Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 33 of 295
Found at i:9245260 original size:100 final size:104
Alignment explanation
Indices: 9245081--9245330 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
9245071 TGATAATAAC
**
9245081 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
9245146 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
9245183 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
9245246 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
9245288 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
9245331 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:9245446 original size:13 final size:13
Alignment explanation
Indices: 9245425--9245456 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9245415 GCTTGGATCA
*
9245425 TCATCAAATAAAT
1 TCATAAAATAAAT
9245438 TCATAAAATAAAT
1 TCATAAAATAAAT
9245451 TCATAA
1 TCATAA
9245457 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:9245703 original size:30 final size:30
Alignment explanation
Indices: 9245668--9245725 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9245658 CCTCGACTCT
*
9245668 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
9245698 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
9245726 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:9247690 original size:42 final size:42
Alignment explanation
Indices: 9247631--9247714 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
9247621 GATGGAAAAA
*
9247631 TACCTTTAAAATCTTTAAAATCTGCCCAAATTCCAAATCTAG
1 TACCTTTAAAATCTTTAAAATCCGCCCAAATTCCAAATCTAG
*
9247673 TACCTTTAAAATCTTTAAAATCCGCCCAAATTTCAAATCTAG
1 TACCTTTAAAATCTTTAAAATCCGCCCAAATTCCAAATCTAG
9247715 AAATTTAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (42 bp):
TACCTTTAAAATCTTTAAAATCCGCCCAAATTCCAAATCTAG
Found at i:9248705 original size:50 final size:50
Alignment explanation
Indices: 9248646--9248745 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
9248636 CAATGTGAAG
9248646 TTTATAATGCCACTACGTCAACAAAGTAAATATAATTTCCAAACAATTAT
1 TTTATAATGCCACTACGTCAACAAAGTAAATATAATTTCCAAACAATTAT
9248696 TTTATAATGCCACTACGTCAACAAAGTAAATATAATTTCCAAACAATTAT
1 TTTATAATGCCACTACGTCAACAAAGTAAATATAATTTCCAAACAATTAT
9248746 ATGCAATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (50 bp):
TTTATAATGCCACTACGTCAACAAAGTAAATATAATTTCCAAACAATTAT
Found at i:9254514 original size:4 final size:4
Alignment explanation
Indices: 9254505--9254533 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
9254495 AGTATTAATA
9254505 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
9254534 ATCTTCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:9257303 original size:22 final size:23
Alignment explanation
Indices: 9257278--9257323 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9257268 AAAAGACAAC
*
9257278 TTTGCATT-CATGCAAAAACCAT
1 TTTGCATTACATACAAAAACCAT
* *
9257300 TTTGCTTTACGTACAAAAACCAT
1 TTTGCATTACATACAAAAACCAT
9257323 T
1 T
9257324 AAGGACAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (23 bp):
TTTGCATTACATACAAAAACCAT
Found at i:9257350 original size:33 final size:33
Alignment explanation
Indices: 9257298--9257373 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
9257288 TGCAAAAACC
9257298 ATTTTGCTTTACGTACAAAAACCATTAAGGACA
1 ATTTTGCTTTACGTACAAAAACCATTAAGGACA
* * *
9257331 ATTTTTCTTTGCGTCCAAAAACCATTAAGGACA
1 ATTTTGCTTTACGTACAAAAACCATTAAGGACA
9257364 ATATTTGCTT
1 AT-TTTGCTT
9257374 CTATTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 32 0.84
34 6 0.16
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTTTGCTTTACGTACAAAAACCATTAAGGACA
Found at i:9263095 original size:50 final size:51
Alignment explanation
Indices: 9263018--9263146 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
9263008 GACCATGGCA
*
9263018 ACAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
9263069 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
9263119 ACAAGTGAAAAGTGGTAGCTTCTGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
9263147 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:9263160 original size:31 final size:31
Alignment explanation
Indices: 9263122--9263270 Score: 255
Period size: 31 Copynumber: 4.8 Consensus size: 31
9263112 ACAAATGACA
*
9263122 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
9263153 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
9263184 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9263215 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9263246 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
9263271 AAGTGACAAG
Statistics
Matches: 112, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
30 2 0.02
31 108 0.96
32 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:9263368 original size:47 final size:46
Alignment explanation
Indices: 9263299--9263418 Score: 161
Period size: 47 Copynumber: 2.6 Consensus size: 46
9263289 GATTTCCGTT
*
9263299 TAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTATT-GTA
1 TAAGACCATATCTGGGATATGGCATCGGTGAGATATATG--ATTCGTA
* * *
9263346 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTG
1 TAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATTCGTA
* *
9263392 TAAGACCATAGCTGGGCTATGGCATCG
1 TAAGACCATATCTGGGATATGGCATCG
9263419 ATATATGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 3 0.05
46 26 0.40
47 36 0.55
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (46 bp):
TAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATTCGTA
Found at i:9263447 original size:42 final size:43
Alignment explanation
Indices: 9263389--9263503 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
9263379 TATGTGATTC
*
9263389 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
9263431 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
9263473 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
9263504 GAAAACGAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:9267446 original size:3 final size:3
Alignment explanation
Indices: 9267438--9267465 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9267428 TTTTGTTTTC
9267438 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9267466 GTAGTAGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9267470 original size:3 final size:3
Alignment explanation
Indices: 9267464--9267524 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
9267454 TTATTATTAT
9267464 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
9267512 TAG TAG TAG TAG T
1 TAG TAG TAG TAG T
9267525 TTAGTTAATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:9279138 original size:15 final size:17
Alignment explanation
Indices: 9279120--9279152 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9279110 TTTAAAAATA
9279120 AAAT-AATAT-AAAAAC
1 AAATAAATATCAAAAAC
9279135 AAATAAATATCAAAAAC
1 AAATAAATATCAAAAAC
9279152 A
1 A
9279153 CTCGTAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 5 0.31
17 7 0.44
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAATATCAAAAAC
Found at i:9282386 original size:14 final size:14
Alignment explanation
Indices: 9282367--9282399 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9282357 AAATAACATA
9282367 CGAGTTAGGTAAAT
1 CGAGTTAGGTAAAT
9282381 CGAGTTAGGTAAAT
1 CGAGTTAGGTAAAT
9282395 C-AGTT
1 CGAGTT
9282400 TGAACTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (14 bp):
CGAGTTAGGTAAAT
Found at i:9283997 original size:34 final size:34
Alignment explanation
Indices: 9283945--9284023 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
9283935 GCAAGGTAAG
* *
9283945 GAGCTCGCAGTCTCGGTGAGCTCGCGGATATAAT
1 GAGCTCGCAGTATCGGTGAGCTCGCAGATATAAT
* * ** *
9283979 GAGCTCGTAGTATTGGTGAGCTTTCAGATATAGT
1 GAGCTCGCAGTATCGGTGAGCTCGCAGATATAAT
*
9284013 GAGCTCACAGT
1 GAGCTCGCAGT
9284024 GTTGAAGTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (34 bp):
GAGCTCGCAGTATCGGTGAGCTCGCAGATATAAT
Found at i:9284800 original size:87 final size:86
Alignment explanation
Indices: 9284654--9284829 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 86
9284644 ATTTATCTCC
9284654 TTAGGTTGTATTTAAGACACTAAAACGAAAATAAATGGGACTTGTGGATTTAAAAATTTTTACCA
1 TTAGGTTGTATTTAAGACACTAAAACGAAAATAAATGGGACTTGTGGATTTAAAAATTTTTACCA
9284719 AATAATGTCTTAAAATATATAA
66 AATAAT-TCTTAAAATATATAA
9284741 TTAGGTTGTATTTAAGACACTAAAACGAAAATAAATGGGACTTGTGGATTTAAAAATTTTTACCA
1 TTAGGTTGTATTTAAGACACTAAAACGAAAATAAATGGGACTTGTGGATTTAAAAATTTTTACCA
9284806 AATAATTCTTAAAATATATAA
66 AATAATTCTTAAAATATATAA
9284827 TTA
1 TTA
9284830 TTATAATATT
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 18 0.20
87 71 0.80
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (86 bp):
TTAGGTTGTATTTAAGACACTAAAACGAAAATAAATGGGACTTGTGGATTTAAAAATTTTTACCA
AATAATTCTTAAAATATATAA
Found at i:9294970 original size:21 final size:21
Alignment explanation
Indices: 9294931--9294970 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9294921 TTTCGAAAAT
9294931 AAATCTATATTTATATTTTTG
1 AAATCTATATTTATATTTTTG
*
9294952 AAATC-ATATTTATTTTTTT
1 AAATCTATATTTATATTTTT
9294971 ATTTCGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
AAATCTATATTTATATTTTTG
Found at i:9295041 original size:13 final size:13
Alignment explanation
Indices: 9295023--9295073 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
9295013 TTAAATATAA
9295023 TATATTTTATTAT
1 TATATTTTATTAT
*
9295036 TATATTTTATAAT
1 TATATTTTATTAT
* *
9295049 TAT-TTATAATATT
1 TATATTTTATTA-T
9295062 TATATTTATATT
1 TATATTT-TATT
9295074 TAATAATTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 5 0.17
13 19 0.66
14 2 0.07
15 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TATATTTTATTAT
Found at i:9295071 original size:25 final size:25
Alignment explanation
Indices: 9295018--9295068 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
9295008 TTTTTTTAAA
*
9295018 TATAATATATTTTATTATTATATTT
1 TATAATATATTTTAATATTATATTT
9295043 TATAAT-TATTTATAATATTTATATTT
1 TATAATATATTT-TAATA-TTATATTT
9295069 ATATTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 8 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TATAATATATTTTAATATTATATTT
Found at i:9295077 original size:19 final size:21
Alignment explanation
Indices: 9295023--9295078 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 21
9295013 TTAAATATAA
*
9295023 TATATTT-TATTATTATATTT
1 TATATTTATATTATAATATTT
*
9295043 TATAATTAT-TTATAATA-TT
1 TATATTTATATTATAATATTT
9295062 TATATTTATATT-TAATA
1 TATATTTATATTATAATA
9295079 ATTAGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 15 0.48
20 15 0.48
21 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATTTATATTATAATATTT
Found at i:9295640 original size:25 final size:25
Alignment explanation
Indices: 9295612--9295659 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
9295602 TATGAAAAAC
*
9295612 AATTATAATTAACAATAACAAAAGG
1 AATTATAATTAAAAATAACAAAAGG
* * *
9295637 AATTTTATTTAAAAATAATAAAA
1 AATTATAATTAAAAATAACAAAA
9295660 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
AATTATAATTAAAAATAACAAAAGG
Found at i:9296163 original size:30 final size:30
Alignment explanation
Indices: 9296129--9296191 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
9296119 ATTTATTTTA
9296129 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
9296159 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
9296189 TTG
1 TTG
9296192 CTTCTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:9298291 original size:16 final size:16
Alignment explanation
Indices: 9298270--9298308 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
9298260 TATAGAATCT
9298270 AAAAT-AATAATAATTA
1 AAAATAAATAA-AATTA
9298286 AAAATAAATAAAATT-
1 AAAATAAATAAAATTA
9298301 AAAATAAA
1 AAAATAAA
9298309 CTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAATAAAATTA
Found at i:9298307 original size:11 final size:11
Alignment explanation
Indices: 9298252--9298319 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
9298242 ATAACTTAAG
*
9298252 AAAATTAATAT
1 AAAATTAAAAT
*
9298263 AGAATCTAAAAT
1 AAAAT-TAAAAT
*
9298275 AATAA-T-AATT
1 AA-AATTAAAAT
*
9298285 AAAAAT-AAAT
1 AAAATTAAAAT
9298295 AAAATTAAAAT
1 AAAATTAAAAT
*
9298306 AAACTTAAAAT
1 AAAATTAAAAT
9298317 AAA
1 AAA
9298320 TTATTAGTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
9 2 0.04
10 14 0.30
11 22 0.48
12 6 0.13
13 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:9309463 original size:93 final size:93
Alignment explanation
Indices: 9309350--9309521 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
9309340 CGCCCATAAG
* *
9309350 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9309415 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
9309443 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
9309508 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
9309522 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:9309518 original size:46 final size:46
Alignment explanation
Indices: 9309343--9309518 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
9309333 TGTAACCCGC
* * *
9309343 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
9309389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
9309439 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
9309482 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
9309519 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:9312675 original size:41 final size:41
Alignment explanation
Indices: 9312622--9312749 Score: 202
Period size: 41 Copynumber: 3.1 Consensus size: 41
9312612 GCAAAAATTG
* *
9312622 AAAAACACAGAGCAATAGCGGCGCTTTTGGCAAAACGCCGCT
1 AAAAAC-CAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
*
9312664 AAAAACCAGAGCATTAGCGGTGCTTTTGGAAAAACGCCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
* *
9312705 AAAAACCAGAGCATTAGCGGCGCTTTTAGAAAAACGTCGCT
1 AAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
9312746 AAAA
1 AAAA
9312750 GTCATATAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 74 0.93
42 6 0.08
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (41 bp):
AAAAACCAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCT
Found at i:9312944 original size:14 final size:14
Alignment explanation
Indices: 9312922--9313021 Score: 65
Period size: 14 Copynumber: 6.9 Consensus size: 14
9312912 TTAATTATCA
*
9312922 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
9312936 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
9312950 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
* *
9312964 TTAAGGTTTATGAGT
1 TTATGGTTTAAG-GT
*
9312979 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGGT
* * *
9312996 ATATAGTTTAGGGT
1 TTATGGTTTAAGGT
*
9313010 TTAAGGTTTAAG
1 TTATGGTTTAAG
9313022 AGTTAACTAG
Statistics
Matches: 63, Mismatches: 19, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
14 50 0.79
15 3 0.05
17 1 0.02
18 9 0.14
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:9312957 original size:21 final size:21
Alignment explanation
Indices: 9312933--9313014 Score: 83
Period size: 21 Copynumber: 3.7 Consensus size: 21
9312923 TATAGTTTAA
*
9312933 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
* *
9312954 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTAGGGTTTAAGATATAT
*
9312975 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
*
9313000 AGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
9313015 GTTTAAGAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.59
22 3 0.06
24 3 0.06
25 14 0.29
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:9312987 original size:46 final size:46
Alignment explanation
Indices: 9312937--9313030 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
9312927 GTTTAAGGTT
* *
9312937 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
9312983 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
9313029 TA
1 TA
9313031 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:9313096 original size:21 final size:22
Alignment explanation
Indices: 9313057--9313108 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
9313047 GATGAATTAT
*
9313057 GAGTTT-AGGGGTTAGGG-TTG
1 GAGTTTAAGGGGTAAGGGTTTG
*
9313077 GAGTTTAAGGTGTAAGGGTTTG
1 GAGTTTAAGGGGTAAGGGTTTG
9313099 GAG-TTAAGGG
1 GAGTTTAAGGG
9313109 TTTAGGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 15 0.56
22 6 0.22
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (22 bp):
GAGTTTAAGGGGTAAGGGTTTG
Found at i:9313115 original size:21 final size:20
Alignment explanation
Indices: 9313057--9313115 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
9313047 GATGAATTAT
* *
9313057 GAGTTTAGGGGTTAGGGTTG
1 GAGTTAAGGGTTTAGGGTTG
*
9313077 GAGTTTAA-GGTGTAAGGGTTTG
1 GAG-TTAAGGGT-TTAGGG-TTG
9313099 GAGTTAAGGGTTTAGGG
1 GAGTTAAGGGTTTAGGG
9313116 GTTAGTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 5 0.16
21 17 0.55
22 9 0.29
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (20 bp):
GAGTTAAGGGTTTAGGGTTG
Found at i:9313744 original size:17 final size:18
Alignment explanation
Indices: 9313710--9313752 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9313700 CCCAAAACAG
* *
9313710 ATTTCCCCAATTCTCT-A
1 ATTTCCCCAAATCCCTAA
*
9313727 ATTTCTCCAAATCCCTAA
1 ATTTCCCCAAATCCCTAA
9313745 ATTTCCCC
1 ATTTCCCC
9313753 CAAAAGAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTCCCCAAATCCCTAA
Found at i:9318017 original size:22 final size:23
Alignment explanation
Indices: 9317975--9318017 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9317965 TTTCAAAAAT
*
9317975 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
9317998 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
9318018 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:9318124 original size:42 final size:42
Alignment explanation
Indices: 9318072--9318194 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
9318062 TTTGTGAGAG
* * * *
9318072 AAGCGTTGCTAAAGGTCCTGGTCTTTAGTGACGTTTTTAAAA
1 AAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAAAA
* *
9318114 AAGCGCTGCTAAAGGTCATGGTTTTTAGCGGCGTTTGTAAAAA
1 AAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTT-TTAAAA
** *
9318157 AAGCGCCACTAAAAGTCATGGTCTTTAGCGGCGTTTTT
1 AAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTTT
9318195 TTAAATAAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
AAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAAAA
Found at i:9318757 original size:418 final size:417
Alignment explanation
Indices: 9318212--9319041 Score: 1588
Period size: 418 Copynumber: 2.0 Consensus size: 417
9318202 AACGCCACAA
9318212 ATTCTTGTGGCGCATGCTATAGAGGCATTTTTTGAGGCTCTTGTAAAAACGCCGCTAATAGTTAT
1 ATTCTTGTGGCGCATGCTATAGAGGCATTTTTTGAGGCTCTTGTAAAAACGCCGCTAATAGTTAT
*
9318277 AGCGGCGCTTAAAAATGCCGCTAAAGGCCAAAAACAACGTCGCTAAAAGTCTATTCTCCTGTAGT
66 AGCGGCGCTTAAAAACGCCGCTAAAGGCCAAAAACAACGTCGCTAAAAGTCTATTCTCCTGTAGT
9318342 GTACAATATACCTTGCAACTTTTTAAAATCAATTTATTTTTAAAAATAACAATTTAATAATATAC
131 GTACAATATACCTTGCAACTTTTTAAAATCAATTTATTTTTAAAAATAACAATTTAATAATATAC
*
9318407 TTATTTTACTCTTGCAAGAAATACAAACTAGTTAAGATCTAAAATATTTGAATATCAAAATATCT
196 TTATTTTACTCTTGCAAGAAATACAAACTAGTTAAGATCTAAAATATTCGAATATCAAAATATCT
9318472 TAAAAGATAATTTTTATTTTATTTTTTATTTGCGTGCCATGATCTAATAGAAATTAATTGAACTG
261 TAAAAGATAATTTTTATTTTATTTTTTATTTGCGTGCCATGATCTAATAGAAATTAATTGAACTG
9318537 ATTTGGAAAAAGTAGTAAATATAATAAATATTATAGGTATAAGTTCAAATTTTAATATTTGTAAT
326 ATTTGGAAAAAGTAGTAAATATAATAAATATTATAGGTATAAGTTCAAATTTTAATATTTGTAAT
9318602 TTTTTATTACTTTTTTAATATAATAAAT
391 TTTTTATTACTTTTTTAA-ATAATAAAT
* * *
9318630 ATTCTTGTGGCGCCTGCTATAGAGGCGTTTTTTGAGGCTCTTGTGAAAACGCCGCTAATAGTTAT
1 ATTCTTGTGGCGCATGCTATAGAGGCATTTTTTGAGGCTCTTGTAAAAACGCCGCTAATAGTTAT
* *
9318695 AGCGGCGCTTAATAACGCCGCTAAAGGCCAAAAACAACGTCGCTAAAAGTCTGTTCTCCTGTAGT
66 AGCGGCGCTTAAAAACGCCGCTAAAGGCCAAAAACAACGTCGCTAAAAGTCTATTCTCCTGTAGT
9318760 GTACAATATACCTTGCAACTTTTTAAAATCAATTTATTTTTAAAAATAACAATTTAATAATATAC
131 GTACAATATACCTTGCAACTTTTTAAAATCAATTTATTTTTAAAAATAACAATTTAATAATATAC
9318825 TTATTTTACTCTTGCAAGAAATACAAACTAGTTAAGATCTAAAATATTCGAATATCAAAATATCT
196 TTATTTTACTCTTGCAAGAAATACAAACTAGTTAAGATCTAAAATATTCGAATATCAAAATATCT
9318890 TAAAAGATAATTTTTATTTTATTTTTTATTTGCGTGCCATGATCTAATAGAAATTAATTGAACTG
261 TAAAAGATAATTTTTATTTTATTTTTTATTTGCGTGCCATGATCTAATAGAAATTAATTGAACTG
9318955 ATTTGGAAAAAGTAGTAAATATAATAAATATTATAGGTATAAGTTCAAATTTTAATATTTGTAAT
326 ATTTGGAAAAAGTAGTAAATATAATAAATATTATAGGTATAAGTTCAAATTTTAATATTTGTAAT
9319020 TTTTTATTACTTTTTTAAATAA
391 TTTTTATTACTTTTTTAAATAA
9319042 GAAAAAGATA
Statistics
Matches: 405, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
417 4 0.01
418 401 0.99
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (417 bp):
ATTCTTGTGGCGCATGCTATAGAGGCATTTTTTGAGGCTCTTGTAAAAACGCCGCTAATAGTTAT
AGCGGCGCTTAAAAACGCCGCTAAAGGCCAAAAACAACGTCGCTAAAAGTCTATTCTCCTGTAGT
GTACAATATACCTTGCAACTTTTTAAAATCAATTTATTTTTAAAAATAACAATTTAATAATATAC
TTATTTTACTCTTGCAAGAAATACAAACTAGTTAAGATCTAAAATATTCGAATATCAAAATATCT
TAAAAGATAATTTTTATTTTATTTTTTATTTGCGTGCCATGATCTAATAGAAATTAATTGAACTG
ATTTGGAAAAAGTAGTAAATATAATAAATATTATAGGTATAAGTTCAAATTTTAATATTTGTAAT
TTTTTATTACTTTTTTAAATAATAAAT
Found at i:9319644 original size:30 final size:31
Alignment explanation
Indices: 9319610--9319674 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
9319600 AGAAAAATTT
*
9319610 AATAGCTCAATGACTT-AATAAAAACTTTTG
1 AATAGCTCAATGACTTAAATAAAAACTTTCG
* * * *
9319640 AATAGTTTAGTGACTTAAATGAAAACTTTCG
1 AATAGCTCAATGACTTAAATAAAAACTTTCG
9319671 AATA
1 AATA
9319675 ATTTTGTGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (31 bp):
AATAGCTCAATGACTTAAATAAAAACTTTCG
Found at i:9319668 original size:31 final size:30
Alignment explanation
Indices: 9319620--9319684 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
9319610 AATAGCTCAA
* *
9319620 TGACTTAATAAAAACTTTTGAATAGTTTAG
1 TGACTTAATAAAAACTTTCGAATAATTTAG
* *
9319650 TGACTTAAATGAAAACTTTCGAATAATTTTG
1 TGACTT-AATAAAAACTTTCGAATAATTTAG
9319681 TGAC
1 TGAC
9319685 CAAATTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (30 bp):
TGACTTAATAAAAACTTTCGAATAATTTAG
Found at i:9320660 original size:14 final size:14
Alignment explanation
Indices: 9320641--9320668 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9320631 TAACAACCTT
9320641 TTATTACCATAGTA
1 TTATTACCATAGTA
9320655 TTATTACCATAGTA
1 TTATTACCATAGTA
9320669 AAGAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TTATTACCATAGTA
Found at i:9321197 original size:38 final size:38
Alignment explanation
Indices: 9321142--9321215 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
9321132 TTTAAAAAAA
*
9321142 CGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTTG
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTTTG
9321180 CGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTT
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTT
9321216 GGAAAAGCGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (38 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTTTG
Found at i:9321245 original size:43 final size:43
Alignment explanation
Indices: 9321137--9321272 Score: 176
Period size: 43 Copynumber: 3.3 Consensus size: 43
9321127 TTTATTTTAA
*
9321137 AAAAACGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTT--
1 AAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTGG
* *
9321178 ---TGCGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTGG
* * *
9321218 AAAAGCGTCGCTAAAAGTCATGGCTTTTAGCTGCGTTTGTTGG
1 AAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTGG
9321261 AAAA-CGCCGCTA
1 AAAAGCGCCGCTA
9321273 GTTTTGACAG
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
38 35 0.43
42 7 0.09
43 39 0.48
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTGG
Found at i:9321655 original size:21 final size:21
Alignment explanation
Indices: 9321641--9321737 Score: 126
Period size: 21 Copynumber: 4.6 Consensus size: 21
9321631 TCTGCTGCCA
9321641 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
9321662 TCGCT-CGTGCCTCTGCCTCCC
1 TCGCTGC-TGCCTCTGCCTCCC
* *
9321683 TCGTTGCTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
9321704 TCGCTGCTG-CTGCTGCCTCCC
1 TCGCTGCTGCCT-CTGCCTCCC
**
9321725 TCTTTGCTGCCTC
1 TCGCTGCTGCCTC
9321738 CGCTCTAAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
20 2 0.03
21 61 0.92
22 3 0.05
ACGTcount: A:0.00, C:0.48, G:0.21, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:9321732 original size:15 final size:16
Alignment explanation
Indices: 9321714--9321743 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9321704 TCGCTGCTGC
9321714 TGCTGCCTCC-CTCTT
1 TGCTGCCTCCGCTCTT
9321729 TGCTGCCTCCGCTCT
1 TGCTGCCTCCGCTCT
9321744 AAGTTGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.47, G:0.17, T:0.37
Consensus pattern (16 bp):
TGCTGCCTCCGCTCTT
Found at i:9327303 original size:9 final size:9
Alignment explanation
Indices: 9327282--9327402 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
9327272 TATATATTAC
*
9327282 GTAAGTTAA
1 GTAAGTTAT
9327291 GTAAGCTT-T
1 GTAAG-TTAT
9327300 GTAAGTTAT
1 GTAAGTTAT
9327309 GTAAGTTAT
1 GTAAGTTAT
* *
9327318 GTTA-TGAT
1 GTAAGTTAT
* *
9327326 ATACATTTAT
1 GTA-AGTTAT
**
9327336 GTAAGGCAT
1 GTAAGTTAT
9327345 GTAAGTTAT
1 GTAAGTTAT
* *
9327354 GATATGATAT
1 G-TAAGTTAT
* *
9327364 AT-ATTTAT
1 GTAAGTTAT
9327372 GT-A-TTAT
1 GTAAGTTAT
*
9327379 GTAAGTTGT
1 GTAAGTTAT
9327388 GTAAGTTAT
1 GTAAGTTAT
9327397 GATAAG
1 G-TAAG
9327403 ATATATATTT
Statistics
Matches: 83, Mismatches: 21, Indels: 15
0.70 0.18 0.13
Matches are distributed among these distances:
7 6 0.07
8 12 0.14
9 48 0.58
10 17 0.20
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9327423 original size:56 final size:56
Alignment explanation
Indices: 9327356--9327587 Score: 348
Period size: 56 Copynumber: 4.2 Consensus size: 56
9327346 TAAGTTATGA
9327356 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
9327412 TATGATATATATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
1 TATGATATATATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* * *
9327469 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
9327525 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAAG-T-TAT-TA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
9327577 TATGATATATA
1 TATGATATATA
9327588 ATAAATATTA
Statistics
Matches: 163, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
52 12 0.07
53 3 0.02
54 1 0.01
55 4 0.02
56 91 0.56
57 51 0.31
58 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
Found at i:9327485 original size:113 final size:112
Alignment explanation
Indices: 9327356--9327566 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 112
9327346 TAAGTTATGA
*
9327356 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
9327421 TATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
66 TATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
* *
9327469 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
*
9327534 TATTTATGTATTATGTAAGTTTTGTAAGTTATG
66 TATTTATGTATTATGTAAGTTGTGTAAGTTATG
9327567 TAAGTTATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 67 0.72
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (112 bp):
TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
TATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
Found at i:9327530 original size:13 final size:13
Alignment explanation
Indices: 9327512--9327541 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9327502 TAAGTTATGA
9327512 TATGATATATATT
1 TATGATATATATT
9327525 TATGATATATATT
1 TATGATATATATT
9327538 TATG
1 TATG
9327542 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:9327561 original size:9 final size:9
Alignment explanation
Indices: 9327544--9327574 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9327534 TATTTATGTA
9327544 TTATGTAAG
1 TTATGTAAG
*
9327553 TTTTGTAAG
1 TTATGTAAG
9327562 TTATGTAAG
1 TTATGTAAG
9327571 TTAT
1 TTAT
9327575 TATATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9328025 original size:37 final size:37
Alignment explanation
Indices: 9327981--9328071 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 37
9327971 AAATTATATT
*
9327981 AATTGATAAATATTGAAATAT-TG-AAAT-ATATTTAA
1 AATTGATAAATATTGAAATATAAGCAAATCAT-TTTAA
9328016 AATGTTGAT-AA-A-TGAAATATAAGCAAATCATTTTAA
1 AA--TTGATAAATATTGAAATATAAGCAAATCATTTTAA
9328052 AATTGATAAATATTGAAATA
1 AATTGATAAATATTGAAATA
9328072 CATTAAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
34 13 0.28
35 6 0.13
36 14 0.30
37 14 0.30
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (37 bp):
AATTGATAAATATTGAAATATAAGCAAATCATTTTAA
Found at i:9330056 original size:59 final size:59
Alignment explanation
Indices: 9329958--9330091 Score: 182
Period size: 59 Copynumber: 2.3 Consensus size: 59
9329948 TTTCAAATTG
* ** * * *
9329958 GGGAGAAAGGGGTAATTATTTTAGGGTTTCGAATTAGGGAAAATGGGGGGAATAAACTA
1 GGGAGAAGGGGGTAATTATTTTAGGGTTTCGAAGAAGGGAAAATGGAGGAAATAAACCA
*
9330017 GGGAGAAGGGGGTGATTATTTTAGGGATTT-GAAGAAGGGAAAATGGAGGAAATAAACCA
1 GGGAGAAGGGGGTAATTATTTTAGGG-TTTCGAAGAAGGGAAAATGGAGGAAATAAACCA
9330076 GGGAGAAGGGGG-AATT
1 GGGAGAAGGGGGTAATT
9330092 CGGTGTGGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 3 0.05
59 60 0.91
60 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.39, T:0.22
Consensus pattern (59 bp):
GGGAGAAGGGGGTAATTATTTTAGGGTTTCGAAGAAGGGAAAATGGAGGAAATAAACCA
Found at i:9330278 original size:114 final size:112
Alignment explanation
Indices: 9330156--9330690 Score: 440
Period size: 114 Copynumber: 4.7 Consensus size: 112
9330146 TAACATTTGC
* *
9330156 GGCG-TTTTCACCTAGCGCCGCTAAAGGCAAACCAATTGCGGCATTTTAACATAAACGCCACTAA
1 GGCGTTTTTCACCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACATAAACGCCACTAA
* *
9330220 AAAACAAACAAAATGACACCGTTTTGATATAGACAGAATAAACTTTAGT
66 AAATCAAA-AAAAT-ACACCGTTTTGATATAAACAGAATAAACTTTAGT
* * * * * *
9330269 GGCGTTTTTC-CGTAGCGCCGCTAAAGGCAAATCAATTGCGGCGTTTCACCTTAAAACGCCACTA
1 GGCGTTTTTCACCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACAT-AAACGCCACTA
** * *
9330333 AAAATCCAAAAAACGACGA-CGTTTTCATATGAACAGAAT-AACATTTAGT
65 AAAAT-CAAAAAAATAC-ACCGTTTTGATATAAACAGAATAAAC-TTTAGT
* * * * * *
9330382 GGCGTTTTATCACCAAGCGTCGCTAAAGGCGAAA-CTATTCCGGCATTTTACCCTAAAACGCCAC
1 GGCGTTTT-TCACCTAGCGCCGCTAAAGGC-AAACCTATTGCGGCGTTTTAACAT-AAACGCCAC
** * * * * *
9330446 TAATGATCGAATAAAACTACATCATTTTGATATAAACA-AATTAACCATTAGT
63 TAAAAATC-AA-AAAAATACACCGTTTTGATATAAACAGAA-TAAACTTTAGT
* * * * *
9330498 GGCGTTTAT-ACCTTAGCGCCGCTAAA-TCAAACCTATTGTGGCGTTTGAACCAAAAACGCCACT
1 GGCGTTTTTCACC-TAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAA-CATAAACGCCACT
* * * * *
9330561 AAAAATCCATAAAAACTACACCGTTTTGATCTAAACAAAATAACCCTTAGT
64 AAAAAT-CA-AAAAAATACACCGTTTTGATATAAACAGAATAAACTTTAGT
* * * * * * *
9330612 GGCGTTTATAACCTTGCGCCGCTAAA-TCAACCCTATTGTGGCGTTTTAACCTTAAACGCCACTA
1 GGCGTTTTTCACCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAA-CATAAACGCCACTA
9330676 AAAATCCAAAGAAAA
65 AAAAT-CAAA-AAAA
9330691 CGGTGTCGTC
Statistics
Matches: 350, Mismatches: 51, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
112 3 0.01
113 78 0.22
114 157 0.45
115 74 0.21
116 36 0.10
117 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (112 bp):
GGCGTTTTTCACCTAGCGCCGCTAAAGGCAAACCTATTGCGGCGTTTTAACATAAACGCCACTAA
AAATCAAAAAAATACACCGTTTTGATATAAACAGAATAAACTTTAGT
Found at i:9330543 original size:229 final size:228
Alignment explanation
Indices: 9330146--9330679 Score: 530
Period size: 229 Copynumber: 2.3 Consensus size: 228
9330136 CAAAATAAAT
* * *
9330146 TAACATTT-GCGGCG-TTTTCACCTAGCGCCGCTAAAGGCAAACCAATTGCGGCATTTTAACATA
1 TAACATTTAGTGGCGTTTTTCACCAAGCGCCGCTAAAGGCAAACCAATTCCGGCATTTTAACATA
* * *
9330209 AACGCCACTAAAAAACAAACAAAATGACACCGTTTTGATATAGACAGAATAAACTTTAGTGGCGT
66 AACGCCACTAAAAAACAAACAAAATGACACCATTTTGATATAAACAGAATAAACATTAGTGGCGT
* * * *
9330274 TTTTCCGTAGCGCCGCTAAAGGCAAATCAATTGCGGCGTTT-CACCTTAAAACGCCACTAAAAAT
131 TTTACCGTAGCGCCGCTAAAGGCAAACCAATTGCGGCGTTTGAACC-AAAAACGCCACTAAAAAT
* *
9330338 CCA-AAAAACGACGA-CGTTTTCATATGAACAGAA
195 CCATAAAAACGAC-ACCGTTTTCATATAAACAAAA
* * * *
9330371 TAACATTTAGTGGCGTTTTATCACCAAGCGTCGCTAAAGGCGAAA-CTATTCCGGCATTTTACCC
1 TAACATTTAGTGGCGTTTT-TCACCAAGCGCCGCTAAAGGC-AAACCAATTCCGGCATTTTAACA
** * * * * *
9330435 TAAAACGCCACTAATGATCGAATAAAACT-ACATCATTTTGATATAAACA-AATTAACCATTAGT
64 T-AAACGCCACTAAAAAACAAACAAAA-TGACACCATTTTGATATAAACAGAA-TAAACATTAGT
* * * *
9330498 GGCGTTTATACCTTAGCGCCGCTAAA-TCAAACCTATTGTGGCGTTTGAACCAAAAACGCCACTA
126 GGCGTTT-TACCGTAGCGCCGCTAAAGGCAAACCAATTGCGGCGTTTGAACCAAAAACGCCACTA
* * *
9330562 AAAATCCATAAAAACTACACCGTTTTGATCTAAACAAAA
190 AAAATCCATAAAAACGACACCGTTTTCATATAAACAAAA
** * * ** * * * ** * *
9330601 TAACCCTTAGTGGCGTTTATAACCTTGCGCCGCTAAA-TCAACCCTATTGTGGCGTTTTAACCTT
1 TAACATTTAGTGGCGTTTTTCACCAAGCGCCGCTAAAGGCAAACCAATTCCGGCATTTTAA-CAT
9330665 AAACGCCACTAAAAA
65 AAACGCCACTAAAAA
9330680 TCCAAAGAAA
Statistics
Matches: 250, Mismatches: 46, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
225 8 0.03
226 5 0.02
227 5 0.02
228 64 0.26
229 109 0.44
230 59 0.24
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (228 bp):
TAACATTTAGTGGCGTTTTTCACCAAGCGCCGCTAAAGGCAAACCAATTCCGGCATTTTAACATA
AACGCCACTAAAAAACAAACAAAATGACACCATTTTGATATAAACAGAATAAACATTAGTGGCGT
TTTACCGTAGCGCCGCTAAAGGCAAACCAATTGCGGCGTTTGAACCAAAAACGCCACTAAAAATC
CATAAAAACGACACCGTTTTCATATAAACAAAA
Found at i:9331585 original size:16 final size:17
Alignment explanation
Indices: 9331564--9331596 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9331554 ATAGTTTAGT
9331564 GTTTAGTGT-TTAGGGG
1 GTTTAGTGTATTAGGGG
9331580 GTTTAGTGTATTAGGGG
1 GTTTAGTGTATTAGGGG
9331597 TTATAGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTTAGTGTATTAGGGG
Found at i:9331608 original size:45 final size:45
Alignment explanation
Indices: 9331550--9331644 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
9331540 GGGTTTTAAA
* *
9331550 GGTTATAGTTTAGTGTTTA-GTGTTTAGGGGGTTTAGTGTATTAGG
1 GGTTATAGATTAGTGTTTATGT-TTTAGGGGGTTTAGGGTATTAGG
** *
9331595 GGTTATAGATTAGTGTTTATGTTTTTTGGGGTTTAGGGTTTTAGG
1 GGTTATAGATTAGTGTTTATGTTTTAGGGGGTTTAGGGTATTAGG
9331640 GGTTA
1 GGTTA
9331645 AATGACTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (45 bp):
GGTTATAGATTAGTGTTTATGTTTTAGGGGGTTTAGGGTATTAGG
Found at i:9331708 original size:41 final size:41
Alignment explanation
Indices: 9331651--9331941 Score: 266
Period size: 41 Copynumber: 7.1 Consensus size: 41
9331641 GTTAAATGAC
*
9331651 TTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
* * *
9331692 TTTTAGTGGCGTTTTA-CACAAAGCGCCGCTAATT-CTTTGGT
1 TTTTAGCGGCGTTTTACCA-AAAACGCCGCT-ATTGCTCTGGT
* * * * *
9331733 TTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
**** * * *
9331774 TTTTAGCGGCGTTTTTGGTAAAACGCCACTATTGCTATGTT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
* * * **
9331815 TTTTGGCGGCGTTTTA-CAGAAAACGCCGCTATTTCTATAAT
1 TTTTAGCGGCGTTTTACCA-AAAACGCCGCTATTGCTCTGGT
* *
9331856 TTTTAGCGTCGTTTTAACTAAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTGGT
****
9331897 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTCTGCGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTG-GT
9331939 TTT
1 TTT
9331942 ACAATTTTTG
Statistics
Matches: 204, Mismatches: 37, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
40 23 0.11
41 153 0.75
42 27 0.13
43 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
Found at i:9331826 original size:123 final size:123
Alignment explanation
Indices: 9331650--9331941 Score: 343
Period size: 123 Copynumber: 2.4 Consensus size: 123
9331640 GGTTAAATGA
**** * * * *
9331650 CTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGTTTTTAGTGGCGTTTTACACAAAG
1 CTTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTATGGTTTTTAGCGGCGTTTTACACAAAA
* ** * *
9331715 CGCCGCTAATTCTTTGGTTTTTAGTGGCGTTTT-ACCAAAAGCGCCACTAATGCTCTGG
66 CGCCGCTAATTCTATAATTTTTAGCGGCGTTTTAACCAAAAACGCCACTAATGCTCT-G
* * * *
9331773 CTTTTAGCGGCGTTTTTGGTAAAACGCCACTATTGCTATGTTTTTTGGCGGCGTTTTACAGAAAA
1 CTTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTATGGTTTTTAGCGGCGTTTTACACAAAA
* * * * *
9331838 CGCCGCTATTTCTATAATTTTTAGCGTCGTTTTAACTAAAAACGCCGCTATTGCTCTG
66 CGCCGCTAATTCTATAATTTTTAGCGGCGTTTTAACCAAAAACGCCACTAATGCTCTG
* *
9331896 TTTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTCTGCGTTTT
1 CTTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTATG-GTTTT
9331942 ACAATTTTTG
Statistics
Matches: 141, Mismatches: 26, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
123 118 0.84
124 23 0.16
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (123 bp):
CTTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTATGGTTTTTAGCGGCGTTTTACACAAAA
CGCCGCTAATTCTATAATTTTTAGCGGCGTTTTAACCAAAAACGCCACTAATGCTCTG
Found at i:9346951 original size:41 final size:41
Alignment explanation
Indices: 9346894--9346976 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
9346884 TAGTAATTCT
* *
9346894 TAATAGCAGCAGCACTCTGGCGTAGTCCTTCTAGCAAACAG
1 TAATAGCAGCAACACTCTGGCGTAGTCCTTCTAACAAACAG
*
9346935 TAATAGCAGCAACACTCTGGCGTAGTCCTTCTAATAAACAG
1 TAATAGCAGCAACACTCTGGCGTAGTCCTTCTAACAAACAG
9346976 T
1 T
9346977 CTTTTCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (41 bp):
TAATAGCAGCAACACTCTGGCGTAGTCCTTCTAACAAACAG
Found at i:9348099 original size:62 final size:59
Alignment explanation
Indices: 9347990--9348106 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
9347980 ATAACTTTAA
* * * *
9347990 TATTAAATTAATATAATATTTATCTAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAGATAAACATTAAATTAAATTTAATATTAAATCT
*
9348049 TATTAAAATAATAGAATGTTTATCATGTAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC---TAGATAAACATTAAATTAAATTTAATATTAA
9348107 GATAATCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
62 29 0.58
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATCTAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:9348132 original size:20 final size:18
Alignment explanation
Indices: 9348085--9348133 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
9348075 GTAGATAAAC
9348085 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
9348102 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
9348122 ATTAAATTAATA
1 ATTAAATTAATA
9348134 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:9348179 original size:37 final size:38
Alignment explanation
Indices: 9348085--9348182 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 38
9348075 GTAGATAAAC
*
9348085 ATTAAATTAA-ATTTAA-TATTAAGATAATCATTTTAAT
1 ATTAAATTAATATTAAACTATTAAGATAATCA-TTTAAT
*
9348122 ATTAAATTAATA-AAATACTATTAAGATAAGT-A-TTAA-
1 ATTAAATTAATATTAA-ACTATTAAGATAA-TCATTTAAT
9348158 ATTAAATTTAATATTAAACTATTAA
1 ATTAAA-TTAATATTAAACTATTAA
9348183 AAATAATATT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 6 0.12
37 29 0.56
38 4 0.08
39 12 0.23
40 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (38 bp):
ATTAAATTAATATTAAACTATTAAGATAATCATTTAAT
Found at i:9348193 original size:37 final size:37
Alignment explanation
Indices: 9348117--9348193 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
9348107 GATAATCATT
*
9348117 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
*
9348154 TTAA-ATTAAATTTAATATTAA-ACTATTAAAAATAA-TA
1 TTAATATTAAA-TTAATA-AAATACTATT-AAAATAAGTA
9348191 TTA
1 TTA
9348194 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 6 0.17
37 21 0.60
38 8 0.23
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
Found at i:9348923 original size:57 final size:57
Alignment explanation
Indices: 9348835--9348950 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
9348825 TTAATCATGG
9348835 AGTTAGCTCATAAGAAGTACCATGATTGAAAACTTCTTATTATTTACTCTTTACGAA
1 AGTTAGCTCATAAGAAGTACCATGATTGAAAACTTCTTATTATTTACTCTTTACGAA
9348892 AGTTAGCTCATAAGAAGTACCATGATTGAAAACTTCTTATTATTTACTCTTTACGAA
1 AGTTAGCTCATAAGAAGTACCATGATTGAAAACTTCTTATTATTTACTCTTTACGAA
9348949 AG
1 AG
9348951 CAATTCATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (57 bp):
AGTTAGCTCATAAGAAGTACCATGATTGAAAACTTCTTATTATTTACTCTTTACGAA
Found at i:9351327 original size:32 final size:32
Alignment explanation
Indices: 9351287--9351386 Score: 78
Period size: 32 Copynumber: 3.0 Consensus size: 32
9351277 TCAACTATAA
9351287 TTAA-ACTTAATCACTTTAATATTAAATTAAT
1 TTAATACTTAATCACTTTAATATTAAATTAAT
** * *
9351318 TTAATACTT-ATCAAGATAAATATTAGATTAAAT
1 TTAATACTTAATC-ACTTTAATATTAAATT-AAT
* *
9351351 TTAATATTAAGATAATCTCTTTAATATTAAATTAAT
1 TTAATACT----TAATCACTTTAATATTAAATTAAT
9351387 AAAATACTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
31 7 0.14
32 16 0.31
33 10 0.20
36 3 0.06
37 12 0.24
38 3 0.06
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (32 bp):
TTAATACTTAATCACTTTAATATTAAATTAAT
Found at i:9351373 original size:69 final size:68
Alignment explanation
Indices: 9351294--9351421 Score: 193
Period size: 69 Copynumber: 1.9 Consensus size: 68
9351284 TAATTAAACT
** *
9351294 TAATCACTTTAATATTAAATTAATTTAATACTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATAC-TATCAAGATAAATATTAAATTAAATTTAATATT
9351359 AAGA
65 AAGA
* * *
9351363 TAATCTCTTTAATATTAAATTAATAAAATACTATCAAGATAAGTATTAAATTTAATTTA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTA
9351422 CTATAAAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
68 25 0.47
69 28 0.53
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:9355134 original size:12 final size:12
Alignment explanation
Indices: 9355117--9355148 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9355107 CATGTTATGG
9355117 CACACGGCTTAC
1 CACACGGCTTAC
*
9355129 CACACGGCTTAT
1 CACACGGCTTAC
9355141 CACACGGC
1 CACACGGC
9355149 CATATGGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.41, G:0.19, T:0.16
Consensus pattern (12 bp):
CACACGGCTTAC
Found at i:9375944 original size:17 final size:17
Alignment explanation
Indices: 9375922--9375956 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9375912 CCTGTCAGAA
9375922 AATTCAATCGACGAAAT
1 AATTCAATCGACGAAAT
*
9375939 AATTCAATCGATGAAAT
1 AATTCAATCGACGAAAT
9375956 A
1 A
9375957 TCGTTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (17 bp):
AATTCAATCGACGAAAT
Found at i:9377349 original size:10 final size:9
Alignment explanation
Indices: 9377332--9377365 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9377322 TCAAAAGAAT
9377332 TATTAAAAA
1 TATTAAAAA
9377341 TATTAAAAA
1 TATTAAAAA
9377350 TATTTAAAAA
1 TA-TTAAAAA
*
9377360 TTTTAA
1 TATTAA
9377366 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TATTAAAAA
Found at i:9378999 original size:24 final size:24
Alignment explanation
Indices: 9378955--9379001 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9378945 TTGTTGGTGT
* *
9378955 TTTGTGGTCTCTTGTGTTAGGTCA
1 TTTGTGGCCTCTTGTGATAGGTCA
9378979 TTTGTGGCCTCTT-TGGATAGGTC
1 TTTGTGGCCTCTTGT-GATAGGTC
9379002 GGTGGTGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.09, C:0.15, G:0.30, T:0.47
Consensus pattern (24 bp):
TTTGTGGCCTCTTGTGATAGGTCA
Found at i:9380939 original size:3 final size:3
Alignment explanation
Indices: 9380931--9380961 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9380921 TTCTATTCTG
9380931 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9380962 TTCTGTGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9383253 original size:20 final size:20
Alignment explanation
Indices: 9383221--9383264 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9383211 TTTTATACTA
9383221 AAAAATATTAAATTCAA-AT
1 AAAAATATTAAATTCAAGAT
* *
9383240 AAAAATTTTAAAATTTAAGAT
1 AAAAATATT-AAATTCAAGAT
9383261 AAAA
1 AAAA
9383265 TTAGTGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 7 0.33
21 6 0.29
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAATATTAAATTCAAGAT
Found at i:9390864 original size:21 final size:21
Alignment explanation
Indices: 9390811--9390892 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
9390801 AAAAAATTTA
*
9390811 AAAAAT-ATTTTTATACTTTTT
1 AAAAATAATTTTT-TAATTTTT
9390832 -AAAATAA-TTTTTAATTTTT
1 AAAAATAATTTTTTAATTTTT
*
9390851 AAAAATAATTTTTTGATTTTT
1 AAAAATAATTTTTTAATTTTT
**
9390872 ATAAAA-AATTAATTAATTTTT
1 A-AAAATAATTTTTTAATTTTT
9390893 GATGTGGCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
19 7 0.13
20 16 0.31
21 25 0.48
22 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
AAAAATAATTTTTTAATTTTT
Found at i:9393898 original size:34 final size:34
Alignment explanation
Indices: 9393858--9393926 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
9393848 AGAAAGGAAA
9393858 AATGTAGAGATTTCTAGAGGAGAGATAAAGTAGG
1 AATGTAGAGATTTCTAGAGGAGAGATAAAGTAGG
9393892 AATGTAGAGATTTCTAGAGGAGAGATAAAGTAGG
1 AATGTAGAGATTTCTAGAGGAGAGATAAAGTAGG
9393926 A
1 A
9393927 CATCAACAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.03, G:0.32, T:0.23
Consensus pattern (34 bp):
AATGTAGAGATTTCTAGAGGAGAGATAAAGTAGG
Found at i:9402918 original size:31 final size:32
Alignment explanation
Indices: 9402877--9402981 Score: 94
Period size: 31 Copynumber: 3.4 Consensus size: 32
9402867 TTTTAATAAC
*
9402877 TTAATGTAATATTTATCTAGTTAGA-ATTTTA
1 TTAATTTAATATTTATCTAGTTAGATATTTTA
* * **
9402908 TTAATTTAATA-TTA-ATA-TGAGATATTAAA
1 TTAATTTAATATTTATCTAGTTAGATATTTTA
* * *
9402937 TTTAATTTAATATTTATCTTGATA-ATATTTTG
1 -TTAATTTAATATTTATCTAGTTAGATATTTTA
9402969 TTAATTTAATATT
1 TTAATTTAATATT
9402982 AATGTCATTA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
28 4 0.07
29 6 0.11
30 14 0.25
31 26 0.46
32 6 0.11
33 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (32 bp):
TTAATTTAATATTTATCTAGTTAGATATTTTA
Found at i:9405465 original size:6 final size:6
Alignment explanation
Indices: 9405454--9405478 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9405444 TCTGATTGCA
9405454 TTACTG TTACTG TTACTG TTACTG T
1 TTACTG TTACTG TTACTG TTACTG T
9405479 ATTGGGCTAA
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:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TTACTG
Found at i:9410679 original size:46 final size:46
Alignment explanation
Indices: 9410612--9410703 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
9410602 TCGTATGCAG
9410612 ATTTTAAGCGTAAGGAGATTGAGTATTCTATAGG-GGACTTCATTTT
1 ATTTTAAGCGTAAGGAGATTGAGTATTCTAT-GGAGGACTTCATTTT
*
9410658 ATTTTAAGCGTAAGGAGATTGAGTATTCTGTGGAGGACTTCATTTT
1 ATTTTAAGCGTAAGGAGATTGAGTATTCTATGGAGGACTTCATTTT
9410704 TCTCAAGGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 2 0.05
46 42 0.95
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (46 bp):
ATTTTAAGCGTAAGGAGATTGAGTATTCTATGGAGGACTTCATTTT
Found at i:9412775 original size:33 final size:33
Alignment explanation
Indices: 9412705--9412775 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
9412695 TGTTACTGTT
* *
9412705 ACTGTATTGGGCTAAGGCCCACATGATACTGAT
1 ACTGTAATGGGCTAAGGCCCACATGATACTGAG
*
9412738 ACTGTAATGGGCTATGGCCCTA-ACTGATACTG-G
1 ACTGTAATGGGCTAAGGCCC-ACA-TGATACTGAG
9412771 ACTGT
1 ACTGT
9412776 CACTGAAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCACATGATACTGAG
Found at i:9421074 original size:42 final size:42
Alignment explanation
Indices: 9421013--9421098 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
9421003 AAATGAAGGT
*
9421013 AGCAGAATAGCTATTGGCCTCACTAATACAACCATTTTGTTA
1 AGCAGAATAGCTATCGGCCTCACTAATACAACCATTTTGTTA
*
9421055 AGCAGAATAGCTATCGGCCTCACTAATACGACCATTTTGTTA
1 AGCAGAATAGCTATCGGCCTCACTAATACAACCATTTTGTTA
9421097 AG
1 AG
9421099 TTAAGTTCGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
AGCAGAATAGCTATCGGCCTCACTAATACAACCATTTTGTTA
Found at i:9421476 original size:92 final size:92
Alignment explanation
Indices: 9421310--9421490 Score: 292
Period size: 92 Copynumber: 2.0 Consensus size: 92
9421300 TAAGCTCATA
* * *
9421310 ATTATTATCGTCGGTTAACCTGACTAGTACTGGGTGCAATTATTGTTGGTTTATCCAACTAGAGT
1 ATTATTATCGTCGATTAACCTGACTAGCACTGGGTGCAATTATTGTTGGTTTATCCAACTAGAGC
* *
9421375 TGGGCTCACAATT-ATTATCGTCGGGTT
66 TAGGATCAC-ATTCATTATCGTCGGGTT
*
9421402 ATTATTATCGTCGATTAACCTGACTGGCACTGGGTGCAATTATTGTTGGTTTATCCAACTAGAGC
1 ATTATTATCGTCGATTAACCTGACTAGCACTGGGTGCAATTATTGTTGGTTTATCCAACTAGAGC
9421467 TAGGATCACATTCATTATCGTCGG
66 TAGGATCACATTCATTATCGTCGG
9421491 TTAATCTGAC
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 3 0.04
92 79 0.96
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (92 bp):
ATTATTATCGTCGATTAACCTGACTAGCACTGGGTGCAATTATTGTTGGTTTATCCAACTAGAGC
TAGGATCACATTCATTATCGTCGGGTT
Found at i:9425109 original size:14 final size:14
Alignment explanation
Indices: 9425092--9425121 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9425082 TTAAGTATAA
*
9425092 ATACATATGTATGT
1 ATACATATATATGT
9425106 ATACATATATATGT
1 ATACATATATATGT
9425120 AT
1 AT
9425122 GAAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (14 bp):
ATACATATATATGT
Found at i:9425117 original size:18 final size:18
Alignment explanation
Indices: 9425086--9425122 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9425076 TATTATTTAA
9425086 GTATAAATACATATGTAT
1 GTATAAATACATATGTAT
* *
9425104 GTATACATATATATGTAT
1 GTATAAATACATATGTAT
9425122 G
1 G
9425123 AAAAAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (18 bp):
GTATAAATACATATGTAT
Found at i:9427327 original size:21 final size:21
Alignment explanation
Indices: 9427257--9427328 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
9427247 CAACCTAATA
9427257 TGAAATGTGTAGGACCATGGT
1 TGAAATGTGTAGGACCATGGT
** * *
9427278 TGAAA-GATACCATGGCAACATGAT
1 TGAAATG-T-GTA-GG-ACCATGGT
9427302 ATGAAATGTGTAGGACCATGGT
1 -TGAAATGTGTAGGACCATGGT
9427324 TGAAA
1 TGAAA
9427329 GATACCATGG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 7 0.19
23 4 0.11
24 7 0.19
25 6 0.16
26 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAGGACCATGGT
Found at i:9427483 original size:24 final size:24
Alignment explanation
Indices: 9427410--9427484 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
9427400 TGAATAAGAC
9427410 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* *
9427434 CATGACG-GGAAA-ATGA--ATAAG-AA
1 CATG--GTTGAAAGAT-ACCAT-GGCAA
9427457 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
9427481 CATG
1 CATG
9427485 ACAGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 11 0.29
24 15 0.39
25 5 0.13
26 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:9427525 original size:46 final size:46
Alignment explanation
Indices: 9427160--9427513 Score: 478
Period size: 46 Copynumber: 7.7 Consensus size: 46
9427150 GTGTGCTCTC
* *
9427160 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
9427206 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
9427252 TAATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
9427298 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
9427344 TGATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
9427390 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
9427436 TGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
9427483 TGACA-GAAAATGAGTAAGACCATAGTTGAAA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAA
9427514 AACACTATGG
Statistics
Matches: 286, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 242 0.85
47 43 0.15
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:9427632 original size:13 final size:13
Alignment explanation
Indices: 9427614--9427643 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9427604 CCGGATGACG
9427614 AATGGTTATATGA
1 AATGGTTATATGA
*
9427627 AATGGTTATGTGA
1 AATGGTTATATGA
9427640 AATG
1 AATG
9427644 CTTACAAGAA
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:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:9427832 original size:16 final size:17
Alignment explanation
Indices: 9427811--9427843 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9427801 ATTATGGAGC
9427811 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
9427827 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
9427844 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:9453384 original size:11 final size:11
Alignment explanation
Indices: 9453359--9453409 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
9453349 TAATTCAACA
*
9453359 TTTTATATATAT
1 TTTTATA-ATTT
9453371 TTTT-TAATTT
1 TTTTATAATTT
9453381 TTTTATAATTT
1 TTTTATAATTT
* *
9453392 TTATA-AAGTT
1 TTTTATAATTT
9453402 TTTTATAA
1 TTTTATAA
9453410 CTATTTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 15 0.45
11 14 0.42
12 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:9454053 original size:146 final size:146
Alignment explanation
Indices: 9453788--9454081 Score: 358
Period size: 146 Copynumber: 2.0 Consensus size: 146
9453778 ATTTAAGTAA
* * * * *
9453788 AGTTTCTTTTTATTTGGTAAAAGATTAATTTTGGAGAACCGACGGTTATAGTGTCACTGATCACG
1 AGTTTCTTTTTAGTTAGTAAAAGATTAATTTTGGAGAACCGACAGTTATAGTATCACTGATCACA
* * * * **
9453853 TAACGATTGAGAGAGAGACTGGACCACACCCAGTCGAGAGTAAAAAGACAATAATCGTCCTAGCA
66 TAACGAATGAGAGAGAGACTGGACAACACACACTCGAGAGTAAAAAGACAATAATCACCCTAGCA
9453918 AAAAGGGCCACATTAG
131 AAAAGGGCCACATTAG
* ** *
9453934 AGTTTCTTTTTAGTTATTAGAAA-ATTAATTTTGGAGAATTGACAGTTATAGTATCAGTGATCAC
1 AGTTTCTTTTTAGTTAGTA-AAAGATTAATTTTGGAGAACCGACAGTTATAGTATCACTGATCAC
* * ** *
9453998 ATAACGAATGAGAGAGAGACTAGG-CAATAGACACTCGAGCTTAAAAAGACCATAATCACCCTAG
65 ATAACGAATGAGAGAGAGACT-GGACAACACACACTCGAGAGTAAAAAGACAATAATCACCCTAG
* *
9454062 CGAAAAGGGCTACATTAG
129 CAAAAAGGGCCACATTAG
9454080 AG
1 AG
9454082 AGAGACGGAA
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
146 119 0.96
147 5 0.04
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (146 bp):
AGTTTCTTTTTAGTTAGTAAAAGATTAATTTTGGAGAACCGACAGTTATAGTATCACTGATCACA
TAACGAATGAGAGAGAGACTGGACAACACACACTCGAGAGTAAAAAGACAATAATCACCCTAGCA
AAAAGGGCCACATTAG
Found at i:9454242 original size:208 final size:208
Alignment explanation
Indices: 9453884--9454286 Score: 743
Period size: 208 Copynumber: 1.9 Consensus size: 208
9453874 GACCACACCC
*
9453884 AGTCGAGAGTAAAAAGACAATAATCGTCCTAGCAAAAAGGGCCACATTAGAGTTTCTTTTTAGTT
1 AGTCGAGAGTAAAAAGACAATAATCGCCCTAGCAAAAAGGGCCACATTAGAGTTTCTTTTTAGTT
*
9453949 ATTAGAAAATTAATTTTGGAGAATTGACAGTTATAGTATCAGTGATCACATAACGAATGAGAGAG
66 ATTAGAAAATTAATTTTGGAGAATTGACAATTATAGTATCAGTGATCACATAACGAATGAGAGAG
* *
9454014 AGACTAGGCAATAGACACTCGAGCTTAAAAAGACCATAATCACCCTAGCGAAAAGGGCTACATTA
131 AGACTAAGCAATAGACACTCGAGCGTAAAAAGACCATAATCACCCTAGCGAAAAGGGCTACATTA
9454079 GAGAGAGACGGAA
196 GAGAGAGACGGAA
* * *
9454092 AGTCGAGAGTAAAACGACCATAATTGCCCTAGCAAAAAGGGCCACATTAGAGTTTCTTTTTAGTT
1 AGTCGAGAGTAAAAAGACAATAATCGCCCTAGCAAAAAGGGCCACATTAGAGTTTCTTTTTAGTT
9454157 ATTAGAAAATTAATTTTGGAGAATTGACAATTATAGTATCAGTGATCACATAACGAATGAGAGAG
66 ATTAGAAAATTAATTTTGGAGAATTGACAATTATAGTATCAGTGATCACATAACGAATGAGAGAG
9454222 AGACTAAGCAATAGACACTCGAGCGTAAAAAGACCATAATCACCCTAGCGAAAAGGGCTACATTA
131 AGACTAAGCAATAGACACTCGAGCGTAAAAAGACCATAATCACCCTAGCGAAAAGGGCTACATTA
9454287 CATCCCTTTC
Statistics
Matches: 188, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
208 188 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (208 bp):
AGTCGAGAGTAAAAAGACAATAATCGCCCTAGCAAAAAGGGCCACATTAGAGTTTCTTTTTAGTT
ATTAGAAAATTAATTTTGGAGAATTGACAATTATAGTATCAGTGATCACATAACGAATGAGAGAG
AGACTAAGCAATAGACACTCGAGCGTAAAAAGACCATAATCACCCTAGCGAAAAGGGCTACATTA
GAGAGAGACGGAA
Found at i:9454903 original size:23 final size:23
Alignment explanation
Indices: 9454877--9454921 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9454867 TACTTTTAGC
9454877 CTTTAATAGCTTTTGCGATAATG
1 CTTTAATAGCTTTTGCGATAATG
*
9454900 CTTTAATAGCTTTTGTGATAAT
1 CTTTAATAGCTTTTGCGATAAT
9454922 AGTACCATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.47
Consensus pattern (23 bp):
CTTTAATAGCTTTTGCGATAATG
Found at i:9458463 original size:12 final size:12
Alignment explanation
Indices: 9458442--9458471 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9458432 GAATACGCTC
9458442 AATTAAATTTAA
1 AATTAAATTTAA
*
9458454 AATTACATTTAA
1 AATTAAATTTAA
9458466 AATTAA
1 AATTAA
9458472 CTTGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTAAATTTAA
Found at i:9458516 original size:15 final size:15
Alignment explanation
Indices: 9458465--9458518 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
9458455 ATTACATTTA
*
9458465 AAATTAACTTG-AAT
1 AAATTAAATTGAAAT
* *
9458479 AAATTAGAATTTTAAAA
1 AAATTA-AA-TTGAAAT
9458496 AAATTAAATTGAAAT
1 AAATTAAATTGAAAT
9458511 AAATTAAA
1 AAATTAAA
9458519 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.19
15 14 0.44
16 4 0.12
17 8 0.25
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (15 bp):
AAATTAAATTGAAAT
Found at i:9458526 original size:32 final size:31
Alignment explanation
Indices: 9458464--9458527 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
9458454 AATTACATTT
* * **
9458464 AAAATTAACTTGAATAAATTAGAATTTTAAA
1 AAAATTAAATTGAATAAATTAAAAAATTAAA
9458495 AAAATTAAATTGAAATAAATTAAAAAATTAAA
1 AAAATTAAATTG-AATAAATTAAAAAATTAAA
9458527 A
1 A
9458528 TGAAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (31 bp):
AAAATTAAATTGAATAAATTAAAAAATTAAA
Found at i:9459613 original size:89 final size:89
Alignment explanation
Indices: 9459453--9459772 Score: 250
Period size: 89 Copynumber: 3.6 Consensus size: 89
9459443 CGATGAGTGA
* ** *
9459453 TTTTTTTGCACTCAATTG-GATACTTGAACTTTCAAAATGCATAAACAAA-ATACTCAATCTTTT
1 TTTTTTTACACTCAATTGAG-TACTTGAACTTTCAAAATGCATAAA-AAAGACCCTCAAACTTTT
** *
9459516 TCAGAAAAAGCAATTAAGCCCTTGCTT
64 AAAAAAAAAGCAATTAAGCCCTT-CTT
* *
9459543 TTTTTTT-CACTCAATTGAGTACTTGAACTTTTAAAATGCATAAAAAAGGCCCTCAAAC--TT-A
1 TTTTTTTACACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTAA
*
9459604 AAAAAAA--AA--AAGCCCCTACTTTT
66 AAAAAAAGCAATTAAG-CCCT--TCTT
** * * *
9459627 TTTCTTTTGTACTCAATTGGGTACTTTAAC-TTCAAAATGCATAAAAAAAGACTCTCAAACTTTT
1 TTT-TTTTACACTCAATTGAGTACTTGAACTTTCAAAATGCAT-AAAAAAGACCCTCAAAC-TTT
* ** *
9459691 TCAAAAAAAATTAATTAAGCCCCTACTT
63 TAAAAAAAAAGCAATTAAG-CCCTTCTT
* * * *
9459719 TTTTTTTACACCCAATT-AGGTACTTGAACTGTCAAAATACATCAAAAAGACCCT
1 TTTTTTTACACTCAATTGA-GTACTTGAACTTTCAAAATGCATAAAAAAGACCCT
9459773 TTGACCGTTA
Statistics
Matches: 187, Mismatches: 25, Indels: 35
0.76 0.10 0.14
Matches are distributed among these distances:
82 3 0.02
83 4 0.02
84 7 0.04
85 16 0.09
86 39 0.21
87 2 0.01
88 3 0.02
89 42 0.22
90 16 0.09
91 30 0.16
92 17 0.09
94 8 0.04
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (89 bp):
TTTTTTTACACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTAA
AAAAAAAGCAATTAAGCCCTTCTT
Found at i:9459866 original size:10 final size:10
Alignment explanation
Indices: 9459851--9459938 Score: 52
Period size: 10 Copynumber: 8.5 Consensus size: 10
9459841 TGACACATGA
9459851 AAAAAATTAT
1 AAAAAATTAT
* *
9459861 AAAAAAATAAA
1 -AAAAAATTAT
*
9459872 AAAAAATTAGAA
1 AAAAAATT--AT
*
9459884 AAAAAATGAT
1 AAAAAATTAT
9459894 AAAAAATGTA-
1 AAAAAAT-TAT
* *
9459904 AAAGATTTAT
1 AAAAAATTAT
*
9459914 AAAAAATTGT
1 AAAAAATTAT
**
9459924 AAAATTTTAT
1 AAAAAATTAT
9459934 AAAAA
1 AAAAA
9459939 TCATAAAATG
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
9 2 0.03
10 38 0.66
11 9 0.16
12 9 0.16
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:9459866 original size:11 final size:11
Alignment explanation
Indices: 9459850--9459890 Score: 57
Period size: 10 Copynumber: 3.7 Consensus size: 11
9459840 GTGACACATG
*
9459850 AAAAAAATTAT
1 AAAAAAATTAA
9459861 AAAAAAA-TAA
1 AAAAAAATTAA
9459871 AAAAAAATTAGA
1 AAAAAAATTA-A
9459883 AAAAAAAT
1 AAAAAAAT
9459891 GATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 9 0.33
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAAAATTAA
Found at i:9459897 original size:11 final size:11
Alignment explanation
Indices: 9459850--9459899 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
9459840 GTGACACATG
*
9459850 AAAAAAATTAT
1 AAAAAAATGAT
*
9459861 AAAAAAAT-AA
1 AAAAAAATGAT
9459871 AAAAAAATTAGA-
1 AAAAAAA-T-GAT
9459883 AAAAAAATGAT
1 AAAAAAATGAT
9459894 AAAAAA
1 AAAAAA
9459900 TGTAAAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 10 0.29
11 16 0.47
12 7 0.21
13 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (11 bp):
AAAAAAATGAT
Found at i:9459897 original size:21 final size:20
Alignment explanation
Indices: 9459847--9459906 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
9459837 GGCGTGACAC
*
9459847 ATGAAAAAAATTATAAAAAA
1 ATGAAAAAAATTAAAAAAAA
*
9459867 ATAAAAAAAAATTAGAAAAAAA
1 AT-GAAAAAAATTA-AAAAAAA
9459889 ATGATAAAAAATGTAAAA
1 ATGA-AAAAAAT-TAAAA
9459907 GATTTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 11 0.33
22 18 0.55
23 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (20 bp):
ATGAAAAAAATTAAAAAAAA
Found at i:9459918 original size:21 final size:20
Alignment explanation
Indices: 9459894--9459938 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
9459884 AAAAAATGAT
9459894 AAAAAATGTAAAAGATTTATA
1 AAAAAATGTAAAA-ATTTATA
* *
9459915 AAAAATTGTAAAATTTTATA
1 AAAAAATGTAAAAATTTATA
9459935 AAAA
1 AAAA
9459939 TCATAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAAAATGTAAAAATTTATA
Found at i:9459932 original size:20 final size:20
Alignment explanation
Indices: 9459892--9459938 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9459882 AAAAAAAATG
9459892 ATAAAAAATGTAAAAGATTT
1 ATAAAAAATGTAAAAGATTT
*
9459912 ATAAAAAATTGTAAAA-TTTT
1 ATAAAAAA-TGTAAAAGATTT
9459932 ATAAAAA
1 ATAAAAA
9459939 TCATAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAAAAATGTAAAAGATTT
Found at i:9459945 original size:19 final size:20
Alignment explanation
Indices: 9459909--9459947 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
9459899 ATGTAAAAGA
**
9459909 TTTATAAAAAATTGTAAAAT
1 TTTATAAAAAATCATAAAAT
9459929 TTTAT-AAAAATCATAAAAT
1 TTTATAAAAAATCATAAAAT
9459948 GCATCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
TTTATAAAAAATCATAAAAT
Found at i:9460157 original size:20 final size:20
Alignment explanation
Indices: 9460132--9460170 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9460122 TTGGTATGAT
9460132 AATTTTATAATTCTTTTATG
1 AATTTTATAATTCTTTTATG
* *
9460152 AATTTTATATTTTTTTTAT
1 AATTTTATAATTCTTTTAT
9460171 TTTTTTACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
AATTTTATAATTCTTTTATG
Found at i:9460204 original size:10 final size:10
Alignment explanation
Indices: 9460191--9460264 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
9460181 CTTTATAAAA
9460191 TTTTATAATT
1 TTTTATAATT
*
9460201 TTTTCT-ATAT
1 TTTTATAAT-T
*
9460211 TTCTATATATT
1 TTTTATA-ATT
*
9460222 TTTT-T-ATA
1 TTTTATAATT
9460230 TTTTATAATT
1 TTTTATAATT
*
9460240 TTTTAATAA-A
1 TTTT-ATAATT
9460250 TTTTA-AATT
1 TTTTATAATT
9460259 TTTTAT
1 TTTTAT
9460265 TAAAATTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
8 8 0.17
9 9 0.19
10 21 0.44
11 8 0.17
12 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:9460243 original size:20 final size:20
Alignment explanation
Indices: 9460190--9460262 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 20
9460180 GCTTTATAAA
9460190 ATTTTATAATTTTTTCTATAT
1 ATTTTATAATTTTTT-TATAT
*
9460211 -TTCTAT-ATATTTTTT-TAT
1 ATTTTATAAT-TTTTTTATAT
* *
9460229 ATTTTATAATTTTTTAATAA
1 ATTTTATAATTTTTTTATAT
9460249 ATTTTA-AATTTTTT
1 ATTTTATAATTTTTT
9460263 ATTAAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.07
19 21 0.48
20 20 0.45
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATAATTTTTTTATAT
Found at i:9460270 original size:20 final size:19
Alignment explanation
Indices: 9460229--9460274 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9460219 ATTTTTTTAT
9460229 ATTTTATAATTTTTTAATAA
1 ATTTTA-AATTTTTTAATAA
*
9460249 ATTTTAAATTTTTTATTAA
1 ATTTTAAATTTTTTAATAA
*
9460268 AATTTAA
1 ATTTTAA
9460275 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTAAATTTTTTAATAA
Found at i:9460302 original size:29 final size:29
Alignment explanation
Indices: 9460230--9460302 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
9460220 TTTTTTTATA
*
9460230 TTTTA-TAATTTTTTAATAAATTTTAAATT
1 TTTTATTAA-TTTTTAATAAATTTTAAATC
**
9460259 TTTTATTAAAATTTAATAAATTTTATAA-C
1 TTTTATTAATTTTTAATAAATTTTA-AATC
*
9460288 TTTTATTGATTTTTA
1 TTTTATTAATTTTTA
9460303 TTTTTTTATC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTATTAATTTTTAATAAATTTTAAATC
Found at i:9460522 original size:90 final size:91
Alignment explanation
Indices: 9460380--9460562 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 91
9460370 TAATGATCAA
* * * ** *
9460380 AGGGTCTTTTTAATGCATTTTGGCAATTCAAGTACCTAATTGAGTGCAAAAAA-AAGGTATGGGC
1 AGGGCCTTTTTAATGCATTTTGGAAATTCAAGTACCGAATTGAGTGCAAAAAAGAAAATAAGGGC
9460444 TTAATTGCTTTTTTTAAAAAAGTTTG
66 TTAATTGCTTTTTTTAAAAAAGTTTG
* * *
9460470 AGGGCCTTTTTTATGCATTTT-GAAAGTTTAAGTATCGAATTGAGTGCAAAAAAGAAAATAAGGG
1 AGGGCCTTTTTAATGCATTTTGGAAA-TTCAAGTACCGAATTGAGTGCAAAAAAGAAAATAAGGG
* * *
9460534 CTTAATTGTTTTTTTTGAAAAATTTTG
65 CTTAATTGCTTTTTTTAAAAAAGTTTG
9460561 AG
1 AG
9460563 ACATTTTTGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 3 0.04
90 43 0.54
91 33 0.42
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.38
Consensus pattern (91 bp):
AGGGCCTTTTTAATGCATTTTGGAAATTCAAGTACCGAATTGAGTGCAAAAAAGAAAATAAGGGC
TTAATTGCTTTTTTTAAAAAAGTTTG
Found at i:9460745 original size:6 final size:6
Alignment explanation
Indices: 9460734--9460759 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9460724 TGAAGATTAA
9460734 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
9460760 TTGAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:9467787 original size:19 final size:19
Alignment explanation
Indices: 9467763--9467811 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
9467753 TTCAAGGATC
* *
9467763 AATTTTTAAAAAAATATAA
1 AATTTTGAAAAAAATAGAA
* *
9467782 AATTTTGGAAAAACTAGAA
1 AATTTTGAAAAAAATAGAA
9467801 AATTTTGAAAA
1 AATTTTGAAAA
9467812 TAAGGGTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (19 bp):
AATTTTGAAAAAAATAGAA
Found at i:9485441 original size:2 final size:2
Alignment explanation
Indices: 9485434--9485458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9485424 GGGTCATATT
9485434 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9485459 AATGGGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9489699 original size:37 final size:37
Alignment explanation
Indices: 9489636--9489707 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
9489626 TACACTTTCT
**
9489636 CAATTCAATATACATTTCAATTATTCACATA-TAATCA
1 CAATTCAATATACATTTCAACAATTCA-ATACTAATCA
*
9489673 CAATTCAATTTA-ATTTCATACAATTCAATACTAAT
1 CAATTCAATATACATTTCA-ACAATTCAATACTAAT
9489708 ACTTACCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (37 bp):
CAATTCAATATACATTTCAACAATTCAATACTAATCA
Found at i:9490492 original size:13 final size:13
Alignment explanation
Indices: 9490460--9490492 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
9490450 AAACCCTAAA
*
9490460 TTTCTTCTTTTCT
1 TTTCTTTTTTTCT
9490473 TTTCTTTTTTTCT
1 TTTCTTTTTTTCT
9490486 TTTCTTT
1 TTTCTTT
9490493 CTGTTTCGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTCT
Found at i:9490553 original size:5 final size:5
Alignment explanation
Indices: 9490545--9490601 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
9490535 TCTTTAGTTT
9490545 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
9490595 ATATA AT
1 ATATA AT
9490602 TAAAACAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:9494963 original size:25 final size:27
Alignment explanation
Indices: 9494912--9494965 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9494902 CATTTAAAAA
* *
9494912 AATATTTATATTATATTTTTTAATATTT
1 AATAATTATATTACATTTTTT-ATATTT
9494940 AATAATTATA-TACATTTTTT-TATTT
1 AATAATTATATTACATTTTTTATATTT
9494965 A
1 A
9494966 TTTGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
27 9 0.38
28 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
AATAATTATATTACATTTTTTATATTT
Found at i:9496748 original size:19 final size:20
Alignment explanation
Indices: 9496724--9496762 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
9496714 AATGTATATA
*
9496724 AATATACCAAATTA-AAATT
1 AATATACAAAATTACAAATT
*
9496743 AATATATAAAATTACAAATT
1 AATATACAAAATTACAAATT
9496763 TATCAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATACAAAATTACAAATT
Found at i:9496750 original size:29 final size:27
Alignment explanation
Indices: 9496702--9496762 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
9496692 AATTGAATGA
* *
9496702 AAATTAAATTTTAATGTATATAAATATACC
1 AAATTAAATATTAATATATA-AAAT-TA-C
9496732 AAATTAAA-ATTAATATATAAAATTAC
1 AAATTAAATATTAATATATAAAATTAC
9496758 AAATT
1 AAATT
9496763 TATCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 2 0.07
28 4 0.14
29 9 0.31
30 8 0.28
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (27 bp):
AAATTAAATATTAATATATAAAATTAC
Found at i:9498234 original size:9 final size:9
Alignment explanation
Indices: 9498183--9498258 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
9498173 TTTTTATATT
*
9498183 TTTTAGAAA
1 TTTTATAAA
9498192 CTTTT-TAAA
1 -TTTTATAAA
9498201 CTTTTATAAA
1 -TTTTATAAA
9498211 TTTTA-AAA
1 TTTTATAAA
***
9498219 AAATATAAA
1 TTTTATAAA
*
9498228 TTTTATAATT
1 TTTTATAA-A
9498238 TTTTATAAA
1 TTTTATAAA
9498247 TATTT-TAAA
1 T-TTTATAAA
9498256 TTT
1 TTT
9498259 GTTATGTGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 7 0.13
9 27 0.51
10 19 0.36
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (9 bp):
TTTTATAAA
Found at i:9501181 original size:34 final size:34
Alignment explanation
Indices: 9501134--9501202 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
9501124 TATTTCAAAA
*
9501134 AACACAATACTTAGATTATTCAGCAAGATATGAT
1 AACACAATACTTAGATTATTCAGCAAAATATGAT
*
9501168 AACACAATGCTTAGATTATTCAGCAAAATATGAT
1 AACACAATACTTAGATTATTCAGCAAAATATGAT
9501202 A
1 A
9501203 GTTTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (34 bp):
AACACAATACTTAGATTATTCAGCAAAATATGAT
Found at i:9501909 original size:4 final size:4
Alignment explanation
Indices: 9501902--9501937 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
9501892 AATAAAATAA
9501902 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
9501938 CAAGTCAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Done.