Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 64 of 93
Found at i:8915739 original size:170 final size:168
Alignment explanation
Indices: 8915294--8915798 Score: 526
Period size: 173 Copynumber: 2.9 Consensus size: 168
8915284 AAAAATATAA
* ** * *
8915294 TAAAAAAATAAAAAAATTGAAAATAAA-T-ATTAATTATCCAATGATGAAATTTATAGAAATTTC
1 TAAAAATATAAAAATTTTGAAAATAAATTCA-TAATTATCCAATGATGAAATTTTTAAAAATTTC
* *
8915357 AAATGGTAAATTTTTATAAAAT-TATTAGGTGAGAAATTTTGTCTAAATTTGTTCCAAATGGTGG
65 AAATGGTAAATTTCTA-AAAATCT-TTAGGTGAGAAATTTTATCTAAATTTG-TCCAAATGGTGG
* * *
8915421 AATAATTTAGATAAATTTTTAATAACAATAATTAATATTTATTTTT
127 AATAATTTAGATAAA-TTTCAATAA-AATAATT-GTA-TTATCTTT
* * * *
8915467 TAAAAATATAAAAATTTTGGAATTAAATTCA-AATTA-CCTAAGGATGAAATTCTTAAAAATTTC
1 TAAAAATATAAAAATTTTGAAAATAAATTCATAATTATCC-AATGATGAAATTTTTAAAAATTTC
* *
8915530 AAATGGTAAATTTCTAAAAAATCTTTAGGTGAAAAATTTTATCTAAAGTTGTCCTAAATGGTGGA
65 AAATGGTAAATTTCT-AAAAATCTTTAGGTGAGAAATTTTATCTAAATTTGTCC-AAATGGTGGA
8915595 ATAATTTAGATAAAGTTTCAATAAAAGTAATTGTA-T-TCTTT
128 ATAATTTAGATAAA-TTTCAATAAAA-TAATTGTATTATCTTT
* * * * *
8915636 T-CAAATA-AAAATTTGGGTTGAAAAT-ATTTGATAATTATCCAATGATGAGATTTTTAAAAATT
1 TAAAAATATAAAAATT---TTGAAAATAAATTCATAATTATCCAATGATGAAATTTTTAAAAATT
* * * *
8915698 TCAAATGGTAAATTTCTAAGAAATCTCTAGGTGAGAAATTTTCTTTAAATTTATCCCAAATGGTG
63 TCAAATGGTAAATTTCTAA-AAATCTTTAGGTGAGAAATTTTATCTAAATTTGT-CCAAATGGTG
*
8915763 GAATAATTTAAATGAAATTTCAATAAAAATAATTGT
126 GAATAATTTAGAT-AAATTTCAAT-AAAATAATTGT
8915799 TATATTATCT
Statistics
Matches: 283, Mismatches: 33, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
167 6 0.02
168 5 0.02
169 11 0.04
170 110 0.39
171 11 0.04
172 9 0.03
173 127 0.45
174 3 0.01
175 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (168 bp):
TAAAAATATAAAAATTTTGAAAATAAATTCATAATTATCCAATGATGAAATTTTTAAAAATTTCA
AATGGTAAATTTCTAAAAATCTTTAGGTGAGAAATTTTATCTAAATTTGTCCAAATGGTGGAATA
ATTTAGATAAATTTCAATAAAATAATTGTATTATCTTT
Found at i:8919068 original size:13 final size:14
Alignment explanation
Indices: 8919052--8919095 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
8919042 TTTTTTCACC
8919052 TTTTT-TTTTCAAT
1 TTTTTATTTTCAAT
*
8919065 TTTTTATTTT-GAT
1 TTTTTATTTTCAAT
8919078 TTTTTATTTTCAAAT
1 TTTTTATTTTC-AAT
8919093 TTT
1 TTT
8919096 GAAATTACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 17 0.65
14 4 0.15
15 5 0.19
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTTATTTTCAAT
Found at i:8919154 original size:36 final size:36
Alignment explanation
Indices: 8919113--8919184 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
8919103 CTTTATTAAT
* ** *
8919113 TTAATATAATAAATAA-TTTTTTTATTATATGATAAA
1 TTAATA-AATAAACAAGTTTTAGTATTATATAATAAA
8919149 TTAATAAATAAACAAGTTTTAGTATTATATAATAAA
1 TTAATAAATAAACAAGTTTTAGTATTATATAATAAA
8919185 AATATTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 8 0.26
36 23 0.74
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (36 bp):
TTAATAAATAAACAAGTTTTAGTATTATATAATAAA
Found at i:8930276 original size:9 final size:9
Alignment explanation
Indices: 8930252--8930292 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
8930242 TAGGTTTTTG
8930252 TTTGAATTT
1 TTTGAATTT
8930261 TTT-AATTT
1 TTTGAATTT
8930269 TTTGAATTTT
1 TTTGAA-TTT
*
8930279 TTTGAATTA
1 TTTGAATTT
8930288 TTTGA
1 TTTGA
8930293 CGAAGTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
9 12 0.41
10 9 0.31
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (9 bp):
TTTGAATTT
Found at i:8930279 original size:10 final size:10
Alignment explanation
Indices: 8930247--8930286 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
8930237 TTTTCTAGGT
8930247 TTTTGTTTGAA
1 TTTT-TTTGAA
8930258 -TTTTTT-AA
1 TTTTTTTGAA
8930266 -TTTTTTGAA
1 TTTTTTTGAA
8930275 TTTTTTTGAA
1 TTTTTTTGAA
8930285 TT
1 TT
8930287 ATTTGACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 5 0.19
10 14 0.52
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:8930672 original size:6 final size:6
Alignment explanation
Indices: 8930657--8930733 Score: 61
Period size: 6 Copynumber: 12.7 Consensus size: 6
8930647 TCACATGTTT
*
8930657 TTTTTA -TTTTA TTTTTA TTTTCTAA TTTTGA -TTTTA TTTTT- TATTTTA
1 TTTTTA TTTTTA TTTTTA TTTT-T-A TTTTTA TTTTTA TTTTTA T-TTTTA
** *
8930705 TTAGCTA TTTTTA TCTTTA TTTTTA TTTT
1 TT-TTTA TTTTTA TTTTTA TTTTTA TTTT
8930734 ATTAATTGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 10 0.18
6 35 0.62
7 6 0.11
8 5 0.09
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:8930684 original size:19 final size:17
Alignment explanation
Indices: 8930657--8930733 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 17
8930647 TCACATGTTT
8930657 TTTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
8930674 TTTTCTAATTTTGA-TTTTA
1 TTTT-T-ATTTT-ATTTTTA
**
8930693 TTTTTTATTTTATTAGCTA
1 -TTTTTATTTTATT-TTTA
8930712 TTTTTATCTTTATTTTTA
1 TTTTTAT-TTTATTTTTA
8930730 TTTT
1 TTTT
8930734 ATTAATTGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
17 5 0.10
18 20 0.41
19 19 0.39
20 5 0.10
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:8930734 original size:30 final size:30
Alignment explanation
Indices: 8930658--8930737 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
8930648 CACATGTTTT
**
8930658 TTTTA-TTTTATTTTTATTTTCTAATTTTGA
1 TTTTATTTTTA-TTTTATTAGCTAATTTTGA
*
8930688 TTTTATTTTTTATTTTATTAGCT-ATTTTTA
1 TTTTA-TTTTTATTTTATTAGCTAATTTTGA
8930718 TCTTTATTTTTATTTTATTA
1 T-TTTATTTTTATTTTATTA
8930738 ATTGTGATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 26 0.59
31 13 0.30
32 5 0.11
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.74
Consensus pattern (30 bp):
TTTTATTTTTATTTTATTAGCTAATTTTGA
Found at i:8954734 original size:13 final size:14
Alignment explanation
Indices: 8954710--8954741 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
8954700 ATTTATTTAT
8954710 TTTTTGTAAATTAA
1 TTTTTGTAAATTAA
8954724 TTTTTGT-AATTAA
1 TTTTTGTAAATTAA
8954737 TTTTT
1 TTTTT
8954742 ATCTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTTGTAAATTAA
Found at i:8955118 original size:16 final size:16
Alignment explanation
Indices: 8955088--8955117 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8955078 CTTTCAAAAG
8955088 TTTTTCCTTTTTTTTA
1 TTTTTCCTTTTTTTTA
8955104 TTTTT-CTTTTTTTT
1 TTTTTCCTTTTTTTT
8955118 TTTGTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTCCTTTTTTTTA
Found at i:8955156 original size:20 final size:20
Alignment explanation
Indices: 8955110--8955157 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
8955100 TTTATTTTTC
8955110 TTTT-TTTTTTTGTTTGATT
1 TTTTGTTTTTTTGTTTGATT
**
8955129 TTGGGTTTTTTTGTTT-ATGT
1 TTTTGTTTTTTTGTTTGAT-T
8955149 TTTTGTTTT
1 TTTTGTTTT
8955158 AACTAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.04, C:0.00, G:0.17, T:0.79
Consensus pattern (20 bp):
TTTTGTTTTTTTGTTTGATT
Found at i:8955366 original size:22 final size:22
Alignment explanation
Indices: 8955341--8955389 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
8955331 TTCGAAGTTA
* *
8955341 TTAAAGATTACG-CTTAAAGATC
1 TTAAAAATTACGTC-TAAAAATC
*
8955363 TTAAAAATTATGTCTAAAAATC
1 TTAAAAATTACGTCTAAAAATC
8955385 TTAAA
1 TTAAA
8955390 TATTGTGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (22 bp):
TTAAAAATTACGTCTAAAAATC
Found at i:8955535 original size:22 final size:22
Alignment explanation
Indices: 8955489--8955538 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
8955479 TGTCAGGAGA
* *
8955489 TCTTAAAGATTATGCCCGAAGG
1 TCTTAAAGATTATGCCCAAAAG
* *
8955511 TCTTAGAGATTATGCCTAAAAG
1 TCTTAAAGATTATGCCCAAAAG
8955533 TCTTAA
1 TCTTAA
8955539 CTTATTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (22 bp):
TCTTAAAGATTATGCCCAAAAG
Found at i:8956632 original size:20 final size:21
Alignment explanation
Indices: 8956609--8956651 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
8956599 AATAATTTAT
*
8956609 AAAATAAAATTA-TCTAATAA
1 AAAATAAAATTATTCAAATAA
*
8956629 AAAATTAAATTATTCAAATAA
1 AAAATAAAATTATTCAAATAA
8956650 AA
1 AA
8956652 TCTATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAAAATTATTCAAATAA
Found at i:8957629 original size:100 final size:100
Alignment explanation
Indices: 8957520--8957720 Score: 348
Period size: 100 Copynumber: 2.0 Consensus size: 100
8957510 CACTTAGGAC
*
8957520 ATTGATTAAAAATTACATATAAATAAAATTTTAAATTATTTAATATTTATAAAATTAATAAGTAA
1 ATTGATTAAAAATTACATATAAATAAAATTTTAAATTATCTAATATTTATAAAATTAATAAGTAA
* * *
8957585 TTGAAATTTTTTAAAATAAACTTTATTTGTTAATT
66 TTAAAAATTTTTAAAATAAACTTTATTTATTAATT
*
8957620 ATTGATTAAAAATTACATATAAATAAAATTTTAAATTATCTAATATTTATAAAATTAATAAGTAG
1 ATTGATTAAAAATTACATATAAATAAAATTTTAAATTATCTAATATTTATAAAATTAATAAGTAA
*
8957685 TTAAAAATTTTTAAAATAAATTTTATTTATTAATT
66 TTAAAAATTTTTAAAATAAACTTTATTTATTAATT
8957720 A
1 A
8957721 ATTTATTATG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (100 bp):
ATTGATTAAAAATTACATATAAATAAAATTTTAAATTATCTAATATTTATAAAATTAATAAGTAA
TTAAAAATTTTTAAAATAAACTTTATTTATTAATT
Found at i:8958816 original size:26 final size:25
Alignment explanation
Indices: 8958787--8958846 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
8958777 TTTTAATTAA
* * *
8958787 TTATTTAATTTTTTATTTATATATAT
1 TTATTTAATTATATATTTAAATAT-T
*
8958813 TTATATAATTATATATTTAAATATT
1 TTATTTAATTATATATTTAAATATT
8958838 TATATTTAA
1 T-TATTTAA
8958847 AAAATAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTTAATTATATATTTAAATATT
Found at i:8958817 original size:8 final size:8
Alignment explanation
Indices: 8958806--8958842 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
8958796 TTTTTATTTA
8958806 TATATATT
1 TATATATT
*
8958814 TATATAAT
1 TATATATT
8958822 TATATATT
1 TATATATT
*
8958830 TAAATATT
1 TATATATT
8958838 TATAT
1 TATAT
8958843 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:8958825 original size:16 final size:16
Alignment explanation
Indices: 8958806--8958862 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 16
8958796 TTTTTATTTA
8958806 TATATATTTATATAAT
1 TATATATTTATATAAT
*
8958822 TATATATTTAAAT-AT
1 TATATATTTATATAAT
* *
8958837 T-TATATTTA-AAAAA
1 TATATATTTATATAAT
8958851 TA-ATATTTATAT
1 TATATATTTATAT
8958863 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 17 0.50
15 4 0.12
16 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATATTTATATAAT
Found at i:8958857 original size:20 final size:21
Alignment explanation
Indices: 8958832--8958883 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
8958822 TATATATTTA
8958832 AATATTTATATTT-AAAAAAT
1 AATATTTATATTTAAAAAAAT
8958852 AATATTTATATTTAAAAAAAT
1 AATATTTATATTTAAAAAAAT
8958873 AATATTT-TATT
1 AATATTTATATT
8958884 AATTTTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATTTATATTTAAAAAAAT
Found at i:8959065 original size:15 final size:15
Alignment explanation
Indices: 8959045--8959073 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8959035 TTCCGATTCG
8959045 ACCCATTGCCCACTT
1 ACCCATTGCCCACTT
8959060 ACCCATTGCCCACT
1 ACCCATTGCCCACT
8959074 GTAAGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.48, G:0.07, T:0.24
Consensus pattern (15 bp):
ACCCATTGCCCACTT
Found at i:8959445 original size:2 final size:2
Alignment explanation
Indices: 8959438--8959473 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
8959428 TCATCCATAA
*
8959438 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8959474 CATCTCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8961112 original size:49 final size:51
Alignment explanation
Indices: 8961016--8961112 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 51
8961006 TTTAAATAAA
8961016 AAAATACCTTAAATAATCTTTTTATATTTTTACAAATAGATTATTTAACAG
1 AAAATACCTTAAATAATCTTTTTATATTTTTACAAATAGATTATTTAACAG
8961067 AAAATACCTTAAATAATCTTTTTAT-TTTTTA-AAA-AGGATTATTTAA
1 AAAATACCTTAAATAATCTTTTTATATTTTTACAAATA-GATTATTTAA
8961113 GGTATTTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
48 1 0.02
49 13 0.29
50 6 0.13
51 25 0.56
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (51 bp):
AAAATACCTTAAATAATCTTTTTATATTTTTACAAATAGATTATTTAACAG
Found at i:8962208 original size:31 final size:30
Alignment explanation
Indices: 8962123--8962221 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
8962113 TATTATATTT
* *
8962123 AAATAAACACTTAAATTTTTATTTACA-CTC
1 AAATAAACACTTAAATTTTAATTTATATC-C
* *
8962153 AAATAAAAACTTAAATATTAATTTATATCC
1 AAATAAACACTTAAATTTTAATTTATATCC
* *
8962183 AAATAAACCCTTAAAATTTTAATTTATATCT
1 AAATAAACACTT-AAATTTTAATTTATATCC
*
8962214 GAATAAAC
1 AAATAAAC
8962222 CTTTGATAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
30 34 0.59
31 24 0.41
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.37
Consensus pattern (30 bp):
AAATAAACACTTAAATTTTAATTTATATCC
Found at i:8962298 original size:29 final size:29
Alignment explanation
Indices: 8962235--8962299 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
8962225 TGATAATAAT
* *
8962235 TTATTTGAATACAAATCAAAATATAAAAGC
1 TTATTTAAATACAAA-CAAAATATAAAAAC
*
8962265 ATATTTAAATAC-AACAAAAATATAAAAAC
1 TTATTTAAATACAAAC-AAAATATAAAAAC
8962294 TTATTT
1 TTATTT
8962300 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 19 0.63
30 10 0.33
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.32
Consensus pattern (29 bp):
TTATTTAAATACAAACAAAATATAAAAAC
Found at i:8969118 original size:2 final size:2
Alignment explanation
Indices: 8969113--8969138 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8969103 AAAAAAAATT
8969113 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8969139 AAAGAAAAAA
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):
TA
Found at i:8970166 original size:11 final size:11
Alignment explanation
Indices: 8970150--8970191 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
8970140 TACATTTAAA
8970150 ATTTTAATATT
1 ATTTTAATATT
*
8970161 ATTTTAATATA
1 ATTTTAATATT
8970172 ATTTTTAATA-T
1 A-TTTTAATATT
*
8970183 ATTTAAATA
1 ATTTTAATA
8970192 AATTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 7 0.26
11 12 0.44
12 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAATATT
Found at i:8970179 original size:12 final size:11
Alignment explanation
Indices: 8970149--8970204 Score: 62
Period size: 10 Copynumber: 5.2 Consensus size: 11
8970139 TTACATTTAA
8970149 AATTTTAATAT
1 AATTTTAATAT
*
8970160 TATTTTAATAT
1 AATTTTAATAT
8970171 AATTTTTAATAT
1 AA-TTTTAATAT
*
8970183 -ATTTAAATA-
1 AATTTTAATAT
*
8970192 AATTTAAATAT
1 AATTTTAATAT
8970203 AA
1 AA
8970205 AATAATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.41
11 14 0.36
12 9 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTTAATAT
Found at i:8973059 original size:23 final size:23
Alignment explanation
Indices: 8973029--8973074 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8973019 ATTTGGAATT
8973029 CTGATAATGTATTGGATTAATAA
1 CTGATAATGTATTGGATTAATAA
8973052 CTGATAATGTATTGGATTAATAA
1 CTGATAATGTATTGGATTAATAA
8973075 AAATAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (23 bp):
CTGATAATGTATTGGATTAATAA
Found at i:8979329 original size:2 final size:2
Alignment explanation
Indices: 8979322--8979362 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8979312 GGCTGAGGGT
8979322 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8979363 CAATGATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8980711 original size:2 final size:2
Alignment explanation
Indices: 8980704--8980763 Score: 66
Period size: 2 Copynumber: 29.5 Consensus size: 2
8980694 TAGAATAAAG
* * *
8980704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
8980746 AT AC CT AT ACT AT AT AT A
1 AT AT AT AT A-T AT AT AT A
8980764 AATGTGGTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:8985874 original size:20 final size:21
Alignment explanation
Indices: 8985845--8985899 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
8985835 AAATACTATT
*
8985845 TTTTACTTTTTTAAAT-AAGA
1 TTTTATTTTTTTAAATCAAGA
* *
8985865 TTTTATTTTTTAAAATCAATA
1 TTTTATTTTTTTAAATCAAGA
8985886 TTTTGATTTTTTTA
1 TTTT-ATTTTTTTA
8985900 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.48
21 7 0.24
22 8 0.28
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTATTTTTTTAAATCAAGA
Found at i:8985875 original size:21 final size:22
Alignment explanation
Indices: 8985851--8985897 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
8985841 TATTTTTTAC
8985851 TTTTTT-AAAT-AAGATTTT-A
1 TTTTTTAAAATCAAGATTTTGA
*
8985870 TTTTTTAAAATCAATATTTTGA
1 TTTTTTAAAATCAAGATTTTGA
8985892 TTTTTT
1 TTTTTT
8985898 TATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 7 0.29
22 7 0.29
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTTTAAAATCAAGATTTTGA
Found at i:8986236 original size:18 final size:19
Alignment explanation
Indices: 8986213--8986273 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
8986203 TTTGTATATT
8986213 TTTTATAAAAA-ATGAAAA
1 TTTTATAAAAACATGAAAA
8986231 TTTTATAAAAACAT-AAAA
1 TTTTATAAAAACATGAAAA
* *
8986249 -ATTA-AAAAATATAGAAAA
1 TTTTATAAAAACAT-GAAAA
8986267 TTTTATA
1 TTTTATA
8986274 TATATTCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.20
17 3 0.09
18 19 0.54
19 5 0.14
20 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (19 bp):
TTTTATAAAAACATGAAAA
Found at i:8986474 original size:17 final size:16
Alignment explanation
Indices: 8986448--8986505 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
8986438 TATTAATTTT
8986448 TTTTAAAAAAATATAA
1 TTTTAAAAAAATATAA
*
8986464 TTTTAATAAAAATATGA
1 TTTTAA-AAAAATATAA
* * *
8986481 TTTTTAAAAACTAAAA
1 TTTTAAAAAAATATAA
8986497 TATTTAAAA
1 T-TTTAAAA
8986506 TATTAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 14 0.41
17 20 0.59
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
TTTTAAAAAAATATAA
Found at i:8986748 original size:21 final size:22
Alignment explanation
Indices: 8986702--8986751 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
8986692 TAAATTTCAA
*
8986702 ATTTCATATAAATATAATGATT
1 ATTTCATATAAATATAATAATT
*
8986724 ATTT-ATAT-AATTTAATAATT
1 ATTTCATATAAATATAATAATT
8986744 GATTTCAT
1 -ATTTCAT
8986752 CAATTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTCATATAAATATAATAATT
Found at i:8993577 original size:92 final size:92
Alignment explanation
Indices: 8993419--8993604 Score: 318
Period size: 92 Copynumber: 2.0 Consensus size: 92
8993409 CAAACCTACA
** *
8993419 CTTTGATAACGTGGGAGCTACATATTTGTGTGTTAATCTTGTGTTTCACTCTCAAATGAAGCACA
1 CTTTGATAACGTGAAAGCTACATATTTGTGTGCTAATCTTGTGTTTCACTCTCAAATGAAGCACA
8993484 TTGCATTAGATTATCATTTTGTTTGAC
66 TTGCATTAGATTATCATTTTGTTTGAC
* * *
8993511 CTTTGATAATGTGAAAGCTACATATTTGTGTGCTAATTTTGTGTTTCACTCTCAAATGAAGTACA
1 CTTTGATAACGTGAAAGCTACATATTTGTGTGCTAATCTTGTGTTTCACTCTCAAATGAAGCACA
8993576 TTGCATTAGATTATCATTTTGTTTGAC
66 TTGCATTAGATTATCATTTTGTTTGAC
8993603 CT
1 CT
8993605 AAAGTCAATT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (92 bp):
CTTTGATAACGTGAAAGCTACATATTTGTGTGCTAATCTTGTGTTTCACTCTCAAATGAAGCACA
TTGCATTAGATTATCATTTTGTTTGAC
Found at i:8993597 original size:45 final size:45
Alignment explanation
Indices: 8993457--8993597 Score: 105
Period size: 45 Copynumber: 3.1 Consensus size: 45
8993447 TGTGTTAATC
*
8993457 TTGTGTTTCACTCTCAAATGAAGCACATTGCATTAGATTATCA-T
1 TTGTGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATT
* * * * * *
8993501 TT-TGTTTGACCTTTGATAATGTGAAAGCTACA-T--ATTTG-TGTGCTAATT
1 TTGTGTTTCA-CTCTCA-AA--TG-AAG-TACATTGCATTAGAT-T-ATCATT
8993549 TTGTGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATT
1 TTGTGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATT
8993594 TTGT
1 TTGT
8993598 TTGACCTAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 27
0.64 0.12 0.25
Matches are distributed among these distances:
43 10 0.14
44 10 0.14
45 13 0.19
46 10 0.14
47 7 0.10
48 11 0.16
49 9 0.13
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (45 bp):
TTGTGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATT
Found at i:8993599 original size:43 final size:43
Alignment explanation
Indices: 8993460--8993599 Score: 99
Period size: 43 Copynumber: 3.1 Consensus size: 43
8993450 GTTAATCTTG
*
8993460 TGTTTCACTCTCAAATGAAGCACATTGCATTAGATTATCATTT
1 TGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATTT
* * * * * *
8993503 TGTTTGACCTTTGATAATGTGAAAGCTACA-T--ATTTG-TGTGCTAATTTT
1 TGTTTCA-CTCTCA-AA--TG-AAG-TACATTGCATTAGAT-T-ATCA-TTT
8993551 GTGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATTT
1 -TGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATTT
8993595 TGTTT
1 TGTTT
8993600 GACCTAAAGT
Statistics
Matches: 70, Mismatches: 13, Indels: 28
0.63 0.12 0.25
Matches are distributed among these distances:
43 15 0.21
44 11 0.16
45 7 0.10
46 10 0.14
47 7 0.10
48 11 0.16
49 9 0.13
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (43 bp):
TGTTTCACTCTCAAATGAAGTACATTGCATTAGATTATCATTT
Found at i:8995416 original size:53 final size:53
Alignment explanation
Indices: 8995357--8995460 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
8995347 TTTATTTTGC
* *
8995357 AAGTTTCGTTTCTAAATTTTTTACCATTTAGGCCT-AATTTAGAAATATCTTAT
1 AAGTTTCATTTCTAAATTTTTTACCATTT-GGCCTAAATTTAAAAATATCTTAT
**
8995410 AAGTTTCATTTCTAAATTTTTTACCATTTGGGTTAAATTTAAAAATATCTT
1 AAGTTTCATTTCTAAATTTTTTACCATTTGGCCTAAATTTAAAAATATCTT
8995461 TCTTATAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 3 0.07
53 43 0.93
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.48
Consensus pattern (53 bp):
AAGTTTCATTTCTAAATTTTTTACCATTTGGCCTAAATTTAAAAATATCTTAT
Found at i:9000730 original size:7 final size:6
Alignment explanation
Indices: 9000704--9000728 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9000694 CTTGAGAAAA
9000704 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
9000729 TAGAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:9003202 original size:15 final size:15
Alignment explanation
Indices: 9003182--9003211 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9003172 TGGGTCGAGG
9003182 GATCAAGACTGAGAA
1 GATCAAGACTGAGAA
9003197 GATCAAGACTGAGAA
1 GATCAAGACTGAGAA
9003212 TTGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (15 bp):
GATCAAGACTGAGAA
Found at i:9003821 original size:29 final size:29
Alignment explanation
Indices: 9003756--9003815 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
9003746 TAATTAAAGT
** *
9003756 AAAATATTTAATGTGATAATTAAATTTTA
1 AAAATATTTAATGAAATAATTAAATTATA
*
9003785 AAAATATTTAATGAAATACTTAAATTATA
1 AAAATATTTAATGAAATAATTAAATTATA
9003814 AA
1 AA
9003816 TTTATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATATTTAATGAAATAATTAAATTATA
Found at i:9004211 original size:10 final size:11
Alignment explanation
Indices: 9004189--9004222 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
9004179 AGTCCTGTCA
9004189 ATTTGTATATTT
1 ATTT-TATATTT
9004201 ATTTT-TATTT
1 ATTTTATATTT
9004211 ATTTTATATTT
1 ATTTTATATTT
9004222 A
1 A
9004223 ATATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 7 0.33
12 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
ATTTTATATTT
Found at i:9004554 original size:8 final size:8
Alignment explanation
Indices: 9004543--9004581 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
9004533 ATTAATTTTT
*
9004543 TATTTACA
1 TATTTATA
9004551 TATTTATA
1 TATTTATA
*
9004559 TAATTATA
1 TATTTATA
*
9004567 TATTTAAA
1 TATTTATA
9004575 TATTTAT
1 TATTTAT
9004582 GTTTAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTTATA
Found at i:9004598 original size:20 final size:21
Alignment explanation
Indices: 9004573--9004621 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
9004563 TATATATTTA
9004573 AATATTTAT-GTTTAAAAAAT
1 AATATTTATAGTTTAAAAAAT
*
9004593 AATATTTTATATTTTAAAAAAT
1 AATA-TTTATAGTTTAAAAAAT
9004615 AATATTT
1 AATATTT
9004622 TATTAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATATTTATAGTTTAAAAAAT
Found at i:9004611 original size:22 final size:22
Alignment explanation
Indices: 9004583--9004624 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9004573 AATATTTATG
9004583 TTTAAAAAATAATATTTTATAT
1 TTTAAAAAATAATATTTTATAT
9004605 TTTAAAAAATAATATTTTAT
1 TTTAAAAAATAATATTTTAT
9004625 TAATTTCGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAAAATAATATTTTATAT
Found at i:9004768 original size:2 final size:2
Alignment explanation
Indices: 9004761--9004796 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9004751 TTGCCATCCC
9004761 TA TA TA TA TA TA TA TA TA 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
9004797 AGTTGCTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9007225 original size:21 final size:21
Alignment explanation
Indices: 9007201--9007244 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
9007191 TGAGGAACTA
* *
9007201 TCCTCTGGTATAAAGAACACC
1 TCCTCTAGCATAAAGAACACC
* *
9007222 TCCTTTAGCATGAAGAACACC
1 TCCTCTAGCATAAAGAACACC
9007243 TC
1 TC
9007245 ATGAGGTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (21 bp):
TCCTCTAGCATAAAGAACACC
Found at i:9012462 original size:54 final size:54
Alignment explanation
Indices: 9012400--9012508 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
9012390 GTGTGTATGG
*
9012400 TGAGAAAAAGCTCTTAATGGTAAAGATTTTATCCTGGTCCACTTTAATTCTTCT
1 TGAGAAAAAGCTCTTAATGGTAAAGATTTTATCCCGGTCCACTTTAATTCTTCT
9012454 TGAGAAAAAGCTCTTAATGGTAAAGATTTTATCCCGGTCCACTTTAATTCTTCT
1 TGAGAAAAAGCTCTTAATGGTAAAGATTTTATCCCGGTCCACTTTAATTCTTCT
9012508 T
1 T
9012509 TTACTAACTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (54 bp):
TGAGAAAAAGCTCTTAATGGTAAAGATTTTATCCCGGTCCACTTTAATTCTTCT
Found at i:9016884 original size:3 final size:3
Alignment explanation
Indices: 9016876--9016932 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
9016866 GAGAAAAGAA
9016876 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9016924 AAT AAT AAT
1 AAT AAT AAT
9016933 TTAGATGATC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9017231 original size:255 final size:257
Alignment explanation
Indices: 9016941--9017419 Score: 741
Period size: 255 Copynumber: 1.9 Consensus size: 257
9016931 ATTTAGATGA
* *
9016941 TCAAGGAAATTAAGTTGTCGTTAAAGTTGTGCATTCATCGGTTCAAACTGAAAAAACTAAAAAAA
1 TCAAGGAAATTAAGTTGTCATTAAAGTTGTGCATTCATCGATTCAAACTGAAAAAACTAAAAAAA
* *
9017006 AAATTTGCTCAATTAAATTAAATTAG-GTCAATTTTTTCAGTTTAATAAGGTAAATTGGTTAAGT
66 AAAATTGCTCAATTAAATTAAA-TAGAGTCAATTTTTTCAGTTTAATAAGGTAAATTGGTCAAGT
* * * *
9017070 TGTTAGTTTAAGTAGTTTTAACAATT-GGTTTTCAATTTAAAATTTCTACACCCGAACCAA-CTA
130 TGTTAATTTAAATAGTTTTAACAATTGGGTTTT-AATTTAAAATTTCTAAACCCGAACCAACCAA
9017133 AAAAAAT-AAAAAATTAAATATTTAAAATAATAATGATGATGATGATGATGATTGTGGTGGTGG
194 AAAAAATAAAAAAATTAAATATTTAAAATAATAATGATGATGATGATGATGATTGTGGTGGTGG
* *
9017196 TCAAGGAAATTAAGTTGTTATTAAGGTTGTGCATTCATCGATTCAAACTGAAAAAACTAAAAAAA
1 TCAAGGAAATTAAGTTGTCATTAAAGTTGTGCATTCATCGATTCAAACTGAAAAAACTAAAAAAA
* * *** * *
9017261 AAAATTGCTTAATTAAATTAAATCGAGTTGGTTTTTTTAGTTTAATAGGGTAAATTGGTCAAGTT
66 AAAATTGCTCAATTAAATTAAATAGAGTCAATTTTTTCAGTTTAATAAGGTAAATTGGTCAAGTT
**
9017326 GTTAATTTAAATAGTTTTAACAATTGGGTTTTAATTTAAAATTTCTAAACTTGAACCAACCAAAA
131 GTTAATTTAAATAGTTTTAACAATTGGGTTTTAATTTAAAATTTCTAAACCCGAACCAACCAAAA
9017391 AAAATAAAAAAATTAAATATTTAAAATAA
196 AAAATAAAAAAATTAAATATTTAAAATAA
9017420 ATAAAATATA
Statistics
Matches: 201, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
254 2 0.01
255 161 0.80
256 15 0.07
257 23 0.11
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (257 bp):
TCAAGGAAATTAAGTTGTCATTAAAGTTGTGCATTCATCGATTCAAACTGAAAAAACTAAAAAAA
AAAATTGCTCAATTAAATTAAATAGAGTCAATTTTTTCAGTTTAATAAGGTAAATTGGTCAAGTT
GTTAATTTAAATAGTTTTAACAATTGGGTTTTAATTTAAAATTTCTAAACCCGAACCAACCAAAA
AAAATAAAAAAATTAAATATTTAAAATAATAATGATGATGATGATGATGATTGTGGTGGTGG
Found at i:9017426 original size:18 final size:17
Alignment explanation
Indices: 9017395--9017428 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9017385 CCAAAAAAAA
*
9017395 TAAAAAAATTAAATATT
1 TAAAAAAATAAAATATT
9017412 TAAAATAAATAAAATAT
1 TAAAA-AAATAAAATAT
9017429 ACATTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAAATAAAATATT
Found at i:9017434 original size:22 final size:22
Alignment explanation
Indices: 9017391--9017434 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9017381 CCAACCAAAA
*
9017391 AAAATAAAAAAATTAAATATTT
1 AAAATAAAAAAATTAAACATTT
*
9017413 AAAATAAATAAAA-TATACATTT
1 AAAATAAA-AAAATTAAACATTT
9017435 TTTCAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAAAAAAATTAAACATTT
Found at i:9018283 original size:9 final size:10
Alignment explanation
Indices: 9018269--9018360 Score: 50
Period size: 9 Copynumber: 9.0 Consensus size: 10
9018259 CTTCTTCTTT
9018269 TGTATT-TTA
1 TGTATTATTA
*
9018278 TGTATT-GTA
1 TGTATTATTA
9018287 T-TATTTATTA
1 TGTA-TTATTA
9018297 T-TATTATTA
1 TGTATTATTA
9018306 TGTATTAATATA
1 TGTATT-AT-TA
9018318 TGTATATATTTA
1 TGTAT-TA-TTA
* *
9018330 TTTATTTATTG
1 TGTA-TTATTA
*
9018341 T-TAATATTTA
1 TGTATTA-TTA
9018351 TGTATTATTA
1 TGTATTATTA
9018361 CTAATATGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
8 2 0.03
9 20 0.30
10 17 0.26
11 9 0.14
12 15 0.23
13 3 0.05
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
TGTATTATTA
Found at i:9018304 original size:16 final size:19
Alignment explanation
Indices: 9018283--9018331 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
9018273 TTTTATGTAT
9018283 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
9018300 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
9018318 TGTATATATTTATT
1 TGTAT-TATTTATT
9018332 TATTTATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:9018358 original size:28 final size:27
Alignment explanation
Indices: 9018274--9018359 Score: 70
Period size: 31 Copynumber: 3.1 Consensus size: 27
9018264 TCTTTTGTAT
* *
9018274 TTTATGTATTG-TATTATTTATTATTA
1 TTTATTTATTGTTAATATTTATTATTA
*
9018300 -TTA-TTATGTATTAATATATGTATATATTTA
1 TTTATTTAT-TGTTAATAT-T-TAT-TA-TTA
9018330 TTTATTTATTGTTAATATTTATGTATTA
1 TTTATTTATTGTTAATATTTAT-TATTA
9018358 TT
1 TT
9018360 ACTAATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
24 3 0.06
25 4 0.09
26 5 0.11
27 1 0.02
28 8 0.17
29 7 0.15
30 4 0.09
31 11 0.23
32 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (27 bp):
TTTATTTATTGTTAATATTTATTATTA
Found at i:9018823 original size:27 final size:24
Alignment explanation
Indices: 9018780--9018834 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 24
9018770 CTGGCAGTGA
*
9018780 GAAAAAATTTTTAGAAATTTTTGG
1 GAAAAAATTTTTAGAAATTTCTGG
*
9018804 CGAAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAA-TTTT-TAGAAATTTCTGG
9018831 GAAA
1 GAAA
9018835 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 8 0.31
27 11 0.42
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (24 bp):
GAAAAAATTTTTAGAAATTTCTGG
Found at i:9018962 original size:19 final size:20
Alignment explanation
Indices: 9018935--9018978 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9018925 TCCGGCCAAC
9018935 TTCCGGCGA-AATTTCCAGA
1 TTCCGGCGACAATTTCCAGA
* *
9018954 TTCCTGCGACATTTTCCAGA
1 TTCCGGCGACAATTTCCAGA
*
9018974 ATCCG
1 TTCCG
9018979 ACACCGGTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (20 bp):
TTCCGGCGACAATTTCCAGA
Found at i:9019774 original size:180 final size:175
Alignment explanation
Indices: 9019467--9019925 Score: 663
Period size: 180 Copynumber: 2.6 Consensus size: 175
9019457 TTTTCCAAAA
* *
9019467 AAAAAATATTTTTAGGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTTC-AAAAAAA
* * *
9019532 GG-TTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGACAATCAAAATTTCAAAGAAAATATA
64 GGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGCAAAATTTCAAA-AAAA-ATA
*
9019596 TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
127 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAA--GAAATTTCC
9019647 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAATAAATTTTCAAAAAAAG
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAATAAATTTTCAAAAAAAG
9019712 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGCAAAATTTCAAAAAAAATATTT
65 GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGCAAAATTTCAAAAAAAATATTT
*
9019777 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAGAAATTTTC
130 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAGAAATTTCC
* * * *
9019823 AAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAA
1 AAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAATTTTCAAAA
* *
9019888 AAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
61 AAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
9019926 CTACAAAAAA
Statistics
Matches: 258, Mismatches: 13, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
176 15 0.06
178 40 0.16
179 86 0.33
180 117 0.45
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (175 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTCAAAAAAAGG
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGCAAAATTTCAAAAAAAATATTTT
TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAGAAATTTCC
Found at i:9019793 original size:60 final size:60
Alignment explanation
Indices: 9019465--9019925 Score: 623
Period size: 59 Copynumber: 7.7 Consensus size: 60
9019455 AATTTTCCAA
* * *
9019465 AAAAAAAATATTTTT-AGGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
1 AAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
** * *
9019524 AAAAAAAAGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGACAATCAAAATTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* *
9019584 AAAGAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
1 AAA-AAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* * *
9019646 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-ATAAAT-AAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTTC
** *
9019704 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGCAAAATTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* *
9019764 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAA-GAAATTTTC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTTC
**
9019823 AAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
* *
9019884 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
9019926 CTACAAAAAA
Statistics
Matches: 356, Mismatches: 34, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
58 7 0.02
59 176 0.49
60 113 0.32
61 13 0.04
62 47 0.13
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
Found at i:9019938 original size:119 final size:119
Alignment explanation
Indices: 9019454--9019938 Score: 649
Period size: 119 Copynumber: 4.0 Consensus size: 119
9019444 AATAAAAATC
* * * *
9019454 AAATTTTCCAAAAAAAA-AATATTTTTAGGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAAT--
1 AAATTTT-CAAAAAAAAGGAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCA
* * * *
9019516 AAATTTTCAAAAAAAAGGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGACAATCA
63 AAATTTCCAAAAAATA--TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-ACAA-AA
* * *
9019577 AAA-TTTCAAAGAAAATA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGA
1 AAATTTTCAAA-AAAA-AGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAA
* * *
9019640 AATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTATAAAT
64 AATTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTACAAAA
*
9019696 AAATTTTC-AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAGCAAAA
1 AAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
* * *
9019760 TTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAG
66 TTTC-CAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTACAAAA
*
9019815 AAATTTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
1 AAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
* *
9019880 TTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCCTACAAAA
66 TTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTACAAAA
9019934 AAATT
1 AAATT
9019939 CATTCTTTCC
Statistics
Matches: 327, Mismatches: 27, Indels: 20
0.87 0.07 0.05
Matches are distributed among these distances:
117 1 0.00
118 52 0.16
119 109 0.33
120 65 0.20
121 69 0.21
122 11 0.03
123 20 0.06
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (119 bp):
AAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA
TTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTACAAAA
Found at i:9023417 original size:17 final size:17
Alignment explanation
Indices: 9023397--9023430 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9023387 CTCAAAAATG
*
9023397 AAAAGAGAAAGAAAAGC
1 AAAAGAAAAAGAAAAGC
*
9023414 AAAAGAAAAATAAAAGC
1 AAAAGAAAAAGAAAAGC
9023431 CACACATGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAGC
Found at i:9023760 original size:10 final size:10
Alignment explanation
Indices: 9023745--9023777 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
9023735 GAAAAATGAG
9023745 AAAAGAAAAA
1 AAAAGAAAAA
9023755 AAAAGAAAAA
1 AAAAGAAAAA
9023765 AAAAGAGAAAA
1 AAAAGA-AAAA
9023776 AA
1 AA
9023778 TGAGAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:9023792 original size:16 final size:15
Alignment explanation
Indices: 9023733--9023800 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
9023723 TCAACACAGG
*
9023733 ATGAAAAATGAGAAA
1 ATGAAAAATGAAAAA
9023748 A-GAAAAA--AAAAGA
1 ATGAAAAATGAAAA-A
** *
9023761 AAAAAAAAGAGAAAAA
1 ATGAAAAA-TGAAAAA
9023777 ATGAGAAAATGAAAAA
1 ATGA-AAAATGAAAAA
9023793 ATGAAAAA
1 ATGAAAAA
9023801 AGAGATCCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
12 3 0.07
13 2 0.05
14 11 0.26
15 5 0.12
16 13 0.31
17 8 0.19
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.07
Consensus pattern (15 bp):
ATGAAAAATGAAAAA
Found at i:9023801 original size:16 final size:16
Alignment explanation
Indices: 9023771--9023801 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9023761 AAAAAAAAGA
*
9023771 GAAAAAATGAGAAAAT
1 GAAAAAATGAAAAAAT
9023787 GAAAAAATGAAAAAA
1 GAAAAAATGAAAAAA
9023802 GAGATCCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (16 bp):
GAAAAAATGAAAAAAT
Found at i:9025373 original size:8 final size:8
Alignment explanation
Indices: 9025358--9025461 Score: 146
Period size: 8 Copynumber: 13.5 Consensus size: 8
9025348 CTATGCTTGA
9025358 AAAAAATG
1 AAAAAATG
*
9025366 ACAAAATG
1 AAAAAATG
9025374 AAAAAAT-
1 AAAAAATG
9025381 AAAAAATG
1 AAAAAATG
*
9025389 ACAAAATG
1 AAAAAATG
9025397 AAAAAAATG
1 -AAAAAATG
9025406 -AAAAATG
1 AAAAAATG
9025413 -AAAAATG
1 AAAAAATG
9025420 -AAAAATG
1 AAAAAATG
9025427 AAAAAATG
1 AAAAAATG
9025435 AAAAAATG
1 AAAAAATG
9025443 -AAAAATG
1 AAAAAATG
9025450 AAAAAATG
1 AAAAAATG
9025458 AAAA
1 AAAA
9025462 TGAAGAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
7 35 0.40
8 46 0.52
9 7 0.08
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:9025384 original size:23 final size:23
Alignment explanation
Indices: 9025358--9025470 Score: 146
Period size: 23 Copynumber: 4.9 Consensus size: 23
9025348 CTATGCTTGA
9025358 AAAAAATGACAAAATGAAAAAAT-
1 AAAAAATGA-AAAATGAAAAAATG
9025381 AAAAAATGACAAAATGAAAAAAATG
1 AAAAAATGA-AAAATG-AAAAAATG
9025406 -AAAAATGAAAAATG-AAAAATG
1 AAAAAATGAAAAATGAAAAAATG
9025427 AAAAAATGAAAAAATG-AAAAATG
1 AAAAAATG-AAAAATGAAAAAATG
9025450 AAAAAATG-AAAATGAAGAAAA
1 AAAAAATGAAAAATGAA-AAAA
9025471 AAGTGAACAA
Statistics
Matches: 84, Mismatches: 0, Indels: 12
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.15
22 8 0.10
23 48 0.57
24 15 0.18
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (23 bp):
AAAAAATGAAAAATGAAAAAATG
Found at i:9025386 original size:15 final size:15
Alignment explanation
Indices: 9025358--9025470 Score: 115
Period size: 15 Copynumber: 7.4 Consensus size: 15
9025348 CTATGCTTGA
*
9025358 AAAAAATGACAAAATG
1 AAAAAAT-AAAAAATG
9025374 AAAAAATAAAAAATG
1 AAAAAATAAAAAATG
*
9025389 ACAAAATGAAAAAAATG
1 AAAAAAT--AAAAAATG
*
9025406 -AAAAATGAAAAATG
1 AAAAAATAAAAAATG
9025420 -AAAAATGAAAAAATG
1 AAAAAAT-AAAAAATG
*
9025435 AAAAAATGAAAAATG
1 AAAAAATAAAAAATG
*
9025450 AAAAAAT-GAAAATG
1 AAAAAATAAAAAATG
9025464 AAGAAAA
1 AA-AAAA
9025471 AAGTGAACAA
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
14 21 0.25
15 38 0.45
16 18 0.21
17 8 0.09
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAAAATG
Found at i:9026691 original size:87 final size:81
Alignment explanation
Indices: 9026507--9026993 Score: 414
Period size: 87 Copynumber: 6.0 Consensus size: 81
9026497 AAGTTCGTTA
* * *
9026507 CCTCTATTTAGAGGAGCAATTTACTTTTCAAA---GTGGTGCCTCTGTTTAAAGGAGCAATTTAA
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTT-A
*
9026569 TTTTTCAAAGTCGTGGT
65 CTTTTCAAAGTCGTGGT
9026586 ACCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAGTCGTGGTACCTCTTGTTTAGAGGAGCCAA
1 -CCTCTGTTTAGAGGAGCAATTTAC-TTTT-CAAAGTCGTGGTACCTC-TGTTTAGAGGAG-CAA
9026651 TTTACTTTTCAAAAGTCGTGGT
61 TTTACTTTTC-AAAGTCGTGGT
*
9026673 ACTCTGTTTAAGAGGAGCAATTTTACTTTTCAAAG--GTGGTACCTCTGTTTAGAGGAGCAATTT
1 CCTCTGTTT-AGAGGAGCAA-TTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTT
9026736 ACTTTTCAAAGTCGT-G-
64 ACTTTTCAAAGTCGTGGT
* * *
9026752 CCTCT-TTTA-A-GAACAATTTA-TTTTCCAAAGTCATGGT---GCTGTTTAGAGGA-C-ATTTA
1 CCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTT-
9026808 AC-TTTC--AGT-GTGGT
64 ACTTTTCAAAGTCGTGGT
* * * *
9026822 GCCTCTG-TTAAAGGAGCCCAATTTTACTTGTCAAAGTTTTCGTTG-CCCTCTGTTTAAGAGGAG
1 -CCTCTGTTTAGAGGAG--CAA-TTTACTTTTCAAAG---TCGTGGTACCTCTGTTT-AGAGGAG
9026885 CAATTTACTTTTCAAAGTCGATGGT
58 CAATTTACTTTTCAAAGTCG-TGGT
* * *
9026910 CCTCTGTTTAGAGGAGCAAATTTAACTTTTTC-AAGTTC-TGTTGCCGTCCTG-TTAGAGAAGCA
1 CCTCTGTTTAGAGGAGC-AATTT-AC-TTTTCAAAG-TCGTGGTACC-T-CTGTTTAGAGGAGCA
9026972 A-TTACTTTTCAAAAGTCGTGGT
60 ATTTACTTTTC-AAAGTCGTGGT
9026994 GGCCATCTGT
Statistics
Matches: 341, Mismatches: 20, Indels: 88
0.76 0.04 0.20
Matches are distributed among these distances:
68 2 0.01
69 4 0.01
71 16 0.05
72 4 0.01
73 18 0.05
74 9 0.03
75 8 0.02
76 14 0.04
77 4 0.01
78 3 0.01
79 8 0.02
80 24 0.07
81 18 0.05
82 23 0.07
83 15 0.04
84 32 0.09
85 30 0.09
86 40 0.12
87 48 0.14
88 21 0.06
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (81 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC
TTTTCAAAGTCGTGGT
Found at i:9026701 original size:43 final size:40
Alignment explanation
Indices: 9026507--9026993 Score: 417
Period size: 42 Copynumber: 12.0 Consensus size: 40
9026497 AAGTTCGTTA
* *
9026507 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTGGT-G-
1 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
* *
9026545 CCTCTGTTTAAAGGAGCAATTTAATTTTTCAAAGTCGTGGT
1 CCTCTGTTTAGAGGAGCAATTT-ACTTTTCAAAGTCGTGGT
9026586 ACCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAGTCGTGGT
1 -CCTCTGTTTAGAGGAGCAATTTAC-TTTT-CAAAGTCGTGGT
9026629 ACCTCTTGTTTAGAGGAGCCAATTTACTTTTCAAAAGTCGTGGT
1 -CCTC-TGTTTAGAGGAG-CAATTTACTTTTC-AAAGTCGTGGT
*
9026673 ACTCTGTTTAAGAGGAGCAATTTTACTTTTCAAAG--GTGGT
1 CCTCTGTTT-AGAGGAGCAA-TTTACTTTTCAAAGTCGTGGT
9026713 ACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-G-
1 -CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
* *
9026752 CCTCT-TTTA-A-GAACAATTTA-TTTTCCAAAGTCATGGT
1 CCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGT
*
9026789 --GCTGTTTAGAGGA-C-ATTTAAC-TTTC--AGT-GTGGT
1 CCTCTGTTTAGAGGAGCAATTT-ACTTTTCAAAGTCGTGGT
* * * *
9026822 GCCTCTG-TTAAAGGAGCCCAATTTTACTTGTCAAAGTTTTCGTTGC
1 -CCTCTGTTTAGAGGAG--CAA-TTTACTTTTCAAAG---TCGTGGT
9026868 CCTCTGTTTAAGAGGAGCAATTTACTTTTCAAAGTCGATGGT
1 CCTCTGTTT-AGAGGAGCAATTTACTTTTCAAAGTCG-TGGT
*
9026910 CCTCTGTTTAGAGGAGCAAATTTAACTTTTTC-AAGTTC-TGTT
1 CCTCTGTTTAGAGGAGC-AATTT-AC-TTTTCAAAG-TCGTGGT
*
9026952 GCCGTCCTG-TTAGAGAAGCAA-TTACTTTTCAAAAGTCGTGGT
1 -CC-T-CTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGT
9026994 GGCCATCTGT
Statistics
Matches: 375, Mismatches: 24, Indels: 96
0.76 0.05 0.19
Matches are distributed among these distances:
33 4 0.01
34 7 0.02
35 26 0.07
36 14 0.04
37 10 0.03
38 28 0.07
39 30 0.08
40 28 0.07
41 26 0.07
42 66 0.18
43 47 0.13
44 57 0.15
45 21 0.06
46 5 0.01
47 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (40 bp):
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
Found at i:9027026 original size:1 final size:1
Alignment explanation
Indices: 9027020--9027079 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
9027010 GAGCTTTGGT
* * * * * *
9027020 AAAAAAAAAAAAACAAAAAACAAAAAATAAAAAAATAAAAAAAAAAAAATAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9027080 TGTTGAGTTG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.05, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:9027039 original size:14 final size:14
Alignment explanation
Indices: 9027020--9027079 Score: 77
Period size: 15 Copynumber: 4.2 Consensus size: 14
9027010 GAGCTTTGGT
9027020 AAAAAAA-AAAAAA
1 AAAAAAATAAAAAA
* *
9027033 CAAAAAACAAAAAA
1 AAAAAAATAAAAAA
9027047 TAAAAAAATAAAAAA
1 -AAAAAAATAAAAAA
9027062 AAAAAAATAACAAAA
1 AAAAAAATAA-AAAA
9027077 AAA
1 AAA
9027080 TGTTGAGTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
13 6 0.15
14 16 0.39
15 19 0.46
ACGTcount: A:0.90, C:0.05, G:0.00, T:0.05
Consensus pattern (14 bp):
AAAAAAATAAAAAA
Found at i:9027281 original size:12 final size:12
Alignment explanation
Indices: 9027264--9027348 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
9027254 TTTTTGTATT
9027264 TTATTTATTGTA
1 TTATTTATTGTA
*
9027276 TTATTTATTATTA
1 TTATTTATT-GTA
9027289 TTA-TTA-TGTA
1 TTATTTATTGTA
*
9027299 TTA-ATATATGTA
1 TTATTTAT-TGTA
9027311 TATATTTATT-TA
1 T-TATTTATTGTA
9027323 TTTATTT-TT-TA
1 -TTATTTATTGTA
*
9027334 ATATTTATGTGTA
1 TTATTTAT-TGTA
9027347 TT
1 TT
9027349 TTATTATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
10 12 0.21
11 6 0.10
12 25 0.43
13 12 0.21
14 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (12 bp):
TTATTTATTGTA
Found at i:9027340 original size:18 final size:18
Alignment explanation
Indices: 9027317--9027364 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
9027307 TGTATATATT
*
9027317 TATTTATTTATTTTTTAA
1 TATTTATGTATTTTTTAA
* * *
9027335 TATTTATGTGTATTTTAT
1 TATTTATGTATTTTTTAA
9027353 TATTTATGTATT
1 TATTTATGTATT
9027365 ATTACTAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTATGTATTTTTTAA
Found at i:9027416 original size:53 final size:53
Alignment explanation
Indices: 9027345--9027460 Score: 141
Period size: 53 Copynumber: 2.2 Consensus size: 53
9027335 TATTTATGTG
*
9027345 TATTTTA-TTATTTATGTATTATTACTAATATGT-A-TATATATAT-ATTTTATTT
1 TATTTTATTTATTTATGTATTATTACT--TATCTAATTATATATATGATTTT-TTT
* *
9027397 TATTTTATTTATTTTTGTATTTTTACTTATCTAATTATATATATGATTTTTTT
1 TATTTTATTTATTTATGTATTATTACTTATCTAATTATATATATGATTTTTTT
9027450 TATTATTATTT
1 TATT-TTATTT
9027461 TTATCCTATA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
51 4 0.07
52 8 0.14
53 33 0.59
54 11 0.20
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (53 bp):
TATTTTATTTATTTATGTATTATTACTTATCTAATTATATATATGATTTTTTT
Found at i:9028502 original size:60 final size:59
Alignment explanation
Indices: 9028435--9028898 Score: 636
Period size: 60 Copynumber: 7.8 Consensus size: 59
9028425 GAATAAAAAA
*
9028435 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
9028495 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
9028552 TTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTC-CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
9028612 TTCC--AAAAAATATTTTTGGGGAATAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
9028669 TTCAAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
1 TTC-CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
*
9028734 TTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ** *
9028793 TTTCAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
9028855 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
9028899 TCTACAAAAA
Statistics
Matches: 362, Mismatches: 27, Indels: 31
0.86 0.06 0.07
Matches are distributed among these distances:
57 101 0.28
58 5 0.01
59 50 0.14
60 140 0.39
61 2 0.01
62 7 0.02
63 2 0.01
64 44 0.12
65 11 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:9028572 original size:117 final size:118
Alignment explanation
Indices: 9028439--9028898 Score: 714
Period size: 117 Copynumber: 3.9 Consensus size: 118
9028429 AAAAAATTCC
*
9028439 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCCAAAA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAA
*
9028503 AATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAATTTCA
66 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
9028556 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCCAAAA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAA
*
9028620 AATATTTTTGGGGAATAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
66 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
*
9028673 AAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATAAATTTC-
* *
9028738 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-
61 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAA-TTTCA
***
9028797 AAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCA
1 AAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAATTTCCA
9028860 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
63 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
9028899 TCTACAAAAA
Statistics
Matches: 320, Mismatches: 12, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
117 159 0.50
119 45 0.14
120 3 0.01
121 7 0.02
122 11 0.03
123 1 0.00
124 90 0.28
125 4 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (118 bp):
AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTCCAAAA
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
Found at i:9030306 original size:20 final size:21
Alignment explanation
Indices: 9030274--9030312 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
9030264 TTGGCTCATC
9030274 TTTTTAGATTTTT-TTTTTAT
1 TTTTTAGATTTTTCTTTTTAT
9030294 TTTTTAG-TCTTTTCTTTTT
1 TTTTTAGAT-TTTTCTTTTT
9030313 GTTTCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTTTAGATTTTTCTTTTTAT
Found at i:9030306 original size:21 final size:20
Alignment explanation
Indices: 9030274--9030312 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9030264 TTGGCTCATC
*
9030274 TTTTTAGATTTTTTTTTTAT
1 TTTTTAGATTTTCTTTTTAT
*
9030294 TTTTTAGTCTTTTCTTTTT
1 TTTTTAG-ATTTTCTTTTT
9030313 GTTTCAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTAGATTTTCTTTTTAT
Found at i:9034328 original size:53 final size:51
Alignment explanation
Indices: 9034264--9034366 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 51
9034254 TGATACTTTC
*
9034264 AACTTTTCCTCAAAAATAT-TTTTCTTAAAAATTTCATTTTTAAAGAAAATTTT
1 AACTTTTCCTCAAAAA-ATCTTTT-TTAAAAATTTCA-TTTCAAAGAAAATTTT
* *
9034317 AACTTTTCCTCAAAAAATCCTTTTTTGAAAATTTTATTTCAAAGAAAATT
1 AACTTTTCCTCAAAAAAT-CTTTTTTAAAAATTTCATTTCAAAGAAAATT
9034367 GATACTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
52 15 0.33
53 26 0.58
54 4 0.09
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.45
Consensus pattern (51 bp):
AACTTTTCCTCAAAAAATCTTTTTTAAAAATTTCATTTCAAAGAAAATTTT
Found at i:9034411 original size:60 final size:60
Alignment explanation
Indices: 9034317--9034431 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
9034307 AGAAAATTTT
9034317 AACTTTTCCTCAAAAAATCCTTTTTTGAAAATTTTATTTCAAAG-AAAATTGATACTTTC
1 AACTTTTCCTCAAAAAATCCTTTTTTGAAAATTTTATTTCAAAGAAAAATTGATACTTTC
* * ** **
9034376 AACTTTTCCTTAAAATATTTCC-TTTTTGACGATTTTATTTTGAAGAAAAATTGATA
1 AACTTTTCCTCAAAA-A-ATCCTTTTTTGAAAATTTTATTTCAAAGAAAAATTGATA
9034432 TTTTTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 14 0.30
60 20 0.43
61 13 0.28
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (60 bp):
AACTTTTCCTCAAAAAATCCTTTTTTGAAAATTTTATTTCAAAGAAAAATTGATACTTTC
Found at i:9034443 original size:31 final size:31
Alignment explanation
Indices: 9034408--9034468 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
9034398 TTTTTGACGA
*
9034408 TTTTATT-TTGAAGAAAAATTGATATTTTTAT
1 TTTTATTCTT-AAGAAAAATTGATACTTTTAT
*
9034439 TTTTATTCTTAAGGAAAATTGATACTTTTA
1 TTTTATTCTTAAGAAAAATTGATACTTTTA
9034469 ACTTTTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (31 bp):
TTTTATTCTTAAGAAAAATTGATACTTTTAT
Found at i:9034502 original size:58 final size:58
Alignment explanation
Indices: 9034439--9034730 Score: 246
Period size: 58 Copynumber: 4.8 Consensus size: 58
9034429 ATATTTTTAT
* * *
9034439 TTTTATTCTTAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAAAACTTTTTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTGAAAA
* * * **
9034497 ATTTATTTTTAAGAAAAATTGATAATTTCAAATTTTCCTCAAAAATGCTTTTTG-AAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTGAAAA
* * * * * **
9034554 TTTTGTTTCTAAGAAAAATTGCTACTTTCAATTTTTTCTCAAAATATATTTTTATAATTGAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-A-A-ACTT-T--TTGAAAA
* *
9034618 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTTTTTTTTGTAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-A---AC---TTTTTG-AAA
*
9034683 T
58 A
* * *
9034684 TTTTATTTTAAAG-AAAATTGATACCTTTCAGCTTTTCCTAAAAAAAA
1 TTTTATTTTTAAGAAAAATTGATA-CTTTCAACTTTTCCTCAAAAAAA
9034731 AAAAATTTTA
Statistics
Matches: 190, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
57 40 0.21
58 47 0.25
60 2 0.01
61 1 0.01
63 6 0.03
64 41 0.22
65 16 0.08
66 34 0.18
67 1 0.01
68 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (58 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTGAAAA
Found at i:9034616 original size:63 final size:63
Alignment explanation
Indices: 9034439--9034728 Score: 221
Period size: 64 Copynumber: 4.7 Consensus size: 63
9034429 ATATTTTTAT
* * **
9034439 TTTTA-TTCTTAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAA-A-ACTT-T--TTGAAAA
1 TTTTATTTC-TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTATAATTGAAAA
* * * * **
9034497 ATTTATTTTTAAGAAAAATTGATAATTTCAAATTTTCCTC-AAAA-ATGCTT-T--TTG-AAA
1 TTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTATAATTGAAAA
* * * *
9034554 TTTTGTTTCTAAGAAAAATTGCTACTTTCAATTTTTTCTCAAAATATATTTTTATAATTGAAAA
1 TTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTATAATTGAAAA
* * * **
9034618 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTCTTTTTTTTGTAAA
1 TTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTT-TTATAATTG-AAA
*
9034683 T
63 A
* *
9034684 TTTTATTT-TAA-AGAAAATTGATACCTTTCAGCTTTTCCTAAAAAA
1 TTTTATTTCTAAGA-AAAATTGATA-CTTTCAACTTTTCCTCAAAAA
9034729 AAAAAAATTT
Statistics
Matches: 189, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
57 41 0.22
58 41 0.22
59 3 0.02
60 4 0.02
61 1 0.01
63 6 0.03
64 44 0.23
65 19 0.10
66 30 0.16
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (63 bp):
TTTTATTTCTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTATAATTGAAAA
Found at i:9036085 original size:85 final size:85
Alignment explanation
Indices: 9035865--9036309 Score: 357
Period size: 85 Copynumber: 5.2 Consensus size: 85
9035855 TCGTAATCTA
* * * * * *
9035865 AAATGAATAACTTGGACTGAA-CTGAATAAGGATCTAGCATAGG-CTGAAATCTAAAA-AAAATG
1 AAATAAATAACTTGGACT-AAGCTGAAGAAAGATCTGGCATAGGTC-GAAACCCAAAACAAAATG
* * *
9035927 ACATGGATTGAACAGAAATCTG
64 ACCTGGATTGAACCGAAGTCTG
* * * * * *
9035949 AAATAAA-CACTTAGACTGAATC-AAAGAAGGATCTGACATAGGTCGAAACCCAAAACAAAATGA
1 AAATAAATAACTTGGACT-AAGCTGAAGAAAGATCTGGCATAGGTCGAAACCCAAAACAAAATGA
* * *
9036012 CTTAGATTGAATCGAAGTCTG
65 CCTGGATTGAACCGAAGTCTG
* * *
9036033 AAATAAATAAGTTGGATTAAGCTGAAGAAAGATCTGGCATAGGCCGAAACCCAAAAACAAAATGA
1 AAATAAATAACTTGGACTAAGCTGAAGAAAGATCTGGCATAGGTCGAAACCC-AAAACAAAATGA
* *
9036098 CCTGGATTGAACCGAAATTTG
65 CCTGGATTGAACCGAAGTCTG
* * * * * * *
9036119 AAATAAACAATTTGGACTAAGCTGAAGAAGGATCTGGCATAAGTCAAAATCCAAAACAAAGTGAC
1 AAATAAATAACTTGGACTAAGCTGAAGAAAGATCTGGCATAGGTCGAAACCCAAAACAAAATGAC
* *
9036184 CTGGACTGAACCAAAGTCTG
66 CTGGATTGAACCGAAGTCTG
* * * ** **
9036204 AAATGAATATCTTGGACTAAG-TCGAAGAAAGAT-TTG-ATAGAAGTTAAAATTCAAAACAAAAT
1 AAATAAATAACTTGGACTAAGCT-GAAGAAAGATCTGGCATAG--GTCGAAACCCAAAACAAAAT
* * * *
9036266 GACATGGACTAAATCGAAGTCTG
63 GACCTGGATTGAACCGAAGTCTG
** *
9036289 AAAGGAATAACTTAGACTAAG
1 AAATAAATAACTTGGACTAAG
9036310 AAAGATTTGA
Statistics
Matches: 294, Mismatches: 58, Indels: 17
0.80 0.16 0.05
Matches are distributed among these distances:
83 39 0.13
84 44 0.15
85 139 0.47
86 72 0.24
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (85 bp):
AAATAAATAACTTGGACTAAGCTGAAGAAAGATCTGGCATAGGTCGAAACCCAAAACAAAATGAC
CTGGATTGAACCGAAGTCTG
Found at i:9036125 original size:86 final size:85
Alignment explanation
Indices: 9035859--9036232 Score: 364
Period size: 85 Copynumber: 4.4 Consensus size: 85
9035849 ACTGAATCGT
* * * * * * *
9035859 AATCTAAAATGAATAACTTGGACTGAA-CTGAATAAGGATCTAGCATAGGCTGAAATCTAAAA-A
1 AATCTGAAATAAATAACTTGGACT-AAGCTGAAGAAGGATCTGGCATAGGCCGAAACCCAAAACA
* *
9035922 AAATGACATGGATTGAACAGA
65 AAATGACCTGGATTGAACCGA
* * * * * *
9035943 AATCTGAAATAAA-CACTTAGACTGAATC-AAAGAAGGATCTGACATAGGTCGAAACCCAAAACA
1 AATCTGAAATAAATAACTTGGACT-AAGCTGAAGAAGGATCTGGCATAGGCCGAAACCCAAAACA
* * *
9036006 AAATGACTTAGATTGAATCGA
65 AAATGACCTGGATTGAACCGA
* * * *
9036027 AGTCTGAAATAAATAAGTTGGATTAAGCTGAAGAAAGATCTGGCATAGGCCGAAACCCAAAAACA
1 AATCTGAAATAAATAACTTGGACTAAGCTGAAGAAGGATCTGGCATAGGCCGAAACCC-AAAACA
9036092 AAATGACCTGGATTGAACCGA
65 AAATGACCTGGATTGAACCGA
* * * * * * *
9036113 AATTTGAAATAAACAATTTGGACTAAGCTGAAGAAGGATCTGGCATAAGTCAAAATCCAAAACAA
1 AATCTGAAATAAATAACTTGGACTAAGCTGAAGAAGGATCTGGCATAGGCCGAAACCCAAAACAA
* *
9036178 AGTGACCTGGACTGAACC-A
66 AATGACCTGGATTGAACCGA
* *
9036197 AAGTCTGAAATGAATATCTTGGACTAAG-TCGAAGAA
1 AA-TCTGAAATAAATAACTTGGACTAAGCT-GAAGAA
9036233 AGATTTGATA
Statistics
Matches: 237, Mismatches: 46, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
83 36 0.15
84 49 0.21
85 80 0.34
86 72 0.30
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.21
Consensus pattern (85 bp):
AATCTGAAATAAATAACTTGGACTAAGCTGAAGAAGGATCTGGCATAGGCCGAAACCCAAAACAA
AATGACCTGGATTGAACCGA
Found at i:9036205 original size:171 final size:168
Alignment explanation
Indices: 9035809--9036236 Score: 432
Period size: 171 Copynumber: 2.5 Consensus size: 168
9035799 ACCCAAAAAT
* * * * * * ** * *
9035809 GGATCCGACATAAGCCAAAATCCAATATAAAATGACCTAAACTGAATCGTAA-TCTAAAATGAAT
1 GGATCTGACATAAGTCAAAACCCAAAACAAAATGACCTAGACTGAA-CCAAAGTCTGAAATAAAT
* * * * *
9035873 AACTTGGACTGAA-CTGAATAAGGATCTAGCATAGGCTGAAATCTAAAAAAAATGACATGGATTG
65 AACTTGGACT-AAGCTGAAGAAAGATCTAGCATAGGCCGAAACCAAAAAAAAATGACATGGATTG
*
9035937 AACAGAAATCTGAAATAAACACTTAGACTGAATCAAAGAA
129 AACAGAAATCTGAAATAAACACTTAGACTGAAGCAAAGAA
* * * * * *
9035977 GGATCTGACATAGGTCGAAACCCAAAACAAAATGACTTAGATTGAATCGAAGTCTGAAATAAATA
1 GGATCTGACATAAGTCAAAACCCAAAACAAAATGACCTAGACTGAACCAAAGTCTGAAATAAATA
* * * *
9036042 AGTTGGATTAAGCTGAAGAAAGATCTGGCATAGGCCGAAACCCAAAAACAAAATGACCTGGATTG
66 ACTTGGACTAAGCTGAAGAAAGATCTAGCATAGGCCGAAA-CCAAAAA-AAAATGACATGGATTG
* * * * *
9036107 AACCGAAATTTGAAATAAACAATTTGGACT-AAGCTGAAGAA
129 AACAGAAATCTGAAATAAAC-ACTTAGACTGAAGC-AAAGAA
* * * * *
9036148 GGATCTGGCATAAGTCAAAATCCAAAACAAAGTGACCTGGACTGAACCAAAGTCTGAAATGAATA
1 GGATCTGACATAAGTCAAAACCCAAAACAAAATGACCTAGACTGAACCAAAGTCTGAAATAAATA
*
9036213 TCTTGGACTAAG-TCGAAGAAAGAT
66 ACTTGGACTAAGCT-GAAGAAAGAT
9036237 TTGATAGAAG
Statistics
Matches: 209, Mismatches: 44, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
167 4 0.02
168 78 0.37
169 5 0.02
170 37 0.18
171 85 0.41
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.21
Consensus pattern (168 bp):
GGATCTGACATAAGTCAAAACCCAAAACAAAATGACCTAGACTGAACCAAAGTCTGAAATAAATA
ACTTGGACTAAGCTGAAGAAAGATCTAGCATAGGCCGAAACCAAAAAAAAATGACATGGATTGAA
CAGAAATCTGAAATAAACACTTAGACTGAAGCAAAGAA
Found at i:9039368 original size:1 final size:1
Alignment explanation
Indices: 9039362--9039386 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9039352 ATTGTTTTAT
9039362 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
9039387 CCCACATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9039707 original size:60 final size:56
Alignment explanation
Indices: 9039626--9039776 Score: 178
Period size: 60 Copynumber: 2.6 Consensus size: 56
9039616 AAAATTTTTT
*
9039626 TTTATTCTTAAGAAAAATTGATACTTTCAACTTTTTTCTCAAAAACGCCTTTTAAAAA
1 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTT-TCAAAAACG-CTTTTAAAAA
* ** * **
9039684 TTGTTATTTTTAAAAAAAATTGATACTTTCAACTTTCCTTCAAAAATGCTTTTCCAAA
1 -T-TTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAACGCTTTTAAAAA
**
9039742 TTTCGTTTTAAGAAAAATTGATACTTTCAA-TTTTT
1 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTT
9039777 CCCTCCAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
55 3 0.04
56 26 0.33
57 1 0.01
58 8 0.10
59 9 0.11
60 32 0.41
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (56 bp):
TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTTCAAAAACGCTTTTAAAAA
Found at i:9039882 original size:68 final size:66
Alignment explanation
Indices: 9039733--9039930 Score: 200
Period size: 68 Copynumber: 2.9 Consensus size: 66
9039723 TCAAAAATGC
* ** * *
9039733 TTTTCCAAATTTCGTTTTAAGAAAAATTGATACTTTCAATTTTTCCCTCCAAAATAGTTTTTTAT
1 TTTTGCAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTT-CCTCAAAAATAGTTTTTTAT
9039798 TA
65 TA
** * * *
9039800 AATTGGAAATTTTTATTTTAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTCTTTT
1 TTTTGCAAA-TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-GTT-TTTT
* *
9039865 TTTT
63 ATTA
* * * *
9039869 TTTTGCAAATTTTATTTTAA-AGAAAATTGATACCTTCAACTTTTCCTAAAAAAAAATTTTTT
1 TTTTGCAAATTTTATTTTAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTT
9039931 TAGAATTTTA
Statistics
Matches: 107, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
66 4 0.04
67 18 0.17
68 73 0.68
69 12 0.11
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (66 bp):
TTTTGCAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATAGTTTTTTATT
A
Found at i:9042845 original size:31 final size:32
Alignment explanation
Indices: 9042807--9042870 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
9042797 AAAAGACATA
*
9042807 TGAAATCTAGATTACTTTTGACT-GTGGAGGT
1 TGAAATCTAGATTACTTTTGACTGGTAGAGGT
*
9042838 TGAAATCTTGATTACTTTTGACTGGTAGAGGT
1 TGAAATCTAGATTACTTTTGACTGGTAGAGGT
9042870 T
1 T
9042871 TACGTGAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (32 bp):
TGAAATCTAGATTACTTTTGACTGGTAGAGGT
Found at i:9043298 original size:14 final size:15
Alignment explanation
Indices: 9043281--9043311 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9043271 ATCCAAAAAA
9043281 TTTAATATTTA-AAT
1 TTTAATATTTATAAT
9043295 TTTAATATTTATAAT
1 TTTAATATTTATAAT
9043310 TT
1 TT
9043312 CTTTCATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTAATATTTATAAT
Found at i:9043843 original size:14 final size:15
Alignment explanation
Indices: 9043824--9043852 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9043814 TATTTATTAA
9043824 ATTTAAAATT-TTTT
1 ATTTAAAATTATTTT
9043838 ATTTAAAATTATTTT
1 ATTTAAAATTATTTT
9043853 TATAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTAAAATTATTTT
Found at i:9045464 original size:16 final size:16
Alignment explanation
Indices: 9045439--9045479 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9045429 ACTGATTTTT
*
9045439 TTTTAAATTATA-ATTA
1 TTTTATATTATATA-TA
9045455 TTTTATATTATATATA
1 TTTTATATTATATATA
9045471 TTTTATATT
1 TTTTATATT
9045480 TTTAAACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTATATTATATATA
Found at i:9047779 original size:15 final size:15
Alignment explanation
Indices: 9047759--9047791 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9047749 CATTCCATAG
9047759 AAGGTGAAGTACAGA
1 AAGGTGAAGTACAGA
*
9047774 AAGGTGAAGTACATA
1 AAGGTGAAGTACAGA
9047789 AAG
1 AAG
9047792 AAGATATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.30, T:0.15
Consensus pattern (15 bp):
AAGGTGAAGTACAGA
Found at i:9053866 original size:76 final size:76
Alignment explanation
Indices: 9053719--9053866 Score: 215
Period size: 76 Copynumber: 1.9 Consensus size: 76
9053709 AACATAAATT
* * * * *
9053719 ATAAAACGTATTTAAATTTTAAATACAAACACAATATATTTATTATACATATTAGATATGACACA
1 ATAAAACATATTTAAATTTTAAACACAAACACAATATATTTATTATACATATTACACACGACACA
9053784 ACACAATAAAC
66 ACACAATAAAC
* * *
9053795 ATAAAACATATTTAAATTTTAAACACAAACATAATATATTTATTATACGTATTACACACGACATA
1 ATAAAACATATTTAAATTTTAAACACAAACACAATATATTTATTATACATATTACACACGACACA
*
9053860 ATACAAT
66 ACACAAT
9053867 TAATTATGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 63 1.00
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (76 bp):
ATAAAACATATTTAAATTTTAAACACAAACACAATATATTTATTATACATATTACACACGACACA
ACACAATAAAC
Found at i:9054148 original size:18 final size:17
Alignment explanation
Indices: 9054121--9054159 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
9054111 CCATTTAGTA
9054121 TAAA-TTTAATATATATT
1 TAAATTTTAATATATA-T
9054138 TAAATTTTAATATATAT
1 TAAATTTTAATATATAT
9054155 TAAAT
1 TAAAT
9054160 AACTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATTTTAATATATAT
Found at i:9054160 original size:29 final size:30
Alignment explanation
Indices: 9054114--9054180 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
9054104 CTAATACCCA
* *
9054114 TTTAGTATAAATTTAAT-A-TATATTTAAAT
1 TTTAATATAAATTAAATAACTATA-TTAAAT
* *
9054143 TTTAATATATATTAAATAACTATATTAATT
1 TTTAATATAAATTAAATAACTATATTAAAT
9054173 TTTAATAT
1 TTTAATAT
9054181 CAAACTCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.44
30 14 0.44
31 4 0.12
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
TTTAATATAAATTAAATAACTATATTAAAT
Found at i:9054444 original size:17 final size:17
Alignment explanation
Indices: 9054424--9054456 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9054414 ATAAATATAA
9054424 AATATATTAAATGTGTT
1 AATATATTAAATGTGTT
*
9054441 AATATGTTAAATGTGT
1 AATATATTAAATGTGT
9054457 ATTTATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (17 bp):
AATATATTAAATGTGTT
Found at i:9056228 original size:21 final size:22
Alignment explanation
Indices: 9056189--9056238 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
9056179 TTTGTTTTTA
*
9056189 AAATAAAAATTTTAAATTA-AT
1 AAATTAAAATTTTAAATTATAT
* **
9056210 TAATTAAAATTTTTTATTATAT
1 AAATTAAAATTTTAAATTATAT
9056232 AAATTAA
1 AAATTAA
9056239 GTATAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTAAAATTTTAAATTATAT
Found at i:9057474 original size:24 final size:23
Alignment explanation
Indices: 9057447--9057496 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
9057437 ATTTATTAAA
9057447 TTTTAATTTTTTGCATT-TATATTT
1 TTTTAATTTTTTG-ATTGTA-ATTT
*
9057471 TTTTTATTTTTTGATTGTAATTT
1 TTTTAATTTTTTGATTGTAATTT
9057494 TTT
1 TTT
9057497 GTATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (23 bp):
TTTTAATTTTTTGATTGTAATTT
Found at i:9057493 original size:23 final size:24
Alignment explanation
Indices: 9057447--9057501 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
9057437 ATTTATTAAA
*
9057447 TTTTAATTTTTTGCATTTATATTT
1 TTTTTATTTTTTGCATTTATATTT
9057471 TTTTTATTTTTTG-ATTGTA-ATTT
1 TTTTTATTTTTTGCATT-TATATTT
*
9057494 TTTGTATT
1 TTTTTATT
9057502 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 14 0.50
24 14 0.50
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (24 bp):
TTTTTATTTTTTGCATTTATATTT
Found at i:9057747 original size:1 final size:1
Alignment explanation
Indices: 9057741--9057772 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
9057731 TCTTGTGCAT
9057741 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9057773 CCTAGGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9058203 original size:3 final size:3
Alignment explanation
Indices: 9058197--9058223 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9058187 CCTGTAGTAG
9058197 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9058224 AAAACAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9060352 original size:16 final size:16
Alignment explanation
Indices: 9060331--9060366 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9060321 ATCATTAAAA
* *
9060331 ATTATCGTAAATTATC
1 ATTATCATAAATGATC
9060347 ATTATCATAAATGATC
1 ATTATCATAAATGATC
9060363 ATTA
1 ATTA
9060367 ATATTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTATCATAAATGATC
Found at i:9062031 original size:13 final size:13
Alignment explanation
Indices: 9062013--9062129 Score: 101
Period size: 13 Copynumber: 8.8 Consensus size: 13
9062003 ATTACATTTG
9062013 AAACCCTAAATCC
1 AAACCCTAAATCC
*
9062026 AAACCCCAAATCC
1 AAACCCTAAATCC
*
9062039 AAACCCTAAACCTC
1 AAACCCTAAATC-C
* * *
9062053 AAATCTTAAAACC
1 AAACCCTAAATCC
*
9062066 TAAACCCTAAATCA
1 -AAACCCTAAATCC
*
9062080 AAACTCTAAACTCC
1 AAACCCTAAA-TCC
* *
9062094 AAATCCTAAAT-A
1 AAACCCTAAATCC
*
9062106 AAAACCTCAAATCC
1 AAACCCT-AAATCC
9062120 AAACCCTAAA
1 AAACCCTAAA
9062130 CCTAACCTCA
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
12 6 0.07
13 40 0.49
14 35 0.43
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (13 bp):
AAACCCTAAATCC
Found at i:9062055 original size:20 final size:20
Alignment explanation
Indices: 9062026--9062132 Score: 85
Period size: 20 Copynumber: 5.3 Consensus size: 20
9062016 CCCTAAATCC
*
9062026 AAACCCCAAATCCAAACCCT
1 AAACCTCAAATCCAAACCCT
* *
9062046 AAACCTCAAATCTTAAAACCT
1 AAACCTCAAATC-CAAACCCT
* *
9062067 AAACC-CTAAATCAAAACTCT
1 AAACCTC-AAATCCAAACCCT
***
9062087 AAA-CTCCAAATCCTAAA-TAA
1 AAACCT-CAAATCC-AAACCCT
9062107 AAACCTCAAATCCAAACCCT
1 AAACCTCAAATCCAAACCCT
9062127 AAACCT
1 AAACCT
9062133 AACCTCAACC
Statistics
Matches: 68, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
19 4 0.06
20 42 0.62
21 22 0.32
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.18
Consensus pattern (20 bp):
AAACCTCAAATCCAAACCCT
Found at i:9062089 original size:41 final size:41
Alignment explanation
Indices: 9062017--9062130 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 41
9062007 CATTTGAAAC
* *
9062017 CCTAAATCC-AAACCCCAAATCCAAACCCTAAAC-CTCAAAT
1 CCTAAAACCTAAACCCCAAATCAAAACCCTAAACTC-CAAAT
* * *
9062057 CTTAAAACCTAAACCCTAAATCAAAACTCTAAACTCCAAAT
1 CCTAAAACCTAAACCCCAAATCAAAACCCTAAACTCCAAAT
* * *
9062098 CCTAAATA--AAAACCTCAAATCCAAACCCTAAAC
1 CCTAAA-ACCTAAACCCCAAATCAAAACCCTAAAC
9062131 CTAACCTCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 27 0.45
41 31 0.52
42 2 0.03
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (41 bp):
CCTAAAACCTAAACCCCAAATCAAAACCCTAAACTCCAAAT
Found at i:9063621 original size:3 final size:3
Alignment explanation
Indices: 9063613--9063649 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
9063603 AATATTTCAT
*
9063613 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9063650 AAAAAACTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9064087 original size:16 final size:16
Alignment explanation
Indices: 9064066--9064099 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9064056 CGATTAATTC
*
9064066 ATATAATTTTTTTAAA
1 ATATAATTTTTATAAA
9064082 ATATAATTTTTATAAA
1 ATATAATTTTTATAAA
9064098 AT
1 AT
9064100 TAAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATAATTTTTATAAA
Found at i:9064131 original size:23 final size:23
Alignment explanation
Indices: 9064100--9064144 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9064090 TTTATAAAAT
9064100 TAAAATTTA-AATCTTAATATTTA
1 TAAAATTTATAATCTTAA-ATTTA
* *
9064123 TAAATTTTATTATCTTAAATTT
1 TAAAATTTATAATCTTAAATTT
9064145 TGATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAAATTTATAATCTTAAATTTA
Found at i:9064722 original size:15 final size:16
Alignment explanation
Indices: 9064690--9064725 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9064680 TTTGGACAGA
9064690 TTTATCAGTTCTTTTC
1 TTTATCAGTTCTTTTC
*
9064706 TTTATCATTTC-TTTC
1 TTTATCAGTTCTTTTC
9064721 TTTAT
1 TTTAT
9064726 TCTATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.14, C:0.17, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATCAGTTCTTTTC
Found at i:9066218 original size:15 final size:15
Alignment explanation
Indices: 9066198--9066230 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9066188 CATTCCATAG
9066198 AAGGTGAAGTACAGA
1 AAGGTGAAGTACAGA
*
9066213 AAGGTGAAGTACATA
1 AAGGTGAAGTACAGA
9066228 AAG
1 AAG
9066231 AAGATATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.30, T:0.15
Consensus pattern (15 bp):
AAGGTGAAGTACAGA
Found at i:9073354 original size:21 final size:21
Alignment explanation
Indices: 9073330--9073373 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9073320 ACTCTTTCCC
*
9073330 AACTTGGATTTTGTGCAGACA
1 AACTTAGATTTTGTGCAGACA
*
9073351 AACTTAGATTTTGTGCGGACA
1 AACTTAGATTTTGTGCAGACA
9073372 AA
1 AA
9073374 ATCCAATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (21 bp):
AACTTAGATTTTGTGCAGACA
Found at i:9073803 original size:15 final size:16
Alignment explanation
Indices: 9073783--9073814 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9073773 TAAATTTTGA
9073783 TATTTTT-TAAAAAAT
1 TATTTTTATAAAAAAT
9073798 TATTTTTATAAAAAAT
1 TATTTTTATAAAAAAT
9073814 T
1 T
9073815 TTGATAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTTATAAAAAAT
Found at i:9074299 original size:25 final size:25
Alignment explanation
Indices: 9074271--9074323 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
9074261 TGATGCTTAG
9074271 ATGACATAGTTGCTGACCTAGCCAT
1 ATGACATAGTTGCTGACCTAGCCAT
9074296 ATGACATAGTTGCTGACCTAGCCAT
1 ATGACATAGTTGCTGACCTAGCCAT
9074321 ATG
1 ATG
9074324 TTGAACAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (25 bp):
ATGACATAGTTGCTGACCTAGCCAT
Found at i:9074842 original size:21 final size:22
Alignment explanation
Indices: 9074818--9074860 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9074808 TTCAAAATTG
9074818 AATTCA-TGAT-TGATTCATTTT
1 AATTCATTGATGTGATT-ATTTT
*
9074839 AATTTATTGATGTGATTATTTT
1 AATTCATTGATGTGATTATTTT
9074861 TTAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (22 bp):
AATTCATTGATGTGATTATTTT
Found at i:9075758 original size:3 final size:3
Alignment explanation
Indices: 9075750--9075774 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9075740 AATATTTCAT
9075750 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9075775 ATATGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9079662 original size:22 final size:22
Alignment explanation
Indices: 9079604--9079666 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
9079594 ATATATTAAT
*
9079604 ATTTATAA-ATTATTTAAATTTA
1 ATTTA-AATATTATTTAATTTTA
**
9079626 ATTTAAATAAAATTTAATTTTA
1 ATTTAAATATTATTTAATTTTA
* *
9079648 ATTTTATTATTATTTAATT
1 ATTTAAATATTATTTAATT
9079667 AAATTCGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTAAATATTATTTAATTTTA
Found at i:9079982 original size:6 final size:6
Alignment explanation
Indices: 9079934--9079992 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
9079924 ACAAACTTAA
* *
9079934 TTAAAT TCAAA- TTAAATT TTAAAT ATCAAATT TTAAA- TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAA-T TTAAAT -TTAAA-T TTAAAT TTAAAT TTAAAT
9079983 TTAAAT TTAA
1 TTAAAT TTAA
9079993 TATGATATCG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 9 0.20
6 21 0.48
7 13 0.30
8 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAAAT
Done.