAGGAGAAACCC
64735 GAGCC
130 GAGCC
* * * * * * * * *
64740 TAAACCACCGGTCTATGAGCCCCCAAAGAAGGAGAAACCCGAGCATAAGCCACCGGTTTATGAAC
1 TAAGCCCCCAGTCTATGAACCACCAAAGAAAGAGAAA-CCAAGCCTAAGCCACCGGTCTATGAAC
* * * ** * *
64805 CACCAAAGAAGGAGAAACCCGAGCATAAGCCACTAGTCTATGAACCACCAAAGAAGGAGAAACCC
65 CACCAAAGAAAGAGAAACCTGAACCCAAACCACCAGTCTATGAACCACCAAAGAAGGAGAAACCC
64870 GAGCC
130 GAGCC
* *
64875 TAAGCCCCCAGTTTATGAACCACCAAAGAAAGAGAAACCTAAGCCTAAGCCCCCGGTCTATGAAC
1 TAAGCCCCCAGTCTATGAACCACCAAAGAAAGAGAAACC-AAGCCTAAGCCACCGGTCTATGAAC
64940 CACCAAAGAAAGAGAAACCTGAACCCAAACCACCAGTCTATGAA-CATCCAAAGAAG
65 CACCAAAGAAAGAGAAACCTGAACCCAAACCACCAGTCTATGAACCA-CCAAAGAAG
64996 CCACCAGTCT
Statistics
Matches: 212, Mismatches: 41, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
134 4 0.02
135 206 0.97
136 2 0.01
ACGTcount: A:0.40, C:0.30, G:0.19, T:0.12
Consensus pattern (134 bp):
TAAGCCCCCAGTCTATGAACCACCAAAGAAAGAGAAACCAAGCCTAAGCCACCGGTCTATGAACC
ACCAAAGAAAGAGAAACCTGAACCCAAACCACCAGTCTATGAACCACCAAAGAAGGAGAAACCCG
AGCC
Found at i:65003 original size:27 final size:27
Alignment explanation
Indices: 64969--65065 Score: 135
Period size: 27 Copynumber: 3.6 Consensus size: 27
64959 TGAACCCAAA
64969 CCACCAGTCTATGAACATCCAAAGAAG
1 CCACCAGTCTATGAACATCCAAAGAAG
64996 CCACCAGTCTATGAACATCCAAAGAAG
1 CCACCAGTCTATGAACATCCAAAGAAG
*
65023 CCACCAGTAC-ACGAGAC-TCCAAAGAAG
1 CCACCAGT-CTATGA-ACATCCAAAGAAG
* *
65050 CCACCGGTGTATGAAC
1 CCACCAGTCTATGAAC
65066 CACCTTACGG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
26 2 0.03
27 58 0.92
28 3 0.05
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (27 bp):
CCACCAGTCTATGAACATCCAAAGAAG
Found at i:67848 original size:13 final size:14
Alignment explanation
Indices: 67818--67849 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
67808 GTCTCTCTCC
67818 CTTCTCTTTTTGTT
1 CTTCTCTTTTTGTT
67832 -TTCT-TTTTTGTT
1 CTTCTCTTTTTGTT
67844 CTTCTC
1 CTTCTC
67850 CCCCCCCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 4
0.80 0.00 0.20
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.00, C:0.22, G:0.06, T:0.72
Consensus pattern (14 bp):
CTTCTCTTTTTGTT
Found at i:76603 original size:76 final size:76
Alignment explanation
Indices: 76472--76623 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
76462 GGGTTAAAAT
*
76472 GCCTCATAAAAAAAGAATAAGGGACAAAGCGATAATTATATCAAATATTAAAGACCTTTTTACCA
1 GCCTCATAAAAAAAGAATAAAGGACAAAGCGATAATTATATCAAATATTAAAGACCTTTTTACCA
76537 TAAAATGAAAC
66 TAAAATGAAAC
*
76548 GCCTCATAAAAAAAGAATAAAGGACAAAGCGATAATTATATCAAATATTAGAGACCTTTTTACCA
1 GCCTCATAAAAAAAGAATAAAGGACAAAGCGATAATTATATCAAATATTAAAGACCTTTTTACCA
76613 TAAAATGAAAC
66 TAAAATGAAAC
76624 ACTGAGGGTC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (76 bp):
GCCTCATAAAAAAAGAATAAAGGACAAAGCGATAATTATATCAAATATTAAAGACCTTTTTACCA
TAAAATGAAAC
Found at i:77374 original size:45 final size:45
Alignment explanation
Indices: 77308--77654 Score: 401
Period size: 45 Copynumber: 7.7 Consensus size: 45
77298 TGGCAAATCA
* * *
77308 CCTAAGCCCCCTGTCTATGAACCTCCAAAGAAAGAGAAACCCGAG
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
* * *
77353 CCTAAACCACCGGTGTATGAACCACCAAAGAAAGAGAAACCTGAG
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
* * * *
77398 CCTAAGCCCCCGGTCTATGAACCACCGAAGAAAGAGAAGCCAC-AA
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACC-CGAG
* * * * * * *
77443 CCCAAACCACCGGTCTATGAGCCCCCGAAGAAGGAAAAACCCGAG
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
77488 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
* * * **
77533 CCTAAGCCCCCAGTTTATGAACCACCAAAGAAAGAGAAACCTAAG
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
* * * *
77578 CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAGCCTGAA
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
* * *
77623 CCCAAACCACCAGTCTATGAA-CATCCAAAGAA
1 CCTAAGCCACCGGTCTATGAACCA-CCAAAGAA
77655 GCCACCAGTA
Statistics
Matches: 256, Mismatches: 43, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
44 3 0.01
45 253 0.99
ACGTcount: A:0.39, C:0.32, G:0.18, T:0.11
Consensus pattern (45 bp):
CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAG
Found at i:77462 original size:90 final size:90
Alignment explanation
Indices: 77308--77654 Score: 446
Period size: 90 Copynumber: 3.9 Consensus size: 90
77298 TGGCAAATCA
* * * * * *
77308 CCTAAGCCCCCTGTCTATGAACCTCCAAAGAAAGAGAAACCCGAGCCTAAACCACCGGTGTATGA
1 CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAACCCAAACCACCAGTCTATGA
77373 ACCACCAAAGAAAGAGAAACCTGAG
66 ACCACCAAAGAAAGAGAAACCTGAG
* * *
77398 CCTAAGCCCCCGGTCTATGAACCACCGAAGAAAGAGAAGCCAC-AACCCAAACCACCGGTCTATG
1 CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAACC-CGAACCCAAACCACCAGTCTATG
* * * * * *
77462 AGCCCCCGAAGAAGGAAAAACCCGAG
65 AACCACCAAAGAAAGAGAAACCTGAG
* * * * * *
77488 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCCTAAGCCCCCAGTTTATGA
1 CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAACCCAAACCACCAGTCTATGA
*
77553 ACCACCAAAGAAAGAGAAACCTAAG
66 ACCACCAAAGAAAGAGAAACCTGAG
* *
77578 CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGA
1 CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAACCCAAACCACCAGTCTATGA
77643 A-CATCCAAAGAA
66 ACCA-CCAAAGAA
77655 GCCACCAGTA
Statistics
Matches: 217, Mismatches: 37, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
89 3 0.01
90 213 0.98
91 1 0.00
ACGTcount: A:0.39, C:0.32, G:0.18, T:0.11
Consensus pattern (90 bp):
CCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAACCCAAACCACCAGTCTATGA
ACCACCAAAGAAAGAGAAACCTGAG
Found at i:77611 original size:180 final size:180
Alignment explanation
Indices: 77308--77642 Score: 562
Period size: 180 Copynumber: 1.9 Consensus size: 180
77298 TGGCAAATCA
* * * *
77308 CCTAAGCCCCCTGTCTATGAACCTCCAAAGAAAGAGAAACCCGAGCCTAAACCACCGGTGTATGA
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCCTAAACCACCAGTGTATGA
* *
77373 ACCACCAAAGAAAGAGAAACCTGAGCCTAAGCCCCCGGTCTATGAACCACCGAAGAAAGAGAAGC
66 ACCACCAAAGAAAGAGAAACCTAAGCCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAGC
*
77438 CACAACCCAAACCACCGGTCTATGAGCCCCCGAAGAAGGAAAAACCCGAG
131 CACAACCCAAACCACCAGTCTATGAGCCCCCGAAGAAGGAAAAACCCGAG
* * *
77488 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCCTAAGCCCCCAGTTTATGA
1 CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCCTAAACCACCAGTGTATGA
77553 ACCACCAAAGAAAGAGAAACCTAAGCCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAGC
66 ACCACCAAAGAAAGAGAAACCTAAGCCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAGC
**
77618 CTGAACCCAAACCACCAGTCTATGA
131 CACAACCCAAACCACCAGTCTATGA
77643 ACATCCAAAG
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
180 143 1.00
ACGTcount: A:0.39, C:0.32, G:0.19, T:0.11
Consensus pattern (180 bp):
CCTAAGCCACCGGTCTATGAACCACCAAAGAAAGAGAAACCCGAGCCTAAACCACCAGTGTATGA
ACCACCAAAGAAAGAGAAACCTAAGCCTAAGCCCCCGGTCTATGAACCACCAAAGAAAGAGAAGC
CACAACCCAAACCACCAGTCTATGAGCCCCCGAAGAAGGAAAAACCCGAG
Found at i:77663 original size:27 final size:26
Alignment explanation
Indices: 77629--77698 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
77619 TGAACCCAAA
77629 CCACCAGTCTATGAACATCCAAAGAAG
1 CCACCAGTCTATGAAC-TCCAAAGAAG
*
77656 CCACCAGTAC-ACGAGACTCCAAAGAAG
1 CCACCAGT-CTATGA-ACTCCAAAGAAG
* *
77683 CCACCGGTGTATGAAC
1 CCACCAGTCTATGAAC
77699 CACCTTACGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
26 2 0.06
27 31 0.86
28 3 0.08
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (26 bp):
CCACCAGTCTATGAACTCCAAAGAAG
Found at i:78947 original size:60 final size:60
Alignment explanation
Indices: 78868--79057 Score: 229
Period size: 60 Copynumber: 3.2 Consensus size: 60
78858 CGGAAGATTC
* * * * *** *
78868 AAAAGTTTGGAGAAT-AATTTAGAATGAGAGTCATAGTTTGGGAATGAAATTGAAATATTT
1 AAAAGTTT-AAGAATAAATTTAGAATAAAAGTCATAATTCAAGAATGAAATTAAAATATTT
* *
78928 AAAAGTTTAAGAATAAATTTAGAATAAAATTCATAATTCAATAATGAAATTAAAATATTT
1 AAAAGTTTAAGAATAAATTTAGAATAAAAGTCATAATTCAAGAATGAAATTAAAATATTT
* * **
78988 AAAAGTTTAAGGATAAATTTAGAATAAAAATCATAATTCAATTATGAAATTAAAATATTT
1 AAAAGTTTAAGAATAAATTTAGAATAAAAGTCATAATTCAAGAATGAAATTAAAATATTT
*
79048 AAAAATTTAA
1 AAAAGTTTAA
79058 ATACTAATTT
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
59 5 0.04
60 110 0.96
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (60 bp):
AAAAGTTTAAGAATAAATTTAGAATAAAAGTCATAATTCAAGAATGAAATTAAAATATTT
Found at i:79067 original size:60 final size:60
Alignment explanation
Indices: 78910--79076 Score: 241
Period size: 60 Copynumber: 2.8 Consensus size: 60
78900 ATAGTTTGGG
* *
78910 AATGAAATTGAAATATTTAAAAGTTTAAGA-ATAAATTTAGAATAAAATTCATAATTCAAT
1 AATGAAATTAAAATATTTAAAAGTTTAAGATAT-AATTTAGAATAAAAATCATAATTCAAT
78970 AATGAAATTAAAATATTTAAAAGTTTAAGGATA-AATTTAGAATAAAAATCATAATTCAAT
1 AATGAAATTAAAATATTTAAAAGTTTAA-GATATAATTTAGAATAAAAATCATAATTCAAT
* * *
79030 TATGAAATTAAAATATTTAAAAATTTAA-ATACTAATTTAAAATAAAA
1 AATGAAATTAAAATATTTAAAAGTTTAAGATA-TAATTTAGAATAAAA
79077 CTCAATATCT
Statistics
Matches: 98, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
58 3 0.03
60 92 0.94
61 2 0.02
62 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.35
Consensus pattern (60 bp):
AATGAAATTAAAATATTTAAAAGTTTAAGATATAATTTAGAATAAAAATCATAATTCAAT
Found at i:79550 original size:24 final size:26
Alignment explanation
Indices: 79505--79556 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
79495 CGTTCGTGAA
*
79505 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
79531 CGTTC-ATT-TATGTTCATTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
79555 CG
1 CG
79557 AACAGATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.54
Consensus pattern (26 bp):
CGTTCGATTATATGTTCATTTATGTT
Found at i:79960 original size:16 final size:16
Alignment explanation
Indices: 79939--79969 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
79929 AAAAAAATTG
79939 TTCGTTTATGTTCGTA
1 TTCGTTTATGTTCGTA
79955 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
79970 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTA
Found at i:87254 original size:45 final size:45
Alignment explanation
Indices: 87181--87941 Score: 604
Period size: 45 Copynumber: 16.4 Consensus size: 45
87171 ACCTCCAAAT
* * * *
87181 TATGAACCACCAAAGAAAGAGAAACCTGAGCCTAAGCCACCGGTC
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * *
87226 CATGAGCCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * * *
87271 TATGAACCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTT
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
*
87316 TAT--ACTCCTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
1 TATGAAC-CC-CCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * * * *
87361 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTT
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* *
87406 TAT-ACACCTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
1 TATGA-ACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * * *
87451 TATGAACCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTT
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
*
87496 TAT--ACTCCTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
1 TATGAAC-CC-CCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * * * *
87541 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTT
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* *
87586 TAT-ACACCTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
1 TATGA-ACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * * * *
87631 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTT
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* *
87676 TAT-ACACCTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
1 TATGA-ACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * * * *
87721 TATGAGCCGCCAAAGAAACCACCAACGTATGAGCCT-AAGCCCCCAAAGCCACCGGTT
1 TATGAACCCCCAAAG-AA--A--GA-G-A--AACCTGAA---CCCAAA-CCACCGGTC
* * * *
87778 TATGCACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTC
1 TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
* * *
87823 TATGAGCCTCCAAAGAAACCTCCGACGTATGAACCTAAACCACCAAAGCCACCGGTC
1 TATGAACCCCCAAAGAAA-----GA-G-A--AACCTGAA-C-CCAAA-CCACCGGTC
* * * *
87880 TAT-ACACCACCGAAGAAAGAGAAGCCTGAACCCAAACCACCAGTC
1 TATGA-ACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
**
87925 TATGAACATCCAAAGAA
1 TATGAACCCCCAAAGAA
87942 GCCTCCAACG
Statistics
Matches: 569, Mismatches: 105, Indels: 84
0.75 0.14 0.11
Matches are distributed among these distances:
43 4 0.01
44 7 0.01
45 436 0.77
46 21 0.04
47 3 0.01
48 12 0.02
49 2 0.00
50 5 0.01
51 4 0.01
52 5 0.01
53 2 0.00
54 12 0.02
55 1 0.00
56 14 0.02
57 41 0.07
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.11
Consensus pattern (45 bp):
TATGAACCCCCAAAGAAAGAGAAACCTGAACCCAAACCACCGGTC
Found at i:87290 original size:90 final size:90
Alignment explanation
Indices: 87181--87929 Score: 1007
Period size: 90 Copynumber: 8.1 Consensus size: 90
87171 ACCTCCAAAT
* * * ** * *
87181 TATGAACCACCAAAGAAAGAGAAACCTGAGCCTAAGCCACCGGTCCATGA-GCCACCAAAGAAAG
1 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTAT-ACACCTCCAAAGAAAG
87245 AGAAGCCTGAACCCAAACCACCGGTC
65 AGAAGCCTGAACCCAAACCACCGGTC
* *
87271 TATGAACCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACTCCTCCAAAGAAAGA
1 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
87336 GAAGCCTGAACCCAAACCACCGGTC
66 GAAGCCTGAACCCAAACCACCGGTC
87361 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
1 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
87426 GAAGCCTGAACCCAAACCACCGGTC
66 GAAGCCTGAACCCAAACCACCGGTC
* *
87451 TATGAACCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACTCCTCCAAAGAAAGA
1 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
87516 GAAGCCTGAACCCAAACCACCGGTC
66 GAAGCCTGAACCCAAACCACCGGTC
87541 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
1 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
87606 GAAGCCTGAACCCAAACCACCGGTC
66 GAAGCCTGAACCCAAACCACCGGTC
87631 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
1 TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
87696 GAAGCCTGAACCCAAACCACCGGTC
66 GAAGCCTGAACCCAAACCACCGGTC
* * * ** * *
87721 TATGAGCCGCCAAAGAAACCACCAACGTATGAGCCTAAGCCCCCAAAGCCACCGGTTTATGCACC
1 TATGAGCCCCCAAAG-AA--A--GA-G-A--AACCCGAG---CCTAAGCCACCGGTTTATACACC
* *
87786 ACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTC
54 TCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
* * * *
87823 TATGAGCCTCCAAAGAAACCTCCGACGTATGAACCTAAACCA-CCAAAGCCACCGGTCTATACAC
1 TATGAGCCCCCAAAGAAA-----GA-G-A--AACC----CGAGCCTAAGCCACCGGTTTATACAC
* * *
87887 CACCGAAGAAAGAGAAGCCTGAACCCAAACCACCAGTC
53 CTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTC
87925 TATGA
1 TATGA
87930 ACATCCAAAG
Statistics
Matches: 610, Mismatches: 29, Indels: 28
0.91 0.04 0.04
Matches are distributed among these distances:
89 1 0.00
90 450 0.74
91 2 0.00
93 1 0.00
95 1 0.00
96 1 0.00
97 1 0.00
99 6 0.01
101 2 0.00
102 144 0.24
106 1 0.00
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.11
Consensus pattern (90 bp):
TATGAGCCCCCAAAGAAAGAGAAACCCGAGCCTAAGCCACCGGTTTATACACCTCCAAAGAAAGA
GAAGCCTGAACCCAAACCACCGGTC
Found at i:87840 original size:102 final size:102
Alignment explanation
Indices: 87664--87998 Score: 544
Period size: 102 Copynumber: 3.3 Consensus size: 102
87654 ACCCGAGCCT
* *
87664 AAGCCACCGGTTTATACACCTCCAAAGAAAGAGAAGCCTGAACCCAAACCACCGGTCTATGAGCC
1 AAGCCACCGGTTTATACACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGAGCC
* * *
87729 GCCAAAGAAACCACCAACGTATGAGCCTAAGCCCCCA
66 TCCAAAGAAACCTCCAACGTATGAGCCTAAGCCACCA
*
87766 AAGCCACCGGTTTATGCACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGAGCC
1 AAGCCACCGGTTTATACACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGAGCC
* * *
87831 TCCAAAGAAACCTCCGACGTATGAACCTAAACCACCA
66 TCCAAAGAAACCTCCAACGTATGAGCCTAAGCCACCA
* * * *
87868 AAGCCACCGGTCTATACACCACCGAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGAACA
1 AAGCCACCGGTTTATACACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGAGCC
*
87933 TCCAAAGAAGCCTCCAACGTATGAGCCTAAGCCACCA
66 TCCAAAGAAACCTCCAACGTATGAGCCTAAGCCACCA
87970 AAGCCACCGGTTTATACACCACCAAAGAA
1 AAGCCACCGGTTTATACACCACCAAAGAA
87999 GCCTCCAGTG
Statistics
Matches: 213, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 213 1.00
ACGTcount: A:0.38, C:0.33, G:0.16, T:0.12
Consensus pattern (102 bp):
AAGCCACCGGTTTATACACCACCAAAGAAAGAGAAGCCTGAACCCAAACCACCAGTCTATGAGCC
TCCAAAGAAACCTCCAACGTATGAGCCTAAGCCACCA
Found at i:89654 original size:8 final size:8
Alignment explanation
Indices: 89630--89683 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
89620 AAAGATAATC
*
89630 ATATTTAA
1 ATATTTAT
89638 ATATATTAT
1 ATAT-TTAT
89647 ATATTTAT
1 ATATTTAT
* *
89655 ATATTCAA
1 ATATTTAT
*
89663 ATACATTAT
1 ATA-TTTAT
89672 ATATTTAT
1 ATATTTAT
89680 ATAT
1 ATAT
89684 AGTATCAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 25 0.68
9 12 0.32
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATTTAT
Found at i:89658 original size:25 final size:25
Alignment explanation
Indices: 89630--89683 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
89620 AAAGATAATC
* *
89630 ATATTTAAATATATTATATATTTAT
1 ATATTCAAATACATTATATATTTAT
89655 ATATTCAAATACATTATATATTTAT
1 ATATTCAAATACATTATATATTTAT
89680 ATAT
1 ATAT
89684 AGTATCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
ATATTCAAATACATTATATATTTAT
Found at i:89967 original size:15 final size:15
Alignment explanation
Indices: 89949--89992 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
89939 TTTTCTTCTT
89949 CTTTCTTTCTCTTCA
1 CTTTCTTTCTCTTCA
89964 ----CTTT-TCTTCA
1 CTTTCTTTCTCTTCA
89974 CTTTCTTTCTCTTCA
1 CTTTCTTTCTCTTCA
89989 CTTT
1 CTTT
89993 TCTTCACGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
14 4 0.17
15 10 0.42
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61
Consensus pattern (15 bp):
CTTTCTTTCTCTTCA
Found at i:89983 original size:25 final size:25
Alignment explanation
Indices: 89932--89999 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
89922 CTCATATTTT
*
89932 TCTTCACTTTTCTTCTTCTTTCTTTC
1 TCTTCACTTTTCTTC-ACTTTCTTTC
89958 TCTTCACTTTTCTTCACTTTCTTTC
1 TCTTCACTTTTCTTCACTTTCTTTC
89983 TCTTCACTTTTCTTCAC
1 TCTTCACTTTTCTTCAC
90000 GTATCTGAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 26 0.63
26 15 0.37
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.60
Consensus pattern (25 bp):
TCTTCACTTTTCTTCACTTTCTTTC
Found at i:91396 original size:26 final size:26
Alignment explanation
Indices: 91374--91423 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
91364 GATAAGAGGA
*
91374 AAGAAGAAAAGTGAAGAGAAAGAAAG
1 AAGAAGAAAAGTGAAGAAAAAGAAAG
*
91400 AAGAATAAAAGTGAAGAAAAAGAA
1 AAGAAGAAAAGTGAAGAAAAAGAA
91424 GCTGGAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (26 bp):
AAGAAGAAAAGTGAAGAAAAAGAAAG
Found at i:94322 original size:8 final size:8
Alignment explanation
Indices: 94304--94339 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
94294 TGAAGCATGT
94304 AAGACAAAC
1 AAGA-AAAC
94313 AAGAAAAC
1 AAGAAAAC
94321 AAGAAAAC
1 AAGAAAAC
*
94329 AAGAAATC
1 AAGAAAAC
94337 AAG
1 AAG
94340 TTAGAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.69, C:0.14, G:0.14, T:0.03
Consensus pattern (8 bp):
AAGAAAAC
Found at i:95961 original size:15 final size:15
Alignment explanation
Indices: 95941--95992 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
95931 AAGTCTAGGG
95941 ACTAAAGTATAAAAA
1 ACTAAAGTATAAAAA
**
95956 ACTAAAGTATAAGGA
1 ACTAAAGTATAAAAA
* *
95971 CCT-AAGTGTAAAAA
1 ACTAAAGTATAAAAA
95985 ACTAAAGT
1 ACTAAAGT
95993 CTAGGGCCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.21
Consensus pattern (15 bp):
ACTAAAGTATAAAAA
Found at i:96002 original size:28 final size:28
Alignment explanation
Indices: 95928--96047 Score: 118
Period size: 29 Copynumber: 4.1 Consensus size: 28
95918 TGTGAGAACT
* * *
95928 CTAAAGTCTAGGGACTAAAGTATAAAAAA
1 CTAAAGTATAGGGCCT-AAGTGTAAAAAA
*
95957 CTAAAGTATAAGGACCTAAGTGTAAAAAA
1 CTAAAGTAT-AGGGCCTAAGTGTAAAAAA
*
95986 CTAAAGTCTAGGGCCTATA-TGTAAAAATA
1 CTAAAGTATAGGGCCTA-AGTGTAAAAA-A
*
96015 -TAAAGTATAGGGACCTAAGTGTGAAAAAT
1 CTAAAGTATAGGG-CCTAAGTGT-AAAAAA
96044 CTAA
1 CTAA
96048 TCCTAGAGGG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
28 27 0.36
29 36 0.47
30 13 0.17
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.23
Consensus pattern (28 bp):
CTAAAGTATAGGGCCTAAGTGTAAAAAA
Found at i:96021 original size:57 final size:59
Alignment explanation
Indices: 95928--96047 Score: 165
Period size: 58 Copynumber: 2.1 Consensus size: 59
95918 TGTGAGAACT
95928 CTAAAGTCTAGGGACTAAAGTATAAAAAACTAAAGTATAAGGACCTAAGTGT-AAAAAA
1 CTAAAGTCTAGGGACTAAAGTATAAAAAACTAAAGTATAAGGACCTAAGTGTGAAAAAA
* * * * *
95986 CTAAAGTCTAGGGCCTATATGTA-AAAATA-TAAAGTATAGGGACCTAAGTGTGAAAAAT
1 CTAAAGTCTAGGGACTA-AAGTATAAAAAACTAAAGTATAAGGACCTAAGTGTGAAAAAA
96044 CTAA
1 CTAA
96048 TCCTAGAGGG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
57 21 0.38
58 30 0.55
59 4 0.07
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.23
Consensus pattern (59 bp):
CTAAAGTCTAGGGACTAAAGTATAAAAAACTAAAGTATAAGGACCTAAGTGTGAAAAAA
Found at i:96409 original size:3 final size:3
Alignment explanation
Indices: 96401--96436 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
96391 CATTAAATGA
96401 AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
96437 AAATGACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:97441 original size:3 final size:3
Alignment explanation
Indices: 97435--97484 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
97425 ATATAACAAC
* * *
97435 AAT AAT AAT -AT TAT AAT AAT AAT AAT AAC AAT AAC AAT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97480 AAT AA
1 AAT AA
97485 AAAATGGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:98913 original size:18 final size:19
Alignment explanation
Indices: 98890--98932 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
98880 CAATAATCCT
98890 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
98908 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
98928 ATTCC
1 ATTCC
98933 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:98920 original size:20 final size:20
Alignment explanation
Indices: 98895--98932 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
98885 ATCCTATTCC
98895 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
98915 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
98933 GTGAACCAAA
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:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:100541 original size:34 final size:34
Alignment explanation
Indices: 100474--100542 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
100464 TTCGTCCTAC
*
100474 TAGGATTCAAACTCTTAAAATTAGGATATAATTT
1 TAGGATTCAAACTCTTAAAATTAGGATAGAATTT
*
100508 TAGGATTCAAACTCTTAAAGA-TATGATAGAATTT
1 TAGGATTCAAACTCTTAAA-ATTAGGATAGAATTT
100542 T
1 T
100543 GCTAGGATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (34 bp):
TAGGATTCAAACTCTTAAAATTAGGATAGAATTT
Found at i:100977 original size:15 final size:15
Alignment explanation
Indices: 100955--100993 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
100945 ATTATATGGA
*
100955 TATT-TTATTCATTT
1 TATTATTATTCATGT
*
100969 TTTTATTATTCATGT
1 TATTATTATTCATGT
100984 TATTATTATT
1 TATTATTATT
100994 TTATGTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (15 bp):
TATTATTATTCATGT
Found at i:101304 original size:21 final size:20
Alignment explanation
Indices: 101250--101305 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
101240 ACTTTATATA
* *
101250 TTTATATTATTTTTTATTAT
1 TTTATATTATTATTCATTAT
* *
101270 TTTCATTTTTTTATTCATTAT
1 TTT-ATATTATTATTCATTAT
101291 TATTATATTATTATT
1 T-TTATATTATTATT
101306 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATATTATTATTCATTAT
Found at i:101502 original size:2 final size:2
Alignment explanation
Indices: 101495--101520 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101485 TAATACTTTG
101495 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
101521 CTTTTTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105276 original size:16 final size:15
Alignment explanation
Indices: 105257--105306 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
105247 GCAAAAACCA
105257 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAA-C
105273 AAAAAAGAAGAA-AAC
1 AAAAAAGAA-AAGAAC
105288 AAAAAAG-AAAGAAC
1 AAAAAAGAAAAGAAC
105302 AAAAA
1 AAAAA
105307 TAAAAAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.28
15 8 0.25
16 11 0.34
17 2 0.06
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAC
Found at i:105283 original size:14 final size:14
Alignment explanation
Indices: 105257--105306 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
105247 GCAAAAACCA
105257 AAAAAAGAAAAGAAGC
1 AAAAAAG-AAAGAA-C
*
105273 AAAAAAGAAGAAAAC
1 AAAAAAGAA-AGAAC
105288 AAAAAAGAAAGAAC
1 AAAAAAGAAAGAAC
105302 AAAAA
1 AAAAA
105307 TAAAAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 9 0.29
15 12 0.39
16 10 0.32
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAC
Found at i:105949 original size:22 final size:22
Alignment explanation
Indices: 105924--105974 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
105914 TCCCATCAAT
*
105924 CCTTTGAGTATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
105946 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
*
105968 CCCTTGA
1 CCTTTGA
105975 CCAAACACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:106423 original size:18 final size:18
Alignment explanation
Indices: 106389--106424 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
106379 TCAATATCAA
* *
106389 ATATTGGGGTATTTTTGG
1 ATATTGGGGCATATTTGG
106407 ATATTGGGGCATATTTGG
1 ATATTGGGGCATATTTGG
106425 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.44
Consensus pattern (18 bp):
ATATTGGGGCATATTTGG
Found at i:107762 original size:106 final size:105
Alignment explanation
Indices: 107576--108569 Score: 1406
Period size: 105 Copynumber: 9.5 Consensus size: 105
107566 GACGAAGGGG
* * * * *
107576 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATAATGGACTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
107641 TCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAA
66 TCAACTTCACGACGAAGGGACCG-CTGGTTGTCAAC-AACAA
* * * *
107682 TTTCCCAGTTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
107747 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAA
* * * * *
107788 CTTCTCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGATTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* * * *
107853 TCAACTTCACAACGAATGGACGGCTAGTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* *
107893 TTTCCCAATTTCAGAGCCAGTTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
107958 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAA
*
107999 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
108064 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* *
108104 CTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
108169 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* * * * *
108209 CTTCCCAATCTCAGAGTCAATTTCAACTTCACAACGAAGAATATTGGAATCCAGACAATGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
*
108274 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* * * *
108314 CATCCCAATCTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* * *
108379 TCAACTTCACAACGAAGAGACCGCTGTTTGTCAACAA-AA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
* ** * *
108418 -TT-TC-A-TTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
* *
108479 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA
66 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAA
* ** ** * * *
108520 TTTTTCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
108570 TGGAACAATG
Statistics
Matches: 805, Mismatches: 75, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
100 81 0.10
101 3 0.00
102 3 0.00
103 3 0.00
104 4 0.00
105 390 0.48
106 319 0.40
107 2 0.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGT
TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA
Found at i:107972 original size:211 final size:209
Alignment explanation
Indices: 107576--108569 Score: 1422
Period size: 211 Copynumber: 4.7 Consensus size: 209
107566 GACGAAGGGG
* * *
107576 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATAATGGACTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * *
107641 TCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTTCAAAGCCAATTTC
66 TCAACTTCACAACGAAGGGACGGCT-GTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTC
*
107706 AACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
129 AACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC
107771 TGGTTGTCAACAAACAA
194 TGGTTGTCAAC-AACAA
* * *
107788 CTTCTCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGATTCAAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* *
107853 TCAACTTCACAACGAATGGACGGCTAGTTGTCAACAACAATTTCCCAATTTCAGAGCCAGTTTCA
66 TCAACTTCACAACGAAGGGACGGCT-GTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCA
107918 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
130 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
107983 GGTTGTCAATAAACAA
195 GGTTGTCAA-CAACAA
* * *
107999 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * * *
108064 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCA
66 TCAACTTCACAACGAAGGGACGGCTG-TTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCA
*
108129 ACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
130 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
108194 GCTTGTCAACAACAA
195 GGTTGTCAACAACAA
* * * * * **
108209 CTTCCCAATCTCAGAGTCAATTTCAACTTCACAACGAAGAATATTGGAATCCAGACAATGCAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* * ** * *
108274 TCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACATCCCAATCTCAGAGCCAATTTTA
66 TCAACTTCACAACGAAGGGACGGCTG-TTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCA
* * *
108339 ACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACAACGAAGAGACCGCT
130 ACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
*
108404 GTTTGTCAACAA-AA
195 GGTTGTCAACAACAA
* ** *
108418 -TT-TC-A-TTCAGATTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGT
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
** ** *
108479 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTTCGGTTCCAGAGCCAATTTC
66 TCAACTTCACAACGAAGGGACGGCT-GTTGTCAAC-AACAATTTCCCAATTTCAGAGCCAATTTC
* *
108544 AACTTCACGACGGAGGATATTGGACT
129 AACTTCACAACGAAGGATATTGGACT
108570 TGGAACAATG
Statistics
Matches: 717, Mismatches: 61, Indels: 14
0.91 0.08 0.02
Matches are distributed among these distances:
205 80 0.11
206 46 0.06
207 1 0.00
208 2 0.00
209 2 0.00
210 200 0.28
211 294 0.41
212 92 0.13
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (209 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
TCAACTTCACAACGAAGGGACGGCTGTTGTCAACAACAATTTCCCAATTTCAGAGCCAATTTCAA
CTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
GTTGTCAACAACAA
Found at i:109160 original size:34 final size:34
Alignment explanation
Indices: 109117--109241 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
109107 TTCGTCCTAC
*
109117 TAGGATTCAAACTCCTAAAAATAGGATATAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
109151 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
109186 GCTAGGATT--AA-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
109215 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
109242 CCACAAGTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 5 0.07
30 13 0.18
34 38 0.51
35 5 0.07
37 7 0.09
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:109649 original size:2 final size:2
Alignment explanation
Indices: 109642--109694 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
109632 CTATTTTATG
109642 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109684 TA TA TA TA TA T
1 TA TA TA TA TA T
109695 TATTTGATTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109752 original size:43 final size:47
Alignment explanation
Indices: 109682--109784 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 47
109672 TATATATATA
* * * * * *
109682 TATATATATATATTATTTGATTTTTTTAC-TAT-ATTTTATTATTAT
1 TATATATATATATTATTTGAATATTTTACTTATAAGTCTAATATTAC
*
109727 TATATATATAT-TTCTTT-AATATTTTACTTATAAGTCTAATATTAC
1 TATATATATATATTATTTGAATATTTTACTTATAAGTCTAATATTAC
109772 TATATATATATAT
1 TATATATATATAT
109785 AATTATCTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 8 0.17
44 8 0.17
45 31 0.65
46 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (47 bp):
TATATATATATATTATTTGAATATTTTACTTATAAGTCTAATATTAC
Found at i:110168 original size:2 final size:2
Alignment explanation
Indices: 110161--110200 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
110151 TAATACTTTG
110161 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
110201 TTTATATTTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112931 original size:31 final size:31
Alignment explanation
Indices: 112895--112954 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
112885 AACTTAAAAG
* *
112895 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
112926 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
112955 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:113465 original size:20 final size:19
Alignment explanation
Indices: 113417--113465 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
113407 AACTTAAATC
*
113417 AAAATAATTAAAATAAATAT
1 AAAATAATT-TAATAAATAT
113437 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAA-ATAT
113455 AAAATAATTTA
1 AAAATAATTTA
113466 TATGATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTAATAAATAT
Found at i:113543 original size:12 final size:11
Alignment explanation
Indices: 113526--113576 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
113516 ATTTATTTAA
113526 AAAATTAATATT
1 AAAATTAATA-T
*
113538 AAAATTAAAAT
1 AAAATTAATAT
*
113549 CAAATATAATAT
1 AAAAT-TAATAT
113561 AAAATTAAATAT
1 AAAATT-AATAT
113573 AAAA
1 AAAA
113577 CTTTTTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 6 0.18
12 27 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:127885 original size:4 final size:4
Alignment explanation
Indices: 127876--127901 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
127866 CGATGGATAT
127876 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
127902 GCAGCAGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:131041 original size:64 final size:64
Alignment explanation
Indices: 130940--131065 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
130930 GATGTCAGGC
* *
130940 GGGTATAAACAAGTATAGATGAGTACGAGATGGGTGGTGGATATTAAGTTGAGTAGTGGGTGTG
1 GGGTATAAACAAGTATAGATGAGTACGAGATGGGTGGTGGATATCAAGTTGAGTAGCGGGTGTG
*
131004 GGGTATAAACAAGTATAGATG-GATACGGGATGGGTGGTGGATATCAAGTTGAGTAGCGGGTG
1 GGGTATAAACAAGTATAGATGAG-TACGAGATGGGTGGTGGATATCAAGTTGAGTAGCGGGTG
131066 ATGTTGCTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 57 0.98
ACGTcount: A:0.29, C:0.05, G:0.40, T:0.26
Consensus pattern (64 bp):
GGGTATAAACAAGTATAGATGAGTACGAGATGGGTGGTGGATATCAAGTTGAGTAGCGGGTGTG
Found at i:131697 original size:2 final size:2
Alignment explanation
Indices: 131690--131731 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
131680 TCTCACCCAA
131690 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
131732 CTTCCACTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139670 original size:16 final size:17
Alignment explanation
Indices: 139649--139683 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
139639 ATGAGATTTT
139649 TTAACCG-TACTAATGG
1 TTAACCGTTACTAATGG
*
139665 TTAACCGTTATTAATGG
1 TTAACCGTTACTAATGG
139682 TT
1 TT
139684 CAGTTTTAGG
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:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (17 bp):
TTAACCGTTACTAATGG
Found at i:139812 original size:51 final size:50
Alignment explanation
Indices: 139752--140082 Score: 348
Period size: 51 Copynumber: 6.6 Consensus size: 50
139742 AAAATATAGT
* *
139752 ACTTAACACATATTTACATCGGTGTAAGTGAATAAAATAAACAAATTTATC
1 ACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAA-AAATGTATC
** * *
139803 ACTTAACACATACTTACATTAGTGTAAGTGAATAAAATAAACAAGTTTATC
1 ACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAA-AAATGTATC
* * * *
139854 ACTTAACACATACTTACACCGATATAAGTTAATAAAATAAACAAATGTATC
1 ACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAA-AAATGTATC
* * * *
139905 ACTAAACACATACTTATA-CTGGTGTAAGTGAATAAAACAAAAAAGTGTAGC
1 ACTTAACACATACTTACATC-GGTGTAAGTGAATAAAATAAAAAA-TGTATC
* * * *
139956 ACATAACACATAC-T--ATCAGTGTAAGTGAATAAAATAAAAAATATAAC
1 ACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAAAAATGTATC
* * *
140003 ACTTAACACATACTTACAAT-TGTGTAAGTAAATAAAATAAAAAAGTGTAGC
1 ACTTAACACATACTTAC-ATCGGTGTAAGTGAATAAAATAAAAAA-TGTATC
* * *
140054 ACTGAACACATACTTACACCGATGTAAGT
1 ACTTAACACATACTTACATCGGTGTAAGT
140083 ATACACATCT
Statistics
Matches: 237, Mismatches: 34, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
47 16 0.07
48 24 0.10
49 1 0.00
50 28 0.12
51 168 0.71
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (50 bp):
ACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAAAAATGTATC
Found at i:139930 original size:102 final size:102
Alignment explanation
Indices: 139738--140082 Score: 430
Period size: 102 Copynumber: 3.4 Consensus size: 102
139728 TAATTCATAC
* * * * * * *
139738 TAAAAAAATATAGTACTTAACACATATTTACATCGGTGTAAGTGAATAAAATAAACAAATTTATC
1 TAAAAAAGTGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAAACAAATATATC
*
139803 ACTTAACACATACTTACATTAGTGTAAGTGAATAAAA
66 ACTTAACACATACTTACAATAGTGTAAGTGAATAAAA
* * * * * *
139840 TAAACAAGTTTATCACTTAACACATACTTACACCGATATAAGTTAATAAAATAAACAAATGTATC
1 TAAAAAAGTGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAAACAAATATATC
* * * *
139905 ACTAAACACATACTTATACTGGTGTAAGTGAATAAAA
66 ACTTAACACATACTTACAATAGTGTAAGTGAATAAAA
* * *
139942 CAAAAAAGTGTAGCACATAACACATAC-TATCA--G-TGTAAGTGAATAAAATAAA-AAATATAA
1 TAAAAAAGTGTAGCACTTAACACATACTTA-CACCGATGTAAGTGAATAAAATAAACAAATATAT
* *
140002 CACTTAACACATACTTACAATTGTGTAAGTAAATAAAA
65 CACTTAACACATACTTACAATAGTGTAAGTGAATAAAA
*
140040 TAAAAAAGTGTAGCACTGAACACATACTTACACCGATGTAAGT
1 TAAAAAAGTGTAGCACTTAACACATACTTACACCGATGTAAGT
140083 ATACACATCT
Statistics
Matches: 206, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
98 65 0.32
99 19 0.09
100 2 0.01
101 9 0.04
102 111 0.54
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (102 bp):
TAAAAAAGTGTAGCACTTAACACATACTTACACCGATGTAAGTGAATAAAATAAACAAATATATC
ACTTAACACATACTTACAATAGTGTAAGTGAATAAAA
Found at i:154155 original size:60 final size:59
Alignment explanation
Indices: 154061--154204 Score: 141
Period size: 59 Copynumber: 2.4 Consensus size: 59
154051 CTCTTCCAAT
* * ** * *
154061 TATGACTATTC-TTTTAATTTAGTCCTTGAACTTTTAAAGGTTCTAATTTCATCTTTAAAC
1 TATGACTA-TCATTCTAAATTAGTCCTTGAACTTTTAAACATT-TAATTTCATCCTCAAAC
* *
154121 TATGACTATCATTCTAAATTAGTCCTT-AAGCTTTTGAACATTTCATTTCATCCTCAAAC
1 TATGACTATCATTCTAAATTAGTCCTTGAA-CTTTTAAACATTTAATTTCATCCTCAAAC
* *
154180 TATGACCT-TCATTCAAAATTGGTCC
1 TATGA-CTATCATTCTAAATTAGTCC
154205 CCAAAAGTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 38 0.54
60 33 0.46
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.43
Consensus pattern (59 bp):
TATGACTATCATTCTAAATTAGTCCTTGAACTTTTAAACATTTAATTTCATCCTCAAAC
Found at i:154498 original size:53 final size:52
Alignment explanation
Indices: 154410--154512 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 52
154400 AGAGCAATTT
* * * * *
154410 AGAATGAGAGTCGTAGTTTGGGCATGAAATCGGAATGTTCAAAAGTATTAATC
1 AGAATGAGAGTCATAGCTTGGGAATAAAATCGGAATATTCAAAAGT-TTAATC
*
154463 AGAATGTA-AGTCATAGCTTGGGAATAAAATTGGAATATTCAAAAGTTTAA
1 AGAATG-AGAGTCATAGCTTGGGAATAAAATCGGAATATTCAAAAGTTTAA
154513 GGTCCAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
52 4 0.09
53 38 0.88
54 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (52 bp):
AGAATGAGAGTCATAGCTTGGGAATAAAATCGGAATATTCAAAAGTTTAATC
Found at i:158355 original size:31 final size:31
Alignment explanation
Indices: 158320--158394 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
158310 CATATACACA
*
158320 TTCATATCACATAGGCATATAAGCTCATAGC
1 TTCATATCACATAGGCATACAAGCTCATAGC
158351 TTCATATCACATAGGCATACAAGCTCATAGC
1 TTCATATCACATAGGCATACAAGCTCATAGC
158382 TTCATATCACATA
1 TTCATATCACATA
158395 TATCATGTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.29
Consensus pattern (31 bp):
TTCATATCACATAGGCATACAAGCTCATAGC
Found at i:161340 original size:23 final size:23
Alignment explanation
Indices: 161287--161330 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
161277 AATTATATGG
*
161287 CACTTCAGTGCAAACCTATGTAA
1 CACTTCGGTGCAAACCTATGTAA
161310 CACTTCGGTGCAAACCTATGT
1 CACTTCGGTGCAAACCTATGT
161331 GGTCCTTCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (23 bp):
CACTTCGGTGCAAACCTATGTAA
Found at i:162743 original size:22 final size:22
Alignment explanation
Indices: 162718--162779 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 22
162708 CCATAGTAAG
162718 AAACAAGGAAATGATGATTACA
1 AAACAAGGAAATGATGATTACA
*
162740 AAAC-ATG-AATG-T-ATT-CA
1 AAACAAGGAAATGATGATTACA
**
162757 TTA-AAGGAAATGATGATTACA
1 AAACAAGGAAATGATGATTACA
162778 AA
1 AA
162780 CAGTATACCA
Statistics
Matches: 29, Mismatches: 6, Indels: 11
0.63 0.13 0.24
Matches are distributed among these distances:
17 5 0.17
18 7 0.24
19 2 0.07
20 7 0.24
21 4 0.14
22 4 0.14
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (22 bp):
AAACAAGGAAATGATGATTACA
Found at i:163615 original size:4 final size:4
Alignment explanation
Indices: 163606--164094 Score: 969
Period size: 4 Copynumber: 122.2 Consensus size: 4
163596 GAATAAATTA
163606 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163654 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163702 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163750 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163798 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163846 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163894 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163942 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
163990 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
164038 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
164086 TATG CATG T
1 TATG TATG T
164095 TTTCATGTTT
Statistics
Matches: 483, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 483 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:164246 original size:3 final size:3
Alignment explanation
Indices: 164238--164263 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
164228 CTATTTGTAA
164238 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
164264 ATTAATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:165031 original size:53 final size:53
Alignment explanation
Indices: 164937--165038 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 53
164927 TCCACCTTCG
* * * **
164937 AAAGTGTTCATGTTTTGTTCATTTAACACTCGTGAGTATGTTCATTTATTCTA
1 AAAGTATTCATGTTTTGTTCATTTAACACTCATAAACATGTTCATTTATTCTA
* *
164990 AAAGTATTCATGTTTTGTTCATTTAACATTCATAAACATGTTTATTTAT
1 AAAGTATTCATGTTTTGTTCATTTAACACTCATAAACATGTTCATTTAT
165039 GTATTCGTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (53 bp):
AAAGTATTCATGTTTTGTTCATTTAACACTCATAAACATGTTCATTTATTCTA
Found at i:167759 original size:69 final size:69
Alignment explanation
Indices: 167667--167798 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 69
167657 ATTGCATGAA
* * *
167667 TCTAGAAATGAACACATCGTTAATGTATGATGA-ATCATCATTATTATCTTCTTCTTCTTCTTGC
1 TCTAGAAATGAACACATCATTAATGTATG-TGACATCATCATCATCATCTTCTTCTTCTTCTTGC
167731 GGGAG
65 GGGAG
* * * *
167736 TCTAGAAATGAACCCATTATTAATGTATGTGATCATTATCATCATCATCTTTTTCTTCTTCTT
1 TCTAGAAATGAACACATCATTAATGTATGTGA-CATCATCATCATCATCTTCTTCTTCTTCTT
167799 CTTCTTCCTC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
68 3 0.06
69 26 0.48
70 25 0.46
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (69 bp):
TCTAGAAATGAACACATCATTAATGTATGTGACATCATCATCATCATCTTCTTCTTCTTCTTGCG
GGAG
Found at i:168083 original size:66 final size:66
Alignment explanation
Indices: 167977--168101 Score: 180
Period size: 66 Copynumber: 1.9 Consensus size: 66
167967 TGCCCTGACG
* * *
167977 ATTTCGTCTATTTCAGTCTTATCAAGTGCAACTTTTCTGCTC-TTAGTATAAACAGGCTTATGGA
1 ATTTCGTCTATTTCAGTCGTATCAAGTGCAAATTTTCTGCTCGTAAG-ATAAACAGGCTTATGGA
168041 CA
65 CA
* * *
168043 ATTTCGTCTATTTCAGTCGTATCAGGTTCAAATTTTCTGCTCGTAAGATAATCAGGCTT
1 ATTTCGTCTATTTCAGTCGTATCAAGTGCAAATTTTCTGCTCGTAAGATAAACAGGCTT
168102 CGCACAATCC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 49 0.94
67 3 0.06
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (66 bp):
ATTTCGTCTATTTCAGTCGTATCAAGTGCAAATTTTCTGCTCGTAAGATAAACAGGCTTATGGAC
A
Found at i:168861 original size:105 final size:105
Alignment explanation
Indices: 168679--168887 Score: 418
Period size: 105 Copynumber: 2.0 Consensus size: 105
168669 GCCGTTGCAC
168679 TCGCTTTTACAGAGACCACATATGAAAATATGATCTACAACAAGGATGAGAAACTGTTGACATAT
1 TCGCTTTTACAGAGACCACATATGAAAATATGATCTACAACAAGGATGAGAAACTGTTGACATAT
168744 GTGAAACCACAGCTGTTTCTCCATAGGCGATTCAGCACAA
66 GTGAAACCACAGCTGTTTCTCCATAGGCGATTCAGCACAA
168784 TCGCTTTTACAGAGACCACATATGAAAATATGATCTACAACAAGGATGAGAAACTGTTGACATAT
1 TCGCTTTTACAGAGACCACATATGAAAATATGATCTACAACAAGGATGAGAAACTGTTGACATAT
168849 GTGAAACCACAGCTGTTTCTCCATAGGCGATTCAGCACA
66 GTGAAACCACAGCTGTTTCTCCATAGGCGATTCAGCACA
168888 TGTTTTGTGG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (105 bp):
TCGCTTTTACAGAGACCACATATGAAAATATGATCTACAACAAGGATGAGAAACTGTTGACATAT
GTGAAACCACAGCTGTTTCTCCATAGGCGATTCAGCACAA
Found at i:172529 original size:12 final size:12
Alignment explanation
Indices: 172500--172528 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
172490 ATATCATATT
172500 TAAAAATAAAAC
1 TAAAAATAAAAC
172512 TAAAAATAAAA-
1 TAAAAATAAAAC
172523 TAAAAA
1 TAAAAA
172529 AAATCGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAATAAAAC
Found at i:176064 original size:22 final size:22
Alignment explanation
Indices: 176039--176082 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
176029 TTATATAATT
176039 TCTTATTAATTT-ATATATTAAA
1 TCTTA-TAATTTCATATATTAAA
*
176061 TCTTATAATTTCATTTATTAAA
1 TCTTATAATTTCATATATTAAA
176083 AATTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (22 bp):
TCTTATAATTTCATATATTAAA
Found at i:176090 original size:21 final size:20
Alignment explanation
Indices: 176044--176092 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
176034 TAATTTCTTA
**
176044 TTAATTTATATATTAAATCT
1 TTAATTTATATATTAAAAAT
*
176064 TATAATTTCATTTATTAAAAAT
1 T-TAATTT-ATATATTAAAAAT
176086 TTAATTT
1 TTAATTT
176093 GAATTATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTTATATATTAAAAAT
Found at i:177317 original size:2 final size:2
Alignment explanation
Indices: 177310--177359 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
177300 CTTTAATTTA
*
177310 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT ACT -T TT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT CT CT
177352 CT CT CT CT
1 CT CT CT CT
177360 GTTTGATGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:188708 original size:20 final size:20
Alignment explanation
Indices: 188683--188753 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
188673 TTATTGTGCC
188683 TATGATAAATTTTATCTCGA
1 TATGATAAATTTTATCTCGA
188703 TATGATAAATATTT-T-TC-A
1 TATGATAAAT-TTTATCTCGA
* *
188721 T-TCA-AACTTTTTATCTCGA
1 TATGATAA-ATTTTATCTCGA
*
188740 TATAATAAATTTTA
1 TATGATAAATTTTA
188754 ATAAAAATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
16 5 0.12
17 4 0.10
18 4 0.10
19 4 0.10
20 18 0.45
21 5 0.12
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (20 bp):
TATGATAAATTTTATCTCGA
Found at i:193650 original size:217 final size:217
Alignment explanation
Indices: 193270--193702 Score: 717
Period size: 217 Copynumber: 2.0 Consensus size: 217
193260 GCAGACAGTG
*
193270 TCCACGTTTAATTTTTAAAATTCATTATTTCAATATATTATTAATTTAAATATTTAATCAAAAAA
1 TCCACGTTTAATTTTTAAAATTCATTATTTCAATATAATATTAATTTAAATATTTAATCAAAAAA
* *
193335 TATTAATTTAAATATTATATTTATATGGTTTAATTATATCGTAATTTAAGGTAAATGCCATATTT
66 TATTAATTTAAATATTATATTTATATGGTTTAATTATATCATAATTTAAGGTAAATGCCATACTT
* * *
193400 AATCTCTTAATTATTATTTTGAATTCATTTTGGTCACCTATCGTC-AAA-AAATAAACAGAAAAT
131 AATATCTTAATTATTATTTTGAATTCATTTTGGTCACCTAACGTCAAAAGAAACAAACAGAAAAT
193463 TGACATCGTAATTTAAATACAA
196 TGACATCGTAATTTAAATACAA
193485 TCCACGTTTAATTTTTAAAATTCATTATCTTCAATATAATATTAATTTAAATATTTAATCAAAAA
1 TCCACGTTTAATTTTTAAAATTCATTAT-TTCAATATAATATTAATTTAAATATTTAATC-AAAA
*
193550 AATATTAATTTAAATATTATATTTATATGGTTTAATTATATCATAATTTAAGGTAAATTCCATAC
64 AATATTAATTTAAATATTATATTTATATGGTTTAATTATATCATAATTTAAGGTAAATGCCATAC
* * *
193615 TTAATATCTTAATTATTATTTTGACTTCGTTTTGGTCACCTAACGTCAAAAAGTAAACAAACATA
129 TTAATATCTTAATTATTATTTTGAATTCATTTTGGTCACCTAACGTC-AAAAG-AAACAAACAGA
*
193680 AAATTGACATCGTAGTTTAAATA
192 AAATTGACATCGTAATTTAAATA
193703 TTATATTTTT
Statistics
Matches: 201, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
215 28 0.14
216 30 0.15
217 109 0.54
219 3 0.01
221 31 0.15
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (217 bp):
TCCACGTTTAATTTTTAAAATTCATTATTTCAATATAATATTAATTTAAATATTTAATCAAAAAA
TATTAATTTAAATATTATATTTATATGGTTTAATTATATCATAATTTAAGGTAAATGCCATACTT
AATATCTTAATTATTATTTTGAATTCATTTTGGTCACCTAACGTCAAAAGAAACAAACAGAAAAT
TGACATCGTAATTTAAATACAA
Found at i:197004 original size:21 final size:21
Alignment explanation
Indices: 196978--197019 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
196968 CCAGAATGGG
* *
196978 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACACCTTCATA
196999 GGGAATCGATACACCTTCATA
1 GGGAATCGATACACCTTCATA
197020 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACACCTTCATA
Found at i:197152 original size:15 final size:15
Alignment explanation
Indices: 197132--197187 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
197122 AACCATGCAG
197132 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
197147 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
197163 TGGGGGAATCTGTTCCC
1 --GGGGAATCTGTACCC
197180 GGGGAATC
1 GGGGAATC
197188 GATACCCTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:197170 original size:18 final size:18
Alignment explanation
Indices: 197147--197202 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 18
197137 ATCTGTACCC
197147 GGGGAATCGATACCCCTG
1 GGGGAATCGATACCCCTG
*
197165 GGGGAATCTG-T-TCCC--
1 GGGGAATC-GATACCCCTG
197180 GGGGAATCGATACCCTCTG
1 GGGGAATCGATACCC-CTG
197199 GGGG
1 GGGG
197203 GGAATCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
14 1 0.03
15 9 0.30
16 2 0.07
17 4 0.13
18 9 0.30
19 5 0.17
ACGTcount: A:0.18, C:0.25, G:0.38, T:0.20
Consensus pattern (18 bp):
GGGGAATCGATACCCCTG
Found at i:197170 original size:33 final size:35
Alignment explanation
Indices: 197131--197211 Score: 130
Period size: 33 Copynumber: 2.3 Consensus size: 35
197121 AAACCATGCA
197131 GGGGGAATCTGTACCCGGGGAATCGATACCC-CT-
1 GGGGGAATCTGTACCCGGGGAATCGATACCCTCTG
*
197164 GGGGGAATCTGTTCCCGGGGAATCGATACCCTCTGG
1 GGGGGAATCTGTACCCGGGGAATCGATACCCTCT-G
197200 GGGGGAATCTGT
1 GGGGGAATCTGT
197212 TCCCCCTGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 30 0.68
34 2 0.05
36 12 0.27
ACGTcount: A:0.19, C:0.23, G:0.37, T:0.21
Consensus pattern (35 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCTCTG
Found at i:200210 original size:34 final size:32
Alignment explanation
Indices: 200157--200219 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
200147 CCTTACAAAC
*
200157 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
200189 TCCCTAGCTTTTACACGGGCTAAGCTAGAAC
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAAC
200220 ATTCCCCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 7 0.26
33 5 0.19
34 15 0.56
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:200536 original size:21 final size:21
Alignment explanation
Indices: 200510--200551 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
200500 CCAGAATAGG
*
200510 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
200531 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
200552 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:200718 original size:20 final size:20
Alignment explanation
Indices: 200681--200737 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
200671 ATCTGTACCC
200681 GGGGAATC-GATA-CCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
200700 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
200720 GGGGAATCTGTACCCCCT
1 GGGGAATCTGTACCCCCT
200738 AGACAATCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 9 0.26
20 25 0.74
ACGTcount: A:0.16, C:0.30, G:0.33, T:0.21
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:203732 original size:17 final size:17
Alignment explanation
Indices: 203710--203748 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
203700 AATTTTTATT
203710 ATATATAAAA-ATATATA
1 ATATATAAAATA-ATATA
*
203727 ATATATAAAGTAATATA
1 ATATATAAAATAATATA
203744 ATATA
1 ATATA
203749 GAGTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
ATATATAAAATAATATA
Found at i:205573 original size:2 final size:2
Alignment explanation
Indices: 205566--205609 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
205556 TTTGATACCA
205566 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
205608 AT
1 AT
205610 GAGGTATGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:211853 original size:4 final size:4
Alignment explanation
Indices: 211844--211873 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
211834 GGCTAATGAT
*
211844 ATAC ATAC ATAC ATAC ATAC ATGC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
211874 GCATGCATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:211874 original size:8 final size:8
Alignment explanation
Indices: 211844--211886 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
211834 GGCTAATGAT
*
211844 ATACATAC
1 ATACATGC
*
211852 ATACATAC
1 ATACATGC
211860 ATACATGC
1 ATACATGC
211868 ATACATGC
1 ATACATGC
*
211876 ATGCATGC
1 ATACATGC
211884 ATA
1 ATA
211887 AGACAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (8 bp):
ATACATGC
Found at i:211878 original size:12 final size:12
Alignment explanation
Indices: 211844--211886 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
211834 GGCTAATGAT
*
211844 ATACATACATAC
1 ATACATACATGC
211856 ATACATACATGC
1 ATACATACATGC
*
211868 ATACATGCATGC
1 ATACATACATGC
*
211880 ATGCATA
1 ATACATA
211887 AGACAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (12 bp):
ATACATACATGC
Found at i:219650 original size:19 final size:20
Alignment explanation
Indices: 219621--219660 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
219611 ATTCAAACCC
219621 CTCCTTTTCTTCCATCTTGT
1 CTCCTTTTCTTCCATCTTGT
219641 CTCC-TTTCTTCCATCTTGT
1 CTCCTTTTCTTCCATCTTGT
219660 C
1 C
219661 AATTTGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.05, C:0.38, G:0.05, T:0.53
Consensus pattern (20 bp):
CTCCTTTTCTTCCATCTTGT
Found at i:229039 original size:210 final size:200
Alignment explanation
Indices: 228636--229047 Score: 734
Period size: 210 Copynumber: 2.0 Consensus size: 200
228626 CGTTTACATC
228636 TTTTATATGGTCATATTTGAGCATAACAAAGATGTCGTTAATATCATCTCTAAAATTTAATCTTA
1 TTTTATATGGTCATATTTGAGCATAACAAAGATGTCGTTAATATCATCTCTAAAATTTAATCTTA
228701 TTTTTTTAACGTCTGGCATCTAGCTTGCCACAGGCTTCCTTCTGGCCTCTTGCATTGCTCTATTT
66 TTTTTTTAACGTCTGGCATCTAGCTTGCCACAGGCTTCCTTCTGGCCTCTTGCATTGCTCTATTT
228766 ACTGTATTTCCACATATGCAGCTCTCATCTATAAAAAAAGATAAGATAATGTCTTAAATTTTAGG
131 ACTGTATTTCCACATATGCAGCTCTCATCTATAAAAAAAGATAAGATAATGTCTTAAATTTTAGG
228831 GTTAT
196 GTTAT
228836 TTTTATATGGTCATATTTGAGCATAACAAAGATGTCGGTTAATATCATCTCTAAAATTTGAATCT
1 TTTTATATGGTCATATTTGAGCATAACAAAGATGTC-GTTAATATCATCTCTAAAATTT-AATCT
228901 TATTTTATTTTAACGTCTGGCATCCCATCTAGCTTGCCACAGGCTTCCTTCTGGCCTCTTGCATT
64 TA-TTT-TTTTAACGTCTGG-----CATCTAGCTTGCCACAGGCTTCCTTCTGGCCTCTTGCATT
228966 GCTCTATTTACTGTATTTTCCACATATGCAGCTCTCATCTATAAAAAAAGATAAGATAATGTCTT
122 GCTCTATTTACTGTA-TTTCCACATATGCAGCTCTCATCTATAAAAAAAGATAAGATAATGTCTT
229031 AAATTTTAGGGTTAT
186 AAATTTTAGGGTTAT
229046 TT
1 TT
229048 AGGGTAAAGT
Statistics
Matches: 202, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
200 36 0.18
201 22 0.11
202 7 0.03
203 3 0.01
204 13 0.06
209 55 0.27
210 66 0.33
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (200 bp):
TTTTATATGGTCATATTTGAGCATAACAAAGATGTCGTTAATATCATCTCTAAAATTTAATCTTA
TTTTTTTAACGTCTGGCATCTAGCTTGCCACAGGCTTCCTTCTGGCCTCTTGCATTGCTCTATTT
ACTGTATTTCCACATATGCAGCTCTCATCTATAAAAAAAGATAAGATAATGTCTTAAATTTTAGG
GTTAT
Found at i:229439 original size:21 final size:21
Alignment explanation
Indices: 229413--229461 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
229403 ACAACATAGT
229413 CAAGGGATCGGTATGAATGGG
1 CAAGGGATCGGTATGAATGGG
*
229434 CAAGGGATCGGTATGGATGGG
1 CAAGGGATCGGTATGAATGGG
*
229455 CATGGGA
1 CAAGGGA
229462 CTCGAACCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.45, T:0.18
Consensus pattern (21 bp):
CAAGGGATCGGTATGAATGGG
Found at i:229790 original size:27 final size:27
Alignment explanation
Indices: 229724--229790 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
229714 GTTTGGTCGG
*
229724 TTTCGGGTCA-GGTGGAGGATGTAAAAT
1 TTTCGGGT-AGGGTGGAGGAAGTAAAAT
* * * *
229751 TTTCTGTTGGGGTGGGGGAAGTAAAAT
1 TTTCGGGTAGGGTGGAGGAAGTAAAAT
229778 TTTCGGGTAGGGT
1 TTTCGGGTAGGGT
229791 CGGGTTGACC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.21, C:0.06, G:0.40, T:0.33
Consensus pattern (27 bp):
TTTCGGGTAGGGTGGAGGAAGTAAAAT
Done.