Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 71 of 185
Found at i:21462996 original size:100 final size:100
Alignment explanation
Indices: 21462816--21463112 Score: 326
Period size: 100 Copynumber: 2.9 Consensus size: 100
21462806 GATAATAACA
* ** * * *
21462816 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGT-ACTGCCAATGCCATATC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCAGTGCCAATGCCATGTC
* * **
21462880 CCAGATATGGTCTTACACGGGAGTTCTCATATCGG
66 CCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * ** *
21462915 TGCCCATGCCATGTCCCACAAATGGTCTTACGGGGGACCTTTCATCTCAGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCAGTGCCAATGCCATGTC
* * *
21462980 CCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
66 CCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
21463015 TGCCAACGCCATGTCCTAGACATTGTCTTACATGGGACCTTTCATGATCTCAAGGATGCCAATGC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTC---ATCTC-A-G-TGCCAATGC
*
21463080 CATGTCCCAGACATGGTCTTACATGGGATCTCT
60 CATGTCCCAGACATGGTCTTACATGGGACCTCT
21463113 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
99 38 0.24
100 77 0.48
103 5 0.03
104 1 0.01
105 1 0.01
106 39 0.24
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCAGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:21464483 original size:202 final size:202
Alignment explanation
Indices: 21464137--21464541 Score: 758
Period size: 202 Copynumber: 2.0 Consensus size: 202
21464127 ACCCACTTTT
21464137 GCAATTAAGTCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATA
1 GCAATTAAGTCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATA
*
21464202 CATATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTCTTTAAATCATAGTTGT
66 CATATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTATTTAAATCATAGTTGT
21464267 GGTTACGAAACCACTATTCTGATAACATTAAATTTGGGT-CATTACAGAAATGGTGAAATAAATG
131 GGTTACGAAACCACTATTCTGATAACATTAAATTT-GGTCCATTACAGAAATGGTGAAATAAATG
21464331 AAATATAG
195 AAATATAG
21464339 GCAATTAAGTCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATA
1 GCAATTAAGTCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATA
* *
21464404 CTTATATCTAATCACTCGATAAATCTTAAAAATTAATAATAATTTTCTATTTAAATCATAGTTGT
66 CATATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTATTTAAATCATAGTTGT
*
21464469 GGTTACGAAACCACTATTCTGATAACCTTAAATTTGGTCCATTACAGAAATGGTGAAATAAATGA
131 GGTTACGAAACCACTATTCTGATAACATTAAATTTGGTCCATTACAGAAATGGTGAAATAAATGA
21464534 AATATAG
196 AATATAG
21464541 G
1 G
21464542 GCTTGTTATG
Statistics
Matches: 198, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
201 3 0.02
202 195 0.98
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (202 bp):
GCAATTAAGTCCTAATAGGCAATTTAGGCATGCAATCAATAAAATTTCTTATCAATACTCTAATA
CATATATCTAATCACTCGATAAATCTTAAAAATTAATAAAAATTTTCTATTTAAATCATAGTTGT
GGTTACGAAACCACTATTCTGATAACATTAAATTTGGTCCATTACAGAAATGGTGAAATAAATGA
AATATAG
Found at i:21471314 original size:42 final size:42
Alignment explanation
Indices: 21471268--21471366 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
21471258 ATGGCCTAAG
* * *
21471268 ACACGACCTGGCACACGTA-TATGTCAGGCAATTTCGTGAGTT
1 ACACGACCTGGCACACG-AGTATGTCAGGAAATTTCATGAGGT
* * *
21471310 ACACGGCCTGGCACACGAGTGTGTGAGGAAATTTCATGAGGT
1 ACACGACCTGGCACACGAGTATGTCAGGAAATTTCATGAGGT
21471352 ACAC-AGCCTGGCACA
1 ACACGA-CCTGGCACA
21471367 TGGGCATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (42 bp):
ACACGACCTGGCACACGAGTATGTCAGGAAATTTCATGAGGT
Found at i:21471377 original size:42 final size:42
Alignment explanation
Indices: 21471274--21471377 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
21471264 TAAGACACGA
* * * * * *
21471274 CCTGGCACACGTA-TATGTCAGGCAATTTCGTGAGTTACACGG
1 CCTGGCACACG-AGCATGTGAGGAAATTTCATGAGGTACACAG
**
21471316 CCTGGCACACGAGTGTGTGAGGAAATTTCATGAGGTACACAG
1 CCTGGCACACGAGCATGTGAGGAAATTTCATGAGGTACACAG
* *
21471358 CCTGGCACATGGGCATGTGA
1 CCTGGCACACGAGCATGTGA
21471378 CACGGCCGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (42 bp):
CCTGGCACACGAGCATGTGAGGAAATTTCATGAGGTACACAG
Found at i:21476840 original size:30 final size:30
Alignment explanation
Indices: 21476779--21476840 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
21476769 GTTTTTTGAA
* * * * **
21476779 AATATTTACAAAATGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
21476809 AATATTTACAAAAAGAGAAACCAAAAATTT
1 AATATTTACAAAAAGAGAAACCAAAAATTT
21476839 AA
1 AA
21476841 AAATAATTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAAATTT
Found at i:21484555 original size:60 final size:60
Alignment explanation
Indices: 21484488--21484607 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
21484478 GCAAGAGCCA
* * *
21484488 AGACTTGAACCCAGGCTCCCTTGGAACCTTAATGACACCGCAACCACTAGACCATAAGCT
1 AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACAACTAGACCACAAGCT
* *
21484548 AGACTTGAACCTAGGCTCCCTTGCAACCTTAATGACACTGCAACAACTAGACCACAAGCT
1 AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACAACTAGACCACAAGCT
21484608 TCCTTATGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (60 bp):
AGACTTGAACCCAGGCTCCCTTGCAACCTTAATGACACCGCAACAACTAGACCACAAGCT
Found at i:21488740 original size:21 final size:21
Alignment explanation
Indices: 21488698--21488748 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
21488688 CTCCTACTGG
* ***
21488698 TTAGGGTTTGGGGTTTTTGTT
1 TTAGGGTTTAGGGTTAAGGTT
21488719 TTAGGGTTTAGGGTTAAGGTT
1 TTAGGGTTTAGGGTTAAGGTT
*
21488740 TTATGGTTT
1 TTAGGGTTT
21488749 TTAAGTTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTAAGGTT
Found at i:21489107 original size:126 final size:126
Alignment explanation
Indices: 21488965--21489256 Score: 431
Period size: 126 Copynumber: 2.3 Consensus size: 126
21488955 TAATTTCAAA
** *
21488965 AAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* * * * *
21489030 CTGAGTAAATAGTGTCAAAAACGCTTTTAGTAGGATGCTTTGTCAACAAAAGTACTGAAAG
66 CTGAGCAAATACTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
* * * * *
21489091 AAGCTCCCGCGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGGGTAGACATTT
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
* *
21489156 CTGAGCAAATACTGTTAAAAACGCTTTAAGCAGGATGATTTGTGAACAAAAGTACTGAAAG
66 CTGAGCAAATACTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
* *
21489217 AAGCTCCCACGTCGACGCACTTTTGCTATAGTAGCTCCTG
1 AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTG
21489257 TTTGGCCTGA
Statistics
Matches: 148, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 148 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGAAGACATTT
CTGAGCAAATACTGTCAAAAACGCTTTAAGCAGGATGATTTGTCAACAAAAGTACTGAAAG
Found at i:21492353 original size:11 final size:11
Alignment explanation
Indices: 21492334--21492406 Score: 69
Period size: 11 Copynumber: 6.6 Consensus size: 11
21492324 TAAAATGAAT
21492334 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
21492345 TTGAAAGGAAC
1 TTGAGAGGAAA
*
21492356 TTGAGAGGAAT
1 TTGAGAGGAAA
* *
21492367 TTAAGAGGAAT
1 TTGAGAGGAAA
21492378 TTGAGA-GAATA
1 TTGAGAGGAA-A
21492389 TTG-GAGAGAAA
1 TTGAGAG-GAAA
21492400 TTGAGAG
1 TTGAGAG
21492407 AAAGGATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.10
11 40 0.78
12 6 0.12
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:21494791 original size:17 final size:17
Alignment explanation
Indices: 21494715--21494792 Score: 57
Period size: 21 Copynumber: 4.2 Consensus size: 17
21494705 TTCAAAAATA
* *
21494715 ATAAAATATATAATTTT
1 ATAAAAAATAAAATTTT
21494732 ATTAAAATAATAAAAATATTT
1 A-TAAAA-AAT-AAAAT-TTT
*
21494753 ATACATAAAAGTAAAATATT
1 ATA-A-AAAA-TAAAATTTT
*
21494773 ATAAAAAATATAATTTT
1 ATAAAAAATAAAATTTT
21494790 ATA
1 ATA
21494793 TTAACATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
17 11 0.22
18 9 0.18
19 3 0.06
20 11 0.22
21 12 0.24
22 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (17 bp):
ATAAAAAATAAAATTTT
Found at i:21494940 original size:22 final size:22
Alignment explanation
Indices: 21494907--21494956 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
21494897 AAAATAAAAA
21494907 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
21494929 ATAT-ATTATTATAATTAAATTT
1 ATATAATT-TTATAATTAAATTT
*
21494951 AAATAA
1 ATATAA
21494957 AAATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 15 0.62
23 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:21496137 original size:20 final size:19
Alignment explanation
Indices: 21496101--21496142 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
21496091 TGATTAAACA
*
21496101 ATATAATTTCATGTAATACT
1 ATATAATTTCATATAAT-CT
21496121 ATATAATTT-ATTATAATCT
1 ATATAATTTCA-TATAATCT
21496140 ATA
1 ATA
21496143 GTAAAACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATAATTTCATATAATCT
Found at i:21496347 original size:247 final size:251
Alignment explanation
Indices: 21495917--21496667 Score: 796
Period size: 247 Copynumber: 3.0 Consensus size: 251
21495907 AGAGTAGTAG
* * * *
21495917 AGTAGTACATAATATATTAATTATTATCATATGTTATTGTTTATTATTATACTGGTTGAAATATG
1 AGTAGTACATTATATATTAATTATTAT-ATA--TTATTGTTTATCATTATACTAGTTGAAATATA
** * * * * * *
21495982 CTCTAAGCC-CTTATAGTTTTCCTACATTTTGAAAGTTAGCTCTCATACTATATTATATAATGT-
63 CTCTAAGCCTC-TATACATTTCGTA-AATTTGAAAATTA-CCCTCCTACTATATCATATAATGTA
* * *
21496045 T-ATATCATATC-------ATATCATATATTGATAGTTTATATATATGCATCAATGATTAAACAA
125 TCATATCATATCATATAGTATATAATATATTAATAGTTTAT-T-TGTGCATCAATGATTAAACAA
* ** * *
21496102 TATAATTTCATGTAATACTATATAATTTATTATAATCTATAGTAAAACT-ATAGTTATTTATAAT
188 TATAATATCATGTAATACTATATCTTTTATTATAATCTATAATAAAA-TAATAGTTATATATAAT
* * * * * *
21496166 TGTAGTTCATTATATATTAATTGTTATATCTTATTGTTTATCA-TATAGTAGTTTAAATATACTC
1 AGTAGTACATTATATATTAATTATTATATATTATTGTTTATCATTATACTAGTTGAAATATACTC
* * * *
21496230 TAAGTCTCTATACTTTTCGTAAATTTGAAAATTA-GCTCCTGCTATATCATATAATG-AT-ATAT
66 TAAGCCTCTATACATTTCGTAAATTTGAAAATTACCCTCCTACTATATCATATAATGTATCATAT
*
21496292 CATATCATATAGTATATAATATATTAATAGTTTATTTGTGCATCAATGATTAAACATTATAATAT
131 CATATCATATAGTATATAATATATTAATAGTTTATTTGTGCATCAATGATTAAACAATATAATAT
** * * *
21496357 CACATAATACTATATCTTTTATTATAGT-TCATAATATAATAATAGTTATATCTAAT
196 CATGTAATACTATATCTTTTATTATAATCT-ATAATAAAATAATAGTTATATATAAT
* * *
21496413 AGTAGTACATTATATATTAATTATTATATATTATTGTTTATTATTATACTGGTTGAAATATGCTC
1 AGTAGTACATTATATATTAATTATTATATATTATTGTTTATCATTATACTAGTTGAAATATACTC
* * *
21496478 TAAGCCTCTATACATTTCGTACATTTGAAAGTTACCCTCCTACTATATTATATAATGTTATATCA
66 TAAGCCTCTATACATTTCGTAAATTTGAAAATTACCCTCCTACTATATCATATAATG---TATCA
* * * *
21496543 TATCATATCATATAGTATGTAATATATTAAAAGCTTATATGTGTACGCATCTATGATTAAACAAT
128 TATCATATCATATAGTATATAATATATTAATAG-TT-TATTTGT--GCATCAATGATTAAACAAT
* * *
21496608 TTAATATCATGTAATATTATATCTTTTATTATAATCTATAATATAATAATAGTTATATAT
189 ATAATATCATGTAATACTATATCTTTTATTATAATCTATAATAAAATAATAGTTATATAT
21496668 TTCCTTAAAA
Statistics
Matches: 419, Mismatches: 60, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
242 29 0.07
244 11 0.03
245 33 0.08
246 15 0.04
247 107 0.26
248 50 0.12
249 62 0.15
253 2 0.00
254 32 0.08
255 2 0.00
256 6 0.01
258 69 0.16
259 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (251 bp):
AGTAGTACATTATATATTAATTATTATATATTATTGTTTATCATTATACTAGTTGAAATATACTC
TAAGCCTCTATACATTTCGTAAATTTGAAAATTACCCTCCTACTATATCATATAATGTATCATAT
CATATCATATAGTATATAATATATTAATAGTTTATTTGTGCATCAATGATTAAACAATATAATAT
CATGTAATACTATATCTTTTATTATAATCTATAATAAAATAATAGTTATATATAAT
Found at i:21497071 original size:41 final size:41
Alignment explanation
Indices: 21497016--21497115 Score: 146
Period size: 44 Copynumber: 2.4 Consensus size: 41
21497006 AAAATCAAGC
* *
21497016 ATTACCGGCCCTTTTAAAAAAAACACCGTTAAAGATCGAGT
1 ATTAGCGGCGCTTTTAAAAAAAACACCGTTAAAGATCGAGT
*
21497057 ATTAGCGGCGCTTTTTGTAAAAAAAACGCCGTTAAAGATCGAGT
1 ATTAGCGGCGC--TTT-TAAAAAAAACACCGTTAAAGATCGAGT
21497101 ATTAGCGGCGCTTTT
1 ATTAGCGGCGCTTTT
21497116 TGAAAAGTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
41 10 0.19
42 3 0.06
43 3 0.06
44 37 0.70
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTAAAAAAAACACCGTTAAAGATCGAGT
Found at i:21497089 original size:44 final size:44
Alignment explanation
Indices: 21497030--21497121 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
21497020 CCGGCCCTTT
21497030 TAAAAAAAACACCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
1 TAAAAAAAACACCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
*
21497074 TAAAAAAAACGCCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
1 TAAAAAAAACACCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
21497118 -AAAA
1 TAAAA
21497122 GTGCCACTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 4 0.09
44 43 0.91
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (44 bp):
TAAAAAAAACACCGTTAAAGATCGAGTATTAGCGGCGCTTTTTG
Found at i:21497268 original size:41 final size:41
Alignment explanation
Indices: 21497205--21497718 Score: 530
Period size: 41 Copynumber: 12.8 Consensus size: 41
21497195 CTTTGAGTTT
* * *
21497205 TCGGGGCTTTAGTGGCGTTTTTGAAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* **
21497246 TCAGGGCTTTAGCGGCACTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
21497287 TCGGGGGCTTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATGC
1 TC-GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
21497329 TCGGGGCTTTAGCAGCGTTTTTGGAAAAG-GCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
21497369 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCACTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* ** * * *
21497410 -CTAGGGCTTTAATGGCGTTTTTGGAGAAGCGCCACTAGTGC
1 TC-GGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * ** * * * *
21497451 TCGAGGCTTTAGCCGAATTTTGGGAGAAGCACCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * * *
21497492 TCGGGGCTTTAGGGGCGTTTTGGGAGAAGCGTCGCTAGTGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
21497533 TCGAGGCTTTAGCGGCATTTTTGGAAAAGCGCCCCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
21497574 TCGGGGCTTTAACGGCGTTTTTGGAGAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
** * * *
21497615 AGGGGGCTTTAGCGTCGTTTTTGGAGAAGTGCCGCTAATG-
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
21497655 -C-AGG-----G-GGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
*
21497688 TCAGGGCTTTAGCGGCGTTTGTT-GAAAAGCG
1 TCGGGGCTTTAGCGGCGTTT-TTGGAAAAGCG
21497719 TCGCAAAAAT
Statistics
Matches: 397, Mismatches: 62, Indels: 28
0.82 0.13 0.06
Matches are distributed among these distances:
32 24 0.06
33 1 0.00
34 1 0.00
35 2 0.01
38 2 0.01
40 40 0.10
41 287 0.72
42 40 0.10
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:21498415 original size:21 final size:20
Alignment explanation
Indices: 21498381--21498421 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
21498371 TTAGGGATTA
*
21498381 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
21498401 GGGATTTAAGGTTTAAGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
21498422 AGACATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:21502100 original size:43 final size:43
Alignment explanation
Indices: 21502040--21502130 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
21502030 CTTTGAGTTC
* *
21502040 ATTA-CAAGATTTCCTTGATTAA-ATAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGA-AAATGCATTATATCTTTT
* *
21502082 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
21502125 ATTACC
1 ATTACC
21502131 TTGCATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:21502484 original size:43 final size:42
Alignment explanation
Indices: 21502401--21502707 Score: 357
Period size: 43 Copynumber: 7.2 Consensus size: 42
21502391 ATGTTTTTAA
* *
21502401 CGGCGTTTGTGTGAAAAGCGCTGCTAAAGGTC-TGTTCTATAG
1 CGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTTGATCTATAG
21502443 CGGCGTTTGTACGGAAAA-CGCCGCTAAAGGTCTTGATCTATAG
1 CGGCGTTTGT--GGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
* * * *
21502486 CGGCGTTTGTGGGAAAAGTGTCGCTAAATGTCTTGATTTATAG
1 CGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
* * * * * *
21502529 CGGCATTTGTGAAAAAAGCGCTGCTAAAGATCTTGAGCTATAC
1 CGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTTGATCTATAG
*
21502572 CGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAG
1 CGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
* * * * *
21502614 CAGCGTTTCTGGAAAAGGCACCACTAAAGGTCCTGATCTATAG
1 CGGCGTTTGTGGAAAA-GCGCCGCTAAAGGTCTTGATCTATAG
* *
21502657 CGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGATCTATAG
1 CGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
21502700 CGGCGTTT
1 CGGCGTTT
21502708 ATTTATATAA
Statistics
Matches: 224, Mismatches: 34, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
42 69 0.31
43 148 0.66
44 7 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (42 bp):
CGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGATCTATAG
Found at i:21502563 original size:86 final size:85
Alignment explanation
Indices: 21502401--21502707 Score: 359
Period size: 85 Copynumber: 3.6 Consensus size: 85
21502391 ATGTTTTTAA
* * * *
21502401 CGGCGTTTGTGTGAAAAGCGCTGCTAAAGGTCTGTTCTATAGCGGCGTTTGT-ACGGAAAA-CGC
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTGA--AAAAAGCGC
21502464 CGCTAAAGGTCTTGATCTATAG
64 CGCTAAAGGTCTTGATCTATAG
* * * * * *
21502486 CGGCGTTTGTGGGAAAAGTGTCGCTAAATGTCTTGATTTATAGCGGCATTTGTGAAAAAAGCGCT
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGCGTTTGTGAAAAAAGCGCC
* * *
21502551 GCTAAAGATCTTGAGCTATAC
65 GCTAAAGGTCTTGATCTATAG
* * * * *
21502572 CGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCAGCGTTTCTGGAAAAGGCACC
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CTGATCTATAGCGGCGTTTGTGAAAAAAGCGCC
* *
21502636 ACTAAAGGTCCTGATCTATAG
65 GCTAAAGGTCTTGATCTATAG
*
21502657 CGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGCGTTT
21502708 ATTTATATAA
Statistics
Matches: 185, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
85 99 0.54
86 85 0.46
87 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (85 bp):
CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTGAAAAAAGCGCCG
CTAAAGGTCTTGATCTATAG
Found at i:21502641 original size:128 final size:128
Alignment explanation
Indices: 21502414--21502707 Score: 364
Period size: 128 Copynumber: 2.3 Consensus size: 128
21502404 CGTTTGTGTG
* *
21502414 AAAAGCGCTGCTAAAGGTCTGTTCTATAGCGGCGTTTGTACGGAAAACGCCGCTAAAGGTCTTGA
1 AAAAGCGCTGCTAAAGGTCTGATCTATAGCGGCGTTTGTA-GGAAAACGCCGCTAAAGGTCCTGA
* * * * * * *
21502479 TCTATAGCGGCGTTTGTGGGAAAAGTGTCGCTAAATGTCTTGATTTATAGCGGCATTTGT-GAA
65 TCTATAGCAGCGTTTCTGGGAAAAGTGCCACTAAAGGTCCTGATCTATAGCGGCATTTGTGGAA
* * *
21502542 AAAAGCGCTGCTAAAGATCTTGAGCTATACCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTG
1 AAAAGCGCTGCTAAAGGTC-TGATCTATAGCGGCGTTTGTAGGAAAA-CGCCGCTAAAGGTCCTG
*
21502606 ATCTATAGCAGCGTTTCT-GGAAAAG-GCACCACTAAAGGTCCTGATCTATAGCGGCGTTTGTGG
64 ATCTATAGCAGCGTTTCTGGGAAAAGTG--CCACTAAAGGTCCTGATCTATAGCGGCATTTGTGG
*
21502669 GA
127 AA
*
21502671 AAAA-CGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 AAAAGCGCTGCTAAAGGTC-TGATCTATAGCGGCGTTT
21502708 ATTTATATAA
Statistics
Matches: 142, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
126 1 0.01
127 13 0.09
128 105 0.74
129 23 0.16
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (128 bp):
AAAAGCGCTGCTAAAGGTCTGATCTATAGCGGCGTTTGTAGGAAAACGCCGCTAAAGGTCCTGAT
CTATAGCAGCGTTTCTGGGAAAAGTGCCACTAAAGGTCCTGATCTATAGCGGCATTTGTGGAA
Found at i:21511220 original size:31 final size:31
Alignment explanation
Indices: 21511174--21511241 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
21511164 ATGGGGGTAG
* *
21511174 GACATTGTATCTGTTCCGA-TCTG-TTCTGCAT
1 GACACTGTATATGTT-CGAGTCTGCTT-TGCAT
*
21511205 GACACTGTATATGTTCTAGTCTGCTTTGCAT
1 GACACTGTATATGTTCGAGTCTGCTTTGCAT
21511236 GACACT
1 GACACT
21511242 ATATCTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 28 0.88
32 2 0.06
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (31 bp):
GACACTGTATATGTTCGAGTCTGCTTTGCAT
Found at i:21514490 original size:22 final size:22
Alignment explanation
Indices: 21514463--21514507 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21514453 TCGCTATAAA
21514463 TTCGTTGATTGAAAATCTTGAT
1 TTCGTTGATTGAAAATCTTGAT
21514485 TTCGTTGATTGAAAATCTTGAT
1 TTCGTTGATTGAAAATCTTGAT
21514507 T
1 T
21514508 CAAGAAACTT
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:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (22 bp):
TTCGTTGATTGAAAATCTTGAT
Found at i:21515674 original size:14 final size:14
Alignment explanation
Indices: 21515657--21515684 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21515647 ACTATTTTTA
21515657 TACATTAGTAATAT
1 TACATTAGTAATAT
21515671 TACATTAGTAATAT
1 TACATTAGTAATAT
21515685 ACTAATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TACATTAGTAATAT
Found at i:21525359 original size:389 final size:389
Alignment explanation
Indices: 21524627--21525409 Score: 1287
Period size: 389 Copynumber: 2.0 Consensus size: 389
21524617 CGGCTTGTTC
*
21524627 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACACCCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACAACCAATGGGAG
*
21524692 TTTTCCATACACTAGATAACTAACCAAATCCGCATACTAAGAGGTTCCACCTACAGCAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCACCTACAGCAAATAACT
* * * *
21524757 TCTCATCTGGGAATGCATCGACAATTTGAAGTATGTTTCCATTTTCGCTGCCAACTTTCAATCGA
131 TCTCATCTGGGAATGCATAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
*
21524822 GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCGATGTCGAATTCTTG
196 GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
* * * *
21524887 GTTTTGCATCCTTCTTTGTAAAAAGATATCTCAACGACGAGTGATTAGTAAATACGGTAACCTTT
261 GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAAACTTT
* * * *
21524952 GGGCCGAAAAGGTAAGAACAAAACTTGTTGAAAGCAAAGACTACAGCCAACAATTCTTTCTCTG
326 GGGCCGAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
* *
21525016 TAGTGGTACTTCACTACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTTACAACCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACAACCAATGGGAG
* * * * * *
21525081 TTTTCCATACACTAGATAATTAACCAAATCTGCATACCAAGGGGTTGCATCTATAGCAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCACCTACAGCAAATAACT
*
21525146 TCTCATCTGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
131 TCTCATCTGGGAATGCATAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
*
21525211 GATAGATGGTCTGCAACCTGATTTTTTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
196 GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
* *
21525276 GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGCCAATTGATCAGTAAATACGGTAAACTTT
261 GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAAACTTT
* * * *
21525341 GTGTCGACAAGATAAGAACGAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
326 GGGCCGAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
21525405 TAGTG
1 TAGTG
21525410 CTATAATTAA
Statistics
Matches: 363, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
389 363 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (389 bp):
TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACAACCAATGGGAG
TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCACCTACAGCAAATAACT
TCTCATCTGGGAATGCATAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAAACTTT
GGGCCGAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
Found at i:21536824 original size:17 final size:18
Alignment explanation
Indices: 21536799--21536834 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21536789 ATAAAAAACT
*
21536799 AATATAAATATATATATA
1 AATATAAATATATAAATA
21536817 AATA-AAATATATAAATA
1 AATATAAATATATAAATA
21536834 A
1 A
21536835 TAAGTGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATAAATATATAAATA
Found at i:21536828 original size:13 final size:13
Alignment explanation
Indices: 21536800--21536834 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21536790 TAAAAAACTA
*
21536800 ATATAAAT-ATAT
1 ATATAAATAAAAT
21536812 ATATAAATAAAAT
1 ATATAAATAAAAT
21536825 ATATAAATAA
1 ATATAAATAA
21536835 TAAGTGATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAATAAAAT
Found at i:21537626 original size:20 final size:20
Alignment explanation
Indices: 21537601--21537645 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
21537591 GGTTTCTTGG
21537601 TTTTTTTTGGGGGTTAGGTT
1 TTTTTTTTGGGGGTTAGGTT
21537621 TTTTTTTTGGGGGTTAGGTT
1 TTTTTTTTGGGGGTTAGGTT
21537641 TTTTT
1 TTTTT
21537646 GGGGGGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.04, C:0.00, G:0.31, T:0.64
Consensus pattern (20 bp):
TTTTTTTTGGGGGTTAGGTT
Found at i:21537651 original size:18 final size:18
Alignment explanation
Indices: 21537599--21537650 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 18
21537589 TAGGTTTCTT
21537599 GGTTTTTTTTGGGGGTTA
1 GGTTTTTTTTGGGGGTTA
21537617 GGTTTTTTTTTTGGGGGTTA
1 GG--TTTTTTTTGGGGGTTA
21537637 GG-TTTTTTTGGGGG
1 GGTTTTTTTTGGGGG
21537651 GCTTATGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.38
18 2 0.06
20 18 0.56
ACGTcount: A:0.04, C:0.00, G:0.40, T:0.56
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:21543608 original size:18 final size:17
Alignment explanation
Indices: 21543587--21543650 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
21543577 TTATTTTCGC
21543587 TATTATTATTA-TATCTG
1 TATTATTATTACTAT-TG
** *
21543604 ATATTGCTATTATTATTG
1 -TATTATTATTACTATTG
21543622 TATTATTATTACT-TATG
1 TATTATTATTACTAT-TG
21543639 TTATTATTATTA
1 -TATTATTATTA
21543651 TTACTATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 12 0.32
18 22 0.58
19 3 0.08
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTATTATTACTATTG
Found at i:21543617 original size:3 final size:3
Alignment explanation
Indices: 21543611--21543661 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
21543601 CTGATATTGC
* * *
21543611 TAT TAT TAT T-G TAT TAT TAT TACT TA- TGT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
21543655 TAT TAT T
1 TAT TAT T
21543662 TGCTCATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:21543637 original size:21 final size:20
Alignment explanation
Indices: 21543613--21543662 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
21543603 GATATTGCTA
21543613 TTATTATTGTATTATTATTAC
1 TTATTATT-TATTATTATTAC
21543634 TTATGT-TATTATTATTATTAC
1 TTAT-TAT-TTATTATTATTAC
21543655 -TATTATTT
1 TTATTATTT
21543663 GCTCATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 17 0.65
22 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
TTATTATTTATTATTATTAC
Found at i:21544705 original size:106 final size:106
Alignment explanation
Indices: 21544525--21544797 Score: 388
Period size: 106 Copynumber: 2.5 Consensus size: 106
21544515 TATTTAGCGC
* * * *
21544525 TTGGAAATTCGAGAAAACTTGCCCTAATGTGCTGGATTTTGATTTTTCTTGTTCAACCAAATAGC
1 TTGGAAATTCGAG-AAACGTGCCCTAATGTGCTGGGTTTTGA--TTTCTCGTTTAACCAAATAGC
* *
21544590 TAAGTATCCTTTTAAAAATTTCAAAATAGGGCAATGTTTTGCAT
63 TAAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCAT
21544634 TTGGAAA-TCTGAGAAACGTGCCCTAATGTGCTGGGTTTTGATTTCTCGTTTAACCAAATAGCTA
1 TTGGAAATTC-GAGAAACGTGCCCTAATGTGCTGGGTTTTGATTTCTCGTTTAACCAAATAGCTA
*
21544698 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGT
65 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCAT
* * * *
21544740 TCGGAAATTCGATG-AGCGCGCCCTAATGTGCTGGGTTTCGATTTCTCGTTTAACCAAA
1 TTGGAAATTCGA-GAAACGTGCCCTAATGTGCTGGGTTTTGATTTCTCGTTTAACCAAA
21544798 CAGCCAAACA
Statistics
Matches: 150, Mismatches: 11, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
106 109 0.73
107 3 0.02
108 28 0.19
109 10 0.07
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (106 bp):
TTGGAAATTCGAGAAACGTGCCCTAATGTGCTGGGTTTTGATTTCTCGTTTAACCAAATAGCTAA
ATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCAT
Found at i:21550560 original size:44 final size:44
Alignment explanation
Indices: 21550460--21550704 Score: 226
Period size: 44 Copynumber: 5.6 Consensus size: 44
21550450 TTCGTCTTGT
* * * * * *
21550460 TCCACTGCAGCTTCAGGGAGATAAAATTTGTTGCTTCAATCTGC
1 TCCACTACAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGC
* * * *
21550504 TCCATTATAACTTCAAAGAGATAAGATTTGTAGCTTCAATCTGC
1 TCCACTACAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGC
* * * * *
21550548 TCTACTACAACTTGAGGGAGATAAGATTCGTAACTCCAATCTGC
1 TCCACTACAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGC
* * * *
21550592 TCCACTGCAAC-TCTAGGGAGATAAGATTCATAGCTCCAATCTGC
1 TCCACTACAACTTC-AGAGAGATAAGATTCGTAGCTTCAATCTGC
* * *
21550636 TCTA-T-CGTAACTTCAGAGAGATGAGATTCGTAGCTTCAATTTGC
1 TCCACTAC--AACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGC
* *
21550680 TCCACTACAACTTCTGGGAGATAAG
1 TCCACTACAACTTCAGAGAGATAAG
21550705 GTTTGCTATG
Statistics
Matches: 163, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 156 0.96
45 3 0.02
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
TCCACTACAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGC
Found at i:21550647 original size:132 final size:132
Alignment explanation
Indices: 21550460--21550704 Score: 330
Period size: 132 Copynumber: 1.9 Consensus size: 132
21550450 TTCGTCTTGT
* ** * * *
21550460 TCCACTGCAGCTTCAGGGAGATAAAATTTGTTGCTTCAATCTGCTCCATTATAACTTCAAAGAGA
1 TCCACTGCAACTTCAGGGAGATAAAATTCATAGCTCCAATCTGCTCCATCATAACTTCAAAGAGA
* * *
21550525 TAAGATTTGTAGCTTCAATCTGCTCTACTACAACTTGAGGGAGATAAGATTCGTAACTCCAATCT
66 TAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGTAACTCCAATCT
21550590 GC
131 GC
* * * *
21550592 TCCACTGCAAC-TCTAGGGAGATAAGATTCATAGCTCCAATCTGCTCTATCGTAACTTCAGAGAG
1 TCCACTGCAACTTC-AGGGAGATAAAATTCATAGCTCCAATCTGCTCCATCATAACTTCAAAGAG
* * *
21550656 ATGAGATTCGTAGCTTCAATTTGCTCCACTACAACTTCTGGGAGATAAG
65 ATAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
21550705 GTTTGCTATG
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
131 2 0.02
132 94 0.98
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (132 bp):
TCCACTGCAACTTCAGGGAGATAAAATTCATAGCTCCAATCTGCTCCATCATAACTTCAAAGAGA
TAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGTAACTCCAATCT
GC
Found at i:21550699 original size:88 final size:87
Alignment explanation
Indices: 21550470--21550704 Score: 249
Period size: 88 Copynumber: 2.7 Consensus size: 87
21550460 TCCACTGCAG
* * * * * * *** **
21550470 CTTCAGGGAGATAAAATTTGTTGCTTCAATCTGCTCCATTATAACTTCAAAGAGATAAGATTTGT
1 CTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCTGGGAGATAAGATTCAT
*
21550535 AGCTTCAATCTGCTCTACTACAA
66 AGCTCCAATCTGCTCTACTA-AA
* * * * *
21550558 CTTGAGGGAGATAAGATTCGTAACTCCAATCTGCTCCACTGCAAC-TCTAGGGAGATAAGATTCA
1 CTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCT-GGGAGATAAGATTCA
21550622 TAGCTCCAATCTGCTCTATCGT-AA
65 TAGCTCCAATCTGCTCTA-C-TAAA
* *
21550646 CTTCAGAGAGATGAGATTCGTAGCTTCAATTTGCTCCACTACAACTTCTGGGAGATAAG
1 CTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCTGGGAGATAAG
21550705 GTTTGCTATG
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
87 2 0.02
88 114 0.94
89 4 0.03
90 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (87 bp):
CTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCTCCACTACAACTTCTGGGAGATAAGATTCAT
AGCTCCAATCTGCTCTACTAAA
Found at i:21551711 original size:44 final size:44
Alignment explanation
Indices: 21551609--21551731 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
21551599 GTAATCGACT
* * * * * * *
21551609 ATCGATGCCACTATCCCCGACAGGGTCTTACACG-AACTCATAT
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA
* *
21551652 A-CGATACCAATGTCCCAGACATAGTCTTACACGTAAATCACAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA
*
21551695 ATCGATGCCAATGTCCCAGACGTGGTCTTACACGTAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGTAA
21551732 TTACATATTG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 26 0.39
43 8 0.12
44 32 0.48
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (44 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA
Found at i:21556183 original size:30 final size:30
Alignment explanation
Indices: 21556149--21556208 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21556139 TACAAATTGA
*
21556149 TCACTAAATTATTCAAATTTTTTATTTAAG
1 TCACTAAATTATTCAAATGTTTTATTTAAG
21556179 TCACTAAATTATTCAAATGTTTTATTTAAG
1 TCACTAAATTATTCAAATGTTTTATTTAAG
21556209 CGATTGGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (30 bp):
TCACTAAATTATTCAAATGTTTTATTTAAG
Found at i:21557350 original size:78 final size:78
Alignment explanation
Indices: 21557221--21557377 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
21557211 GTGAAGAAAC
21557221 AAGGAAAAGAAAATGAAATTGTAGAATGCTCACAAACTTTTGCTATGAAATAAAAGAAAGTAATT
1 AAGGAAAAGAAAATGAAATTGTAGAATGCTCACAAACTTTTGCTATGAAATAAAAGAAAGTAATT
21557286 TTATTTTTATTCT
66 TTATTTTTATTCT
21557299 AAGGAAAAGAAAATGAAATTGTAGAATGCTCACAAACTTTTGCTATGAAATAAAAGAAAGTAATT
1 AAGGAAAAGAAAATGAAATTGTAGAATGCTCACAAACTTTTGCTATGAAATAAAAGAAAGTAATT
21557364 TTATTTTTATTCT
66 TTATTTTTATTCT
21557377 A
1 A
21557378 TTCAAGTATG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (78 bp):
AAGGAAAAGAAAATGAAATTGTAGAATGCTCACAAACTTTTGCTATGAAATAAAAGAAAGTAATT
TTATTTTTATTCT
Found at i:21568261 original size:389 final size:389
Alignment explanation
Indices: 21567529--21568311 Score: 1278
Period size: 389 Copynumber: 2.0 Consensus size: 389
21567519 CGGCTTGTTC
*
21567529 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACACCCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACAACCAATGGGAG
*
21567594 TTTTCCATACACTAGATAACTAACCAAATCCGCATACTAAGAGGTTCCACCTACAGCAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCACCTACAGCAAATAACT
* * * *
21567659 TCTCATCTGGGAATGCATCGACAATTTGAAGTATGTTTCCATTTTCGCTGCCAACTTTCAATCGA
131 TCTCATCTGGGAATGCATAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
*
21567724 GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCGATGTCGAATTCTTG
196 GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
* * * *
21567789 GTTTTGCATCCTTCTTTGTAAAAAGATATCTCAACGACGAGTGATTAGTAAATACGGTAACCTTT
261 GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAAACTTT
* * * *
21567854 GGGCCGAAAAGGTAAGAACAAAACTTGTTGAAAGCAAAGACTACAGCCAACAATTCTTTCTCTG
326 GGGCCGAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
* *
21567918 TAGTGGTACTTCACTACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTTACAACCAATGGGAG
1 TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACAACCAATGGGAG
* * * * * *
21567983 TTTTCCATACACTAGATAATTAACCAAATCTGCATACCAAGGGGTTGCATCTATAGCAAATAACT
66 TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCACCTACAGCAAATAACT
* *
21568048 TCTCATCTGGGAATGCGTAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATTGA
131 TCTCATCTGGGAATGCATAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
*
21568113 GATAGATGGTCTGCAACCTGATTTTTTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
196 GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
* *
21568178 GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGCCAATTGATCAGTAAATACGGTAAACTTT
261 GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAAACTTT
* * * *
21568243 GTGTCGACAAGATAAGAACGAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
326 GGGCCGAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
21568307 TAGTG
1 TAGTG
21568312 CTATAATTAA
Statistics
Matches: 362, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
389 362 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (389 bp):
TAGTGGTACTTCAATACTTCATGAAGAAATCTTTCTTTTTTATGGCCTGTGACAACCAATGGGAG
TTTTCCATACACTAGATAACTAACCAAATCCGCATACCAAGAGGTTCCACCTACAGCAAATAACT
TCTCATCTGGGAATGCATAGACAATTTGAAGTATGTTTCCATCTTCACTGCCAACTTCCAATCGA
GATAGATGGTCTGCAACCTGATTTTCTGAACCCTTGAGATCTTTTATCTCAATGTCGAATTCTTG
GTTTTGCATCCTTCTTCGTAAAAAGATATCTCAACGACAAGTGATCAGTAAATACGGTAAACTTT
GGGCCGAAAAGATAAGAACAAAACTTGTGGAAAGCAAAGACTACAACCAAAAATTCTTTCTCTG
Found at i:21578903 original size:16 final size:16
Alignment explanation
Indices: 21578878--21578922 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
21578868 AGAAACAAAA
21578878 ATAA-AATAAAATTAC
1 ATAATAATAAAATTAC
*
21578893 ATAATAAT-AAATTTC
1 ATAATAATAAAATTAC
21578908 ATAATAATTAAAATT
1 ATAATAA-TAAAATT
21578923 TTTCGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 17 0.65
16 4 0.15
17 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATAAAATTAC
Found at i:21607535 original size:16 final size:16
Alignment explanation
Indices: 21607510--21607554 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
21607500 AGAAACAAAA
21607510 ATAA-AATAAAATTAC
1 ATAATAATAAAATTAC
*
21607525 ATAATAAT-AAATTTC
1 ATAATAATAAAATTAC
21607540 ATAATAATTAAAATT
1 ATAATAA-TAAAATT
21607555 TTTCGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 17 0.65
16 4 0.15
17 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAATAATAAAATTAC
Found at i:21618489 original size:12 final size:12
Alignment explanation
Indices: 21618472--21618496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21618462 GCTATTACAC
21618472 GACCTAGCACAT
1 GACCTAGCACAT
21618484 GACCTAGCACAT
1 GACCTAGCACAT
21618496 G
1 G
21618497 GGCGTGTGAG
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:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (12 bp):
GACCTAGCACAT
Found at i:21618981 original size:28 final size:28
Alignment explanation
Indices: 21618941--21618997 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21618931 GATACTATGA
21618941 TATCTCCTAGTCGTTTTAAAACATGTTT
1 TATCTCCTAGTCGTTTTAAAACATGTTT
21618969 TATCTCCTAGTCGTTTTAAAACATGTTT
1 TATCTCCTAGTCGTTTTAAAACATGTTT
21618997 T
1 T
21618998 CTTATAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.47
Consensus pattern (28 bp):
TATCTCCTAGTCGTTTTAAAACATGTTT
Found at i:21624960 original size:50 final size:50
Alignment explanation
Indices: 21624876--21624987 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
21624866 ACACACCACA
* ** * *
21624876 GCTCGTATGAGCTTACCGATTTGTAGCTCATGAGAGCTTATCGATTCTCG
1 GCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTCTCG
* ** *
21624926 GCTCGTCTGAGCTTACCAATTTACAGCTTGTGAGAGCATACCGATTCAT-A
1 GCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTC-TCG
21624976 GCTCGTATGAGC
1 GCTCGTATGAGC
21624988 ATACATGTAC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.31
Consensus pattern (50 bp):
GCTCGTATGAGCTTACCAATTTACAGCTCATGAGAGCATACCGATTCTCG
Found at i:21626366 original size:20 final size:20
Alignment explanation
Indices: 21626341--21626379 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21626331 TACTTTCTTC
21626341 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
21626361 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
21626380 AAATAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:21626741 original size:51 final size:54
Alignment explanation
Indices: 21626686--21626818 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 54
21626676 GTCGGTGCCC
* * *
21626686 ATGCCATGTCCCAAACATGGTCTTACGAGGGGACCTC-TCATCTCGAT-AT-C-A
1 ATGCCATGTCCCAAACATGGTCTTACG-GGGGACCTCTTAACCTCAATAATGCTA
* * * *
21626737 ATGCCATCTCCTAGACATGGTCTTACGTGGGACCTCTTGTAACCTCAATAATGCTA
1 ATGCCATGTCCCAAACATGGTCTTACGGGGGACCTC-T-TAACCTCAATAATGCTA
21626793 ATGCCATGTCCCAAACATGGTCTTAC
1 ATGCCATGTCCCAAACATGGTCTTAC
21626819 ATGGGGTCTC
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
50 8 0.12
51 24 0.36
53 7 0.11
54 2 0.03
55 1 0.02
56 24 0.36
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (54 bp):
ATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTTAACCTCAATAATGCTA
Found at i:21626811 original size:56 final size:50
Alignment explanation
Indices: 21626686--21626823 Score: 141
Period size: 56 Copynumber: 2.6 Consensus size: 50
21626676 GTCGGTGCCC
* * * *
21626686 ATGCCATGTCCCAAACATGGTCTTACGAGGGGACCTCTCATCTCGATATCA
1 ATGCCATGTCCCAAACATGGTCTTACG-TGGGACCTCTAACCTCAATATCA
* * *
21626737 ATGCCATCTCCTAGACATGGTCTTACGTGGGACCTCTTGTAACCTCAATAATGCTA
1 ATGCCATGTCCCAAACATGGTCTTACGTGGGACCTC---TAACCTCAAT-AT-C-A
*
21626793 ATGCCATGTCCCAAACATGGTCTTACATGGG
1 ATGCCATGTCCCAAACATGGTCTTACGTGGG
21626824 GTCTCATCCC
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
50 8 0.11
51 24 0.34
53 7 0.10
54 2 0.03
55 1 0.01
56 28 0.40
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAAACATGGTCTTACGTGGGACCTCTAACCTCAATATCA
Found at i:21626965 original size:21 final size:22
Alignment explanation
Indices: 21626931--21626975 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21626921 TCAAGATTAA
*
21626931 ATAATTTCATG-AAATAACTAC
1 ATAATTTCATGAAAATAACAAC
21626952 ATAATTTC-TGGAAAATAACAAC
1 ATAATTTCAT-GAAAATAACAAC
21626974 AT
1 AT
21626976 TAATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 9 0.43
22 11 0.52
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (22 bp):
ATAATTTCATGAAAATAACAAC
Found at i:21630178 original size:14 final size:14
Alignment explanation
Indices: 21630159--21630189 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21630149 AAGTGAGAGA
*
21630159 TGAGAGAAGAGTTG
1 TGAGAGAAGAGATG
21630173 TGAGAGAAGAGATG
1 TGAGAGAAGAGATG
21630187 TGA
1 TGA
21630190 ATGAGGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (14 bp):
TGAGAGAAGAGATG
Found at i:21640285 original size:14 final size:14
Alignment explanation
Indices: 21640266--21640295 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21640256 ATTGAGAGAG
*
21640266 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
21640280 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
21640294 GA
1 GA
21640296 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:21646700 original size:40 final size:40
Alignment explanation
Indices: 21646509--21646693 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
21646499 TTGAATGATG
* * * *
21646509 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
21646549 TCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21646589 TCCGGGATAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21646628 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21646669 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21646694 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21646715 original size:79 final size:79
Alignment explanation
Indices: 21646562--21646726 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
21646552 GGGCTAAGAT
* * **
21646562 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGATAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
21646627 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* * *
21646641 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGATAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
21646704 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
21646720 CCGAAGG
1 CCGAAGG
21646727 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.68
80 21 0.29
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:21654205 original size:39 final size:40
Alignment explanation
Indices: 21654104--21654288 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
21654094 TTGAATGATG
* * * *
21654104 TCCGGGCTACGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
21654143 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
21654184 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
21654223 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
21654262 AACCGGGCTACGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21654289 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.29
40 79 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:21654240 original size:79 final size:81
Alignment explanation
Indices: 21654104--21654288 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
21654094 TTGAATGATG
*
21654104 TCCGGGCTACGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTACGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
21654168 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
21654183 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTACGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
21654245 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
*
21654263 ACCGGGCTACGTCCCGAAGGCATTTG
1 TCCGGGCTACGTCCCGAAGGCATTTG
21654289 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTACGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:21654310 original size:79 final size:78
Alignment explanation
Indices: 21654105--21654321 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
21654095 TGAATGATGT
* * *
21654105 CCGGGCTACGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTACGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
21654168 TGTGCGAGATACTAATT
62 TGTGCGAGATACTAATA
* *
21654185 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTACGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
*
21654248 GTGCGAGTTACT-ATAA
63 GTGCGAGATACTAAT-A
** *
21654264 CCGGGCTACGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
21654322 TACGTGATTT
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.57
80 47 0.41
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:21657358 original size:25 final size:24
Alignment explanation
Indices: 21657319--21657389 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
21657309 TGAGCTACAA
21657319 CTCGTATGAGCTTACCAATTTGCAG
1 CTCGTATGAGCTTACCAATTT-CAG
* * *
21657344 CTCGTAAGAGTTTACCGATTCTCAG
1 CTCGTATGAGCTTACCAATT-TCAG
*
21657369 CTTGTATGAGCTTACCAATTT
1 CTCGTATGAGCTTACCAATTT
21657390 ATAGCTTGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (24 bp):
CTCGTATGAGCTTACCAATTTCAG
Found at i:21657395 original size:25 final size:24
Alignment explanation
Indices: 21657322--21657398 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 24
21657312 GCTACAACTC
*
21657322 GTATGAGCTTACCAATTTGCAGCTC
1 GTATGAGCTTACCAATTT-CAGCTT
* * *
21657347 GTAAGAGTTTACCGATTCTCAGCTT
1 GTATGAGCTTACCAATT-TCAGCTT
*
21657372 GTATGAGCTTACCAATTTATAGCTT
1 GTATGAGCTTACCAATTT-CAGCTT
21657397 GT
1 GT
21657399 GAAAGCATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (24 bp):
GTATGAGCTTACCAATTTCAGCTT
Found at i:21657413 original size:50 final size:50
Alignment explanation
Indices: 21657319--21657429 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
21657309 TGAGCTACAA
* **
21657319 CTCGTATGAGCTTACCAATTTGCAGCTCGTAAGAGTTTACCGATTC-TCAG
1 CTCGTATGAGCTTACCAATTTACAGCTCGTAAGAGCATACCGATTCAT-AG
* * * *
21657369 CTTGTATGAGCTTACCAATTTATAGCTTGTGAA-AGCATATCGATTCATAG
1 CTCGTATGAGCTTACCAATTTACAGCTCGT-AAGAGCATACCGATTCATAG
21657419 CTCGTATGAGC
1 CTCGTATGAGC
21657430 ATACATGTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
50 48 0.94
51 3 0.06
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (50 bp):
CTCGTATGAGCTTACCAATTTACAGCTCGTAAGAGCATACCGATTCATAG
Found at i:21664318 original size:15 final size:15
Alignment explanation
Indices: 21664298--21664326 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21664288 ATGCTACATA
21664298 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
21664313 CACCGTGTTATCAA
1 CACCGTGTTATCAA
21664327 GCAATAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:21668224 original size:25 final size:25
Alignment explanation
Indices: 21668196--21668245 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21668186 GTTTCATATA
21668196 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
21668221 CATGTATCATCCAATTCAATTTTCC
1 CATGTATCATCCAATTCAATTTTCC
21668246 TATACCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CATGTATCATCCAATTCAATTTTCC
Found at i:21668254 original size:30 final size:30
Alignment explanation
Indices: 21668187--21668256 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 30
21668177 ATAAATTATG
*
21668187 TTTCATATA-CATGTATCATCCAATTCAAT
1 TTTCCTATACCATGTATCATCCAATTCAAT
21668216 TTT-C----CCATGTATCATCCAATTCAAT
1 TTTCCTATACCATGTATCATCCAATTCAAT
21668241 TTTCCTATACCATGTA
1 TTTCCTATACCATGTA
21668257 ATAACATATC
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
25 23 0.68
26 1 0.03
29 3 0.09
30 7 0.21
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (30 bp):
TTTCCTATACCATGTATCATCCAATTCAAT
Found at i:21672143 original size:12 final size:13
Alignment explanation
Indices: 21672126--21672155 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
21672116 CGACCAGCCC
21672126 ATATTAATTTT-T
1 ATATTAATTTTAT
21672138 ATATTAATTTTAT
1 ATATTAATTTTAT
21672151 ATATT
1 ATATT
21672156 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTAATTTTAT
Found at i:21672318 original size:30 final size:30
Alignment explanation
Indices: 21672282--21672338 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
21672272 CTTAACAAGC
21672282 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
*
21672312 AAATGCCTTTAAAATAATAACAAAATT
1 AAATGCCTCTAAAATAATAACAAAATT
21672339 TTTACAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:21672408 original size:22 final size:22
Alignment explanation
Indices: 21672383--21672430 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
21672373 CAATAACAAC
*
21672383 AAAATGGTAGCAACATAGTAG-T
1 AAAATGGTAGCAAAATAG-AGAT
21672405 AAAATGGTAGCAAAATAGAGAT
1 AAAATGGTAGCAAAATAGAGAT
21672427 AAAA
1 AAAA
21672431 CAACAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.54, C:0.06, G:0.21, T:0.19
Consensus pattern (22 bp):
AAAATGGTAGCAAAATAGAGAT
Found at i:21672414 original size:11 final size:11
Alignment explanation
Indices: 21672382--21672420 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
21672372 ACAATAACAA
21672382 CAAAATGGTAG
1 CAAAATGGTAG
* *
21672393 CAACATAGTAG
1 CAAAATGGTAG
*
21672404 TAAAATGGTAG
1 CAAAATGGTAG
21672415 CAAAAT
1 CAAAAT
21672421 AGAGATAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (11 bp):
CAAAATGGTAG
Found at i:21672870 original size:23 final size:23
Alignment explanation
Indices: 21672843--21672890 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21672833 GCCTCTTCCG
21672843 CTTCTATACATATGACCTTTCTT
1 CTTCTATACATATGACCTTTCTT
21672866 CTTCTATACATATGACCTTTCTT
1 CTTCTATACATATGACCTTTCTT
21672889 CT
1 CT
21672891 ATTAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.27, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTCTATACATATGACCTTTCTT
Found at i:21674913 original size:27 final size:28
Alignment explanation
Indices: 21674879--21675056 Score: 188
Period size: 27 Copynumber: 6.5 Consensus size: 28
21674869 TAAATTGTAC
21674879 AGCACTAAGTGTGC-AATTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
21674906 TGCACTAAGTGTGCGAA-ATGAATATG-
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
21674932 ATGCACTAAGTGTGCGAA-TTGACCATGC
1 A-GCACTAAGTGTGCGAATTTGACTATGT
* *
21674960 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
21674988 AGCACTAAGTGTGCG-ATTTGATTACGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
21675015 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAATTTGACTATGT
*
21675042 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21675057 GACTCAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTTGACTATGT
Found at i:21674993 original size:82 final size:81
Alignment explanation
Indices: 21674880--21675035 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
21674870 AAATTGTACA
* *
21674880 GCACTAAGTGTGCAATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21674944 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
21674961 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGC-AATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21675026 TGCGAGTTGA
65 TGCGAATTGA
21675036 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 13 0.20
82 52 0.79
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21675047 original size:82 final size:82
Alignment explanation
Indices: 21674876--21675056 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 82
21674866 GATTAAATTG
* *
21674876 TACAGCACTAAGTGTGC-AATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
21674940 AGTGTGCGAATTGACCA
66 AGTGTGCGAATTGACCA
* * * ** *
21674957 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21675021 AAGTGTGCGAGTTGATTA
65 AAGTGTGCGAATTGACCA
* *
21675039 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21675057 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 16 0.19
82 67 0.81
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
AGTGTGCGAATTGACCA
Found at i:21682934 original size:27 final size:27
Alignment explanation
Indices: 21682903--21683080 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21682893 TAAATTGTAC
21682903 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21682930 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21682956 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21682984 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21683012 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21683039 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21683066 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21683081 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21683017 original size:82 final size:81
Alignment explanation
Indices: 21682904--21683059 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21682894 AAATTGTACA
* *
21682904 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21682968 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21682985 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21683050 TGCGAGTTGA
65 TGCGAATTGA
21683060 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21683071 original size:82 final size:81
Alignment explanation
Indices: 21682900--21683080 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21682890 GATTAAATTG
* *
21682900 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21682965 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21682981 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21683045 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21683063 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21683081 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21684495 original size:21 final size:21
Alignment explanation
Indices: 21684469--21684531 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
21684459 ATCATTATTG
21684469 TAAATTTTTTATAATTTTTAA
1 TAAATTTTTTATAATTTTTAA
*
21684490 TAAA-TTTTTA-AATTTTCTTTA
1 TAAATTTTTTATAA-TTT-TTAA
*
21684511 TAATTTCTTTTATAATTTTTA
1 TAAATT-TTTTATAATTTTTA
21684532 CATCTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 2 0.06
20 9 0.26
21 10 0.29
22 3 0.09
23 8 0.24
24 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (21 bp):
TAAATTTTTTATAATTTTTAA
Found at i:21684510 original size:11 final size:11
Alignment explanation
Indices: 21684471--21684528 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
21684461 CATTATTGTA
21684471 AATTT-TTTAT
1 AATTTCTTTAT
*
21684481 AATTT-TTAAT
1 AATTTCTTTAT
*
21684491 AAATT-TTTA-
1 AATTTCTTTAT
21684500 AATTTTCTTTAT
1 AA-TTTCTTTAT
21684512 AATTTCTTTTAT
1 AATTTC-TTTAT
21684524 AATTT
1 AATTT
21684529 TTACATCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.05
10 18 0.45
11 8 0.20
12 12 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
AATTTCTTTAT
Found at i:21684548 original size:43 final size:41
Alignment explanation
Indices: 21684442--21684556 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 41
21684432 TTATAGATAG
* * *
21684442 TAATTTTTAATAATTTT-ATCATTATTGTA-AA-TT-TTTTA
1 TAATTTTTAATAATTTTGA-AATTTTTTTATAATTTCTTTTA
*
21684480 TAATTTTTAATAAATTTTTAAATTTTCTTTATAATTTCTTTTA
1 TAATTTTTAAT-AATTTTGAAATTTT-TTTATAATTTCTTTTA
*
21684523 TAATTTTTACAT-CTTTTGAATATTTTTTTATAAT
1 TAATTTTTA-ATAATTTTGAA-ATTTTTTTATAAT
21684557 ATTTTAAATC
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
38 11 0.17
39 10 0.16
40 4 0.06
41 2 0.03
42 16 0.25
43 19 0.30
44 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (41 bp):
TAATTTTTAATAATTTTGAAATTTTTTTATAATTTCTTTTA
Found at i:21685434 original size:125 final size:126
Alignment explanation
Indices: 21685124--21685476 Score: 514
Period size: 126 Copynumber: 2.8 Consensus size: 126
21685114 TAATTTCGAG
**
21685124 TTGACGTTTCTGATAAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
* *
21685189 AAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCATCGTAGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTT
*
21685250 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
* * * *
21685315 AAATCGCGGCCAT-GTCAG-CGCGCTTTTGCTATAGTAGGTCATGTAAGAAAT-TTTTTTTTT
66 AAATCGC-GCCATCGT-AGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTT
* *
21685375 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGTTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
* * * * * *
21685440 AAATTGCGCCCTCATGGATGCGCTTTTGCTACAGTAG
66 AAATCGCGCCATCGTAGACGCGCTTTTGCTATAGTAG
21685477 CATGTTTGGG
Statistics
Matches: 206, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
124 5 0.02
125 94 0.46
126 102 0.50
127 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
AAATCGCGCCATCGTAGACGCGCTTTTGCTATAGTAGGTCACGGAAGAAATAATTATTTTT
Found at i:21688709 original size:116 final size:116
Alignment explanation
Indices: 21688505--21688722 Score: 418
Period size: 116 Copynumber: 1.9 Consensus size: 116
21688495 TGATAAATTG
21688505 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
21688570 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
21688621 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
21688686 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
21688723 CGTTAAGGTT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:21688759 original size:22 final size:20
Alignment explanation
Indices: 21688724--21688769 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
21688714 CTAACATTAC
21688724 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
21688744 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
21688766 -TTAA
1 GTTAA
21688770 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:21688779 original size:23 final size:23
Alignment explanation
Indices: 21688728--21688835 Score: 105
Period size: 23 Copynumber: 4.5 Consensus size: 23
21688718 CATTACGTTA
21688728 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
*
21688749 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
21688773 AGGTTAGGGTTAGTGTTTTTAATTAAATT
1 AGGTTA--G---G-GTTTTTAATTAAATT
21688802 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
21688825 AGGTTAAGGTT
1 AGGTTAGGGTT
21688836 AGGGTTTTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.05
22 15 0.20
23 28 0.38
24 3 0.04
25 1 0.01
27 1 0.01
28 1 0.01
29 21 0.28
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:21688790 original size:29 final size:29
Alignment explanation
Indices: 21688748--21689599 Score: 759
Period size: 29 Copynumber: 30.4 Consensus size: 29
21688738 TTTTAAGTTA
21688748 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
21688778 AGGGTTAGTGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21688802 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
21688830 AAGGTTAGGGTTTTTAAATAAATT-GGATT
1 AGGGTTAGGGTTTTTAATTAAATTAGG-TT
* * *
21688859 AGGGTTAGGATTTTTAATTAGATTAGATT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
21688888 AAGGTTA-GGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
* *
21688915 AGGGGTT----TTAATTAAATT--A-G--GTT
1 A-GGGTTAGGGTT--TTTAATTAAATTAGGTT
* *
21688938 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21688967 AAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
21688997 AGGGTTAGGCTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
21689026 AGGGGTTAGGGTTTTTAATTAAATTAGATT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
*
21689056 AGGGTTAGGGTTTTTAACTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
**
21689085 AGGGTTAGGGTTAGGGTTT--TT-AATTAAATT
1 AGGGTTAGGGTT----TTTAATTAAATTAGGTT
* *
21689115 A-GGTTAAGTTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
21689143 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
21689171 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
21689194 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
21689223 AAGGTTAGGGTTTTTAAGTT-AA-GAGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTT
21689251 AGGGTT----TTTAATTAAATT-AA----GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* * *
21689274 AGGGTTAGAGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21689303 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
*
21689333 AGGGTTAGGGTTTGTAATT-AATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21689361 AGGGTTAGGG-TTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21689389 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
21689418 ACGGTTAGGG--TTT--TT-AATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* ****
21689442 ACGGTTAGGGTTTAGGGTTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21689471 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
21689500 AGGGTTAGGGTTTTTAATTAAATTACGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
21689529 AAGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21689558 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
21689587 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
21689600 AAATTAGGTT
Statistics
Matches: 686, Mismatches: 66, Indels: 140
0.77 0.07 0.16
Matches are distributed among these distances:
22 5 0.01
23 35 0.05
24 45 0.07
25 13 0.02
26 19 0.03
27 31 0.05
28 84 0.12
29 347 0.51
30 103 0.15
31 1 0.00
33 3 0.00
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:21688839 original size:58 final size:58
Alignment explanation
Indices: 21688748--21689593 Score: 382
Period size: 59 Copynumber: 15.2 Consensus size: 58
21688738 TTTTAAGTTA
*
21688748 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-----GTGTTTTTAATTAAATT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAATTAAATT
* * **
21688802 A-GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTT-T-TTAAATAAATTGGATT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTT--TTTAATTAAATT
* * *
21688859 AGGGTTAGGATTTTTAATTAGATTAGATTAAGGTTA-----G-GTTTTTAAGTT--A--
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAA-TTAAATT
* * ** **
21688908 AGGGTTTAGGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTT-TGTAATTAATTTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAA-TTAAATT
* * ** **
21688967 AAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGCTT-TGTAATTAATTTAGGTT
1 -AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAA-TTAAATT
* * * **
21689026 AGGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTT-T-TTAACTAAATTAGGTTAGGG
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTT---T---TTA-ATTA-AA
21689089 TT
57 TT
* * **
21689091 AGGGTTAGGGTTTTTAATTAAATTAGGTTAA-GTT----TT-T-TAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGT-TTTTAATTAAATT
* * * * * **
21689143 AAGGTTAGGGTTTTTAAGTT--A--AGG----GTTTAGGGTT-TTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTTAAGGTTAGGGTTGTGT-TTTTAATTAAATT
*
21689194 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTA--G--G-GTTTTTAAGTT-AA-G
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAA-TTAAATT
* * * * ** **
21689246 A-GTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGAGTT-TGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAA-TTAAATT
* ** **
21689303 AGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT-TGTAATTAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAATTAAATT
* * **
21689361 AGGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTT-T-TTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTT--TTTAATTAAATT
* * ** * **
21689418 ACGGTTAGGG--TTT--TT-AATTAGGTTACGGTTAGGGTT-TAGGGTTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGT-GTTTTTAATTAAATT
* * **
21689471 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTT-T-TTAATTAAATTACGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTT--TTTAATTAAATT
* *
21689529 AAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--G--G-GTTTTTAATTAAATT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAATTAAATT
21689582 A-GGTTAGGGTTT
1 AGGGTTAGGGTTT
21689594 AGGGTTAAAT
Statistics
Matches: 651, Mismatches: 69, Indels: 146
0.75 0.08 0.17
Matches are distributed among these distances:
46 2 0.00
49 7 0.01
50 32 0.05
51 64 0.10
52 67 0.10
53 66 0.10
54 13 0.02
55 24 0.04
56 37 0.06
57 41 0.06
58 112 0.17
59 140 0.22
60 4 0.01
63 3 0.00
64 34 0.05
65 5 0.01
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (58 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTGTGTTTTTAATTAAATT
Found at i:21689175 original size:22 final size:20
Alignment explanation
Indices: 21689140--21689185 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
21689130 ATTAAATTAG
21689140 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
21689160 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
21689182 -TTAA
1 GTTAA
21689186 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:21689216 original size:80 final size:80
Alignment explanation
Indices: 21689092--21689593 Score: 499
Period size: 80 Copynumber: 6.2 Consensus size: 80
21689082 GTTAGGGTTA
* *
21689092 GGGTTAGGGTTTTTAATTAAATTAGGTTA-----A-GTTTTTTAATTAAATTAGGTTAAGGTTAG
1 GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
21689151 GGTTTTTAAGTT-AAG
66 GGTTTTTAA-TTAAAG
* *
21689166 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAG
1 GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
21689231 GGTTTTTAAGTT-AAG
66 GGTTTTTAA-TTAAAG
* * * * * *
21689246 AGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGAGTTTGTAATTAATTTAGGTTAGGGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGGTTA
21689311 GGGTTTTTAATTAAATTAGG
65 GGGTTTTTAATT-AA--A-G
*
21689331 TTAGGGTTAGGGTTTGTAATT-AATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTAGGGT
1 ---GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
21689394 TAGGGTTTTTAATTAAATT
63 TAGGGTTTTTAATTAAA-G
* * * ****
21689413 AGGTTACGGTTAGGGTTT--TT-AATTAGGTTACGGTTAGGGTTTAGGGTTAAATTAGGTTAGGG
1 GGGTTAGGGTT----TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
21689475 TTAGGGTTTTTAATTAAATTAGG
62 TTAGGGTTTTTAATT-AA--A-G
* *
21689498 TTAGGGTTAGGGTTTTTAATTAAATTACGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 ---GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
21689563 TAGGGTTTTTAATTAAATT
63 TAGGGTTTTTAATTAAA-G
*
21689582 AGGTTAGGGTTT
1 GGGTTAGGGTTT
21689594 AGGGTTAAAT
Statistics
Matches: 361, Mismatches: 38, Indels: 51
0.80 0.08 0.11
Matches are distributed among these distances:
74 28 0.08
79 10 0.03
80 98 0.27
81 46 0.13
82 35 0.10
83 4 0.01
84 7 0.02
85 20 0.06
86 21 0.06
87 68 0.19
88 24 0.07
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (80 bp):
GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
GGTTTTTAATTAAAG
Found at i:21689254 original size:22 final size:20
Alignment explanation
Indices: 21689220--21689265 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
21689210 ATTAAATTAG
21689220 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
21689240 GTTAAGAGTTTAGGGTTTTTAA
1 GTTAAG-G-TTAGGGTTTTTAA
21689262 -TTAA
1 GTTAA
21689266 ATTAAGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 5 0.21
22 13 0.54
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:21689643 original size:25 final size:25
Alignment explanation
Indices: 21689615--21689727 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 25
21689605 AGGTTATGAT
21689615 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
21689640 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *** *
21689663 --AAATAAC-TCGAAA-ATTTTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
21689685 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
21689710 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
21689728 TATCAAAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.03
21 8 0.12
22 2 0.03
23 2 0.03
24 11 0.17
25 41 0.62
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:21689694 original size:70 final size:69
Alignment explanation
Indices: 21689615--21689770 Score: 260
Period size: 70 Copynumber: 2.3 Consensus size: 69
21689605 AGGTTATGAT
* *
21689615 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAATTT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAA-AT
*
21689680 TTTTA
65 TTCTA
21689685 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
21689750 TCTA
66 TCTA
*
21689754 TTTT-TTACATAAAATAA
1 TTTTATTACATCAAATAA
21689771 TATCAAAATA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
68 12 0.15
69 9 0.11
70 61 0.74
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (69 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCCAAAAATT
TCTA
Found at i:21689733 original size:35 final size:35
Alignment explanation
Indices: 21689624--21689734 Score: 95
Period size: 35 Copynumber: 3.2 Consensus size: 35
21689614 TTTTTATTAC
21689624 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
1 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
* * *** * *
21689659 ATCAAA-ATAAC-TCGAAAATTTT-TT-TATTTTATTAC
1 ATCAAATA-AACTTC---TATTTTATTACATCAAATAAT
21689694 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
1 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
21689729 ATCAAA
1 ATCAAA
21689735 ATAACTCCAA
Statistics
Matches: 54, Mismatches: 14, Indels: 16
0.64 0.17 0.19
Matches are distributed among these distances:
33 5 0.09
34 5 0.09
35 34 0.63
36 5 0.09
37 5 0.09
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.41
Consensus pattern (35 bp):
ATCAAATAAACTTCTATTTTATTACATCAAATAAT
Found at i:21690226 original size:18 final size:18
Alignment explanation
Indices: 21690203--21690237 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21690193 CGGAAAAGGA
*
21690203 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
21690221 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
21690238 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:21690897 original size:7 final size:7
Alignment explanation
Indices: 21690887--21690917 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
21690877 TATATACATT
21690887 ATACTAA
1 ATACTAA
21690894 ATACTAA
1 ATACTAA
21690901 ATACTAA
1 ATACTAA
21690908 ATACTAA
1 ATACTAA
21690915 ATA
1 ATA
21690918 TCAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATACTAA
Found at i:21702429 original size:56 final size:56
Alignment explanation
Indices: 21702343--21702454 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
21702333 GATATACCAA
21702343 AAAGGGGGATAAAAAGATGAAATTTGTATATGTATAGGTCTTACATATTTTATCTT
1 AAAGGGGGATAAAAAGATGAAATTTGTATATGTATAGGTCTTACATATTTTATCTT
21702399 AAAGGGGGATAAAAAGATGAAATTTGTATATGTATAGGTCTTACATATTTTATCTT
1 AAAGGGGGATAAAAAGATGAAATTTGTATATGTATAGGTCTTACATATTTTATCTT
21702455 CTATATGCTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (56 bp):
AAAGGGGGATAAAAAGATGAAATTTGTATATGTATAGGTCTTACATATTTTATCTT
Found at i:21718786 original size:28 final size:28
Alignment explanation
Indices: 21718723--21718929 Score: 310
Period size: 28 Copynumber: 7.4 Consensus size: 28
21718713 ATATTAAGTC
* *
21718723 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21718750 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21718778 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
21718806 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21718834 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
21718862 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
21718890 CGCACACTTAGTGCCGTACA-ATTTAAACC
1 CGCACACTTAGTG-C-TACATAATCAAACT
21718919 CGCACACTTAG
1 CGCACACTTAG
21718930 CGCCAATCTC
Statistics
Matches: 170, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
27 20 0.12
28 128 0.75
29 18 0.11
30 4 0.02
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:21744088 original size:24 final size:24
Alignment explanation
Indices: 21744060--21744107 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
21744050 AAAGAATTCA
* *
21744060 TGGCTTCTTCCACAACCTATATGG
1 TGGCTTCGTCCACAACCTACATGG
21744084 TGGCTTCGTCCACAACCTACATGG
1 TGGCTTCGTCCACAACCTACATGG
21744108 CAACTTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (24 bp):
TGGCTTCGTCCACAACCTACATGG
Found at i:21749484 original size:40 final size:40
Alignment explanation
Indices: 21749387--21749648 Score: 248
Period size: 40 Copynumber: 6.6 Consensus size: 40
21749377 TCCTCGTTCA
* * * *
21749387 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21749425 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
21749465 AATGCCTTCAGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21749505 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
21749545 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC-
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
21749584 ACATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 A-ATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21749625 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21749649 CAGCATTCAA
Statistics
Matches: 192, Mismatches: 24, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
38 22 0.11
39 18 0.09
40 139 0.72
41 13 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21749583 original size:120 final size:119
Alignment explanation
Indices: 21749387--21749648 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 119
21749377 TCCTCGTTCA
* *
21749387 AATGCCTTCGGGACATAGCCCGG-TTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* *
21749451 TAACAACTCGCACGA-ATGCCTTCAGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCGCAC-ACATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * * * *
21749504 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
** * ** * *
21749569 ATTT-GTATCTCGCACACATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAACAACTCGCACACATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
21749625 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21749649 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 21 0.17
119 17 0.14
120 73 0.61
121 9 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACACATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:21749608 original size:80 final size:80
Alignment explanation
Indices: 21749352--21749648 Score: 238
Period size: 80 Copynumber: 3.7 Consensus size: 80
21749342 AAATCACGTA
* * ** * *
21749352 CCTTTGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG--TTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
21749413 AGTAACTCACAC-AATG
64 AATAACTCGCACGAATG
* * * * *
21749429 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCAGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
21749492 AATAACTCGCACGAATG
64 AATAACTCGCACGAATG
* *
21749509 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
21749573 -GTATCTCGCAC-ACATG
64 AATAACTCGCACGA-ATG
** * * *
21749589 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
21749649 CAGCATTCAA
Statistics
Matches: 179, Mismatches: 27, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
76 1 0.01
77 11 0.06
78 30 0.17
79 22 0.12
80 102 0.57
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACGAATG
Found at i:21757040 original size:40 final size:39
Alignment explanation
Indices: 21756950--21757212 Score: 217
Period size: 40 Copynumber: 6.6 Consensus size: 39
21756940 TCCTCGTTCA
* * * * * *
21756950 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAG
*
21756989 AATGCCTTCGGGA-TATAACCCGGATTTAACAACTCGCATG
1 AATGCCTTCGGGACT-TAACCCGGATTTAATAACTCGCA-G
21757029 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA-G
* * *
21757069 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA-G
* * * * *
21757109 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCAG
** * * * * *
21757148 ACATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 A-ATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAG
* *
21757189 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21757213 CAGCATTCAA
Statistics
Matches: 189, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
39 37 0.20
40 138 0.73
41 14 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAG
Found at i:21757095 original size:80 final size:79
Alignment explanation
Indices: 21756948--21757159 Score: 257
Period size: 80 Copynumber: 2.7 Consensus size: 79
21756938 GCTCCTCGTT
* * * *
21756948 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGATATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGATATAACCCGGA
21757013 TTTAACAACTCGCA
66 TTTAACAACTCGCA
** *
21757027 TGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACT-TAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-TATAACCCG
** *
21757091 GATTTAGTATCTCGCA
64 GATTTAACAACTCGCA
* * *
21757107 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACACATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCACA-ATGCCTTCGG
21757160 ATCTTAGTCC
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 35 0.31
80 73 0.65
81 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGATATAACCCGGA
TTTAACAACTCGCA
Found at i:21757172 original size:120 final size:119
Alignment explanation
Indices: 21756950--21757212 Score: 275
Period size: 120 Copynumber: 2.2 Consensus size: 119
21756940 TCCTCGTTCA
* * *
21756950 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGATATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGATATAACCCGGATT
* * *
21757015 TAACAACTCGCATGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCGCATCAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * *
21757068 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCT-TAACCCGG
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTC-GGGATATAACCCGG
** * ** * *
21757132 AATTT-GTATCTCGCA-CACATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 -ATTTAACAACTCGCATCA-ATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
21757189 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21757213 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
119 38 0.32
120 68 0.57
121 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGATATAACCCGGATT
TAACAACTCGCATCAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:21759660 original size:15 final size:14
Alignment explanation
Indices: 21759635--21759670 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
21759625 ATATTTGTAT
21759635 TATTTTTAATTTAA
1 TATTTTTAATTTAA
21759649 TATTTATTAATTTAA
1 TATTT-TTAATTTAA
21759664 TATTTTT
1 TATTTTT
21759671 CTTTCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTAATTTAA
Found at i:21772659 original size:39 final size:40
Alignment explanation
Indices: 21772564--21772825 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
21772554 TTGAATGATG
*
21772564 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21772602 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21772643 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21772682 TCCGGGCTAA-ACCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21772721 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21772760 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21772799 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21772826 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 12, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
39 130 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21772847 original size:79 final size:79
Alignment explanation
Indices: 21772616--21772858 Score: 273
Period size: 78 Copynumber: 3.1 Consensus size: 79
21772606 GGACTAAGAT
* **
21772616 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACTA
* *
21772680 ATTCCGGGCTAAA-C
65 AATCCGGGTTAAATC
* ** *
21772694 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
21772759 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
21772773 CCGAAGGCATTTGTGTGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
21772835 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
21772852 CCGAAGG
1 CCGAAGG
21772859 TACGTGATTT
Statistics
Matches: 147, Mismatches: 12, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 75 0.51
79 46 0.31
80 25 0.17
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:21781395 original size:38 final size:35
Alignment explanation
Indices: 21781319--21781396 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 35
21781309 TTACTGTTGT
* *
21781319 TACTACTATGTTACTAATTGCATGTTCAACATGCC
1 TACTACTATGTTACTAATTGCATGATCAACATGAC
*
21781354 TACTACTATTGTTAAACTGATTGCATGAT-AATCATGAC
1 TACTACTA-TGTT--ACTAATTGCATGATCAA-CATGAC
21781392 TACTA
1 TACTA
21781397 TTTCTATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 8 0.22
36 4 0.11
37 2 0.06
38 22 0.61
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (35 bp):
TACTACTATGTTACTAATTGCATGATCAACATGAC
Found at i:21793916 original size:64 final size:64
Alignment explanation
Indices: 21793827--21793957 Score: 190
Period size: 64 Copynumber: 2.0 Consensus size: 64
21793817 TCAACATTGT
** * *
21793827 AGTCAAGCTGTATCATTGTGGTCAAGCCACTCAATAATGTTGTGGCGAAGCTACTCAATATCGC
1 AGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAACGTTGTGGCGAAGCTACTCAATATCGC
* ** *
21793891 AGTCAAGCTACATCGTTGTAGTCAAGCCACTCAATAACGTTGTGGTTAAGCTACTCAATATTGC
1 AGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAACGTTGTGGCGAAGCTACTCAATATCGC
21793955 AGT
1 AGT
21793958 AAAACTGCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (64 bp):
AGTCAAGCTACATCATTGTAGTCAAGCCACTCAATAACGTTGTGGCGAAGCTACTCAATATCGC
Found at i:21793941 original size:24 final size:24
Alignment explanation
Indices: 21793904--21793950 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
21793894 CAAGCTACAT
21793904 CGTTGTAGTCAAGCCACTCAATAA
1 CGTTGTAGTCAAGCCACTCAATAA
* * *
21793928 CGTTGTGGTTAAGCTACTCAATA
1 CGTTGTAGTCAAGCCACTCAATA
21793951 TTGCAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
CGTTGTAGTCAAGCCACTCAATAA
Found at i:21794150 original size:42 final size:42
Alignment explanation
Indices: 21794041--21794152 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 42
21794031 TTTCAATAGG
* * * *
21794041 CATGCTTAACATGCGAATCGAATCTAAGAAAAACATAGTCGG
1 CATGCTTAACATGCAAATCAAATCTCAGAAAAACATAGTCGA
* *** * *
21794083 CATGTTTAACATGCAAATCAAATCTCAGTTTATCATAGTTGA
1 CATGCTTAACATGCAAATCAAATCTCAGAAAAACATAGTCGA
21794125 CATGCTTAACATGCAAATCAAATCTCAG
1 CATGCTTAACATGCAAATCAAATCTCAG
21794153 CTAATAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (42 bp):
CATGCTTAACATGCAAATCAAATCTCAGAAAAACATAGTCGA
Found at i:21800227 original size:24 final size:26
Alignment explanation
Indices: 21800200--21800253 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 26
21800190 GGTATGGGAT
21800200 TTTTATTT-TTAAAAGGAACA-AATA
1 TTTTATTTATTAAAAGGAACAGAATA
* * *
21800224 TTTT-TTTATTGAGAGGAACAGGATA
1 TTTTATTTATTAAAAGGAACAGAATA
21800249 TTTTA
1 TTTTA
21800254 AAAAAGACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.12
24 14 0.58
25 7 0.29
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTTATTTATTAAAAGGAACAGAATA
Found at i:21800595 original size:15 final size:16
Alignment explanation
Indices: 21800548--21800599 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
21800538 TGTAAAATTT
*
21800548 TAGACTTTGAAAACTA
1 TAGACTGTGAAAACTA
21800564 TAGAACTGTGAAAACTA
1 TAG-ACTGTGAAAACTA
*
21800581 TAGATTGTG-AAACTA
1 TAGACTGTGAAAACTA
21800596 TAGA
1 TAGA
21800600 AAACTTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 10 0.30
16 8 0.24
17 15 0.45
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (16 bp):
TAGACTGTGAAAACTA
Found at i:21804865 original size:20 final size:20
Alignment explanation
Indices: 21804837--21804875 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21804827 TTTTAAGTGA
*
21804837 AATATAATGTTATTTAATTT
1 AATAAAATGTTATTTAATTT
21804857 AATAAAATGTTATTTAATT
1 AATAAAATGTTATTTAATT
21804876 AATTAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AATAAAATGTTATTTAATTT
Found at i:21810621 original size:19 final size:19
Alignment explanation
Indices: 21810597--21810637 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21810587 ATCTCATTTC
21810597 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
21810616 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
21810635 ATT
1 ATT
21810638 TACTGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:21815083 original size:15 final size:15
Alignment explanation
Indices: 21815060--21815103 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
21815050 TGAAATAAAT
*
21815060 TGATCAAATGTTGAA
1 TGATCAAATGATGAA
* *
21815075 TGATAAAATGATGTA
1 TGATCAAATGATGAA
21815090 TGATCAAATGATGA
1 TGATCAAATGATGA
21815104 GAAGTATGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (15 bp):
TGATCAAATGATGAA
Found at i:21817167 original size:19 final size:19
Alignment explanation
Indices: 21817143--21817183 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21817133 ATCTCATTTT
21817143 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTA-ATTA
21817162 ATTCATTTGCATTTAATTA
1 ATTCATTTGCATTTAATTA
21817181 ATT
1 ATT
21817184 TACTGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAATTA
Found at i:21819068 original size:20 final size:20
Alignment explanation
Indices: 21819045--21819082 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21819035 TTGTTCATAT
*
21819045 TTTTAATAATTTATATTTAG
1 TTTTAATAATTTAAATTTAG
*
21819065 TTTTAATATTTTAAATTT
1 TTTTAATAATTTAAATTT
21819083 TTATTAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTAATAATTTAAATTTAG
Found at i:21820621 original size:16 final size:15
Alignment explanation
Indices: 21820602--21820645 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21820592 TATTTGGTTT
*
21820602 TATTTTTTACTATTAA
1 TATTTCTTACT-TTAA
*
21820618 TATTTCTTCCTTTAA
1 TATTTCTTACTTTAA
*
21820633 TATTTCTTCCTTT
1 TATTTCTTACTTT
21820646 GTAAATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTCTTACTTTAA
Found at i:21820634 original size:15 final size:15
Alignment explanation
Indices: 21820614--21820645 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21820604 TTTTTTACTA
21820614 TTAATATTTCTTCCT
1 TTAATATTTCTTCCT
21820629 TTAATATTTCTTCCT
1 TTAATATTTCTTCCT
21820644 TT
1 TT
21820646 GTAAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATATTTCTTCCT
Found at i:21824354 original size:51 final size:50
Alignment explanation
Indices: 21824210--21824448 Score: 203
Period size: 51 Copynumber: 4.7 Consensus size: 50
21824200 AAAGTGATGG
* * * *** *
21824210 TCACGCGTGTAGTACTATGTGTAGGCTACTACATGTACCGGA-ACGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-GTTTGA
* * * *** *
21824260 TCGCATGTGTAGTACTATGTGCAGGCTATTATACGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTTGA
** *
21824311 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATTGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT--TGA
* * * ** *
21824362 TCATGTGTGTAGTACTATGTGCAAGCTACTACGTGAACCAAAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGA
* *
21824412 TCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
21824449 TCAAATAATA
Statistics
Matches: 149, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
49 2 0.01
50 70 0.47
51 75 0.50
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTTGA
Found at i:21825706 original size:33 final size:33
Alignment explanation
Indices: 21825664--21825729 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
21825654 CATTTTGGTA
21825664 CATAGATAATGCTGGGTGATAATCATGCTTTGT
1 CATAGATAATGCTGGGTGATAATCATGCTTTGT
21825697 CATAGATAATGCTGGGTGATAATCATGCTTTGT
1 CATAGATAATGCTGGGTGATAATCATGCTTTGT
21825730 GAAATATCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (33 bp):
CATAGATAATGCTGGGTGATAATCATGCTTTGT
Found at i:21825731 original size:16 final size:16
Alignment explanation
Indices: 21825679--21825731 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
21825669 ATAATGCTGG
21825679 GTGATAATCATGCTTT
1 GTGATAATCATGCTTT
* * **
21825695 GTCATAGATAATGCTGG
1 GTGATA-ATCATGCTTT
21825712 GTGATAATCATGCTTT
1 GTGATAATCATGCTTT
21825728 GTGA
1 GTGA
21825732 AATATCTGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.38
Consensus pattern (16 bp):
GTGATAATCATGCTTT
Found at i:21832810 original size:80 final size:79
Alignment explanation
Indices: 21832726--21832897 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
21832716 GGACTAAGAT
*
21832726 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
21832790 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
21832806 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
21832871 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
21832885 CCGAAGGCATTTG
1 CCGAAGGCATTTG
21832898 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:21832877 original size:39 final size:39
Alignment explanation
Indices: 21832673--21832895 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
21832663 TTGAATGCTG
* * * * *
21832673 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
21832713 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
21832752 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
21832793 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
21832833 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
21832872 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21832896 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Done.