Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_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: 5469637
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 25
Found at i:3167817 original size:27 final size:28
Alignment explanation
Indices: 3167757--3167825 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
3167747 TAATTACAAG
* *
3167757 TTTTATTACTT-TTTATATTTAGTTTTAA
1 TTTTATTA-TTGTTTAAATATAGTTTTAA
3167785 TTTTATTATTGTTTAAATATA-TTTTAA
1 TTTTATTATTGTTTAAATATAGTTTTAA
3167812 TTTTA-TA-TGTTTAA
1 TTTTATTATTGTTTAA
3167826 TATTTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
25 7 0.18
26 2 0.05
27 13 0.34
28 16 0.42
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTATTATTGTTTAAATATAGTTTTAA
Found at i:3167831 original size:22 final size:26
Alignment explanation
Indices: 3167757--3167844 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 26
3167747 TAATTACAAG
*
3167757 TTTTATTACTT-TTTATATTTAGTTTTAA
1 TTTTATTA-TTGTTTA-ATATA-TTTTAA
3167785 TTTTATTATTGTTTAAATATATTTTAA
1 TTTTATTATTGTTT-AATATATTTTAA
3167812 TTTTA-TA-TGTTT-A-ATATTTTAA
1 TTTTATTATTGTTTAATATATTTTAA
*
3167834 TTAGTATTATT
1 TT-TTATTATT
3167845 ATTTTATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
22 11 0.21
23 3 0.06
24 2 0.04
25 6 0.11
26 2 0.04
27 13 0.25
28 15 0.28
29 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.65
Consensus pattern (26 bp):
TTTTATTATTGTTTAATATATTTTAA
Found at i:3167859 original size:23 final size:24
Alignment explanation
Indices: 3167826--3167872 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
3167816 ATATGTTTAA
*
3167826 TATTTTAATTAGTAT-TATTATTT
1 TATTTTAATTAATATATATTATTT
*
3167849 TATTTTTATTAATATATATTATTT
1 TATTTTAATTAATATATATTATTT
3167873 GATTAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTTAATTAATATATATTATTT
Found at i:3168015 original size:16 final size:16
Alignment explanation
Indices: 3167996--3168047 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
3167986 TTAAGTTTAC
3167996 TTAAATTATTTTACTT
1 TTAAATTATTTTACTT
3168012 TTAAA-T-TTTTACATT
1 TTAAATTATTTTAC-TT
* *
3168027 TTTAATTA-TTTATTT
1 TTAAATTATTTTACTT
3168042 TTAAAT
1 TTAAAT
3168048 ATTAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 6 0.20
15 14 0.47
16 10 0.33
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TTAAATTATTTTACTT
Found at i:3169296 original size:11 final size:12
Alignment explanation
Indices: 3169275--3169299 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3169265 CCCGGATAAA
3169275 AACCGGTTTTTT
1 AACCGGTTTTTT
3169287 AACCGGTTTTTT
1 AACCGGTTTTTT
3169299 A
1 A
3169300 TCTGGTAAAA
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:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:3176107 original size:24 final size:24
Alignment explanation
Indices: 3176080--3176129 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
3176070 TGGCAGCACT
3176080 CCTCCCCTTAATT-AAATTCCCTAA
1 CCTCCCCTTAATTGAAA-TCCCTAA
*
3176104 CCTCCCTTTAATTGAAATCCCTAA
1 CCTCCCCTTAATTGAAATCCCTAA
3176128 CC
1 CC
3176130 CTATTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.28, C:0.38, G:0.02, T:0.32
Consensus pattern (24 bp):
CCTCCCCTTAATTGAAATCCCTAA
Found at i:3179638 original size:24 final size:24
Alignment explanation
Indices: 3179611--3179660 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3179601 TGGTAGCACC
*
3179611 CCTCCCCTTAATT-AAATTTCCTAA
1 CCTCCCCTTAATTGAAA-TCCCTAA
*
3179635 CCTCCCTTTAATTGAAATCCCTAA
1 CCTCCCCTTAATTGAAATCCCTAA
3179659 CC
1 CC
3179661 CTATTTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.28, C:0.36, G:0.02, T:0.34
Consensus pattern (24 bp):
CCTCCCCTTAATTGAAATCCCTAA
Found at i:3208270 original size:21 final size:21
Alignment explanation
Indices: 3208236--3208292 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
3208226 CACGACGCAT
*
3208236 TTATTA-AGAGTCAAGAAGAA
1 TTATTACAAAGTCAAGAAGAA
3208256 TTATTACAAAGTCAAGAAGAA
1 TTATTACAAAGTCAAGAAGAA
3208277 TTATTACAAAGTCAAG
1 TTATTACAAAGTCAAG
3208293 GGGCAAGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (21 bp):
TTATTACAAAGTCAAGAAGAA
Found at i:3222080 original size:55 final size:55
Alignment explanation
Indices: 3221981--3222085 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
3221971 AAATAATAGT
** *
3221981 TCAAATATCATATTGCATATTTTGTTAAAGTACATGTACCACATTAGATAGTTTG
1 TCAAATATCATATTGCATATTTTGTTAAAAAACAAGTACCACATTAGATAGTTTG
**
3222036 TCAAAGTATCATATTAG-A-ATTTTGTTAAAAAACAAGTATTACATTAGATA
1 TCAAA-TATCATATT-GCATATTTTGTTAAAAAACAAGTACCACATTAGATA
3222086 TTTTAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
55 32 0.74
56 10 0.23
57 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (55 bp):
TCAAATATCATATTGCATATTTTGTTAAAAAACAAGTACCACATTAGATAGTTTG
Found at i:3226838 original size:41 final size:41
Alignment explanation
Indices: 3226781--3226862 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
3226771 ATAGTTATTT
3226781 TGTCCCTCAAGTTGTAGAAGCACCTTCATGACGTTGATCGA
1 TGTCCCTCAAGTTGTAGAAGCACCTTCATGACGTTGATCGA
3226822 TGTCCCTCAAGTTGTAGAAGCACCTTCATGACGTTGATCGA
1 TGTCCCTCAAGTTGTAGAAGCACCTTCATGACGTTGATCGA
3226863 GAACTAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (41 bp):
TGTCCCTCAAGTTGTAGAAGCACCTTCATGACGTTGATCGA
Found at i:3230736 original size:31 final size:31
Alignment explanation
Indices: 3230644--3230737 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
3230634 AAACCTCGAC
* * *
3230644 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCTCGAAGAACATAGGTA
** *
3230675 AACTGTCCATATGT-TCTTTAGAACACAGGTA
1 AACTGTCCATATGTCTC-GAAGAACATAGGTA
3230706 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTCTCGAAGA-ACATAGGTA
3230737 A
1 A
3230738 CCATCGACTC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
30 2 0.04
31 47 0.92
32 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (31 bp):
AACTGTCCATATGTCTCGAAGAACATAGGTA
Found at i:3234161 original size:20 final size:20
Alignment explanation
Indices: 3234136--3234195 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 20
3234126 TATTTAGTAT
3234136 GGTATCGATACCCCCTATAG
1 GGTATCGATACCCCCTATAG
3234156 GGTATCGATACCGATACCCCCTATAG
1 GG--T--AT--CGATACCCCCTATAG
3234182 GGTATCGATACCCC
1 GGTATCGATACCCC
3234196 TATGAACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
20 11 0.32
22 3 0.09
24 3 0.09
26 17 0.50
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (20 bp):
GGTATCGATACCCCCTATAG
Found at i:3234170 original size:26 final size:26
Alignment explanation
Indices: 3234141--3234193 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3234131 AGTATGGTAT
3234141 CGATACCCCCTATAGGGTATCGATAC
1 CGATACCCCCTATAGGGTATCGATAC
3234167 CGATACCCCCTATAGGGTATCGATAC
1 CGATACCCCCTATAGGGTATCGATAC
3234193 C
1 C
3234194 CCTATGAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (26 bp):
CGATACCCCCTATAGGGTATCGATAC
Found at i:3239196 original size:48 final size:49
Alignment explanation
Indices: 3239118--3239212 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 49
3239108 GAAAGAGGTA
3239118 AATATGTGGATGTTAAATTATATAGGTCAATGATTGGCTCTTTGCTTGT
1 AATATGTGGATGTTAAATTATATAGGTCAATGATTGGCTCTTTGCTTGT
3239167 AATATGTGGATGTT-AATTATATAGGTCAATGATTGGCTCTTTGCTT
1 AATATGTGGATGTTAAATTATATAGGTCAATGATTGGCTCTTTGCTT
3239213 TATCTAACCG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 32 0.70
49 14 0.30
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.43
Consensus pattern (49 bp):
AATATGTGGATGTTAAATTATATAGGTCAATGATTGGCTCTTTGCTTGT
Found at i:3244398 original size:36 final size:37
Alignment explanation
Indices: 3244357--3244462 Score: 151
Period size: 36 Copynumber: 2.8 Consensus size: 37
3244347 TATGAGATAT
* *
3244357 TTACTTCTTTTAATGATGATCATTTCTTTAAA-AAAA
1 TTACTTCTTTTAATGGTTATCATTTCTTTAAATAAAA
*
3244393 TTACTTCTTTTAATGGTTATCATTTCTTTATAATATAA
1 TTACTTCTTTTAATGGTTATCATTTCTTTA-AATAAAA
*
3244431 TTACTTTCTTGTAATGGTTATCATTTCTTTAA
1 TTAC-TTCTTTTAATGGTTATCATTTCTTTAA
3244463 TATTATTAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
36 28 0.44
37 2 0.03
38 8 0.13
39 25 0.40
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (37 bp):
TTACTTCTTTTAATGGTTATCATTTCTTTAAATAAAA
Found at i:3244697 original size:47 final size:47
Alignment explanation
Indices: 3244641--3244737 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
3244631 TAATAGATTA
3244641 ATAACTAGTAGTTATTAGACTAATTAATTTTAATGTCCATTAAGCAT
1 ATAACTAGTAGTTATTAGACTAATTAATTTTAATGTCCATTAAGCAT
3244688 ATAACTAGTAGTTATTAGACTAATTAATTTTAATGTCCATTAAGCAT
1 ATAACTAGTAGTTATTAGACTAATTAATTTTAATGTCCATTAAGCAT
3244735 ATA
1 ATA
3244738 TATTTGTAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (47 bp):
ATAACTAGTAGTTATTAGACTAATTAATTTTAATGTCCATTAAGCAT
Found at i:3244821 original size:31 final size:31
Alignment explanation
Indices: 3244786--3244862 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
3244776 ATTTTCGATG
3244786 AAAATTATAAAGTCACAACGCTTATTAAAAA
1 AAAATTATAAAGTCACAACGCTTATTAAAAA
3244817 AAAATTATAAAGTCACAACGCTTATTAAAAA
1 AAAATTATAAAGTCACAACGCTTATTAAAAA
3244848 AAAATTATAAAGTCA
1 AAAATTATAAAGTCA
3244863 TAAATAATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (31 bp):
AAAATTATAAAGTCACAACGCTTATTAAAAA
Found at i:3249861 original size:22 final size:21
Alignment explanation
Indices: 3249836--3249885 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
3249826 ATTAATCGAA
3249836 AATATTATGAATAAAATAATAT
1 AATATTATGAATAAAATAA-AT
* * *
3249858 AATATTTTTAATTAAATAAAT
1 AATATTATGAATAAAATAAAT
3249879 AATATTA
1 AATATTA
3249886 ACATTTTAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AATATTATGAATAAAATAAAT
Found at i:3250869 original size:2 final size:2
Alignment explanation
Indices: 3250862--3250895 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3250852 ACCATTACGA
3250862 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3250896 TCTCTACCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3251474 original size:22 final size:21
Alignment explanation
Indices: 3251445--3251486 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3251435 TGATCAAATG
3251445 ATATTATTTTAGT-ATTTTTAT
1 ATATTATTTT-GTGATTTTTAT
3251466 ATATATATTTTGTGATTTTTA
1 ATAT-TATTTTGTGATTTTTA
3251487 GGTAGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
ATATTATTTTGTGATTTTTAT
Found at i:3255132 original size:19 final size:19
Alignment explanation
Indices: 3255108--3255170 Score: 117
Period size: 19 Copynumber: 3.3 Consensus size: 19
3255098 AATGCATTTT
*
3255108 ATGCATCGATGCACATACC
1 ATGCATCGATGCACAAACC
3255127 ATGCATCGATGCACAAACC
1 ATGCATCGATGCACAAACC
3255146 ATGCATCGATGCACAAACC
1 ATGCATCGATGCACAAACC
3255165 ATGCAT
1 ATGCAT
3255171 TTTGAAACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (19 bp):
ATGCATCGATGCACAAACC
Found at i:3255225 original size:85 final size:81
Alignment explanation
Indices: 3255043--3255206 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 81
3255033 TTTCAAAGTG
* *
3255043 ATGCACCGATGCACCAATCCATGCATCGATGCACCATGGATTAAATTGAACATCAAATGCATTTT
1 ATGCACCGATGCA-CAAACCATGCATCGATGCACCATGCATT--ATTGAACATCAAATGCATTTT
3255108 ATGCATCGATGCACATACC
63 ATGCATCGATGCACATACC
* * *
3255127 ATGCATCGATGCACAAACCATGCATCGATGCACAAACCATGCATT-TTGAAACATCGAGTGCATT
1 ATGCACCGATGCACAAACCATGCATCGATG--C--ACCATGCATTATTG-AACATCAAATGCATT
3255191 TTATGCATCGATGCAC
61 TTATGCATCGATGCAC
3255207 TCTTAGTGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
83 16 0.23
84 15 0.21
85 30 0.43
87 9 0.13
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (81 bp):
ATGCACCGATGCACAAACCATGCATCGATGCACCATGCATTATTGAACATCAAATGCATTTTATG
CATCGATGCACATACC
Found at i:3261049 original size:21 final size:21
Alignment explanation
Indices: 3260990--3261084 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 21
3260980 TTGTGCTTAA
*
3260990 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCATGAA-TG
*
3261010 TGCATCGATGCATCCATGAATG
1 TGCATCGATACA-CCATGAATG
* *
3261032 TGCAGCGATACACCATGAAGG
1 TGCATCGATACACCATGAATG
* * *
3261053 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCATGAATG
3261076 TGCATCGAT
1 TGCATCGAT
3261085 GCATCCATCG
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 18 0.30
22 12 0.20
23 19 0.32
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (21 bp):
TGCATCGATACACCATGAATG
Found at i:3261078 original size:23 final size:23
Alignment explanation
Indices: 3261009--3261087 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
3260999 ACACCTAACA
*
3261009 GTGCATCGATGCA-TCCATGAAT
1 GTGCATCGATGCACACCATGAAT
* *
3261031 GTGCAGCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCATGAAT
* * *
3261052 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCATGAAT
3261075 GTGCATCGATGCA
1 GTGCATCGATGCA
3261088 TCCATCGGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.02
21 16 0.35
22 9 0.20
23 20 0.43
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (23 bp):
GTGCATCGATGCACACCATGAAT
Found at i:3263027 original size:15 final size:16
Alignment explanation
Indices: 3263001--3263030 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3262991 TGATGGTTGT
3263001 TGGATGTTTAAACTTC
1 TGGATGTTTAAACTTC
3263017 TGGAT-TTTAAACTT
1 TGGATGTTTAAACTT
3263031 AATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (16 bp):
TGGATGTTTAAACTTC
Found at i:3263185 original size:2 final size:2
Alignment explanation
Indices: 3263178--3263205 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3263168 GTATCTTAAG
3263178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3263206 CAATTGGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3263726 original size:19 final size:19
Alignment explanation
Indices: 3263699--3263750 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
3263689 AATGCATTTT
3263699 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
*
3263718 ATGCTTCGATGCACATACC
1 ATGCATCGATGCACATACC
3263737 ATGCATCGATGCAC
1 ATGCATCGATGCAC
3263751 TCAGTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (19 bp):
ATGCATCGATGCACATACC
Found at i:3263731 original size:64 final size:63
Alignment explanation
Indices: 3263641--3263840 Score: 183
Period size: 64 Copynumber: 3.1 Consensus size: 63
3263631 TTTTCAAAGT
*
3263641 GATGCACCTATCCATGCATCGATGCACCATGGATTAAATTGAACATCGAATGCATTTTATGCATC
1 GATGCACATA-CCATGCATCGATGCACCATGGATT-AATTGAACATCGAATGCATTTTATGCATC
* * ** * * *
3263706 GATGCACATACCATGCTTCGATGCACATACCATGCATCGA-TGCAC-TC-AGTGCATTTGATGCA
1 GATGCACATACCATGCATCGATG--C--ACCATGGATTAATTGAACATCGAATGCATTTTATGCA
3263768 TC
62 TC
* * * **
3263770 AATGCACAAACCATGCATCGATGCACTC-TGGCTTTTTTGAAACATCGAATGCATTTTATGCATC
1 GATGCACATACCATGCATCGATGCAC-CATGGATTAATTG-AACATCGAATGCATTTTATGCATC
3263834 GATGCAC
1 GATGCAC
3263841 TCTTAGTGCA
Statistics
Matches: 106, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
60 5 0.05
61 3 0.03
62 3 0.03
63 2 0.02
64 68 0.64
65 11 0.10
66 5 0.05
67 1 0.01
68 8 0.08
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
GATGCACATACCATGCATCGATGCACCATGGATTAATTGAACATCGAATGCATTTTATGCATC
Found at i:3272696 original size:51 final size:51
Alignment explanation
Indices: 3272637--3272738 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
3272627 ACTCTATTGC
* * *
3272637 TAATCTCCCTATGAA-AACTGAGGATGGCTCAATCTCAAATCCAACTCCAAA
1 TAATCTCCCTATGAAGAA-TGAGGAGGGCTCAAACACAAATCCAACTCCAAA
3272688 TAATCTCCCTATGAAGAATGAGGAGGGCTCAAACACAAATCCAACTCCAAA
1 TAATCTCCCTATGAAGAATGAGGAGGGCTCAAACACAAATCCAACTCCAAA
3272739 CAATAATGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 45 0.96
52 2 0.04
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (51 bp):
TAATCTCCCTATGAAGAATGAGGAGGGCTCAAACACAAATCCAACTCCAAA
Found at i:3277497 original size:23 final size:23
Alignment explanation
Indices: 3277467--3277541 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
3277457 GCATGGTAGT
3277467 GTGCATCGATGCACATTCAAGTA
1 GTGCATCGATGCACATTCAAGTA
* * *
3277490 GTGCATCGGTGCTTC-TTCATG-A
1 GTGCATCGATGC-ACATTCAAGTA
*
3277512 -TGTATCGATGCACATTCAAGTA
1 GTGCATCGATGCACATTCAAGTA
3277534 GTGCATCG
1 GTGCATCG
3277542 GTGCTTCTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.03
21 14 0.35
22 2 0.05
23 22 0.55
24 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGTA
Found at i:3277521 original size:44 final size:44
Alignment explanation
Indices: 3277471--3277567 Score: 176
Period size: 44 Copynumber: 2.2 Consensus size: 44
3277461 GGTAGTGTGC
3277471 ATCGATGCACATTCAAGTAGTGCATCGGTGCTTCTTCATGATGT
1 ATCGATGCACATTCAAGTAGTGCATCGGTGCTTCTTCATGATGT
* *
3277515 ATCGATGCACATTCAAGTAGTGCATCGGTGCTTCTTTATGGTGT
1 ATCGATGCACATTCAAGTAGTGCATCGGTGCTTCTTCATGATGT
3277559 ATCGATGCA
1 ATCGATGCA
3277568 TCATGCACAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (44 bp):
ATCGATGCACATTCAAGTAGTGCATCGGTGCTTCTTCATGATGT
Found at i:3297429 original size:40 final size:40
Alignment explanation
Indices: 3297374--3297456 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
3297364 GATTTGGAGA
*
3297374 AATTGAGAAGGGTGTTTGCTTCAT-GGTCTGCTTACAATAC
1 AATTGAGAAGGGTGTTTGCTTC-TGGGTCTGCTTACAACAC
3297414 AATTGAGAAGGGTGTTTGCTTCTGGGTCTGCTTACAACAC
1 AATTGAGAAGGGTGTTTGCTTCTGGGTCTGCTTACAACAC
3297454 AAT
1 AAT
3297457 CGAAAAGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
AATTGAGAAGGGTGTTTGCTTCTGGGTCTGCTTACAACAC
Found at i:3302178 original size:110 final size:108
Alignment explanation
Indices: 3301971--3302228 Score: 322
Period size: 110 Copynumber: 2.4 Consensus size: 108
3301961 GAATTGTTCC
* * * * *
3301971 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGTTCTG--GAACTGGGAAATTGATTGTTGAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAAATGGAAAATTGATTGTTGAC
*
3302034 AGTCAGCCGCCCCTTCGCCGTGAAGTTGAACTTGTGCTGTCTT
66 AATCAGCCGCCCCTTCGCCGTGAAGTTGAACTTGTGCTGTCTT
* * * *
3302077 GAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-GAAATGGAAAA-TTGATTGTTG
* * * * *
3302142 ACAATCATCCGCCCCTTTGTCGTGAAGTTGAGCTTGTGTTGTCTT
64 ACAATCAGCCGCCCCTTCGCCGTGAAGTTGAACTTGTGCTGTCTT
* * *
3302187 GGGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
3302229 ATTGGGAAGC
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 35 0.27
109 8 0.06
110 85 0.66
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (108 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAAATGGAAAATTGATTGTTGAC
AATCAGCCGCCCCTTCGCCGTGAAGTTGAACTTGTGCTGTCTT
Found at i:3303319 original size:9 final size:8
Alignment explanation
Indices: 3303297--3303351 Score: 65
Period size: 8 Copynumber: 6.5 Consensus size: 8
3303287 ACCCACCTTA
3303297 TTTTCTTT
1 TTTTCTTT
3303305 TCTTTCTATT
1 T-TTTCT-TT
3303315 TTTTCTTT
1 TTTTCTTT
*
3303323 TGTTCTTT
1 TTTTCTTT
*
3303331 TTCTCTTT
1 TTTTCTTT
3303339 TTTCTCTTT
1 TTT-TCTTT
3303348 TTTT
1 TTTT
3303352 TCAATTTAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 19 0.47
9 18 0.45
10 3 0.08
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:3303323 original size:23 final size:23
Alignment explanation
Indices: 3303297--3303353 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
3303287 ACCCACCTTA
3303297 TTTTCTTTTCTTTCTATTTTTTC
1 TTTTCTTTTCTTTCTATTTTTTC
* *
3303320 TTTTGTTCTT-TTTCTCTTTTTTC
1 TTTTCTT-TTCTTTCTATTTTTTC
*
3303343 TCTTTTTTTTC
1 T-TTTCTTTTC
3303354 AATTTAGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTCTTTTCTTTCTATTTTTTC
Found at i:3303409 original size:16 final size:17
Alignment explanation
Indices: 3303390--3303423 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3303380 ACCCTAAACG
3303390 TTTTTCTCTTT-TTTCT
1 TTTTTCTCTTTCTTTCT
*
3303406 TTTTTCTTTTTCTTTCT
1 TTTTTCTCTTTCTTTCT
3303423 T
1 T
3303424 CGACTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTCTCTTTCTTTCT
Found at i:3311428 original size:23 final size:23
Alignment explanation
Indices: 3311379--3311436 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
3311369 GCGAATAAAC
*
3311379 AAAATGAGA-AAAAATAAAAAAAT
1 AAAATGA-ATAAAAATAAAAAAAG
* *
3311402 AAAA-GAAGTAAAAATAAACAAGG
1 AAAATGAA-TAAAAATAAAAAAAG
3311425 AAAATGAATAAA
1 AAAATGAATAAA
3311437 GCAAAGAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.03
22 2 0.07
23 23 0.79
24 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (23 bp):
AAAATGAATAAAAATAAAAAAAG
Found at i:3312212 original size:17 final size:15
Alignment explanation
Indices: 3312184--3312240 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 15
3312174 AACCGAAACC
3312184 GGTTTTTTCGGTTCG
1 GGTTTTTTCGGTTCG
3312199 GGTTTTTTAACGGTTCG
1 GGTTTTTT--CGGTTCG
3312216 GG-TTTTTCGGTTC-
1 GGTTTTTTCGGTTCG
3312229 GG-TTTTTCGGTT
1 GGTTTTTTCGGTT
3312241 TTTCAATGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
13 12 0.30
14 6 0.15
15 8 0.20
16 5 0.12
17 9 0.22
ACGTcount: A:0.04, C:0.12, G:0.32, T:0.53
Consensus pattern (15 bp):
GGTTTTTTCGGTTCG
Found at i:3313771 original size:24 final size:24
Alignment explanation
Indices: 3313746--3313825 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 24
3313736 AAACGTGAAT
*
3313746 AAATAAAATGAAGATAAAGAAAATA
1 AAATAAAAT-AAAATAAAGAAAATA
*
3313771 AAATAAAATAAAATAAAGAAAAGA
1 AAATAAAATAAAATAAAGAAAATA
* *
3313795 ACAATGAATAAATAAAATAAATAAGATA
1 A-AAT--A-AAATAAAATAAAGAAAATA
3313823 AAA
1 AAA
3313826 AAAGAATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
24 14 0.30
25 12 0.26
27 3 0.07
28 17 0.37
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.16
Consensus pattern (24 bp):
AAATAAAATAAAATAAAGAAAATA
Found at i:3313773 original size:5 final size:5
Alignment explanation
Indices: 3313746--3313825 Score: 53
Period size: 5 Copynumber: 16.6 Consensus size: 5
3313736 AAACGTGAAT
* * * *
3313746 AAATA AAATGA AGAT- AAAGA AAATA AAATA AAATA AAAT- AAAGA AAAGA
1 AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
* *
3313795 ACAAT- GAAT- AAATA AAAT- AAATA AGATA AAA
1 A-AATA AAATA AAATA AAATA AAATA AAATA AAA
3313826 AAAGAATTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
4 15 0.25
5 38 0.64
6 6 0.10
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:3313815 original size:9 final size:9
Alignment explanation
Indices: 3313743--3313828 Score: 61
Period size: 9 Copynumber: 9.2 Consensus size: 9
3313733 AATAAACGTG
3313743 AATAAATAA
1 AATAAATAA
3313752 AATGAAGATAA
1 AAT-AA-ATAA
3313763 AGA-AAATAA
1 A-ATAAATAA
3313772 AATAAAATAA
1 AAT-AAATAA
*
3313782 AATAAAGAA
1 AATAAATAA
* *
3313791 AAGAACA-ATG
1 AATAA-ATA-A
3313801 AATAAATAA
1 AATAAATAA
3313810 AATAAATAA
1 AATAAATAA
*
3313819 GATAAA-AA
1 AATAAATAA
3313827 AA
1 AA
3313829 GAATTATAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
8 4 0.06
9 33 0.53
10 19 0.31
11 5 0.08
12 1 0.02
ACGTcount: A:0.74, C:0.01, G:0.08, T:0.16
Consensus pattern (9 bp):
AATAAATAA
Found at i:3313916 original size:2 final size:2
Alignment explanation
Indices: 3313909--3313958 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
3313899 AAATAAAATA
3313909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3313951 AT AT AT AT
1 AT AT AT AT
3313959 TTAAACAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3314117 original size:25 final size:25
Alignment explanation
Indices: 3314082--3314150 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
3314072 TATACATATA
*
3314082 ATAATATAAATAATAATAAAGACAAG
1 ATAATA-AAATAATAATAAAAACAAG
* *
3314108 AGTAA-AAAATAAAAATAAAAACAAT
1 A-TAATAAAATAATAATAAAAACAAG
*
3314133 ATAATATAATAATAATAA
1 ATAATAAAATAATAATAA
3314151 TATATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.08
25 28 0.78
26 2 0.06
27 3 0.08
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.23
Consensus pattern (25 bp):
ATAATAAAATAATAATAAAAACAAG
Found at i:3314157 original size:2 final size:2
Alignment explanation
Indices: 3314131--3314192 Score: 89
Period size: 2 Copynumber: 33.5 Consensus size: 2
3314121 AATAAAAACA
3314131 AT AT A- AT AT A- AT A- AT A- AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3314168 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3314193 AAGTTATAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
1 5 0.09
2 50 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3314270 original size:6 final size:6
Alignment explanation
Indices: 3314261--3314324 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
3314251 ATATATTAAT
* * *
3314261 AATATG AATATA AATA-A AATATA AA-A-A AATATA CATATA CATA-A
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
*
3314305 AATA-A AATATA AATAAA AAT
1 AATATA AATATA AATATA AAT
3314325 TGGGTGGTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
4 3 0.06
5 16 0.32
6 31 0.62
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (6 bp):
AATATA
Found at i:3314271 original size:17 final size:16
Alignment explanation
Indices: 3314234--3314272 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
3314224 ATAATCAAAA
3314234 AATA-ATTAATAATAT
1 AATATATTAATAATAT
3314249 ATATATATTAATAATAT
1 A-ATATATTAATAATAT
3314266 GAATATA
1 -AATATA
3314273 AATAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 16 0.76
18 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AATATATTAATAATAT
Found at i:3314291 original size:10 final size:11
Alignment explanation
Indices: 3314267--3314322 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
3314257 TAATAATATG
3314267 AATATAAATAA
1 AATATAAATAA
3314278 AATATAAA-AA
1 AATATAAATAA
*
3314288 AATATACATATA
1 AATATAAATA-A
*
3314300 CATA-AAATAA
1 AATATAAATAA
3314310 AATATAAATAA
1 AATATAAATAA
3314321 AA
1 AA
3314323 ATTGGGTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 13 0.34
11 21 0.55
12 4 0.11
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (11 bp):
AATATAAATAA
Found at i:3317863 original size:95 final size:95
Alignment explanation
Indices: 3317689--3317870 Score: 267
Period size: 95 Copynumber: 1.9 Consensus size: 95
3317679 ATATGTAAAT
* * * * *
3317689 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTGCCTTAGAGGG
* **
3317754 ACAGCTCAGGCTTTATTGTATAATATAATC
66 ACAACTCAAACTTTATTGTATAATATAATC
3317784 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTGCCT-TAGAGG
*
3317848 GTCAACTCAAACTTTATTGTATA
65 GACAACTCAAACTTTATTGTATA
3317871 TAAATAATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 2 0.03
95 75 0.97
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGAGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAACTTTATTGTATAATATAATC
Found at i:3320864 original size:15 final size:14
Alignment explanation
Indices: 3320841--3320881 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
3320831 ACGTGTTAAT
3320841 TATACAATATATATA
1 TATA-AATATATATA
*
3320856 TATATAATATACATA
1 TATA-AATATATATA
3320871 TATAAATATAT
1 TATAAATATAT
3320882 GGGGTCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
TATAAATATATATA
Found at i:3330544 original size:27 final size:28
Alignment explanation
Indices: 3330514--3330570 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
3330504 AAAAAAATCA
*
3330514 AGCCCTTAAACTT-AAAAAAAATAATTT
1 AGCCCTCAAACTTGAAAAAAAATAATTT
* * *
3330541 AGCCCTCGATCTTGAAAAAACATAATTT
1 AGCCCTCAAACTTGAAAAAAAATAATTT
3330569 AG
1 AG
3330571 TGCATTACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.28
Consensus pattern (28 bp):
AGCCCTCAAACTTGAAAAAAAATAATTT
Found at i:3337696 original size:19 final size:18
Alignment explanation
Indices: 3337672--3337707 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3337662 AACAACATAA
3337672 AATAAAATAACAAAAAAAT
1 AATAAAA-AACAAAAAAAT
*
3337691 AATAAAAAAGAAAAAAA
1 AATAAAAAACAAAAAAA
3337708 ATAAAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (18 bp):
AATAAAAAACAAAAAAAT
Found at i:3338528 original size:2 final size:2
Alignment explanation
Indices: 3338521--3338549 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3338511 ACGTATGATG
3338521 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3338550 CTACCACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3343778 original size:37 final size:38
Alignment explanation
Indices: 3343736--3343808 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
3343726 TTTATTTTGT
3343736 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
3343773 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCG
3343809 GGTTTGGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.12, C:0.11, G:0.37, T:0.40
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:3344389 original size:18 final size:17
Alignment explanation
Indices: 3344351--3344398 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
3344341 ATATGTAATT
*
3344351 AGATTCTAATTCCTGAC
1 AGATTCCAATTCCTGAC
*
3344368 AGATTCCAATTCCTTTAC
1 AGATTCCAATTCC-TGAC
*
3344386 AGATTTCAATTCC
1 AGATTCCAATTCC
3344399 CTCATAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (17 bp):
AGATTCCAATTCCTGAC
Found at i:3346395 original size:16 final size:17
Alignment explanation
Indices: 3346374--3346411 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
3346364 ATAAATATTA
3346374 AAATAAT-ATATAT-TTC
1 AAATAATAAT-TATCTTC
3346390 AAATAATAATTATCTTC
1 AAATAATAATTATCTTC
3346407 AAATA
1 AAATA
3346412 GCATAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATAATAATTATCTTC
Found at i:3349416 original size:19 final size:18
Alignment explanation
Indices: 3349382--3349445 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
3349372 TTTATTAACA
*
3349382 AACCGATAAACCGAACCG
1 AACCGAAAAACCGAACCG
3349400 AACCGAAAAACCCGAACCG
1 AACCGAAAAA-CCGAACCG
*
3349419 TTAA---AAAAAACGAACCG
1 --AACCGAAAAACCGAACCG
3349436 AACCGAAAAA
1 AACCGAAAAA
3349446 AAACCATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.05
17 7 0.18
18 19 0.50
19 8 0.21
21 2 0.05
ACGTcount: A:0.53, C:0.28, G:0.14, T:0.05
Consensus pattern (18 bp):
AACCGAAAAACCGAACCG
Found at i:3349446 original size:19 final size:19
Alignment explanation
Indices: 3349393--3349447 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
3349383 ACCGATAAAC
**
3349393 CGAACCGAACCGAAAAACC
1 CGAACCGAACCGAAAAAAA
*
3349412 CGAACCGTTA---AAAAAAA
1 CGAACCG-AACCGAAAAAAA
3349429 CGAACCGAACCGAAAAAAA
1 CGAACCGAACCGAAAAAAA
3349448 ACCATTTCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
16 1 0.04
17 12 0.43
19 14 0.50
20 1 0.04
ACGTcount: A:0.55, C:0.27, G:0.15, T:0.04
Consensus pattern (19 bp):
CGAACCGAACCGAAAAAAA
Found at i:3358546 original size:20 final size:20
Alignment explanation
Indices: 3358521--3358562 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3358511 TTTATAATTA
3358521 ATAAATAACATTAATTATAT
1 ATAAATAACATTAATTATAT
***
3358541 ATAAATATGTTTAATTATAT
1 ATAAATAACATTAATTATAT
3358561 AT
1 AT
3358563 CTATGAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAAATAACATTAATTATAT
Found at i:3361020 original size:44 final size:44
Alignment explanation
Indices: 3360957--3361218 Score: 380
Period size: 44 Copynumber: 6.0 Consensus size: 44
3360947 TGTTACTGAA
* * *
3360957 ATAAATGAAAAAGTATAACGATGCATTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * *
3361001 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGAGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
*
3361045 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
* * * * *
3361089 ATAAATGAAAATGTATAGCGGTGCATTATTGGAAAAAAGGTTTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
** *
3361133 ATAAATGAAAATGCATAACAATGCATTGTTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
*
3361177 ATAAATGAAAATGCATGACGGTGCATTATTGGCAGAAAGGTG
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTG
3361219 CCACTCATTG
Statistics
Matches: 191, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 191 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
Found at i:3364272 original size:24 final size:24
Alignment explanation
Indices: 3364245--3364315 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 24
3364235 AAAAAAAAAG
3364245 AAAAAGAAGAAAAAATATATA-AAT
1 AAAAAGAA-AAAAAATATATATAAT
3364269 AAAATA-AATAAATAAA-ATA-ATAAT
1 AAAA-AGAA-AAA-AAATATATATAAT
*
3364293 AAAAAGTAAAAATAATATATATA
1 AAAAAG-AAAAAAAATATATATA
3364316 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
23 4 0.11
24 25 0.66
25 9 0.24
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAAAGAAAAAAAATATATATAAT
Found at i:3364295 original size:19 final size:19
Alignment explanation
Indices: 3364223--3364350 Score: 73
Period size: 18 Copynumber: 6.5 Consensus size: 19
3364213 AGTAAGTAAT
*
3364223 ATAAAAATATATAAAAAAAA
1 ATAAAAATA-ATAATAAAAA
* * * *
3364243 AGAAAAAGAAGAA-AAAAT
1 ATAAAAATAATAATAAAAA
*
3364261 ATATAAATAA-AATAAATAA
1 ATAAAAATAATAATAAA-AA
3364280 AT-AAAATAATAATAAAAA
1 ATAAAAATAATAATAAAAA
* *
3364298 GTAAAAATAATATATATATATAT
1 ATAAAAATAATA-ATA-A-A-AA
* *
3364321 ATATATATATATAATAAAAA
1 ATAAAAATA-ATAATAAAAA
3364341 CATAAAAATA
1 -ATAAAAATA
3364351 GTAAATATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
17 2 0.02
18 23 0.28
19 21 0.26
20 11 0.14
21 9 0.11
22 2 0.02
23 10 0.12
24 3 0.04
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (19 bp):
ATAAAAATAATAATAAAAA
Found at i:3364314 original size:2 final size:2
Alignment explanation
Indices: 3364307--3364333 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3364297 AGTAAAAATA
3364307 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3364334 ATAAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3364399 original size:40 final size:38
Alignment explanation
Indices: 3364317--3364428 Score: 109
Period size: 38 Copynumber: 2.8 Consensus size: 38
3364307 ATATATATAT
* * *
3364317 ATATATATATATATATAATAAAAACATAAAAATAGTAA
1 ATATATATATAAATATAATAAAAACATAAAAAAAATAA
*
3364355 ATATATATATAAAT-TAATAAAACAGATAATAAAAAATAA
1 ATATATATATAAATATAATAAAA-ACATAA-AAAAAATAA
* * *
3364394 CATATATATATATATGTAATCTAAAAAAATAAAAA
1 -ATATATATATAAATATAA--TAAAAACATAAAAA
3364429 TATATACTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
37 8 0.13
38 18 0.29
39 7 0.11
40 13 0.21
41 6 0.10
42 5 0.08
43 5 0.08
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (38 bp):
ATATATATATAAATATAATAAAAACATAAAAAAAATAA
Found at i:3365019 original size:37 final size:37
Alignment explanation
Indices: 3364968--3365110 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
3364958 TTGTGAAACC
3364968 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
3365005 AATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
3365042 TATTTTTAGGAGTTTGAATCCTAGTAAAACTC--TCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
3365077 TATTGTTAGGAGTTTGAATCATACTAAAACTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
3365111 ACGTTTGTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
35 31 0.32
37 66 0.68
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:3365122 original size:74 final size:73
Alignment explanation
Indices: 3364968--3365112 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 73
3364958 TTGTGAAACC
* * *
3364968 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCAAATTTTTAGGAGTTTGAATCCTAGTAAA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTC-ATCAAATTGTTAGGAGTTTGAATCATACTAAA
*
3365033 ACTCTATCA
65 ACTCTAACA
* **
3365042 TATTTTTAGGAGTTTGAATCCTAGTAAAACTC-TCCTATTGTTAGGAGTTTGAATCATACTAAAA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCATCAAATTGTTAGGAGTTTGAATCATACTAAAA
3365106 CTCTAAC
66 CTCTAAC
3365113 GTTTGTTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
72 33 0.52
74 31 0.48
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (73 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCATCAAATTGTTAGGAGTTTGAATCATACTAAAA
CTCTAACA
Found at i:3365585 original size:34 final size:35
Alignment explanation
Indices: 3365547--3365629 Score: 141
Period size: 34 Copynumber: 2.4 Consensus size: 35
3365537 AAGGTCTTGA
*
3365547 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTT-GT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
3365581 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
*
3365616 GTTTCAAGATAAAC
1 GTTTCAAGAGAAAC
3365630 TGTCTCAAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 31 0.67
35 15 0.33
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.40
Consensus pattern (35 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTCGT
Found at i:3365762 original size:21 final size:21
Alignment explanation
Indices: 3365701--3365769 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
3365691 AGAAACTGTC
3365701 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAA-TTTGTT
* *
3365723 TC-A-AG-G--TAAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
3365738 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
3365759 TCAAGAGAGAC
1 TCAAGAGAGAC
3365770 TGTATCAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
15 6 0.16
16 1 0.03
17 5 0.14
18 1 0.03
19 1 0.03
20 5 0.14
21 16 0.43
22 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:3365772 original size:73 final size:73
Alignment explanation
Indices: 3365682--3365934 Score: 247
Period size: 73 Copynumber: 3.6 Consensus size: 73
3365672 CAAAGATTGG
*
3365682 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGTAAATTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGTAAACTGTCTCAAGAGAG
3365747 ACAAAATT
66 ACAAAATT
* * * * * * * *
3365755 TGTTTCAAGAGAGACTGTATCAAGAGAGACAAAACCTAGCTCCAAAAG-AAACTGTCTCAAGGGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTC-AAGGTAAACTGTCTCAAGAGA
***
3365819 GATGCAATT
65 GACAAAATT
* ** * *
3365828 TGTTTCAAG-GAAA-----AC-A-A-ATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTTGTTTCAAGGTAAACTGTCTCAAGAGA
3365884 GACAAAATT
65 GACAAAATT
* *
3365893 TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAACTTTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
3365935 TGGGTAAATT
Statistics
Matches: 137, Mismatches: 31, Indels: 24
0.71 0.16 0.12
Matches are distributed among these distances:
64 8 0.06
65 36 0.26
66 5 0.04
67 1 0.01
71 1 0.01
72 4 0.03
73 75 0.55
74 7 0.05
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGTAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:3365778 original size:36 final size:37
Alignment explanation
Indices: 3365682--3365934 Score: 226
Period size: 36 Copynumber: 7.1 Consensus size: 37
3365672 CAAAGATTGG
3365682 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
*
3365719 TGTTTCAAG-GTAAATTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAG-AAACTGTCTCAAGAGAGACAAAACTT
* * *
3365755 TGTTTCAAGAGAGACTGTATCAAGAGAGACAAAACCT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* * * * * ***
3365792 AGCTCCAAAAGAAACTGTCTCAAGGGAGATGCAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* ** *
3365828 TGTTTCAAG-GAAA-----AC-A-A-ATTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTT
*
3365857 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* *
3365893 TGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
3365930 TGTTT
1 TGTTT
3365935 TGGGTAAATT
Statistics
Matches: 170, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.01
28 1 0.01
29 12 0.07
30 5 0.03
35 5 0.03
36 74 0.44
37 66 0.39
38 5 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:3367790 original size:12 final size:11
Alignment explanation
Indices: 3367760--3367814 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
3367750 GCGTATTGTC
3367760 TTATTTTTTCT
1 TTATTTTTTCT
*
3367771 TCACTTTTTTCT
1 TTA-TTTTTTCT
3367783 TTA-TTTTTCT
1 TTATTTTTTCT
*
3367793 TTATTTTTCCT
1 TTATTTTTTCT
3367804 TCT-TTTTTTCT
1 T-TATTTTTTCT
3367815 CTTTTTCCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 10 0.27
11 16 0.43
12 11 0.30
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTTCT
Found at i:3367810 original size:10 final size:10
Alignment explanation
Indices: 3367776--3367801 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3367766 TTTCTTCACT
3367776 TTTTTCTTTA
1 TTTTTCTTTA
3367786 TTTTTCTTTA
1 TTTTTCTTTA
3367796 TTTTTC
1 TTTTTC
3367802 CTTCTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:3367820 original size:21 final size:20
Alignment explanation
Indices: 3367763--3367828 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
3367753 TATTGTCTTA
* *
3367763 TTTTTTCTTCACTTTTTT-C
1 TTTTTTTTTCTCTTTTTTCC
* *
3367782 TTTATTTTTCTTTATTTTTCC
1 TTTTTTTTTCTCT-TTTTTCC
*
3367803 TTCTTTTTTTCTCTTTTTCCC
1 TT-TTTTTTTCTCTTTTTTCC
3367824 TTTTT
1 TTTTT
3367829 GTTCTGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 11 0.30
22 9 0.24
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTTTCTCTTTTTTCC
Found at i:3371159 original size:65 final size:64
Alignment explanation
Indices: 3371004--3371183 Score: 195
Period size: 64 Copynumber: 2.8 Consensus size: 64
3370994 TGGAACACTT
* * *
3371004 AGTGCATCGATGCACT-AAGCA-TGCATCGATGCATAAAATGCATTCCATGTTTTGAAAAAGCCC
1 AGTGCATCGATGCA-TGGAG-AGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAAGCCC
3371067 A
64 A
* * * *
3371068 AGTGCATCGATGCATGGTGTGTGCATCAATGCATAAAATGCATTCGATGTTTTCATTAAAA-CTC
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCA--AAAAGCCC
*
3371132 G
64 A
* * * *
3371133 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATTAATTGCATTTGATGTT
1 AGTGCATCGATGCATGGAGAGTGCATCGATGCATAAAATGCATTCGATGTT
3371184 CAATTTATTC
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
63 1 0.01
64 46 0.47
65 46 0.47
66 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (64 bp):
AGTGCATCGATGCATGGAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAAGCCCA
Found at i:3371219 original size:20 final size:20
Alignment explanation
Indices: 3371194--3371231 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3371184 CAATTTATTC
3371194 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
3371214 ATTGGTGCATCGATGCAT
1 ATTGGTGCATCGATGCAT
3371232 CCCTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:3376708 original size:22 final size:21
Alignment explanation
Indices: 3376666--3376705 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3376656 GAGCTTATTT
*
3376666 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3376687 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3376706 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:3378124 original size:110 final size:110
Alignment explanation
Indices: 3377931--3378148 Score: 359
Period size: 110 Copynumber: 2.0 Consensus size: 110
3377921 ATACCAATTA
*
3377931 TTGAGTTAATCGATTGATGGAATAGGCCAATAAGGGGTGAATTGACAATTAAAATTTTGGTAGAA
1 TTGAGTTAATCGATTGATGGAATAGGCCAAGAAGGGGTGAATTGACAATTAAAATTTTGGTAGAA
3377996 GCTTTTGCAGAAAATTGAAAGA-AGTTGCACAACGATTTAGAGTTG
66 GCTTTTGCAGAAAATTGAAA-ATAGTTGCACAACGATTTAGAGTTG
* * *
3378041 TTGAGTTAATCGATTGATGGAA-ATGGCCAAGAGGGGGTGAATTGGCAATTAAAATTTTGGTGGA
1 TTGAGTTAATCGATTGATGGAATA-GGCCAAGAAGGGGTGAATTGACAATTAAAATTTTGGTAGA
*
3378105 AGCTTTTGCAGAAAATTGAAAATATTTGCACAACGATTTAGAGT
65 AGCTTTTGCAGAAAATTGAAAATAGTTGCACAACGATTTAGAGT
3378149 GGTTCGACTT
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
109 2 0.02
110 99 0.98
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.30
Consensus pattern (110 bp):
TTGAGTTAATCGATTGATGGAATAGGCCAAGAAGGGGTGAATTGACAATTAAAATTTTGGTAGAA
GCTTTTGCAGAAAATTGAAAATAGTTGCACAACGATTTAGAGTTG
Found at i:3380956 original size:21 final size:21
Alignment explanation
Indices: 3380921--3380981 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
3380911 AGAACCCATG
* *
3380921 GGGGGTATCGATTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
3380941 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGGTTCCC--TCAAA
*
3380965 GGGGGAATCAGTTCCCT
1 GGGGGAATCGGTTCCCT
3380982 TATGGGGGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
23 15 0.44
24 4 0.12
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:3392307 original size:13 final size:13
Alignment explanation
Indices: 3392280--3392351 Score: 60
Period size: 13 Copynumber: 5.2 Consensus size: 13
3392270 CTACAAAAAC
3392280 ATTATATTATATATT
1 ATTAT-TTAT-TATT
3392295 ATTATTTATTATT
1 ATTATTTATTATT
3392308 ATTATTTAATTATTT
1 ATTATTT-ATTA-TT
3392323 AATTTAATTT-TTATT
1 -A-TT-ATTTATTATT
3392338 -TTATTTATT-TT
1 ATTATTTATTATT
3392349 ATT
1 ATT
3392352 TTTTTTGTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
11 6 0.12
12 6 0.12
13 11 0.22
14 8 0.16
15 9 0.18
16 4 0.08
17 2 0.04
18 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:3394119 original size:21 final size:21
Alignment explanation
Indices: 3394095--3394137 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3394085 CCTTTTCTTA
3394095 TATTTATTTCATTT-AGTTTAT
1 TATTT-TTTCATTTCAGTTTAT
* *
3394116 TATTTTTTTATTTCATTTTAT
1 TATTTTTTCATTTCAGTTTAT
3394137 T
1 T
3394138 TCATTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (21 bp):
TATTTTTTCATTTCAGTTTAT
Found at i:3394136 original size:10 final size:10
Alignment explanation
Indices: 3394121--3394148 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3394111 TTTATTATTT
3394121 TTTTATTTCA
1 TTTTATTTCA
3394131 TTTTATTTCA
1 TTTTATTTCA
3394141 TTTTATTT
1 TTTTATTT
3394149 TTTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATTTCA
Found at i:3394175 original size:24 final size:24
Alignment explanation
Indices: 3394126--3394176 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
3394116 TATTTTTTTA
* *
3394126 TTTCATTTTATTTCATTTTATTTT
1 TTTCATTTTATTTCATTTAATGTT
*
3394150 TTTCCTTTTGATTT-ATTTAATGTT
1 TTTCATTTT-ATTTCATTTAATGTT
3394174 TTT
1 TTT
3394177 TACTTTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTCATTTTATTTCATTTAATGTT
Found at i:3398657 original size:106 final size:106
Alignment explanation
Indices: 3398092--3400043 Score: 2865
Period size: 106 Copynumber: 18.6 Consensus size: 106
3398082 AAAAGTTGTC
* * * *
3398092 TGTCAACAAACAACTTCTCAATTTCAGAGTCAATTTCAACTTCGCAACGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*** * **
3398157 AGACAGTACAAGTTCAACTTCAAGACGAAGGGACCGCTGAC
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3398198 TGT-------CAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
3398256 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
3398297 TGTC-A-ATA-AA-----CAATTTC----CCAATTTCAACTTCACAACGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*** * **
3398350 AGACAGTACAAGTTCAACTTCAAGACGAAGGGACCGCTGAC
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
3398391 TGT-------CAACTTCTCAATTTCAGAGCCAATTTCAAATTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3398449 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
3398490 TGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCT
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
3398554 TGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3398595 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
3398660 AGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
3398701 TGTCAATAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
3398766 AGACAACACAAGTTCAACTTCAC-AGCGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGT
* * *
3398807 CGTCAATAAACAACTTCCCAATTTC----CCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3398868 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3398909 TGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
3398974 AGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
3399015 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3399080 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * *
3399121 TGTCAATAAATAACTTCCCAACTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTTGACTCA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3399186 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
3399227 TGTCAAAAAAAAAAAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCCCAGCGAAGGATATT
1 TGTC-------AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
3399292 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
59 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * *
3399340 TGTCAATAAACAACTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3399405 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
3399446 TGTCAACAAACAACTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3399511 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3399552 TGTCAACAAATAACTTCTCAATTTCAGAGCCAA-TTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
3399616 AGACAACACATGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
3399657 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
3399722 AGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * **
3399763 TGTCAATAAATAACTTCCCAACTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTAA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
3399828 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * *
3399869 TGTCAAAAAAAAAAAACAACCTCTTAATTTCAGAGCCAATTTCAACTTCCCAGCGAAGGATATTG
1 TGTC------AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
*
3399934 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGT
60 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * *
3399981 TGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACT
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
3400044 TAGAACTTCC
Statistics
Matches: 1695, Mismatches: 108, Indels: 86
0.90 0.06 0.05
Matches are distributed among these distances:
90 2 0.00
94 73 0.04
95 7 0.00
98 7 0.00
99 162 0.10
102 94 0.06
103 3 0.00
105 201 0.12
106 951 0.56
112 96 0.06
113 99 0.06
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:3398797 original size:317 final size:318
Alignment explanation
Indices: 3398092--3400043 Score: 2917
Period size: 317 Copynumber: 6.2 Consensus size: 318
3398082 AAAAGTTGTC
* * *
3398092 TGTCAACAAACAACTTCTCAATTTCAGAGTCAATTTCAACTTCGCAACGAAGGATATTGGACTCA
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*** * ** *
3398157 AGACAGTACAAGTTCAACTTCAAGACGAAGGGACCGCTGACTG----T---CAACTTCTCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
*
3398215 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
3398280 ACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----CAATTTC----CCAATTTCAACTTCACAAC
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGC
* *** * **
3398333 GAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCAAGACGAAGGGACCGCTGAC
261 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3398391 TGT-------CAACTTCTCAATTTCAGAGCCAATTTCAAATTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
*
3398449 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
** *
3398513 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTTGACAACGCATGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
3398578 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGC
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGC
* *
3398643 GAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
3398701 TGTCAATAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
3398766 AGACAACACAAGTTCAACTTCAC-AGCGAAGGGACCGCTGGTCGTCAATAAACAACTTCCCAATT
66 AGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATT
*
3398830 TC----CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
130 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
3398891 GACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
195 GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAG
*
3398956 CGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGT
260 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3399015 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* *
3399080 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAACTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* * *
3399145 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTTGACTCAAGACAACGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
3399210 ACGAAGGGACCGCTGGTTGTCAAAAAAAAAAAAACAACCTCCCAATTTCAGAGCCAATTTCAACT
196 ACGAAGGGACCGCTGGTTGTC-------AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACT
*
3399275 TCCCAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
254 TCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* *
3399340 TGTCAATAAACAACTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
3399405 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAATT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
3399470 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
3399535 ACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTCAATTTCAGAGCCAA-TTCAACTTCACAGC
196 ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGC
* *
3399599 GAAGGATATTGGACTCCAGACAACACATGTTCAACTTCACGACGAAGGGACCGCTGGT
261 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
*
3399657 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
* * *
3399722 AGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAACTT
66 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
* **
3399787 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTAAAGACAACGCAAGTTCAACTTCACG
131 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
3399852 ACGAAGGGACCGCTGGTTGTCAAAAAAAAAAAACAACCTCTTAATTTCAGAGCCAATTTCAACTT
196 ACGAAGGGACCGCTGGTTGTC------AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTT
* *
3399917 CCCAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGT
255 CACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
* * * * * *
3399981 TGTCAACAAACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACT
1 TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
3400044 TAGAACTTCC
Statistics
Matches: 1512, Mismatches: 94, Indels: 69
0.90 0.06 0.04
Matches are distributed among these distances:
292 88 0.06
298 95 0.06
299 4 0.00
300 2 0.00
301 2 0.00
306 7 0.00
310 73 0.05
314 297 0.20
315 1 0.00
316 1 0.00
317 370 0.24
318 121 0.08
323 25 0.02
324 124 0.08
325 302 0.20
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (318 bp):
TGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAGC
GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGT
Found at i:3400322 original size:80 final size:80
Alignment explanation
Indices: 3400214--3400365 Score: 252
Period size: 80 Copynumber: 1.9 Consensus size: 80
3400204 AAAGACCTTT
* *
3400214 GAGTTCGACTACGCTCAGCTCAATGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
1 GAGTTCGACTACACTCAGCTCAATGGCACATCATTTGAAGCATAGCTTAAGTCGAGAAGGGCTAT
3400279 CTGCCAAAGACCCCC
66 CTGCCAAAGACCCCC
* *
3400294 GAGTTCGATTACACTCAGCTCCAA-GGCACATCATTTGAAGCATAGCTTAAGTCGAGAAGGGTTA
1 GAGTTCGACTACACTCAGCT-CAATGGCACATCATTTGAAGCATAGCTTAAGTCGAGAAGGGCTA
3400358 TCTGCCAA
65 TCTGCCAA
3400366 CCGAAGACCT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
80 64 0.96
81 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (80 bp):
GAGTTCGACTACACTCAGCTCAATGGCACATCATTTGAAGCATAGCTTAAGTCGAGAAGGGCTAT
CTGCCAAAGACCCCC
Found at i:3400728 original size:17 final size:17
Alignment explanation
Indices: 3400704--3400769 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
3400694 AAAACATTAT
3400704 ATTA-TATTATTATTTA
1 ATTATTATTATTATTTA
*
3400720 TTTATTATTATTATTTA
1 ATTATTATTATTATTTA
*
3400737 ATTATTTAATT-TAATTTA
1 ATTA-TT-ATTATTATTTA
*
3400755 ATTTTTATT-TTATTT
1 ATTATTATTATTATTT
3400770 TATTTTTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
16 11 0.26
17 17 0.40
18 11 0.26
19 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTATTATTATTATTTA
Found at i:3400755 original size:18 final size:17
Alignment explanation
Indices: 3400732--3400776 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
3400722 TATTATTATT
3400732 ATTTAATTATTTAATTTA
1 ATTTAATT-TTTAATTTA
*
3400750 ATTTAATTTTT-ATTTT
1 ATTTAATTTTTAATTTA
*
3400766 ATTTTATTTTT
1 ATTTAATTTTT
3400777 TTGCAGGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 3 0.12
18 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTAATTTTTAATTTA
Found at i:3400761 original size:25 final size:25
Alignment explanation
Indices: 3400699--3400761 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
3400689 CTACAAAAAC
3400699 ATTAT-ATTATATT-ATTATTTATTT
1 ATTATAATTAT-TTAATTATTTATTT
*
3400723 ATTATTATTATTTAATTATTTAATTT
1 ATTATAATTATTTAATTATTT-ATTT
3400749 AATT-TAATT-TTTA
1 -ATTATAATTATTTA
3400762 TTTTATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 7 0.21
25 16 0.47
26 8 0.24
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTATAATTATTTAATTATTTATTT
Found at i:3400771 original size:17 final size:17
Alignment explanation
Indices: 3400705--3400776 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 17
3400695 AAACATTATA
* *
3400705 TTATATTATTATTTATTT
1 TTATTTTATT-TTAATTT
3400723 ATTATTATTA-TTTAATTAT
1 -TTATT-TTATTTTAATT-T
* *
3400742 TTAATTTAATTTAATTT
1 TTATTTTATTTTAATTT
3400759 TTATTTTATTTT-ATTT
1 TTATTTTATTTTAATTT
3400775 TT
1 TT
3400777 TTGCAGGCCC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
16 6 0.13
17 14 0.31
18 16 0.36
19 6 0.13
20 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTATTTTAATTT
Found at i:3400775 original size:10 final size:10
Alignment explanation
Indices: 3400716--3400774 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
3400706 TATATTATTA
3400716 TTTATTTATTAT
1 TTTATTTA--AT
3400728 TATTATTTAA-
1 T-TTATTTAAT
3400738 -TTATTTAAT
1 TTTATTTAAT
*
3400747 TTAATTTAATT
1 TTTATTTAA-T
*
3400758 TTTATTTTAT
1 TTTATTTAAT
3400768 TTTATTT
1 TTTATTT
3400775 TTTTGCAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
8 8 0.20
10 15 0.38
11 9 0.22
12 1 0.03
13 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTATTTAAT
Found at i:3400777 original size:17 final size:17
Alignment explanation
Indices: 3400716--3400777 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
3400706 TATATTATTA
*
3400716 TTTATTTATTATTATTAT
1 TTTATTTTTTATT-TTAT
* * * *
3400734 TTAATTATTTAATTTAA
1 TTTATTTTTTATTTTAT
*
3400751 TTTAATTTTTATTTTAT
1 TTTATTTTTTATTTTAT
3400768 TTTATTTTTT
1 TTTATTTTTT
3400778 TGCAGGCCCC
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
17 24 0.73
18 9 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTTTATTTTAT
Found at i:3402557 original size:10 final size:10
Alignment explanation
Indices: 3402542--3402569 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3402532 TTATTATTTT
3402542 TTTTATTTCA
1 TTTTATTTCA
3402552 TTTTATTTCA
1 TTTTATTTCA
3402562 TTTTATTT
1 TTTTATTT
3402570 TTTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATTTCA
Found at i:3402570 original size:26 final size:26
Alignment explanation
Indices: 3402512--3402571 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
3402502 GTTCCTTTTC
*
3402512 TTATATTTATTTCATTTAGTTTATTA
1 TTATTTTTATTTCATTTAGTTTATTA
*
3402538 TTTTTTTTATTTCATTTTA-TTTCATT-
1 TTATTTTTATTTCA-TTTAGTTT-ATTA
3402564 TTATTTTT
1 TTATTTTT
3402572 TTCCTTTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (26 bp):
TTATTTTTATTTCATTTAGTTTATTA
Found at i:3402574 original size:24 final size:24
Alignment explanation
Indices: 3402535--3402598 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
3402525 ATTTAGTTTA
3402535 TTATTTT-TTTTATTTCATTTT-AT
1 TTATTTTATTTT-TTTCATTTTGAT
*
3402558 TTCATTTTATTTTTTTCCTTTTGAT
1 TT-ATTTTATTTTTTTCATTTTGAT
*
3402583 TTATTTAATGTTTTTT
1 TTATTTTAT-TTTTTT
3402599 ACTTTCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 14 0.40
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (24 bp):
TTATTTTATTTTTTTCATTTTGAT
Found at i:3402584 original size:15 final size:15
Alignment explanation
Indices: 3402512--3402570 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
3402502 GTTCCTTTTC
3402512 TTATATTTATTTCA-T
1 TTAT-TTTATTTCATT
*
3402527 TTAGTTTA-TT-ATT
1 TTATTTTATTTCATT
3402540 TT-TTTTATTTCATT
1 TTATTTTATTTCATT
* *
3402554 TTATTTCATTTTATT
1 TTATTTTATTTCATT
3402569 TT
1 TT
3402571 TTTCCTTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 5 0.14
13 7 0.19
14 9 0.25
15 15 0.42
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTCATT
Found at i:3410761 original size:27 final size:27
Alignment explanation
Indices: 3410723--3410792 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
3410713 GATGGTCATG
*
3410723 CCATAGTTGGGGCCACGTGTGATAATA
1 CCATAGTTGGGGCCACGCGTGATAATA
* *
3410750 CCATAGTTGGGGCCATGCGTGATAATT
1 CCATAGTTGGGGCCACGCGTGATAATA
* *
3410777 CTATATTTGGGGCCAC
1 CCATAGTTGGGGCCAC
3410793 ACCACCTGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (27 bp):
CCATAGTTGGGGCCACGCGTGATAATA
Found at i:3414682 original size:21 final size:21
Alignment explanation
Indices: 3414653--3414693 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3414643 CGGTAAAAAA
*
3414653 TTACCGGAAACATTATTATTT
1 TTACAGGAAACATTATTATTT
*
3414674 TTACAGGAAATATTATTATT
1 TTACAGGAAACATTATTATT
3414694 GAGCGCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
TTACAGGAAACATTATTATTT
Found at i:3422464 original size:22 final size:22
Alignment explanation
Indices: 3422380--3422451 Score: 126
Period size: 22 Copynumber: 3.3 Consensus size: 22
3422370 TTCAGGACAG
*
3422380 AGTGGTCCTTCGGGACATATAT
1 AGTGGTCCTTCGGGACATATAC
3422402 AGTGGTCCTTCGGGACATATAC
1 AGTGGTCCTTCGGGACATATAC
*
3422424 ATTGGTCCTTCGGGACATATAC
1 AGTGGTCCTTCGGGACATATAC
3422446 AGTGGT
1 AGTGGT
3422452 TATTCGAGAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACATATAC
Found at i:3422856 original size:5 final size:5
Alignment explanation
Indices: 3422848--3422880 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
3422838 GTGTGATAGC
3422848 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG
3422881 TTCATGCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:3431765 original size:20 final size:20
Alignment explanation
Indices: 3431740--3431782 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3431730 TCTAAAAGCT
* *
3431740 CATTTAGGATCATATAGATG
1 CATTTAGGAGCACATAGATG
*
3431760 CATTTAGGAGCACATAGTTG
1 CATTTAGGAGCACATAGATG
3431780 CAT
1 CAT
3431783 GTGGTGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGGAGCACATAGATG
Found at i:3432997 original size:18 final size:18
Alignment explanation
Indices: 3432953--3433042 Score: 99
Period size: 18 Copynumber: 4.8 Consensus size: 18
3432943 GGGTCTACGC
**
3432953 GGTCCTTCAAGACATAGT
1 GGTCCTTCGGGACATAGT
3432971 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
* *
3432989 GGTCCTTCGTGACATATACAAT
1 GGTCCTTCGGGAC--AT--AGT
3433011 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
*
3433029 GGTCCTACGGGACA
1 GGTCCTTCGGGACA
3433043 AATTCTAAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
18 43 0.70
20 4 0.07
22 14 0.23
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:3433418 original size:5 final size:5
Alignment explanation
Indices: 3433410--3433446 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
3433400 GTGTGATAGC
3433410 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT AT
3433447 TTTCATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
ATGAT
Found at i:3441018 original size:25 final size:25
Alignment explanation
Indices: 3440962--3441018 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
3440952 ATCAAATCAA
*
3440962 ATTTTGGAGTGTACCTATAAAAAAT
1 ATTTTGTAGTGTACCTATAAAAAAT
3440987 ATTTTGTAGTGTACCTATAAAAAAT
1 ATTTTGTAGTGTACCTATAAAAAAT
3441012 ATTTTGT
1 ATTTTGT
3441019 TTAAATGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTTGTAGTGTACCTATAAAAAAT
Found at i:3474970 original size:3 final size:3
Alignment explanation
Indices: 3474962--3475075 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
3474952 TTTTTATCCA
*
3474962 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
3475010 TAT TA- TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3475057 TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
3475076 AATATATTAA
Statistics
Matches: 105, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
2 4 0.04
3 101 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3475557 original size:14 final size:14
Alignment explanation
Indices: 3475538--3475564 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3475528 AAGAAGGAGA
3475538 GACAGAGACAGAAG
1 GACAGAGACAGAAG
3475552 GACAGAGACAGAA
1 GACAGAGACAGAA
3475565 CCAAAAGAAA
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:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (14 bp):
GACAGAGACAGAAG
Found at i:3475872 original size:13 final size:13
Alignment explanation
Indices: 3475856--3475882 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3475846 CCACCGGAAA
3475856 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
3475869 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
3475882 C
1 C
3475883 AGAAATCGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.33, G:0.59, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:3476544 original size:22 final size:20
Alignment explanation
Indices: 3476503--3476547 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
3476493 ATAGAATTAT
**
3476503 TATTTTATTATATTGTTAAA
1 TATTTTATTATATTCATAAA
3476523 TATTTTGATATATATTCATAAA
1 TATTTT-AT-TATATTCATAAA
3476545 TAT
1 TAT
3476548 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTATTATATTCATAAA
Found at i:3487894 original size:6 final size:6
Alignment explanation
Indices: 3487868--3487915 Score: 51
Period size: 6 Copynumber: 7.3 Consensus size: 6
3487858 ATTATGCTTG
*
3487868 AAGAAA AAAAAA ATAGAAA AAGGAAAA GAAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA A-AGAAA AA-G-AAA -AAGAAA AAGAAA AAGAAA AA
3487916 AGGGGTCAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 21 0.58
7 9 0.25
8 4 0.11
9 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:3487900 original size:15 final size:15
Alignment explanation
Indices: 3487867--3487916 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
3487857 TATTATGCTT
3487867 GAAGAAAAA-AAAAA
1 GAAGAAAAAGAAAAA
* *
3487881 -TAGAAAAAGGAAAA
1 GAAGAAAAAGAAAAA
3487895 GAAGAAAAAGAAAAA
1 GAAGAAAAAGAAAAA
3487910 GAA-AAAA
1 GAAGAAAA
3487917 GGGGTCAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 7 0.23
14 8 0.27
15 15 0.50
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
GAAGAAAAAGAAAAA
Found at i:3487907 original size:21 final size:20
Alignment explanation
Indices: 3487870--3487916 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
3487860 TATGCTTGAA
3487870 GAAAAAAAAAATAGAAAAAG
1 GAAAAAAAAAATAGAAAAAG
3487890 GAAAAGAAGAAAA-AGAAAAA-
1 GAAAA-AA-AAAATAGAAAAAG
3487910 GAAAAAA
1 GAAAAAA
3487917 GGGGTCAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.08
20 10 0.40
21 9 0.36
22 4 0.16
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAAATAGAAAAAG
Found at i:3488956 original size:52 final size:52
Alignment explanation
Indices: 3488896--3489109 Score: 378
Period size: 52 Copynumber: 4.1 Consensus size: 52
3488886 GGAAAAGCAT
3488896 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
3488948 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
3488999 TCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 -CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
3489052 CAGAACATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGA
3489104 CAGAAC
1 CAGAAC
3489110 CAATCATTGA
Statistics
Matches: 156, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
51 2 0.01
52 148 0.95
53 6 0.04
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
Found at i:3489197 original size:83 final size:83
Alignment explanation
Indices: 3489058--3489269 Score: 354
Period size: 83 Copynumber: 2.6 Consensus size: 83
3489048 TGGACAGAAC
*
3489058 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
3489123 TGGAAGATGAATTTGCTA
66 TGGAAGATGAATTTGCTA
* *
3489141 ATAGCATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTGG-TTGGACAGAATCAATCATTGAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGAAT
*
3489205 TTGGAAGATGAATTTGTTA
65 TTGGAAGATGAATTTGCTA
* *
3489224 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGTTTTGG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
3489270 TAAGAACTAC
Statistics
Matches: 120, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
82 4 0.03
83 112 0.93
84 4 0.03
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
TGGAAGATGAATTTGCTA
Found at i:3490147 original size:118 final size:116
Alignment explanation
Indices: 3489905--3490585 Score: 1015
Period size: 118 Copynumber: 5.9 Consensus size: 116
3489895 GCAAAGATTC
* * * * **
3489905 AAATTTATCATTTGAAGGATCAGCTTTTCCAG-TTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATTCATCACTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCT
3489969 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
66 GAAGAAGGAAGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
3490021 AAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 AAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATC
3490086 TGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
65 TGAAGAAGGAAGA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
3490139 AAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATC
1 AAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATC
3490200 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
65 TGAAGAAGGAAG-AAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
3490253 AAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 AAATTCATCACTTGATGGATCA-TCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATC
*
3490318 TGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
65 TGAAGAAGGAAGA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * *
3490371 GAATTCATCAAATTGATGGATCATCGTTTCCAGAGGAAGAGTTCACAATGAGAAGAACTCGTCAT
1 AAATTCATC-ACTTGATGGATCATCTTTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGTCAT
* *
3490436 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
64 CTGAAGAAGGAAGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * *
3490490 GAATTCATCATTTGATGGATCGA-CATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCAT
1 AAATTCATCACTTGATGGATC-ATCTTTTCCAGAG-AAGAGTTCATAATGAGAAGAACTCGTCAT
3490549 CTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
64 CTGAAGAAGGAAG-AAAAGTTCATAATGAGAAGAACT
3490586 CATCAAGAGC
Statistics
Matches: 533, Mismatches: 17, Indels: 33
0.91 0.03 0.06
Matches are distributed among these distances:
113 37 0.07
114 97 0.18
115 19 0.04
116 37 0.07
117 30 0.06
118 210 0.39
119 103 0.19
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (116 bp):
AAATTCATCACTTGATGGATCATCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCT
GAAGAAGGAAGAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
Found at i:3490337 original size:232 final size:236
Alignment explanation
Indices: 3489939--3490585 Score: 1048
Period size: 232 Copynumber: 2.8 Consensus size: 236
3489929 TTTTCCAGTT
3489939 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 AGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
3490004 TGTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAAT
65 TGTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAAT
3490069 GAGAAGAACTCGTCATCTGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
130 GAGAAGAACTCGTCATCTGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
* * *
3490134 TGTTTAAATTCATC-ACTTGATGGATCATTCTTTTCCAGA-GA
195 TGCTTAAATTCATCAAATTGATGGATCA-TCGTTTCCAGAGGA
*
3490175 AG-GTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTT
1 AGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
3490237 GTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAATG
66 GTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAATG
3490302 AGAAGAACTCGTCATCTGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
131 AGAAGAACTCGTCATCTGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
*
3490367 GCTTGAATTCATCAAATTGATGGATCATCGTTTCCAGAGGA
196 GCTTAAATTCATCAAATTGATGGATCATCGTTTCCAGAGGA
* *
3490408 AGAGTTCACAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
1 AGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * * * *
3490473 TGTTCAACCTTTTGCTTGAATTCATCATTTGATGGATCGA--CATTACCAG-GTAA-AGTTCATA
65 TGTTCAACCTTTTGTTTAAATTCATCACTTGATGGATC-ATTCTTTTCCAGAG-AAGAGTTCATA
*
3490534 ATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
128 ATGAGAAGAACTCGTCATCTGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACT
3490586 CATCAAGAGC
Statistics
Matches: 389, Mismatches: 14, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
232 232 0.60
233 18 0.05
234 16 0.04
235 36 0.09
236 12 0.03
237 74 0.19
238 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (236 bp):
AGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAATG
AGAAGAACTCGTCATCTGAAGAAGGAAGATAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
GCTTAAATTCATCAAATTGATGGATCATCGTTTCCAGAGGA
Found at i:3490580 original size:350 final size:347
Alignment explanation
Indices: 3489905--3490585 Score: 1084
Period size: 350 Copynumber: 2.0 Consensus size: 347
3489895 GCAAAGATTC
* * **
3489905 AAATTTATCATTTGAAGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCACTTGAAGGATCAGCTTTTCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
3489970 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATTCATCACTTG
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCAATTG
* *
3490035 ATGGATCATTCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAT
131 ATGGATCATTCGTTTCCAGAGAAGAGTTCACAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAT
* *
3490100 AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATTCATCACTTGATGGATCATTCT
196 AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCA-TCA
* *
3490165 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGA
260 TTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGA
3490230 AGAACTTGTTCAACCTTTTGTTT
325 AGAACTTGTTCAACCTTTTGTTT
* *
3490253 AAATTCATCACTTGATGGATCATTCTTTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 AAATTCATCACTTGAAGGATCA-GCTTTTCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATC
*
3490318 TGAAGAAGGAAGATA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAA
64 TGAAGAAGGAAGA-AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATC-A
3490382 ATTGATGGATCA-TCGTTTCCAGAGGAAGAGTTCACAATGAGAAGAACTCGTCATCTGAAGAAGG
127 ATTGATGGATCATTCGTTTCCAGA-GAAGAGTTCACAATGAGAAGAACTCGTCATCTGAAGAAGG
* * *
3490446 AAGA-AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTTGATGGAT
191 AAGATA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGAT
3490510 CGA-CATTACCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCAT
255 C-ATCATTACCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCAT
3490573 AATGAGAAGAACT
318 AATGAGAAGAACT
3490586 CATCAAGAGC
Statistics
Matches: 307, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
348 19 0.06
349 10 0.03
350 166 0.54
351 111 0.36
352 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (347 bp):
AAATTCATCACTTGAAGGATCAGCTTTTCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCAATTG
ATGGATCATTCGTTTCCAGAGAAGAGTTCACAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAT
AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCATCAT
TACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAA
GAACTTGTTCAACCTTTTGTTT
Found at i:3490839 original size:3 final size:3
Alignment explanation
Indices: 3490831--3490933 Score: 190
Period size: 3 Copynumber: 34.7 Consensus size: 3
3490821 TTTTTATCCA
*
3490831 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3490879 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3490926 TAT TAT TA
1 TAT TAT TA
3490934 AATATATTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 95 0.98
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3491415 original size:14 final size:14
Alignment explanation
Indices: 3491396--3491422 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3491386 AAGAAGGAGA
3491396 GACAGAGACAGAAG
1 GACAGAGACAGAAG
3491410 GACAGAGACAGAA
1 GACAGAGACAGAA
3491423 CCAAAAGAAA
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:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (14 bp):
GACAGAGACAGAAG
Found at i:3492381 original size:22 final size:20
Alignment explanation
Indices: 3492340--3492384 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
3492330 ATAGAATTAT
**
3492340 TATTTTATTATATTGTTAAA
1 TATTTTATTATATTCATAAA
3492360 TATTTTGATATATATTCATAAA
1 TATTTT-AT-TATATTCATAAA
3492382 TAT
1 TAT
3492385 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTATTATATTCATAAA
Found at i:3494295 original size:21 final size:22
Alignment explanation
Indices: 3494270--3494310 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3494260 CTGATTTTTG
3494270 TATATG-GTGTTATCATGAACA
1 TATATGAGTGTTATCATGAACA
* *
3494291 TATATGATTTTTATCATGAA
1 TATATGAGTGTTATCATGAA
3494311 TAATAATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (22 bp):
TATATGAGTGTTATCATGAACA
Found at i:3494713 original size:46 final size:46
Alignment explanation
Indices: 3494658--3494787 Score: 183
Period size: 46 Copynumber: 2.8 Consensus size: 46
3494648 ATGGTAACCA
* * *
3494658 GGTAAAATAAGCTTACAAGCTTATGGGATTAAATGGTATGTATTTT
1 GGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATT
* **
3494704 GTTAAAATAAGCTTACGAGCTTATCTGATTAAATGGTAAGTATATT
1 GGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATT
3494750 GGTAAAATAAGCTTACGAGCTTA-GGG-TATAAATGGTAA
1 GGTAAAATAAGCTTACGAGCTTATGGGAT-TAAATGGTAA
3494788 AAGATTTTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
44 1 0.01
45 11 0.15
46 62 0.84
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.34
Consensus pattern (46 bp):
GGTAAAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATATT
Found at i:3496164 original size:20 final size:20
Alignment explanation
Indices: 3496141--3496183 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3496131 AGCATATCCA
**
3496141 ATATACTTGTCATTTATCTC
1 ATATACTTACCATTTATCTC
3496161 ATATACTTACCATTTATCTC
1 ATATACTTACCATTTATCTC
3496181 ATA
1 ATA
3496184 AGCTTGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATACTTACCATTTATCTC
Done.