Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 71 of 74
Found at i:13845265 original size:17 final size:19
Alignment explanation
Indices: 13845251--13845285 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
13845241 CGCATAATAT
13845251 AATATA-ATTTT-TAATTA
1 AATATATATTTTATAATTA
13845268 AATATATATTTTATAATT
1 AATATATATTTTATAATT
13845286 TATCTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATATATTTTATAATTA
Found at i:13845928 original size:79 final size:79
Alignment explanation
Indices: 13845797--13845978 Score: 319
Period size: 79 Copynumber: 2.3 Consensus size: 79
13845787 AAATCTAAAA
** * *
13845797 ATTATTTTTATCGACCAGCTGGCAGGTGATGTGTTGTTGGCCAATTGTGAGATCATCGTCTATCC
1 ATTATTTTGGTCGACCAGCTGGCAAGTGATGTGTTGTTGGCCAATTGTGAGATCATCCTCTATCC
*
13845862 ATTAGCTAGTGTTC
66 ATTAGCTAGTATTC
13845876 ATTATTTTGGTCGACCAGCTGGCAAGTGATGTGTTGTTGGCCAATTGTGAGATCATCCTCTATCC
1 ATTATTTTGGTCGACCAGCTGGCAAGTGATGTGTTGTTGGCCAATTGTGAGATCATCCTCTATCC
13845941 ATTAGCTAGTATTC
66 ATTAGCTAGTATTC
13845955 ATTATTTTGGTCGACCAGCTGGCA
1 ATTATTTTGGTCGACCAGCTGGCA
13845979 GTTGATGGCT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 98 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (79 bp):
ATTATTTTGGTCGACCAGCTGGCAAGTGATGTGTTGTTGGCCAATTGTGAGATCATCCTCTATCC
ATTAGCTAGTATTC
Found at i:13846081 original size:5 final size:5
Alignment explanation
Indices: 13846073--13846121 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
13846063 TAATTAAATT
*
13846073 TTAAA TTAAA TTAAA TTAAA -TAATA TTAAA -AAAA TTAAAA TTAAA TTAA
1 TTAAA TTAAA TTAAA TTAAA TTAA-A TTAAA TTAAA TT-AAA TTAAA TTAA
13846122 GTTCGAATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 6 0.16
5 24 0.63
6 8 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
TTAAA
Found at i:13846182 original size:12 final size:12
Alignment explanation
Indices: 13846165--13846189 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13846155 TATATAAAAA
13846165 AATTATTTATTT
1 AATTATTTATTT
13846177 AATTATTTATTT
1 AATTATTTATTT
13846189 A
1 A
13846190 TATATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:13846307 original size:16 final size:15
Alignment explanation
Indices: 13846265--13846315 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
13846255 ATGTAATATT
*
13846265 AAATTATATTTAAATTT
1 AAATTATA--TAAATTA
*
13846282 AAATTTTATAAATATA
1 AAATTATATAAAT-TA
13846298 AAATTATATAAATTA
1 AAATTATATAAATTA
13846313 AAA
1 AAA
13846316 AAAAATCCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 10 0.33
16 13 0.43
17 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATTATATAAATTA
Found at i:13846316 original size:16 final size:16
Alignment explanation
Indices: 13846259--13846315 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
13846249 CGATTTATGT
*
13846259 AATATTAAATTATATTTA
1 AATATAAAATTATA--TA
* *
13846277 AAT-TTAAATTTTATA
1 AATATAAAATTATATA
13846292 AATATAAAATTATATA
1 AATATAAAATTATATA
13846308 AAT-TAAAA
1 AATATAAAA
13846316 AAAAATCCGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 10 0.29
16 13 0.37
17 9 0.26
18 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATAAAATTATATA
Found at i:13847127 original size:22 final size:21
Alignment explanation
Indices: 13847062--13847156 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 21
13847052 TTTTTGTTAA
* *
13847062 ATTTTGAAAATAA-ATTTTTTC
1 ATTTTTAAAA-AATATTTTTTT
* *
13847083 ATATTTTAACAAAACCATGTTTTT
1 AT-TTTTAA-AAAA-TATTTTTTT
13847107 ATTTTTAAAATAATATTTTTTT
1 ATTTTTAAAA-AATATTTTTTT
* *
13847129 AATTATAAAAAATATTTTTTT
1 ATTTTTAAAAAATATTTTTTT
13847150 ATCTTTT
1 AT-TTTT
13847157 CAATAAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
21 14 0.24
22 27 0.46
23 10 0.17
24 8 0.14
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTTTAAAAAATATTTTTTT
Found at i:13847600 original size:26 final size:24
Alignment explanation
Indices: 13847556--13847603 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
13847546 TATTTTTATA
13847556 TAAATTTATTAATTAAATTATAAT
1 TAAATTTATTAATTAAATTATAAT
13847580 TAAATTT-TTATATATATAATTATA
1 TAAATTTATTA-AT-TA-AATTATA
13847604 TATTCATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 2 0.10
26 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAATTTATTAATTAAATTATAAT
Found at i:13849825 original size:2 final size:2
Alignment explanation
Indices: 13849818--13849864 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
13849808 TTAAGGTAAG
13849818 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13849858 AT AT AT A
1 AT AT AT A
13849865 ATTGTGCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13850274 original size:53 final size:53
Alignment explanation
Indices: 13850199--13850318 Score: 179
Period size: 53 Copynumber: 2.3 Consensus size: 53
13850189 TATGCTGTAC
* * * * *
13850199 TTGTA-TTATATTTCAGTTTGTTGCTCCAGATGAAGTGTTTTGTATTGTTATG
1 TTGTATTTATGTTTCAGTATGTTGCTCCAGATGAAGTGTGTTGTATTATTAAG
*
13850251 TTGTATTTATGTTTCAGTATGTTGCTCTAGATGAAGTGTGTTGTATTATTAAG
1 TTGTATTTATGTTTCAGTATGTTGCTCCAGATGAAGTGTGTTGTATTATTAAG
13850304 TTGTATTTATGTTTC
1 TTGTATTTATGTTTC
13850319 CACCTGGGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
52 5 0.08
53 56 0.92
ACGTcount: A:0.20, C:0.07, G:0.21, T:0.53
Consensus pattern (53 bp):
TTGTATTTATGTTTCAGTATGTTGCTCCAGATGAAGTGTGTTGTATTATTAAG
Found at i:13852447 original size:17 final size:17
Alignment explanation
Indices: 13852427--13852500 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 17
13852417 TTTTTTTTTT
13852427 ATTTTTTTATGTTAATA
1 ATTTTTTTATGTTAATA
* * *
13852444 ATTTTTTGTTTG-GAATT
1 ATTTTTT-TATGTTAATA
*
13852461 A-TTTTTTATTTATAATA
1 ATTTTTTTATGT-TAATA
*
13852478 ATAATTTTTTATGTTACTA
1 AT--TTTTTTATGTTAATA
13852497 ATTT
1 ATTT
13852501 AATTATTTAC
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
15 2 0.05
16 5 0.12
17 17 0.40
18 3 0.07
19 6 0.14
20 9 0.21
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (17 bp):
ATTTTTTTATGTTAATA
Found at i:13852503 original size:21 final size:20
Alignment explanation
Indices: 13852461--13852522 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
13852451 GTTTGGAATT
13852461 ATTTTTTATTTATAATAATA
1 ATTTTTTATTTATAATAATA
*
13852481 ATTTTTTATGTTACTAAT-TTA
1 ATTTTTTAT-TTA-TAATAATA
* *
13852502 ATTATTTACATTATAATAATA
1 ATTTTTTA-TTTATAATAATA
13852523 TGTTTTTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 13 0.38
21 17 0.50
22 4 0.12
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTTTATTTATAATAATA
Found at i:13852942 original size:67 final size:67
Alignment explanation
Indices: 13852871--13853007 Score: 150
Period size: 67 Copynumber: 2.0 Consensus size: 67
13852861 AATAATACTT
* * * * *
13852871 ATTTTATAACTATTCTTAT-ATTTTTACATTACGATACTTTTAACACATTTTACATTAAATTATA
1 ATTTTATAACCATTCTCATCA-TTTAACATTACGAAACTTTTAACAAATTTTACATTAAATTATA
*
13852935 TCA
65 ACA
* ** * **
13852938 ATTTTATGACCATTCTCATCATTTAATGTTACGAAATTTTTAACAAATTTTATGTTAAATTATAA
1 ATTTTATAACCATTCTCATCATTTAACATTACGAAACTTTTAACAAATTTTACATTAAATTATAA
13853003 CA
66 CA
13853005 ATT
1 ATT
13853008 ACACAATTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
67 56 0.98
68 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.47
Consensus pattern (67 bp):
ATTTTATAACCATTCTCATCATTTAACATTACGAAACTTTTAACAAATTTTACATTAAATTATAA
CA
Found at i:13853755 original size:19 final size:18
Alignment explanation
Indices: 13853733--13853796 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
13853723 TATTCTCACC
* *
13853733 TTTTTATGTTAACACGTAT
1 TTTTTATGTTAATA-ATAT
*
13853752 TTTTT-TGTTTATAATTAT
1 TTTTTATGTTAATAA-TAT
13853770 TTTTTATGTATAATAATAT
1 TTTTTATGT-TAATAATAT
13853789 TTTTTATG
1 TTTTTATG
13853797 CTGTCAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 14 0.37
19 19 0.50
20 5 0.13
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTTATGTTAATAATAT
Found at i:13854863 original size:221 final size:221
Alignment explanation
Indices: 13854224--13856366 Score: 2220
Period size: 221 Copynumber: 9.8 Consensus size: 221
13854214 ACAACGATAT
* * * * * * *
13854224 TTCTTTTATATTGTCAATTTAATTATTTGCATTACAATAATATATTTTTATACTTGTTCTT-CTT
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
* * * * * * *
13854288 TTATTACGTTTAGAATTATCATAATACT-T-TTAAGATATTATGACACTTTTAACACAGTTTTAT
66 TCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACA-TTTTAT
* * * * *
13854351 ACTAAAATGATACCAATTTTATGATAATTCTTACATTTTTATATTAACATTTATTTATTGGTTTA
130 GC-CAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTA
* *
13854416 GATTTATTCTTTAGGTTTAAGGTAATAA
194 GAATTATTCTTTGGGTTTAAGGTAATAA
** * * * * *
13854444 TTCTTTTACATTGTTAATTTAATTATTTATGCTATAATAATATCTTTTTACACTTATTCTTACTT
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
* * * * * * * * * * * *
13854509 TCATTACGTTTAAAATTATTATAACTCTCTGTTAAAGTATTA-GATACTT-GAAAACATTTTATA
66 TCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTATG
* * *
13854572 CCAAATGATACAAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTATA
131 CCAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAGA
* *
13854637 ATTATTTTTTAGGTTTAAGGTAATAA
196 ATTATTCTTTGGGTTTAAGGTAATAA
* * * *
13854663 TTTTTTTATGTTGTCAATTTAATTATTTATGTTACAGTAATATCTTTTTACGCTTATT-TTAACC
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTT-ACC
* ** ** * *
13854727 TTCATTATATTTAGAATTGCCACAACACTCTCTTAAGGTGTTAAAATACTTCTAACACACTTTAT
65 TTCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTAT
* * * * * *
13854792 GCTAAATGATACCAATTTTATGATAATTATCACATTTTTAAGTTAACATTTATTTATTAGTTTAA
130 GCCAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAG
** *
13854857 AATTATTCTTTGGGTTTAATATTATAA
195 AATTATTCTTTGGGTTTAAGGTAATAA
* * * * * * * * *
13854884 TT-TATTTATGCTATCAATTTAATTATTTACATTATAATAATATCTTTTAACTCTTGTTCTTGCT
1 TTCT-TTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACC
** * * *
13854948 TTCATTATGTTCT-GAATTATTACAACTCTTTCTT-AGAGTGTTAT-AGCACTTCTAACACATTT
65 TTCATTACATT-TAGAATTATCACAACACTCTCTTAAG-GTGTTATGA-CACTTCTAACACATTT
* * * *
13855010 TATGCTAAATAATACTAATTTTACGATAATTCTCACATTTTTGCT-TTAACATTTATTTA-----
127 TATGCCAAATAATACCAATTTTATGATAATTCTCACATTTTT-ATGTTAACATTTATTTATTGGT
*
13855069 TTAG-----TTC-TTAGGTTTAAGGTAATAA
191 TTAGAATTATTCTTTGGGTTTAAGGTAATAA
* * * * * *
13855094 TTCTTTTATGTTGTAAATTTAATTATTTACATTATAATAATATCTTTTTATACTTGTTCTTATCT
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
* * * * * *
13855159 TCATTACGTTTAGAATTATCACAATACTCTCTTAGGGTGTTACGACACTTTTAACATATTTTATG
66 TCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTATG
* * * * * *
13855224 CTAAATAATACCTATTTTATGAGAATTCTTATATTTTTATGTTAACATTTATTTATTGGTTGAGA
131 CCAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAGA
** *
13855289 ATTATTCTTTGGGTTTAAAATTATAA
196 ATTATTCTTTGGGTTTAAGGTAATAA
* * * * * *
13855315 CTCATTTAGGTTGTCAATTTAATTATTTACATTATC-ATAATATCTTATTACGCTTATTCTTACC
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTA-CAATAATATCTTTTTACACTTATTCTTACC
* * * * * * * * **
13855379 TTCATTATATTTAGAGTTGTCACAATACTGTTTTACGATGTTACAACACTTCTAACA-ATTTTTA
65 TTCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACA-TTTTA
* * * * * * *
13855443 TGCCAAATAATACTAATTTTACGATAGTTCCCATC-TTTTTACGTTAACATTCATTTATTGATTT
129 TGCCAAATAATACCAATTTTATGATAATTCTCA-CATTTTTATGTTAACATTTATTTATTGGTTT
13855507 AGAATTATTCTTTGGGTTTAAGGTAATAA
193 AGAATTATTCTTTGGGTTTAAGGTAATAA
** * * * *
13855536 TTCTTTTAAATTGTCAATTTAATTATGTACATTACAATAATATCTTTTTACATTTGTTCTTACCT
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
* * * *
13855601 TCATTACCTTTAAAATTATCACAACACTCT-TTTAGAGTATTATGACACTTCTAACACATTTTAT
66 TCATTACATTTAGAATTATCACAACACTCTCTTAAG-GTGTTATGACACTTCTAACACATTTTAT
* * ** * *
13855665 GCCAAATAAAACTAATTTTACAATAATTCTCATATTTTTATGTTAACATTTATTTATTAG-TTAG
130 GCCAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAG
* *
13855729 AATTATTCTTTGGGTTTAAGATTATAA
195 AATTATTCTTTGGGTTTAAGGTAATAA
* * **
13855756 TTCTTTTATGTTGTCAATTTAATTCTTTTACGTTGCAATAATATCTTTTTATGCTTATTCTTA-C
1 TTCTTTTATGTTGTCAATTTAATT-ATTTACGTTACAATAATATCTTTTTACACTTATTCTTACC
* * * * * * * *
13855820 TTTATTACATTTAGAATTATAACAACTCTCTTTTAAGGTATTACGACATTTTTAACACATTTTAT
65 TTCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTAT
* * * * **
13855885 ACCCAATAAAACTAATTTTACAATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAG
130 GCCAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAG
13855950 AATTATTCTTTGGGTTTAAGGTAATAA
195 AATTATTCTTTGGGTTTAAGGTAATAA
** **
13855977 TTCTTTTACATTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTATGCTTATTCTTACCT
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
* * * * *
13856042 TCGTTACATTTAAAATTATCGCAACACTCTTTTAGGGTGTTATGACACTTCTAACACATTTTATG
66 TCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTATG
* * *
13856107 CCAAATGATACCAATTTTATGATAATTCTCACCTTTTTACT-TTAACATTTGTTTATTGGTTTAG
131 CCAAATAATACCAATTTTATGATAATTCTCACATTTTTA-TGTTAACATTTATTTATTGGTTTAG
* *
13856171 AATTATTGTTTGGGTTTAAAGTAATAA
195 AATTATTCTTTGGGTTTAAGGTAATAA
** * * *
13856198 TTCTTTTACATTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACATTTGTTCTTACTT
1 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
* * * * *
13856263 TTATTACATTTAGAATTATCACACCACTCTCTTAGGGAGTTATGATACTTCTAACACATTTTATG
66 TCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTATG
* * * * *
13856328 TCAAATGATACCAATTTTATAATAATTTTCACCTTTTTA
131 CCAAATAATACCAATTTTATGATAATTCTCACATTTTTA
13856367 CATTAACTAA
Statistics
Matches: 1623, Mismatches: 260, Indels: 79
0.83 0.13 0.04
Matches are distributed among these distances:
209 2 0.00
210 164 0.10
211 6 0.00
215 3 0.00
216 3 0.00
218 2 0.00
219 167 0.10
220 272 0.17
221 983 0.61
222 12 0.01
223 9 0.01
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (221 bp):
TTCTTTTATGTTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACACTTATTCTTACCT
TCATTACATTTAGAATTATCACAACACTCTCTTAAGGTGTTATGACACTTCTAACACATTTTATG
CCAAATAATACCAATTTTATGATAATTCTCACATTTTTATGTTAACATTTATTTATTGGTTTAGA
ATTATTCTTTGGGTTTAAGGTAATAA
Found at i:13855778 original size:22 final size:21
Alignment explanation
Indices: 13855753--13855794 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
13855743 TTTAAGATTA
*
13855753 TAATTCTTTTATGTTGTCAATT
1 TAATTCTTTTACGTTG-CAATT
13855775 TAATTCTTTTACGTTGCAAT
1 TAATTCTTTTACGTTGCAAT
13855795 AATATCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAATTCTTTTACGTTGCAATT
Found at i:13856092 original size:662 final size:656
Alignment explanation
Indices: 13854224--13856366 Score: 2516
Period size: 662 Copynumber: 3.3 Consensus size: 656
13854214 ACAACGATAT
* * * *
13854224 TTCTTTTATATTGTCAATTTAATTATTTGCATTACAATAATATATTTTTATACTTGTTCTT-CTT
1 TTCTTTTATATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACATTTGTTCTTACTT
* * * * * *
13854288 TTATTACGTTTAGAATTATCATAATACTTTTAAGA-TATTATGACACTTTTAACACAGTTTTATA
66 TCATTACGTTTAGAATTATCACAACACTTTTTAGAGTATTATGACACTTCTAACACA-TTTTATG
* * ** * *
13854352 CTAAAATGATACCAATTTTATGATAATTCTTACATTTTTATATTAACATTTATTTATTGGTTTAG
130 C-CAAATAATACCAATTTTACAATAATTCTCACATTTTTAT-TTAACATTTATTTATTAG-TTAG
** * * *
13854417 ATTTATTCTTTAGGTTTAAGGTAATAATTCTTTTACATTGTTAATTTAATTATTTATGCTATAAT
192 A-TTATTCTTTAGGTTTAAGGTAATAATTCTTTTATGTTGTAAATTTAATTATTTACGTTATAAT
* * * * * *
13854482 AATATCTTTTTACACTTATTCTTACTTTCATTACGTTTAAAATTATTATAACTCTCTGTTAAAGT
256 AATATCTTTTTATACTTATTCTTACTTT-ATTACGTTTAGAATTATAACAACTCTCTCTTAAGGT
* * * * * * *
13854547 ATTA-GATACTTGAAAACATTTTATACCAAATGATACAAATTTTATGATAATTCTCACATTTTTA
320 ATTACGACATTTTAACACATTTTATACCAAATAAAACTAATTTTATGATAATTCTCACATTTTTA
* * * * *
13854611 TGTTAACATTTATTTATTGGTTTATAATTATTTTTTAGGTTTAAGGTAATAATTTTTTTATGTTG
385 TGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGGTAATAATTCTTTTACGTTG
* *
13854676 TCAATTTAATTATTTATGTTACAGTAATATCTTTTTACGCTTATT-TTAACCTTCATTATATTTA
450 TCAATTTAATTATTTACGTTACAATAATATCTTTTTACGCTTATTCTT-ACCTTCATTATATTTA
* * * * *
13854740 GAATTGCCACAACACTCTCTTAAGGTGTTAAAATACTTCTAACACACTTTATGCTAAATGATACC
514 GAATTGTCACAACACTCTTTTAAGGTGTTAAAACACTTCTAACACATTTTATGCCAAATGATACC
* * *
13854805 AATTTTATGATAATTATCACATTTTTAAGTTAACATTTATTTATT-AGTTTAAAATTATTCTTTG
579 AATTTTATGATAATTCTCAC-TTTTTACGTTAACATTTATTTATTGA-TTTAGAATTATTCTTTG
*
13854869 GGTTTAATA-TTATAA
642 GGTTTAA-AGTAATAA
** * * * *
13854884 TT-TATTTATGCTATCAATTTAATTATTTACATTATAATAATATCTTTTAAC-TCTTGTTCTTGC
1 TTCT-TTTATATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACAT-TTGTTCTTAC
* * * *
13854947 TTTCATTATGTTCT-GAATTATTACAACTCTTTCTTAGAGTGTTAT-AGCACTTCTAACACATTT
64 TTTCATTACGTT-TAGAATTATCACAACACTTT-TTAGAGTATTATGA-CACTTCTAACACATTT
* * * *
13855010 TATGCTAAATAATACTAATTTTACGATAATTCTCACATTTTTGCTTTAACATTTA--T-TTA-TT
126 TATGCCAAATAATACCAATTTTACAATAATTCTCACATTTTT-ATTTAACATTTATTTATTAGTT
*
13855071 AG----TTC-TTAGGTTTAAGGTAATAATTCTTTTATGTTGTAAATTTAATTATTTACATTATAA
190 AGATTATTCTTTAGGTTTAAGGTAATAATTCTTTTATGTTGTAAATTTAATTATTTACGTTATAA
* * * *
13855131 TAATATCTTTTTATACTTGTTCTTATCTTCATTACGTTTAGAATTATCACAA-TACTCTCTTAGG
255 TAATATCTTTTTATACTTATTCTTA-CTTTATTACGTTTAGAATTATAACAACT-CTCTCTTAAG
* * * * * * * *
13855195 GTGTTACGACACTTTTAACATATTTTATGCTAAATAATACCT-ATTTTATGAGAATTCTTATATT
318 GTATTACGACA-TTTTAACACATTTTATACCAAATAA-AACTAATTTTATGATAATTCTCACATT
* ** * * * *
13855259 TTTATGTTAACATTTATTTATTGGTTGAGAATTATTCTTTGGGTTTAAAATTATAACTCATTTAG
381 TTTATGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGGTAATAATTCTTTTAC
* *
13855324 GTTGTCAATTTAATTATTTACATTATC-ATAATATCTTATTACGCTTATTCTTACCTTCATTATA
446 GTTGTCAATTTAATTATTTACGTTA-CAATAATATCTTTTTACGCTTATTCTTACCTTCATTATA
* * * * * * *
13855388 TTTAGAGTTGTCACAATACTGTTTTACGATGTTACAACACTTCTAACA-ATTTTTATGCCAAATA
510 TTTAGAATTGTCACAACACTCTTTTAAGGTGTTAAAACACTTCTAACACA-TTTTATGCCAAATG
* * * * *
13855452 ATACTAATTTTACGATAGTTCCCATCTTTTTACGTTAACATTCATTTATTGATTTAGAATTATTC
574 ATACCAATTTTATGATAATTCTCA-CTTTTTACGTTAACATTTATTTATTGATTTAGAATTATTC
*
13855517 TTTGGGTTTAAGGTAATAA
638 TTTGGGTTTAAAGTAATAA
* * *
13855536 TTCTTTTAAATTGTCAATTTAATTATGTACATTACAATAATATCTTTTTACATTTGTTCTTACCT
1 TTCTTTTATATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACATTTGTTCTTACTT
* *
13855601 TCATTACCTTTAAAATTATCACAACACTCTTTTAGAGTATTATGACACTTCTAACACATTTTATG
66 TCATTACGTTTAGAATTATCACAACACT-TTTTAGAGTATTATGACACTTCTAACACATTTTATG
* * *
13855666 CCAAATAAAACTAATTTTACAATAATTCTCATATTTTTATGTTAACATTTATTTATTAGTTAGAA
130 CCAAATAATACCAATTTTACAATAATTCTCACATTTTTAT-TTAACATTTATTTATTAGTTAG-A
* * * * * **
13855731 TTATTCTTTGGGTTTAAGATTATAATTCTTTTATGTTGTCAATTTAATTCTTTTACGTTGCAATA
193 TTATTCTTTAGGTTTAAGGTAATAATTCTTTTATGTTGTAAATTTAATT-ATTTACGTTATAATA
* * *
13855796 ATATCTTTTTATGCTTATTCTTACTTTATTACATTTAGAATTATAACAACTCTCTTTTAAGGTAT
257 ATATCTTTTTATACTTATTCTTACTTTATTACGTTTAGAATTATAACAACTCTCTCTTAAGGTAT
* **
13855861 TACGACATTTTTAACACATTTTATACCCAATAAAACTAATTTTACAATAATTCTCACATTTTTAT
322 TACGACA-TTTTAACACATTTTATACCAAATAAAACTAATTTTATGATAATTCTCACATTTTTAT
*
13855926 GTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGGTAATAATTCTTTTACATTGT
386 GTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGGTAATAATTCTTTTACGTTGT
* * * *
13855991 CAATTTAATTATTTACGTTACAATAATATCTTTTTATGCTTATTCTTACCTTCGTTACATTTAAA
451 CAATTTAATTATTTACGTTACAATAATATCTTTTTACGCTTATTCTTACCTTCATTATATTTAGA
* * * **
13856056 ATTATCGCAACACTCTTTTAGGGTGTTATGACACTTCTAACACATTTTATGCCAAATGATACCAA
516 ATTGTCACAACACTCTTTTAAGGTGTTAAAACACTTCTAACACATTTTATGCCAAATGATACCAA
* * * *
13856121 TTTTATGATAATTCTCACCTTTTTACTTTAACATTTGTTTATTGGTTTAGAATTATTGTTTGGGT
581 TTTTATGATAATTCTCA-CTTTTTACGTTAACATTTATTTATTGATTTAGAATTATTCTTTGGGT
13856186 TTAAAGTAATAA
645 TTAAAGTAATAA
* *
13856198 TTCTTTTACATTGTCAATTTAATTATTTACGTTACAATAATATCTTTTTACATTTGTTCTTACTT
1 TTCTTTTATATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACATTTGTTCTTACTT
* * * * * *
13856263 TTATTACATTTAGAATTATCACACCACTCTCTTAG-GGAGTTATGATACTTCTAACACATTTTAT
66 TCATTACGTTTAGAATTATCACAACACT-TTTTAGAGTA-TTATGACACTTCTAACACATTTTAT
* * * * *
13856327 GTCAAATGATACCAATTTTATAATAATTTTCACCTTTTTA
129 GCCAAATAATACCAATTTTACAATAATTCTCACATTTTTA
13856367 CATTAACTAA
Statistics
Matches: 1248, Mismatches: 194, Indels: 80
0.82 0.13 0.05
Matches are distributed among these distances:
649 1 0.00
650 103 0.08
651 12 0.01
652 413 0.33
653 11 0.01
654 1 0.00
655 3 0.00
656 8 0.01
658 2 0.00
659 2 0.00
660 49 0.04
661 76 0.06
662 516 0.41
663 51 0.04
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (656 bp):
TTCTTTTATATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACATTTGTTCTTACTT
TCATTACGTTTAGAATTATCACAACACTTTTTAGAGTATTATGACACTTCTAACACATTTTATGC
CAAATAATACCAATTTTACAATAATTCTCACATTTTTATTTAACATTTATTTATTAGTTAGATTA
TTCTTTAGGTTTAAGGTAATAATTCTTTTATGTTGTAAATTTAATTATTTACGTTATAATAATAT
CTTTTTATACTTATTCTTACTTTATTACGTTTAGAATTATAACAACTCTCTCTTAAGGTATTACG
ACATTTTAACACATTTTATACCAAATAAAACTAATTTTATGATAATTCTCACATTTTTATGTTAA
CATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGGTAATAATTCTTTTACGTTGTCAATT
TAATTATTTACGTTACAATAATATCTTTTTACGCTTATTCTTACCTTCATTATATTTAGAATTGT
CACAACACTCTTTTAAGGTGTTAAAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTA
TGATAATTCTCACTTTTTACGTTAACATTTATTTATTGATTTAGAATTATTCTTTGGGTTTAAAG
TAATAA
Found at i:13858529 original size:63 final size:62
Alignment explanation
Indices: 13858431--13858574 Score: 152
Period size: 63 Copynumber: 2.3 Consensus size: 62
13858421 TAATCCATAA
* * *
13858431 ATTATTCAAGGTA-TATTTAGTCAAAAACACATTCAATAA-CC-TAATTCAATAGTTTGTAAGGG
1 ATTATTCAAGGTATTTTTTAGTCAAAAACACATTCAATAACCCATAATT-AA-A-ATTGAAAGGG
* * *
13858493 ATTATTCAAGGTATTTTTTAG-CTAAAAATACCTTCAATAATCCCATCATTAAAATTGAAAGGG
1 ATTATTCAAGGTATTTTTTAGTC-AAAAACACATTCAATAA-CCCATAATTAAAATTGAAAGGG
*
13858556 ATTATTCAAGGCATTTTTT
1 ATTATTCAAGGTATTTTTT
13858575 CCCATAAATG
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
62 14 0.20
63 47 0.67
64 1 0.01
65 4 0.06
66 4 0.06
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (62 bp):
ATTATTCAAGGTATTTTTTAGTCAAAAACACATTCAATAACCCATAATTAAAATTGAAAGGG
Found at i:13858749 original size:18 final size:18
Alignment explanation
Indices: 13858726--13858760 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13858716 CACTCATAAA
13858726 AATTTAATGAGATTATTT
1 AATTTAATGAGATTATTT
13858744 AATTTAATGAGATTATT
1 AATTTAATGAGATTATT
13858761 CAAGGCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
AATTTAATGAGATTATTT
Found at i:13860434 original size:21 final size:21
Alignment explanation
Indices: 13860396--13860440 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13860386 ATAATGAAAT
* *
13860396 ATAAATATTAAAACCAAATTA
1 ATAAATATTAAAAACAAATAA
13860417 ATAAATA-TAATAAACAAATAA
1 ATAAATATTAA-AAACAAATAA
13860438 ATA
1 ATA
13860441 TTAAGTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAATATTAAAAACAAATAA
Found at i:13862980 original size:249 final size:248
Alignment explanation
Indices: 13862588--13863042 Score: 571
Period size: 249 Copynumber: 1.8 Consensus size: 248
13862578 AAAATCACGA
* *
13862588 ATTATTGAAGGTATTTCTTTTGCAAAAAACACCTCAAATAATCCTCTCTAAAAACTTTGAGGAGA
1 ATTATTGAAGGTATTTCTTTTGCAAAAAACACCTCAAATAATCCCCTCTAAAAACTTAGAGGAGA
* ** ** * *
13862653 TTATTGAATGGTTTTTAGTCAAAAATGCCTTTAATAACCCTATTCAATATTTTTTTAAGGATTAT
66 TTATTGAATGATTTTTAACCAAAAACACCTTCAATAACCCTATTCAATATTTTGTTAAGGATTAT
* * * * * *
13862718 TCAAGGTATTTTTTAGGTAAAAATA-CGTTCAATAATCTCCTCATAAATGCCTGAAA-GGGATTA
131 TCAAAGCATTTTTTAGGCAAAAA-AGCCTTCAACAATCTCCTCATAAACG-CTGAAAGGGGATTA
*
13862781 TTCAAGGTGTTTTATTATAAAAGTGTCATGAATAATATCAAAAAAATGGGAAGGG
194 TTCAAGGCGTTTTATTATAAAAGTGTCATGAATAATATCAAAAAAATGGGAAGGG
* ** *
13862836 ATTATTGAAGGTGTTT-TTTTTTATAGAAAATACCTCAAATAATCCCCTCTAAAGAA-TTAGAGG
1 ATTATTGAAGGTATTTCTTTTGCA-A-AAAACACCTCAAATAATCCCCTCTAAA-AACTTAGAGG
* *
13862899 -GATTATTGAATGCATTTTTAACCAGAAACACCTTCAATAATCCC-GTTCAATATTTTGTTAAGG
63 AGATTATTGAATG-ATTTTTAACCAAAAACACCTTCAATAA-CCCTATTCAATATTTTGTTAAGG
* * * *
13862962 ATTATTTAAAGCATTTTTTAGGCAAAAAAGCCTTTAACAATCTCTTCATAAACGCTTAAAGGGGA
126 ATTATTCAAAGCATTTTTTAGGCAAAAAAGCCTTCAACAATCTCCTCATAAACGCTGAAAGGGGA
13863027 TTATTCAAGGCGTTTT
191 TTATTCAAGGCGTTTT
13863043 TAGCCATAAA
Statistics
Matches: 174, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
247 5 0.03
248 34 0.20
249 130 0.75
250 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (248 bp):
ATTATTGAAGGTATTTCTTTTGCAAAAAACACCTCAAATAATCCCCTCTAAAAACTTAGAGGAGA
TTATTGAATGATTTTTAACCAAAAACACCTTCAATAACCCTATTCAATATTTTGTTAAGGATTAT
TCAAAGCATTTTTTAGGCAAAAAAGCCTTCAACAATCTCCTCATAAACGCTGAAAGGGGATTATT
CAAGGCGTTTTATTATAAAAGTGTCATGAATAATATCAAAAAAATGGGAAGGG
Found at i:13871196 original size:29 final size:28
Alignment explanation
Indices: 13871162--13871232 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 28
13871152 TAAGTTTGTG
*
13871162 GATTATAAATAA-TTTACTTGTAGTTTTAAT
1 GATTATAAATAATTTTACTT-TA-TTGT-AT
13871192 G-TTATTAAATATATTTTACTTTATTGTAT
1 GATTA-TAAATA-ATTTTACTTTATTGTAT
13871221 GATTATAAATAA
1 GATTATAAATAA
13871233 ATTAATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
28 1 0.03
29 12 0.33
30 13 0.36
31 3 0.08
32 7 0.19
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (28 bp):
GATTATAAATAATTTTACTTTATTGTAT
Found at i:13871487 original size:54 final size:53
Alignment explanation
Indices: 13871353--13871521 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 53
13871343 AAAATATAAT
* * * *
13871353 AAAAAATTAAAACATAT-AGTCTATACTGACATTCTCTAATCGTC-GATAAAGGTA
1 AAAAAATTAAAACATATAAGTCTATACTGATAGT-TCTAAT-ATCAG-TAAAAGTA
* * * *
13871407 AAAAAATTAAAACGTACAATTTTATACTGATAGTTCTAACTATCAGTAAAAGTA
1 AAAAAATTAAAACATATAAGTCTATACTGATAGTTCTAA-TATCAGTAAAAGTA
* * * * * *
13871461 AGAAAATTAAAAAATATAAGTCTATACTGATGGATGCTAAGTATCAGTATAGGTA
1 AAAAAATTAAAACATATAAGTCTATACTGATAG-TTCTAA-TATCAGTAAAAGTA
13871516 AAAAAA
1 AAAAAA
13871522 ATTACAAGTC
Statistics
Matches: 91, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
54 55 0.60
55 36 0.40
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (53 bp):
AAAAAATTAAAACATATAAGTCTATACTGATAGTTCTAATATCAGTAAAAGTA
Found at i:13872239 original size:13 final size:13
Alignment explanation
Indices: 13872221--13872250 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13872211 AGGAAATTAA
13872221 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
13872234 AAAAAAAAAGAAC
1 AAAAAAAAAAAAC
13872247 AAAA
1 AAAA
13872251 GTCGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:13872642 original size:11 final size:12
Alignment explanation
Indices: 13872612--13872645 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
13872602 ATATATTAAT
13872612 TATTTAATATATA
1 TATTTAAT-TATA
13872625 TATTTAATTATA
1 TATTTAATTATA
13872637 -ATTTAATTA
1 TATTTAATTA
13872646 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 4 0.19
13 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTAATTATA
Found at i:13873202 original size:19 final size:17
Alignment explanation
Indices: 13873171--13873208 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 17
13873161 TTGAATATAT
13873171 TAAAATTAAAAAATTATG
1 TAAAATTAAAAAATT-TG
13873189 TAAAATTAAAAAAATTTG
1 TAAAATT-AAAAAATTTG
13873207 TA
1 TA
13873209 CTATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
TAAAATTAAAAAATTTG
Found at i:13873934 original size:21 final size:22
Alignment explanation
Indices: 13873908--13873966 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
13873898 AATAATTAAC
13873908 TTTATTAAATTAAATCACAA-T
1 TTTATTAAATTAAATCACAAGT
* * *
13873929 TTTATTTAGTTTAATCACAAGT
1 TTTATTAAATTAAATCACAAGT
*
13873951 TTAAATTAAATTAAAT
1 TT-TATTAAATTAAAT
13873967 AAAAAATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 17 0.59
22 3 0.10
23 9 0.31
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (22 bp):
TTTATTAAATTAAATCACAAGT
Found at i:13875280 original size:21 final size:21
Alignment explanation
Indices: 13875217--13875281 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
13875207 TAATATAAAA
*
13875217 AAAAAAACATAATTTTTGTTG
1 AAAAAAATATAATTTTTGTTG
* *
13875238 -AAAAGATGAT--TTTTT-TAAG
1 AAAAAAAT-ATAATTTTTGT-TG
13875257 AAAAAAATATAATTTTTGTTG
1 AAAAAAATATAATTTTTGTTG
13875278 AAAA
1 AAAA
13875282 TATGAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
18 1 0.03
19 8 0.24
20 11 0.33
21 12 0.36
22 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (21 bp):
AAAAAAATATAATTTTTGTTG
Found at i:13875281 original size:20 final size:20
Alignment explanation
Indices: 13875218--13875281 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
13875208 AATATAAAAA
*
13875218 AAAAAACATAATTTTTGTTG
1 AAAAAATATAATTTTTGTTG
* *
13875238 AAAAGATGAT--TTTTT-TAAG
1 AAAAAAT-ATAATTTTTGT-TG
13875257 AAAAAAATATAATTTTTGTTG
1 -AAAAAATATAATTTTTGTTG
13875278 AAAA
1 AAAA
13875282 TATGAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
18 1 0.03
19 8 0.24
20 15 0.45
21 8 0.24
22 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (20 bp):
AAAAAATATAATTTTTGTTG
Found at i:13875283 original size:18 final size:18
Alignment explanation
Indices: 13875220--13875284 Score: 51
Period size: 18 Copynumber: 3.4 Consensus size: 18
13875210 TATAAAAAAA
*
13875220 AAAACATAATTTTTGTTG
1 AAAATATAATTTTTGTTG
* *
13875238 AAAAGATGATTTTT-TTAAG
1 AAAATATAATTTTTGTT--G
13875257 AAAAAAATATAATTTTTGTTG
1 ---AAAATATAATTTTTGTTG
13875278 AAAATAT
1 AAAATAT
13875285 GAAAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
17 2 0.05
18 19 0.51
19 1 0.03
21 1 0.03
22 12 0.32
23 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (18 bp):
AAAATATAATTTTTGTTG
Found at i:13875334 original size:37 final size:37
Alignment explanation
Indices: 13875293--13875372 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
13875283 ATGAAAAAAA
*
13875293 ATAAAA-CATAAAATATCTTTATTTAATATTATTACAT
1 ATAAAAGC-TAAAATATATTTATTTAATATTATTACAT
*
13875330 ATAAAAGCTAGAATATATTTATTTAATATTATTACAT
1 ATAAAAGCTAAAATATATTTATTTAATATTATTACAT
13875367 ATAAAA
1 ATAAAA
13875373 ATTGTTTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (37 bp):
ATAAAAGCTAAAATATATTTATTTAATATTATTACAT
Found at i:13876219 original size:22 final size:23
Alignment explanation
Indices: 13876184--13876232 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
13876174 TTTTATACTT
*
13876184 AAATCTATTTAAAT-ATAT-TAA
1 AAATCTATTAAAATAATATATAA
13876205 AAATCATATTAAAATAATATATAA
1 AAATC-TATTAAAATAATATATAA
13876229 AAAT
1 AAAT
13876233 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 4 0.17
24 7 0.29
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATCTATTAAAATAATATATAA
Found at i:13877423 original size:220 final size:220
Alignment explanation
Indices: 13877033--13879620 Score: 2343
Period size: 220 Copynumber: 11.9 Consensus size: 220
13877023 AATCAACCTT
* * * * * *
13877033 TTAAGGTAATAATTCTTTTATGTTATCAATTTAATTATTTATACTATAATAATA-CTTTTTTACG
1 TTAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTATTTACATTATAATAATATC-TTTTTATG
* * * * * * * *
13877097 CTTATTCTTACTTTTATTATATTTAAAATTATCACAACTCTCTATTAAGGTATTACAACACATT-
65 CTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACAC-TTC
* * *
13877161 GAACACATTTTATG-TCAAATGATA-CAGATTTTACGATAATTCTCACATTTTTACATTAACA-T
129 TAACACATTTTATGCT-AAATAATACCA-ATTTTATGATAATTCTCACATTTTTACATTAACATT
* * *
13877223 TATTTTTTGGTTTAGAATTATTCTTTAGA
192 TATTTATTGGTTTAGAATTATTCTTTGGG
* * * *
13877252 TATCAAGTAATAATTTTTTTAAGTTGTTAATTTAATTATTTACATTACAATAATAAT-TTTTTAT
1 T-TAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTATTTACATTATAATAAT-ATCTTTTTAT
* * * **
13877316 GCTTGTT-TCAACCTTTATTATGTTTAGAATT-GCGACAACACTCTTTTAGGGTGTTATGACACT
64 GCTTGTTCT-TACCTTTATTATGTTTAGAATTATC-ACAACACTCTCTTAGGGTGTTACAACACT
* * * *
13877379 TCTGACACATTTTATGCTAAATGATACCAATTTTATGTTAATTCTCACAATTTTA-AGTTAACAT
127 TCTAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACA-TTAACAT
13877443 TTATTTATTGGTTTAGAATTATTCTTT-GG
191 TTATTTATTGGTTTAGAATTATTCTTTGGG
* * *
13877472 TTTAAGATTATAATTCTTTTACA-TTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTAT
1 TTAAAG-TAATAATTCTTTTA-AGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTAT
* * * * * * ** *
13877536 ACTTGTTCTTACCTTCATTACGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTATGACATTTC
64 GCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
* * * * * *
13877601 TAAAATATTTTATGCTAAATAATACCAATTTTATGATAATTCTTACCTTTTTGCTTTAACATTTA
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
* *
13877666 TTTATTGGTTTAGAATTATTATTTGGAT
194 TTTATTGGTTTAGAATTATTCTTTGG-G
* * * * *
13877694 TTAAAGTAATAATTATTTTACGTTATAAATTTAATTATTTACGTTATAATAATATCTTTTTTATG
1 TTAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTATTTACATTATAATAATATC-TTTTTATG
* * * * * * * * * *
13877759 CATGTTCTTATC-TTATTACGTTTAGAATTATAACAATACTGTATTATGGTGTTATAATACTTCT
65 CTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTCT
* * * *
13877823 AACATATTTTATG-TCAAATAATATCAATTTTATGATAATTTTCACATTTTTACGTTAACATTTA
130 AACACATTTTATGCT-AAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
* * * *
13877887 TTTATTAGTTTAGAGTTATTCTTTAAGT
194 TTTATTGGTTTAGAATTATTCTTT-GGG
* ** *
13877915 TTAAAGTTATAATTCTTTTACA-TTGTCAATTTAATTATTTATGTTATAACAATATCTTTTTATG
1 TTAAAGTAATAATTCTTTTA-AGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTATG
* * * * * * * *
13877979 CTTGTTCTTA-TTTTCATTATATTTAGAATTGTCACAATACTCTCTTAAGATGTTATAACACTTG
65 CTTGTTCTTACCTTT-ATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
* * * * * *
13878043 TAACACATTTTATGCGAAATAATATCAGTTTTATGATAATTCTTACCTTTTTACGTTAACATTTA
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
* **
13878108 TTTATTGGGTTAGAATTATGATTTGGG
194 TTTATTGGTTTAGAATTATTCTTTGGG
* * * *
13878135 TTTAAGGTAATAATTCTTTTACA-TTGTCAATTTAATTATTTACACTAAAATAATATCTTTTTAC
1 -TTAAAGTAATAATTCTTTTA-AGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTAT
* * * ** *
13878199 GTTTGTTTTTACC-TCATTACCTTTA-AATTATCACAACACTCTCTTAGGGTGTTACAACACTTT
64 GCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
* * * *
13878262 TAACACATTTTATGCCAAATGATAACAATTTTATAATAATTCTCACATTTTTACATTAACATTTA
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
*
13878327 TTAATTGGTTTAGAATTATTCTTTGGG
194 TTTATTGGTTTAGAATTATTCTTTGGG
* * * *
13878354 TTTAAGATTATAATTCTTTTACA-TTGTCAATTTAATTATTTACGTGATAATAATATCTTTTTAC
1 TTAAAG-TAATAATTCTTTTA-AGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTA-
* * * * * * * *
13878418 T-CTTGTTCTTAACTTTATTATGTTTAAAATTATCACAACTCTCTTTTAAGGTGTTACGATATTT
63 TGCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTT
* * * * * * *
13878482 TTAACATATTTTATGCCT-AATAAAACCAATTTTATGATACTTCTTACCTTTTTACGTTAACATT
128 CTAACACATTTTATG-CTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATT
13878546 TATTTATTGGTTTA-ATATTATTCTTTGGG
192 TATTTATTGGTTTAGA-ATTATTCTTTGGG
* ** * *
13878575 TTTAAAGTTATAGCTCTTTTATGTTGTCAATTTAATTATTTACATTATAATAATAT-TTGTTTAC
1 -TTAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTATTTACATTATAATAATATCTT-TTTAT
* * * * * *
13878639 ACTTGTTCTTACCTTCATTATGTTTAGAATTATCACAATAATCTCTAAGAGTGTTA-AACACTTC
64 GCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
* * * * * * * *
13878703 TAATATATTTTATGCCAAACAATACCAATTTTATGATAATTTTCATATTTTTATAATAACATTTA
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
13878768 TTTATTGGTTTAGAATTATTCTTTGGG
194 TTTATTGGTTTAGAATTATTCTTTGGG
* * * * *
13878795 TTTAAGGTAATAATTCTTTT-AGATTTTCAATTTAATTATTTTCATTACAATAATATCTTTTTAC
1 -TTAAAGTAATAATTCTTTTAAG-TTGTCAATTTAATTATTTACATTATAATAATATCTTTTTAT
** ** * * * * * *
13878859 ATTTGTTCTTACCTTTATTACCTTTAGAATGATCAAAATACTCTATTAGGGTGTTACGATACTT-
64 GCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
* * * *
13878923 TAACACATTTTATGCTAAATGATACCAATTTTACGATAATTATCACATTTTTACGTTAACATTTA
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
* * *
13878988 TTTATTGGTTTAAAATTATTCTTTAGC
194 TTTATTGGTTTAGAATTATTCTTTGGG
* * * * ** * *
13879015 TTCAAGGTAATAATTATTTTACA-TTATTAATTTAATTATTTATGTTACAAAAATATCTTTTTAT
1 TT-AAAGTAATAATTCTTTTA-AGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTAT
* * * * * * * *
13879079 ACTTATTCTTATCTTCATTATGTTTAGAATTATCACAACTCTCTCTTAGGGTTTTACGACACTTT
64 GCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
** ** * * *
13879144 TAATGCATTTTATGCCGAATGATACCAA-TATATGATAATTCTTACATTTTTACATTAACATTTA
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
**
13879208 TTTATTGGTTTAGAATTATTCTTTGAT
194 TTTATTGGTTTAGAATTATTCTTTGGG
*
13879235 TTAAAGT--T-A------TAA--T-T---TTT--TTATGTTGCA--AT-A--ATATCTTTTTATG
1 TTAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTAT-TTACATTATAATAATATCTTTTTATG
* * * * * * * * * * *
13879278 CTTGTTCGTACTTTTATGATGTTTAGAATTATCATAACTCTCTTTTAAGGTGTTACGATATTTTT
65 CTTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTCT
* *** * * *
13879343 AACACATTTTATGCCT-AATAAAATGTATTTTATGATAATTCTCACTTTTTTACGTTAATATTTA
130 AACACATTTTATG-CTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTA
13879407 TTTATTGGTTTAGAATTATTCTTTGGG
194 TTTATTGGTTTAGAATTATTCTTTGGG
** * * * * ***
13879434 TTTAAAAAAATAATTCTTTTATGTTGTCAATTTAATTATTTACGTTACACTAATATCTTTTTGCA
1 -TTAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTATG
* * ** * *
13879499 CATGTT-ATA-CTTTCATTACATTTAGAATTATCACAACACTCTCTTAGGGTGGTATAACACTTC
65 CTTGTTCTTACCTTT-ATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTC
* * * ** *
13879562 TAACACATTTTATGCCAAGTGATACCAATTTTACAATAATT-T-TCATCTTTTACATTAAC
129 TAACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACAT-TTTTACATTAAC
13879621 CAAATTTTAA
Statistics
Matches: 1940, Mismatches: 353, Indels: 152
0.79 0.14 0.06
Matches are distributed among these distances:
198 82 0.04
199 57 0.03
200 6 0.00
201 1 0.00
202 5 0.00
203 3 0.00
204 3 0.00
207 1 0.00
208 1 0.00
209 3 0.00
210 2 0.00
211 1 0.00
212 1 0.00
215 3 0.00
216 4 0.00
217 5 0.00
218 7 0.00
219 207 0.11
220 844 0.44
221 674 0.35
222 30 0.02
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (220 bp):
TTAAAGTAATAATTCTTTTAAGTTGTCAATTTAATTATTTACATTATAATAATATCTTTTTATGC
TTGTTCTTACCTTTATTATGTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTCTA
ACACATTTTATGCTAAATAATACCAATTTTATGATAATTCTCACATTTTTACATTAACATTTATT
TATTGGTTTAGAATTATTCTTTGGG
Found at i:13878323 original size:661 final size:660
Alignment explanation
Indices: 13877032--13879620 Score: 2766
Period size: 661 Copynumber: 4.0 Consensus size: 660
13877022 TAATCAACCT
* * ** *** *
13877032 TTTAAGGTAATAATTCTTTTATGTTATCAATTTAATTATTTATACTATAATAATA-CTTTTTTAC
1 TTTAAAGTAATAATTATTTTACATTATCAATTTAATTATTTACGTTATAATAATATC-TTTTTAT
* * * *
13877096 GCTTATTCTTACTTTTATTATATTTAAAATTATCACAACTCTCTATTAAGGTATTACAACACATT
65 GCTTATTCTTA-TCTTATTATGTTTAAAATTATCACAACTCTCTATTAAGGTGTTACAACACTTT
* * * * *
13877161 GAACACATTTTATGTCAAATGATA-CAGATTTTACGATAATTCTCACATTTTTACATTAACA-TT
129 TAACACATTTTATGCCAAATAATACCA-ATTTTATGATAATTCTTACATTTTTACATTAACATTT
* * * * * *
13877224 ATTTTTTGGTTTAGAATTATTCTTT-AGATATCAAGTAATAATTTTTTTAAGTTGTTAATTTAAT
193 ATTTATTGGTTTAGAATTATTCTTTGAG-TTTAAAGTTATAATTCTTTTAA-TTGTCAATTTAAT
* *
13877288 TATTTACATTACAATAATAATTTTTTATGCTTGTT-TCAACCTTTATTATGTTTAGAATT-GCGA
256 TATTTACATTACAATAAT-ATTTTTTATGCTTGTTCT-TACCTTTATTATGTTTAGAATTATC-A
* * * * * * * *
13877351 CAACACTCTTTTAGGGTGTTATGACACTTCTGACACATTTTATGCTAAATGATACCAATTTTATG
318 CAATACTCTCTTAAGATGTTATAACACTTCTAACACATTTTATGCCAAATAATACCAATTTTATG
* * *
13877416 TTAATTCTCACAATTTTAAGTTAACATTTATTTATTGGTTTAGAATTATTCTTT-GGTTTAAGAT
383 ATAATTCTCACATTTTTACGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGAT
* * * *
13877480 TATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTATACTTGTTCT
448 AATAATTCTTTTACATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACACTTGTTCT
* * * * ** * *
13877545 TACCTTCATTACGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTATGACA-TTTCTAAAATAT
513 TACCTTCATTACCTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTT-TAACACAT
* * ** * * * *
13877609 TTTATGCTAAATAATACCAATTTTATGATAATTCTTACCTTTTTGCTTTAACATTTATTTATTGG
577 TTTATGCCAAATGATACCAATTTTACAATAATTCTCACATTTTTACATTAACATTTATTTATTGG
*
13877674 TTTAGAATTATTATTTGGA
642 TTTAGAATTATTCTTTGGA
* *
13877693 TTTAAAGTAATAATTATTTTACGTTATAAATTTAATTATTTACGTTATAATAATATCTTTTTTAT
1 TTTAAAGTAATAATTATTTTACATTATCAATTTAATTATTTACGTTATAATAATATC-TTTTTAT
* * * * * * * * * *
13877758 GCATGTTCTTATCTTATTACGTTTAGAATTATAACAA-TACTGTATTATGGTGTTATAATACTTC
65 GCTTATTCTTATCTTATTATGTTTAAAATTATCACAACT-CTCTATTAAGGTGTTACAACACTTT
* * * *
13877822 TAACATATTTTATGTCAAATAATATCAATTTTATGATAATT-TTCACATTTTTACGTTAACATTT
129 TAACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTT-ACATTTTTACATTAACATTT
* * *
13877886 ATTTATTAGTTTAGAGTTATTCTTTAAGTTTAAAGTTATAATTCTTTTACATTGTCAATTTAATT
193 ATTTATTGGTTTAGAATTATTCTTTGAGTTTAAAGTTATAATTCTTTTA-ATTGTCAATTTAATT
** * * * * *
13877951 ATTTATGTTATAACAATATCTTTTTATGCTTGTTCTTA-TTTTCATTATATTTAGAATTGTCACA
257 ATTTACATTACAATAATAT-TTTTTATGCTTGTTCTTACCTTT-ATTATGTTTAGAATTATCACA
* * * *
13878015 ATACTCTCTTAAGATGTTATAACACTTGTAACACATTTTATGCGAAATAATATCAGTTTTATGAT
320 ATACTCTCTTAAGATGTTATAACACTTCTAACACATTTTATGCCAAATAATACCAATTTTATGAT
* * * ** *
13878080 AATTCTTACCTTTTTACGTTAACATTTATTTATTGGGTTAGAATTATGATTTGGGTTTAAGGTAA
385 AATTCTCACATTTTTACGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGATAA
* * ** *
13878145 TAATTCTTTTACATTGTCAATTTAATTATTTACACTAAAATAATATCTTTTTACGTTTGTTTTTA
450 TAATTCTTTTACATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACACTTGTTCTTA
13878210 CC-TCATTACCTTTA-AATTATCACAACACTCTCTTAGGGTGTTACAACACTTTTAACACATTTT
515 CCTTCATTACCTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTTTAACACATTTT
* * *
13878273 ATGCCAAATGATAACAATTTTATAATAATTCTCACATTTTTACATTAACATTTATTAATTGGTTT
580 ATGCCAAATGATACCAATTTTACAATAATTCTCACATTTTTACATTAACATTTATTTATTGGTTT
*
13878338 AGAATTATTCTTTGGG
645 AGAATTATTCTTTGGA
* * * *
13878354 TTT-AAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTGATAATAATATCTTTTTAC
1 TTTAAAG-TAATAATTATTTTACATTATCAATTTAATTATTTACGTTATAATAATATCTTTTTA-
* * * * * *
13878418 T-CTTGTTCTTAACTTTATTATGTTTAAAATTATCACAACTCTCTTTTAAGGTGTTACGATATTT
64 TGCTTATTCTTATC-TTATTATGTTTAAAATTATCACAACTCTCTATTAAGGTGTTACAACACTT
* * * * * *
13878482 TTAACATATTTTATGCCTAATAAAACCAATTTTATGATACTTCTTACCTTTTTACGTTAACATTT
128 TTAACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTTACATTTTTACATTAACATTT
* ** *
13878547 ATTTATTGGTTTA-ATATTATTCTTTGGGTTTAAAGTTATAGCTCTTTTATGTTGTCAATTTAAT
193 ATTTATTGGTTTAGA-ATTATTCTTTGAGTTTAAAGTTATAATTCTTTTA-ATTGTCAATTTAAT
* ** *
13878611 TATTTACATTATAATAATATTTGTTTACACTTGTTCTTACCTTCATTATGTTTAGAATTATCACA
256 TATTTACATTACAATAATATTT-TTTATGCTTGTTCTTACCTTTATTATGTTTAGAATTATCACA
* * * *
13878676 ATAATCTC-TAAGAGTGTTA-AACACTTCTAATATATTTTATGCCAAACAATACCAATTTTATGA
320 ATACTCTCTTAAGA-TGTTATAACACTTCTAACACATTTTATGCCAAATAATACCAATTTTATGA
* * *** *
13878739 TAATTTTCATATTTTTATAATAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGGTA
384 TAATTCTCACATTTTTACGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGATA
* * * *
13878804 ATAATTCTTTTAGATTTTCAATTTAATTATTTTCATTACAATAATATCTTTTTACATTTGTTCTT
449 ATAATTCTTTTACATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACACTTGTTCTT
* * * * * * *
13878869 ACCTTTATTACCTTTAGAATGATCAAAATACTCTATTAGGGTGTTACGATAC-TTTAACACATTT
514 ACCTTCATTACCTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTTTAACACATTT
* * * *
13878933 TATGCTAAATGATACCAATTTTACGATAATTATCACATTTTTACGTTAACATTTATTTATTGGTT
579 TATGCCAAATGATACCAATTTTACAATAATTCTCACATTTTTACATTAACATTTATTTATTGGTT
* * *
13878998 TAAAATTATTCTTTAGC
644 TAGAATTATTCTTTGGA
* * * * * * *
13879015 TTCAAGGTAATAATTATTTTACATTATTAATTTAATTATTTATGTTACAAAAATATCTTTTTATA
1 TTTAAAGTAATAATTATTTTACATTATCAATTTAATTATTTACGTTATAATAATATCTTTTTATG
* * * * *
13879080 CTTATTCTTATCTTCATTATGTTTAGAATTATCACAACTCTCTCTTAGGGTTTTACGACACTTTT
66 CTTATTCTTATCTT-ATTATGTTTAAAATTATCACAACTCTCTATTAAGGTGTTACAACACTTTT
** * * *
13879145 AATGCATTTTATGCCGAATGATACCAA-TATATGATAATTCTTACATTTTTACATTAACATTTAT
130 AACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTTACATTTTTACATTAACATTTAT
13879209 TTATTGGTTTAGAATTATTCTTTGA-TTTAAAG-T-T-A------TAA-T-T---TTT--TTA--
195 TTATTGGTTTAGAATTATTCTTTGAGTTTAAAGTTATAATTCTTTTAATTGTCAATTTAATTATT
* * * * * *
13879255 T--GTTGCAATAATATCTTTTTATGCTTGTTCGTACTTTTATGATGTTTAGAATTATCATAACT-
260 TACATTACAATAATAT-TTTTTATGCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAA-TA
* * ** * * * * * ***
13879317 CTCTTTTAAGGTGTTACGATATTTTTAACACATTTTATGCCTAATAAAATGTATTTTATGATAAT
323 CTCTCTTAAGATGTTATAACACTTCTAACACATTTTATGCCAAATAATACCAATTTTATGATAAT
* * * *
13879382 TCTCACTTTTTTACGTTAATATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAAAAAATAA
388 TCTCACATTTTTACGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGATAATAA
** * * * * * *
13879447 TTCTTTTATGTTGTCAATTTAATTATTTACGTTACACTAATATCTTTTTGCACATGTT-ATACTT
453 TTCTTTTACATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACACTTGTTCTTACCT
* * * *
13879511 TCATTACATTTAGAATTATCACAACACTCTCTTAGGGTGGTATAACACTTCTAACACATTTTATG
518 TCATTACCTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTTTAACACATTTTATG
* *
13879576 CCAAGTGATACCAATTTTACAATAATT-T-TCATCTTTTACATTAAC
583 CCAAATGATACCAATTTTACAATAATTCTCACAT-TTTTACATTAAC
13879621 CAAATTTTAA
Statistics
Matches: 1627, Mismatches: 267, Indels: 91
0.82 0.13 0.05
Matches are distributed among these distances:
637 3 0.00
638 108 0.07
639 186 0.11
640 1 0.00
642 3 0.00
644 3 0.00
647 1 0.00
648 1 0.00
650 2 0.00
657 1 0.00
658 1 0.00
659 7 0.00
660 240 0.15
661 729 0.45
662 266 0.16
663 75 0.05
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (660 bp):
TTTAAAGTAATAATTATTTTACATTATCAATTTAATTATTTACGTTATAATAATATCTTTTTATG
CTTATTCTTATCTTATTATGTTTAAAATTATCACAACTCTCTATTAAGGTGTTACAACACTTTTA
ACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTTACATTTTTACATTAACATTTATT
TATTGGTTTAGAATTATTCTTTGAGTTTAAAGTTATAATTCTTTTAATTGTCAATTTAATTATTT
ACATTACAATAATATTTTTTATGCTTGTTCTTACCTTTATTATGTTTAGAATTATCACAATACTC
TCTTAAGATGTTATAACACTTCTAACACATTTTATGCCAAATAATACCAATTTTATGATAATTCT
CACATTTTTACGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGGGTTTAAGATAATAATTC
TTTTACATTGTCAATTTAATTATTTACATTACAATAATATCTTTTTACACTTGTTCTTACCTTCA
TTACCTTTAGAATTATCACAACACTCTCTTAGGGTGTTACAACACTTTTAACACATTTTATGCCA
AATGATACCAATTTTACAATAATTCTCACATTTTTACATTAACATTTATTTATTGGTTTAGAATT
ATTCTTTGGA
Found at i:13878495 original size:440 final size:439
Alignment explanation
Indices: 13877032--13879620 Score: 2663
Period size: 440 Copynumber: 5.9 Consensus size: 439
13877022 TAATCAACCT
* * ** * *** *
13877032 TTTAAGGTAATAATTCTTTTATGTTATCAATTTAATTATTTATACTATAATAATA-CTTTTTTAC
1 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATC-TTTTTAT
* * * * * * **
13877096 GCTTATTCTTACTTTTATTATATTTAAAATTATCACAACTCTCTATTAAGGTATTACAACACATT
65 GCTTGTTCTTAC-TTTATTATGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTACGACATTTT
* * * * * *
13877161 GAACACATTTTATGTCAAATGATA-CAGATTTTACGATAATTCTCACATTTTTACATTAACA-TT
129 TAACACATTTTATGCCAAATAATACCA-ATTTTATGATAATTCTCACCTTTTTACGTTAACATTT
* * * * * * *
13877224 ATTTTTTGGTTTAGAATTATTCTTTAGATATCAAGTAATAATTTTTTTA-AGTTGTTAATTTAAT
193 ATTTATTGGTTTAGAATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACA-TTGTCAATTTAAT
* ** * * * *
13877288 TATTTACATTACAATAATAAT-TTTTTATGCTTGTT-TCAACCTTTATTATGTTTAGAATT-GCG
257 TATTTACATTAAAATAAT-ATCTTTTTACACTTGTTCT-TACC-TCATTACGTTTAGAATTATC-
* * * *
13877350 ACAACACTCTTTTAGGGTGTTATGACACTTCTGACACATTTTATGCTAAATGATACCAATTTTAT
318 ACAACACTCTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTAT
* *
13877415 GTTAATTCTCACAATTTTA-AGTTAACATTTATTTATTGGTTTAGAATTATTCTTTGG
383 GATAATTCTCACATTTTTACA-TTAACATTTATTTATTGGTTTAGAATTATTCTTTGG
*
13877472 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTATA
1 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTATG
* * * *
13877537 CTTGTTCTTACCTTCATTACGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTATGACATTTCT
66 CTTGTTCTTA-CTTTATTATGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTACGACATTTTT
* * * * * *
13877602 AAAATATTTTATGCTAAATAATACCAATTTTATGATAATTCTTACCTTTTTGCTTTAACATTTAT
130 AACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTCACCTTTTTACGTTAACATTTAT
* * * * * *
13877667 TTATTGGTTTAGAATTATTATTTGGATTTAAAGTAATAATTATTTTACGTTATAAATTTAATTAT
195 TTATTGGTTTAGAATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACATTGTCAATTTAATTAT
* * ** * * * * *
13877732 TTACGTTATAATAATATCTTTTTTATGCATGTTCTTATCTTATTACGTTTAGAATTATAACAATA
260 TTACATTAAAATAATATC-TTTTTACACTTGTTCTTACCTCATTACGTTTAGAATTATCACAACA
* * * * * * * *
13877797 CTGTATTATGGTGTTATAATACTTCTAACATATTTTATGTCAAATAATATCAATTTTATGATAAT
324 CTCTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTATGATAAT
* * * * *
13877862 TTTCACATTTTTACGTTAACATTTATTTATTAGTTTAGAGTTATTCTTTAAG
389 TCTCACATTTTTACATTAACATTTATTTATTGGTTTAGAATTATTCTTT-GG
* *
13877914 TTTAA-AGTTATAATTCTTTTACATTGTCAATTTAATTATTTATGTTATAACAATATCTTTTTAT
1 TTTAAGA-TTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTAT
* * * * * ** *
13877978 GCTTGTTCTTATTTTCATTATATTTAGAATTGTCACAA-TACTCTCTTAAGATGTTATAACACTT
65 GCTTGTTCTTACTTT-ATTATGTTTAGAATTATCACAACT-CTCTTTTAAGGTGTTACGACATTT
* * * * *
13878042 GTAACACATTTTATGCGAAATAATATCAGTTTTATGATAATTCTTACCTTTTTACGTTAACATTT
128 TTAACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTCACCTTTTTACGTTAACATTT
* ** *
13878107 ATTTATTGGGTTAGAATTATGATTTGGGTTTAAGGTAATAATTCTTTTACATTGTCAATTTAATT
193 ATTTATTGGTTTAGAATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACATTGTCAATTTAATT
* ** * *
13878172 ATTTACACTAAAATAATATCTTTTTACGTTTGTTTTTACCTCATTACCTTTA-AATTATCACAAC
258 ATTTACATTAAAATAATATCTTTTTACACTTGTTCTTACCTCATTACGTTTAGAATTATCACAAC
* * * *
13878236 ACTCTCTTAGGGTGTTACAACACTTTTAACACATTTTATGCCAAATGATAACAATTTTATAATAA
323 ACTCTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTATGATAA
*
13878301 TTCTCACATTTTTACATTAACATTTATTAATTGGTTTAGAATTATTCTTTGGG
388 TTCTCACATTTTTACATTAACATTTATTTATTGGTTTAGAATTATTCTTT-GG
*
13878354 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTGATAATAATATCTTTTTACT
1 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTA-T
* *
13878419 -CTTGTTCTTAACTTTATTATGTTTAAAATTATCACAACTCTCTTTTAAGGTGTTACGATATTTT
65 GCTTGTTCTT-ACTTTATTATGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTACGACATTTT
* * * * *
13878483 TAACATATTTTATGCCTAATAAAACCAATTTTATGATACTTCTTACCTTTTTACGTTAACATTTA
129 TAACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTCACCTTTTTACGTTAACATTTA
* ** **
13878548 TTTATTGGTTTA-ATATTATTCTTTGGGTTTAAAGTTATAGCTCTTTTATGTTGTCAATTTAATT
194 TTTATTGGTTTAGA-ATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACATTGTCAATTTAATT
* *
13878612 ATTTACATTATAATAATAT-TTGTTTACACTTGTTCTTACCTTCATTATGTTTAGAATTATCACA
258 ATTTACATTAAAATAATATCTT-TTTACACTTGTTCTTACC-TCATTACGTTTAGAATTATCACA
* * * * * * **
13878676 ATAATCTCTAAGAGTGTTA-AACACTTCTAATATATTTTATGCCAAACAATACCAATTTTATGAT
321 ACACTCTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTATGAT
* * * *
13878740 AATTTTCATATTTTTATAATAACATTTATTTATTGGTTTAGAATTATTCTTTGGG
386 AATTCTCACATTTTTACATTAACATTTATTTATTGGTTTAGAATTATTCTTT-GG
* * * * * * * **
13878795 TTTAAGGTAATAATTCTTTTAGATTTTCAATTTAATTATTTTCATTACAATAATATCTTTTTACA
1 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTATG
* ** * * * * * *
13878860 TTTGTTCTTACCTTTATTACCTTTAGAATGATCA-AAATACTCTATTAGGGTGTTACGATA-CTT
66 CTTGTTCTTA-CTTTATTATGTTTAGAATTATCACAACT-CTCTTTTAAGGTGTTACGACATTTT
* * * * *
13878923 TAACACATTTTATGCTAAATGATACCAATTTTACGATAATTATCACATTTTTACGTTAACATTTA
129 TAACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTCACCTTTTTACGTTAACATTTA
* * * * * * * *
13878988 TTTATTGGTTTAAAATTATTCTTTAGCTTCAAGGTAATAATTATTTTACATTATTAATTTAATTA
194 TTTATTGGTTTAGAATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACATTGTCAATTTAATTA
** * * * *
13879053 TTTATGTTACAAA-AATATCTTTTTATACTTATTCTTATCTTCATTATGTTTAGAATTATCACAA
259 TTTACATTA-AAATAATATCTTTTTACACTTGTTCTTA-CCTCATTACGTTTAGAATTATCACAA
* * ** * ** * *
13879117 CTCTCTCTTAGGGTTTTACGACACTTTTAATGCATTTTATGCCGAATGATACCAA-TATATGATA
322 CACTCTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTATGATA
* *
13879181 ATTCTTACATTTTTACATTAACATTTATTTATTGGTTTAGAATTATTCTTTGA
387 ATTCTCACATTTTTACATTAACATTTATTTATTGGTTTAGAATTATTCTTTGG
* **
13879234 TTTAA-AGT-T-A------TA-A-T-T---TTT--TTA--T--GTTGCAATAATATCTTTTTATG
1 TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTATG
* * * *
13879278 CTTGTTCGTACTTTTATGATGTTTAGAATTATCATAACTCTCTTTTAAGGTGTTACGATATTTTT
66 CTTGTTCTTAC-TTTATTATGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTACGACATTTTT
* * *** * *
13879343 AACACATTTTATGCCTAATAAAATGTATTTTATGATAATTCTCACTTTTTTACGTTAATATTTAT
130 AACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTCACCTTTTTACGTTAACATTTAT
** **
13879408 TTATTGGTTTAGAATTATTCTTTGGGTTTAAAAAAATAATTCTTTTATGTTGTCAATTTAATTAT
195 TTATTGGTTTAGAATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACATTGTCAATTTAATTAT
* * * * * * * *
13879473 TTACGTTACACTAATATCTTTTTGCACATGTT-ATACTTTCATTACATTTAGAATTATCACAACA
260 TTACATTAAAATAATATCTTTTTACACTTGTTCTTAC-CTCATTACGTTTAGAATTATCACAACA
* * **
13879537 CTCTCTTAGGGTGGTATAACACTTCTAACACATTTTATGCCAAGTGATACCAATTTTACAATAAT
324 CTCTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTATGATAAT
*
13879602 T-T-TCATCTTTTACATTAAC
389 TCTCACAT-TTTTACATTAAC
13879621 CAAATTTTAA
Statistics
Matches: 1802, Mismatches: 310, Indels: 96
0.82 0.14 0.04
Matches are distributed among these distances:
417 5 0.00
418 147 0.08
419 145 0.08
420 1 0.00
422 3 0.00
424 3 0.00
427 1 0.00
428 1 0.00
429 1 0.00
430 2 0.00
436 1 0.00
437 1 0.00
439 9 0.00
440 737 0.41
441 463 0.26
442 281 0.16
443 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (439 bp):
TTTAAGATTATAATTCTTTTACATTGTCAATTTAATTATTTACGTTATAATAATATCTTTTTATG
CTTGTTCTTACTTTATTATGTTTAGAATTATCACAACTCTCTTTTAAGGTGTTACGACATTTTTA
ACACATTTTATGCCAAATAATACCAATTTTATGATAATTCTCACCTTTTTACGTTAACATTTATT
TATTGGTTTAGAATTATTCTTTGGGTTTAAAGTAATAATTCTTTTACATTGTCAATTTAATTATT
TACATTAAAATAATATCTTTTTACACTTGTTCTTACCTCATTACGTTTAGAATTATCACAACACT
CTCTTAGGGTGTTATAACACTTCTAACACATTTTATGCCAAATGATACCAATTTTATGATAATTC
TCACATTTTTACATTAACATTTATTTATTGGTTTAGAATTATTCTTTGG
Found at i:13883527 original size:88 final size:88
Alignment explanation
Indices: 13883378--13883553 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
13883368 AATTAAATTA
13883378 ATTAATTTAACAGAAAGGCCACCAGTAGCTTTCAGTCCAAACCTATCATTTCCCTCCGTCTCTCT
1 ATTAATTTAACAGAAAGGCCACCAGTAGCTTTCAGTCCAAACCTATCATTTCCCTCCGTCTCTCT
13883443 CCATTACTCTCAGTCCCTCTCCC
66 CCATTACTCTCAGTCCCTCTCCC
13883466 ATTAATTTAACAGAAAGGCCACCAGTAGCTTTCAGTCCAAACCTATCATTTCCCTCCGTCTCTCT
1 ATTAATTTAACAGAAAGGCCACCAGTAGCTTTCAGTCCAAACCTATCATTTCCCTCCGTCTCTCT
13883531 CCATTACTCTCAGTCCCTCTCCC
66 CCATTACTCTCAGTCCCTCTCCC
13883554 TCGCCGCCCT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.24, C:0.36, G:0.09, T:0.31
Consensus pattern (88 bp):
ATTAATTTAACAGAAAGGCCACCAGTAGCTTTCAGTCCAAACCTATCATTTCCCTCCGTCTCTCT
CCATTACTCTCAGTCCCTCTCCC
Found at i:13884911 original size:1 final size:1
Alignment explanation
Indices: 13884905--13884959 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
13884895 CAGGAGCAAC
* * * * *
13884905 AAAAAAAAAAAAAAAAAAAAAACAAAAACAAAAAACAAAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13884960 GGCTTTTCTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13885280 original size:31 final size:33
Alignment explanation
Indices: 13885237--13885305 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
13885227 TATAAAATTA
*
13885237 AAAGTAAATAATGAAATT-TAAAATGGTAATAC
1 AAAGTAAATAATGAAATTAAAAAATGGTAATAC
13885269 AAAGT-AATAATGAAATTAAAAAATGGTAATAC
1 AAAGTAAATAATGAAATTAAAAAATGGTAATAC
13885301 AAAGT
1 AAAGT
13885306 TTAAACTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 12 0.34
32 23 0.66
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (33 bp):
AAAGTAAATAATGAAATTAAAAAATGGTAATAC
Found at i:13885510 original size:66 final size:66
Alignment explanation
Indices: 13885391--13885530 Score: 171
Period size: 66 Copynumber: 2.1 Consensus size: 66
13885381 ATTTTAAAAG
* *
13885391 ATTTATA-TATTACACATCTCTGAATAAAATATTAGAATATAACTCAAGATTTC-ACTAAAAAAC
1 ATTTATATTATTACACATCTCTGAATAAAAAATTAAAATATAACTCAAGATTTCAAC-AAAAAAC
13885454 TC
65 TC
* * *
13885456 ATTTATATTATTACACTTCTCTGAATAAAAAATTAAAATATAGC-CAA-ATCTTTCAACAAAAAG
1 ATTTATATTATTACACATCTCTGAATAAAAAATTAAAATATAACTCAAGA--TTTCAACAAAAAA
*
13885519 TTC
64 CTC
13885522 ATTTATATT
1 ATTTATATT
13885531 TTTAGGAGGA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
64 1 0.02
65 10 0.15
66 52 0.80
67 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.36
Consensus pattern (66 bp):
ATTTATATTATTACACATCTCTGAATAAAAAATTAAAATATAACTCAAGATTTCAACAAAAAACT
C
Found at i:13885871 original size:21 final size:21
Alignment explanation
Indices: 13885845--13885890 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
13885835 TTATTTAGTG
*
13885845 ATTTATTTCT-TATATATCTTT
1 ATTTATTTCTCAAT-TATCTTT
13885866 ATTTATTTCTCAATTATCTTT
1 ATTTATTTCTCAATTATCTTT
13885887 ATTT
1 ATTT
13885891 TGTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTATTTCTCAATTATCTTT
Found at i:13886498 original size:17 final size:17
Alignment explanation
Indices: 13886476--13886509 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13886466 TTTTAATTGG
13886476 TTTATTTTATGTTACTT
1 TTTATTTTATGTTACTT
*
13886493 TTTATTTTATTTTACTT
1 TTTATTTTATGTTACTT
13886510 AGGGTAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTTTATGTTACTT
Found at i:13886572 original size:10 final size:10
Alignment explanation
Indices: 13886557--13886581 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13886547 TTGATTAGTA
13886557 AAAATAAATT
1 AAAATAAATT
13886567 AAAATAAATT
1 AAAATAAATT
13886577 AAAAT
1 AAAAT
13886582 TTTAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATAAATT
Found at i:13887490 original size:33 final size:33
Alignment explanation
Indices: 13887440--13887525 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
13887430 CAAGTATTAC
* *
13887440 ATTTGTTAATTATATAATTAATTATTATATCAT
1 ATTTATTAATTAAATAATTAATTATTATATCAT
* *
13887473 ATTTATTAATTAAATAATTAATTGTTATATTAT
1 ATTTATTAATTAAATAATTAATTATTATATCAT
*
13887506 AATTA--AATTATAATAATTAA
1 ATTTATTAATTA-AATAATTAA
13887526 ATAAACAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
31 5 0.11
32 9 0.19
33 33 0.70
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (33 bp):
ATTTATTAATTAAATAATTAATTATTATATCAT
Found at i:13891590 original size:18 final size:18
Alignment explanation
Indices: 13891572--13891632 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
13891562 TTGATTAAAT
13891572 TTTAA-AATTTTAAATAA
1 TTTAATAATTTTAAATAA
13891589 TTTAATAATTTTAAA-AA
1 TTTAATAATTTTAAATAA
* **
13891606 TAT-ATTTTTTATAAATAA
1 TTTAATAATTT-TAAATAA
13891624 TTTAA-AATT
1 TTTAATAATT
13891633 ATAATAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.15
17 13 0.38
18 15 0.44
19 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAATAATTTTAAATAA
Found at i:13891634 original size:17 final size:17
Alignment explanation
Indices: 13891572--13891636 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
13891562 TTGATTAAAT
*
13891572 TTTAAAATTTTAAATAA
1 TTTAAAATTATAAATAA
*
13891589 TTTAATAATTTTAAA-AA
1 TTTAA-AATTATAAATAA
* ***
13891606 TATATTTTTTATAAATAA
1 TTTA-AAATTATAAATAA
13891624 TTTAAAATTATAA
1 TTTAAAATTATAA
13891637 TAAAAAATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
17 22 0.61
18 14 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAAATTATAAATAA
Found at i:13891731 original size:2 final size:2
Alignment explanation
Indices: 13891715--13891793 Score: 63
Period size: 2 Copynumber: 40.0 Consensus size: 2
13891705 GTAAATTATG
* * * * *
13891715 TA TA T- TA TA -A TA TA TA TA TA TA TGA TT TT TT TA AA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* * *
13891756 TA TA TA TA TA GA TA TA CA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13891794 CATAATATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 2 0.03
2 61 0.94
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13892361 original size:5 final size:5
Alignment explanation
Indices: 13892351--13892381 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
13892341 CCTACTTATT
13892351 AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
13892382 TATTCATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:13895893 original size:85 final size:85
Alignment explanation
Indices: 13895758--13895920 Score: 308
Period size: 85 Copynumber: 1.9 Consensus size: 85
13895748 GCTCAACATG
13895758 AAGTACATTTCTTTTTGCATTAGTTATGGACGAGCTCACTAGGCATATCCAAGACAAAGTACCAT
1 AAGTACATTTCTTTTTGCATTAGTTATGGACGAGCTCACTAGGCATATCCAAGACAAAGTACCAT
13895823 AGTGTATGTTATTCAACACA
66 AGTGTATGTTATTCAACACA
*
13895843 AAGTACATTTCTTTTTGCATTAGTTATGGACGAGCTCGCTAGGCATATCCAAGACAAAGTACCAT
1 AAGTACATTTCTTTTTGCATTAGTTATGGACGAGCTCACTAGGCATATCCAAGACAAAGTACCAT
*
13895908 GGTGTATGTTATT
66 AGTGTATGTTATT
13895921 TATGGATGAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (85 bp):
AAGTACATTTCTTTTTGCATTAGTTATGGACGAGCTCACTAGGCATATCCAAGACAAAGTACCAT
AGTGTATGTTATTCAACACA
Found at i:13908484 original size:14 final size:13
Alignment explanation
Indices: 13908465--13908515 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
13908455 TATCCTATTG
13908465 TTTCTTTTTTTTCT
1 TTTCTTTTTTTT-T
13908479 TTTCTTTTTCTTTT
1 TTTCTTTTT-TTTT
* *
13908493 TTTATTTATTGTTT
1 TTTCTTT-TTTTTT
13908507 TTTCTTTTT
1 TTTCTTTTT
13908516 AAGTATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 2 0.06
14 25 0.78
15 5 0.16
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:13910318 original size:20 final size:22
Alignment explanation
Indices: 13910283--13910322 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
13910273 GTGAGACTCA
13910283 TTTGTTATTATTAATTAAATTT
1 TTTGTTATTATTAATTAAATTT
13910305 TTTGTT-TT-TTAATTAAAT
1 TTTGTTATTATTAATTAAAT
13910323 AAATTTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTGTTATTATTAATTAAATTT
Found at i:13910776 original size:7 final size:7
Alignment explanation
Indices: 13910773--13910811 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
13910763 CCCTTTTTTG
13910773 TTTTTAT
1 TTTTTAT
13910780 TTTTTAT
1 TTTTTAT
13910787 TTTTTAT
1 TTTTTAT
*
13910794 TTTTCAT
1 TTTTTAT
*
13910801 TTTTCAT
1 TTTTTAT
13910808 TTTT
1 TTTT
13910812 ATCCTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:13910790 original size:21 final size:21
Alignment explanation
Indices: 13910757--13910811 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
13910747 TACTAAGCTA
* * *
13910757 CATTTTCCCTTTTTTGTTTTT
1 CATTTTTCATTTTTTATTTTT
*
13910778 -ATTTTTTATTTTTTATTTTT
1 CATTTTTCATTTTTTATTTTT
13910798 CATTTTTCATTTTT
1 CATTTTTCATTTTT
13910812 ATCCTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (21 bp):
CATTTTTCATTTTTTATTTTT
Found at i:13910813 original size:20 final size:20
Alignment explanation
Indices: 13910766--13910811 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
13910756 ACATTTTCCC
* *
13910766 TTTTTTGTTTTTATTTTTTA
1 TTTTTTATTTTTATTTTTCA
13910786 TTTTTTATTTTTCATTTTTCA
1 TTTTTTATTTTT-ATTTTTCA
13910807 TTTTT
1 TTTTT
13910812 ATCCTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTATTTTTATTTTTCA
Found at i:13915733 original size:30 final size:28
Alignment explanation
Indices: 13915673--13915733 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
13915663 TTACTCCTCA
* *
13915673 TTCTCTTTTTTTTTTTTTTTGATTACTC
1 TTCTCTTTTTTTGTTTTTTTAATTACTC
13915701 TTCTCCTTTTTTGTGTTTTTTTAATGTA-TC
1 TTCT-CTTTTTT-TGTTTTTTTAAT-TACTC
13915731 TTC
1 TTC
13915734 CATCCCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.14
29 7 0.25
30 15 0.54
31 2 0.07
ACGTcount: A:0.08, C:0.15, G:0.07, T:0.70
Consensus pattern (28 bp):
TTCTCTTTTTTTGTTTTTTTAATTACTC
Found at i:13915902 original size:19 final size:19
Alignment explanation
Indices: 13915888--13915935 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
13915878 CCTTTTCTTA
13915888 TTGACTTTTTTTTTTAATT
1 TTGACTTTTTTTTTTAATT
* **
13915907 TTGGCTTTTTTTTTTTGTT
1 TTGACTTTTTTTTTTAATT
13915926 TTGACGTTTT
1 TTGAC-TTTT
13915936 GAAAAAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.08, C:0.06, G:0.12, T:0.73
Consensus pattern (19 bp):
TTGACTTTTTTTTTTAATT
Found at i:13916450 original size:43 final size:43
Alignment explanation
Indices: 13916334--13916508 Score: 208
Period size: 43 Copynumber: 4.0 Consensus size: 43
13916324 ATAGGCAAAT
* * * *
13916334 AATTAAGAAATGGGCTTTTCTTTATAGAGGCTAAACAATTTTAA
1 AATTAAGAAATAGACTTCTCTATATAGAGGCTAAACAATTTT-A
* * * *
13916378 AATTAAGAAATAGGCTCCACTATATAGAGGCTAAATAATTTTA
1 AATTAAGAAATAGACTTCTCTATATAGAGGCTAAACAATTTTA
* * *
13916421 AATTAAGAAATAGACTTCTCCATACAGAGGCTAAACAACTTTA
1 AATTAAGAAATAGACTTCTCTATATAGAGGCTAAACAATTTTA
* *
13916464 AATTAAGAAAT-GATCTTTTCTATATAGAAGCTAAACAATTTTA
1 AATTAAGAAATAGA-CTTCTCTATATAGAGGCTAAACAATTTTA
13916507 AA
1 AA
13916509 ATTATAAATA
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 2 0.02
43 74 0.66
44 36 0.32
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (43 bp):
AATTAAGAAATAGACTTCTCTATATAGAGGCTAAACAATTTTA
Found at i:13916661 original size:22 final size:22
Alignment explanation
Indices: 13916636--13916679 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13916626 AATGGTTCAC
*
13916636 AAAACTT-CAAAGATTTGCAAAA
1 AAAACTTGAAAAGATTT-CAAAA
*
13916658 AAAATTTGAAAAGATTTCAAAA
1 AAAACTTGAAAAGATTTCAAAA
13916680 TTTGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (22 bp):
AAAACTTGAAAAGATTTCAAAA
Found at i:13916681 original size:18 final size:17
Alignment explanation
Indices: 13916658--13916705 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13916648 ATTTGCAAAA
13916658 AAAATTTGAAAAGATTTC
1 AAAATTTGAAAAGA-TTC
13916676 AAAATTTGTAAAA-ATTC
1 AAAATTTG-AAAAGATTC
* *
13916693 AAGATTTGCAAAG
1 AAAATTTGAAAAG
13916706 GTTTTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 3 0.12
17 10 0.38
18 9 0.35
19 4 0.15
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
AAAATTTGAAAAGATTC
Found at i:13918607 original size:16 final size:15
Alignment explanation
Indices: 13918579--13918617 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
13918569 CATCAGTTTT
13918579 TTTTTTTACTTTTC-
1 TTTTTTTACTTTTCA
13918593 TTCTTTTTACTTTTTCA
1 TT-TTTTTAC-TTTTCA
13918610 TTTTTTTA
1 TTTTTTTA
13918618 TCATTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 7 0.32
16 11 0.50
17 2 0.09
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTTACTTTTCA
Found at i:13922255 original size:3 final size:3
Alignment explanation
Indices: 13922249--13922280 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
13922239 TAAAATCATC
*
13922249 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13922281 GCATAACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13922514 original size:17 final size:16
Alignment explanation
Indices: 13922487--13922521 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
13922477 TTAAGCTTTA
13922487 TATTTTTATAAAATTT
1 TATTTTTATAAAATTT
13922503 TATTTCTTATAAAATTT
1 TATTT-TTATAAAATTT
13922520 TA
1 TA
13922522 ACTAGTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTTATAAAATTT
Found at i:13924721 original size:71 final size:71
Alignment explanation
Indices: 13924644--13924806 Score: 195
Period size: 71 Copynumber: 2.3 Consensus size: 71
13924634 ATACCAGAAT
* * * *
13924644 AACACCAACAGTCTG-AAAAATGAATATGACTGAGATAATACTGTAGGTCAAAAAATAAAGATGA
1 AACACCAACAGT-TGAAAAAATGAATATGACTGAGATAACACCGTAGGTCAAAAAACAAAGACGA
13924708 TTGAGAC
65 TTGAGAC
* * * *
13924715 AACACCAACGGTTGAAAAAATGAATATGATTGGGATAACACCGTAGGTTAAAAAACAAAGACGAT
1 AACACCAACAGTTGAAAAAATGAATATGACTGAGATAACACCGTAGGTCAAAAAACAAAGACGAT
* *
13924780 TGGGAT
66 TGAGAC
*
13924786 AACACC-ACAAGTTAAAAAAAT
1 AACACCAAC-AGTTGAAAAAAT
13924807 AAAGATGATC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
70 4 0.05
71 74 0.95
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (71 bp):
AACACCAACAGTTGAAAAAATGAATATGACTGAGATAACACCGTAGGTCAAAAAACAAAGACGAT
TGAGAC
Found at i:13924744 original size:36 final size:36
Alignment explanation
Indices: 13924693--13924954 Score: 180
Period size: 36 Copynumber: 7.4 Consensus size: 36
13924683 ACTGTAGGTC
13924693 AAAAAATAAAGATGATTGAGACAACACCAACGGTTG
1 AAAAAATAAAGATGATTGAGACAACACCAACGGTTG
* * * * *
13924729 AAAAAATGAATATGATTGGGATAACACCGTA-GGTT-
1 AAAAAATAAAGATGATTGAGACAACACC-AACGGTTG
* * * * * *
13924764 AAAAAACAAAGACGATTGGGATAACACC-ACAAGTTA
1 AAAAAATAAAGATGATTGAGACAACACCAAC-GGTTG
**
13924800 AAAAAATAAAGATGATCAAGACAACACCAACGGTTG
1 AAAAAATAAAGATGATTGAGACAACACCAACGGTTG
* * * * * * *
13924836 AGAAAACAAATATGATTAAGACAACA-CAACAGATC
1 AAAAAATAAAGATGATTGAGACAACACCAACGGTTG
* *
13924871 AAAAAATAAAGATGATT-AGGACAATACCATA-AGTT-
1 AAAAAATAAAGATGATTGA-GACAACACCA-ACGGTTG
* * * * *
13924906 AAAAAATAAAAATGACTAAGATAACACC-ACAGGTCG
1 AAAAAATAAAGATGATTGAGACAACACCAAC-GGTTG
13924942 AAAAAATAAAGAT
1 AAAAAATAAAGAT
13924955 AACCAGGATA
Statistics
Matches: 177, Mismatches: 37, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
33 2 0.01
34 1 0.01
35 77 0.44
36 93 0.53
37 4 0.02
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.17
Consensus pattern (36 bp):
AAAAAATAAAGATGATTGAGACAACACCAACGGTTG
Found at i:13924826 original size:71 final size:70
Alignment explanation
Indices: 13924751--13924954 Score: 185
Period size: 71 Copynumber: 2.9 Consensus size: 70
13924741 TGATTGGGAT
* * **
13924751 AACACCGTAGGTTAAAAAACAAAGACGATTGGGATAACACCACAAGTTAAAAAAATAAAGATGAT
1 AACACC-TAGGTTAAAAAACAAAAATGATTAAGATAACACCACAAGTTAAAAAAATAAAGATGAT
13924816 CAAGAC
65 CAAGAC
* * * * * * *
13924822 AACACCAACGGTTGAGAAAACAAATATGATTAAGACAACACAAC-AGATCAAAAAATAAAGATGA
1 AACACCTA-GGTT-AAAAAACAAAAATGATTAAGATAACACCACAAGTTAAAAAAATAAAGATGA
* *
13924886 TTAGGAC
64 TCAAGAC
* * * * * **
13924893 AATACCATAAGTTAAAAAATAAAAATGACTAAGATAACACCACAGGTCGAAAAAATAAAGAT
1 AACACC-TAGGTTAAAAAACAAAAATGATTAAGATAACACCACAAGTTAAAAAAATAAAGAT
13924955 AACCAGGATA
Statistics
Matches: 104, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
70 25 0.24
71 55 0.53
72 24 0.23
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (70 bp):
AACACCTAGGTTAAAAAACAAAAATGATTAAGATAACACCACAAGTTAAAAAAATAAAGATGATC
AAGAC
Found at i:13924862 original size:107 final size:106
Alignment explanation
Indices: 13924693--13924947 Score: 271
Period size: 107 Copynumber: 2.4 Consensus size: 106
13924683 ACTGTAGGTC
** ** ** * **
13924693 AAAAAATAAAGATGATTGAGACAACACCAACGGTTGAAAAAATGAATATGATTGGGATAACACCG
1 AAAAAATAAAGATGATCAAGACAACACCAACGGTTGAAAAAACAAATATGATTAAGACAACACAA
* * * * *
13924758 TAGGTTAAAAAACAAAGACGATTGGGATAACACCACAAGTT
66 CAGATCAAAAAACAAAGACGATTAGGACAACACCACAAGTT
*
13924799 AAAAAAATAAAGATGATCAAGACAACACCAACGGTTGAGAAAACAAATATGATTAAGACAACACA
1 -AAAAAATAAAGATGATCAAGACAACACCAACGGTTGAAAAAACAAATATGATTAAGACAACACA
* * * *
13924864 ACAGATCAAAAAATAAAGATGATTAGGACAATACCATAAGTT
65 ACAGATCAAAAAACAAAGACGATTAGGACAACACCACAAGTT
* * *
13924906 AAAAAATAAAAATGA-CTAAGATAACACC-ACAGGTCGAAAAAA
1 AAAAAATAAAGATGATC-AAGACAACACCAAC-GGTTGAAAAAA
13924948 TAAAGATAAC
Statistics
Matches: 123, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
105 3 0.02
106 33 0.27
107 87 0.71
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (106 bp):
AAAAAATAAAGATGATCAAGACAACACCAACGGTTGAAAAAACAAATATGATTAAGACAACACAA
CAGATCAAAAAACAAAGACGATTAGGACAACACCACAAGTT
Found at i:13924968 original size:71 final size:71
Alignment explanation
Indices: 13924783--13925027 Score: 199
Period size: 71 Copynumber: 3.4 Consensus size: 71
13924773 AGACGATTGG
* * * * * * ** ** * *
13924783 GATAACACCACAAGTTAAAAAAATAAAGATGATCAAGACAACACCAACGGTTGAGAAAACAAATA
1 GATAACACCAC-AGGTCAAAAAATAAAGATAACCAGGACAATACCAATAGTCAAAAAAATAAATA
*
13924848 TGATTAA
65 TGACTAA
* * * * ** * *
13924855 GACAACACAACAGATCAAAAAATAAAGATGATTAGGACAATACC-ATAAGT-TAAAAAATAAAAA
1 GATAACACCACAGGTCAAAAAATAAAGATAACCAGGACAATACCAAT-AGTCAAAAAAATAAATA
13924918 TGACTAA
65 TGACTAA
*
13924925 GATAACACCACAGGTCGAAAAAATAAAGATAACCAGGATAATACCAATAGTCAAAAAAATAAATA
1 GATAACACCACAGGTC-AAAAAATAAAGATAACCAGGACAATACCAATAGTCAAAAAAATAAATA
*
13924990 TAAC-AA
65 TGACTAA
* * *
13924996 GGATAATACCATAGGTTAAAAAATAAAGATAA
1 -GATAACACCACAGGTCAAAAAATAAAGATAA
13925028 TCGAGATAAT
Statistics
Matches: 141, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
70 29 0.21
71 74 0.52
72 38 0.27
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (71 bp):
GATAACACCACAGGTCAAAAAATAAAGATAACCAGGACAATACCAATAGTCAAAAAAATAAATAT
GACTAA
Found at i:13925036 original size:35 final size:36
Alignment explanation
Indices: 13924871--13925060 Score: 156
Period size: 36 Copynumber: 5.3 Consensus size: 36
13924861 ACAACAGATC
* ** * *
13924871 AAAAAATAAAGATGATTAGGACAATACCATAAGT-T
1 AAAAAATAAAGATAACAAGGATAATACCATAGGTCT
* * * * *
13924906 AAAAAATAAAAATGACTAA-GATAACACCACAGGTCG
1 AAAAAATAAAGATAAC-AAGGATAATACCATAGGTCT
* *
13924942 AAAAAATAAAGATAACCAGGATAATACCAATA-GTCA
1 AAAAAATAAAGATAACAAGGATAATACC-ATAGGTCT
*
13924978 AAAAAATAAATATAACAAGGATAATACCATAGGT-T
1 AAAAAATAAAGATAACAAGGATAATACCATAGGTCT
* * ** *
13925013 AAAAAATAAAGATAATCGA-GATAATATCGCAGGTCA
1 AAAAAATAAAGATAA-CAAGGATAATACCATAGGTCT
13925049 AAAAAATAAAGA
1 AAAAAATAAAGA
13925061 CGACTTGGAT
Statistics
Matches: 125, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
35 55 0.44
36 68 0.54
37 2 0.02
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.18
Consensus pattern (36 bp):
AAAAAATAAAGATAACAAGGATAATACCATAGGTCT
Found at i:13925397 original size:35 final size:34
Alignment explanation
Indices: 13925357--13925508 Score: 117
Period size: 36 Copynumber: 4.3 Consensus size: 34
13925347 TAGTTGGTCT
* *
13925357 AAAAGATAAAGATGATTGAACAACACTAACGTTC
1 AAAAGATAAAGATGATAGAACAACACCAACGTTC
* * * *
13925391 AGAAAGATAAAGATGACCAGCATAACACCAACAGTTG
1 A-AAAGATAAAGATGA-TAGAACAACACCAAC-GTTC
* **
13925428 AAAAGAT-AAGATGATCGAAACAACACCAACCATC
1 AAAAGATAAAGATGATAG-AACAACACCAACGTTC
* * * *
13925462 AAAAAGATAAAGATGATCGGGATAACACCAACAGTTG
1 -AAAAGATAAAGATGAT-AGAACAACACCAAC-GTTC
13925499 AAAAGATAAA
1 AAAAGATAAA
13925509 TATAACTGGG
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
34 3 0.03
35 38 0.42
36 44 0.48
37 6 0.07
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.15
Consensus pattern (34 bp):
AAAAGATAAAGATGATAGAACAACACCAACGTTC
Found at i:13925468 original size:71 final size:71
Alignment explanation
Indices: 13925357--13925598 Score: 233
Period size: 71 Copynumber: 3.4 Consensus size: 71
13925347 TAGTTGGTCT
* * ** * *
13925357 AAAAGATAAAGATGATTG-AACAACACTAACGTTCAGAAAGATAAAGATGACCAGCATAACACCA
1 AAAAGAT-AAGATGATCGAAACAACACCAACCATCAAAAAGATAAAGATGACCAGGATAACACCA
13925421 ACAGTTG
65 ACAGTTG
* *
13925428 AAAAGATAAGATGATCGAAACAACACCAACCATCAAAAAGATAAAGATGATCGGGATAACACCAA
1 AAAAGATAAGATGATCGAAACAACACCAACCATCAAAAAGATAAAGATGACCAGGATAACACCAA
13925493 CAGTTG
66 CAGTTG
** * * *
13925499 AAAAGATAA-AT-ATAACTGGGACAACACTAA-CAGTCGAAAAG-TAAAGATGACCAGGATAATA
1 AAAAGATAAGATGAT--C-GAAACAACACCAACCA-TCAAAAAGATAAAGATGACCAGGATAACA
* **
13925560 CCAATAGTCA
62 CCAACAGTTG
* * *
13925570 AAAAAATAAGATGATTGAGACAACACCAA
1 AAAAGATAAGATGATCGAAACAACACCAA
13925599 TAGGTGGGAA
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
69 2 0.01
70 22 0.15
71 97 0.68
72 19 0.13
73 2 0.01
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.16
Consensus pattern (71 bp):
AAAAGATAAGATGATCGAAACAACACCAACCATCAAAAAGATAAAGATGACCAGGATAACACCAA
CAGTTG
Found at i:13925634 original size:106 final size:107
Alignment explanation
Indices: 13925460--13925654 Score: 232
Period size: 106 Copynumber: 1.8 Consensus size: 107
13925450 ACACCAACCA
* * * * *
13925460 TCAAAAAGATAAAGATGATCGGGATAACACCAACAGTTGAAAAGATAAATATAACTGGGACAACA
1 TCAAAAAAATAAAGATGATCGAGACAACACCAACAGGTGAAAAGATAAAGATAACTGGGACAACA
13925525 CTAACAGTCGAAAAG-TAAAGATGACCAGGATAATACCAATAG
66 CTAACAGTC-AAAAGATAAAGATGACCAGGATAATACCAATAG
* * ** * * * *
13925567 TCAAAAAAAT-AAGATGATTGAGACAACACCAATAGGTGGGAAGATAAAGATGATTGGGATAATA
1 TCAAAAAAATAAAGATGATCGAGACAACACCAACAGGTGAAAAGATAAAGATAACTGGGACAACA
* *
13925631 CTAATAGTCATAAGATAAAGATGA
66 CTAACAGTCAAAAGATAAAGATGA
13925655 TCGAGAGAAC
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
105 4 0.06
106 59 0.82
107 9 0.12
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.19
Consensus pattern (107 bp):
TCAAAAAAATAAAGATGATCGAGACAACACCAACAGGTGAAAAGATAAAGATAACTGGGACAACA
CTAACAGTCAAAAGATAAAGATGACCAGGATAATACCAATAG
Found at i:13925653 original size:35 final size:35
Alignment explanation
Indices: 13925357--13925655 Score: 142
Period size: 35 Copynumber: 8.5 Consensus size: 35
13925347 TAGTTGGTCT
* * * *
13925357 AAAAGATAAAGATGATT-GAACAACACTAA-CGTTC
1 AAAAGATAAAGATGATTGGGATAACACCAATAG-TC
*** * * *
13925391 AGAAAGATAAAGATGACCAGCATAACACCAACAGTTG
1 A-AAAGATAAAGATGATTGGGATAACACCAATAG-TC
* ** * *
13925428 AAAAGAT-AAGATGATCGAAACAACACCAACCA-TC
1 AAAAGATAAAGATGATTGGGATAACACCAA-TAGTC
* * *
13925462 AAAAAGATAAAGATGATCGGGATAACACCAACAGTTG
1 -AAAAGATAAAGATGATTGGGATAACACCAATAG-TC
* * * * * *
13925499 AAAAGATAAATATAACTGGGACAACACTAACAGTC
1 AAAAGATAAAGATGATTGGGATAACACCAATAGTC
*** *
13925534 GAAAAG-TAAAGATGACCAGGATAATACCAATAGTC
1 -AAAAGATAAAGATGATTGGGATAACACCAATAGTC
* * * *
13925569 AAAA-AAATAAGATGATTGAGACAACACCAATAGGTG
1 AAAAGATA-AAGATGATTGGGATAACACCAATA-GTC
** * *
13925605 GGAAGATAAAGATGATTGGGATAATACTAATAGTC
1 AAAAGATAAAGATGATTGGGATAACACCAATAGTC
*
13925640 ATAAGATAAAGATGAT
1 AAAAGATAAAGATGAT
13925656 CGAGAGAACA
Statistics
Matches: 202, Mismatches: 50, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
34 7 0.03
35 96 0.48
36 92 0.46
37 7 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (35 bp):
AAAAGATAAAGATGATTGGGATAACACCAATAGTC
Found at i:13925750 original size:36 final size:36
Alignment explanation
Indices: 13925647--13925762 Score: 112
Period size: 36 Copynumber: 3.2 Consensus size: 36
13925637 GTCATAAGAT
* * *
13925647 AAAGATGATCGA-GAGAACATCAATGGTTGAAATG-A
1 AAAGATGA-CGAGGACAACATCAATGGTTAAAAAGTA
* *** *
13925682 AAAGATGACTAGGACAACA-CTAATGAACAAAAAGTT
1 AAAGATGACGAGGACAACATC-AATGGTTAAAAAGTA
*
13925718 AAAGATGACGAGGATAACATCAATGGTTAAAAAGTA
1 AAAGATGACGAGGACAACATCAATGGTTAAAAAGTA
13925754 AAAGATGAC
1 AAAGATGAC
13925763 CCAAACCTCT
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
34 3 0.05
35 22 0.35
36 37 0.59
37 1 0.02
ACGTcount: A:0.50, C:0.10, G:0.22, T:0.18
Consensus pattern (36 bp):
AAAGATGACGAGGACAACATCAATGGTTAAAAAGTA
Found at i:13926167 original size:14 final size:14
Alignment explanation
Indices: 13926148--13926176 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13926138 AACACTTCTT
13926148 ATGATGCAAATGTA
1 ATGATGCAAATGTA
13926162 ATGATGCAAATGTA
1 ATGATGCAAATGTA
13926176 A
1 A
13926177 ATACCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
ATGATGCAAATGTA
Found at i:13926601 original size:80 final size:81
Alignment explanation
Indices: 13926463--13926689 Score: 217
Period size: 80 Copynumber: 2.8 Consensus size: 81
13926453 TGTGAACACC
* * *
13926463 AATGATACAAATGCGAAGACTTTTTTTTTATTTTTATAACATGCAAATCAAATGTTTTT-TTGAT
1 AATGATACAAATGCGAAGAC-TTCTTTTTATTTTTACAACATGCAAATCAAATATTTTTCTT-AT
* *
13926527 TATGCATATGTAAGCACA
64 GATACATATGTAAGCACA
* * * * **
13926545 AATGATACGAATGCGAATAC-TCTTTTTGTTTTTGCAACATGTGAATCAAATATTTTTCTTATGA
1 AATGATACAAATGCGAAGACTTCTTTTTATTTTTACAACATGCAAATCAAATATTTTTCTTATGA
***
13926609 TACATATGTAAGTGTA
66 TACATATGTAAGCACA
* * * * ** * *
13926625 AGTGATGCAAATGCAAAGGC-TCTTTTTATTTTTGGAACATGCAAATCAAATGTCTTTCTTATGA
1 AATGATACAAATGCGAAGACTTCTTTTTATTTTTACAACATGCAAATCAAATATTTTTCTTATGA
13926689 T
66 T
13926690 GAAAATGTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
80 98 0.83
81 2 0.02
82 18 0.15
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (81 bp):
AATGATACAAATGCGAAGACTTCTTTTTATTTTTACAACATGCAAATCAAATATTTTTCTTATGA
TACATATGTAAGCACA
Found at i:13928051 original size:143 final size:140
Alignment explanation
Indices: 13927667--13928064 Score: 398
Period size: 138 Copynumber: 2.8 Consensus size: 140
13927657 TTTAGCATTC
*
13927667 TTCT-TTCTTGAATTCTATCTCTCTTTTTTACTTAGGATTCTAACTGAAACTTTATTCACTTTTC
1 TTCTATTCTTGAATTCTATCTCTTTTTTTTACTTAGGATTCTAA-TGAAAC-TTATTCACTTTTC
* * *
13927731 ACCTTGGACTATCATCTCTGAAGTATATGTCTTTTTTTCTTTGTTTTTTTTTTTTTTTGGAAAAT
64 ACCTTGGACTATCATCTCTGAGGTGTATGTCTTTTTTTCTTTATTTTTTTTTTTTTTTGGAAAAT
* *
13927796 TTAACTTTAACT
129 TTAACTTAAACA
* * * * * *
13927808 TTCTTTTTTCTTGAAATCTATCTCTTTTTTGTACTTGGGACT-TAA-G--CCTTATTCACTTTTC
1 TTC--TATTCTTGAATTCTATCTCTTTTTTTTACTTAGGATTCTAATGAAACTTATTCACTTTTC
* * * ** * * ****
13927869 ACCTCGAACTCTCATCTCCAAGGTGCATGTCTTTCTTTCTTTATTTTTTTTTCTTTTTT-TTTTA
64 ACCTTGGACTATCATCTCTGAGGTGTATGTCTTTTTTTCTTTATTTTTTTTT-TTTTTTGGAAAA
13927933 TTTATA-TTGAAAACA
128 TTTA-ACTT--AAACA
13927948 TTC-ATTCTTGAATTCTATCTCTTTTTTTTACTTAGGATTCTAATTGAAACTTCATTCACTTTTC
1 TTCTATTCTTGAATTCTATCTCTTTTTTTTACTTAGGATTCTAA-TGAAACTT-ATTCACTTTTC
* * * * *
13928012 ATCTTGGACTTTTATCTCTGAGGTGTATGCCTTTTTTTCTTTACTTTTTTTTT
64 ACCTTGGACTATCATCTCTGAGGTGTATGTCTTTTTTTCTTTATTTTTTTTTT
13928065 ATGGAAATAT
Statistics
Matches: 205, Mismatches: 39, Indels: 25
0.76 0.14 0.09
Matches are distributed among these distances:
137 31 0.15
138 65 0.32
139 8 0.04
140 7 0.03
141 4 0.02
142 4 0.02
143 56 0.27
144 30 0.15
ACGTcount: A:0.19, C:0.18, G:0.09, T:0.55
Consensus pattern (140 bp):
TTCTATTCTTGAATTCTATCTCTTTTTTTTACTTAGGATTCTAATGAAACTTATTCACTTTTCAC
CTTGGACTATCATCTCTGAGGTGTATGTCTTTTTTTCTTTATTTTTTTTTTTTTTTGGAAAATTT
AACTTAAACA
Found at i:13930744 original size:2 final size:2
Alignment explanation
Indices: 13930737--13930762 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13930727 TAATCAATTA
13930737 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
13930763 TGTGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13937763 original size:53 final size:55
Alignment explanation
Indices: 13937607--13937834 Score: 200
Period size: 53 Copynumber: 4.2 Consensus size: 55
13937597 TTTTAGTTCA
* * * *
13937607 TCCTTAAATTTTTGAAAATTTTTTTATTTAAGAAAAAATTAATACTTTAACTTTT
1 TCCTCAAAATTTTGAAAATTTTTATCTTTAAGAAAAAATTAATACTTTAACTTTT
* * * * * * * *
13937662 CCCT-AACA-CTT-AAATTTTTTTTGTTTAAG-AAAATTTGATA-TTTCAACTTTT
1 TCCTCAAAATTTTGAAAATTTTTATCTTTAAGAAAAAATTAATACTTT-AACTTTT
*
13937713 TCCTCAAAATTTTGAAAATTTTTAT-TTAAAG-AAAAATTAATACTTTAACTTTT
1 TCCTCAAAATTTTGAAAATTTTTATCTTTAAGAAAAAATTAATACTTTAACTTTT
** * * * * * *
13937766 TCCTCACATTTTTTGGAAAGTTTCATCTTTGAGAAAAAATAAATATTTTAACTTTT
1 TCCTCA-AAATTTTGAAAATTTTTATCTTTAAGAAAAAATTAATACTTTAACTTTT
13937822 TCCTCAAAATTTT
1 TCCTCAAAATTTT
13937835 ATTTAAATTT
Statistics
Matches: 138, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
50 3 0.02
51 19 0.14
52 19 0.14
53 31 0.22
54 28 0.20
55 12 0.09
56 26 0.19
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (55 bp):
TCCTCAAAATTTTGAAAATTTTTATCTTTAAGAAAAAATTAATACTTTAACTTTT
Found at i:13938113 original size:3 final size:3
Alignment explanation
Indices: 13938105--13938136 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13938095 ACAAACATGC
13938105 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13938137 ATGGGTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13938613 original size:18 final size:19
Alignment explanation
Indices: 13938590--13938625 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13938580 AACTTACTGC
*
13938590 AAAG-TTGTTGAAAAATTT
1 AAAGTTTGTCGAAAAATTT
13938608 AAAGTTTGTCGAAAAATT
1 AAAGTTTGTCGAAAAATT
13938626 CAACCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (19 bp):
AAAGTTTGTCGAAAAATTT
Found at i:13939229 original size:11 final size:10
Alignment explanation
Indices: 13939192--13939249 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
13939182 AGATATGTAC
*
13939192 ATAAATAAAT
1 ATAAATAAAA
*
13939202 ACAAATAAAA
1 ATAAATAAAA
*
13939212 GTAAAATATAAA
1 AT-AAATA-AAA
13939224 ATAAATAAACA
1 ATAAATAAA-A
*
13939235 GTAAATAAAA
1 ATAAATAAAA
13939245 ATAAA
1 ATAAA
13939250 ATTTGGCCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 15 0.39
11 19 0.50
12 4 0.11
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (10 bp):
ATAAATAAAA
Found at i:13939230 original size:22 final size:21
Alignment explanation
Indices: 13939193--13939249 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
13939183 GATATGTACA
* *
13939193 TAAATAAATACAAATAAA-AG
1 TAAATAAAAATAAATAAACAG
13939213 TAAAATATAAAATAAATAAACAG
1 T-AAATA-AAAATAAATAAACAG
13939236 TAAATAAAAATAAA
1 TAAATAAAAATAAA
13939250 ATTTGGCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 15 0.47
23 3 0.09
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (21 bp):
TAAATAAAAATAAATAAACAG
Found at i:13940036 original size:52 final size:53
Alignment explanation
Indices: 13939966--13940160 Score: 186
Period size: 52 Copynumber: 3.7 Consensus size: 53
13939956 CTTGAAACTA
* * *
13939966 TTTAAATATGAAATTTGATATTCCAATTTTTTCTTAAATCCTTTGAAATTATTT
1 TTTAAA-AGGAAAATTGATATTTCAATTTTTTCTTAAATCCTTTGAAATTATTT
* * * * *
13940020 TTTAAAA-GAAAATTGATTTTTCAA-ATTTTCTTAAATTC-GTAAAATTATTT
1 TTTAAAAGGAAAATTGATATTTCAATTTTTTCTTAAATCCTTTGAAATTATTT
* * *
13940070 TTAAATAAGGAAAATTGATTTTTC-ATTTTTTCCTTAAATACTTTTGAAA-T-TTT
1 TTTAA-AAGGAAAATTGATATTTCAATTTTTT-CTTAAAT-CCTTTGAAATTATTT
* *
13940123 TTTAAAAGGAAATATTGATATTTCAACTTTTCCTTAAA
1 TTTAAAAGGAAA-ATTGATATTTCAATTTTTTCTTAAA
13940161 GTTTTGAAAA
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
50 14 0.12
51 15 0.13
52 40 0.34
53 31 0.27
54 12 0.10
55 4 0.03
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (53 bp):
TTTAAAAGGAAAATTGATATTTCAATTTTTTCTTAAATCCTTTGAAATTATTT
Found at i:13940204 original size:53 final size:53
Alignment explanation
Indices: 13940097--13940206 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 53
13940087 ATTTTTCATT
* * *
13940097 TTTTCCTTAAATACTTTTGAAATTTTTTTAAAAGGAAATATTGATATTTCAAC
1 TTTTCCTTAAATACTTTTGAAATTTTTTTAAAAGAAAAAATTAATATTTCAAC
* *
13940150 TTTTCCTT-AA-AGTTTTGAAAATTTTTTATATAAGAAAAAATTAATACTTT-AAC
1 TTTTCCTTAAATACTTTTG-AAATTTTTT-TAAAAGAAAAAATTAATA-TTTCAAC
13940203 TTTT
1 TTTT
13940207 TCATCACATT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
51 6 0.12
52 11 0.22
53 29 0.59
54 3 0.06
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (53 bp):
TTTTCCTTAAATACTTTTGAAATTTTTTTAAAAGAAAAAATTAATATTTCAAC
Found at i:13940335 original size:115 final size:114
Alignment explanation
Indices: 13940128--13940335 Score: 290
Period size: 115 Copynumber: 1.8 Consensus size: 114
13940118 ATTTTTTTAA
* * *
13940128 AAGGAAATATTGATATTTCAACTTTTCCTTAAAGTTTTGAAAATTTTTTATATAAGAAAAAATTA
1 AAGGAAAAATTGATATTTCAACTTTTCCTTAAAATTTTGAAAACTTTTTATATAAGAAAAAATTA
* * * *
13940193 ATACTTTAACTTTTTCATCACATTTTTTTAAAAAAATATTTTTTTGTTT
66 ACACTTTAACATTTTCATCAAAATTTTTTAAAAAAATATTTTTTTGTTT
* * * *
13940242 AAGGAAAAATTGATATTTCAATTTTTTCTTCAAAATTTTGAAAACTTTTTATTTAAGGAAAAATT
1 AAGGAAAAATTGATATTTCAACTTTTCCTT-AAAATTTTGAAAACTTTTTATATAAGAAAAAATT
* *
13940307 AACATTTTAACATTTTCCTCAAAATTTTT
65 AACACTTTAACATTTTCATCAAAATTTTT
13940336 ATTTAATTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
114 27 0.34
115 53 0.66
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (114 bp):
AAGGAAAAATTGATATTTCAACTTTTCCTTAAAATTTTGAAAACTTTTTATATAAGAAAAAATTA
ACACTTTAACATTTTCATCAAAATTTTTTAAAAAAATATTTTTTTGTTT
Found at i:13941622 original size:26 final size:26
Alignment explanation
Indices: 13941593--13941665 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
13941583 TAAGAGTTTA
13941593 ACATAGAAAATAGAATAAAAATAAGT
1 ACATAGAAAATAGAATAAAAATAAGT
* * * * *
13941619 ACATAGGATA-AGTAAGAAAGATATGT
1 ACATAGAAAATAG-AATAAAAATAAGT
*
13941645 ACATAGATAAATACAATAAAA
1 ACATAGA-AAATAGAATAAAA
13941666 GTAAAATAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
25 2 0.06
26 24 0.71
27 7 0.21
28 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21
Consensus pattern (26 bp):
ACATAGAAAATAGAATAAAAATAAGT
Found at i:13941994 original size:20 final size:20
Alignment explanation
Indices: 13941969--13942006 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13941959 GTCCCTTTTT
* *
13941969 TTTTTCTTTTGATTTTAACA
1 TTTTTCGTTTAATTTTAACA
13941989 TTTTTCGTTTAATTTTAA
1 TTTTTCGTTTAATTTTAA
13942007 ACTATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTCGTTTAATTTTAACA
Found at i:13942023 original size:126 final size:126
Alignment explanation
Indices: 13941850--13942099 Score: 401
Period size: 126 Copynumber: 2.0 Consensus size: 126
13941840 TAATCAATCA
13941850 TTTGATTTCAACATTTTTCGTCTAATTTTAAACTATTAAATGCTGATTCAAAATGTTTTATTTGA
1 TTTGATTTCAACATTTTTCGTCTAATTTTAAACTATTAAATGCTGATTCAAAATGTTTTATTTGA
* *
13941915 AGATGAGCAAAAATTATATCCAAAAGTTTTATTGAATCATCATAGTCCCTTTTTTTTTTCT
66 AGATGAGCAAAAATTATATCCAAAAATTTTATTGAATCATCATAGTCCCTTTTTCTTTTCT
* * * ** *
13941976 TTTGATTTTAACATTTTTCGTTTAATTTTAAACTATTAAATGTTGATTCAGTATGTTTTATTTTA
1 TTTGATTTCAACATTTTTCGTCTAATTTTAAACTATTAAATGCTGATTCAAAATGTTTTATTTGA
* **
13942041 AGATGAGCAAAAATTATGTCCAAAAATTTTATTGGCTCATCATAGTCCCTTTTTCTTTT
66 AGATGAGCAAAAATTATATCCAAAAATTTTATTGAATCATCATAGTCCCTTTTTCTTTT
13942100 GTTAATTACC
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (126 bp):
TTTGATTTCAACATTTTTCGTCTAATTTTAAACTATTAAATGCTGATTCAAAATGTTTTATTTGA
AGATGAGCAAAAATTATATCCAAAAATTTTATTGAATCATCATAGTCCCTTTTTCTTTTCT
Found at i:13942507 original size:21 final size:22
Alignment explanation
Indices: 13942478--13942518 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13942468 ATTTAAATAT
*
13942478 ATTACAACCATTAACAAATTTA
1 ATTACAACCACTAACAAATTTA
*
13942500 ATTA-AACCACTCACAAATT
1 ATTACAACCACTAACAAATT
13942519 CAAACTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (22 bp):
ATTACAACCACTAACAAATTTA
Found at i:13947712 original size:27 final size:26
Alignment explanation
Indices: 13947682--13947737 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
13947672 ATTATTTAAA
13947682 TATAAAATAATAAAAATAAAAATATAT
1 TATAAAAT-ATAAAAATAAAAATATAT
* * *
13947709 TATAAAATATTAAAATTAATATATAT
1 TATAAAATATAAAAATAAAAATATAT
13947735 TAT
1 TAT
13947738 GATTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TATAAAATATAAAAATAAAAATATAT
Found at i:13947923 original size:8 final size:8
Alignment explanation
Indices: 13947910--13947952 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
13947900 TGTTATGTTA
13947910 TTTATATT
1 TTTATATT
*
13947918 TTTATATA
1 TTTATATT
13947926 TTTATAATAT
1 TTTAT-AT-T
13947936 TTTAT-TT
1 TTTATATT
13947943 TTTATATT
1 TTTATATT
13947951 TT
1 TT
13947953 ATTTTATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 6 0.20
8 17 0.57
9 2 0.07
10 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTATATT
Found at i:13948784 original size:19 final size:19
Alignment explanation
Indices: 13948734--13948785 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
13948724 ATAAAATAAA
*
13948734 CTTTTTTTGTCT-T-TTTT
1 CTTTTTTTCTCTCTATTTT
*
13948751 C-TTTTTTCTTTTCTATTTT
1 CTTTTTTTC-TCTCTATTTT
13948770 CTTTTTTTCTCTCTAT
1 CTTTTTTTCTCTCTAT
13948786 CTAAAATCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 6 0.21
17 3 0.11
18 1 0.04
19 11 0.39
20 7 0.25
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (19 bp):
CTTTTTTTCTCTCTATTTT
Found at i:13949483 original size:110 final size:108
Alignment explanation
Indices: 13949190--13949490 Score: 275
Period size: 112 Copynumber: 2.7 Consensus size: 108
13949180 GTTTTAATCT
* * * *
13949190 TAGAAATATCA-TTTTATTGAGTTTTAAAAAATATATTTTTGATGTTTTCAACAAAAACTATGTT
1 TAGAAATATCATTTTTATTGAATTTT-GAAAATATTTTTTTTATGTTTTCAAC-AAAACTATG-T
* * * * * * *
13949254 TTTATTTTAGAAACATTGTTTTTTCAACCAAGACTACCTTGTTATCT
63 TTTATCTTAGAAACACTGTTTCTTCAACAAAAACTA-CTTGTTACCC
* * * * * *
13949301 TAAAAACATTATTTTTATTGAATTTTGTAAAATATATTTTTTATGTTTTTAACAATGACTACAT-
1 TAGAAATATCATTTTTATTGAATTTTG-AAAATATTTTTTTTATGTTTTCAACAA-AACT--ATG
* * *
13949365 TTTTATCTTAGAGATACTGTTTCTTCAACAAAAACTA-TTTTTACCC
62 TTTTATCTTAGAAACACTGTTTCTTCAACAAAAACTACTTGTTACCC
* *
13949411 TAGAAATATCATTTTTATTGAACTCTGAAAACTATTTTTTTTCATGTTTTCAACAAAACCTATGT
1 TAGAAATATCATTTTTATTGAATTTTGAAAA-TATTTTTTTT-ATGTTTTCAACAAAA-CTATGT
*
13949476 TTAATCTTAGAAACA
63 TTTATCTTAGAAACA
13949491 TCATATTTTT
Statistics
Matches: 152, Mismatches: 29, Indels: 19
0.76 0.14 0.09
Matches are distributed among these distances:
109 6 0.04
110 51 0.34
111 24 0.16
112 69 0.45
114 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (108 bp):
TAGAAATATCATTTTTATTGAATTTTGAAAATATTTTTTTTATGTTTTCAACAAAACTATGTTTT
ATCTTAGAAACACTGTTTCTTCAACAAAAACTACTTGTTACCC
Found at i:13952686 original size:23 final size:22
Alignment explanation
Indices: 13952660--13952705 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
13952650 TAAAATTAAA
13952660 TATTATAATT-TGATTTTGTTATT
1 TATTA-AATTATGATTTTG-TATT
*
13952683 TATTAATTTATGATTTTGTATT
1 TATTAAATTATGATTTTGTATT
13952705 T
1 T
13952706 GAAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (22 bp):
TATTAAATTATGATTTTGTATT
Found at i:13957716 original size:129 final size:124
Alignment explanation
Indices: 13957466--13957709 Score: 269
Period size: 129 Copynumber: 1.9 Consensus size: 124
13957456 GTAAGATTAT
* *
13957466 TAATTTAATATGTAGTTAATTTTACATTATATTACAATTTAATATATGCAATTTAATATTATAGT
1 TAATTTAATATGTAGTTAATTTTACATTATATTAAAATTTAATATATG-AATTAAATATTATAGT
*** * *
13957531 AATTTTTAAATAAAATGTTATATGTCAAATTTTTATGAAACGATAATAAGAGTATTTTAA
65 AATTTTTAAATAAAATAACAAATGTCAAATTTTTATGAAACAATAATAAGAGTATTTTAA
*
13957591 TAATTTAATATGT-GATTAATTTTATATTATTATGTTAAAATTTAATATATG-ATTAAAAAAGTA
1 TAATTTAATATGTAG-TTAATTTTACATTA-TA--TTAAAATTTAATATATGAATT---AAA-TA
* ** * *
13957654 TTATTGTAA-TTTTAAATAAAATAACAAATGTCATCTTTTTATGAAGCAATCATAAG
58 TTATAGTAATTTTTAAATAAAATAACAAATGTCAAATTTTTATGAAACAATAATAAG
13957710 GATATTTGCA
Statistics
Matches: 98, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
124 1 0.01
125 26 0.27
126 5 0.05
128 16 0.16
129 40 0.41
130 10 0.10
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (124 bp):
TAATTTAATATGTAGTTAATTTTACATTATATTAAAATTTAATATATGAATTAAATATTATAGTA
ATTTTTAAATAAAATAACAAATGTCAAATTTTTATGAAACAATAATAAGAGTATTTTAA
Found at i:13957845 original size:62 final size:60
Alignment explanation
Indices: 13957769--13957944 Score: 187
Period size: 62 Copynumber: 2.9 Consensus size: 60
13957759 TTGATAAGAG
**
13957769 GATATTTTCATAATTATGATATAGAGAGTATTATAATAATTTTAGTCAATCATAATAATAAA
1 GATATTTTTGTAATTATGA-ATAGAGAGTATTATAATAATTTTA-TCAATCATAATAATAAA
* * * * *
13957831 GATATTTTTGTAATTAT-AATAGGAGAGACATTATAATAATTTTTATCAATTATGATATTAGA
1 GATATTTTTGTAATTATGAATA-GAGAG-TATTATAATAA-TTTTATCAATCATAATAATAAA
* * *
13957893 GATATTTTTGTAATTATGACATA-AGAGTATCATAGTAA-TTTATCAATTATAA
1 GATATTTTTGTAATTATGA-ATAGAGAGTATTATAATAATTTTATCAATCATAA
13957945 AATGAGTATT
Statistics
Matches: 98, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
59 13 0.13
60 3 0.03
61 14 0.14
62 59 0.60
63 6 0.06
64 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (60 bp):
GATATTTTTGTAATTATGAATAGAGAGTATTATAATAATTTTATCAATCATAATAATAAA
Found at i:13957919 original size:26 final size:27
Alignment explanation
Indices: 13957869--13957919 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
13957859 CATTATAATA
* *
13957869 ATTTTTATCAATTATGATATTAGAGAT
1 ATTTTTATCAATTATGACATAAGAGAT
*
13957896 ATTTTTGT-AATTATGACATAAGAG
1 ATTTTTATCAATTATGACATAAGAG
13957920 TATCATAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (27 bp):
ATTTTTATCAATTATGACATAAGAGAT
Found at i:13958202 original size:34 final size:34
Alignment explanation
Indices: 13958120--13958203 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
13958110 TAACTTTCAT
* * *
13958120 AAATGTATTTTTGAAAAATCATAACAATTCTCGA
1 AAATATATTTTTGAGAAATCATAACAATTATCGA
* *
13958154 AAATATATTTTTGAGAAGTCATAACACTTAT-GA
1 AAATATATTTTTGAGAAATCATAACAATTATCGA
13958187 GAAATATATTTTTGAGA
1 -AAATATATTTTTGAGA
13958204 GTGTTGGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (34 bp):
AAATATATTTTTGAGAAATCATAACAATTATCGA
Found at i:13958268 original size:27 final size:27
Alignment explanation
Indices: 13958215--13958292 Score: 124
Period size: 27 Copynumber: 2.9 Consensus size: 27
13958205 TGTTGGAATT
13958215 GAAATTTTATGAAAA--TTAAAAAAAA
1 GAAATTTTATGAAAATTTTAAAAAAAA
13958240 GAAATTTTATGAAAATTTTAAAAAAAA
1 GAAATTTTATGAAAATTTTAAAAAAAA
*
13958267 GAAATTTTATGAAAATTATTTAAAAA
1 GAAATTTTATGAAAATT-TTAAAAAA
13958293 TAAGTATAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
25 15 0.31
27 27 0.55
28 7 0.14
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (27 bp):
GAAATTTTATGAAAATTTTAAAAAAAA
Found at i:13961700 original size:25 final size:22
Alignment explanation
Indices: 13961672--13961729 Score: 53
Period size: 25 Copynumber: 2.4 Consensus size: 22
13961662 AATGTATCTC
13961672 ATATTATTAAGTAAAAAGATCATTT
1 ATATTATTAA--AAAAA-ATCATTT
*
13961697 ATATGTGATTTAAAAAAAATTATTT
1 ATAT-T-A-TTAAAAAAAATCATTT
13961722 ATATTATT
1 ATATTATT
13961730 TAAATAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 1 0.03
25 14 0.48
26 6 0.21
27 1 0.03
28 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATTATTAAAAAAAATCATTT
Found at i:13961730 original size:23 final size:25
Alignment explanation
Indices: 13961684--13961733 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
13961674 ATTATTAAGT
*
13961684 AAAAAGATCATTTATATGTGATTTA
1 AAAAAAATCATTTATATGTGATTTA
*
13961709 AAAAAAATTATTTATAT-T-ATTTA
1 AAAAAAATCATTTATATGTGATTTA
13961732 AA
1 AA
13961734 TAATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 1 0.04
25 15 0.65
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (25 bp):
AAAAAAATCATTTATATGTGATTTA
Found at i:13961928 original size:29 final size:28
Alignment explanation
Indices: 13961879--13961938 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
13961869 TTATTGATTT
* *
13961879 TGAATAAATGTATTTTGAACAAGAAAACA
1 TGAATAAATGTATTTTAAACAA-AAAAAA
*
13961908 TGAATAAAATTTA-TTTAAACAAAAAAAA
1 TGAAT-AAATGTATTTTAAACAAAAAAAA
13961936 TGA
1 TGA
13961939 TTATACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.30
29 13 0.48
30 6 0.22
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (28 bp):
TGAATAAATGTATTTTAAACAAAAAAAA
Found at i:13965446 original size:16 final size:16
Alignment explanation
Indices: 13965427--13965474 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
13965417 GGGGTTTTTT
13965427 GGTTTCGATTTTTTGA
1 GGTTTCGATTTTTTGA
*
13965443 GGTTTAGGATTTTTT-A
1 GGTTT-CGATTTTTTGA
*
13965459 GAGTTTCTATTTTTTG
1 G-GTTTCGATTTTTTG
13965475 GTTTCTAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.15, C:0.04, G:0.23, T:0.58
Consensus pattern (16 bp):
GGTTTCGATTTTTTGA
Found at i:13965557 original size:26 final size:27
Alignment explanation
Indices: 13965528--13965583 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
13965518 AATTTCTGTA
*
13965528 TTTAAGTTAT-GAGTTTTTT-TGGAAAT
1 TTTAAGTT-TGGAGTTTTTTCTAGAAAT
* *
13965554 TTTAGGTTTGGATTTTTTTCTAGAAAT
1 TTTAAGTTTGGAGTTTTTTCTAGAAAT
13965581 TTT
1 TTT
13965584 TGCGGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.04
26 15 0.60
27 9 0.36
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.57
Consensus pattern (27 bp):
TTTAAGTTTGGAGTTTTTTCTAGAAAT
Found at i:13966041 original size:12 final size:11
Alignment explanation
Indices: 13966019--13966109 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
13966009 GCAAGGTTTG
13966019 TTTTTTTT-TT
1 TTTTTTTTATT
*
13966029 TTTTTTTCATT
1 TTTTTTTTATT
13966040 TTTTTTTTATT
1 TTTTTTTTATT
*
13966051 TTCTAATCTTTTGTT
1 TT-T--T-TTTTATT
13966066 TTTGTTTTTATT
1 TTT-TTTTTATT
*
13966078 TTTCTGTCTTCTGTT
1 TTT-T-T-TT-TATT
13966093 TTATTTTTTATT
1 TT-TTTTTTATT
13966105 TTTTT
1 TTTTT
13966110 GCTTCTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
10 7 0.11
11 17 0.27
12 16 0.25
13 4 0.06
14 5 0.08
15 14 0.22
16 1 0.02
ACGTcount: A:0.08, C:0.07, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:13966087 original size:27 final size:27
Alignment explanation
Indices: 13966038--13966107 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
13966028 TTTTTTTTCA
*
13966038 TTTTTTTTTTA-TTTTCTAATCTTTTG
1 TTTTTTTTTTATTTTTCTAATCTTCTG
*
13966064 TTTTTGTTTTTATTTTTCT-GTCTTCTG
1 TTTTT-TTTTTATTTTTCTAATCTTCTG
13966091 TTTTATTTTTTATTTTT
1 TTTT-TTTTTTATTTTT
13966108 TTGCTTCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.13
27 27 0.69
28 7 0.18
ACGTcount: A:0.09, C:0.07, G:0.06, T:0.79
Consensus pattern (27 bp):
TTTTTTTTTTATTTTTCTAATCTTCTG
Found at i:13966114 original size:26 final size:27
Alignment explanation
Indices: 13966038--13966115 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
13966028 TTTTTTTTCA
* *
13966038 TTTTT-TTTTTA-TTTTCTAATCTTTTG
1 TTTTTGTTTTTATTTTTCT-GTCTTCTG
13966064 TTTTTGTTTTTATTTTTCTGTCTTCTG
1 TTTTTGTTTTTATTTTTCTGTCTTCTG
*
13966091 TTTTAT-TTTTTATTTTTTTG-CTTCT
1 TTTT-TGTTTTTATTTTTCTGTCTTCT
13966116 TATATATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.22
27 29 0.63
28 7 0.15
ACGTcount: A:0.08, C:0.09, G:0.06, T:0.77
Consensus pattern (27 bp):
TTTTTGTTTTTATTTTTCTGTCTTCTG
Found at i:13966222 original size:19 final size:20
Alignment explanation
Indices: 13966194--13966232 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13966184 AACTGTAATA
13966194 TATATATATTTGCATGATAT
1 TATATATATTTGCATGATAT
13966214 TATAT-TATTTGCATGATAT
1 TATATATATTTGCATGATAT
13966233 GATTTTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TATATATATTTGCATGATAT
Found at i:13966234 original size:24 final size:24
Alignment explanation
Indices: 13966207--13966290 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
13966197 ATATATTTGC
13966207 ATGATATTATATTATTTGCATGAT
1 ATGATATTATATTATTTGCATGAT
* * *
13966231 ATGATTTTATGTT-TATTGCATAAT
1 ATGATATTATATTAT-TTGCATGAT
*
13966255 ATG--ATTATATTTAATTGCATGATT
1 ATGATATTATA-TTATTTGCATGA-T
*
13966279 ATTATATT-TATT
1 ATGATATTATATT
13966291 TGTATGATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
22 4 0.09
23 10 0.22
24 27 0.59
25 2 0.04
26 3 0.07
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.54
Consensus pattern (24 bp):
ATGATATTATATTATTTGCATGAT
Found at i:13966240 original size:19 final size:19
Alignment explanation
Indices: 13966191--13966240 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
13966181 ATTAACTGTA
13966191 ATAT-ATATATATTTGCATG
1 ATATGATAT-TATTTGCATG
*
13966210 ATATTATATTATTTGCATG
1 ATATGATATTATTTGCATG
*
13966229 ATATGATTTTAT
1 ATATGATATTAT
13966241 GTTTATTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATGATATTATTTGCATG
Found at i:13966276 original size:18 final size:18
Alignment explanation
Indices: 13966255--13966321 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
13966245 ATTGCATAAT
13966255 ATGATTATATTTAATTGC
1 ATGATTATATTTAATTGC
* *
13966273 ATGATTATTATATTTATTTGT
1 ATG---ATTATATTTAATTGC
*
13966294 ATGATTATATTTGATTGC
1 ATGATTATATTTAATTGC
13966312 ATGATTATAT
1 ATGATTATAT
13966322 ATTATTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 25 0.61
21 16 0.39
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (18 bp):
ATGATTATATTTAATTGC
Found at i:13966303 original size:39 final size:42
Alignment explanation
Indices: 13966254--13966348 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 42
13966244 TATTGCATAA
13966254 TATGATTATATTTAATTGCATGATTAT-TA-TA-TTTATTTG
1 TATGATTATATTTAATTGCATGATTATATATTATTTTATTTG
*
13966293 TATGATTATATTTGATTGCATGATTATATATTATTTTATTTG
1 TATGATTATATTTAATTGCATGATTATATATTATTTTATTTG
*
13966335 TGTGATTTATATTT
1 TATGA-TTATATTT
13966349 GCATGATTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 26 0.52
40 2 0.04
41 2 0.04
42 12 0.24
43 8 0.16
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (42 bp):
TATGATTATATTTAATTGCATGATTATATATTATTTTATTTG
Found at i:13966367 original size:39 final size:40
Alignment explanation
Indices: 13966254--13966367 Score: 119
Period size: 39 Copynumber: 2.9 Consensus size: 40
13966244 TATTGCATAA
* *
13966254 TATGATTATATTTAATTGCATGATT-ATTATA-TTTATTTG
1 TATGATTATATAT-ATTGCATGATTAATAATATTTTATTTG
* *
13966293 TATGATTATATTTGATTGCATGATTATATATTATTTTATTTG
1 TATGATTATATAT-ATTGCATGATTA-ATAATATTTTATTTG
*
13966335 TGTGATT-TATAT-TTGCATGATTAACTAATATTT
1 TATGATTATATATATTGCATGATTAA-TAATATTT
13966368 GCATGGTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.02
39 42 0.65
41 8 0.12
42 14 0.22
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (40 bp):
TATGATTATATATATTGCATGATTAATAATATTTTATTTG
Found at i:13966479 original size:19 final size:19
Alignment explanation
Indices: 13966438--13966493 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
13966428 ACTATTGCAT
*
13966438 TATTATTGTATGATATATTA
1 TATTATTGCATGATAT-TTA
*
13966458 TATTATTGCATTATATTTA
1 TATTATTGCATGATATTTA
*
13966477 TATTAATGCATGATATT
1 TATTATTGCATGATATT
13966494 ATTTGCATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (19 bp):
TATTATTGCATGATATTTA
Found at i:13971786 original size:14 final size:13
Alignment explanation
Indices: 13971746--13971805 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
13971736 AAACAAGAAG
*
13971746 AAAATATG-AGAA
1 AAAATATGAAAAA
* *
13971758 AAAATGTGCAAAA
1 AAAATATGAAAAA
13971771 AAAATATGAAATAA
1 AAAATATGAAA-AA
*
13971785 AAAAAATGAAAGAA
1 AAAATATGAAA-AA
13971799 AGAAATA
1 A-AAATA
13971806 AAAGAAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 7 0.18
13 12 0.32
14 15 0.39
15 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (13 bp):
AAAATATGAAAAA
Found at i:13972896 original size:47 final size:45
Alignment explanation
Indices: 13972811--13973016 Score: 148
Period size: 47 Copynumber: 4.5 Consensus size: 45
13972801 GAGTTTTACG
* * *
13972811 AATGAGAATCTTTGAAATTTT-GAAAGCAAAACCCTAAAATTTTTTCA
1 AATGAGAATCTTTAAAATTTTAG-ATG-TAAA-CCTAAAATTTTTTCA
* * * * *
13972858 AATGAAAATTTTTAAAATTTTGGATGTAAAGCCATAAAAGTTTTTAA
1 AATGAGAATCTTTAAAATTTTAGATGTAAA-CC-TAAAATTTTTTCA
* * * * * * *
13972905 AATGA-ACT-TTTGAAACTTTAAATGTGAATCTCTAAATTTTTTTCG
1 AATGAGAATCTTTAAAATTTTAGATGT-AAAC-CTAAAATTTTTTCA
* * **
13972950 AATGTGAATCTTTGAAATTTTAGATGTGAAACCTTGAATTTTTTCA
1 AATGAGAATCTTTAAAATTTTAGATGT-AAACCTAAAATTTTTTCA
13972996 AATGAGAATCTTTAAAATTTT
1 AATGAGAATCTTTAAAATTTT
13973017 GGTTGTGAAA
Statistics
Matches: 124, Mismatches: 29, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
45 27 0.22
46 41 0.33
47 55 0.44
48 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (45 bp):
AATGAGAATCTTTAAAATTTTAGATGTAAACCTAAAATTTTTTCA
Found at i:13972979 original size:22 final size:22
Alignment explanation
Indices: 13972951--13973025 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
13972941 TTTTTTTCGA
13972951 ATGTGAATCTTTGAAATTTTAG
1 ATGTGAATCTTTGAAATTTTAG
* * * *
13972973 ATGTGAAACCTTGAATTTTTTCAA
1 ATGTGAATCTTTGAA-ATTTT-AG
* * *
13972997 ATGAGAATCTTTAAAATTTTGG
1 ATGTGAATCTTTGAAATTTTAG
*
13973019 TTGTGAA
1 ATGTGAA
13973026 ATATTAAAGA
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
22 18 0.47
23 8 0.21
24 12 0.32
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (22 bp):
ATGTGAATCTTTGAAATTTTAG
Found at i:13973014 original size:46 final size:46
Alignment explanation
Indices: 13972811--13973146 Score: 154
Period size: 45 Copynumber: 7.3 Consensus size: 46
13972801 GAGTTTTACG
* * ** *
13972811 AATGAGAATCTTTGAAATTTT-GAAAGCAAAACCCTAAAATTTTTTCA
1 AATGAGAATCTTTAAAATTTTAG-ATGTGAAA-CCTTAAATTTTTTCA
* * * * * *
13972858 AATGAAAATTTTTAAAATTTTGGATGT-AAAGCCATAAAAGTTTTTAA
1 AATGAGAATCTTTAAAATTTTAGATGTGAAA-CC-TTAAATTTTTTCA
* * * * * *
13972905 AATGA-ACT-TTTGAAACTTTAAATGTG-AATCTCTAAATTTTTTTCG
1 AATGAGAATCTTTAAAATTTTAGATGTGAAACCT-TAAA-TTTTTTCA
* * *
13972950 AATGTGAATCTTTGAAATTTTAGATGTGAAACCTTGAATTTTTTCA
1 AATGAGAATCTTTAAAATTTTAGATGTGAAACCTTAAATTTTTTCA
* * ** ** *
13972996 AATGAGAATCTTTAAAATTTTGGTTGTGAAATATTAAA-GATTTGA
1 AATGAGAATCTTTAAAATTTTAGATGTGAAACCTTAAATTTTTTCA
* * * * * * *
13973041 AATGTA-AAT-TTTCAAAACTTTCGACGTGAATCTTTAAGTTTTTTTA
1 AATG-AGAATCTTT-AAAATTTTAGATGTGAAACCTTAAATTTTTTCA
* * * * * *
13973087 AA-GAAAATATTT-AACTTTTGGATGTGAAACCCTAAAATTTTTT-G
1 AATGAGAATCTTTAAAATTTTAGATGTGAAA-CCTTAAATTTTTTCA
13973131 AATGAGAATCTTTAAA
1 AATGAGAATCTTTAAA
13973147 TTCTAAATAT
Statistics
Matches: 216, Mismatches: 57, Indels: 33
0.71 0.19 0.11
Matches are distributed among these distances:
43 1 0.00
44 22 0.10
45 74 0.34
46 59 0.27
47 55 0.25
48 5 0.02
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (46 bp):
AATGAGAATCTTTAAAATTTTAGATGTGAAACCTTAAATTTTTTCA
Found at i:13973356 original size:18 final size:18
Alignment explanation
Indices: 13973333--13973367 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13973323 TTTGAAAATT
* *
13973333 CTGAAAGTTTTTGCGAAA
1 CTGAAAATTTTTACGAAA
13973351 CTGAAAATTTTTACGAA
1 CTGAAAATTTTTACGAA
13973368 TCTTAATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (18 bp):
CTGAAAATTTTTACGAAA
Found at i:13973447 original size:17 final size:17
Alignment explanation
Indices: 13973427--13973466 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
13973417 AATTTGTGAG
*
13973427 TTCTTGTGAAATTGAAA
1 TTCTTGTGAAATTAAAA
*
13973444 TTCTTGTGAACTTAAAA
1 TTCTTGTGAAATTAAAA
13973461 TTCTTG
1 TTCTTG
13973467 CAAATTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (17 bp):
TTCTTGTGAAATTAAAA
Found at i:13973479 original size:33 final size:33
Alignment explanation
Indices: 13973442--13973506 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
13973432 GTGAAATTGA
** * *
13973442 AATTCTTGTGAACTTAAAATTCTTGCAAATTTG
1 AATTCTTGCAAACCTAAAATTCTTACAAATTTG
*
13973475 AATTCTTGCAAACCTGAAATTCTTACAAATTT
1 AATTCTTGCAAACCTAAAATTCTTACAAATTT
13973507 AAAAATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (33 bp):
AATTCTTGCAAACCTAAAATTCTTACAAATTTG
Done.