Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 149 of 187
Found at i:44457977 original size:82 final size:82
Alignment explanation
Indices: 44457840--44458003 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
44457830 ATCTTTGGAA
*
44457840 CCGACTGGTCTTCCACGCTCTAGGCATAGATTACTTTCTTTTGCACTAATAGTTTTCCCTATTAG
1 CCGACTAGTCTTCCACGCTCTAGGCATAGATTACTTTCTTTTGCACTAATAGTTTTCCCTATTAG
44457905 GACATCAATTTATATTG
66 GACATCAATTTATATTG
44457922 CCGACTAGTCTTCCACGCTCTAGGCATAGATTACTTTCTTTTGCACTAATAGTTTTCCCTATTAG
1 CCGACTAGTCTTCCACGCTCTAGGCATAGATTACTTTCTTTTGCACTAATAGTTTTCCCTATTAG
44457987 GACATCAATTTATATTG
66 GACATCAATTTATATTG
44458004 GAGCATTTTC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (82 bp):
CCGACTAGTCTTCCACGCTCTAGGCATAGATTACTTTCTTTTGCACTAATAGTTTTCCCTATTAG
GACATCAATTTATATTG
Found at i:44462087 original size:26 final size:26
Alignment explanation
Indices: 44462040--44462100 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
44462030 AGCAAGTCGT
44462040 ATCGGGAAGCTCACAAAGAGCCAATTA
1 ATCGGGAAGCTCACAAAGAGCCAA-TA
* * *
44462067 AT-GGGAAGCTCACGAATAGCCTATA
1 ATCGGGAAGCTCACAAAGAGCCAATA
44462092 ATCGGGAAG
1 ATCGGGAAG
44462101 TTCATAAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 24 0.80
27 2 0.07
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (26 bp):
ATCGGGAAGCTCACAAAGAGCCAATA
Found at i:44469930 original size:26 final size:25
Alignment explanation
Indices: 44469874--44469942 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
44469864 GAACCAAATT
*
44469874 GGGAAGCTCACAAAGAGCCAATTAAC
1 GGGAAGCTCA-TAAGAGCCAATTAAC
* *
44469900 AGGAAGCTCATGAAGAGCCTA-TAATC
1 GGGAAGCTCAT-AAGAGCCAATTAA-C
*
44469926 GGGAAGTTCATAAGAGC
1 GGGAAGCTCATAAGAGC
44469943 TAAGGTGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.16
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCCAATTAAC
Found at i:44473952 original size:23 final size:24
Alignment explanation
Indices: 44473905--44473950 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
44473895 GGAAAATATT
44473905 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
44473929 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
44473951 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:44474044 original size:59 final size:63
Alignment explanation
Indices: 44473981--44474183 Score: 187
Period size: 59 Copynumber: 3.3 Consensus size: 63
44473971 CCTTGACTAG
44473981 TGTTACAA-AA-TAATAA-TAATAAAAC-ATCAAGTTTG-T-TTTACTAATCAAATGTTAGATTT
1 TGTTACAACAATTAATAATTAATAAAACAAT-AA-TTTGATATTTACTAATCAAATGTTAGATTT
*
44474040 TGTTACAACAATTAATACAATTAATACAACTAATAATTTGATAAATTTACTAATCAAATGTTAGA
1 TGTTACAACAATTAAT--AATTAATAAAAC-AATAATTTGAT--ATTTACTAATCAAATGTTAGA
44474105 TTT
61 TTT
* * *
44474108 TATTACAACAATTAAT-A-CAAT----TAATAATTTGATAAATTTACTAATCAAATGTTAGATTT
1 TGTTACAACAATTAATAATTAATAAAACAATAATTTGAT--ATTTACTAATCAAATGTTAGATTT
* *
44474167 TATTAAAACAATTAATA
1 TGTTACAACAATTAATA
44474184 CAATTAACAA
Statistics
Matches: 127, Mismatches: 5, Indels: 23
0.82 0.03 0.15
Matches are distributed among these distances:
59 60 0.47
60 2 0.02
61 4 0.03
63 2 0.02
64 15 0.12
65 4 0.03
66 2 0.02
68 38 0.30
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (63 bp):
TGTTACAACAATTAATAATTAATAAAACAATAATTTGATATTTACTAATCAAATGTTAGATTT
Found at i:44474096 original size:68 final size:67
Alignment explanation
Indices: 44474017--44474217 Score: 287
Period size: 59 Copynumber: 3.1 Consensus size: 67
44474007 TCAAGTTTGT
*
44474017 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAACTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAA-TAATAATTTGAT
44474082 AAA
65 AAA
44474085 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAC----AAT----TAATAATTTGATA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATAATAATTTGATA
44474142 AA
66 AA
*
44474144 TTTACTAATCAAATGTTAGATTTTATTAAAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAA-TAATAATTTGAT
*
44474207 AAT
65 AAA
44474210 TTTACTAA
1 TTTACTAA
44474218 CAATTAATTT
Statistics
Matches: 121, Mismatches: 3, Indels: 20
0.84 0.02 0.14
Matches are distributed among these distances:
59 55 0.45
62 1 0.01
64 3 0.02
66 22 0.18
68 40 0.33
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (67 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATAATAATTTGATA
AA
Found at i:44474227 original size:16 final size:16
Alignment explanation
Indices: 44474206--44474247 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
44474196 AATAATTTGA
*
44474206 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
44474222 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
44474238 TAATTTTAAT
1 TAATTTTAAT
44474248 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:44474231 original size:22 final size:23
Alignment explanation
Indices: 44474221--44474276 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
44474211 TTACTAACAA
* *
44474221 TTAATTTTAAT-AACAATTAATT
1 TTAATTTTAATAAAAAAATAATT
* *
44474243 TTAATTTTATTAAAAAAATAGTT
1 TTAATTTTAATAAAAAAATAATT
44474266 TTAATTTTAAT
1 TTAATTTTAAT
44474277 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:44475848 original size:2 final size:2
Alignment explanation
Indices: 44475841--44475868 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44475831 TGCTAAATAC
44475841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44475869 GAAGAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44477565 original size:9 final size:9
Alignment explanation
Indices: 44477472--44477615 Score: 51
Period size: 10 Copynumber: 15.0 Consensus size: 9
44477462 TGATATAAAC
*
44477472 TTATTAAAA
1 TTATAAAAA
44477481 TTATAAAAAA
1 TTAT-AAAAA
**
44477491 TT-GGAAAA
1 TTATAAAAA
*
44477499 TTATTTAAAA
1 TTA-TAAAAA
44477509 TTA-AAAAA
1 TTATAAAAA
* *
44477517 TATATTAGAAT
1 T-TA-TAAAAA
*
44477528 TTTTAAGAAA
1 TTATAA-AAA
*
44477538 TAATAAAACA
1 TTATAAAA-A
*
44477548 TTGTAAAAA
1 TTATAAAAA
44477557 TTATAAAAAAAA
1 TTAT---AAAAA
*
44477569 CTATTAAAAA
1 TTA-TAAAAA
*
44477579 -TATTAAAA
1 TTATAAAAA
44477587 TTGATATAAAA
1 TT-ATA-AAAA
*
44477598 TTATAAATA
1 TTATAAAAA
44477607 TTATAAAAA
1 TTATAAAAA
44477616 AAAGAGTCAT
Statistics
Matches: 99, Mismatches: 21, Indels: 30
0.66 0.14 0.20
Matches are distributed among these distances:
8 16 0.16
9 28 0.28
10 37 0.37
11 10 0.10
12 7 0.07
13 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:44477915 original size:5 final size:6
Alignment explanation
Indices: 44477888--44477922 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
44477878 CAGCTCAAGT
44477888 AAATAA AACATTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAA
44477923 ATTTAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:44478060 original size:9 final size:9
Alignment explanation
Indices: 44478029--44478352 Score: 106
Period size: 9 Copynumber: 34.0 Consensus size: 9
44478019 ATCCAGTTCA
44478029 AATTTTTAT
1 AATTTTTAT
*
44478038 GATTTTTTAAAT
1 -AATTTTT--AT
44478050 AATTTTTAT
1 AATTTTTAT
*
44478059 AA-CTTTAT
1 AATTTTTAT
*
44478067 AAATTTTAAT
1 -AATTTTTAT
* * *
44478077 ACTTCTAAT
1 AATTTTTAT
44478086 AATTTTTAT
1 AATTTTTAT
*
44478095 GATTTTTAT
1 AATTTTTAT
*
44478104 AGAATTTTAAT
1 --AATTTTTAT
*
44478115 ATGTTTTTAT
1 A-ATTTTTAT
*
44478125 AAAATTTTA-
1 -AATTTTTAT
44478134 AATATGTTTGATT
1 AAT-T-TTT-A-T
44478147 AA-TTTTAT
1 AATTTTTAT
44478155 AGATTCATTTAT
1 A-ATT--TTTAT
* *
44478167 AAATTATTAG
1 -AATTTTTAT
*
44478177 AATTTAT-T
1 AATTTTTAT
*
44478185 AATTTTTTT
1 AATTTTTAT
*
44478194 ATATTTTTCT
1 A-ATTTTTAT
44478204 AATATTTTTAT
1 -A-ATTTTTAT
*
44478215 TATTTTTAT
1 AATTTTTAT
*
44478224 -ATTTTTAC
1 AATTTTTAT
*
44478232 AAGTTATTAT
1 AA-TTTTTAT
44478242 CAATTTTTAT
1 -AATTTTTAT
44478252 -ATTCTTT-T
1 AATT-TTTAT
*
44478260 AATATTTA-
1 AATTTTTAT
44478268 ACATTTTTAT
1 A-ATTTTTAT
44478278 ACATTTTTAT
1 A-ATTTTTAT
* *
44478288 AAGTTTTCT
1 AATTTTTAT
* *
44478297 GATTTTTTT
1 AATTTTTAT
*
44478306 ATTTTTTAT
1 AATTTTTAT
* *
44478315 AAAATTTTCT
1 -AATTTTTAT
44478325 AATTTTTAT
1 AATTTTTAT
*
44478334 GATTTTTAAT
1 AATTTTT-AT
*
44478344 CATTTTTAT
1 AATTTTTAT
44478353 GGAAAATATT
Statistics
Matches: 235, Mismatches: 48, Indels: 63
0.68 0.14 0.18
Matches are distributed among these distances:
8 30 0.13
9 91 0.39
10 74 0.31
11 27 0.11
12 10 0.04
13 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:44478069 original size:21 final size:21
Alignment explanation
Indices: 44478029--44478070 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44478019 ATCCAGTTCA
* * *
44478029 AATTTTTATGATTTTTTAAAT
1 AATTTTTATAACTTTATAAAT
44478050 AATTTTTATAACTTTATAAAT
1 AATTTTTATAACTTTATAAAT
44478071 TTTAATACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTTTATAACTTTATAAAT
Found at i:44478123 original size:21 final size:22
Alignment explanation
Indices: 44478092--44478142 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
44478082 TAATAATTTT
*
44478092 TATGATTTTTATAGAATTTT-AA
1 TATG-TTTTTATAAAATTTTAAA
44478114 TATGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAATTTTAAA
44478136 TATGTTT
1 TATGTTT
44478143 GATTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TATGTTTTTATAAAATTTTAAA
Found at i:44478211 original size:19 final size:20
Alignment explanation
Indices: 44478184--44478221 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44478174 TAGAATTTAT
*
44478184 TAATTTTTTTA-TATTTTTC
1 TAATATTTTTATTATTTTTC
44478203 TAATATTTTTATTATTTTT
1 TAATATTTTTATTATTTTT
44478222 ATATTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TAATATTTTTATTATTTTTC
Found at i:44478305 original size:56 final size:56
Alignment explanation
Indices: 44478186--44478341 Score: 135
Period size: 56 Copynumber: 2.8 Consensus size: 56
44478176 GAATTTATTA
**
44478186 ATTTTTTTATATTTTTCTAATATTTTTATTATTTTTATATTTTTACAAGTTATTATC
1 ATTTTTTTATATTTTTCTAATA-TTTTAACATTTTTATATTTTTACAAGTTATTATC
* * * *
44478243 A-ATTTTTATATTCTTT-TAATA-TTTAACATTTTTATACATTTTTATAAGTT-TTCTG
1 ATTTTTTTATATT-TTTCTAATATTTTAACATTTTTAT--ATTTTTACAAGTTATTATC
* * *
44478298 ATTTTTTTAT-TTTTTATAAAATTTTCTA-ATTTTTATGATTTTTA
1 ATTTTTTTATATTTTTCTAATATTTT-AACATTTTTAT-ATTTTTA
44478342 ATCATTTTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
54 15 0.18
55 17 0.21
56 45 0.55
57 5 0.06
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (56 bp):
ATTTTTTTATATTTTTCTAATATTTTAACATTTTTATATTTTTACAAGTTATTATC
Found at i:44478312 original size:28 final size:29
Alignment explanation
Indices: 44478281--44478340 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
44478271 TTTTTATACA
* * *
44478281 TTTTTAT-AAGTTTTCTGATTTTT-TTAT
1 TTTTTATAAAATTTTCTAATTTTTATGAT
44478308 TTTTTATAAAATTTTCTAATTTTTATGAT
1 TTTTTATAAAATTTTCTAATTTTTATGAT
44478337 TTTT
1 TTTT
44478341 AATCATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 7 0.25
28 14 0.50
29 7 0.25
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTTTATAAAATTTTCTAATTTTTATGAT
Found at i:44478341 original size:28 final size:27
Alignment explanation
Indices: 44478270--44478341 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
44478260 AATATTTAAC
* *
44478270 ATTTTTATACATTTTTATAAGTTTTCTG
1 ATTTTTAT-CATTTTTATAAATTTTCTA
*
44478298 ATTTTT-TTATTTTTTATAAAATTTTCTA
1 ATTTTTATCA-TTTTTAT-AAATTTTCTA
*
44478326 ATTTTTATGATTTTTA
1 ATTTTTATCATTTTTA
44478342 ATCATTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.22
28 26 0.70
29 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (27 bp):
ATTTTTATCATTTTTATAAATTTTCTA
Found at i:44479263 original size:306 final size:300
Alignment explanation
Indices: 44478649--44479199 Score: 805
Period size: 306 Copynumber: 1.8 Consensus size: 300
44478639 TGTGAGTTTA
* * * *
44478649 AAAATAACATACAATAATTAATGAAATGTATAGTTTGAAACTAATTAATCATAATAACACATGAA
1 AAAATAACACACAATAAATAATGAAACGTATAGCTTGAAACTAATTAATCATAATAACACATGAA
* * *
44478714 ATATGTACGATCTTAAAATTAAAAAAATTAAATTGTGAGTAAAACGAAATTTAAGCACATAAATA
66 ATATGTACGATATTAAAATAAAAAAAATTAAATTGTGAGTAAAACGAAATTTAAACACATAAATA
* *
44478779 CATCAGATAAATAATACTAAATGCACTACAATTATTTATCATGATTTTTCAACAATTGTGAGTTA
131 CATAAGATAAACAATACTAAATGCACTACAATTATTTATCATGATTTTTCAACAATTGTGAGTTA
* * * *
44478844 GTGTCGAGTTGACTTGTGACACCAACTCAATTAACAACATTATTAATATTCTAAATCTTATCACA
196 GTATCGAATTGACTTGTGACACCAACTCAATTAACAACATTATTAATATTATAAATCTAAT-ACA
* * * * * * *
44478909 AGCGTACGCGTACGGAGACTGTATTTAGAACACATGTGTGCTTT
260 AGCATA--CATACGGAGA-TGTATTTAAAAAAAATGTATGCATT
* * *
44478953 AAAATGACACACAATAAATAATGAAACGTATGGCTTGAAATTAATTAATCATAATAACACATGAA
1 AAAATAACACACAATAAATAATGAAACGTATAGCTTGAAACTAATTAATCATAATAACACATGAA
*
44479018 ATATGTATGATATTAAAATAAAAAATAGATTAAATTGTGAGTAAAACGAAATTTAAACACATAAA
66 ATATGTACGATATTAAAATAAAAAA-A-ATTAAATTGTGAGTAAAACGAAATTTAAACACATAAA
44479083 TACATAAGATAAACAATACTAAATGCACTACAATTATTTATCATGATTTTGTCAACAATTGTGAG
129 TACATAAGATAAACAATACTAAATGCACTACAATTATTTATCATGATTTT-TCAACAATTGTGAG
* *
44479148 TTAGTATTGAATTGACTTGTGACACCTACTCAATTAACAACATTATTAATAT
193 TTAGTATCGAATTGACTTGTGACACCAACTCAATTAACAACATTATTAATAT
44479200 ATACAATTAA
Statistics
Matches: 227, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
304 80 0.35
305 1 0.00
306 84 0.37
307 62 0.27
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (300 bp):
AAAATAACACACAATAAATAATGAAACGTATAGCTTGAAACTAATTAATCATAATAACACATGAA
ATATGTACGATATTAAAATAAAAAAAATTAAATTGTGAGTAAAACGAAATTTAAACACATAAATA
CATAAGATAAACAATACTAAATGCACTACAATTATTTATCATGATTTTTCAACAATTGTGAGTTA
GTATCGAATTGACTTGTGACACCAACTCAATTAACAACATTATTAATATTATAAATCTAATACAA
GCATACATACGGAGATGTATTTAAAAAAAATGTATGCATT
Found at i:44479987 original size:294 final size:292
Alignment explanation
Indices: 44479202--44480093 Score: 956
Period size: 297 Copynumber: 3.0 Consensus size: 292
44479192 ATTAATATAT
* ** *
44479202 ACAATTAATGGAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATGCATTAAAATAAA
1 ACAATTAATGGAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATACA-CCAAATGAA
* ** * * ** ***
44479267 GCTTTAGTTGAATGACAAATTTAAG-GTTTTACTAATCCAATTGGCGTGGGTGCAAATCCCATTA
65 GCTTTAGTTGAGTGGTAAATTTAAGTG-TTTACTAATCCAATTGG-ATGAGTTTAAATATTATTA
* * *
44479331 TATGCATATTTTAATTGGTTTTTGTTAAAATGAAAATG-CTAAAATACCCTCAAACAGTACAACT
128 TATGCATATTTTAATTGGTTTTTGTTAAAATGAAAA-GACTAAAATACCATCAAATAGTATAACT
* * * *
44479395 TATTTTAGTTATGGAAAGACA-TTTCTATAACTTTCTAA-CATAGTTGGTGACCCGATTGA--G-
192 TATTTTAATTATGGAAGGACATTTTC-GTAA-TTTCTAACCA-A-TTGGTGACCCAATTGAGGGT
* ** * *
44479455 GAAGACTCTCAGTAAAATACTTAATAAGTAGTACGTATAAATAT
253 GAACAAACTCAGTAAAATACTTAATAA--A-TA-GTATAGATAA
* * * * * *
44479499 ACAACTAATGGAGATAACAACTTATGCATATTAAAATAAAAATGTATTAAATATACCAATATGAA
1 ACAATTAATGGAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATACACCAA-ATGAA
* ** *
44479564 GCTTT-GATTGAGTGGTAAATTTAAGAT-TTTACTAATCCAATTAGCACAAGCTTAAATATTATT
65 GCTTTAG-TTGAGTGGTAAATTTAAG-TGTTTACTAATCCAATT-GGATGAGTTTAAATATTATT
* * ** *
44479627 TTATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGATTAAAATGTCATCAAATAATATAACT
127 ATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACT
* *
44479692 TATTTTACTTATGGAAGGGCATTTTCGTAATTTTCTAACCGAATTGGTGACCCAATTGAGGGTGA
192 TATTTTAATTATGGAAGGACATTTTCGTAA-TTTCTAACC-AATTGGTGACCCAATTGAGGGTGA
* * *
44479757 ACAAACTTAGTAAAACACTTAATAAATATTATAGATAA
255 ACAAACTCAGTAAAATACTTAATAAATAGTATAGATAA
*
44479795 ACAATTAATAGAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
1 ACAATTAATGGAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
* * * * * *
44479860 CTTTAGTTGAGTGGTAAAATTAAGTGATTATTAATCTAATTGGTTGAGTTTAAATTTTATTATAT
66 CTTTAGTTGAGTGGTAAATTTAAGTGTTTACTAATCCAATTGGATGAGTTTAAATATTATTATAT
* * **
44479925 GAATATTTTAATTGATTTTCATTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATT
131 GCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATT
* * * * *
44479990 TTAATAATGAAAGGATATTTTCGTAATTTCTTAATTCAATTGGTGACCCAATTGAGGGTGACACC
196 TTAATTATGGAAGGACATTTTCGTAATTTC-TAA-CCAATTGGTGACCCAATTGAGGGTGA-ACA
*
44480055 AACTCAATAAAATACTTAATAAATAGTATAGATATA
258 AACTCAGTAAAATACTTAATAAATAGTATAGATA-A
44480091 ACA
1 ACA
44480094 TAATTTCTTT
Statistics
Matches: 494, Mismatches: 83, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
293 4 0.01
294 123 0.25
295 72 0.15
296 68 0.14
297 195 0.39
298 8 0.02
299 2 0.00
300 22 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (292 bp):
ACAATTAATGGAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
CTTTAGTTGAGTGGTAAATTTAAGTGTTTACTAATCCAATTGGATGAGTTTAAATATTATTATAT
GCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATT
TTAATTATGGAAGGACATTTTCGTAATTTCTAACCAATTGGTGACCCAATTGAGGGTGAACAAAC
TCAGTAAAATACTTAATAAATAGTATAGATAA
Found at i:44480291 original size:23 final size:21
Alignment explanation
Indices: 44480262--44480329 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
44480252 TAATATAAAA
44480262 TTTAAATTTATTATTATATTT
1 TTTAAATTTATTATTATATTT
* *
44480283 TTTGAAA-ATATTTATTTATATATA
1 TTT-AAATTTA-TTA-TTATAT-TT
44480307 TTTAAATTTATTATTATATTT
1 TTTAAATTTATTATTATATTT
44480328 TT
1 TT
44480330 AAAAAGATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 8 0.21
22 12 0.32
23 12 0.32
24 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (21 bp):
TTTAAATTTATTATTATATTT
Found at i:44483913 original size:29 final size:28
Alignment explanation
Indices: 44483876--44483973 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 28
44483866 ACCTAGCCCA
* *
44483876 TGTGGCCCACATGGCCTACCACACGCTCG
1 TGTGACCCACATGGCCTACCACAAGC-CG
* *
44483905 TGTGACCCACACGGCCAACCACAAGACCG
1 TGTGACCCACATGGCCTACCACAAG-CCG
* * * *
44483934 TGTAACCCACATGGTCTGCCACATGGCCG
1 TGTGACCCACATGGCCTACCACA-AGCCG
44483963 TGTGACCCACA
1 TGTGACCCACA
44483974 CGGTTTGCCA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 54 0.96
30 2 0.04
ACGTcount: A:0.23, C:0.39, G:0.22, T:0.15
Consensus pattern (28 bp):
TGTGACCCACATGGCCTACCACAAGCCG
Found at i:44483982 original size:29 final size:29
Alignment explanation
Indices: 44483903--44483997 Score: 100
Period size: 29 Copynumber: 3.3 Consensus size: 29
44483893 ACCACACGCT
* **
44483903 CGTGTGACCCACACGGCCAACCACAAGAC
1 CGTGTGACCCACACGGTCTGCCACAAGAC
* * * *
44483932 CGTGTAACCCACATGGTCTGCCACATGGC
1 CGTGTGACCCACACGGTCTGCCACAAGAC
* *
44483961 CGTGTGACCCACACGGTTTGCCACACGAC
1 CGTGTGACCCACACGGTCTGCCACAAGAC
*
44483990 CATGTGAC
1 CGTGTGAC
44483998 GTCGACAGAA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.24, C:0.37, G:0.23, T:0.16
Consensus pattern (29 bp):
CGTGTGACCCACACGGTCTGCCACAAGAC
Found at i:44485534 original size:23 final size:23
Alignment explanation
Indices: 44485473--44485586 Score: 158
Period size: 23 Copynumber: 5.0 Consensus size: 23
44485463 TCTATCATCC
* * *
44485473 ACCAAACATAGCCTCCAAGCACA
1 ACCAAATATACCCTCCAAACACA
*
44485496 ACC-AATTTACCCTCCAAACACA
1 ACCAAATATACCCTCCAAACACA
* * *
44485518 ACCATATGTACCTTCCAAACACA
1 ACCAAATATACCCTCCAAACACA
44485541 ACCAAATATACCCTCCAAACACA
1 ACCAAATATACCCTCCAAACACA
44485564 ACCAAATATACCCTCCAAACACA
1 ACCAAATATACCCTCCAAACACA
44485587 TCCACTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
22 18 0.22
23 62 0.77
ACGTcount: A:0.44, C:0.39, G:0.03, T:0.15
Consensus pattern (23 bp):
ACCAAATATACCCTCCAAACACA
Found at i:44493804 original size:2 final size:2
Alignment explanation
Indices: 44493792--44493829 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
44493782 ATTCTATCAA
* *
44493792 CT CT CT TT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
44493830 ATTTCTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
CT
Found at i:44497321 original size:19 final size:19
Alignment explanation
Indices: 44497292--44497358 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
44497282 ATTTAATTGG
44497292 CACGTAAGTGCATACTGGCA
1 CACG-AAGTGCATACTGGCA
* *
44497312 CTCGAAGTGCGTACTGGCA
1 CACGAAGTGCATACTGGCA
*
44497331 CAC-ATAGTGCATTCTGGCA
1 CACGA-AGTGCATACTGGCA
44497350 CACGAAGTG
1 CACGAAGTG
44497359 AATCTTGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 35 0.88
20 4 0.10
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (19 bp):
CACGAAGTGCATACTGGCA
Found at i:44498292 original size:3 final size:3
Alignment explanation
Indices: 44498284--44498320 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
44498274 ACCCTTCAAT
*
44498284 GAA GAA GAA GAA TAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
44498321 TTTCCATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:44499036 original size:29 final size:28
Alignment explanation
Indices: 44498990--44499051 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
44498980 ATACAAAATT
* *
44498990 TTTATAAAAATATAGAAAATATTTAAAA
1 TTTATAAAAATATAGAAAAAATATAAAA
*
44499018 TTTACTAAAAATTTAGAAAAAATATAAAA
1 TTTA-TAAAAATATAGAAAAAATATAAAA
*
44499047 ATTAT
1 TTTAT
44499052 TACACAACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (28 bp):
TTTATAAAAATATAGAAAAAATATAAAA
Found at i:44499227 original size:26 final size:27
Alignment explanation
Indices: 44499191--44499251 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
44499181 TGAAAAAATC
44499191 AAAAAT-TAAAATCAA-TAAA-AATGAT
1 AAAAATATAAAAT-AATTAAAGAATGAT
*
44499216 AAAAATATAAAATAATTAAAGTAATTAT
1 AAAAATATAAAATAATTAAAG-AATGAT
44499244 AAAAATAT
1 AAAAATAT
44499252 GTAAAAGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 8 0.26
26 10 0.32
28 13 0.42
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAAATATAAAATAATTAAAGAATGAT
Found at i:44499256 original size:21 final size:22
Alignment explanation
Indices: 44499224--44499274 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
44499214 ATAAAAATAT
*
44499224 AAAATAATT-AAAGTAATT-ATA
1 AAAAT-ATTAAAAGTAATTGAAA
*
44499245 AAAATATGTAAAAGTTATTGAAA
1 AAAATAT-TAAAAGTAATTGAAA
44499268 AAAATAT
1 AAAATAT
44499275 ATAATTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 6 0.24
22 8 0.32
23 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (22 bp):
AAAATATTAAAAGTAATTGAAA
Found at i:44499850 original size:23 final size:23
Alignment explanation
Indices: 44499788--44499851 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
44499778 ATTTATAAGG
* * *
44499788 AAAATA-TTTTATGATTTTTTAT
1 AAAATATTTTTTTTATTTTTAAT
*
44499810 -AAATATTTTCTATATATTTTTAAT
1 AAAATATTTT-T-TTTATTTTTAAT
44499834 AAAATATTTTTTTTATTT
1 AAAATATTTTTTTTATTT
44499852 GTTTCAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 5 0.15
22 3 0.09
23 7 0.21
24 9 0.27
25 9 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
AAAATATTTTTTTTATTTTTAAT
Found at i:44508966 original size:20 final size:20
Alignment explanation
Indices: 44508925--44508966 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44508915 TTCAAAAAAG
*
44508925 TAGAAAAAATATCAAATTAA
1 TAGAAAAAATATCAAATCAA
*
44508945 TAGAAAACATATCTAAA-CAA
1 TAGAAAAAATATC-AAATCAA
44508965 TA
1 TA
44508967 ATTATGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (20 bp):
TAGAAAAAATATCAAATCAA
Found at i:44514415 original size:15 final size:16
Alignment explanation
Indices: 44514390--44514426 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
44514380 TGGGTAGGAC
44514390 CTGTATACTGT-ATAAT
1 CTGT-TACTGTAATAAT
44514406 CTGTTACTGTAATAAT
1 CTGTTACTGTAATAAT
44514422 -TGTTA
1 CTGTTA
44514427 TTACTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (16 bp):
CTGTTACTGTAATAAT
Found at i:44520263 original size:91 final size:90
Alignment explanation
Indices: 44520109--44520353 Score: 305
Period size: 91 Copynumber: 2.7 Consensus size: 90
44520099 GTATTTTGGA
* * **
44520109 AATTGAG-AAAAAAAAAGGAGCATGGGCTTAATTGCTTTTGTTGAAAATTTTTGAGGGTCTTTTT
1 AATTGAGTATAAAAAAAGGAGCATGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG-CTTTTT
* *
44520173 GATGCATTTTGACAGTTCAAGTACCC
65 GATGCATTTTAAAAGTTCAAGTACCC
44520199 AATTGAGTATAAAAAAAGGAGCATGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTT
1 AATTGAGTATAAAAAAAGGAGCATGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG-CTTTTT
*
44520264 GATGCATTTTAAAAGTTTAAGTACCC
65 GATGCATTTTAAAAGTTCAAGTACCC
* * * * * * * * *
44520290 AATTGAGTGTCAAAAAAA-CAACAAGAGTTTAATTTCTTTTTCTAAAAAAGTTTGAGGGCTTTTT
1 AATTGAGTAT-AAAAAAAGGAGCATGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCTTTTT
44520354 ACACCCTTAA
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
90 13 0.10
91 116 0.85
92 7 0.05
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.36
Consensus pattern (90 bp):
AATTGAGTATAAAAAAAGGAGCATGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCTTTTTG
ATGCATTTTAAAAGTTCAAGTACCC
Found at i:44526698 original size:26 final size:26
Alignment explanation
Indices: 44526669--44526735 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
44526659 AAATTAAAAA
*
44526669 TTACCAAAATGT-TATAATTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTAT
44526695 TTACCAAAATATATATAATTTTTTAT
1 TTACCAAAATATATATAATTTTTTAT
*
44526721 TTACTAAAATATATA
1 TTACCAAAATATATA
44526736 AAAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.49
Consensus pattern (26 bp):
TTACCAAAATATATATAATTTTTTAT
Found at i:44526841 original size:27 final size:27
Alignment explanation
Indices: 44526799--44526905 Score: 160
Period size: 27 Copynumber: 4.0 Consensus size: 27
44526789 ACTCCCTGGG
**
44526799 ACAAGGGAACATTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
44526826 ACAAGGGAACCCTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
44526853 ACAAGGGTTCCCTGTTGGCGGCACCAA
1 ACAAGGGAACCCTGTTGGCGGCACCAA
**
44526880 ACAAGGGTTCCCTGTTGGCGGCACCA
1 ACAAGGGAACCCTGTTGGCGGCACCA
44526906 CTCGTGTTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.16
Consensus pattern (27 bp):
ACAAGGGAACCCTGTTGGCGGCACCAA
Found at i:44527199 original size:3 final size:3
Alignment explanation
Indices: 44527191--44527228 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
44527181 AATTTTATAG
44527191 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44527229 AGATGTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44527338 original size:12 final size:12
Alignment explanation
Indices: 44527194--44527338 Score: 55
Period size: 12 Copynumber: 11.8 Consensus size: 12
44527184 TTTATAGTAT
*
44527194 TATTATTATTAT
1 TATTATTATTAA
*
44527206 TATTATTATTAT
1 TATTATTATTAA
44527218 TATTATTATTAA
1 TATTATTATTAA
* * *
44527230 GA-TGTTACTTAG
1 TATTATTA-TTAA
* *
44527242 TATTATTGTTAG
1 TATTATTATTAA
* ** *
44527254 TA-AAAAATTAG
1 TATTATTATTAA
*
44527265 TATTATT-TTTA
1 TATTATTATTAA
44527276 TAGTTAGTTATTAA
1 TA-TTA-TTATTAA
*
44527290 TAATT-TTAGTTAG
1 T-ATTATTA-TTAA
*
44527303 TATTATTTTGTATA
1 TATTATTAT-TA-A
**
44527317 TAAAATTATTAA
1 TATTATTATTAA
44527329 TATTATTATT
1 TATTATTATT
44527339 GTGTTAGTTA
Statistics
Matches: 97, Mismatches: 25, Indels: 22
0.67 0.17 0.15
Matches are distributed among these distances:
11 15 0.15
12 54 0.56
13 15 0.15
14 12 0.12
15 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.56
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:44527987 original size:18 final size:18
Alignment explanation
Indices: 44527959--44528003 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
44527949 TTGATATGGT
* *
44527959 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
44527977 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
44527995 TGGTGGCGA
1 TGGTGGCGA
44528004 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:44530763 original size:27 final size:27
Alignment explanation
Indices: 44530690--44530769 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
44530680 ATAACACGAG
**
44530690 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
44530717 TGGTGCAGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
44530744 TGGTGCCGCCAACAGTGTTCCCTTGT
1 TGGTGCCGCCAACAGGGTTCCCTTGT
44530770 CCCAATGAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:44530880 original size:27 final size:26
Alignment explanation
Indices: 44530821--44530880 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 26
44530811 TTTTTGTTTT
44530821 TTTATATATTTTGGTAAATAAAAAAA
1 TTTATATATTTTGGTAAATAAAAAAA
44530847 TTATATATATTTTGGTAAATAAAAAAAA
1 TT-TATATATTTTGGTAAAT-AAAAAAA
44530875 TTTATA
1 TTTATA
44530881 ACATTTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 2 0.06
27 21 0.66
28 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (26 bp):
TTTATATATTTTGGTAAATAAAAAAA
Found at i:44530886 original size:28 final size:27
Alignment explanation
Indices: 44530823--44530888 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
44530813 TTTGTTTTTT
*
44530823 TATATATTTTGGTAAATAAAAAAATTA
1 TATACATTTTGGTAAATAAAAAAATTA
*
44530850 TATATATTTTGGTAAATAAAAAAAATT-
1 TATACATTTTGGTAAAT-AAAAAAATTA
44530877 TATAACATTTTG
1 TAT-ACATTTTG
44530889 ATAATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (27 bp):
TATACATTTTGGTAAATAAAAAAATTA
Found at i:44536147 original size:16 final size:16
Alignment explanation
Indices: 44536122--44536160 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
44536112 TATACATGTC
44536122 ATTC-AATTTTCTATA
1 ATTCAAATTTTCTATA
44536137 ATTCAAATTTTCTATA
1 ATTCAAATTTTCTATA
44536153 ATTCAAAT
1 ATTCAAAT
44536161 GACCTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTCAAATTTTCTATA
Found at i:44538701 original size:33 final size:33
Alignment explanation
Indices: 44538664--44538729 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
44538654 GTTGTTTGTG
*
44538664 TTTGCTCATGTTTGCTACCATTTTGTTCCAACA
1 TTTGCTCATGTTTGCTACCATTTTGTCCCAACA
*
44538697 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
1 TTTGCTCATGTTTGCTACCATTTTGTCCCAACA
44538730 AATGGTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.44
Consensus pattern (33 bp):
TTTGCTCATGTTTGCTACCATTTTGTCCCAACA
Found at i:44540545 original size:18 final size:19
Alignment explanation
Indices: 44540522--44540559 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
44540512 AGGCATTTGG
* *
44540522 AGCTTTTGCA-AAATTCAA
1 AGCTTTGGCAGAAAATCAA
44540540 AGCTTTGGCAGAAAATCAA
1 AGCTTTGGCAGAAAATCAA
44540559 A
1 A
44540560 CAGGCTGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCTTTGGCAGAAAATCAA
Found at i:44543199 original size:33 final size:33
Alignment explanation
Indices: 44543162--44543227 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
44543152 CTTGTTTATG
* *
44543162 TTTGCTCATGTTTGCTGTCATTTTGTTCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
44543195 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
44543228 GATATAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
Found at i:44547139 original size:127 final size:127
Alignment explanation
Indices: 44546913--44547172 Score: 459
Period size: 127 Copynumber: 2.0 Consensus size: 127
44546903 TAGGATTAAC
*
44546913 AATAAACCACAAATTAGAAGTAAATCGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
1 AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
* *
44546978 CGGATTCTTAAAAATACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
66 AGGAGTCTTAAAAATACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
*
44547040 AATAAACCACAATTTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
1 AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
*
44547105 ATGAGTCTTAAACAA-ACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
66 AGGAGTCTTAAA-AATACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
44547167 AATAAA
1 AATAAA
44547173 TTATTCTTTG
Statistics
Matches: 127, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
127 125 0.98
128 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (127 bp):
AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
AGGAGTCTTAAAAATACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
Found at i:44547983 original size:40 final size:41
Alignment explanation
Indices: 44547911--44548124 Score: 254
Period size: 41 Copynumber: 5.3 Consensus size: 41
44547901 TAACAAAATG
* * ** *
44547911 TTTGCCGCGTTTATGGGAAAAACGCCGTTATTGCTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACATCGCTATTGCTTTACCT
* * *
44547952 TTAGCGGCGTTTATGA-AAAAATATTGCTATTGCTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACATCGCTATTGCTTTACCT
***
44547992 TTTGCGGCGTTTATGAGAAAAATGCCGCTATTGCTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACATCGCTATTGCTTTACCT
* *
44548033 TTTGCGGCGTTTATGAGAAAAGCATCGCTATTACTTTACCT
1 TTTGCGGCGTTTATGAGAAAAACATCGCTATTGCTTTACCT
* * * *
44548074 TTTGCGGCGTTTATG-GAAAAACGTTGCTAAT-CCTTACCT
1 TTTGCGGCGTTTATGAGAAAAACATCGCTATTGCTTTACCT
44548113 TTTGCGGCGTTT
1 TTTGCGGCGTTT
44548125 TCGATCTGAA
Statistics
Matches: 150, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
39 19 0.13
40 46 0.31
41 85 0.57
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTGCGGCGTTTATGAGAAAAACATCGCTATTGCTTTACCT
Found at i:44548046 original size:81 final size:81
Alignment explanation
Indices: 44547911--44548124 Score: 288
Period size: 81 Copynumber: 2.6 Consensus size: 81
44547901 TAACAAAATG
* * * *
44547911 TTTGCCGCGTTTATGGGAAAAACGCCGTTATTGCTTTACCTTTAGCGGCGTTTATGA-AAAAATA
1 TTTGCGGCGTTTAT-GGAAAAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACA
* *
44547975 TTGCTATTGCTTTACCT
65 TCGCTATTACTTTACCT
* *
44547992 TTTGCGGCGTTTATGAGAAAAATGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGAGAAAAGCA
1 TTTGCGGCGTTTATG-GAAAAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACA
44548057 TCGCTATTACTTTACCT
65 TCGCTATTACTTTACCT
** * *
44548074 TTTGCGGCGTTTATGGAAAAACGTTGCTAAT-CCTTACCTTTTGCGGCGTTT
1 TTTGCGGCGTTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGCGGCGTTT
44548125 TCGATCTGAA
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
80 20 0.17
81 63 0.53
82 35 0.30
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (81 bp):
TTTGCGGCGTTTATGGAAAAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACAT
CGCTATTACTTTACCT
Found at i:44555232 original size:6 final size:6
Alignment explanation
Indices: 44555221--44555255 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
44555211 TTAGATTAGG
44555221 TTTTAT TTTTAT TTTTAT TTTTAT CTTTT-T TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTA
44555256 ATTTCATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:44555879 original size:31 final size:32
Alignment explanation
Indices: 44555834--44555896 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
44555824 AGATAATTTT
44555834 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
44555866 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
44555897 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTG
Found at i:44560503 original size:6 final size:6
Alignment explanation
Indices: 44560485--44560536 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
44560475 GTCAAAGGAT
* * * * *
44560485 GAGTAG GAGTGG GAATGG GAGTGG GAGTGG GAGTAG GAGTAG GAGTGA
1 GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG
44560533 GAGT
1 GAGT
44560537 AGATGAGTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.27, C:0.00, G:0.56, T:0.17
Consensus pattern (6 bp):
GAGTGG
Found at i:44560536 original size:18 final size:18
Alignment explanation
Indices: 44560485--44560538 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
44560475 GTCAAAGGAT
* *
44560485 GAGTAGGAGTGGGAATGG
1 GAGTAGGAGTGGGAGTAG
*
44560503 GAGTGGGAGTGGGAGTAG
1 GAGTAGGAGTGGGAGTAG
*
44560521 GAGTAGGAGTGAGAGTAG
1 GAGTAGGAGTGGGAGTAG
44560539 ATGAGTTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.56, T:0.17
Consensus pattern (18 bp):
GAGTAGGAGTGGGAGTAG
Found at i:44574927 original size:23 final size:24
Alignment explanation
Indices: 44574876--44574933 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
44574866 AGTACTACTA
* *
44574876 AAATCCAAAAAAACTCAACTAATT
1 AAATCCAAAAAAACTCAACAAAAT
* *
44574900 AAATCGAAAAAATCTCAACAAAAT
1 AAATCCAAAAAAACTCAACAAAAT
*
44574924 -AATCCTAAAA
1 AAATCCAAAAA
44574934 GATAAAGATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (24 bp):
AAATCCAAAAAAACTCAACAAAAT
Found at i:44576437 original size:43 final size:43
Alignment explanation
Indices: 44576380--44576564 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
44576370 TTTTTCACAT
* *
44576380 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
44576423 AAACGCCGATAAAGATCATGACCTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
44576466 AATCGCCGCTAAAGAAAATAACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
44576509 AAGCGTCACTAAATAACATGACCTTTAGCAGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
*
44576552 AAACACCGCTAAA
1 AAACGCCGCTAAA
44576565 ATTACCGTTT
Statistics
Matches: 120, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 120 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:44582644 original size:9 final size:9
Alignment explanation
Indices: 44582592--44582933 Score: 219
Period size: 9 Copynumber: 39.1 Consensus size: 9
44582582 TAAGTATAAC
*
44582592 TAAGTTGTG
1 TAAGTTATG
44582601 TAAGTTATG
1 TAAGTTATG
* * *
44582610 ATATGATATA
1 -TAAGTTATG
*
44582620 T-ATTTATG
1 TAAGTTATG
44582628 T-A-TTATG
1 TAAGTTATG
44582635 TAAGTTATG
1 TAAGTTATG
44582644 TAAGTTATG
1 TAAGTTATG
* *
44582653 TGAGTTAAG
1 TAAGTTATG
*
44582662 TAAATTATG
1 TAAGTTATG
*
44582671 TAAGTTTTG
1 TAAGTTATG
* * *
44582680 ATATGATATA
1 -TAAGTTATG
*
44582690 T-ATTTATG
1 TAAGTTATG
*
44582698 TAATTTATG
1 TAAGTTATG
*
44582707 TAAGTTGTG
1 TAAGTTATG
44582716 TAAGTTATG
1 TAAGTTATG
44582725 TAAGTTA--
1 TAAGTTATG
*
44582732 T-ATTTATG
1 TAAGTTATG
*
44582740 T-A-TTACG
1 TAAGTTATG
44582747 TAAGTTATG
1 TAAGTTATG
44582756 TAAGTTATG
1 TAAGTTATG
44582765 T-A-TTATG
1 TAAGTTATG
**
44582772 TAAGTATAAA
1 TAAGT-TATG
44582782 TAAGTTATG
1 TAAGTTATG
*
44582791 TAAGTTACG
1 TAAGTTATG
* * *
44582800 ATATGATATA
1 -TAAGTTATG
*
44582810 T-ATTTATG
1 TAAGTTATG
44582818 T-A-TTATG
1 TAAGTTATG
44582825 TAAGTTATG
1 TAAGTTATG
*
44582834 TGAGTTATG
1 TAAGTTATG
*
44582843 TGAGTTATG
1 TAAGTTATG
44582852 TAAGTTATG
1 TAAGTTATG
*
44582861 TAAATTATG
1 TAAGTTATG
44582870 TAAGTTATG
1 TAAGTTATG
*
44582879 TAAGTTTTG
1 TAAGTTATG
* * *
44582888 ATATGATATA
1 -TAAGTTATG
*
44582898 T-ATTTATG
1 TAAGTTATG
* *
44582906 TAAATAATG
1 TAAGTTATG
44582915 TAAGTTATG
1 TAAGTTATG
*
44582924 TATGTTATG
1 TAAGTTATG
44582933 T
1 T
44582934 GGAAATTAGT
Statistics
Matches: 256, Mismatches: 60, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
6 4 0.02
7 24 0.09
8 25 0.10
9 175 0.68
10 28 0.11
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:44582731 original size:72 final size:70
Alignment explanation
Indices: 44582599--44582933 Score: 292
Period size: 70 Copynumber: 4.8 Consensus size: 70
44582589 AACTAAGTTG
*
44582599 TGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTTAAGTA
1 TGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTA
44582664 AATTA
66 AATTA
* *
44582669 TGTAAGTTTTGATATGATATATATTTATGTAATTTATGTAAGTTGTGTAAGTTATGTAAGTT-A-
1 TGTAAGTTATGATATGATATATATTTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTAAG
*
44582732 T-ATTTA
64 TAAATTA
* * * * * ** *
44582738 TGT-A-TTACG-TAAGTTATGTAAGTTATGTATTATGTAAGTATAAATAAGTTATGTAAGTTACG
1 TGTAAGTTATGATATGATATAT-ATTTATGTATTATGTAAGT-TATGTAAGTTATGTAAGTTAAG
* *
44582800 -ATATGA
64 TAAATTA
* * * * * * * *
44582806 TATATATTTATG-TATTATGTA-AGTTATGTGAGTTATGTGAGTTATGTAAGTTATGTAAATTAT
1 TGTA-AGTTATGATATGATATATATTTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTAA
*
44582869 GTAAGTTA
63 GTAAATTA
* * *
44582877 TGTAAGTTTTGATATGATATATATTTATGTAAATAATGTAAGTTATGTATGTTATGT
1 TGTAAGTTATGATATGATATATATTTATGT--ATTATGTAAGTTATGTAAGTTATGT
44582934 GGAAATTAGT
Statistics
Matches: 207, Mismatches: 42, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
65 10 0.05
66 24 0.12
67 10 0.05
68 5 0.02
69 15 0.07
70 55 0.27
71 32 0.15
72 55 0.27
73 1 0.00
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (70 bp):
TGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAGTA
AATTA
Found at i:44582947 original size:45 final size:43
Alignment explanation
Indices: 44582810--44582947 Score: 117
Period size: 45 Copynumber: 3.1 Consensus size: 43
44582800 ATATGATATA
*
44582810 TATTTATGT--ATTATGTAAGTTATGTGAGTTATGTG-AGTTATG
1 TATTTATGTAAATTATGTAAGTTATGT-AGTTATGTGAAATTA-G
*
44582852 TAAGTTATGTAAATTATGTAAGTTATGTAAGTT-T-TGATATGATATA-
1 T-ATTTATGTAAATTATGTAAGTTATGT-AGTTATGTGA-A--AT-TAG
*
44582898 TATTTATGTAAATAATGTAAGTTATGTATGTTATGTGGAAATTAG
1 TATTTATGTAAATTATGTAAGTTATGTA-GTTATGT-GAAATTAG
44582943 TATTT
1 TATTT
44582948 CAAGATTTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 23
0.74 0.05 0.22
Matches are distributed among these distances:
42 1 0.01
43 9 0.12
44 4 0.05
45 55 0.71
46 2 0.03
47 3 0.04
48 4 0.05
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (43 bp):
TATTTATGTAAATTATGTAAGTTATGTAGTTATGTGAAATTAG
Found at i:44583256 original size:12 final size:11
Alignment explanation
Indices: 44583239--44583277 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
44583229 ATTTTTTTAA
44583239 TTTTAATATATT
1 TTTTAA-ATATT
44583251 TTTTAAATACTT
1 TTTTAAATA-TT
44583263 TTTTAAA-ATT
1 TTTTAAATATT
44583273 TTTTA
1 TTTTA
44583278 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.27
11 4 0.15
12 15 0.58
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:44583630 original size:123 final size:123
Alignment explanation
Indices: 44583485--44583758 Score: 487
Period size: 123 Copynumber: 2.2 Consensus size: 123
44583475 AGCACCTCTA
44583485 ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTTATTTAAAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTTATTTAAAAATATAATAATT
* * * *
44583550 ATAATTATTTTTAAATTTTAAAAATTTATTAGTAATGAATTTGAAATGTAGGTTA-TAT
66 ATAATTATTTTTAAACTTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACT-T
44583608 ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTTATTTAAAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTTATTTAAAAATATAATAATT
44583673 ATAATTATTTTTAAACTTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACTT
66 ATAATTATTTTTAAACTTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACTT
*
44583731 ATCCATACTAATATAGGTTACATATTAA
1 ATCCATACTAATATAGGTTATATATTAA
44583759 TTCTTCAAAG
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
123 144 0.99
124 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (123 bp):
ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTTATTTAAAAATATAATAATT
ATAATTATTTTTAAACTTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACTT
Found at i:44584569 original size:228 final size:226
Alignment explanation
Indices: 44584283--44585032 Score: 753
Period size: 228 Copynumber: 3.3 Consensus size: 226
44584273 TTTTTTGAAA
* * * *
44584283 CGCCGCAAAATAGCTTAACCAAAACGCAG-AGTTTGGTCTTGAGGTAT-CTTAGAATTAGTGGCG
1 CGCCGCAAAATATCTTAACCAAAACGCAGAATTTTGGTCTTGATGTATAC-TAAAATTAGTGGCG
* * * * *
44584346 TTTATGGGAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTACGGAAGCGCCGCAAACTATCT
65 CTTA-GGGAAAACACCGTTAAAGAATAGTAATAGCGGCGCTTTATGGAAGCGCCGCAAA-TATCT
* * *
44584411 GAACCGAAACACATCGTTTTGGTCTTGATGTATACTAGAACTAGTGGCGCATGCGGTAAAACGCC
128 GAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCATGCGGTAAAACGCC
*
44584476 GCTAAAGAATAGTATTAGCGGCGATTCGTGGCTAG
193 GCTAAAGCATAGTATTAGCGGCGATTCGT-GCTAG
** * *
44584511 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGC
1 CGCCGCAAAATATCTTAACCAAAACGCAGAATTTTGGTCTTGATGTATACTAAAATTAGTGGCGC
* * * * * *
44584575 TTACGGTAAACCACCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAAACGCCGCAAAATATCT
66 TTA-GGGAAAACACCGTTAAAGAATAGTAATAGCGGCGCTTTATG-GAAGCGCCGC-AAATATCT
* ** * * * * *
44584640 TAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCCCTTAG-GG--AAACGC
128 GAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCAT-GCGGTAAAACGC
* * * * * ***
44584702 CGTTAAATCATAGTATTAGCGGTGCTTGGATAAAAG
192 CGCTAAAGCATAGTATTAGCGGCGATTCG-TGCTAG
* * * * * *
44584738 CGCCACCAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAAAATTAGTGGCGC
1 CGCCGCAAAATATCTTAACCAAAACGCAGAATTTTGGTCTTGATGTATACTAAAATTAGTGGCGC
* * * ** *
44584803 TTAGGG-AAACACCGTTAAAGCATAGTATTAGCGGCGCTTGGATAAAAGCGCCACCAAATATCTG
66 TTAGGGAAAACACCGTTAAAGAATAGTAATAGCGGCGCTT-TATGGAAGCGCC-GCAAATATCTG
* * *
44584867 AACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCG-ATTACGGTAAAACGCC
129 AACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCA-TGCGGTAAAACGCC
* *
44584931 GCTAAAGCATAGTATTAGCGGCGATTTGTTGCTAC
193 GCTAAAGCATAGTATTAGCGGCGATTCG-TGCTAG
* * * * * *
44584966 CGCCGCGACATACCATAAACAAAACGCA-ACATTTTGGTCTTGATTTATACTAAAATTAGTGGCG
1 CGCCGCAAAATATCTTAACCAAAACGCAGA-ATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
44585030 CTT
65 CTT
44585033 TGTTGAAAGC
Statistics
Matches: 417, Mismatches: 91, Indels: 28
0.78 0.17 0.05
Matches are distributed among these distances:
226 85 0.20
227 76 0.18
228 182 0.44
229 70 0.17
230 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (226 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGAATTTTGGTCTTGATGTATACTAAAATTAGTGGCGC
TTAGGGAAAACACCGTTAAAGAATAGTAATAGCGGCGCTTTATGGAAGCGCCGCAAATATCTGAA
CCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCATGCGGTAAAACGCCGCT
AAAGCATAGTATTAGCGGCGATTCGTGCTAG
Found at i:44585025 original size:115 final size:115
Alignment explanation
Indices: 44584169--44585032 Score: 680
Period size: 113 Copynumber: 7.6 Consensus size: 115
44584159 TTACCACAAT
* * **** * * *
44584169 GCGCCGCGAAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCCTAAAAGTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
* * * * * * ***
44584234 TTTACGCG--AAACGCCGTTAAAGGACAGTAATAGCGGCACTTTTTTGAAA
66 CTTACG-GTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGATGAAA
* * * * *
44584283 -CGCCGCAAAATAGCTTAACCAAAACGC-AGAGTTTGGTCTTGAGGTAT-CTTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATAC-TAAAATTAGTGGC
* * * * * * * * * *
44584345 GTTTATGGGAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTT-TACGGAA
65 GCTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGATGAAA
* * * * * * * *
44584395 GCGCCGCAAACTATCTGAACCGAAACACATCGTTTTGGTCTTGATGTATACTAGAACTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
* * * * * **
44584460 CATGCGGTAAAACGCCGCTAAAGAATAGTATTAGCGGCGATTCG-TGGCTA
66 CTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGAT-GAAA
* * * *
44584510 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
* * * * *
44584574 CTTACGGTAAACCACCGCTAAAGAATATTAATAGCGGCGCTTTGTGA-GAAA
66 CTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGC-TTG-GATGAAA
* * * *
44584625 -CGCCGCAAAATATCTTAACCAAAACGCATA-ATTTTGGCCTCGATGTATAGTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACGCA-ACATTTTGGTCTTGATGTATACTAAAATTAGTGGC
* * * * * *
44584688 CCTTA-GG-GAAACGCCGTTAAATCATAGTATTAGCGGTGCTTGGATAAAA
65 GCTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGATGAAA
* * * * *
44584737 GCGCCACCAAATATCTTAACCAAAACGCATA-ATTTTGGCCTCGATGTATAGTAAAATTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACGCA-ACATTTTGGTCTTGATGTATACTAAAATTAGTGGC
* * * *
44584801 GCTTA-GG-GAAACACCGTTAAAGCATAGTATTAGCGGCGCTTGGATAAAA
65 GCTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGATGAAA
* * * * * ** *
44584850 GCGCCACCAAATATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
* * * * **
44584915 ATTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTTGCTA
66 CTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGATGAAA
* * * * * * *
44584965 CCGCCGCGACATACCATAAACAAAACGCAACATTTTGGTCTTGATTTATACTAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
44585030 CTT
66 CTT
44585033 TGTTGAAAGC
Statistics
Matches: 613, Mismatches: 119, Indels: 35
0.80 0.16 0.05
Matches are distributed among these distances:
111 4 0.01
112 41 0.07
113 264 0.43
114 151 0.25
115 152 0.25
116 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (115 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAACATTTTGGTCTTGATGTATACTAAAATTAGTGGCG
CTTACGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTGGATGAAA
Found at i:44585207 original size:7 final size:7
Alignment explanation
Indices: 44585197--44585319 Score: 81
Period size: 7 Copynumber: 17.0 Consensus size: 7
44585187 AAAGTTTAAA
44585197 GTTTAGG
1 GTTTAGG
*
44585204 GTTTACG
1 GTTTAGG
* *
44585211 ATGTA-G
1 GTTTAGG
44585217 GTTTAGG
1 GTTTAGG
44585224 G-TTAGG
1 GTTTAGG
44585230 GTATTAGGG
1 GT-TTA-GG
44585239 TGTTTAGG
1 -GTTTAGG
44585247 G-TTAGG
1 GTTTAGG
44585253 GTATTAGGG
1 GT-TTA-GG
*
44585262 TGTTTTGG
1 -GTTTAGG
*
44585270 GTTTAAG
1 GTTTAGG
44585277 GTTTAGG
1 GTTTAGG
* *
44585284 AGTCTGGG
1 -GTTTAGG
*
44585292 GTTTAAG
1 GTTTAGG
*
44585299 GTTTAAG
1 GTTTAGG
44585306 GTTTAGG
1 GTTTAGG
44585313 GTTTAGG
1 GTTTAGG
44585320 CTACTTTAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
6 16 0.18
7 47 0.52
8 15 0.16
9 9 0.10
10 4 0.04
ACGTcount: A:0.18, C:0.02, G:0.40, T:0.41
Consensus pattern (7 bp):
GTTTAGG
Found at i:44585246 original size:23 final size:23
Alignment explanation
Indices: 44585217--44585272 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
44585207 TACGATGTAG
44585217 GTTTAGGGTTAGGGTATTAGGGT
1 GTTTAGGGTTAGGGTATTAGGGT
44585240 GTTTAGGGTTAGGGTATTAGGGT
1 GTTTAGGGTTAGGGTATTAGGGT
*
44585263 GTTTTGGGTT
1 GTTTAGGGTT
44585273 TAAGGTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (23 bp):
GTTTAGGGTTAGGGTATTAGGGT
Found at i:44585282 original size:23 final size:23
Alignment explanation
Indices: 44585217--44585317 Score: 86
Period size: 23 Copynumber: 4.5 Consensus size: 23
44585207 TACGATGTAG
*
44585217 GTTTAGGG-TTAGGGTATTAGGGT
1 GTTTAGGGTTTAAGGT-TTAGGGT
*
44585240 GTTTAGGG-TTAGGGTATTAGGGT
1 GTTTAGGGTTTAAGGT-TTAGGGT
* *
44585263 GTTTTGGGTTTAAGGTTTA-GGA
1 GTTTAGGGTTTAAGGTTTAGGGT
* * *
44585285 GTCTGGGGTTTAAGGTTTA-AG-
1 GTTTAGGGTTTAAGGTTTAGGGT
44585306 GTTTAGGGTTTA
1 GTTTAGGGTTTA
44585318 GGCTACTTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.14
22 20 0.29
23 33 0.48
24 6 0.09
ACGTcount: A:0.18, C:0.01, G:0.40, T:0.42
Consensus pattern (23 bp):
GTTTAGGGTTTAAGGTTTAGGGT
Found at i:44586560 original size:22 final size:22
Alignment explanation
Indices: 44586534--44586580 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
44586524 ACTATTCCGA
*
44586534 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
44586556 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
44586578 TTA
1 TTA
44586581 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:44586817 original size:54 final size:53
Alignment explanation
Indices: 44586758--44586859 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
44586748 TTATAGCACA
*
44586758 TGATTATGTTGTTGTGTTCTGAAATAATTG-AGTGGATTTGAAATAATTTGTTTT
1 TGATTATGTTGTTATGTTCTGAAAT-A-TGCAGTGGATTTGAAATAATTTGTTTT
**
44586812 TGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTT
1 TGATTATGTTGTTATGTTCTGAAATATGCAGTGGATTTGAAATAATTT
44586860 CTGAGTCTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 2 0.05
53 18 0.41
54 24 0.55
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (53 bp):
TGATTATGTTGTTATGTTCTGAAATATGCAGTGGATTTGAAATAATTTGTTTT
Found at i:44587076 original size:14 final size:14
Alignment explanation
Indices: 44587057--44587086 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44587047 AATAAAGGTT
44587057 TTTAGTTAATCATC
1 TTTAGTTAATCATC
44587071 TTTAGTTAATCATC
1 TTTAGTTAATCATC
44587085 TT
1 TT
44587087 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:44587706 original size:45 final size:43
Alignment explanation
Indices: 44587623--44587706 Score: 96
Period size: 45 Copynumber: 1.9 Consensus size: 43
44587613 AAATTTATAT
* * * * *
44587623 CTTACATTACTTAAATATATATTTTTAAGTATATTTTACATGA
1 CTTACATTACTTAAAAACATATTTTTAACTAAAATTTACATGA
*
44587666 CTTACATTACTTACTAAAACATATTTTTTACTAAAATTTAC
1 CTTACATTACTTA--AAAACATATTTTTAACTAAAATTTAC
44587707 TTGAATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 13 0.39
45 20 0.61
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.46
Consensus pattern (43 bp):
CTTACATTACTTAAAAACATATTTTTAACTAAAATTTACATGA
Found at i:44588309 original size:9 final size:9
Alignment explanation
Indices: 44588286--44588859 Score: 144
Period size: 9 Copynumber: 67.9 Consensus size: 9
44588276 ATATATTCAT
44588286 TTACATAAC
1 TTACATAAC
44588295 --ACATAAC
1 TTACATAAC
44588302 TTACATAAC
1 TTACATAAC
* *
44588311 CTACTTAA-
1 TTACATAAC
*
44588319 -TATATAAC
1 TTACATAAC
*
44588327 TTGCATAAC
1 TTACATAAC
* *
44588336 TTAAATAAG
1 TTACATAAC
44588345 TTACATAA-
1 TTACATAAC
44588353 TAATACATAA-
1 T--TACATAAC
*
44588363 -TACACAAC
1 TTACATAAC
*
44588371 TTACAT--G
1 TTACATAAC
*
44588378 TGTAAATAA-
1 T-TACATAAC
*
44588387 -TACAGAAC
1 TTACATAAC
44588395 TTACATAAC
1 TTACATAAC
*
44588404 TTACATACC
1 TTACATAAC
* *
44588413 CTACATAAA
1 TTACATAAC
* *
44588422 TTAAATAAG
1 TTACATAAC
44588431 TTACATAA-
1 TTACATAAC
*
44588439 TAATACATACC
1 T--TACATAAC
* *
44588450 CTACATAAA
1 TTACATAAC
* *
44588459 TTAAATAAG
1 TTACATAAC
44588468 TTACATAA-
1 TTACATAAC
*
44588476 TAATACATACC
1 T--TACATAAC
* *
44588487 CTACATAAA
1 TTACATAAC
* *
44588496 TTAAATAAG
1 TTACATAAC
44588505 TTACATAA-
1 TTACATAAC
*
44588513 -TACACAAC
1 TTACATAAC
**
44588521 TTACGCAAC
1 TTACATAAC
*
44588530 TTACATAAG
1 TTACATAAC
*
44588539 TTTCATAA-
1 TTACATAAC
*
44588547 -TACACAAC
1 TTACATAAC
** *
44588555 TTACGCATC
1 TTACATAAC
44588564 TTACATAA-
1 TTACATAAC
*
44588572 -GACATAAC
1 TTACATAAC
*
44588580 TTACAT--G
1 TTACATAAC
*
44588587 TGTAAATAA-
1 T-TACATAAC
*
44588596 -TACATAAA
1 TTACATAAC
*
44588604 TTACATATC
1 TTACATAAC
44588613 TTACATAA-
1 TTACATAAC
*
44588621 -GACATAAC
1 TTACATAAC
*
44588629 TTTCATAA-
1 TTACATAAC
*
44588637 -TACACAAC
1 TTACATAAC
**
44588645 TTACGCAAC
1 TTACATAAC
44588654 TTACATAA-
1 TTACATAAC
*
44588662 -GACATAAC
1 TTACATAAC
*
44588670 TTACAT--G
1 TTACATAAC
*
44588677 TGTAAATAA-
1 T-TACATAAC
*
44588686 -TACATAAA
1 TTACATAAC
44588694 TTACATAAC
1 TTACATAAC
44588703 TTACATAA-
1 TTACATAAC
*
44588711 -GACATAAC
1 TTACATAAC
*
44588719 TTTCATAA-
1 TTACATAAC
*
44588727 -TACACAAC
1 TTACATAAC
**
44588735 TTACGCAAC
1 TTACATAAC
44588744 TTACATAA-
1 TTACATAAC
*
44588752 -GACATAAC
1 TTACATAAC
*
44588760 TTACAT--G
1 TTACATAAC
*
44588767 TGTAAATAA-
1 T-TACATAAC
**
44588776 -TACATATT
1 TTACATAAC
44588784 TTACATAAC
1 TTACATAAC
44588793 TTACATAA-
1 TTACATAAC
*
44588801 -GACATAAC
1 TTACATAAC
*
44588809 TTACATAAG
1 TTACATAAC
*
44588818 TTTCATAA-
1 TTACATAAC
* *
44588826 -TACACATC
1 TTACATAAC
**
44588834 TTACGCAAC
1 TTACATAAC
44588843 TTACATAAC
1 TTACATAAC
44588852 TTACATAA
1 TTACATAA
44588860 TGTATATCTT
Statistics
Matches: 406, Mismatches: 103, Indels: 112
0.65 0.17 0.18
Matches are distributed among these distances:
7 105 0.26
8 19 0.05
9 263 0.65
10 19 0.05
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:44588449 original size:37 final size:37
Alignment explanation
Indices: 44588405--44588514 Score: 220
Period size: 37 Copynumber: 3.0 Consensus size: 37
44588395 TTACATAACT
44588405 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
44588442 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
44588479 TACATACCCTACATAAATTAAATAAGTTACATAATA
1 TACATACCCTACATAAATTAAATAAGTTACATAATA
44588515 CACAACTTAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:44588538 original size:34 final size:34
Alignment explanation
Indices: 44588500--44588572 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
44588490 CATAAATTAA
44588500 ATAAGTTACATAATACACAACTTACGCAACTTAC
1 ATAAGTTACATAATACACAACTTACGCAACTTAC
* *
44588534 ATAAGTTTCATAATACACAACTTACGCATCTTAC
1 ATAAGTTACATAATACACAACTTACGCAACTTAC
44588568 ATAAG
1 ATAAG
44588573 ACATAACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (34 bp):
ATAAGTTACATAATACACAACTTACGCAACTTAC
Found at i:44588584 original size:16 final size:16
Alignment explanation
Indices: 44588563--44588817 Score: 109
Period size: 16 Copynumber: 16.6 Consensus size: 16
44588553 ACTTACGCAT
44588563 CTTACATAAGACATAA
1 CTTACATAAGACATAA
** *
44588579 CTTACATGTGTAAATAA
1 CTTACATAAG-ACATAA
* *
44588596 --TACATAAATTACATAT
1 CTTACAT-AA-GACATAA
44588612 CTTACATAAGACATAA
1 CTTACATAAGACATAA
* * *
44588628 CTTTCATAATACACAA
1 CTTACATAAGACATAA
44588644 CTTAC----G-C--AA
1 CTTACATAAGACATAA
44588653 CTTACATAAGACATAA
1 CTTACATAAGACATAA
** *
44588669 CTTACATGTGTAAATAA
1 CTTACATAAG-ACATAA
*
44588686 --TACATAAATTACATAA
1 CTTACAT-AA-GACATAA
44588702 CTTACATAAGACATAA
1 CTTACATAAGACATAA
* * *
44588718 CTTTCATAATACACAA
1 CTTACATAAGACATAA
44588734 CTTAC----G-C--AA
1 CTTACATAAGACATAA
44588743 CTTACATAAGACATAA
1 CTTACATAAGACATAA
** *
44588759 CTTACATGTGTAAATAA
1 CTTACATAAG-ACATAA
**
44588776 --TACATATTTTACATAA
1 CTTACATA--AGACATAA
44588792 CTTACATAAGACATAA
1 CTTACATAAGACATAA
44588808 CTTACATAAG
1 CTTACATAAG
44588818 TTTCATAATA
Statistics
Matches: 174, Mismatches: 36, Indels: 58
0.65 0.13 0.22
Matches are distributed among these distances:
9 14 0.08
11 2 0.01
13 2 0.01
14 2 0.01
15 15 0.09
16 103 0.59
17 20 0.11
18 16 0.09
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (16 bp):
CTTACATAAGACATAA
Found at i:44588614 original size:49 final size:49
Alignment explanation
Indices: 44588543--44588850 Score: 290
Period size: 49 Copynumber: 6.6 Consensus size: 49
44588533 CATAAGTTTC
* *
44588543 ATAATACACAACTTACGCATCTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
* * * * *
44588592 ATAATACATAAATTACATATCTTACATAAGACAT-A---AC-T-T-T-C
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
*
44588633 ATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
* * * *
44588682 ATAATACATAAATTACATAACTTACATAAGACAT-A---AC-T-T-T-C
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
*
44588723 ATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
* ** * **
44588772 ATAATACATATTTTACATAACTTACATAAGACATAACTTACATAAGT-TTC
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACAT--GTGTAA
* *
44588822 ATAATACACATCTTACGCAACTTACATAA
1 ATAATACACAACTTACACAACTTACATAA
44588851 CTTACATAAT
Statistics
Matches: 209, Mismatches: 32, Indels: 35
0.76 0.12 0.13
Matches are distributed among these distances:
41 59 0.28
42 4 0.02
43 2 0.01
44 2 0.01
45 8 0.04
46 2 0.01
47 2 0.01
48 4 0.02
49 98 0.47
50 26 0.12
51 2 0.01
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (49 bp):
ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
Found at i:44588626 original size:90 final size:90
Alignment explanation
Indices: 44588532--44588816 Score: 516
Period size: 90 Copynumber: 3.2 Consensus size: 90
44588522 TACGCAACTT
* *
44588532 ACATAAGTTTCATAATACACAACTTACGCATCTTACATAAGACATAACTTACATGTGTAAATAAT
1 ACATAACTTTCATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAAT
*
44588597 ACATAAATTACATATCTTACATAAG
66 ACATAAATTACATAACTTACATAAG
44588622 ACATAACTTTCATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAAT
1 ACATAACTTTCATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAAT
44588687 ACATAAATTACATAACTTACATAAG
66 ACATAAATTACATAACTTACATAAG
44588712 ACATAACTTTCATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAAT
1 ACATAACTTTCATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAAT
**
44588777 ACATATTTTACATAACTTACATAAG
66 ACATAAATTACATAACTTACATAAG
*
44588802 ACATAACTTACATAA
1 ACATAACTTTCATAA
44588817 GTTTCATAAT
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 189 1.00
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (90 bp):
ACATAACTTTCATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAAT
ACATAAATTACATAACTTACATAAG
Found at i:44588639 original size:41 final size:41
Alignment explanation
Indices: 44588592--44588761 Score: 178
Period size: 41 Copynumber: 4.0 Consensus size: 41
44588582 ACATGTGTAA
* * *
44588592 ATAATACATAAATTACATATCTTACATAAGACATAACTTTC
1 ATAATACACAAATTACACAACTTACATAAGACATAACTTTC
* * *
44588633 ATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAAATTACACAACTTACATAAGACAT-A---AC-T-T-T-C
* *
44588682 ATAATACATAAATTACATAACTTACATAAGACATAACTTTC
1 ATAATACACAAATTACACAACTTACATAAGACATAACTTTC
* *
44588723 ATAATACACAACTTACGCAACTTACATAAGACATAACTT
1 ATAATACACAAATTACACAACTTACATAAGACATAACTT
44588762 ACATGTGTAA
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 64 0.60
42 2 0.02
43 1 0.01
44 1 0.01
45 4 0.04
46 1 0.01
47 1 0.01
48 2 0.02
49 30 0.28
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.29
Consensus pattern (41 bp):
ATAATACACAAATTACACAACTTACATAAGACATAACTTTC
Found at i:44588654 original size:25 final size:25
Alignment explanation
Indices: 44588626--44588673 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44588616 CATAAGACAT
* *
44588626 AACTTTCATAATACACAACTTACGC
1 AACTTACATAAGACACAACTTACGC
*
44588651 AACTTACATAAGACATAACTTAC
1 AACTTACATAAGACACAACTTAC
44588674 ATGTGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (25 bp):
AACTTACATAAGACACAACTTACGC
Found at i:44588744 original size:25 final size:25
Alignment explanation
Indices: 44588716--44588850 Score: 76
Period size: 25 Copynumber: 5.4 Consensus size: 25
44588706 CATAAGACAT
* *
44588716 AACTTTCATAATACACAACTTACGC
1 AACTTACATAAGACACAACTTACGC
*
44588741 AACTTACATAAGACATAACTTA--C
1 AACTTACATAAGACACAACTTACGC
** * * * ** **
44588764 ATGTGTAAATAATACATATTTTACAT
1 AACT-TACATAAGACACAACTTACGC
* **
44588790 AACTTACATAAGACATAACTTACAT
1 AACTTACATAAGACACAACTTACGC
* * * *
44588815 AAGTTTCATAATACACATCTTACGC
1 AACTTACATAAGACACAACTTACGC
44588840 AACTTACATAA
1 AACTTACATAA
44588851 CTTACATAAT
Statistics
Matches: 82, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
23 3 0.04
24 14 0.17
25 63 0.77
26 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (25 bp):
AACTTACATAAGACACAACTTACGC
Found at i:44594355 original size:21 final size:20
Alignment explanation
Indices: 44594329--44594376 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
44594319 CAACAACTTA
44594329 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGC-GCAGCGAGAG
*
44594350 AAGCAGATGTCGCAGCGAGAG
1 AAGCAGA-GGCGCAGCGAGAG
44594371 AAGCAG
1 AAGCAG
44594377 CGAGAGAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.35, C:0.19, G:0.42, T:0.04
Consensus pattern (20 bp):
AAGCAGAGGCGCAGCGAGAG
Found at i:44594378 original size:12 final size:12
Alignment explanation
Indices: 44594361--44594400 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
44594351 AGCAGATGTC
44594361 GCAGCGAGAGAA
1 GCAGCGAGAGAA
44594373 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
44594385 GCAGCGATAGAA
1 GCAGCGAGAGAA
44594397 GCAG
1 GCAG
44594401 AGGTTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.40, T:0.03
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:44595015 original size:42 final size:42
Alignment explanation
Indices: 44594821--44595263 Score: 498
Period size: 42 Copynumber: 10.4 Consensus size: 42
44594811 GTTTGTGAAA
* **
44594821 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGTGGCGTTTTT-TTC
* * * *
44594864 -AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGTGGCGTTTT-TTTC
* * * **
44594906 AAAGCGCCGCTAAAAGAACATGATATTTAGCGGCGTTTTGTTAA
1 TAAGCGCCGCT-AAAGAACATGATCTTTAGTGGCGTTTT-TTTC
* *
44594950 AAAGCACCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
* *
44594992 TAAGCGTCGCTAAAGAACATGATCTTTAGTGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
* * *
44595034 TAAGCGCCGCTAAAGAACATGATTTTTACTGGCGTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
* *
44595076 TAAGCGCTGCTAAAGAACATGATCTTTAGTGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTTC
* *
44595119 TTAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTTC
* * * *
44595162 TTAGCGCCGCTAAAGAACAAGTTCTTTAGCGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTTTTTC
44595205 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
*
44595247 TATAAGCGCCGCAAAAG
1 --TAAGCGCCGCTAAAG
44595264 TTTGCGACGT
Statistics
Matches: 352, Mismatches: 39, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.00
42 155 0.44
43 145 0.41
44 51 0.14
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
Found at i:44595139 original size:43 final size:42
Alignment explanation
Indices: 44594821--44595263 Score: 484
Period size: 43 Copynumber: 10.4 Consensus size: 42
44594811 GTTTGTGAAA
* **
44594821 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGTGGCGTTTTT-TCC
* * *
44594864 -AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGTGGCGTTTT-TTCC
* * * **
44594906 AAAGCGCCGCTAAAAGAACATGATATTTAGCGGCGTTTTGTTAA
1 TAAGCGCCGCT-AAAGAACATGATCTTTAGTGGCGTTTT-TTCC
* * *
44594950 AAAGCACCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCC
*
44594992 TAAGCGTCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTCC
* *
44595034 TAAGCGCCGCTAAAGAACATGATTTTTACTGGCGTTTATTT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTCC
*
44595076 TAAGCGCTGCTAAAGAACATGATCTTTAGTGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTCC
*
44595119 TTAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTCC
* * * * *
44595162 TTAGCGCCGCTAAAGAACAAGTTCTTTAGCGGCGTTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTTTTCC
*
44595205 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCTA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCG-TTTTTTC-C
*
44595249 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
44595264 TTTGCGACGT
Statistics
Matches: 353, Mismatches: 38, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.00
42 148 0.42
43 153 0.43
44 51 0.14
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCC
Found at i:44595203 original size:213 final size:213
Alignment explanation
Indices: 44594820--44595263 Score: 553
Period size: 213 Copynumber: 2.1 Consensus size: 213
44594810 CGTTTGTGAA
* *
44594820 ATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGAACAAGCGCCGCTATAGAACATTA
1 ATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTT-AACAAGCGCCGCTAAAGAACATGA
44594885 CTTTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAAGAACATGATATTTAGCGGCGTTTTGTTAA
65 CTTTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAAGAACATGATATTTAGCGGCGTTTTGTTAA
* * *
44594950 AAAGCACCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCTAAGCGTCGCTAAAGAACATGAT
130 AAAGCACCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
44595015 CTTTAGTGGCGTTTATTTC
195 CTTTAGTGGCGTTTATTTC
* * *
44595034 -TAAGCGCCGCTAAAGAACA-TGATTTTTA-CTGGCGTTTATT-TCTAAGCGCTGCTAAAGAACA
1 ATAAGCGCCGCTAAAGAACACT-ACTTTTAGC-GGCGTTT-TTAAC-AAGCGCCGCTAAAGAACA
* ** * *
44595095 TGA-TCTTTAGTGGCGTTTAT-TTCCTTAGCGCCGCT-AAAGAACATGATCTTTAGTGGCGTTTA
62 TGACT-TTTAGAGGCGTTT-TCTTCCAAAGCGCCGCTAAAAGAACATGATATTTAGCGGCGTTT-
**** * *
44595157 T-TTCCTTAGCGCCGCTAAAGAACAAGTTCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAGA
124 TGTTAAAAAGCACCGCTAAAGAACAAGATCTTTAGCGGCG-TTTTTTTCTAAGCGCCGCTAAAGA
*
44595221 ACATGATCTTTAGTGGCGTTTTTTTC
188 ACATGATCTTTAGTGGCGTTTATTTC
*
44595247 TATAAGCGCCGCAAAAG
1 -ATAAGCGCCGCTAAAG
44595264 TTTGCGACGT
Statistics
Matches: 199, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
212 58 0.29
213 124 0.62
214 3 0.02
215 14 0.07
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (213 bp):
ATAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTAACAAGCGCCGCTAAAGAACATGAC
TTTTAGAGGCGTTTTCTTCCAAAGCGCCGCTAAAAGAACATGATATTTAGCGGCGTTTTGTTAAA
AAGCACCGCTAAAGAACAAGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
TTTAGTGGCGTTTATTTC
Found at i:44596963 original size:39 final size:39
Alignment explanation
Indices: 44596893--44596970 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 39
44596883 AATTTGATAA
44596893 TTAATATGACATTATTTTTAATTGTTAAATTTTTAAAATTT
1 TTAATATGACATTA-TTTTAATTGTTAAA-TTTTAAAATTT
*
44596934 TTAATATGACATTA-TTTAATTGTTCAATTTTAAAATT
1 TTAATATGACATTATTTTAATTGTTAAATTTTAAAATT
44596971 GAATATAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 10 0.28
39 12 0.33
41 14 0.39
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (39 bp):
TTAATATGACATTATTTTAATTGTTAAATTTTAAAATTT
Found at i:44597343 original size:8 final size:7
Alignment explanation
Indices: 44597325--44597571 Score: 90
Period size: 7 Copynumber: 34.4 Consensus size: 7
44597315 TAGACCAAAA
*
44597325 AAACTCT
1 AAACCCT
44597332 AAACCCCT
1 AAA-CCCT
*
44597340 AAACCTT
1 AAACCCT
*
44597347 AAATCCT
1 AAACCCT
*
44597354 AAAATCCT
1 -AAACCCT
*
44597362 AAACCAT
1 AAACCCT
44597369 AAACCCT
1 AAACCCT
*
44597376 AAACACTCAA
1 AAAC-C-C-T
44597386 AAACCCCT
1 AAA-CCCT
* *
44597394 AAATCCA
1 AAACCCT
44597401 AAACCCCT
1 AAA-CCCT
***
44597409 AAACTAG
1 AAACCCT
**
44597416 AAACTTT
1 AAACCCT
*
44597423 AAACACT
1 AAACCCT
*
44597430 AATCCCT
1 AAACCCT
44597437 AAACCCAT
1 AAACCC-T
*
44597445 AACCCCT
1 AAACCCT
*
44597452 AAACCTT
1 AAACCCT
**
44597459 AAACATT
1 AAACCCT
* *
44597466 AATCTCT
1 AAACCCT
44597473 AAA-CCT
1 AAACCCT
44597479 AAAACCCT
1 -AAACCCT
*
44597487 AATCCCT
1 AAACCCT
44597494 AAACCAC-
1 AAACC-CT
44597501 AAA-CCT
1 AAACCCT
* **
44597507 ACACTAT
1 AAACCCT
44597514 AAACCCT
1 AAACCCT
44597521 AAACCCT
1 AAACCCT
*
44597528 AAACCTT
1 AAACCCT
44597535 AAATCCC-
1 AAA-CCCT
*
44597542 AAACCAT
1 AAACCCT
*
44597549 AAA-CAT
1 AAACCCT
**
44597555 GCACCCT
1 AAACCCT
44597562 AAACCCT
1 AAACCCT
44597569 AAA
1 AAA
44597572 TATATATATA
Statistics
Matches: 176, Mismatches: 48, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
5 1 0.01
6 11 0.06
7 123 0.70
8 34 0.19
9 2 0.01
10 4 0.02
11 1 0.01
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:44597362 original size:22 final size:22
Alignment explanation
Indices: 44597337--44597378 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44597327 ACTCTAAACC
* *
44597337 CCTAAACCTTAAATCCTAAAAT
1 CCTAAACCATAAACCCTAAAAT
44597359 CCTAAACCATAAACCCTAAA
1 CCTAAACCATAAACCCTAAA
44597379 CACTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCTAAACCATAAACCCTAAAAT
Found at i:44597529 original size:41 final size:41
Alignment explanation
Indices: 44597472--44597571 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 41
44597462 CATTAATCTC
* *
44597472 TAAA-CCTAAAACCCTAATCCCTAAA-CCACAAACC-TACACTA
1 TAAACCCT-AAACCCTAAACCCTAAATCC-CAAACCATAAAC-A
*
44597513 TAAACCCTAAACCCTAAACCTTAAATCCCAAACCATAAACA
1 TAAACCCTAAACCCTAAACCCTAAATCCCAAACCATAAACA
**
44597554 TGCACCCTAAACCCTAAA
1 TAAACCCTAAACCCTAAA
44597572 TATATATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 42 0.82
42 9 0.18
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.17
Consensus pattern (41 bp):
TAAACCCTAAACCCTAAACCCTAAATCCCAAACCATAAACA
Found at i:44597532 original size:48 final size:48
Alignment explanation
Indices: 44597471--44597571 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
44597461 ACATTAATCT
* *
44597471 CTAAACCTAAAACCCT-AATCCCTAAACCACAAACCTACACTATAAACC
1 CTAAACCTAAAACCCTAAATCCC-AAACCACAAACATACACCATAAACC
* * * *
44597519 CTAAACCCT-AAACCTTAAATCCCAAACCATAAACATGCACCCTAAACC
1 CTAAA-CCTAAAACCCTAAATCCCAAACCACAAACATACACCATAAACC
44597567 CTAAA
1 CTAAA
44597572 TATATATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 36 0.80
49 9 0.20
ACGTcount: A:0.46, C:0.37, G:0.01, T:0.17
Consensus pattern (48 bp):
CTAAACCTAAAACCCTAAATCCCAAACCACAAACATACACCATAAACC
Found at i:44597938 original size:40 final size:40
Alignment explanation
Indices: 44597894--44597980 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
44597884 AAAAGTGCTG
** *
44597894 CTAATACTTGATCTATAGCGGCGTTTCCTAGAAAGCGCCA
1 CTAATACTCAATCTATAGCGGCGTTTCCTAAAAAGCGCCA
* * **
44597934 CTAATTCTCAATCTATTGCGGCGTTTTTTAAAAAGCGCCA
1 CTAATACTCAATCTATAGCGGCGTTTCCTAAAAAGCGCCA
*
44597974 GTAATAC
1 CTAATAC
44597981 CACTAAAGCT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (40 bp):
CTAATACTCAATCTATAGCGGCGTTTCCTAAAAAGCGCCA
Found at i:44598122 original size:40 final size:40
Alignment explanation
Indices: 44598073--44598164 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
44598063 TTTACAGGAG
* * * *
44598073 GCGCTGCTAATGCTCGATCTTTAGTGGCGTTT-TTAAAAAA
1 GCGCCGCTAATGCTAGATCTTTAGCGGCATTTGTT-AAAAA
* * *
44598113 GCGCCGCTAATTCTAGATTTTTTGCGGCATTTGTTAAAAA
1 GCGCCGCTAATGCTAGATCTTTAGCGGCATTTGTTAAAAA
*
44598153 GTGCCGCTAATG
1 GCGCCGCTAATG
44598165 GCACTAAAGC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (40 bp):
GCGCCGCTAATGCTAGATCTTTAGCGGCATTTGTTAAAAA
Found at i:44598639 original size:15 final size:15
Alignment explanation
Indices: 44598619--44598647 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44598609 TTGCTTAAGA
44598619 ATATGTTTATGATTT
1 ATATGTTTATGATTT
44598634 ATATGTTTATGATT
1 ATATGTTTATGATT
44598648 AATGACATAA
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:0.00, G:0.14, T:0.59
Consensus pattern (15 bp):
ATATGTTTATGATTT
Found at i:44617808 original size:20 final size:20
Alignment explanation
Indices: 44617783--44617855 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
44617773 TGCATAACAA
44617783 AGGCACCAAAGTGCAGACAG
1 AGGCACCAAAGTGCAGACAG
*
44617803 AGGCA-CAAATGTGCA-ATCGG
1 AGGCACCAAA-GTGCAGA-CAG
*
44617823 AGGCACCGAAGTGCAGACAG
1 AGGCACCAAAGTGCAGACAG
*
44617843 AGGCACCGAAGTG
1 AGGCACCAAAGTG
44617856 TAATCCCATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.11
20 37 0.80
21 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.33, T:0.08
Consensus pattern (20 bp):
AGGCACCAAAGTGCAGACAG
Found at i:44624347 original size:60 final size:60
Alignment explanation
Indices: 44624272--44624390 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
44624262 ATGGTGAACC
*
44624272 TGTGCTGAGGGTAGGTGATAAAAAGGTTACTCTTCAAGCACGTGATGTTGTGAGAGTTTT
1 TGTGCTGAGGATAGGTGATAAAAAGGTTACTCTTCAAGCACGTGATGTTGTGAGAGTTTT
44624332 TGTGCTGAGGATAGGTGATAAAAAGGTTACTCTTCAAGCACGTGATGTTGTGAGAGTTT
1 TGTGCTGAGGATAGGTGATAAAAAGGTTACTCTTCAAGCACGTGATGTTGTGAGAGTTT
44624391 CTAGGGGGTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (60 bp):
TGTGCTGAGGATAGGTGATAAAAAGGTTACTCTTCAAGCACGTGATGTTGTGAGAGTTTT
Found at i:44632804 original size:20 final size:20
Alignment explanation
Indices: 44632781--44632917 Score: 85
Period size: 20 Copynumber: 7.3 Consensus size: 20
44632771 TATGTGTTAA
44632781 TTTTAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
* * *
44632801 TTTT-A-A-TTATATACTGA
1 TTTTAAGACTTATGTAATGT
**
44632818 TTCAAAGACTTATGTAATGT
1 TTTTAAGACTTATGTAATGT
* *
44632838 TTTT-A-A-TTATGTAGTGA
1 TTTTAAGACTTATGTAATGT
** *
44632855 TTCAAAGACATATGTAATGT
1 TTTTAAGACTTATGTAATGT
* *
44632875 TTTT-A-A-TTATGTAGTGA
1 TTTTAAGACTTATGTAATGT
* *
44632892 TTTAAAGACTTATGTAATTT
1 TTTTAAGACTTATGTAATGT
44632912 TTTTAA
1 TTTTAA
44632918 TTATGTAGTG
Statistics
Matches: 81, Mismatches: 27, Indels: 18
0.64 0.21 0.14
Matches are distributed among these distances:
17 32 0.40
18 6 0.07
19 6 0.07
20 37 0.46
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTTAAGACTTATGTAATGT
Found at i:44632810 original size:17 final size:17
Alignment explanation
Indices: 44632790--44632924 Score: 63
Period size: 17 Copynumber: 7.4 Consensus size: 17
44632780 ATTTTAAGAC
44632790 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
44632807 TTATATACTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
44632826 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
44632844 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
44632863 CATATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* **
44632881 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
44632900 CTTATGTAATTTTTTTAA
1 -TTATGTAATGTTTTTAA
44632918 TTATGTA
1 TTATGTA
44632925 GTGATTCAAT
Statistics
Matches: 82, Mismatches: 27, Indels: 18
0.65 0.21 0.14
Matches are distributed among these distances:
17 32 0.39
18 13 0.16
19 13 0.16
20 24 0.29
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:44632826 original size:37 final size:37
Alignment explanation
Indices: 44632785--44632933 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
44632775 TGTTAATTTT
* *
44632785 AAGACTTATGTAATGTTTTTAATTATATACTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
44632822 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
44632859 AAGACATATGTAATGTTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
44632896 AAGACTTATGTAATTTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
44632933 A
1 A
44632934 TTCGATTAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:44632953 original size:9 final size:9
Alignment explanation
Indices: 44632939--44632978 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
44632929 TTCAATTCGA
44632939 TTAAATCGG
1 TTAAATCGG
*
44632948 TTAAATCAG
1 TTAAATCGG
*
44632957 TTAATTCGG
1 TTAAATCGG
44632966 TTAAATCGG
1 TTAAATCGG
44632975 TTAA
1 TTAA
44632979 TTTTTAACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (9 bp):
TTAAATCGG
Found at i:44636646 original size:16 final size:16
Alignment explanation
Indices: 44636608--44636648 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
44636598 TAATTAAACC
44636608 AAAT-TTAAT-TAATT
1 AAATCTTAATCTAATT
44636622 AAA-CATTAATCTAATT
1 AAATC-TTAATCTAATT
44636638 AAATCTTAATC
1 AAATCTTAATC
44636649 ACATTTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.13
15 5 0.22
16 14 0.61
17 1 0.04
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATCTTAATCTAATT
Found at i:44645438 original size:12 final size:12
Alignment explanation
Indices: 44645418--44645454 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
44645408 TTATTTAGCC
44645418 ATGGATTCCACT
1 ATGGATTCCACT
*
44645430 ATGGGTTCCACT
1 ATGGATTCCACT
*
44645442 GTGGATTCCACT
1 ATGGATTCCACT
44645454 A
1 A
44645455 CCTTTATCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (12 bp):
ATGGATTCCACT
Found at i:44650720 original size:20 final size:21
Alignment explanation
Indices: 44650697--44650738 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
44650687 ATTTTCAATA
44650697 TTTTTAAAT-ATAAAAATAAT
1 TTTTTAAATAATAAAAATAAT
44650717 TTTTTAAATAAATAAAAATAAT
1 TTTTTAAAT-AATAAAAATAAT
44650739 CAATAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTTAAATAATAAAAATAAT
Found at i:44651955 original size:21 final size:22
Alignment explanation
Indices: 44651926--44651975 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
44651916 TTTCAACTAG
*
44651926 TATAATAATAAACAATA-ATAA
1 TATACTAATAAACAATATATAA
**
44651947 TATACTAATAAGTAATATATAA
1 TATACTAATAAACAATATATAA
*
44651969 TGTACTA
1 TATACTA
44651976 CTATTATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (22 bp):
TATACTAATAAACAATATATAA
Found at i:44651969 original size:14 final size:14
Alignment explanation
Indices: 44651927--44651969 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
44651917 TTCAACTAGT
*
44651927 ATAATAATAAAC-A
1 ATAATAATATACTA
44651940 ATAATAATATACTA
1 ATAATAATATACTA
44651954 ATAAGTAATATA-TA
1 ATAA-TAATATACTA
44651968 AT
1 AT
44651970 GTACTACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 9 0.33
15 7 0.26
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAATAATATACTA
Found at i:44652344 original size:10 final size:10
Alignment explanation
Indices: 44652329--44652372 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
44652319 AATATATTAT
*
44652329 ATATGATATG
1 ATATGATATA
44652339 ATATGATATA
1 ATATGATATA
44652349 ATATGATATA
1 ATATGATATA
** *
44652359 GCATTATATA
1 ATATGATATA
44652369 ATAT
1 ATAT
44652373 AGCGGGAGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (10 bp):
ATATGATATA
Found at i:44652430 original size:263 final size:260
Alignment explanation
Indices: 44652081--44653152 Score: 945
Period size: 263 Copynumber: 4.3 Consensus size: 260
44652071 AACTAGTAAT
* *
44652081 ATATGATATGATATAGCATCATATAATATAGTAGGA-AGGCTAACTTTCAAATGTATGAAAAGTA
1 ATATGATATGATATAGCATTATATAATATAGTAGGAGA-GCTAACTTTCAAATGTATGAAAAATA
* * * *
44652145 TAGGGACTTATAGCATATTTCAACTAGTATAATAATAAACAATAATGTAAAATATAAAATAATAT
65 TAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATAT
*
44652210 GTAATGTACTACTATTATATAACTATTATTATATTATAGATTATAATAAAGGATATAATATTACA
130 ATAATGTACTACTATTATAT-ACTATTATTATATTATAGATTATAATAAA-GATATAATATTACA
* *
44652275 TAATATTATAAAGTTTAATCATTGATGCATATATATAAACTACTAATATATTATATATGATATGA
193 TGATATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATA-TATATATGATATGA
44652340 TATG
257 TATG
* ** * *
44652344 ATATAATATGATATAGCATTATATAATATAGCGGGAGAGTTAACTTTCAAATGTACGAAAAATAT
1 ATATGATATGATATAGCATTATATAATATAGTAGGAGAGCTAACTTTCAAATGTATGAAAAATAT
* * * * * * *
44652409 AGTGACTTAGAGCAGATTTCAACCAATATAATAACAAACAATAATATATAGTATTAATTAATATA
66 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATATA
* *
44652474 TAATTTACTACTATTATATATAACTATTATTATATTATATATTATAATAAA-ATATACAGTATTA
131 TAATGTACTACTA-T-TATAT-ACTATTATTATATTATAGATTATAATAAAGATATA-A-TATTA
44652538 CATGATATTATAATA-TTTAATCATTGATGC--ATATATAAACT-TT--TATATAT-TA-GATAT
191 CATGATATTATAA-AGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATAT
44652595 --TA--
255 GATATG
* * * * *
44652597 CT-TGATATGATATAACATTATATAATATAGTAGGAGGGCTAACTTTCAAATATATGAAAAGTAT
1 ATATGATATGATATAGCATTATATAATATAGTAGGAGAGCTAACTTTCAAATGTATGAAAAATAT
*
44652661 AGGGACTTAGAACATATTTCAACCAGTATAATAATAAAC-AT--TA-ATAAT-T--AAT-A-AT-
66 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATATA
* * * * * *
44652716 TAA--TA-TA--A-AATGTACTACTATTATATTATAGATTATAATAAAAGGTATAGTATTGCATG
131 TAATGTACTACTATTATATACTATTATTATATTATAGATTATAAT-AAAGATATAATATTACATG
* * * **
44652775 ATATTATAATGTTTAATCATAGATGTATATATATAAACTATTAATATAT-TATATG---CCATAT
195 ATATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATATGATAT
44652836 G
260 G
* ** * * *
44652837 GTATGATATG----A-CA-T-TAT--GGTAG-AAG-GA-TTAACTTTCAAATGTATGAAAAATCT
1 ATATGATATGATATAGCATTATATAATATAGTAGGAGAGCTAACTTTCAAATGTATGAAAAATAT
* * * *
44652890 AGGGACTTAGAGCATATTTCAACCAGCATAATAATAAACAGTAATATATGATA-ATAATTAATAT
66 AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATA-AAATAATAT
* *
44652954 ATAATGTACTACTATTATAT--TA-TA-TA-A-TAT--A--AT-A-AAAGATATAGTATAACATG
130 ATAATGTACTACTATTATATACTATTATTATATTATAGATTATAATAAAGATATAATATTACATG
* * * * *
44653007 ATATTATAATGTTTAATCA-TCATGCACATGTATAAACTATTAATATAT-TATAT-A-CT-ATAT
195 ATATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATATGATAT
44653067 G
260 G
* * * * * *
44653068 ATATGATAT-A-AT---ATTACATAAAATAGTAGGAGGGTTAACTTTCAAATGTAGGAAAAGTAT
1 ATATGATATGATATAGCATTATATAATATAGTAGGAGAGCTAACTTTCAAATGTATGAAAAATAT
* *
44653128 GGGGAGTTA-AGGCATATTTCAACCA
66 AGGGACTTAGA-GCATATTTCAACCA
44653153 ATAATTTATG
Statistics
Matches: 671, Mismatches: 87, Indels: 127
0.76 0.10 0.14
Matches are distributed among these distances:
229 59 0.09
230 2 0.00
231 45 0.07
232 41 0.06
233 60 0.09
234 10 0.01
235 21 0.03
236 8 0.01
237 7 0.01
238 55 0.08
239 9 0.01
240 4 0.01
241 11 0.02
242 7 0.01
243 4 0.01
244 2 0.00
245 5 0.01
247 1 0.00
248 4 0.01
249 2 0.00
251 2 0.00
252 87 0.13
253 1 0.00
255 2 0.00
257 5 0.01
258 2 0.00
259 3 0.00
260 4 0.01
262 1 0.00
263 137 0.20
264 3 0.00
265 66 0.10
266 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (260 bp):
ATATGATATGATATAGCATTATATAATATAGTAGGAGAGCTAACTTTCAAATGTATGAAAAATAT
AGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATATATAATATAAAATAATATA
TAATGTACTACTATTATATACTATTATTATATTATAGATTATAATAAAGATATAATATTACATGA
TATTATAAAGTTTAATCATTGATGCATATATATAAACTATTAATATATATATATGATATGATATG
Found at i:44652847 original size:508 final size:504
Alignment explanation
Indices: 44651835--44652828 Score: 1354
Period size: 508 Copynumber: 2.0 Consensus size: 504
44651825 ATCACTAAAA
* * * * *
44651835 ATATGATATGATATAGCATTATAAAATATAGTAGGAGGGCTAACTTTTAAATGTACGAAAAGTAT
1 ATATAATATGATATAGCATTATAAAATATAGCAGGAGAGCTAACTTTCAAATGTACGAAAAATAT
* * * * * *
44651900 AGGAACTTTGAGTATATTTCAACTAGTATAATAATAAACAATAATAATATACTAATAAGTAATAT
66 AGGAACTTAGAGCAGATTTCAACCAATATAATAACAAACAATAATAATATACTAATAAGTAATAT
*
44651965 ATAATGTACTACTATTATATATAACTATTATTATATTATATATTATAATAAAAGATATAGTATTA
131 ATAATGTACTACTATTATATATAACTATTATTATATTATATATTATAATAAAAGATACAGTATTA
* *
44652030 CATGATATTATAATGTTTAATCATTTATGCATATATATATAAACTAGTAATATATGATATGATAT
196 CATGATATTATAATATTTAATCATTGATGCATATATATATAAACTAGTAATATATGATATGATAT
* * * *
44652095 AGCATCATATAATATAGTAGGAAGGCTAACTTTCAAATGTATGAAAAGTATAGGGACTTATAGCA
261 AACATCATATAATATAGTAGGAAGGCTAACTTTCAAATATATGAAAAGTATAGGGACTTAGAACA
*
44652160 TATTTCAACTAGTATAATAATAAACAATAATGTAAAATATAAAATAATATGTAATGTACTACTAT
326 TATTTCAACCAGTATAATAATAAACAATAA-GT-AAATAT-AAATAATATGTAA-GTACTAC-AT
* *
44652225 TATATAACTATTATTATATTATAGATTATAATAAAGGATATAATATTACATAATATTATAAAGTT
386 AATATAACTACTATTATATTATAGATTATAATAAAGGATATAATATTACATAATATTATAAAGTT
*
44652290 TAATCATTGATGCATATATATAAACTACTAATATATTATATATGATATGATATG
451 TAATCATAGATGCATATATATAAACTACTAATATATTATATATGATATGATATG
* * *
44652344 ATATAATATGATATAGCATTATATAATATAGCGGGAGAGTTAACTTTCAAATGTACGAAAAATAT
1 ATATAATATGATATAGCATTATAAAATATAGCAGGAGAGCTAACTTTCAAATGTACGAAAAATAT
* * *
44652409 AGTG-ACTTAGAGCAGATTTCAACCAATATAATAACAAACAATAAT-ATATAGTATTAATTAATA
66 AG-GAACTTAGAGCAGATTTCAACCAATATAATAACAAACAATAATAATATACTAATAAGTAATA
* *
44652472 TATAATTTACTACTATTATATATAACTATTATTATATTATATATTATAATAAAATATACAGTATT
130 TATAATGTACTACTATTATATATAACTATTATTATATTATATATTATAATAAAAGATACAGTATT
* * *
44652537 ACATGATATTATAATATTTAATCATTGATGCATATATAAACTTTTATA-TATTAGATATTACTTG
195 ACATGATATTATAATATTTAATCATTGATGCATATAT--A--TATAAACTAGTA-ATA-TA--TG
* *
44652601 ATATGATATAACATTATATAATATAGTAGGAGGGCTAACTTTCAAATATATGAAAAGTATAGGGA
252 ATATGATATAACATCATATAATATAGTAGGAAGGCTAACTTTCAAATATATGAAAAGTATAGGGA
*
44652666 CTTAGAACATATTTCAACCAGTATAATAATAAACATTAA-T-AAT-T-AAT-A-AT-TAA-TA-T
317 CTTAGAACATATTTCAACCAGTATAATAATAAACAATAAGTAAATATAAATAATATGTAAGTACT
* * * *
44652722 A-A-AATGT-ACTACTATTATATTATAGATTATAATAAAAGG-TATAGTATTGCATGATATTATA
382 ACATAATATAACTACTATTATATTATAGATTATAAT-AAAGGATATAATATTACATAATATTATA
* * *
44652783 ATGTTTAATCATAGATGTATATATATAAACTATTAATATATTATAT
446 AAGTTTAATCATAGATGCATATATATAAACTACTAATATATTATAT
44652829 GCCATATGGT
Statistics
Matches: 432, Mismatches: 43, Indels: 31
0.85 0.08 0.06
Matches are distributed among these distances:
498 86 0.20
499 8 0.02
500 1 0.00
502 2 0.00
503 2 0.00
505 3 0.01
506 2 0.00
507 1 0.00
508 115 0.27
509 94 0.22
510 3 0.01
511 7 0.02
512 7 0.02
513 3 0.01
515 98 0.23
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (504 bp):
ATATAATATGATATAGCATTATAAAATATAGCAGGAGAGCTAACTTTCAAATGTACGAAAAATAT
AGGAACTTAGAGCAGATTTCAACCAATATAATAACAAACAATAATAATATACTAATAAGTAATAT
ATAATGTACTACTATTATATATAACTATTATTATATTATATATTATAATAAAAGATACAGTATTA
CATGATATTATAATATTTAATCATTGATGCATATATATATAAACTAGTAATATATGATATGATAT
AACATCATATAATATAGTAGGAAGGCTAACTTTCAAATATATGAAAAGTATAGGGACTTAGAACA
TATTTCAACCAGTATAATAATAAACAATAAGTAAATATAAATAATATGTAAGTACTACATAATAT
AACTACTATTATATTATAGATTATAATAAAGGATATAATATTACATAATATTATAAAGTTTAATC
ATAGATGCATATATATAAACTACTAATATATTATATATGATATGATATG
Found at i:44652924 original size:229 final size:230
Alignment explanation
Indices: 44652496--44653076 Score: 740
Period size: 232 Copynumber: 2.5 Consensus size: 230
44652486 ATTATATATA
* * * *
44652496 ACTATTATTATATTATATATTATAATAAAATATACAGTATTACATGATATTATAATATTTAATCA
1 ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
* * * * * *
44652561 TTGATG-CATATATAAACT-TTTATATATTAGATATTACTTGATATGATATAACATTATATAATA
66 -TGATGACATATATAAACTATTAATATATT--ATA-TAC--CATATGATATGATATGACAT-ATA
* * * *
44652624 TAGTAGGAGGGCTAACTTTCAAATATATGAAAAGTATAGGGACTTAGAACATATTTCAACCAGTA
124 TAGTAGAAGGACTAACTTTCAAATATATGAAAAATATAGGGACTTAGAACATATTTCAACCAGCA
*
44652689 TAATAATAAACATTAATA-AT-TAATAATTAATATAAAATGT
189 TAATAATAAACAGTAATATATATAATAATTAATATAAAATGT
* * *
44652729 ACTACTATTATATTATAGATTATAATAAAAGGTATAGTATTGCATGATATTATAATGTTTAATCA
1 ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
* * * *
44652794 TAGATGTATATATATAAACTATTAATATATTATATGCCATATGGTATGATATGACAT-TATGGTA
66 T-GATG-ACATATATAAACTATTAATATATTATATACCATATGATATGATATGACATATATAGTA
* * * *
44652858 GAAGGATTAACTTTCAAATGTATGAAAAATCTAGGGACTTAGAGCATATTTCAACCAGCATAATA
129 GAAGGACTAACTTTCAAATATATGAAAAATATAGGGACTTAGAACATATTTCAACCAGCATAATA
*
44652923 ATAAACAGTAATATATGATAATAATTAATATATAATGT
194 ATAAACAGTAATATAT-ATAATAATTAATATAAAATGT
* *
44652961 ACTACTATTATATTATATAATATAATAAAAGATATAGTATAACATGATATTATAATGTTTAATCA
1 ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
* * *
44653026 TCATGCACATGTATAAACTATTAATATATTATATACTATATGATATGATAT
66 TGATG-ACATATATAAACTATTAATATATTATATACCATATGATATGATAT
44653077 AATATTACAT
Statistics
Matches: 302, Mismatches: 39, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
229 75 0.25
230 2 0.01
231 57 0.19
232 81 0.27
233 64 0.21
234 3 0.01
235 11 0.04
236 9 0.03
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (230 bp):
ACTACTATTATATTATATATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATCA
TGATGACATATATAAACTATTAATATATTATATACCATATGATATGATATGACATATATAGTAGA
AGGACTAACTTTCAAATATATGAAAAATATAGGGACTTAGAACATATTTCAACCAGCATAATAAT
AAACAGTAATATATATAATAATTAATATAAAATGT
Found at i:44662800 original size:18 final size:18
Alignment explanation
Indices: 44662777--44662843 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
44662767 ATAGTGATTC
*
44662777 AATTCGGTTAATTAGGGT
1 AATTCGGTTAATTCGGGT
* *
44662795 AATTCGGGTAATTCGAGT
1 AATTCGGTTAATTCGGGT
*
44662813 AATCCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
44662831 AATTCGGTTAATT
1 AATTCGGTTAATT
44662844 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:44662808 original size:9 final size:9
Alignment explanation
Indices: 44662777--44662843 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
44662767 ATAGTGATTC
*
44662777 AATTCGGTT
1 AATTCGGGT
*
44662786 AATTAGGGT
1 AATTCGGGT
44662795 AATTCGGGT
1 AATTCGGGT
*
44662804 AATTCGAGT
1 AATTCGGGT
* *
44662813 AATCCGGTT
1 AATTCGGGT
44662822 AATTCGGGT
1 AATTCGGGT
*
44662831 AATTCGGTT
1 AATTCGGGT
44662840 AATT
1 AATT
44662844 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:44662815 original size:27 final size:27
Alignment explanation
Indices: 44662777--44662842 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
44662767 ATAGTGATTC
*
44662777 AATTCGGTTAATTAGGGTAATTCGGGT
1 AATTCGGTTAATCAGGGTAATTCGGGT
* *
44662804 AATTCGAG-TAATCCGGTTAATTCGGGT
1 AATTCG-GTTAATCAGGGTAATTCGGGT
44662831 AATTCGGTTAAT
1 AATTCGGTTAAT
44662843 TTTTAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (27 bp):
AATTCGGTTAATCAGGGTAATTCGGGT
Found at i:44667495 original size:14 final size:14
Alignment explanation
Indices: 44667476--44667513 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
44667466 TGTTTTATTG
44667476 AAAATGATTTCTAA
1 AAAATGATTTCTAA
* *
44667490 AAAATGATTTTTAG
1 AAAATGATTTCTAA
44667504 AAAATGATTT
1 AAAATGATTT
44667514 ATTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTAA
Found at i:44667598 original size:32 final size:32
Alignment explanation
Indices: 44667532--44667602 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
44667522 GAAAAAAGTT
* * *
44667532 AATATTTTCTATTGTTTGATAGATTTGTGTAA
1 AATATTTTCTATTATTTGATAGATTTCTGAAA
*
44667564 AATATTTTCTGTTATTTGATAGATTTCCT-AAA
1 AATATTTTCTATTATTTGATAGATTT-CTGAAA
44667596 AATATTT
1 AATATTT
44667603 CATAATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (32 bp):
AATATTTTCTATTATTTGATAGATTTCTGAAA
Found at i:44667768 original size:21 final size:20
Alignment explanation
Indices: 44667742--44667788 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
44667732 AATTTCCTTT
*
44667742 TAATAATCGAAATTTATTTTA
1 TAATAATCGAAA-ATATTTTA
*
44667763 TAATAA--GAAAATATTTTG
1 TAATAATCGAAAATATTTTA
44667781 TAATAATC
1 TAATAATC
44667789 AGTACCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 12 0.55
19 4 0.18
21 6 0.27
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (20 bp):
TAATAATCGAAAATATTTTA
Found at i:44667977 original size:27 final size:26
Alignment explanation
Indices: 44667930--44667983 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 26
44667920 ACAAATGCTC
44667930 ATTTTTATATAATTAAAATAT-TCAT
1 ATTTTTATATAATTAAAATATGTCAT
*
44667955 ATTTTTATACTAGGTTAAAATATGTCAT
1 ATTTTTATA-TA-ATTAAAATATGTCAT
44667983 A
1 A
44667984 AGTCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 9 0.36
28 5 0.20
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (26 bp):
ATTTTTATATAATTAAAATATGTCAT
Found at i:44668391 original size:15 final size:15
Alignment explanation
Indices: 44668336--44668392 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
44668326 TATATACAAC
*
44668336 AAAATATTTACTATT
1 AAAATATTTATTATT
* *
44668351 AATATATTTATAATT
1 AAAATATTTATTATT
44668366 GCAATAAATATTTATTATT
1 ---A-AAATATTTATTATT
44668385 AAAATATT
1 AAAATATT
44668393 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 19 0.58
16 1 0.03
18 1 0.03
19 12 0.36
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:44668450 original size:14 final size:13
Alignment explanation
Indices: 44668419--44668457 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
44668409 CAATAATGAA
44668419 TATTATTTAAAAT
1 TATTATTTAAAAT
*
44668432 TATTATTTGAAATT
1 TATTATTT-AAAAT
44668446 TATTA-TTAAAAT
1 TATTATTTAAAAT
44668458 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:44669147 original size:89 final size:89
Alignment explanation
Indices: 44668984--44669185 Score: 262
Period size: 89 Copynumber: 2.3 Consensus size: 89
44668974 AAAGGTAATA
*** * *
44668984 TTTTTTTTTCTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAATCCCTCAAACTT
1 TTTTTTTTT-TGCACTCAATTGCACACTTAAACTGTCAAAATGCATAAAAAAATCCCTCAAAATT
*
44669049 TAAAAAAAAAGTAATTAAGCCCCTG
65 TAAAAAAAAAGAAATTAAGCCCCTG
* * *
44669074 TTTTTTTTTTGCACTCAATTGCACACTTGAGCTGTCAAAATGCATCAAAAAGA-CCCTCAAAATT
1 TTTTTTTTTTGCACTCAATTGCACACTTAAACTGTCAAAATGCAT-AAAAAAATCCCTCAAAATT
****
44669138 TTTTTAAAAAGAAATTAAGCCCCTG
65 TAAAAAAAAAGAAATTAAGCCCCTG
44669163 TTTTTTTTTTGCACTCAATTGCA
1 TTTTTTTTTTGCACTCAATTGCA
44669186 AAAATGTATC
Statistics
Matches: 98, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
89 83 0.85
90 15 0.15
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (89 bp):
TTTTTTTTTTGCACTCAATTGCACACTTAAACTGTCAAAATGCATAAAAAAATCCCTCAAAATTT
AAAAAAAAAGAAATTAAGCCCCTG
Found at i:44669342 original size:19 final size:19
Alignment explanation
Indices: 44669320--44669379 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
44669310 TATAAAAATA
44669320 AAAATAAATAAAATTTATT
1 AAAATAAATAAAATTTATT
*** *
44669339 AAAATTGTTAAAATTTAAT
1 AAAATAAATAAAATTTATT
* *
44669358 AAAA-ATATAAAATAT-TT
1 AAAATAAATAAAATTTATT
44669375 AAAAT
1 AAAAT
44669380 TTACTAAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
17 5 0.16
18 7 0.23
19 19 0.61
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATAAATAAAATTTATT
Found at i:44669376 original size:27 final size:27
Alignment explanation
Indices: 44669338--44669399 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
44669328 TAAAATTTAT
44669338 TAAAAT-TGTTAAAATTTAATAAAAATA
1 TAAAATATGTTAAAATTTAATAAAAA-A
*
44669365 TAAAATAT-TTAAAATTTACTAAAAAA
1 TAAAATATGTTAAAATTTAATAAAAAA
44669391 TAGAAATAT
1 TA-AAATAT
44669400 ATAATTGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.09
27 28 0.88
28 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (27 bp):
TAAAATATGTTAAAATTTAATAAAAAA
Found at i:44669432 original size:21 final size:21
Alignment explanation
Indices: 44669414--44669453 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
44669404 TTGTAAAATT
44669414 TTATAAAAAT-CATAAAAAAAA
1 TTAT-AAAATGCATAAAAAAAA
44669435 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
44669454 GGCCTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (21 bp):
TTATAAAATGCATAAAAAAAA
Found at i:44671347 original size:16 final size:16
Alignment explanation
Indices: 44671328--44671364 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
44671318 AACTTTAACA
44671328 AATTTTAT-TTTTTAGT
1 AATTTTATGTTTTTA-T
44671344 AATTTTATGTTTTTAT
1 AATTTTATGTTTTTAT
44671360 AATTT
1 AATTT
44671365 CAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
AATTTTATGTTTTTAT
Done.