Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004114.1 Hibiscus syriacus cultivar Beakdansim tig00009003_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: 1048340
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:19837 original size:26 final size:26
Alignment explanation
Indices: 19802--19855 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
19792 AACCTTGGTG
19802 AGAGACAAGTGATGTTGGAAGTGGAT
1 AGAGACAAGTGATGTTGGAAGTGGAT
19828 AGAGACAAGTGATGTTGGAAGTGGAT
1 AGAGACAAGTGATGTTGGAAGTGGAT
19854 AG
1 AG
19856 CTTGGAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.39, T:0.22
Consensus pattern (26 bp):
AGAGACAAGTGATGTTGGAAGTGGAT
Found at i:22954 original size:23 final size:23
Alignment explanation
Indices: 22897--22964 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
22887 GAGTCGAGGG
*
22897 TTCTACGCGGTCCTTCGTGACAA
1 TTCTACGCGGTCCTTCGGGACAA
** * * *
22920 TTCTACATGGTCTTTCGGGATAT
1 TTCTACGCGGTCCTTCGGGACAA
* *
22943 TTCTACGCGGTCCCTCAGGACA
1 TTCTACGCGGTCCTTCGGGACA
22965 TCTATATGGT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAA
Found at i:23239 original size:18 final size:18
Alignment explanation
Indices: 23203--23253 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
23193 ATTAAAGGGA
* *
23203 ATAATGATAATAATATTG
1 ATAATGATAATGATGTTG
*
23221 ATAACGATAATGATGTTG
1 ATAATGATAATGATGTTG
*
23239 ATGATGATAATGATG
1 ATAATGATAATGATG
23254 GTATATGTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (18 bp):
ATAATGATAATGATGTTG
Found at i:29323 original size:50 final size:50
Alignment explanation
Indices: 29218--29324 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
29208 TCACACTCCA
* * * * *
29218 ATTTTCCTTTTCATTGCGACTAGGAGGGTTGGTTAGAGTCATATTATCAT
1 ATTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGAGACATATCATCAT
*
29268 GTTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAG-GACATTATCCATC-T
1 ATTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGAGACA-TAT-CATCAT
29318 ATTTTCC
1 ATTTTCC
29325 GTAAATCCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 3 0.06
50 42 0.88
51 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (50 bp):
ATTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAGAGACATATCATCAT
Found at i:35789 original size:6 final size:6
Alignment explanation
Indices: 35778--35816 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
35768 ATTTTCCTTT
*
35778 ATTTTA ATTTTA ATTTTA ATTATGTA ATTTGA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATT-T-TA ATTTTA ATTTTA A
35817 AACATTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 22 0.76
7 2 0.07
8 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (6 bp):
ATTTTA
Found at i:35937 original size:3 final size:3
Alignment explanation
Indices: 35924--35962 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
35914 AATTTTATAT
* *
35924 TTA TT- TTA TTA TTA TTA TTG CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35963 ATTGCAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37461 original size:14 final size:14
Alignment explanation
Indices: 37442--37508 Score: 61
Period size: 13 Copynumber: 5.1 Consensus size: 14
37432 TTTTATTTCC
37442 TTAACTTATTTTTT
1 TTAACTTATTTTTT
*
37456 TTAAC-TATTTATT
1 TTAACTTATTTTTT
* *
37469 TTAA-TTATATTAT
1 TTAACTTATTTTTT
* *
37482 TTAA--TAATTATT
1 TTAACTTATTTTTT
37494 TTAACTTATTTTTT
1 TTAACTTATTTTTT
37508 T
1 T
37509 ATTTCTTTCT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
12 8 0.20
13 20 0.50
14 12 0.30
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (14 bp):
TTAACTTATTTTTT
Found at i:37883 original size:29 final size:28
Alignment explanation
Indices: 37778--37885 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 28
37768 CCCTCTAGGA
*
37778 TTAGATTTTTACATTTAGGTACCTAGACT
1 TTAGATTTTTACATTTA-GTACCTAAACT
* ** **
37807 TTCGATTTTTACACATAGGCCCTTAAACT
1 TTAGATTTTTACATTTAGTACC-TAAACT
* * *
37836 TTATATCTTTTACACTTTAGTTCCTATACT
1 TTAGAT-TTTTACA-TTTAGTACCTAAACT
37866 TTAGATTTTTACCATTTAGT
1 TTAGATTTTTA-CATTTAGT
37886 CCTTTAATTA
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
28 3 0.05
29 34 0.56
30 19 0.31
31 5 0.08
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (28 bp):
TTAGATTTTTACATTTAGTACCTAAACT
Found at i:38242 original size:15 final size:15
Alignment explanation
Indices: 38222--38251 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38212 TTACATTCAG
38222 ATAATAAGTTCTTAT
1 ATAATAAGTTCTTAT
38237 ATAATAAGTTCTTAT
1 ATAATAAGTTCTTAT
38252 CTAGAGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
ATAATAAGTTCTTAT
Found at i:39210 original size:3 final size:3
Alignment explanation
Indices: 39197--39238 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
39187 AATTTTTTAT
*
39197 TTA TT- TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
39239 ATTCCAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:40785 original size:22 final size:22
Alignment explanation
Indices: 40760--40802 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
40750 CTGAATCCGT
*
40760 TCTGAATTGGCTCTCGAACCCG
1 TCTGAATTGGCTCTCAAACCCG
40782 TCTGAATTGGCTCTCAAACCC
1 TCTGAATTGGCTCTCAAACCC
40803 AATTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.28
Consensus pattern (22 bp):
TCTGAATTGGCTCTCAAACCCG
Found at i:49069 original size:16 final size:16
Alignment explanation
Indices: 49048--49078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49038 GGCCTGAAAT
49048 AAAAAGAAAAATAAAA
1 AAAAAGAAAAATAAAA
*
49064 AAAAAGAGAAATAAA
1 AAAAAGAAAAATAAA
49079 TATAATGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAGAAAAATAAAA
Found at i:49188 original size:26 final size:25
Alignment explanation
Indices: 49123--49194 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
49113 TGTTCTCAAA
*
49123 AATATATATATTTTGAAAAACTAAT
1 AATATATATATTTTTAAAAACTAAT
* *** *
49148 ATTATATACGCTTTTCAAAACTATAT
1 AATATATATATTTTTAAAAACTA-AT
*
49174 AATATATATTTTTTTGAAAAA
1 AATATATATATTTTT-AAAAA
49195 TGTTTTCAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
25 17 0.50
26 13 0.38
27 4 0.12
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (25 bp):
AATATATATATTTTTAAAAACTAAT
Found at i:49253 original size:37 final size:38
Alignment explanation
Indices: 49159--49443 Score: 350
Period size: 38 Copynumber: 7.6 Consensus size: 38
49149 TTATATACGC
* * **
49159 TTTTCAAAACTATATAATATATATTTTTTTGAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
* * *
49197 TTTTCAAAACTATATATTATATATATTTTCGAAAACTA
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
49235 TTTTC-AAACTATATATTATATATATTTTCAAAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTC-AAAAAATG
49273 TTTTCAAAACTATATA-T-TATATA-TTTC-AAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
* * *
49307 TTTTCAAAATTGTATATTATATATATTTTCTAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
*
49345 TTTTCAAAACTATATATTATATATTTTTTCAAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
* * * * *
49383 TTTTTAAAATTGTATA-T-TACATATTTTCAAAAAAAAAG
1 TTTTCAAAACTATATATTATATATATTTTC--AAAAAATG
49421 TTTTCAAAACTATATATTATATA
1 TTTTCAAAACTATATATTATATA
49444 CGTTATATGT
Statistics
Matches: 213, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
34 21 0.10
35 1 0.00
36 19 0.09
37 35 0.16
38 123 0.58
39 11 0.05
40 3 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (38 bp):
TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
Found at i:49330 original size:148 final size:148
Alignment explanation
Indices: 49159--49443 Score: 405
Period size: 148 Copynumber: 1.9 Consensus size: 148
49149 TTATATACGC
*
49159 TTTTCAAAACTATATAATATATAT-TTTTTTGAAAAATGTTTTCAAAACTATATATTATATATAT
1 TTTTCAAAACTATATAATATATATATTTTCT-AAAAATGTTTTCAAAACTATATATTATATATAT
* * * * *
49223 TTTCGAAAACTATTTTC-AAACTATATATTATATATATTTTC-AAAAAAATGTTTTCAAAACTAT
65 TTTCAAAAAATATTTTCAAAATTATATA-T-TACATATTTTCAAAAAAAAAGTTTTCAAAACTAT
49286 ATATTATATATTTCAAAAATG
128 ATATTATATATTTCAAAAATG
* * * *
49307 TTTTCAAAATTGTATATTATATATATTTTCTAAAAATGTTTTCAAAACTATATATTATATATTTT
1 TTTTCAAAACTATATAATATATATATTTTCTAAAAATGTTTTCAAAACTATATATTATATATATT
* * *
49372 TTCAAAAAATGTTTTTAAAATTGTATATTACATATTTTCAAAAAAAAAGTTTTCAAAACTATATA
66 TTCAAAAAATATTTTCAAAATTATATATTACATATTTTCAAAAAAAAAGTTTTCAAAACTATATA
49437 TTATATA
131 TTATATA
49444 CGTTATATGT
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
147 10 0.08
148 98 0.81
149 13 0.11
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (148 bp):
TTTTCAAAACTATATAATATATATATTTTCTAAAAATGTTTTCAAAACTATATATTATATATATT
TTCAAAAAATATTTTCAAAATTATATATTACATATTTTCAAAAAAAAAGTTTTCAAAACTATATA
TTATATATTTCAAAAATG
Found at i:49722 original size:21 final size:21
Alignment explanation
Indices: 49696--49737 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49686 ACGTAAACTG
49696 CATGCAGTTAAGACTAACAAC
1 CATGCAGTTAAGACTAACAAC
**
49717 CATGCAGTTAAGTTTAACAAC
1 CATGCAGTTAAGACTAACAAC
49738 TTGGCTAACG
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:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (21 bp):
CATGCAGTTAAGACTAACAAC
Found at i:52480 original size:20 final size:21
Alignment explanation
Indices: 52426--52480 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
52416 AATACTAAAC
* * *
52426 GGAGTACTGGTACCATAGTAG
1 GGAGTACCGATACCATAGGAG
*
52447 GGAAGTATCGATACCATAGGAG
1 GG-AGTACCGATACCATAGGAG
52469 GG-GTACCGATAC
1 GGAGTACCGATAC
52481 TACTCAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.20
Consensus pattern (21 bp):
GGAGTACCGATACCATAGGAG
Found at i:52855 original size:27 final size:27
Alignment explanation
Indices: 52825--52910 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
52815 AAATTCATAA
52825 TAAGTTTATGAACAACCGTATCGACAC
1 TAAGTTTATGAACAACCGTATCGACAC
* * * * * * *
52852 TAAGTGTGT-AACCCACAGAATTC-ATAA
1 TAAGTTTATGAA-CAACCGTA-TCGACAC
*
52879 TAAGTTTATGAACAACCGTATCGGCAC
1 TAAGTTTATGAACAACCGTATCGACAC
52906 TAAGT
1 TAAGT
52911 GTGTAACCCA
Statistics
Matches: 40, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
26 4 0.10
27 32 0.80
28 4 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (27 bp):
TAAGTTTATGAACAACCGTATCGACAC
Found at i:52874 original size:54 final size:54
Alignment explanation
Indices: 52788--53185 Score: 487
Period size: 54 Copynumber: 7.4 Consensus size: 54
52778 GCATTTTTAT
* * *
52788 GTATCGACACTAAATGTGGAACCCA-TGAAATTCATAATAAGTTTATGAACAACC
1 GTATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACAACC
*
52842 GTATCGACACTAAGTGTGTAACCCACAGAATTCATAATAAGTTTATGAACAACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* * * *
52896 GTATCGGCACTAAGTGTGTAACCCAC-GTAATTCATAATAAATTTATGAACAACT
1 GTATCGACACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACAACC
* ** *
52950 GTATCGACACTAAGTGTGCAACTCACTTAATTCATAATAAGTTTATGAACAACT
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* * *
53004 GTATC-AGCACTAAGTGTTCAACCCACAAAATTCATAATAAGTTTATGAATAACC
1 GTATCGA-CACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* ** *
53058 ATATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* * * * * ** *
53112 GTATTGGCACTAAGTGTGCAACCCAAAGAATTCATAATGAGCTTATGAATGACG
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* *
53166 GTATCGGCACTACGTGTGCA
1 GTATCGACACTAAGTGTGCA
53186 CCCTAAAGAA
Statistics
Matches: 304, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 300 0.99
55 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (54 bp):
GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
Found at i:59387 original size:22 final size:22
Alignment explanation
Indices: 59346--59387 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59336 ATTGAAAGGA
*
59346 GTATCAATACCATAATAGGGAT
1 GTATCAATACCATAAGAGGGAT
*
59368 GTATCAATACCATAGGAGGG
1 GTATCAATACCATAAGAGGG
59388 GTACCGATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (22 bp):
GTATCAATACCATAAGAGGGAT
Found at i:59791 original size:54 final size:54
Alignment explanation
Indices: 59705--59968 Score: 332
Period size: 54 Copynumber: 4.9 Consensus size: 54
59695 GCATTTTTAT
* * * *
59705 GTATCGACACAAATTATGCAACCCACATAATTCATAATAAGTTTATGAACAACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* * *
59759 GTATCGACACTAAGTTTGCAACCCATAGAATTCATAATAAGTTTATGAACAACT
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* *
59813 GTATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACAACC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* * * * * *
59867 TTATCGACATTAAGTGTGCAACCCACGGATTTCATAATAAGTTTATGAACGATC
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
* * * * * *
59921 GTATCGGCAATAAGTGTGC-AGCCACAGAATTTATAATGAGCTTATGAA
1 GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAA
59969 TGATCGTATT
Statistics
Matches: 184, Mismatches: 26, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
53 23 0.12
54 161 0.88
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (54 bp):
GTATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACC
Found at i:62517 original size:18 final size:18
Alignment explanation
Indices: 62494--62529 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
62484 AGGAATCAAC
62494 GAATATTGGATTCTTTAT
1 GAATATTGGATTCTTTAT
62512 GAATATTGGATTCTTTAT
1 GAATATTGGATTCTTTAT
62530 TATACGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GAATATTGGATTCTTTAT
Found at i:64925 original size:23 final size:23
Alignment explanation
Indices: 64895--64938 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
64885 TTGCAGTGAC
64895 AGATTTAGAAACATTCTTTAGAT
1 AGATTTAGAAACATTCTTTAGAT
64918 AGATTTAGAAACATTCTTTAG
1 AGATTTAGAAACATTCTTTAG
64939 CGTGGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
AGATTTAGAAACATTCTTTAGAT
Found at i:66220 original size:12 final size:12
Alignment explanation
Indices: 66203--66227 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66193 ACCCATATCT
66203 ATATTATTATTA
1 ATATTATTATTA
66215 ATATTATTATTA
1 ATATTATTATTA
66227 A
1 A
66228 AAAAAACCAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:75006 original size:18 final size:18
Alignment explanation
Indices: 74962--75011 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
74952 ACACATATAT
*
74962 CATTATTATCATCACCAA
1 CATTATTATCATTACCAA
* *
74980 CATTCTTATCATTATCAA
1 CATTATTATCATTACCAA
*
74998 TATTATTATCATTA
1 CATTATTATCATTA
75012 ATCCCTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (18 bp):
CATTATTATCATTACCAA
Found at i:75316 original size:67 final size:67
Alignment explanation
Indices: 75236--75383 Score: 208
Period size: 67 Copynumber: 2.2 Consensus size: 67
75226 AAATGTCTTG
* * * *
75236 AAGGACCGTGTAGAAATGTCCCGAAAGAACATGTAGAATTGTCCCGAAGGACAACATATATGTCC
1 AAGGACCGCGTAGAAATGTCCCGAAAGAACACGTAGAATTGTCCCAAAGGACAACATATATATCC
75301 CA
66 CA
* * * *
75303 AAGGACCACGTAGAATTGTCCCGAAAGACCACGTAGAATTGTCCCAAAGGACCACATATATATCC
1 AAGGACCGCGTAGAAATGTCCCGAAAGAACACGTAGAATTGTCCCAAAGGACAACATATATATCC
*
75368 CG
66 CA
75370 AAGGA-CGCGTAGAA
1 AAGGACCGCGTAGAA
75384 CCCTCGAATC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
66 8 0.11
67 63 0.89
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (67 bp):
AAGGACCGCGTAGAAATGTCCCGAAAGAACACGTAGAATTGTCCCAAAGGACAACATATATATCC
CA
Found at i:75355 original size:23 final size:23
Alignment explanation
Indices: 75236--75357 Score: 117
Period size: 23 Copynumber: 5.4 Consensus size: 23
75226 AAATGTCTTG
** *
75236 AAGGACCGTGTAGAAATGTCCCGA
1 AAGGACCACGTAGAATTGTCCC-A
* * *
75260 AA-GAACATGTAGAATTGTCCCG
1 AAGGACCACGTAGAATTGTCCCA
* * *
75282 AAGGACAACATA-TA-TGTCCCA
1 AAGGACCACGTAGAATTGTCCCA
75303 AAGGACCACGTAGAATTGTCCCGA
1 AAGGACCACGTAGAATTGTCCC-A
75327 AA-GACCACGTAGAATTGTCCCA
1 AAGGACCACGTAGAATTGTCCCA
75349 AAGGACCAC
1 AAGGACCAC
75358 ATATATATCC
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
21 16 0.20
22 7 0.09
23 52 0.65
24 5 0.06
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (23 bp):
AAGGACCACGTAGAATTGTCCCA
Found at i:80724 original size:18 final size:18
Alignment explanation
Indices: 80698--80745 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
80688 ACACATATAT
80698 CATTATTATCATCATCAA
1 CATTATTATCATCATCAA
* * *
80716 CATTCTTATCGTTATCAA
1 CATTATTATCATCATCAA
*
80734 TATTATTATCAT
1 CATTATTATCAT
80746 TAATCCATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (18 bp):
CATTATTATCATCATCAA
Found at i:80766 original size:17 final size:17
Alignment explanation
Indices: 80735--80767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
80725 CGTTATCAAT
80735 ATTATTATCATTAATCC
1 ATTATTATCATTAATCC
80752 ATTA-TATCATATAATC
1 ATTATTATCAT-TAATC
80768 TTGTACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTATTATCATTAATCC
Found at i:81008 original size:23 final size:23
Alignment explanation
Indices: 80954--81009 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
80944 TGCATTGAGT
* *
80954 ACCATATAG-AATGTCCCGAAGG
1 ACCACATAGAAATGTCCCGAAAG
* * *
80976 ACCGCGTAGAAATTTCCCGAAAG
1 ACCACATAGAAATGTCCCGAAAG
80999 ACCACATAGAA
1 ACCACATAGAA
81010 TTTTTTGTGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (23 bp):
ACCACATAGAAATGTCCCGAAAG
Found at i:81073 original size:44 final size:44
Alignment explanation
Indices: 81018--81143 Score: 180
Period size: 44 Copynumber: 2.9 Consensus size: 44
81008 AATTTTTTGT
* *
81018 GAAGGATCACATATATGTCCCAAAGGTCCGCGTAGAATTGTCCC
1 GAAGGACCACATATATGTCCCAAAGGACCGCGTAGAATTGTCCC
* * **
81062 TAAGGACCACATATATATCCCAAAGGACCATGTAGAATTGTCCC
1 GAAGGACCACATATATGTCCCAAAGGACCGCGTAGAATTGTCCC
* *
81106 GAAGGACCACATATATGTTCCAAAGGACTGCGTAGAAT
1 GAAGGACCACATATATGTCCCAAAGGACCGCGTAGAAT
81144 CCTCGACTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (44 bp):
GAAGGACCACATATATGTCCCAAAGGACCGCGTAGAATTGTCCC
Found at i:81087 original size:21 final size:21
Alignment explanation
Indices: 81019--81133 Score: 86
Period size: 21 Copynumber: 5.3 Consensus size: 21
81009 ATTTTTTGTG
*
81019 AAGGATCACATATATGTCCCA
1 AAGGACCACATATATGTCCCA
* * * * *
81040 AAGGTCCGCGTAGAATTGTCCCT
1 AAGGACCACATA-TA-TGTCCCA
*
81063 AAGGACCACATATATATCCCA
1 AAGGACCACATATATGTCCCA
** * *
81084 AAGGACCATGTAGAATTGTCCCG
1 AAGGACCACATA-TA-TGTCCCA
*
81107 AAGGACCACATATATGTTCCA
1 AAGGACCACATATATGTCCCA
81128 AAGGAC
1 AAGGAC
81134 TGCGTAGAAT
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
21 34 0.50
22 4 0.06
23 30 0.44
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (21 bp):
AAGGACCACATATATGTCCCA
Found at i:81110 original size:23 final size:23
Alignment explanation
Indices: 81033--81115 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 23
81023 ATCACATATA
* *
81033 TGTCCCAAAGGTCCGCGTAGAAT
1 TGTCCCAAAGGACCACGTAGAAT
* * *
81056 TGTCCCTAAGGACCACATA-TA-
1 TGTCCCAAAGGACCACGTAGAAT
* *
81077 TATCCCAAAGGACCATGTAGAAT
1 TGTCCCAAAGGACCACGTAGAAT
*
81100 TGTCCCGAAGGACCAC
1 TGTCCCAAAGGACCAC
81116 ATATATGTTC
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 28 0.62
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (23 bp):
TGTCCCAAAGGACCACGTAGAAT
Found at i:84588 original size:13 final size:13
Alignment explanation
Indices: 84566--84598 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
84556 TTATCTTTCC
84566 TTTTTATATATTT
1 TTTTTATATATTT
84579 TGTTTT-TATATTT
1 T-TTTTATATATTT
84592 TTTTTAT
1 TTTTTAT
84599 TTCCCCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.22
13 10 0.56
14 4 0.22
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATATATTT
Found at i:86423 original size:29 final size:29
Alignment explanation
Indices: 86376--86440 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
86366 GACATTTATC
86376 ATAATTTATAAATTATTATGTACTATATT
1 ATAATTTATAAATTATTATGTACTATATT
* *
86405 GTAATTTATAAA-TAGTTATGTACTTTATT
1 ATAATTTATAAATTA-TTATGTACTATATT
86434 ATAATTT
1 ATAATTT
86441 TTATTGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.52
Consensus pattern (29 bp):
ATAATTTATAAATTATTATGTACTATATT
Found at i:86426 original size:19 final size:19
Alignment explanation
Indices: 86404--86473 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
86394 TGTACTATAT
86404 TGTAATTTATAAATAGTTA
1 TGTAATTTATAAATAGTTA
* **
86423 TGTACTTTATTATAATTTTTA
1 TGTAATTTA-TA-AATAGTTA
*
86444 TTGTAATTTATAAATAGTTT
1 -TGTAATTTATAAATAGTTA
*
86464 TGTACTTTAT
1 TGTAATTTAT
86474 TATAATTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 17 0.43
20 7 0.17
21 8 0.20
22 8 0.20
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.56
Consensus pattern (19 bp):
TGTAATTTATAAATAGTTA
Found at i:86434 original size:41 final size:41
Alignment explanation
Indices: 86398--86484 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 41
86388 TTATTATGTA
86398 CTATATTGTAATTTATAAATAGTTATGTACTTTATTATAAT
1 CTATATTGTAATTTATAAATAGTTATGTACTTTATTATAAT
* * *
86439 TTTTATTGTAATTTATAAATAGTTTTGTACTTTATTATAAT
1 CTATATTGTAATTTATAAATAGTTATGTACTTTATTATAAT
*
86480 TTATA
1 CTATA
86485 AAAAAATTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (41 bp):
CTATATTGTAATTTATAAATAGTTATGTACTTTATTATAAT
Found at i:86448 original size:22 final size:21
Alignment explanation
Indices: 86423--86481 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
86413 TAAATAGTTA
86423 TGTACTTTATTATAATTTTTAT
1 TGTACTTTATTATAATTTTT-T
* **
86445 TGTAATTTA-TA-AATAGTTT
1 TGTACTTTATTATAATTTTTT
86464 TGTACTTTATTATAATTT
1 TGTACTTTATTATAATTT
86482 ATAAAAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
19 9 0.31
20 7 0.24
21 5 0.17
22 8 0.28
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (21 bp):
TGTACTTTATTATAATTTTTT
Found at i:86473 original size:29 final size:29
Alignment explanation
Indices: 86440--86550 Score: 134
Period size: 29 Copynumber: 3.9 Consensus size: 29
86430 TATTATAATT
*
86440 TTTATTGTAATTTATAAATAGTTTTGTAC
1 TTTATTGTAATTTATAAATAGTTTTGTAA
* ***
86469 TTTATTATAATTTATAAA-AAAATTGTAA
1 TTTATTGTAATTTATAAATAGTTTTGTAA
* * * *
86497 ATTATTGTAATTTACAAAAAGTTTTGTAT
1 TTTATTGTAATTTATAAATAGTTTTGTAA
86526 TTTATTGTAATTTATAAATAGTTTT
1 TTTATTGTAATTTATAAATAGTTTT
86551 TATGTAACTG
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 21 0.32
29 45 0.68
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (29 bp):
TTTATTGTAATTTATAAATAGTTTTGTAA
Found at i:93504 original size:90 final size:90
Alignment explanation
Indices: 93290--93563 Score: 352
Period size: 91 Copynumber: 3.0 Consensus size: 90
93280 AAGAGGTGGA
* * * *
93290 TCAACATTTCCAATGGGGAGTTCATAATGAGAAGAACATATCTGACGAGGGAGAAGAAGTTCGTA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAAC-TATCCGACGAGGGAGAAGAAGTTCATA
*
93355 ATGAGAAGACCTTGTTCAACCTTGGC
65 ATGAGAAGAACTTGTTCAACCTTGGC
* * * * * *
93381 TCAACATTTCCAGCGTAGAGTTTATAATAAGAAGAACTCATCCAACGAGGGAGGAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACT-ATCCGACGAGGGAGAAGAAGTTCATA
93446 ATGAGAA-AACTTGTTCAACCTTGGC
65 ATGAGAAGAACTTGTTCAACCTTGGC
* * * * *
93471 TCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAATTTATCCGATGAGGGAGAAGAATTTTATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAA-CTATCCGACGAGGGAGAAGAAGTTCATA
* *
93536 ATGAGAATAACTTGTTCAACCTTAGC
65 ATGAGAAGAACTTGTTCAACCTTGGC
93562 TC
1 TC
93564 GTTTCCATCA
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
90 77 0.49
91 80 0.51
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (90 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTATCCGACGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTGGC
Found at i:93642 original size:208 final size:208
Alignment explanation
Indices: 93397--93886 Score: 705
Period size: 208 Copynumber: 2.4 Consensus size: 208
93387 TTTCCAGCGT
93397 AGAGTTTATAATAAGAAGAACTCATCCAACGAGGGAGGAGAAGTTCATAATGAGAA-AACTTGTT
1 AGAGTTTATAATAAGAAGAACTCATCCAACGAGGGAGGAGAAGTTCATAATGAGAAGAACTTGTT
* * * * *
93461 CAACCTTGGCTCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAATTTATCCGATGAGGGAGAA
66 CAACCTTGGCTCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATACGATGAGGGAGAA
* * * * * *
93526 GAATTTTATAATGAGAATAACTTGTTCAACCTTAGCTCGTTTCCATCACAGAAAGAGGTGGATCA
131 AAAGTTCAT-ATGAGAAGAACTTGTTCAACCATAGCTCGTTTCCATCACAGAAAGAGATGGATCA
93591 ATATTTCCAATGGA
195 ATATTTCCAATGGA
* * * * *
93605 AGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGGAGAAGTTTATAATGAGAAGAAATTTTT
1 AGAGTTTATAATAAGAAGAACTCATCCAACGAGGGAGGAGAAGTTCATAATGAGAAGAACTTGTT
* * *
93670 CAACCTTCGCTCAACATTTCCAGTAGAGAGTTCATAATGGGAAGAACTCATATGATGAGGGAGAA
66 CAACCTTGGCTCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATACGATGAGGGAGAA
*
93735 AAAGTTCATATGAGAAGAACTTGTTCAACCATAGCTCGTTTCCATCACAGAAGGAGATGGATCAA
131 AAAGTTCATATGAGAAGAACTTGTTCAACCATAGCTCGTTTCCATCACAGAAAGAGATGGATCAA
*
93800 TATTTTCAATGGA
196 TATTTCCAATGGA
* * * **
93813 AGGGTTTGTAATAAGAAGAACTCA-CCTGACGAGGGACAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTTATAATAAGAAGAACTCATCC-AACGAGGGAGGAGAAGTTCATAATGAGAAGAACTTGT
*
93877 TCAACATTGG
65 TCAACCTTGG
93887 TTTGATTTCA
Statistics
Matches: 247, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
207 2 0.01
208 176 0.71
209 69 0.28
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (208 bp):
AGAGTTTATAATAAGAAGAACTCATCCAACGAGGGAGGAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTGGCTCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATACGATGAGGGAGAA
AAAGTTCATATGAGAAGAACTTGTTCAACCATAGCTCGTTTCCATCACAGAAAGAGATGGATCAA
TATTTCCAATGGA
Found at i:93732 original size:299 final size:297
Alignment explanation
Indices: 93179--93764 Score: 854
Period size: 299 Copynumber: 2.0 Consensus size: 297
93169 ACCAATAAGT
93179 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
* *
93244 AAGAACTTGTTCAACCTTAGCTCGTTTCCATTACAGAAGAGGTGGATCAACATTTCCAATGGGGA
66 AAGAACTTGTTCAACCTTAGCTCGTTTCCATCACAGAAGAGGTGGATCAACATTTCCAATGGAGA
** * **
93309 GTTCATAATGAGAAGAACATATCTGACGAGGGAGAAGAAGTTCGTAATGAGAAGACCTTGTTCAA
131 GTTCATAATGAGAAGAACATATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTTCAA
* * * * * *
93374 CCTTGGCTCAACATTTCCAGCGTAGAGTTTATAATAAGAAGAACTCATCCAACGAGGGAGGAGAA
196 CCTTCGCTCAACATTTCCAGAGTAGAGTTCATAATAAGAAGAACTCATACAACGAGGGAGAAAAA
93439 GTTCATAATGAGAA-AACTTGTTCAACCTTGGCTCAAC
261 GTTCAT-ATGAGAAGAACTTGTTCAACCTTGGCTCAAC
* * * * *
93476 ATTTCTAGTGGAGAGTTCATAATGAGAAGAATTTATCCGATGAGGGAGAAGAATTTTATAATGAG
1 ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
* *
93541 AATAACTTGTTCAACCTTAGCTCGTTTCCATCACAGAAAGAGGTGGATCAATATTTCCAATGGAA
66 AAGAACTTGTTCAACCTTAGCTCGTTTCCATCACAG-AAGAGGTGGATCAACATTTCCAATGG-A
* * *
93606 GAGTTCATAATGAGAAGAAC-TCATCCAACGAGGGAGGAGAAGTTTATAATGAGAAGAAATTTTT
129 GAGTTCATAATGAGAAGAACAT-ATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTT
** ** *
93670 CAACCTTCGCTCAACATTTCCAGTAG-AGAGTTCATAATGGGAAGAACTCATATGATGAGGGAGA
193 CAACCTTCGCTCAACATTTCCAG-AGTAGAGTTCATAATAAGAAGAACTCATACAACGAGGGAGA
93734 AAAAGTTCATATGAGAAGAACTTGTTCAACC
257 AAAAGTTCATATGAGAAGAACTTGTTCAACC
93765 ATAGCTCGTT
Statistics
Matches: 256, Mismatches: 28, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
297 94 0.37
298 33 0.13
299 128 0.50
300 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (297 bp):
ATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTAGCTCGTTTCCATCACAGAAGAGGTGGATCAACATTTCCAATGGAGA
GTTCATAATGAGAAGAACATATCCAACGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTTCAA
CCTTCGCTCAACATTTCCAGAGTAGAGTTCATAATAAGAAGAACTCATACAACGAGGGAGAAAAA
GTTCATATGAGAAGAACTTGTTCAACCTTGGCTCAAC
Found at i:100419 original size:32 final size:34
Alignment explanation
Indices: 100389--100456 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 34
100379 TTACTTAAGA
*
100389 AACAAAATATAAAACAAACACGTATATTAAGAAGAAT
1 AACAAAACATAAAACAAACACGTATATT---AAGAAT
*
100426 AATAAAACATAAAACAAACACGTATATTAAG
1 AACAAAACATAAAACAAACACGTATATTAAG
100457 GTTAACATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 3 0.10
37 26 0.90
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.19
Consensus pattern (34 bp):
AACAAAACATAAAACAAACACGTATATTAAGAAT
Found at i:101171 original size:29 final size:29
Alignment explanation
Indices: 101126--101187 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
101116 CCAAATTTTG
**
101126 GTTTGTGACTAAAATATAAGTTTTG-AAA
1 GTTTGTGACTAAAATATAAACTTTGTAAA
* *
101154 GTTTGGTGGCTAACATATAAACTTTGTAAA
1 GTTT-GTGACTAAAATATAAACTTTGTAAA
101184 GTTT
1 GTTT
101188 AGGGACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 17 0.61
30 7 0.25
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (29 bp):
GTTTGTGACTAAAATATAAACTTTGTAAA
Found at i:109980 original size:12 final size:12
Alignment explanation
Indices: 109963--109988 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109953 TAGGGAGAAG
109963 GTTGCAGCAAAA
1 GTTGCAGCAAAA
109975 GTTGCAGCAAAA
1 GTTGCAGCAAAA
109987 GT
1 GT
109989 ACTGCGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.19
Consensus pattern (12 bp):
GTTGCAGCAAAA
Found at i:113003 original size:3 final size:3
Alignment explanation
Indices: 112995--113028 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
112985 TCTAGTATAA
*
112995 ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
113029 ACATCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:114897 original size:17 final size:18
Alignment explanation
Indices: 114875--114910 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
114865 TATATTAATT
114875 TAATATT-TTTAAAGATA
1 TAATATTCTTTAAAGATA
*
114892 TAATATTCTTTACAGATA
1 TAATATTCTTTAAAGATA
114910 T
1 T
114911 GAAATAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TAATATTCTTTAAAGATA
Found at i:115350 original size:21 final size:24
Alignment explanation
Indices: 115306--115359 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
115296 AAATGGCTAA
*
115306 TTTTTTAAATAAAGTCACATTTGT
1 TTTTTTAAATAAAATCACATTTGT
115330 TTTTTTAAATAAAAT-A-A-TTGT
1 TTTTTTAAATAAAATCACATTTGT
*
115351 TTTTCTAAA
1 TTTTTTAAA
115360 AAATGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.43
22 1 0.04
23 1 0.04
24 14 0.50
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTTTTAAATAAAATCACATTTGT
Found at i:121576 original size:17 final size:17
Alignment explanation
Indices: 121547--121596 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
121537 TAAGAGTTAA
*
121547 TTTAATAAATGAACTAG
1 TTTAATGAATGAACTAG
*
121564 TTTGATGAATGAACTAG
1 TTTAATGAATGAACTAG
*
121581 TTTAATTAATGAACTA
1 TTTAATGAATGAACTA
121597 CTTCCCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (17 bp):
TTTAATGAATGAACTAG
Found at i:123754 original size:15 final size:15
Alignment explanation
Indices: 123736--123782 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
123726 CACCATGCTA
123736 CAACTCACCTATGCC
1 CAACTCACCTATGCC
123751 CAACTCACCTATGCC
1 CAACTCACCTATGCC
* *
123766 GAGCTCACCTATGCC
1 CAACTCACCTATGCC
123781 CA
1 CA
123783 GTTTACCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.26, C:0.45, G:0.11, T:0.19
Consensus pattern (15 bp):
CAACTCACCTATGCC
Found at i:124495 original size:22 final size:21
Alignment explanation
Indices: 124465--124509 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
124455 CGTCTCCATT
124465 TCATCATCAACACCA-ACAACA
1 TCATCATCAACACCATA-AACA
*
124486 TCATCCATCAAGACCATAAACA
1 TCAT-CATCAACACCATAAACA
124508 TC
1 TC
124510 TTCTTAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 16 0.76
23 1 0.05
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (21 bp):
TCATCATCAACACCATAAACA
Found at i:129098 original size:42 final size:42
Alignment explanation
Indices: 129052--129135 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
129042 GCTCAACTTC
129052 ATGGAGTGTCTGTCTCGATAGTATTTAATAGATATCTAAGGT
1 ATGGAGTGTCTGTCTCGATAGTATTTAATAGATATCTAAGGT
129094 ATGGAGTGTCTGTCTCGATAGTATTTAATAGATATCTAAGGT
1 ATGGAGTGTCTGTCTCGATAGTATTTAATAGATATCTAAGGT
129136 TTACTTCGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (42 bp):
ATGGAGTGTCTGTCTCGATAGTATTTAATAGATATCTAAGGT
Found at i:135730 original size:22 final size:22
Alignment explanation
Indices: 135702--135746 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
135692 TTAAAGTAAG
135702 CGCTTTTGGTTTGTCAAGGCAT
1 CGCTTTTGGTTTGTCAAGGCAT
135724 CGCTTTTGGTTTGTCAAGGCAT
1 CGCTTTTGGTTTGTCAAGGCAT
135746 C
1 C
135747 AAATTATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (22 bp):
CGCTTTTGGTTTGTCAAGGCAT
Found at i:165706 original size:27 final size:27
Alignment explanation
Indices: 165668--165766 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
165658 ACAGAATTCT
165668 TAAATAAAAATGCATGAAAGGATGCCA
1 TAAATAAAAATGCATGAAAGGATGCCA
*
165695 TAAATAAAAATGCATGAATGGATG-CA
1 TAAATAAAAATGCATGAAAGGATGCCA
* **
165721 T---T---AAGGCATGAAATCATGCCA
1 TAAATAAAAATGCATGAAAGGATGCCA
* *
165742 TAACTAAAAATGCATGAACGGATGC
1 TAAATAAAAATGCATGAAAGGATGC
165767 ATTAAGGCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
20 12 0.21
21 3 0.05
23 1 0.02
24 1 0.02
26 3 0.05
27 36 0.64
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.21
Consensus pattern (27 bp):
TAAATAAAAATGCATGAAAGGATGCCA
Found at i:165919 original size:20 final size:20
Alignment explanation
Indices: 165894--166021 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 20
165884 AGATAAAAAT
*
165894 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
165914 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
165941 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
165961 GCATGAAAGGATGCCATAAATAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
165988 GCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
166008 GCTTGAAAGGATGC
1 GCATGAAAGGATGC
166022 CATAAGTTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
20 40 0.48
21 6 0.07
23 2 0.02
24 2 0.02
26 6 0.07
27 28 0.33
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:166273 original size:27 final size:26
Alignment explanation
Indices: 166242--166371 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 26
166232 TGTGCATTAA
*
166242 GGCATGAAATGATGCCATAACTAAAAT
1 GGCATGAAAGGATG-CATAACTAAAAT
* *
166269 GGCATGAACGGGTGCAT---T--AA-
1 GGCATGAAAGGATGCATAACTAAAAT
166289 GGCATGAAAGGATGTCATAACTAAAAAT
1 GGCATGAAAGGATG-CATAACT-AAAAT
*
166317 -GCATGAAATGATGCAT---T--AA-
1 GGCATGAAAGGATGCATAACTAAAAT
166336 GGCATGAAAGGATGCCATAACTATAAAT
1 GGCATGAAAGGATG-CATAACTA-AAAT
166364 -GCATGAAA
1 GGCATGAAA
166372 AGATACTTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 34
0.66 0.06 0.28
Matches are distributed among these distances:
20 26 0.33
21 8 0.10
23 2 0.03
24 2 0.03
26 6 0.08
27 35 0.44
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (26 bp):
GGCATGAAAGGATGCATAACTAAAAT
Found at i:166438 original size:47 final size:47
Alignment explanation
Indices: 165679--166413 Score: 1017
Period size: 47 Copynumber: 15.6 Consensus size: 47
165669 AAATAAAAAT
* *
165679 GCATGAAAGGATGCCATAAATAAAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
**
165726 GCATGAAATCATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* *
165773 GCATAAAAGGATGCCATAAATAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
** * * *
165820 GCATGAAAGGATTTCATAACTAAAAATGTATGAAAGGATGCATTAAA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
** *
165867 GTTTGAAAGGATTCCATAGA-TAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATA-ACTAAAAATGCATGAACGGATGCATTAAG
165914 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* *
165961 GCATGAAAGGATGCCATAAATAAAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* * * * *
166008 GCTTGAAAGGATGCCATAAGTTAAAATGCATGAACGTATGCAGTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* *
166055 GCATGAAAGGATGCCATAAATAAAAATGCATGAACGGATGCATTAAT
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* *
166102 GCATGAAAGGATGCCATAAATAAAAATGCATGAACGGATGGATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* * **
166149 ACTTGAAAGGATGCCATAACTAAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* * * *
166196 TCATGAAAGGATTCCATAACAAAAAATGCATGAACATG-TGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAAC-GGATGCATTAAG
* *
166243 GCATGAAATGATGCCATAACT-AAAATGGCATGAACGGGTGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAAT-GCATGAACGGATGCATTAAG
* **
166290 GCATGAAAGGATGTCATAACTAAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* ** * * *
166337 GCATGAAAGGATGCCATAACTATAAATGCATGAAAAGATACTTTAAA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
*
166384 GCATGAAAGTATGCCATAACTAAAAATGCA
1 GCATGAAAGGATGCCATAACTAAAAATGCA
166414 AGAATAAATG
Statistics
Matches: 613, Mismatches: 69, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
46 7 0.01
47 598 0.98
48 8 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (47 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
Found at i:168481 original size:21 final size:21
Alignment explanation
Indices: 168441--168493 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
168431 AGATCTAAGA
168441 GATGGTGTTT-CGGAAAACTT
1 GATGGTGTTTCCGGAAAACTT
*
168461 GATGGTGTTTCCGGCAAACTT
1 GATGGTGTTTCCGGAAAACTT
*
168482 GATGGAGTTTCC
1 GATGGTGTTTCC
168494 CTTCAATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (21 bp):
GATGGTGTTTCCGGAAAACTT
Found at i:173196 original size:47 final size:46
Alignment explanation
Indices: 173128--173852 Score: 425
Period size: 47 Copynumber: 14.7 Consensus size: 46
173118 AATTCCTAAA
* * * *
173128 TAAAAATGCATGAAAGGATGCATTAAGGCATAAAATGATGCCATAAA
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
173175 TAAAAATGCATAAACATATGCATTAAGGCATGAAAGGATACCATAAC
1 TAAAAATGCATAAA-AGATGCATTAAGGCATGAAAGGATGCCATAAC
* * * * * * *
173222 TAATAATGCATGAAAGGATGTATTAAAGCATGAAATGATTCCATAGC
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
** *
173269 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGACATAAC
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
* * * *
173316 TAAAAATGCATGAAATGATGTATTAAGGCATGAAATGATGCCATAAA
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
173363 TAAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAAC
1 TAAAAATGCATAAAAG-ATGCATTAAGGCATGAAAGGATGCCATAAC
* * *
173410 T-AAAATGCATGAAATGATGCCATAACTAAAAATGCATGAACGGATG-CATTAAGGC
1 TAAAAATGCAT-AAAAGATG-CAT---T---AAGGCATGAAAGGATGCCA-TAA--C
* * * * * *** *
173465 ATGAAAGGATGTCATAACTGAAAATACATGAATATATGCAT-TAAGGAATATAATGATCC
1 -T-AAA-AATG-CATAA---AAGATGCAT---TA-AGGCATGAAAGG-ATGCCAT-A-AC
** *
173524 ATAAATAA-AAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAAC
1 -TAAA-AATGCAT--A--AA-AGATGCATTAAGGCATGAAAGGATGCCATAAC
* * *
173576 TAAAATTGCATGAAAGGATGCATTAAGGCATGAAAGCATGCCATAAC
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
** **
173623 TAAAAATGCATGAACTGATGCATTAACTCATGAAAGGATGCCATAAC
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
* *
173670 TAAAAATGCATGAAAAGATGCCATAACTAAAAATGCATGAAAAGATGCCATAAC
1 TAAAAATGCAT-AAAAGATG-CAT---T---AAGGCATGAAAGGATGCCATAAC
*
173724 TAAAAATGCATGAAAGGATGCATTAAGGC-TCGAAAGGATGCCATAAC
1 TAAAAATGCAT-AAAAGATGCATTAAGGCAT-GAAAGGATGCCATAAC
* * * * * * * *
173771 TAAAAATGAATGAAAATATACTTTAAAGTATGAAAGTATGTCATAAC
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
** *
173818 TAAAAATGCATGAACGGATGCATTAAGGTATGAAA
1 TAAAAATGCAT-AAAAGATGCATTAAGGCATGAAA
173853 AGAGGCTATA
Statistics
Matches: 539, Mismatches: 96, Indels: 86
0.75 0.13 0.12
Matches are distributed among these distances:
46 19 0.04
47 370 0.69
48 9 0.02
50 4 0.01
51 7 0.01
52 3 0.01
53 21 0.04
54 48 0.09
55 7 0.01
56 3 0.01
57 1 0.00
58 16 0.03
59 17 0.03
60 6 0.01
61 5 0.01
62 3 0.01
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAAAATGCATAAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
Found at i:173403 original size:20 final size:20
Alignment explanation
Indices: 173276--173403 Score: 58
Period size: 20 Copynumber: 5.7 Consensus size: 20
173266 AGCTAAAAAT
*
173276 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
173296 GCATGAAAGGATGACATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* *
173323 GCATGAAATGATGTATTAAG
1 GCATGAAAGGATGCATTAAG
* *
173343 GCATGAAATGATGCCATAAATAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* *
173370 GCATGAACGAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
173390 GCATGAAAGGATGC
1 GCATGAAAGGATGC
173404 CATAACTAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
20 41 0.51
21 5 0.06
23 2 0.02
24 2 0.02
26 5 0.06
27 26 0.32
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:173448 original size:167 final size:167
Alignment explanation
Indices: 173249--173596 Score: 567
Period size: 167 Copynumber: 2.1 Consensus size: 167
173239 ATGTATTAAA
* *
173249 GCATGAAATGATTCCATAGCTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGACATA
1 GCATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGACATA
* * *
173314 ACTAAAAATGCATGAA-ATGATGTATTAAGGCATGA-AATGATGCCATAAATAAAAATGCATGAA
66 ACTAAAAATACATGAATAT-ATGCATTAAGGAAT-ATAATGAT-CCATAAATAAAAATGCATGAA
173377 CGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAA-T
128 CGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATT
*
173416 GCATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGACATA
* *
173481 ACTGAAAATACATGAATATATGCATTAAGGAATATAATGATCCATAAATAAAAATGCATGAACGG
66 ACTAAAAATACATGAATATATGCATTAAGGAATATAATGATCCATAAATAAAAATGCATGAACGA
173546 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATT
131 ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATT
*
173583 GCATGAAAGGATGC
1 GCATGAAATGATGC
173597 ATTAAGGCAT
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
166 59 0.35
167 108 0.64
168 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (167 bp):
GCATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGACATA
ACTAAAAATACATGAATATATGCATTAAGGAATATAATGATCCATAAATAAAAATGCATGAACGA
ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATT
Found at i:173456 original size:27 final size:26
Alignment explanation
Indices: 173202--173744 Score: 248
Period size: 27 Copynumber: 22.5 Consensus size: 26
173192 ATGCATTAAG
*
173202 GCATGAAAGGATACCATAACTAATAAT
1 GCATGAAAGGATGCCATAACTAA-AAT
*
173229 GCATGAAAGGATG---T-A-TTAAA-
1 GCATGAAAGGATGCCATAACTAAAAT
* * *
173249 GCATGAAATGATTCCATAGCTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
* *
173276 GCATGAACGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
*
173296 GCATGAAAGGATGACATAACTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
* * *
173323 GCATGAAATGATG---T-A-T-TAAG
1 GCATGAAAGGATGCCATAACTAAAAT
* *
173343 GCATGAAATGATGCCATAAATAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
* * *
173370 GCATGAACGAATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
173390 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
173416 GCATGAAATGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
* *
173443 GCATGAACGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
*
173463 GCATGAAAGGATGTCATAACTGAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
* *
173490 ACATGAATA-TATG-CAT---TAAGGAAT
1 GCATGAA-AGGATGCCATAACTAA--AAT
* *
173514 --AT--AATGAT-CCATAAATAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
* *
173536 GCATGAACGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
173556 GCATGAAAGGATGCCATAACTAAAATT
1 GCATGAAAGGATGCCATAACTAAAA-T
*
173583 GCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
*
173603 GCATGAAAGCATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
** *
173630 GCATGAACTGATG-CAT---T-AACT
1 GCATGAAAGGATGCCATAACTAAAAT
173651 -CATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
*
173677 GCATGAAAAGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
*
173704 GCATGAAAAGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACT-AAAAT
173731 GCATGAAAGGATGC
1 GCATGAAAGGATGC
173745 ATTAAGGCTC
Statistics
Matches: 396, Mismatches: 50, Indels: 140
0.68 0.09 0.24
Matches are distributed among these distances:
19 1 0.00
20 109 0.28
21 25 0.06
22 10 0.03
23 12 0.03
24 16 0.04
25 2 0.01
26 55 0.14
27 165 0.42
28 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAACTAAAAT
Found at i:173549 original size:120 final size:120
Alignment explanation
Indices: 173296--173549 Score: 325
Period size: 120 Copynumber: 2.1 Consensus size: 120
173286 ATGCATTAAG
* * * *
173296 GCATGAAAGGATGACATAACTAAAAATGCATGAAATGATGTATTAAGGCATGAAATGATGCCATA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
* * *
173361 AATAAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
66 AATAAAAATACATGAACGAATGCATTAAGGAATGAAAGGATGCCATAAATAAAAT
* * *
173416 GCATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGTCATA
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
* * * *
173481 ACTGAAAATACATGAA-TATATGCATTAAGGAAT-ATAATGAT-CCATAAATAAAAAT
66 AATAAAAATACATGAACGA-ATGCATTAAGGAATGA-AAGGATGCCATAAAT-AAAAT
*
173536 GCATGAACGGATGC
1 GCATGAAAGGATGC
173550 ATTAAGGCAT
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
119 9 0.08
120 106 0.92
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (120 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
AATAAAAATACATGAACGAATGCATTAAGGAATGAAAGGATGCCATAAATAAAAT
Found at i:173608 original size:20 final size:20
Alignment explanation
Indices: 173536--173616 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 20
173526 AAATAAAAAT
*
173536 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
173556 GCATGAAAGGATGCCATAACTAAAATT
1 GCATGAAAGGATG-CAT---T--AA-G
173583 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
173603 GCATGAAAGCATGC
1 GCATGAAAGGATGC
173617 CATAACTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
20 25 0.50
21 5 0.10
23 1 0.02
24 1 0.02
26 5 0.10
27 13 0.26
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:173748 original size:148 final size:144
Alignment explanation
Indices: 173390--173838 Score: 538
Period size: 148 Copynumber: 3.1 Consensus size: 144
173380 ATGCATTAAG
* *
173390 GCATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCCATAACTAAAAATGCATGAACGGAT
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGAT
* * * * *
173455 GCATTAAGGCATGAAAGGATGTCATAACTGAAAATACATGAATATATGCATTAAGGAAT-ATAAT
66 GCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG-A-ATATGCATTAA-GTATGA-AAG
*
173519 GAT-CCATAAATAAAAAT
127 GATGCCATAACTAAAAAT
* * * *
173536 GCATGAACGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATTGCATGAAAGGAT
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGAT
* *
173595 GCATTAAGGCATGAAAGCATGCCATAACTAAAAATGCATGAACTGATGCATTAACTCATGAAAGG
66 GCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAA-T-ATGCATTAAGT-ATGAAAGG
173660 ATGCCATAACTAAAAAT
128 ATGCCATAACTAAAAAT
*
173677 GCATGAAAAGATGCCATAACTAAAAATGCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGA
1 GCATGAAAGGATGCCATAACT-AAAATGCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGA
* * *
173742 TGCATTAAGGC-TCGAAAGGATGCCATAACTAAAAATGAATGAAAATATACTTTAAAGTATGAAA
65 TGCATTAAGGCAT-GAAAGGATGCCATAACTAAAAATGCATG--AATATGCATT-AAGTATGAAA
* *
173806 GTATGTCATAACTAAAAAT
126 GGATGCCATAACTAAAAAT
*
173825 GCATGAACGGATGC
1 GCATGAAAGGATGC
173839 ATTAAGGTAT
Statistics
Matches: 260, Mismatches: 27, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
138 1 0.00
139 2 0.01
140 90 0.35
141 25 0.10
142 4 0.02
145 4 0.02
146 12 0.05
147 1 0.00
148 115 0.44
149 4 0.02
150 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (144 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGAT
GCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAATATGCATTAAGTATGAAAGGATG
CCATAACTAAAAAT
Found at i:173764 original size:74 final size:74
Alignment explanation
Indices: 173556--173786 Score: 253
Period size: 74 Copynumber: 3.1 Consensus size: 74
173546 ATGCATTAAG
* * *
173556 GCATGAAAGGATGCCATAACTAAAATTGCATGAAAGGATGCATTAAGGCATGAAAGCATGCCATA
1 GCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
173621 ACTAAAAAT
66 ACTAAAAAT
** * * *
173630 GCATGAACTGATG-CAT---T--AACT-CATGAAAGGATGCCATAACTAAAAATGCATGAAAAGA
1 GCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGATG-CAT---T---AAGGCATGAAAGGA
173688 TGCCATAACTAAAAAT
59 TGCCATAACTAAAAAT
173704 GCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC-TCGAAAGGATGCCAT
1 GCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCAT-GAAAGGATGCCAT
173768 AACTAAAAAT
65 AACTAAAAAT
*
173778 GAATGAAAA
1 GCATGAAAA
173787 TATACTTTAA
Statistics
Matches: 130, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
67 12 0.09
68 6 0.05
70 1 0.01
71 1 0.01
73 4 0.03
74 83 0.64
75 3 0.02
77 1 0.01
78 1 0.01
80 6 0.05
81 12 0.09
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (74 bp):
GCATGAAAAGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
ACTAAAAAT
Found at i:174939 original size:19 final size:20
Alignment explanation
Indices: 174901--174940 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
174891 ATCTTAAGAA
*
174901 AATACTAGTATTGCTCATCT
1 AATACTAGTATCGCTCATCT
*
174921 AATACTA-TATCGTTCATCT
1 AATACTAGTATCGCTCATCT
174940 A
1 A
174941 GTATCGATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (20 bp):
AATACTAGTATCGCTCATCT
Found at i:179397 original size:29 final size:30
Alignment explanation
Indices: 179340--179405 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
179330 TTCGATCATT
179340 TTAATTTTCTTATGACATTTGTTGATTCTG
1 TTAATTTTCTTATGACATTTGTTGATTCTG
*
179370 TTAATTTT-TT-TGAACGATTT-TTGATTCTT
1 TTAATTTTCTTATG-AC-ATTTGTTGATTCTG
179399 TTAATTT
1 TTAATTT
179406 ATGTTCGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 2 0.06
29 19 0.58
30 12 0.36
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.61
Consensus pattern (30 bp):
TTAATTTTCTTATGACATTTGTTGATTCTG
Found at i:184946 original size:11 final size:10
Alignment explanation
Indices: 184920--184961 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
184910 ACGGGGTACC
184920 TAAAAATAAAA
1 TAAAAA-AAAA
184931 -AAAAAAAAA
1 TAAAAAAAAA
184940 TTGAAAAAAAAA
1 -T-AAAAAAAAA
184952 TAAAAAAAAA
1 TAAAAAAAAA
184962 ATTTGAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 4 0.14
10 14 0.50
11 1 0.04
12 9 0.32
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:184946 original size:12 final size:12
Alignment explanation
Indices: 184930--184964 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
184920 TAAAAATAAA
184930 AAAAAAAAAATT
1 AAAAAAAAAATT
*
184942 GAAAAAAAAA-T
1 AAAAAAAAAATT
184953 AAAAAAAAAATT
1 AAAAAAAAAATT
184965 TGAACAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAAAAAAAATT
Found at i:184968 original size:24 final size:22
Alignment explanation
Indices: 184921--184964 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
184911 CGGGGTACCT
*
184921 AAAAATAAAAAAAAAAAAATTG
1 AAAAAAAAAAAAAAAAAAATTG
184943 AAAAAAAAATAAAAAAAAAATT
1 AAAAAAAAA-AAAAAAAAAATT
184965 TGAACAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAAAATTG
Found at i:186404 original size:21 final size:21
Alignment explanation
Indices: 186380--186426 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
186370 GCTTTGGAAT
*
186380 TTTTCATGGGATGCAACCAGC
1 TTTTCATAGGATGCAACCAGC
* *
186401 TTTTCCTAGGATGTAACCAGC
1 TTTTCATAGGATGCAACCAGC
186422 TTTTC
1 TTTTC
186427 TTGTGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (21 bp):
TTTTCATAGGATGCAACCAGC
Found at i:192425 original size:16 final size:17
Alignment explanation
Indices: 192404--192436 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
192394 AATTGGAGTG
192404 CAAAAAGAA-AAAAAAA
1 CAAAAAGAAGAAAAAAA
192420 CAAAAAGAAGAAAAAAA
1 CAAAAAGAAGAAAAAAA
192437 ATTCAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (17 bp):
CAAAAAGAAGAAAAAAA
Found at i:192456 original size:26 final size:24
Alignment explanation
Indices: 192427--192477 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
192417 AAACAAAAAG
192427 AAGAAAAAAAATTCAGAAAAGATGAA
1 AAGAAAAAAAATTCA-AAAAGA-GAA
* *
192453 AAGAAAAGAAGTTCAAAAAGAGAA
1 AAGAAAAAAAATTCAAAAAGAGAA
192477 A
1 A
192478 GCAAGCCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 6 0.26
26 13 0.57
ACGTcount: A:0.69, C:0.04, G:0.18, T:0.10
Consensus pattern (24 bp):
AAGAAAAAAAATTCAAAAAGAGAA
Found at i:199282 original size:21 final size:21
Alignment explanation
Indices: 199229--199288 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
199219 CCCCCCATGA
199229 GGGAACCGATTCCCCCTTTGA-AG
1 GGGAACCGATTCCCCC--T-ACAG
199252 GGGAACCGATTCCCCCTACAG
1 GGGAACCGATTCCCCCTACAG
* *
199273 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
199289 CTGGGGTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 17 0.50
23 16 0.47
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTACAG
Found at i:210940 original size:14 final size:14
Alignment explanation
Indices: 210921--210947 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
210911 AAGAAAGTTT
210921 TTATTTTCATTTTG
1 TTATTTTCATTTTG
210935 TTATTTTCATTTT
1 TTATTTTCATTTT
210948 TTTAGTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTATTTTCATTTTG
Found at i:211577 original size:27 final size:28
Alignment explanation
Indices: 211539--211617 Score: 133
Period size: 27 Copynumber: 2.9 Consensus size: 28
211529 AAAATTTACA
211539 AACATTCAAGTGAAATGTAATATAGTTC
1 AACATTCAAGTGAAATGTAATATAGTTC
211567 AACATTC-AGTGAAATGTAATATAGTTC
1 AACATTCAAGTGAAATGTAATATAGTTC
* *
211594 GATATTCAAGTGAAATGTAATATA
1 AACATTCAAGTGAAATGTAATATA
211618 ATTTAATAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 25 0.52
28 23 0.48
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (28 bp):
AACATTCAAGTGAAATGTAATATAGTTC
Found at i:212155 original size:18 final size:18
Alignment explanation
Indices: 212134--212169 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
212124 TTAAAATGAC
212134 AATGTTATACTATAAGTA
1 AATGTTATACTATAAGTA
212152 AATGTTATACTATAAGTA
1 AATGTTATACTATAAGTA
212170 TAACATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (18 bp):
AATGTTATACTATAAGTA
Found at i:214141 original size:32 final size:32
Alignment explanation
Indices: 214105--214216 Score: 116
Period size: 32 Copynumber: 3.5 Consensus size: 32
214095 ATTGTATTAC
* * * *
214105 TATGCATTATCTAAATACGACTCTGACAGTCT
1 TATGCATTATCTAAATACAACACTGACACTAT
* * *
214137 TATGCATTATCTGAATGCAACACTGACTCTAT
1 TATGCATTATCTAAATACAACACTGACACTAT
* * * *
214169 TATGCATTATCTAAATGCAACACTAAAACTGT
1 TATGCATTATCTAAATACAACACTGACACTAT
*
214201 TGTGCATTATCTAAAT
1 TATGCATTATCTAAAT
214217 GTAACCCTGA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (32 bp):
TATGCATTATCTAAATACAACACTGACACTAT
Found at i:221352 original size:16 final size:16
Alignment explanation
Indices: 221331--221361 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
221321 TATAAAAGTC
*
221331 TATAAAATAAAATCGA
1 TATAAAACAAAATCGA
221347 TATAAAACAAAATCG
1 TATAAAACAAAATCG
221362 TACTTTCATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.23
Consensus pattern (16 bp):
TATAAAACAAAATCGA
Found at i:222713 original size:33 final size:33
Alignment explanation
Indices: 222671--222760 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 33
222661 ATTGTGAAAG
*
222671 AATATTATTTGTCACAAATTTTTATAATGA-GA
1 AATAATATTTGTCACAAATTTTTATAATGATGA
* * * ** *
222703 AATTAATATTTGTTATACATTTTTATTTTGATTA
1 AA-TAATATTTGTCACAAATTTTTATAATGATGA
*
222737 AATAA-ATTTGTCACAATTTTTTAT
1 AATAATATTTGTCACAAATTTTTAT
222761 TTTGACAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
32 17 0.38
33 25 0.56
34 3 0.07
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.51
Consensus pattern (33 bp):
AATAATATTTGTCACAAATTTTTATAATGATGA
Found at i:226997 original size:20 final size:20
Alignment explanation
Indices: 226964--227002 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
226954 TATATTGGGC
*
226964 TATGAATCTAAAATGTGAAA
1 TATGAATCTAAAATATGAAA
* *
226984 TATGAATGTCAAATATGAA
1 TATGAATCTAAAATATGAA
227003 TCTAAAAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (20 bp):
TATGAATCTAAAATATGAAA
Found at i:227021 original size:19 final size:19
Alignment explanation
Indices: 226997--227067 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
226987 GAATGTCAAA
*
226997 TATGAATCTAAAAATGAGT
1 TATGAATCTGAAAATGAGT
* *
227016 TATGAATATGGAAATGAGT
1 TATGAATCTGAAAATGAGT
227035 TATGAATCTGGAAAATGAGT
1 TATGAATCT-GAAAATGAGT
227055 TATGAATCTGAAA
1 TATGAATCTGAAA
227068 TGTAAATGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 28 0.61
20 18 0.39
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (19 bp):
TATGAATCTGAAAATGAGT
Found at i:227025 original size:38 final size:39
Alignment explanation
Indices: 226982--227074 Score: 111
Period size: 38 Copynumber: 2.4 Consensus size: 39
226972 TAAAATGTGA
226982 AATATG-AATGTCAAATATGAATCT-AAAAATGAGTTATG
1 AATATGAAATGT-AAATATGAATCTGAAAAATGAGTTATG
** *
227020 AATATGGAAATG-AGTTATGAATCTGGAAAATGAGTTATG
1 AATAT-GAAATGTAAATATGAATCTGAAAAATGAGTTATG
*
227059 AATCTGAAATGTAAAT
1 AATATGAAATGTAAAT
227075 GTATTGGTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
38 21 0.47
39 20 0.44
40 4 0.09
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.31
Consensus pattern (39 bp):
AATATGAAATGTAAATATGAATCTGAAAAATGAGTTATG
Found at i:227060 original size:39 final size:37
Alignment explanation
Indices: 226997--227069 Score: 110
Period size: 39 Copynumber: 1.9 Consensus size: 37
226987 GAATGTCAAA
226997 TATGAATCTAAAAATGAGTTATGAATATGGAAATGAGT
1 TATGAATCTAAAAATGAGTTATGAATAT-GAAATGAGT
* *
227035 TATGAATCTGGAAAATGAGTTATGAATCTGAAATG
1 TATGAATCT-AAAAATGAGTTATGAATATGAAATG
227070 TAAATGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 15 0.47
39 17 0.53
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (37 bp):
TATGAATCTAAAAATGAGTTATGAATATGAAATGAGT
Found at i:230395 original size:18 final size:17
Alignment explanation
Indices: 230369--230402 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
230359 TGCCCAAGGT
230369 AAAAATTAAGTTGAATTG
1 AAAAATTAAGTT-AATTG
*
230387 AAAATTTAAGTTAATT
1 AAAAATTAAGTTAATT
230403 AAATTGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAAATTAAGTTAATTG
Found at i:232050 original size:22 final size:22
Alignment explanation
Indices: 232023--232065 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
232013 ATCAAATTGG
232023 TATGTTCATAAATGAAATTAAT
1 TATGTTCATAAATGAAATTAAT
** *
232045 TATGTTGGTAAATTAAATTAA
1 TATGTTCATAAATGAAATTAA
232066 GGGGAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (22 bp):
TATGTTCATAAATGAAATTAAT
Found at i:239856 original size:46 final size:45
Alignment explanation
Indices: 239799--239966 Score: 169
Period size: 46 Copynumber: 3.9 Consensus size: 45
239789 GCGTAGAATT
*
239799 TGTCCCGTAGGACCACTATGTCCGGTAAGACCACGTAGAACACATA
1 TGTCCCGTAGGACCACTATGTCC-GTAGGACCACGTAGAACACATA
* *
239845 TGTCCCATAGGACCACTATGT-C------CCA--TAGGAC-CACTA
1 TGTCCCGTAGGACCACTATGTCCGTAGGACCACGTAGAACACA-TA
* *
239881 TGTCCCGTAGGATCACTATGTCCCGTTGGACCACGTAGAACACATA
1 TGTCCCGTAGGACCACTATGT-CCGTAGGACCACGTAGAACACATA
*
239927 TGTCCCGTA-GACCACTATGTCTCGTAGGACCATGTAGAAC
1 TGTCCCGTAGGACCACTATGTC-CGTAGGACCACGTAGAAC
239967 CCTTAACTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 27
0.74 0.06 0.20
Matches are distributed among these distances:
35 2 0.02
36 26 0.26
38 4 0.04
44 4 0.04
45 27 0.27
46 36 0.36
47 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
TGTCCCGTAGGACCACTATGTCCGTAGGACCACGTAGAACACATA
Found at i:239866 original size:18 final size:18
Alignment explanation
Indices: 239843--239914 Score: 108
Period size: 18 Copynumber: 4.0 Consensus size: 18
239833 GTAGAACACA
239843 TATGTCCCATAGGACCAC
1 TATGTCCCATAGGACCAC
239861 TATGTCCCATAGGACCAC
1 TATGTCCCATAGGACCAC
* *
239879 TATGTCCCGTAGGATCAC
1 TATGTCCCATAGGACCAC
* *
239897 TATGTCCCGTTGGACCAC
1 TATGTCCCATAGGACCAC
239915 GTAGAACACA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (18 bp):
TATGTCCCATAGGACCAC
Found at i:239937 original size:18 final size:17
Alignment explanation
Indices: 239914--239953 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
239904 CGTTGGACCA
239914 CGTAGAACACATATGTCC
1 CGTAGAACAC-TATGTCC
* *
239932 CGTAGACCACTATGTCT
1 CGTAGAACACTATGTCC
239949 CGTAG
1 CGTAG
239954 GACCATGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (17 bp):
CGTAGAACACTATGTCC
Found at i:239947 original size:17 final size:18
Alignment explanation
Indices: 239914--239958 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
239904 CGTTGGACCA
*
239914 CGTAGAACACATATGTCC
1 CGTAGACCACATATGTCC
*
239932 CGTAGACCAC-TATGTCT
1 CGTAGACCACATATGTCC
239949 CGTAGGACCA
1 CGTA-GACCA
239959 TGTAGAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (18 bp):
CGTAGACCACATATGTCC
Found at i:239957 original size:45 final size:46
Alignment explanation
Indices: 239879--239966 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
239869 ATAGGACCAC
* *
239879 TATGTCCCGTAGGATCACTATGTCCCGTTGGACCACGTAGAACACA
1 TATGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACA
* *
239925 TATGTCCCGTA-GACCACTATGTCTCGTAGGACCATGTAGAAC
1 TATGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAAC
239967 CCTTAACTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 27 0.71
46 11 0.29
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (46 bp):
TATGTCCCGTAGGACCACTATGTCCCGTAGGACCACGTAGAACACA
Found at i:240408 original size:25 final size:25
Alignment explanation
Indices: 240380--240429 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
240370 TTTAGCATTA
240380 TATCACTACATGTTTATACTTCAGT
1 TATCACTACATGTTTATACTTCAGT
* *
240405 TATCCCTACATGTTTATGCTTCAGT
1 TATCACTACATGTTTATACTTCAGT
240430 ACCCCTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (25 bp):
TATCACTACATGTTTATACTTCAGT
Found at i:247757 original size:19 final size:19
Alignment explanation
Indices: 247725--247764 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
247715 ACTATTGAAT
* *
247725 TTTAAGATTTTATATTCGA
1 TTTAAAATTATATATTCGA
*
247744 TTTAAAATTATATATTTGA
1 TTTAAAATTATATATTCGA
247763 TT
1 TT
247765 AAATTCTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTAAAATTATATATTCGA
Found at i:252122 original size:41 final size:40
Alignment explanation
Indices: 252073--252155 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 40
252063 AGTATTTATT
252073 AGTTTCAGTTCAGC-TTTGGTACATTCGTGTA-TCAATGTTC
1 AGTTTCAGTTCA-CTTTTGGTACATTCGTGTACT-AATGTTC
* *
252113 AGTTATCAGTTCACTTTTTGTACTTTCGTGTACTAATGTTC
1 AGTT-TCAGTTCACTTTTGGTACATTCGTGTACTAATGTTC
252154 AG
1 AG
252156 CACCGTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
40 5 0.13
41 32 0.84
42 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (40 bp):
AGTTTCAGTTCACTTTTGGTACATTCGTGTACTAATGTTC
Found at i:255736 original size:53 final size:53
Alignment explanation
Indices: 255678--255835 Score: 230
Period size: 53 Copynumber: 3.0 Consensus size: 53
255668 GTACTTTCAG
*
255678 CACTATGTGTGCAATCATGGCATTCATAATGAGTTTGTGAATTACCATTTCGA
1 CACTATGTGTGCAATCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGA
* * *
255731 CACTATGTGTGC-ATCTATGTTATTCATAATGAGTTTGTGAATTACCATTTGGG
1 CACTATGTGTGCAATC-ATGGTATTCATAATGAGTTTGTGAATTACCATTTCGA
**
255784 CACTATGTGTGCACCCATGGTATTCATAATGAGATTT-TGAATTACCATTTCG
1 CACTATGTGTGCAATCATGGTATTCATAATGAG-TTTGTGAATTACCATTTCG
255836 TTAGCTTAGT
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
52 3 0.03
53 87 0.93
54 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (53 bp):
CACTATGTGTGCAATCATGGTATTCATAATGAGTTTGTGAATTACCATTTCGA
Found at i:262932 original size:17 final size:17
Alignment explanation
Indices: 262910--262951 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
262900 GATGAAGGTC
262910 CAAGCTTTTTAATTTTG
1 CAAGCTTTTTAATTTTG
262927 CAAGCTTTTTAATTTTG
1 CAAGCTTTTTAATTTTG
262944 CAAGCTTT
1 CAAGCTTT
262952 AAACATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (17 bp):
CAAGCTTTTTAATTTTG
Found at i:286488 original size:55 final size:55
Alignment explanation
Indices: 286393--286548 Score: 197
Period size: 55 Copynumber: 2.8 Consensus size: 55
286383 ATTACCAAAT
* *
286393 GGCACTAAGTGTGCAAAAACCTAACAAATTCATACTAAGTGTATGAATTTCCGTATA
1 GGCACTATGTGTGC-AAAA-CTAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
* * *
286450 GGCACTTTGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
* * * * *
286505 GGTACTATATGTGC-GAACTAAGAAATTCATACAAAGTGTGTGAA
1 GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAA
286549 GTTCTATATG
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 27 0.31
55 45 0.51
56 4 0.05
57 12 0.14
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATA
Found at i:286559 original size:54 final size:54
Alignment explanation
Indices: 286466--286571 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
286456 TTGTGTGCAA
* * * * *
286466 AACTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGTACTATATGTGCG
1 AACTAAGAAATTCATACAAAGTGTATGAAGTTCTATATGGGAAATATATGTGCG
*
286520 AACTAAGAAATTCATACAAAGTGTGTGAAGTTCTATATGGGAAATATATGTG
1 AACTAAGAAATTCATACAAAGTGTATGAAGTTCTATATGGGAAATATATGTG
286572 AAATTATCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (54 bp):
AACTAAGAAATTCATACAAAGTGTATGAAGTTCTATATGGGAAATATATGTGCG
Found at i:286914 original size:68 final size:68
Alignment explanation
Indices: 286766--287224 Score: 588
Period size: 68 Copynumber: 6.8 Consensus size: 68
286756 ATATAAAAGA
* * * ** *
286766 TTTGAGGTCTAACTGTGCATTTGCCAAAAAAATGTCAATTAT-TATAGTTA-ATGAAAGGCTAAG
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGT-CAGTTAGATGAAAGGCTAAG
286829 TGCC
65 TGCC
* * *
286833 TTTGAGGGCTAACTGTGCATTTGACATAAGGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGT
286898 GCC
66 GCC
* *
286901 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGT
*
286966 GTC
66 GCC
* * * * *
286969 ATTGAGGGCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTATGT
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGT
287034 G-C
66 GCC
* * * * *
287036 TTTGAGGCCTAAATGTGCATTTGAAAAAAATGTGTCAATTATGGT-AGTTAGATGAAAGGATAAG
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTAT-GTCAGTTAGATGAAAGGCTAAG
*
287100 TTCC
65 TGCC
* *
287104 TTTGAGGCCTAACTGTGCATTTGATAGAAAGATGTCAATTATG-CTAGTTAGATGAAAGGCTAAG
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTC-AGTTAGATGAAAGGCTAAG
287168 TGCC
65 TGCC
* * *
287172 TTTGAGGCCTAACTGTGAATTTGACAGAAATGTGACAATTATGGT-AGTTAGAT
1 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTAT-GTCAGTTAGAT
287225 TAACGTTAAA
Statistics
Matches: 345, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
67 98 0.28
68 246 0.71
69 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:287109 original size:135 final size:135
Alignment explanation
Indices: 286766--287224 Score: 613
Period size: 135 Copynumber: 3.4 Consensus size: 135
286756 ATATAAAAGA
* **
286766 TTTGAGGTCTAACTGTGCATTTGCCAAAAAAA--TGTCAATTATTATAGTTA-ATGAAAGGCTAA
1 TTTGAGGCCTAACTGTGCATTTG--AAAAAAATGTGTCAATTATGGTAGTTAGATGAAAGGCTAA
* * * *
286828 GTGCCTTTGAGGGCTAACTGTGCATTTGACATAAGGGTGTCAATTATGTCAGTTAGATGAAAGGC
64 GTTCCTTTGAGGGCTAACTGTGCATTTGACAGAA-AGTGTCAATTATGCCAGTTAGATGAAAGGC
286893 TAAGTGCC
128 TAAGTGCC
* * * * **
286901 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATTTGAAAAAAATGTGTCAATTATGGTAGTTAGATGAAAGGCTAAGT
*
286966 GT-CATTGAGGGCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCT
66 -TCCTTTGAGGGCTAACTGTGCATTTGACAGAAA-GTGTCAATTATGCCAGTTAGATGAAAGGCT
*
287030 ATGTG-C
129 AAGTGCC
* *
287036 TTTGAGGCCTAAATGTGCATTTGAAAAAAATGTGTCAATTATGGTAGTTAGATGAAAGGATAAGT
1 TTTGAGGCCTAACTGTGCATTTGAAAAAAATGTGTCAATTATGGTAGTTAGATGAAAGGCTAAGT
* * *
287101 TCCTTTGAGGCCTAACTGTGCATTTGATAGAAAGATGTCAATTATGCTAGTTAGATGAAAGGCTA
66 TCCTTTGAGGGCTAACTGTGCATTTGACAGAAAG-TGTCAATTATGCCAGTTAGATGAAAGGCTA
287166 AGTGCC
130 AGTGCC
* * * *
287172 TTTGAGGCCTAACTGTGAATTTGACAGAAATGTGACAATTATGGTAGTTAGAT
1 TTTGAGGCCTAACTGTGCATTTGAAAAAAATGTGTCAATTATGGTAGTTAGAT
287225 TAACGTTAAA
Statistics
Matches: 285, Mismatches: 31, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
133 5 0.02
134 2 0.01
135 154 0.54
136 124 0.44
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (135 bp):
TTTGAGGCCTAACTGTGCATTTGAAAAAAATGTGTCAATTATGGTAGTTAGATGAAAGGCTAAGT
TCCTTTGAGGGCTAACTGTGCATTTGACAGAAAGTGTCAATTATGCCAGTTAGATGAAAGGCTAA
GTGCC
Found at i:287123 original size:203 final size:204
Alignment explanation
Indices: 286767--287224 Score: 643
Period size: 203 Copynumber: 2.3 Consensus size: 204
286757 TATAAAAGAT
* * * ** *
286767 TTGAGGTCTAACTGTGCATTTGCCAAAAAAATGTCAATTATTATAGTTA-ATGAAAGGCTAAGTG
1 TTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTG
* * * * * *
286831 CCTTTGAGGGCTAACTGTGCATTTGACATAAGGGTGTCAATTATGTCAGTTAGATGAAAGGCTAA
66 CCTTTGAGGCCTAAATGTGCATTTGAAAAAAAGGTGTCAATTATGTCAGTTAGATGAAAGGATAA
* *
286896 GTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTTAATTATGCCAGTTAGATGAAAGGC
131 GTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGC
*
286961 TAAGTGTCA
196 TAAGTGCCA
* ** *
286970 TTGAGGGCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTATGTG
1 TTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTG
*
287035 -CTTTGAGGCCTAAATGTGCATTTGAAAAAAATGTGTCAATTATGGT-AGTTAGATGAAAGGATA
66 CCTTTGAGGCCTAAATGTGCATTTGAAAAAAAGGTGTCAATTAT-GTCAGTTAGATGAAAGGATA
* * *
287098 AGTTCCTTTGAGGCCTAACTGTGCATTTGATAGAAAGATGTCAATTATGCTAGTTAGATGAAAGG
130 AGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGG
*
287163 CTAAGTGCCT
195 CTAAGTGCCA
* * *
287173 TTGAGGCCTAACTGTGAATTTGACAGAAATGTGACAATTATGGTAGTTAGAT
1 TTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGATAGTTAGAT
287225 TAACGTTAAA
Statistics
Matches: 225, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
203 209 0.93
204 16 0.07
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (204 bp):
TTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGATAGTTAGATGAAAGGCTAAGTG
CCTTTGAGGCCTAAATGTGCATTTGAAAAAAAGGTGTCAATTATGTCAGTTAGATGAAAGGATAA
GTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGC
TAAGTGCCA
Found at i:287478 original size:162 final size:160
Alignment explanation
Indices: 287177--287491 Score: 391
Period size: 162 Copynumber: 2.0 Consensus size: 160
287167 GTGCCTTTGA
* ** * *
287177 GGCCTAACTGTGAATTTGACAGAAATGTGACAATTATGGTAGTTAGATTAACGTTAAATATCGTT
1 GGCCTAACTGTGAATTTGACAGAAAGGTGACAATTATGCCAGTTAGATGAACGTTAAACATCGTT
* * * * * *
287242 GAGTAAAGATGAATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTGTGCCAGTTAGATGAA
66 GAGTAAAGATGAATGGACTAGCTGTGCATTTGATAGAAAAGTGTCAATTATGCAAGTTAGATGAA
* *
287307 CGACTAAATACCGTTGAGTAAAATATGAAT
131 AGACTAAATACCCTTGAGTAAAATATGAAT
* * ** * *
287337 GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAACATTGT
1 GGCCTAACTGTGAATTTGACAGAAAGGTGACAATTATGCCAGTTAGATGAAC-GTTAAACATCGT
287402 TGAGTAAAAGAAT-AATGGACTAGCTGTGCATTTGATAGAAAAGTGTCAGA-TATGCAAGTTAGA
65 TGAGT-AAAG-ATGAATGGACTAGCTGTGCATTTGATAGAAAAGTGTCA-ATTATGCAAGTTAGA
* *
287465 TGAAAGTCTAAATACCCTTGGGTAAAA
127 TGAAAGACTAAATACCCTTGAGTAAAA
287492 GAACAAAGGA
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
160 43 0.33
161 15 0.12
162 69 0.53
163 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (160 bp):
GGCCTAACTGTGAATTTGACAGAAAGGTGACAATTATGCCAGTTAGATGAACGTTAAACATCGTT
GAGTAAAGATGAATGGACTAGCTGTGCATTTGATAGAAAAGTGTCAATTATGCAAGTTAGATGAA
AGACTAAATACCCTTGAGTAAAATATGAAT
Found at i:287492 original size:81 final size:82
Alignment explanation
Indices: 287177--287494 Score: 344
Period size: 81 Copynumber: 3.9 Consensus size: 82
287167 GTGCCTTTGA
* * ** * * ** * * *
287177 GGCCTAACTGTGAATTTGACAGAAATGTGACAATTATGGTAGTTAGATTAACGT-TAAATATCGT
1 GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGTCTAAATACCGT
287241 TGAGT-AAAG-ATGAAT
66 TGAGTAAAAGAATGAAT
* * * *
287256 GGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTGTGCCAGTTAGATGAACGACTAAATACCGT
1 GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGTCTAAATACCGT
*
287321 TGAGTAAAA-TATGAAT
66 TGAGTAAAAGAATGAAT
* **
287337 GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGT-TAAACATTG
1 GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA-AGTCTAAATACCG
287401 TTGAGTAAAAGAAT-AAT
65 TTGAGTAAAAGAATGAAT
* * * * *
287418 GGACTAGCTGTGCATTTGATAGAAAAGTGTCAGA-TATGCAAGTTAGATGAAAGTCTAAATACCC
1 GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCA-ATTATGCCAGTTAGATGAAAGTCTAAATACCG
*
287482 TTGGGTAAAAGAA
65 TTGAGTAAAAGAA
287495 CAAAGGAATT
Statistics
Matches: 202, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
79 42 0.21
80 17 0.08
81 139 0.69
82 4 0.02
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (82 bp):
GGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGTCTAAATACCGT
TGAGTAAAAGAATGAAT
Found at i:293261 original size:22 final size:21
Alignment explanation
Indices: 293227--293269 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
293217 TTAACACATG
293227 TTTAAAACTAATTTAAT-AGAA
1 TTTAAAACTAA-TTAATGAGAA
*
293248 TTTAAAATTCAATTAATGAGAA
1 TTTAAAACT-AATTAATGAGAA
293270 ATCCCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
TTTAAAACTAATTAATGAGAA
Found at i:299938 original size:29 final size:31
Alignment explanation
Indices: 299883--299948 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 31
299873 CTTTTGGTCC
299883 CTAAACTTTTATAAAGTTTATACTTTAGCCA
1 CTAAACTTTTATAAAGTTTATACTTTAGCCA
* *
299914 CTAAACTTTTA-AAA-TTTATATTTTAGTCA
1 CTAAACTTTTATAAAGTTTATACTTTAGCCA
299943 CTAAAC
1 CTAAAC
299949 ATAATTTAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 19 0.58
30 3 0.09
31 11 0.33
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (31 bp):
CTAAACTTTTATAAAGTTTATACTTTAGCCA
Found at i:310737 original size:30 final size:30
Alignment explanation
Indices: 310703--310770 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
310693 CCAAAATACT
* *
310703 TTTTGGTCCCTGAACTTTT-CAAAGTTTATA
1 TTTTGGTCCATGAAATTTTACAAA-TTTATA
310733 TTTTGGT-CATGAAATTTTACCAAATTTATA
1 TTTTGGTCCATGAAATTTTA-CAAATTTATA
*
310763 ATTTGGTC
1 TTTTGGTC
310771 ACTAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 9 0.28
30 19 0.59
31 4 0.12
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (30 bp):
TTTTGGTCCATGAAATTTTACAAATTTATA
Found at i:312299 original size:17 final size:17
Alignment explanation
Indices: 312277--312328 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
312267 CAAGCTAATT
312277 TTATTGTCCAAACAATC
1 TTATTGTCCAAACAATC
312294 TTATTG-CTCAAACTAATC
1 TTATTGTC-CAAAC-AATC
312312 TTATT-TCCCAAACAATC
1 TTATTGT-CCAAACAATC
312329 AATATGGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.03
17 15 0.48
18 14 0.45
19 1 0.03
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (17 bp):
TTATTGTCCAAACAATC
Found at i:312313 original size:18 final size:18
Alignment explanation
Indices: 312265--312316 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
312255 GTTCTTCTAC
* *
312265 CTCAAGCTAATTTTATTG
1 CTCAAACTAATCTTATTG
312283 -TCCAAAC-AATCTTATTG
1 CT-CAAACTAATCTTATTG
312300 CTCAAACTAATCTTATT
1 CTCAAACTAATCTTATT
312317 TCCCAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (18 bp):
CTCAAACTAATCTTATTG
Found at i:312323 original size:18 final size:17
Alignment explanation
Indices: 312284--312328 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
312274 ATTTTATTGT
*
312284 CCAAACAATCTTATTGC
1 CCAAACAATCTTATTTC
*
312301 TCAAACTAATCTTATTTC
1 CCAAAC-AATCTTATTTC
312319 CCAAACAATC
1 CCAAACAATC
312329 AATATGGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.31
Consensus pattern (17 bp):
CCAAACAATCTTATTTC
Found at i:315716 original size:9 final size:9
Alignment explanation
Indices: 315702--315727 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
315692 GAATTGAATT
315702 TTTTCAAAG
1 TTTTCAAAG
315711 TTTTCAAAG
1 TTTTCAAAG
315720 TTTTCAAA
1 TTTTCAAA
315728 AATAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (9 bp):
TTTTCAAAG
Found at i:327774 original size:20 final size:20
Alignment explanation
Indices: 327741--327782 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
327731 CTCTCTCTTC
*
327741 TTTTCTTTTCAAGTTTTCATT
1 TTTTATTTTCAAGTTTT-ATT
327762 TTTTATTTT-AAGTTTTATT
1 TTTTATTTTCAAGTTTTATT
327781 TT
1 TT
327783 CAAATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
21 8 0.40
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTATTTTCAAGTTTTATT
Found at i:328488 original size:19 final size:19
Alignment explanation
Indices: 328447--328488 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
328437 ATATCTCAGT
**
328447 ATTTATTTTTTATATTTTT
1 ATTTATTTTTTATATTTAA
328466 ATTTATTTTTTA-ATCTTAA
1 ATTTATTTTTTATAT-TTAA
328485 ATTT
1 ATTT
328489 CATCCTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTATTTTTTATATTTAA
Found at i:329875 original size:21 final size:21
Alignment explanation
Indices: 329849--329888 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
329839 GTTTTTCATT
329849 ACAAAAAGG-AAATTATGGGGC
1 ACAAAAAGGTAAATT-TGGGGC
329870 ACAAAAAGGTAAATTTGGG
1 ACAAAAAGGTAAATTTGGG
329889 AGAACATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.47, C:0.07, G:0.28, T:0.17
Consensus pattern (21 bp):
ACAAAAAGGTAAATTTGGGGC
Found at i:333480 original size:49 final size:49
Alignment explanation
Indices: 333397--333729 Score: 368
Period size: 49 Copynumber: 6.8 Consensus size: 49
333387 ATACTATGAG
** * * *
333397 TGGCACCTTTTATGTTGATAATGCACCATTATGCATTTAACTGTCATTAA
1 TGGCACCTTTTATG-CCAGAATGCACCGTTATGCATTTAACTTTCATTAA
* * *
333447 TGGCACCTTTTATGCCAGAATGCACTGTTATGCATTTATCTTTCATTAG
1 TGGCACCTTTTATGCCAGAATGCACCGTTATGCATTTAACTTTCATTAA
* * * * * * *
333496 TGACATCATTTATGCCAAAATGCACCGTTATGCATTTGATTTTCATTAG
1 TGGCACCTTTTATGCCAGAATGCACCGTTATGCATTTAACTTTCATTAA
* * * * *
333545 TGGAACCTTTTATGTCTA-AATGCACTGTTATGCATTTAACTTTTATTAG
1 TGGCACCTTTTATG-CCAGAATGCACCGTTATGCATTTAACTTTCATTAA
* *
333594 TGGCACCTTTTATGTC-GAAATGCACCGTTATGCATTCAACTTTCATTAA
1 TGGCACCTTTTATGCCAG-AATGCACCGTTATGCATTTAACTTTCATTAA
* *
333643 TGGAACCTTTTATGCC-GAAATGCACCGTTATGCATTCAACTTTCATTAA
1 TGGCACCTTTTATGCCAG-AATGCACCGTTATGCATTTAACTTTCATTAA
*
333692 TGGCACCTTTTATGCC-GAAATGCACCATTATGCATTTA
1 TGGCACCTTTTATGCCAG-AATGCACCGTTATGCATTTA
333730 TTTTGGCAAC
Statistics
Matches: 243, Mismatches: 37, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
49 227 0.93
50 16 0.07
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (49 bp):
TGGCACCTTTTATGCCAGAATGCACCGTTATGCATTTAACTTTCATTAA
Found at i:333593 original size:98 final size:97
Alignment explanation
Indices: 333395--333729 Score: 445
Period size: 98 Copynumber: 3.4 Consensus size: 97
333385 GAATACTATG
** * *
333395 AGTGGCACCTTTTATGTTGATAATGCACCATTATGCATTTAACTGTCATTAATGGCACCTTTTAT
1 AGTGGCACCTTTTATGCCGA-AATGCACCATTATGCATTTAACTTTCATTAATGGAACCTTTTAT
*
333460 GCCAGAATGCACTGTTATGCATTTATCTTTCATT
65 GCCA-AATGCACTGTTATGCATTTAACTTTCATT
* * * * * * * *
333494 AGTGACATCATTTATGCCAAAATGCACCGTTATGCATTTGATTTTCATTAGTGGAACCTTTTATG
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATTAATGGAACCTTTTATG
* *
333559 TCTAAATGCACTGTTATGCATTTAACTTTTATT
66 -CCAAATGCACTGTTATGCATTTAACTTTCATT
* * *
333592 AGTGGCACCTTTTATGTCGAAATGCACCGTTATGCATTCAACTTTCATTAATGGAACCTTTTATG
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATTAATGGAACCTTTTATG
* *
333657 CCGAAATGCACCGTTATGCATTCAACTTTCATT
66 CC-AAATGCACTGTTATGCATTTAACTTTCATT
*
333690 AATGGCACCTTTTATGCCGAAATGCACCATTATGCATTTA
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTA
333730 TTTTGGCAAC
Statistics
Matches: 202, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
97 1 0.00
98 185 0.92
99 16 0.08
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (97 bp):
AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATTAATGGAACCTTTTATG
CCAAATGCACTGTTATGCATTTAACTTTCATT
Found at i:333598 original size:147 final size:147
Alignment explanation
Indices: 333395--333729 Score: 433
Period size: 147 Copynumber: 2.3 Consensus size: 147
333385 GAATACTATG
333395 AGTGGCACCTTTTATGT-TGATAATGCACCATTATGCATTTAACTGTCATTAATGGCACCTTTTA
1 AGTGGCACCTTTTATGTCT-A-AATGCACCATTATGCATTTAACTGTCATTAATGGCACCTTTTA
* * * * *
333459 TGCC-AGAATGCACTGTTATGCATTTATCTTTCATTAGT-GACATCATTTATGCCAAAATGCACC
64 TGCCGA-AATGCACCGTTATGCATTCAACTTTCATTAATGGA-ACCATTTATGCCAAAATGCACC
** *
333522 GTTATGCATTTGATTTTCATT
127 GTTATGCATTCAACTTTCATT
* ** * * *
333543 AGTGGAACCTTTTATGTCTAAATGCACTGTTATGCATTTAACTTTTATTAGTGGCACCTTTTATG
1 AGTGGCACCTTTTATGTCTAAATGCACCATTATGCATTTAACTGTCATTAATGGCACCTTTTATG
* * *
333608 TCGAAATGCACCGTTATGCATTCAACTTTCATTAATGGAACCTTTTATGCCGAAATGCACCGTTA
66 CCGAAATGCACCGTTATGCATTCAACTTTCATTAATGGAACCATTTATGCCAAAATGCACCGTTA
333673 TGCATTCAACTTTCATT
131 TGCATTCAACTTTCATT
* * *
333690 AATGGCACCTTTTATGCCGAAATGCACCATTATGCATTTA
1 AGTGGCACCTTTTATGTCTAAATGCACCATTATGCATTTA
333730 TTTTGGCAAC
Statistics
Matches: 161, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
147 140 0.87
148 20 0.12
149 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (147 bp):
AGTGGCACCTTTTATGTCTAAATGCACCATTATGCATTTAACTGTCATTAATGGCACCTTTTATG
CCGAAATGCACCGTTATGCATTCAACTTTCATTAATGGAACCATTTATGCCAAAATGCACCGTTA
TGCATTCAACTTTCATT
Found at i:336835 original size:26 final size:26
Alignment explanation
Indices: 336806--336860 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
336796 CTAGGATCTC
336806 CTCTTGAGCTCTTTCAATAGCCTTGG
1 CTCTTGAGCTCTTTCAATAGCCTTGG
336832 CTCTTGAGCTCTTTCAATAGCCTTGG
1 CTCTTGAGCTCTTTCAATAGCCTTGG
336858 CTC
1 CTC
336861 GATTTATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (26 bp):
CTCTTGAGCTCTTTCAATAGCCTTGG
Found at i:338451 original size:49 final size:49
Alignment explanation
Indices: 338366--338650 Score: 383
Period size: 49 Copynumber: 5.8 Consensus size: 49
338356 GAATACCATG
* * * *
338366 AGTGGCACCTTTTATGTCAATAATGCACCGTTATGCATTTAACTATCATT
1 AGTGGCACCTTTTATGCCGA-AATGCACCATTATGCATTTAACTTTCATT
* * *
338416 AATGGCACCTTTTATGCCGAAATGCACTATTATGCATTTAAGTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATT
* *
338465 AGTGGCACCTTTTATG-TGAAATGCACCATTATGCATTTAATTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATT
* ** **
338513 AGTGGTACCTTTTATGCCGAAATGCACTGTTATATATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATT
* * *
338562 AGTGGCACCTTTTATGCCAAAATGTACCATTATGCATTCAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATT
**
338611 AGTGGCACCTTTTATGCCGAAATATACCATTATGCATTTA
1 AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTA
338651 TTTTGGCAAC
Statistics
Matches: 205, Mismatches: 29, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
48 44 0.21
49 144 0.70
50 17 0.08
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (49 bp):
AGTGGCACCTTTTATGCCGAAATGCACCATTATGCATTTAACTTTCATT
Found at i:338534 original size:97 final size:97
Alignment explanation
Indices: 338366--338650 Score: 399
Period size: 97 Copynumber: 2.9 Consensus size: 97
338356 GAATACCATG
* * *
338366 AGTGGCACCTTTTATGTCAATAATGCACCGTTATGCATTTAACTATCATTAATGGCACCTTTTAT
1 AGTGGCACCTTTTATGT-AA-AATGCACCATTATGCATTTAACTTTCATTAGTGGCACCTTTTAT
*
338431 GCCGAAATGCACTATTATGCATTTAAGTTTCATT
64 GCCGAAATGCACTATTATGCATTTAACTTTCATT
* * *
338465 AGTGGCACCTTTTATGTGAAATGCACCATTATGCATTTAATTTTCATTAGTGGTACCTTTTATGC
1 AGTGGCACCTTTTATGTAAAATGCACCATTATGCATTTAACTTTCATTAGTGGCACCTTTTATGC
* **
338530 CGAAATGCACTGTTATATATTTAACTTTCATT
66 CGAAATGCACTATTATGCATTTAACTTTCATT
* * *
338562 AGTGGCACCTTTTATGCCAAAATGTACCATTATGCATTCAACTTTCATTAGTGGCACCTTTTATG
1 AGTGGCACCTTTTATG-TAAAATGCACCATTATGCATTTAACTTTCATTAGTGGCACCTTTTATG
** *
338627 CCGAAATATACCATTATGCATTTA
65 CCGAAATGCACTATTATGCATTTA
338651 TTTTGGCAAC
Statistics
Matches: 163, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
97 85 0.52
98 61 0.37
99 17 0.10
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (97 bp):
AGTGGCACCTTTTATGTAAAATGCACCATTATGCATTTAACTTTCATTAGTGGCACCTTTTATGC
CGAAATGCACTATTATGCATTTAACTTTCATT
Done.