Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 300 of 373
Found at i:101549285 original size:26 final size:26
Alignment explanation
Indices: 101549220--101549303 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 26
101549210 TAAAACATAT
*
101549220 AAAAAC-AAACCCTAAACCCTAAAATTCAA
1 AAAAACAAAACCAT-AACCCT--AATT-AA
*
101549249 AAAACCTAAAACCATAACCCTAATTAA
1 AAAAAC-AAAACCATAACCCTAATTAA
*
101549276 AAAAACAAAA-CACTAACCCTAAATAA
1 AAAAACAAAACCA-TAACCCTAATTAA
101549302 AA
1 AA
101549304 CATTACACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
25 2 0.04
26 18 0.38
27 7 0.15
28 4 0.08
29 5 0.10
30 6 0.12
31 6 0.12
ACGTcount: A:0.61, C:0.25, G:0.00, T:0.14
Consensus pattern (26 bp):
AAAAACAAAACCATAACCCTAATTAA
Found at i:101550105 original size:29 final size:30
Alignment explanation
Indices: 101550060--101550117 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
101550050 TATTTTATTG
101550060 TTAATTTTGTTATTATTTTAAAGGCATTTA
1 TTAATTTTGTTATTATTTTAAAGGCATTTA
* *
101550090 TTAATTTT-TTATTATTTTAGAGGTATTT
1 TTAATTTTGTTATTATTTTAAAGGCATTT
101550118 TCTTGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.28, C:0.02, G:0.10, T:0.60
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTA
Found at i:101551356 original size:25 final size:25
Alignment explanation
Indices: 101551327--101551377 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
101551317 CTAATTAAGA
101551327 TTGTTTTTATTTAATAAATGACAAT
1 TTGTTTTTATTTAATAAATGACAAT
101551352 TTGTTTTTATTTAATAAATGACAAT
1 TTGTTTTTATTTAATAAATGACAAT
101551377 T
1 T
101551378 AATAGGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (25 bp):
TTGTTTTTATTTAATAAATGACAAT
Found at i:101556147 original size:24 final size:24
Alignment explanation
Indices: 101556118--101556173 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
101556108 TTCTAATTAA
*
101556118 ATTTTATAAATAATTAATATTTAT
1 ATTTTATAAATAATTAAAATTTAT
* *
101556142 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATAATTAAAATTTAT
101556166 ATTTTATA
1 ATTTTATA
101556174 TATTAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:101566311 original size:10 final size:10
Alignment explanation
Indices: 101566296--101566328 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
101566286 GATGAAACAA
101566296 ATTTAAATAG
1 ATTTAAATAG
101566306 ATTTAAATAG
1 ATTTAAATAG
*
101566316 ATTTAAATCG
1 ATTTAAATAG
101566326 ATT
1 ATT
101566329 GTAACTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (10 bp):
ATTTAAATAG
Found at i:101566363 original size:20 final size:20
Alignment explanation
Indices: 101566288--101566369 Score: 74
Period size: 20 Copynumber: 4.1 Consensus size: 20
101566278 ATAATAAAGA
* *
101566288 TGAAACAAATTTAAATAGAT
1 TGAAACAGATTTAAATCGAT
* *
101566308 TTAAATAGATTTAAATCGAT
1 TGAAACAGATTTAAATCGAT
* * **
101566328 TGTAACTGATAAAAATCGAT
1 TGAAACAGATTTAAATCGAT
* *
101566348 TGAAAGAGATTTAAATCAAT
1 TGAAACAGATTTAAATCGAT
101566368 TG
1 TG
101566370 TAGCAAATTT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (20 bp):
TGAAACAGATTTAAATCGAT
Found at i:101568334 original size:50 final size:50
Alignment explanation
Indices: 101568210--101568458 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
101568200 GATAATAACA
* * ** * *
101568210 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
101568261 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
101568311 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
101568361 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
101568416 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
101568459 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:101568388 original size:100 final size:104
Alignment explanation
Indices: 101568209--101568458 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
101568199 TGATAATAAC
**
101568209 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
101568274 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
101568311 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
101568374 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
101568416 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
101568459 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:101568574 original size:13 final size:13
Alignment explanation
Indices: 101568553--101568584 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
101568543 GCTTGGATCA
*
101568553 TCATCAAATAAAT
1 TCATAAAATAAAT
101568566 TCATAAAATAAAT
1 TCATAAAATAAAT
101568579 TCATAA
1 TCATAA
101568585 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:101568831 original size:30 final size:29
Alignment explanation
Indices: 101568796--101568852 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
101568786 CCTCGACTCT
*
101568796 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
101568826 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
101568853 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:101575921 original size:50 final size:50
Alignment explanation
Indices: 101575796--101576045 Score: 286
Period size: 50 Copynumber: 4.9 Consensus size: 50
101575786 TGATAATAAC
* * ** * *
101575796 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-G
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCG
* *
101575847 GTGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
* * *
101575897 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
* *
101575947 GTGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAG
1 GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CG
* *
101576002 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 G-TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
101576046 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 34 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
GTGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
Found at i:101575976 original size:100 final size:103
Alignment explanation
Indices: 101575796--101576045 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
101575786 TGATAATAAC
**
101575796 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
101575861 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAG
* *
101575897 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
101575961 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAG
* *
101576002 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 G-TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
101576046 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 50 0.37
101 37 0.28
103 3 0.02
104 1 0.01
105 2 0.01
106 40 0.30
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (103 bp):
GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAG
Found at i:101576160 original size:13 final size:13
Alignment explanation
Indices: 101576139--101576170 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
101576129 GCTTGGATCA
*
101576139 TCATCAAATAAAT
1 TCATAAAATAAAT
101576152 TCATAAAATAAAT
1 TCATAAAATAAAT
101576165 TCATAA
1 TCATAA
101576171 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:101576417 original size:30 final size:30
Alignment explanation
Indices: 101576382--101576439 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
101576372 CCTCGACTCT
* *
101576382 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
101576412 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
101576440 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:101578218 original size:49 final size:46
Alignment explanation
Indices: 101578146--101578308 Score: 159
Period size: 47 Copynumber: 3.5 Consensus size: 46
101578136 CAACTGTGGT
* *
101578146 CATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATTGATGC
1 CATAGCCCAACTATGGTCTTACACG-AATCACATATCAC--ACTGATGC
*
101578195 CATAGCCCAACTATGGTCTTACACGAATCACATATCTCACTGATGC
1 CATAGCCCAACTATGGTCTTACACGAATCACATATCACACTGATGC
* * * * * * *
101578241 CATATCCCAGA-TATGGTCTTATACAGTAGCATATATCACACCGATGT
1 CATAGCCCA-ACTATGGTCTTACAC-GAATCACATATCACACTGATGC
*
101578288 CATATCCCAGA-TATGGTCTTA
1 CATAGCCCA-ACTATGGTCTTA
101578309 TACGGAAATC
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 27 0.27
47 38 0.38
48 12 0.12
49 24 0.24
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (46 bp):
CATAGCCCAACTATGGTCTTACACGAATCACATATCACACTGATGC
Found at i:101578365 original size:31 final size:31
Alignment explanation
Indices: 101578330--101578478 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
101578320 CTTGTCACTT
*
101578330 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
101578361 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
101578392 GTAGTC-AGAGTTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
101578423 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
101578454 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
101578479 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
31 103 0.99
32 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:101578551 original size:50 final size:51
Alignment explanation
Indices: 101578454--101578582 Score: 152
Period size: 50 Copynumber: 2.5 Consensus size: 51
101578444 CACTAATCAG
* * * * * * *
101578454 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCAAAACTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAAT
* *
101578505 GTAGCCAAAACTATTACTTATCACTT-TCACTTATCCTTGATTAGATAAAT
1 GTAGCCAAAACTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAAT
* *
101578555 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCAAAACTATCACTTATCACTTGT
101578583 TGCCATGGTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 43 0.66
51 22 0.34
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (51 bp):
GTAGCCAAAACTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAAT
Found at i:101581731 original size:13 final size:13
Alignment explanation
Indices: 101581713--101581743 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
101581703 GCATCATTTA
101581713 CATTTACAAGCAT
1 CATTTACAAGCAT
101581726 CATTTACAAGCAT
1 CATTTACAAGCAT
101581739 CATTT
1 CATTT
101581744 GCACTAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
CATTTACAAGCAT
Found at i:101586389 original size:15 final size:16
Alignment explanation
Indices: 101586353--101586390 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
101586343 TTTTTTTTCT
*
101586353 TTTTCGTTTAATTAAA
1 TTTTCATTTAATTAAA
*
101586369 TTTTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
101586384 TTTTCAT
1 TTTTCAT
101586391 CTTTTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:101587444 original size:18 final size:17
Alignment explanation
Indices: 101587421--101587454 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101587411 GCCTCATAGC
101587421 CAGATACAAACAGAATAT
1 CAGATA-AAACAGAATAT
*
101587439 CAGATATAACAGAATA
1 CAGATAAAACAGAATA
101587455 ATAGATGCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.15, G:0.12, T:0.18
Consensus pattern (17 bp):
CAGATAAAACAGAATAT
Found at i:101591941 original size:19 final size:18
Alignment explanation
Indices: 101591919--101591961 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
101591909 GGGTTAGAAT
101591919 TTTGGGTTAGGCTTAGGTG
1 TTTGGGTTAGGCTTAGG-G
* * *
101591938 TTTGGATTGGGCTTCGGG
1 TTTGGGTTAGGCTTAGGG
101591956 TTTGGG
1 TTTGGG
101591962 CATATTGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.07, C:0.07, G:0.44, T:0.42
Consensus pattern (18 bp):
TTTGGGTTAGGCTTAGGG
Found at i:101592530 original size:132 final size:132
Alignment explanation
Indices: 101592288--101593204 Score: 1163
Period size: 132 Copynumber: 6.9 Consensus size: 132
101592278 GTGGCTTAAA
** * * * * * *
101592288 CCTGCTCCACTGTGACTTTAGAGAGACAAGGCTGGTGGCTTAAATCTGTTCCATTGCCGATATAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACAT
* * * * * * * * *
101592353 GGAGATAAGATTCACCATTTTTTATCTACTCTACTACTGTTTAGGGAGATAAGATCTGTAACCTG
66 GGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
101592418 AG
131 AG
* * * * * * *
101592420 CTTGTTCCACTACAACCTCAGAGAGATAAGGCTAGTGGCTTAAATTTACTCTATTGTCGATACAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACAT
* * ** *
101592485 GGAGATAATATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAACTTG
66 GGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
101592550 AG
131 AG
* * *
101592552 CCTGCTTCACTGCAACCTCAG-GAAGATGAGGCTAGTGGCTTACATCTGCTCCATTGCCGATACA
1 CCTGCTCCACTGCAACCTCAGAG-AGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACA
* * *
101592616 TGGAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGACCTGTATCTT
65 TGGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTT
101592681 GAG
130 GAG
* * * *
101592684 CTTGCTCCACTGCAACCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGATATAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACAT
** * *
101592749 GGAGATAAGATTTGTCGTCTTTGGTCTGCTCCACTACTGCTTAGGGAGATAAGACCTGTATCTTG
66 GGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
101592814 AG
131 AG
* * * * *
101592816 CCTACTCCATTGCAACCTCA-AGGAGATAAGGCTAGTCGCTTAAATCTGCTCCATTGCTGATATA
1 CCTGCTCCACTGCAACCTCAGA-GAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACA
* * * * *
101592880 TAGAGATAAGATTTACCATCTTTGGTCTGCTCCACTACTGCTTAGGAAGATAATATCTGTATCTT
65 TGGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTT
101592945 GAG
130 GAG
* * * *
101592948 CCTGCTCTACTGCAACCTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCCATTGTCGATACAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACAT
* * * * *
101593013 AGAGATAAGATTTACCGTCGTTGGTCTGCTCCACTACTACTTAGGGAGATAAGACCTGTATCTTG
66 GGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
101593078 AG
131 AG
* * * *
101593080 CCTGCTCCATTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGATACAT
1 CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACAT
* * * * *
101593145 GGAGATAAGATTTTCCGTCTTCGATCTACTCCTCTACTGCTTAGGAAGATAAGATCTGTA
66 GGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
101593205 ATTTTCTTCA
Statistics
Matches: 685, Mismatches: 96, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
131 1 0.00
132 683 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (132 bp):
CCTGCTCCACTGCAACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGATACAT
GGAGATAAGATTTACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTATCTTG
AG
Found at i:101592797 original size:44 final size:43
Alignment explanation
Indices: 101592617--101592812 Score: 133
Period size: 44 Copynumber: 4.5 Consensus size: 43
101592607 GCCGATACAT
* * *
101592617 GGAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAG
1 GGAGATAAGACTTG-TGTCTTTGATCTGCTCCACTACTGCTTAG
* * * * ** *
101592661 GGAGATAAGACCTGTATC-TTGAGCTTGCTCCACTGCAACCTCAG
1 GGAGATAAGACTTGTGTCTTTGATC-TGCTCCACTAC-TGCTTAG
* * * ** * * * *
101592705 GGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGATATAT
1 GGAGATAAGACTTGTGTCTTTGATCTGCTCCACTACTGCT-TAG
* *
101592749 GGAGATAAGATTTGTCGTCTTTGGTCTGCTCCACTACTGCTTAG
1 GGAGATAAGACTTGT-GTCTTTGATCTGCTCCACTACTGCTTAG
* *
101592793 GGAGATAAGACCTGTATCTT
1 GGAGATAAGACTTGTGTCTT
101592813 GAGCCTACTC
Statistics
Matches: 108, Mismatches: 39, Indels: 11
0.68 0.25 0.07
Matches are distributed among these distances:
42 5 0.05
43 16 0.15
44 66 0.61
45 21 0.19
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (43 bp):
GGAGATAAGACTTGTGTCTTTGATCTGCTCCACTACTGCTTAG
Found at i:101599007 original size:44 final size:44
Alignment explanation
Indices: 101598951--101599162 Score: 109
Period size: 44 Copynumber: 4.8 Consensus size: 44
101598941 TCTCTGATGC
*
101598951 AGCAA-GAGAGCAGGTTGAAGATACAGATCTTATCTTTCTGAGGT
1 AGCAAGGA-AGCAGATTGAAGATACAGATCTTATCTTTCTGAGGT
* * * *
101598995 AGCAAGGAAGCAGACTGAAAATTATAGATCTTATC--CCATGTA--T
1 AGCAAGGAAGCAGATTGAAGA-TACAGATCTTATCTTTC-TG-AGGT
* ** ** * * *
101599038 AAGCTATGG-AGCAGATTTTAGCCACCAG-CCTTATCTCTCTCAGGT
1 -AGC-AAGGAAGCAGATTGAAGATA-CAGATCTTATCTTTCTGAGGT
* * *
101599083 AGCAA-GAGAGTAGGTTAAAGATACA-AGTCTTATCTTTCTGAGGT
1 AGCAAGGA-AGCAGATTGAAGATACAGA-TCTTATCTTTCTGAGGT
* *
101599127 AGCAAGGAAGCAGACTGAAAATTACAGATCTTATCT
1 AGCAAGGAAGCAGATTGAAGA-TACAGATCTTATCT
101599163 CCCTAAGCAG
Statistics
Matches: 119, Mismatches: 31, Indels: 35
0.64 0.17 0.19
Matches are distributed among these distances:
42 1 0.01
43 13 0.11
44 70 0.59
45 34 0.29
46 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCAAGGAAGCAGATTGAAGATACAGATCTTATCTTTCTGAGGT
Found at i:101599077 original size:132 final size:133
Alignment explanation
Indices: 101598890--101599164 Score: 430
Period size: 132 Copynumber: 2.1 Consensus size: 133
101598880 AGATGGTGAG
* * * *
101598890 TCTTATCTCCATGTATCGACTATGGAACAGATTTTAGCCACCAGCCTTTTCTCTCTGATGCAGCA
1 TCTTATCTCCATGTATAGACTATGGAACAGATTTTAGCCACCAGCCTTATCTCTCTCAGGCAGCA
*
101598955 AGAGAGCAGGTTGAAGATAC-AGATCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAAATTA
66 AGAGAGCAGGTTAAAGATACAAG-TCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAAATTA
*
101599019 TAGA
130 CAGA
* *
101599023 TCTTATC-CCATGTATA-AGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTCAGGTAGC
1 TCTTATCTCCATGTATAGA-CTATGGAACAGATTTTAGCCACCAGCCTTATCTCTCTCAGGCAGC
*
101599086 AAGAGAGTAGGTTAAAGATACAAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAAATTA
65 AAGAGAGCAGGTTAAAGATACAAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAAATTA
101599151 CAGA
130 CAGA
101599155 TCTTATCTCC
1 TCTTATCTCC
101599165 CTAAGCAGTA
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
131 1 0.01
132 118 0.91
133 11 0.08
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (133 bp):
TCTTATCTCCATGTATAGACTATGGAACAGATTTTAGCCACCAGCCTTATCTCTCTCAGGCAGCA
AGAGAGCAGGTTAAAGATACAAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
AGA
Found at i:101599271 original size:177 final size:177
Alignment explanation
Indices: 101599039--101599379 Score: 468
Period size: 177 Copynumber: 1.9 Consensus size: 177
101599029 CCCATGTATA
* * * *
101599039 AGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTCAGGTAGCAAGAGAGTAGGTTAAAGA
1 AGCTATGGAGCAGATCTTAGCCACCAGCCTTATCTCCCTCAAGCAGCAAGAGAGTAGGTTAAAGA
* * * * *
101599104 TACAAGTCTTATCTTT-CTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCCTA
66 TACAAGTATTAT-TTTCCGGAGGTAGCAAAGAAACAGACTGAAAATTACAGATATTATCTCCCTA
** *
101599168 AGCAGTAGTAGAGTAGATCGAAAATGGCGAGTCTTATTTCCGTATATC
130 AGCAGTAGTAGAACAGATCGAAAATGGCAAGTCTTATTTCCGTATATC
* * * ** *
101599216 AGCTATGGAGCAGATCTTAGCCACCTGCTTTATCTCCCTGAAGCAGCGGGAGAGTAGGTTGAAGA
1 AGCTATGGAGCAGATCTTAGCCACCAGCCTTATCTCCCTCAAGCAGCAAGAGAGTAGGTTAAAGA
* *
101599281 TACAAGTATTATTTTCCGGAGGTAGCAAAGAAATAGACTGAAAATTACAGATATTATCTCCTTAA
66 TACAAGTATTATTTTCCGGAGGTAGCAAAGAAACAGACTGAAAATTACAGATATTATCTCCCTAA
* *
101599346 TCAGTAGTGGAACAGATCGAAAATGGCAAGTCTT
131 GCAGTAGTAGAACAGATCGAAAATGGCAAGTCTT
101599380 TTCTCTATGT
Statistics
Matches: 141, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
176 3 0.02
177 138 0.98
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (177 bp):
AGCTATGGAGCAGATCTTAGCCACCAGCCTTATCTCCCTCAAGCAGCAAGAGAGTAGGTTAAAGA
TACAAGTATTATTTTCCGGAGGTAGCAAAGAAACAGACTGAAAATTACAGATATTATCTCCCTAA
GCAGTAGTAGAACAGATCGAAAATGGCAAGTCTTATTTCCGTATATC
Found at i:101600672 original size:28 final size:29
Alignment explanation
Indices: 101600618--101600687 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
101600608 TTGGGCATTT
* *
101600618 TATT-ATTATTTTAATAATATTATTATTG
1 TATTCATTATTTTTATAATATTACTATTG
*
101600646 TATTCATTATTTTTAT-ATGTTACTATTG
1 TATTCATTATTTTTATAATATTACTATTG
*
101600674 CATTCATT-TTTTTA
1 TATTCATTATTTTTA
101600688 CTTTTTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.16
28 21 0.57
29 10 0.27
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (29 bp):
TATTCATTATTTTTATAATATTACTATTG
Found at i:101607173 original size:21 final size:22
Alignment explanation
Indices: 101607144--101607190 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101607134 CAGAAGGAGT
*
101607144 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101607166 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101607187 GAGT
1 GAGT
101607191 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:101609730 original size:31 final size:30
Alignment explanation
Indices: 101609680--101609754 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 30
101609670 AGTTTATATC
* *
101609680 TTTATAATTTTTAAAAAATTAAATTAAAAT
1 TTTATTATTTTTAAAAAATTAAAATAAAAT
*
101609710 TTTATTATTTTTGAAAAAATTAAAATATAAT
1 TTTATTATTTTT-AAAAAATTAAAATAAAAT
*
101609741 TTTATTATTATTAA
1 TTTATTATTTTTAA
101609755 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 13 0.32
31 27 0.68
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTATTATTTTTAAAAAATTAAAATAAAAT
Found at i:101612626 original size:30 final size:30
Alignment explanation
Indices: 101612592--101612649 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
101612582 TGTTTTATAG
101612592 TTAATTTTGTTATTATTTTAGAGGCATTCA
1 TTAATTTTGTTATTATTTTAGAGGCATTCA
101612622 TTAATTTTGTTATTATTTTAGAGGCATT
1 TTAATTTTGTTATTATTTTAGAGGCATT
101612650 TACTTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAGAGGCATTCA
Found at i:101617077 original size:32 final size:30
Alignment explanation
Indices: 101617024--101617088 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 30
101617014 ACTTATTTTA
*
101617024 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
*
101617054 TTGTTAATTTTTTATTATTATTTTAGAGGCAT
1 TTGTTAA--TTTTATTATTATTTTAAAGGCAT
101617086 TTG
1 TTG
101617089 CTTGATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
32 24 0.77
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:101627356 original size:24 final size:24
Alignment explanation
Indices: 101627329--101627381 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
101627319 AGTCCAATAG
101627329 CCCAATAACTAACTAAACCCTAAA
1 CCCAATAACTAACTAAACCCTAAA
101627353 CCCAATAACTAACTAAACCCTAAA
1 CCCAATAACTAACTAAACCCTAAA
101627377 CCCAA
1 CCCAA
101627382 AAAAACCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (24 bp):
CCCAATAACTAACTAAACCCTAAA
Found at i:101629686 original size:129 final size:130
Alignment explanation
Indices: 101629504--101629843 Score: 374
Period size: 129 Copynumber: 2.6 Consensus size: 130
101629494 CAATTGTTTA
* * * * * *
101629504 TTTGAAGATTCATTAAAACAAAGGTAATAGTT-GATGTTTGGGAACTCGAGGAATCGTGCTCCAA
1 TTTGAAAATTCCTTAAAAC-AAGGCAAT-GTTCGATGTTTGGAAATTCGAGGAATCGTGC-CCTA
*
101629568 CCGTGCTGGGTTTCGATTTTTAGTTTG-TCCAAATAATAAAATATTCCTTGA-AATTTCA-TC-C
63 CCGTGCTGGGTTTCGATTTTTAGTTTGTTCAAAATAATAAAATATTCCTTGAGAATTTCACTCAC
101629629 GTAC
128 GT-C
* * *
101629633 TTTGAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGAAATTTGGGGAATCGTGCCCTATC
1 TTTGAAAATTCCTTAAAAC-AAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACC
* * * * ** * *
101629698 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
65 GTGCTGGGTTTCGATTTTTAGTTTGTTCAAAATAATAAAATATTCCTTGAGAATTTCACTCACGT
101629763 C
130 C
* * *
101629764 TTCT--AAATT-C-TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTACCCTACT
1 TT-TGAAAATTCCTTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACC
101629825 GTGCTGGGTTTCGATTTTT
65 GTGCTGGGTTTCGATTTTT
101629844 TATTGGACTA
Statistics
Matches: 177, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
127 55 0.31
128 34 0.19
129 68 0.38
130 12 0.07
131 5 0.03
132 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (130 bp):
TTTGAAAATTCCTTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTACCG
TGCTGGGTTTCGATTTTTAGTTTGTTCAAAATAATAAAATATTCCTTGAGAATTTCACTCACGTC
Found at i:101630950 original size:20 final size:20
Alignment explanation
Indices: 101630925--101630964 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
101630915 AATTTAGGTC
*
101630925 GACATCGTGACGTGAAGGAG
1 GACATCGCGACGTGAAGGAG
*
101630945 GACATCGCGACTTGAAGGAG
1 GACATCGCGACGTGAAGGAG
101630965 TGCCTCGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.38, T:0.15
Consensus pattern (20 bp):
GACATCGCGACGTGAAGGAG
Found at i:101632171 original size:27 final size:27
Alignment explanation
Indices: 101632118--101632171 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
101632108 TGGATTCCAA
* * *
101632118 TATAATCAGTAATAAACTACGTGCAAT
1 TATAATCAATAATAAACTACATACAAT
101632145 TATAATCAATAATAAACTACATACAAT
1 TATAATCAATAATAAACTACATACAAT
101632172 CACATACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.30
Consensus pattern (27 bp):
TATAATCAATAATAAACTACATACAAT
Found at i:101637499 original size:21 final size:22
Alignment explanation
Indices: 101637475--101637520 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
101637465 TCCCTTTCTC
101637475 CTTTCTCTTCTAAGC-AATCTT
1 CTTTCTCTTCTAAGCAAATCTT
101637496 CTTTCTCTTCTAAGCAAATCTT
1 CTTTCTCTTCTAAGCAAATCTT
101637518 CTT
1 CTT
101637521 CCACATCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (22 bp):
CTTTCTCTTCTAAGCAAATCTT
Found at i:101639784 original size:18 final size:18
Alignment explanation
Indices: 101639761--101639796 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
101639751 CAATTAAACC
101639761 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
101639779 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
101639797 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:101639979 original size:14 final size:15
Alignment explanation
Indices: 101639957--101640033 Score: 70
Period size: 14 Copynumber: 5.0 Consensus size: 15
101639947 CAATCAAACA
101639957 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
101639971 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
101639986 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
101640006 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
101640020 CCAGAAAA-CATTTT
1 CCAGAAAATCATTTT
101640034 ACAGCCAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 24 0.46
15 14 0.27
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.17
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:101639998 original size:20 final size:20
Alignment explanation
Indices: 101639973--101640012 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
101639963 AATATTTTCC
*
101639973 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
101639993 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
101640013 TCATTTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:101640018 original size:34 final size:35
Alignment explanation
Indices: 101639961--101640027 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
101639951 CAAACACCAG
*
101639961 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
101639996 AAAACATTTTCCAG-AAATCATTTTCCAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
101640028 CATTTTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:101640745 original size:2 final size:2
Alignment explanation
Indices: 101640738--101640765 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101640728 TTCTTGCACC
101640738 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
101640766 TTCTGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:101649926 original size:18 final size:18
Alignment explanation
Indices: 101649903--101649941 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101649893 TATTAATACA
*
101649903 ATTATTGATATA-ACATAT
1 ATTATTG-TATACACAAAT
101649921 ATTATTGTATACACAAAT
1 ATTATTGTATACACAAAT
101649939 ATT
1 ATT
101649942 CATATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (18 bp):
ATTATTGTATACACAAAT
Found at i:101655375 original size:3 final size:3
Alignment explanation
Indices: 101655367--101655404 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
101655357 CAAGACAGTA
101655367 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
101655405 ACCCAAACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:101656256 original size:9 final size:10
Alignment explanation
Indices: 101656223--101656272 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
101656213 TTGTCTACCG
101656223 TTTTT-ATAA
1 TTTTTAATAA
*
101656232 TATTTTAGTAA
1 T-TTTTAATAA
101656243 TTTTTAATAA
1 TTTTTAATAA
101656253 TTTTTAA-AA
1 TTTTTAATAA
101656262 TTTTTTAATAA
1 -TTTTTAATAA
101656273 AAAGTTCTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 26 0.74
11 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:101656986 original size:9 final size:9
Alignment explanation
Indices: 101656904--101657091 Score: 58
Period size: 9 Copynumber: 19.6 Consensus size: 9
101656894 TTTTAATTAT
101656904 TTTTATATAA
1 TTTTATA-AA
101656914 TTTCTA-AAA
1 TTT-TATAAA
101656923 TTTTATAATA
1 TTTTATAA-A
* *
101656933 TTAATATGATA
1 TT-TTAT-AAA
*
101656944 TTTTCATATA
1 TTTT-ATAAA
*
101656954 TTTCATAACA
1 TTTTATAA-A
*
101656964 TATGTATAATA
1 T-TTTATAA-A
101656975 TTTTATAAA
1 TTTTATAAA
*
101656984 TTTAATATATA
1 TTT--TATAAA
*
101656995 TTTT-TTAA
1 TTTTATAAA
101657003 TTTT-TAAA
1 TTTTATAAA
* *
101657011 ATTTATGATA
1 TTTTAT-AAA
*
101657021 TTTAATAAA
1 TTTTATAAA
*
101657030 TTTTATAGA
1 TTTTATAAA
* *
101657039 TTTTCTATA
1 TTTTATAAA
* *
101657048 TTTTCTTAAT
1 TTTT-ATAAA
*
101657058 TTTTAAAAA
1 TTTTATAAA
*
101657067 GTTTATAATA
1 TTTTATAA-A
*
101657077 TTTTAATAAT
1 TTTT-ATAAA
101657087 TTTTA
1 TTTTA
101657092 AGCTTAAATA
Statistics
Matches: 131, Mismatches: 32, Indels: 31
0.68 0.16 0.16
Matches are distributed among these distances:
8 14 0.11
9 45 0.34
10 42 0.32
11 29 0.22
12 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (9 bp):
TTTTATAAA
Found at i:101657005 original size:28 final size:26
Alignment explanation
Indices: 101656974--101657092 Score: 73
Period size: 27 Copynumber: 4.3 Consensus size: 26
101656964 TATGTATAAT
101656974 ATTTTATAAATTTAATATATATTTTTTA
1 ATTTT-TAAATTT-ATATATATTTTTTA
** *
101657002 ATTTTTAAAATTTATGATAT-TTAATAA
1 ATTTTT-AAATTTAT-ATATATTTTTTA
* *
101657029 ATTTTATAGATTT-TCTATATTTTCTTA
1 ATTTT-TAAATTTATATATATTTT-TTA
*
101657056 ATTTTTAAAAAGTTTATA-ATATTTTAATA
1 ATTTTT--AAA-TTTATATATATTTT-TTA
101657085 ATTTTTAA
1 ATTTTTAA
101657093 GCTTAAATAA
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
25 3 0.04
26 4 0.06
27 26 0.37
28 18 0.26
29 18 0.26
30 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTTAAATTTATATATATTTTTTA
Found at i:101662472 original size:40 final size:40
Alignment explanation
Indices: 101662387--101662480 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
101662377 ATCTCAGTAT
* *
101662387 CGCACACTTAGTGCCACAAATAGCCGAAGCTATTCCAATT
1 CGCACACTAAGTGCCACAAATAGCCGAAGCTATTCCAATA
* * * * *
101662427 TGCACACTAAGTGCTATATATAGCCGAAGCTATCTCGAA-A
1 CGCACACTAAGTGCCACAAATAGCCGAAGCTAT-TCCAATA
*
101662467 CGCACACCAAGTGC
1 CGCACACTAAGTGC
101662481 AAACATAGCT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (40 bp):
CGCACACTAAGTGCCACAAATAGCCGAAGCTATTCCAATA
Found at i:101668221 original size:21 final size:23
Alignment explanation
Indices: 101668181--101668226 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
101668171 ATAGGAGGTG
*
101668181 TTTAAATAACAAAAATAATTTTA
1 TTTAAATAACAAAAATAATTGTA
*
101668204 TTTAAATGA-AAAAA-AATTGTA
1 TTTAAATAACAAAAATAATTGTA
101668225 TT
1 TT
101668227 ACTGATATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
TTTAAATAACAAAAATAATTGTA
Found at i:101675921 original size:40 final size:40
Alignment explanation
Indices: 101675875--101676059 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
101675865 CTTGCACAAG
* * *
101675875 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
101675915 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
101675955 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
101675995 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
101676036 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
101676060 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 29 0.24
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:101675970 original size:80 final size:80
Alignment explanation
Indices: 101675839--101676059 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
101675829 CTCAAGAAAT
* * * * * *
101675839 CTTCGGGATTTAGCCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
101675902 C-ACT-AGCATAAATGC
65 CAACTCA-CACAAATGC
* *
101675917 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
101675981 CAACTCACACGAATGC
65 CAACTCACACAAATGC
* * * *
101675997 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
101676060 CATTCGAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 56 0.46
81 34 0.28
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTCACACAAATGC
Found at i:101683930 original size:40 final size:40
Alignment explanation
Indices: 101683884--101684067 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
101683874 CTTGCACAAG
* * *
101683884 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
101683924 GCCTTC-GGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
101683963 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
101684003 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
101684044 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
101684068 CATTCGAATA
Statistics
Matches: 118, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
39 34 0.29
40 56 0.47
41 28 0.24
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:101683937 original size:39 final size:40
Alignment explanation
Indices: 101683848--101684067 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 40
101683838 CTCAAGAAAT
* * * *
101683848 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
101683886 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
101683926 CTTC-GGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
101683965 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* * *
101684005 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
101684046 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
101684068 CATTCGAATA
Statistics
Matches: 145, Mismatches: 26, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
38 11 0.08
39 49 0.34
40 56 0.39
41 26 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:101683984 original size:79 final size:81
Alignment explanation
Indices: 101683848--101684067 Score: 224
Period size: 79 Copynumber: 2.8 Consensus size: 81
101683838 CTCAAGAAAT
* * *
101683848 CTTCGGGAT-TTAG-CCGGATATAA-CTA-CTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGT
1 CTTC-GGATCTTAGCCCGGATATAATC-ACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
* *
101683908 GGTC-ACT-AGCATAAATGC
64 AG-CAACTCA-CACAAATGC
* *
101683926 CTTCGGA-CTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
101683989 CAACTCACACGAATGC
66 CAACTCACACAAATGC
* * * * *
101684005 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
101684068 CATTCGAATA
Statistics
Matches: 120, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
77 7 0.06
78 21 0.17
79 44 0.37
80 16 0.13
81 32 0.27
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
CAACTCACACAAATGC
Found at i:101691498 original size:17 final size:17
Alignment explanation
Indices: 101691476--101691510 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
101691466 TGGGCTAATT
101691476 ACCATTTTACCCCTGAC
1 ACCATTTTACCCCTGAC
101691493 ACCATTTTACCCCTGAC
1 ACCATTTTACCCCTGAC
101691510 A
1 A
101691511 TTTACAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.40, G:0.06, T:0.29
Consensus pattern (17 bp):
ACCATTTTACCCCTGAC
Found at i:101698724 original size:16 final size:16
Alignment explanation
Indices: 101698703--101698748 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
101698693 TTAGATTATT
101698703 ATTCATTTTTTATATC
1 ATTCATTTTTTATATC
* *
101698719 ATTCATTGTTTTAAATT
1 ATTCATT-TTTTATATC
*
101698736 ATTTATTTTTTAT
1 ATTCATTTTTTAT
101698749 TTATTTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTCATTTTTTATATC
Found at i:101703806 original size:9 final size:9
Alignment explanation
Indices: 101703792--101703822 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
101703782 AACTTGGTGC
101703792 ATTTTGTTT
1 ATTTTGTTT
101703801 ATTTTGTTT
1 ATTTTGTTT
101703810 ATTTTGTTT
1 ATTTTGTTT
101703819 ATTT
1 ATTT
101703823 CTAATATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:101706686 original size:16 final size:16
Alignment explanation
Indices: 101706665--101706695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101706655 CAAGCTATGA
101706665 AGGAGCTGCAAGAAGC
1 AGGAGCTGCAAGAAGC
*
101706681 AGGAGCTGGAAGAAG
1 AGGAGCTGCAAGAAG
101706696 GCTATGGAGG
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:0.39, C:0.13, G:0.42, T:0.06
Consensus pattern (16 bp):
AGGAGCTGCAAGAAGC
Found at i:101717627 original size:7 final size:7
Alignment explanation
Indices: 101717615--101717639 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
101717605 TCAGTCTTAA
101717615 ACTTTCG
1 ACTTTCG
101717622 ACTTTCG
1 ACTTTCG
101717629 ACTTTCG
1 ACTTTCG
101717636 ACTT
1 ACTT
101717640 CCGGTTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (7 bp):
ACTTTCG
Found at i:101719566 original size:3 final size:3
Alignment explanation
Indices: 101719558--101719616 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
101719548 ATATTTCATA
* * *
101719558 TAT TAT TAT TAT TAT TAT TAT TAT TAGT TCT AAAT CA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT
101719604 TAT TATT TAT TAT
1 TAT TA-T TAT TAT
101719617 ATGTTATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
2 1 0.02
3 40 0.85
4 6 0.13
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:101723527 original size:25 final size:26
Alignment explanation
Indices: 101723481--101723538 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
101723471 AATATATAAT
**
101723481 TTTTTTATAAATTCATTCAAAAT-TA
1 TTTTTTATAAATTCATAAAAAATATA
101723506 TTTTTTATAAATTCATAAAAAATATA
1 TTTTTTATAAATTCATAAAAAATATA
*
101723532 TATTTTA
1 TTTTTTA
101723539 AAAAAATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTTTATAAATTCATAAAAAATATA
Found at i:101725596 original size:19 final size:19
Alignment explanation
Indices: 101725572--101725615 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
101725562 GGGACTAAAT
* *
101725572 TGAAAAGTTGTAAAATTTA
1 TGAAAAATTCTAAAATTTA
*
101725591 TGAAAAAATTCTAAATTTTA
1 TG-AAAAATTCTAAAATTTA
101725611 TGAAA
1 TGAAA
101725616 TACATGGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TGAAAAATTCTAAAATTTA
Found at i:101725774 original size:10 final size:11
Alignment explanation
Indices: 101725759--101725787 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
101725749 TCCTAAAGTG
101725759 TGAATTGAAT-
1 TGAATTGAATA
101725769 TGAATTGAATA
1 TGAATTGAATA
101725780 TGAATTGA
1 TGAATTGA
101725788 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:101726459 original size:24 final size:24
Alignment explanation
Indices: 101726432--101726489 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
101726422 ATTAGCTCGC
101726432 ATGAGCTTCCTGAATATGGCTGTT
1 ATGAGCTTCCTGAATATGGCTGTT
101726456 ATGAGCTTCCTGAATATGGCTGTT
1 ATGAGCTTCCTGAATATGGCTGTT
101726480 ATGAGCTTCC
1 ATGAGCTTCC
101726490 CGTTATACAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (24 bp):
ATGAGCTTCCTGAATATGGCTGTT
Found at i:101729101 original size:25 final size:25
Alignment explanation
Indices: 101729046--101729127 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
101729036 TCACTACGAC
** * *
101729046 GGCTTTCCAAATGATATGCCAGATA
1 GGCTTTCCAAATGATACACCACAAA
* *
101729071 GACTTTCCAAATGATACACCTCAAA
1 GGCTTTCCAAATGATACACCACAAA
* *
101729096 GGCTTTCCAAATGATACGCCATAAA
1 GGCTTTCCAAATGATACACCACAAA
*
101729121 GCCTTTC
1 GGCTTTC
101729128 TAGGTAATCC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (25 bp):
GGCTTTCCAAATGATACACCACAAA
Found at i:101739673 original size:25 final size:25
Alignment explanation
Indices: 101739640--101739697 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
101739630 AATAAGAAAC
*
101739640 AATTATAACGATTAAACCATTTATAT
1 AATT-TAACCATTAAACCATTTATAT
*
101739666 AATTTAACCATTAAACCATTTATCT
1 AATTTAACCATTAAACCATTTATAT
101739691 AATTTAA
1 AATTTAA
101739698 TCATGCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (25 bp):
AATTTAACCATTAAACCATTTATAT
Found at i:101744730 original size:48 final size:48
Alignment explanation
Indices: 101744645--101744790 Score: 175
Period size: 48 Copynumber: 3.0 Consensus size: 48
101744635 GGTTATGTGT
** *
101744645 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGA
1 GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** * *
101744693 GATCTGATAAAAGACCATGCCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
** * * * *
101744741 GATCCCATGTAAGACCATATCTGAGATATGGCATTGGCATCAATATGA
1 GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
101744789 GA
1 GA
101744791 CATCGTGTAG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
GATCCCATAAAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:101744860 original size:91 final size:93
Alignment explanation
Indices: 101744642--101744872 Score: 276
Period size: 96 Copynumber: 2.5 Consensus size: 93
101744632 TAAGGTTATG
* * * *
101744642 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGAGATCTGATAAAAGA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCTGAT-AAAGA
* *
101744707 CCATGCCTGGGACATGGCATTGGCATCGATA
65 CCATGCCTGGGACAT-G-ATCGGCATCAATA
* *
101744738 TGTGATCCCATGTAAGACCATATCTGAGATATGGCATTGGCATCAATATGAGACATCGTG-T-AG
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAG--ATC-TGATAAA
*
101744801 GACCATAG-CTGGG-C-T-ATCGGCTTCAATA
63 GACCAT-GCCTGGGACATGATCGGCATCAATA
101744829 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
101744873 TTACTATGTT
Statistics
Matches: 121, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
91 53 0.44
94 1 0.01
95 1 0.01
96 59 0.49
97 1 0.01
98 4 0.03
99 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (93 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGAGATCTGATAAAGAC
CATGCCTGGGACATGATCGGCATCAATA
Found at i:101754320 original size:26 final size:28
Alignment explanation
Indices: 101754267--101754323 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
101754257 AATGTATAAT
*
101754267 AAAATATATTATATATACATAAGGTTTA
1 AAAATATATTATATATACATAAGATTTA
101754295 AAAATATA-TATATATA-AGT-AGATTTA
1 AAAATATATTATATATACA-TAAGATTTA
101754321 AAA
1 AAA
101754324 GAGATTATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 10 0.37
27 9 0.33
28 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (28 bp):
AAAATATATTATATATACATAAGATTTA
Found at i:101756051 original size:14 final size:14
Alignment explanation
Indices: 101756032--101756061 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
101756022 AGCTCTTAAT
*
101756032 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
101756046 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
101756060 CT
1 CT
101756062 TTAGGGAGAT
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:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:101756147 original size:44 final size:43
Alignment explanation
Indices: 101756046--101756284 Score: 142
Period size: 44 Copynumber: 5.4 Consensus size: 43
101756036 TCTACTGCAA
* * * * * **
101756046 CTGCTCCACTGCAACTTTAGGGAGATAAAGTTTGCGTATTTTTATT
1 CTGCTCCACTGCAACTTCAGAGAGAT-AAGATTGTG-ACTTCGA-T
* * **
101756092 CTGCTCAACTGCAACTTCAGAGAAATAAGGATTGTGGTTTCGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGAT
*
101756136 CTGCTCCACTGCAACTTCA-AGGAGATGAGATCTGCT-ATCTTC-AGT
1 CTGCTCCACTGCAACTTCAGA-GAGATAAGAT-TG-TGA-CTTCGA-T
* * * * *
101756181 CTGTTCCACTGCAACTTCAGGGAGATAAGACTTGTTACTTCAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTGACTTCGAT
* * * * * *
101756225 CCGCTCTACTGTAACTTCAAAGAGATAAGGTTTGTGGCTTCGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATTGTGACTTCGAT
*
101756269 CTACTCCACTGCAACT
1 CTGCTCCACTGCAACT
101756285 GCTCCACTGC
Statistics
Matches: 149, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
43 4 0.03
44 75 0.50
45 42 0.28
46 28 0.19
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTGTGACTTCGAT
Found at i:101756291 original size:14 final size:14
Alignment explanation
Indices: 101756272--101756298 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101756262 CTTCGATCTA
101756272 CTCCACTGCAACTG
1 CTCCACTGCAACTG
101756286 CTCCACTGCAACT
1 CTCCACTGCAACT
101756299 TCAGGGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.44, G:0.11, T:0.22
Consensus pattern (14 bp):
CTCCACTGCAACTG
Found at i:101756398 original size:44 final size:44
Alignment explanation
Indices: 101756283--101756454 Score: 168
Period size: 45 Copynumber: 3.8 Consensus size: 44
101756273 TCCACTGCAA
* * **
101756283 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGAT-TGTTATCTTTAAC
*
101756328 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTTTAAC
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA-TTGTTATCTTTAAC
* * * * * *
101756372 CCGCTCTACTGCAACTTTAGAGAGATAAGGTTTGTGTATTTTTATC
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATTGT-TATCTTTAAC
* *
101756418 CTACTCTACTGCAACTTCAGAGAGATAAGGATT-TTAT
1 CTGCTCCACTGCAACTTCAGAGAGATAA-GATTGTTAT
101756455 GATGACTTAA
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
44 35 0.32
45 39 0.36
46 35 0.32
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTGTTATCTTTAAC
Found at i:101756403 original size:147 final size:147
Alignment explanation
Indices: 101756136--101756407 Score: 472
Period size: 147 Copynumber: 1.9 Consensus size: 147
101756126 TGGTTTCGAT
* *
101756136 CTGCTCCACTGCAACTTCAAGGAGATGAGATCTGCTATCTTCAGTCTGTTCCACTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
*
101756201 GGAGATAAGACTTGTTACTTCAACCCGCTCTACTGTAACTTCAAAGAGATAAGGTTTGTGGCTTC
66 GGAGATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAAAGAGATAAGGTTTGTGGCTTC
101756266 GATCTACTCCACTGCAA
131 GATCTACTCCACTGCAA
* *
101756283 CTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
* * *
101756348 GGAGATAAGACTTGTTACTTTAACCCGCTCTACTGCAACTTTAGAGAGATAAGGTTTGTG
66 GGAGATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAAAGAGATAAGGTTTGTG
101756408 TATTTTTATC
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 117 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (147 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAG
GGAGATAAGACTTGTTACTTCAACCCGCTCTACTGCAACTTCAAAGAGATAAGGTTTGTGGCTTC
GATCTACTCCACTGCAA
Found at i:101776903 original size:14 final size:14
Alignment explanation
Indices: 101776884--101776929 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
101776874 AAAACGGTTG
101776884 TAACAGTTAGTAGT
1 TAACAGTTAGTAGT
101776898 TAACAGATTGAGTAGT
1 TAACAG-TT-AGTAGT
*
101776914 TAGCAGTTAGTAGT
1 TAACAGTTAGTAGT
101776928 TA
1 TA
101776930 GTTGATGTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 14 0.48
15 4 0.14
16 11 0.38
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (14 bp):
TAACAGTTAGTAGT
Found at i:101776939 original size:27 final size:28
Alignment explanation
Indices: 101776887--101776943 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
101776877 ACGGTTGTAA
101776887 CAGTTAGTAGTTAACAGATTGAGTAGTTAG
1 CAGTTAGTAGTT-A-AGATTGAGTAGTTAG
101776917 CAGTTAGTAGTT-AG-TTGATGTAGTTAG
1 CAGTTAGTAGTTAAGATTGA-GTAGTTAG
101776944 TCAACGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 4 0.15
27 10 0.38
30 12 0.46
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (28 bp):
CAGTTAGTAGTTAAGATTGAGTAGTTAG
Found at i:101778921 original size:21 final size:21
Alignment explanation
Indices: 101778882--101778922 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
101778872 CACTTGACAT
*
101778882 AGGGCCACACACTCATGTGAA
1 AGGGCCACACACCCATGTGAA
* *
101778903 AGGGGCACACACCCGTGTGA
1 AGGGCCACACACCCATGTGA
101778923 CCAACTTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (21 bp):
AGGGCCACACACCCATGTGAA
Found at i:101779859 original size:47 final size:46
Alignment explanation
Indices: 101779783--101780054 Score: 214
Period size: 47 Copynumber: 5.8 Consensus size: 46
101779773 AAGGTAAGGT
* * *
101779783 GCCGATGCTATGTCCTAGACACAGGCTTACACTGGCTCATATCTC-AA
1 GCCGATGC-ATGTCCCAGACA-TGTCTTACACTGGCTCATATCTCGAA
** * * *
101779830 GTTGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCAT-ATCTCGAA
* * * * *
101779878 GCCGATGCATGTCCCAGACATATCTTACACTGGATTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAA
* * * *
101779924 GCCGATGCATGTCCCAGACATGTCTTGCACTAGCCCTTATCTC-AA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAA
* *
101779969 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTGT-G--
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CTCATA-TCTCGAA
* *
101780018 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
101780055 CACACGAATG
Statistics
Matches: 178, Mismatches: 35, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
44 4 0.02
45 1 0.01
46 70 0.39
47 75 0.42
48 22 0.12
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCGAA
Found at i:101779921 original size:46 final size:47
Alignment explanation
Indices: 101779833--101780048 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 47
101779823 ATCTCAAGTT
* *
101779833 GATGCCATGTCCCAAACATGGTCTTACACT-GACTATCA-TCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGATTAT-AGTCTCGTAGCC
*
101779881 GATGCATGTCCCAGACATATCTTACACTGGATTAT-GTCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGATTATAGTCTCGTA-GCC
* *** *
101779927 GATGCATGTCCCAGACATGTCTTGCACTAGCCCT-TA-TCTCAATA-CC
1 GATGCATGTCCCAGACATGTCTTACACT-GGATTATAGTCTC-GTAGCC
* * *
101779973 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAG--T-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGAT-T-ATAGTCTCGTAGCC
101780021 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
101780049 AGCTCACACA
Statistics
Matches: 139, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
45 1 0.01
46 64 0.46
47 51 0.37
48 20 0.14
49 1 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGATTATAGTCTCGTAGCC
Found at i:101784972 original size:7 final size:7
Alignment explanation
Indices: 101784956--101784986 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
101784946 CAGATAAAAT
101784956 TTTAGGG
1 TTTAGGG
*
101784963 TTTAGAG
1 TTTAGGG
101784970 TTTAGGG
1 TTTAGGG
101784977 TTTAGGG
1 TTTAGGG
101784984 TTT
1 TTT
101784987 TACCCAGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:101785186 original size:26 final size:24
Alignment explanation
Indices: 101785147--101785206 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
101785137 TTATTTCATT
* * *
101785147 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
101785171 TAAATTAAATATATTTAAAAACATAA
1 -AAA-TAAATATATTTAAAAACATAA
101785197 AAATAAATAT
1 AAATAAATAT
101785207 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.23
25 6 0.19
26 18 0.58
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:101785218 original size:22 final size:22
Alignment explanation
Indices: 101785177--101785235 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
101785167 ATAATAAATT
* *
101785177 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
101785197 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
101785219 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
101785236 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:101785310 original size:15 final size:16
Alignment explanation
Indices: 101785282--101785314 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
101785272 AAATTGTTAT
101785282 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
101785299 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
101785314 A
1 A
101785315 AAAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:101786309 original size:12 final size:13
Alignment explanation
Indices: 101786292--101786320 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
101786282 AAATGTATAA
101786292 TAATTTTAAT-TT
1 TAATTTTAATATT
101786304 TAATTTTAATATT
1 TAATTTTAATATT
101786317 TAAT
1 TAAT
101786321 ATTTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAATTTTAATATT
Found at i:101786953 original size:15 final size:15
Alignment explanation
Indices: 101786914--101786980 Score: 95
Period size: 14 Copynumber: 4.7 Consensus size: 15
101786904 GTTTGCAGGT
*
101786914 AAAAT-ATTTTCCGG
1 AAAATGATTTTCTGG
101786928 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
101786942 AAAATGATTTTCTGG
1 AAAATGATTTTCTGG
*
101786957 AAAATAATTTT-TGG
1 AAAATGATTTTCTGG
101786971 AAAATGATTT
1 AAAATGATTT
101786981 ACTTTTCTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
14 30 0.62
15 18 0.38
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:101786958 original size:29 final size:29
Alignment explanation
Indices: 101786914--101786980 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
101786904 GTTTGCAGGT
*
101786914 AAAAT-ATTTTCCGGAAAATGATTTCTGG
1 AAAATGATTTTCCGGAAAATAATTTCTGG
* *
101786942 AAAATGATTTTCTGGAAAATAATTTTTGG
1 AAAATGATTTTCCGGAAAATAATTTCTGG
101786971 AAAATGATTT
1 AAAATGATTT
101786981 ACTTTTCTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (29 bp):
AAAATGATTTTCCGGAAAATAATTTCTGG
Found at i:101787221 original size:18 final size:19
Alignment explanation
Indices: 101787191--101787226 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
101787181 TTGCAATGAT
101787191 TTATTTATAAATAAATAAA
1 TTATTTATAAATAAATAAA
*
101787210 TTATTT-TAAATATATAA
1 TTATTTATAAATAAATAA
101787227 TAATACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTTATAAATAAATAAA
Found at i:101787490 original size:22 final size:22
Alignment explanation
Indices: 101787443--101787528 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
101787433 ATCCAAGTGC
*
101787443 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
* *
101787465 ATAACTAATATTACAGCACATT
1 ATAACTAATATTACACCACATG
* **
101787487 ATAAC-AACATT-GTCCA-AGTG
1 ATAACTAATATTACACCACA-TG
101787507 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
101787529 TATCAATATC
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 10 0.21
22 29 0.60
23 4 0.08
24 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:101788519 original size:32 final size:32
Alignment explanation
Indices: 101788473--101788533 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
101788463 TGTCAATCAT
*
101788473 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAACTTAAAACATAATAAA
* *
101788505 TTCAATATCTAACAAACTTGAAACATAAT
1 TTCAATATCCAACAAACTTAAAACATAAT
101788534 CAATATCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAACTTAAAACATAATAAA
Found at i:101788557 original size:27 final size:27
Alignment explanation
Indices: 101788506--101788560 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
101788496 CATAATAAAT
* *
101788506 TCAATATCTAACAAACTTGAAACATAA
1 TCAATATCTAACAAACATCAAACATAA
101788533 TCAATATCTAACAAA-ATCAAGACATAA
1 TCAATATCTAACAAACATCAA-ACATAA
101788560 T
1 T
101788561 AATTTTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.53, C:0.18, G:0.04, T:0.25
Consensus pattern (27 bp):
TCAATATCTAACAAACATCAAACATAA
Found at i:101796358 original size:16 final size:17
Alignment explanation
Indices: 101796326--101796358 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101796316 TTTTCATATT
*
101796326 TTTAATGTATTATAATA
1 TTTAATGTATAATAATA
101796343 TTTAATGTA-AATAATA
1 TTTAATGTATAATAATA
101796359 CAATTAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTAATGTATAATAATA
Found at i:101802546 original size:23 final size:23
Alignment explanation
Indices: 101802500--101802547 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
101802490 GACATTAGTT
*
101802500 TAATATAAAAAAAACTCTTAATA
1 TAATATAAAAAAAACTATTAATA
*
101802523 TAATATAAAAAGAA-TATTATATA
1 TAATATAAAAAAAACTATTA-ATA
101802546 TA
1 TA
101802548 GAAATTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
TAATATAAAAAAAACTATTAATA
Found at i:101802891 original size:19 final size:18
Alignment explanation
Indices: 101802869--101802909 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
101802859 ACTTTATCCG
101802869 TTTTTGAAAATTT-TATTT
1 TTTTTG-AAATTTCTATTT
101802887 ATTTTTGAAATTTCTATTT
1 -TTTTTGAAATTTCTATTT
101802906 TTTT
1 TTTT
101802910 ATAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTTGAAATTTCTATTT
Found at i:101807506 original size:24 final size:24
Alignment explanation
Indices: 101807479--101807524 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
101807469 GCATAAAATG
*
101807479 GAATACATAGGAATGACTTGAATA
1 GAATACATAGGAATAACTTGAATA
*
101807503 GAATACGTAGGAATAACTTGAA
1 GAATACATAGGAATAACTTGAA
101807525 CATATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATACATAGGAATAACTTGAATA
Found at i:101811486 original size:22 final size:22
Alignment explanation
Indices: 101811461--101811502 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
101811451 AAATAGATTT
101811461 TTATTATAGATATT-TATTATTG
1 TTATTAT-GATATTATATTATTG
*
101811483 TTATTATTATATTATATTAT
1 TTATTATGATATTATATTAT
101811503 ATATATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTATTATGATATTATATTATTG
Found at i:101812771 original size:18 final size:16
Alignment explanation
Indices: 101812748--101812812 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 16
101812738 TACTAACAGT
101812748 TACTGAATAATTGACTG
1 TACTGAATAATTGA-TG
*
101812765 ATACTGAATAACTGATTG
1 -TACTGAATAATTGA-TG
*
101812783 TCACTGAACAATTGATCG
1 T-ACTGAATAATTGAT-G
101812801 TTACTGAATAAT
1 -TACTGAATAAT
101812813 ATTGATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 36 0.92
19 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (16 bp):
TACTGAATAATTGATG
Found at i:101817933 original size:15 final size:14
Alignment explanation
Indices: 101817908--101817946 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
101817898 TAAAATAAGT
101817908 ATTTGTTATTAAATAG
1 ATTT-TTATT-AATAG
101817924 ATTTTTATT-ATAG
1 ATTTTTATTAATAG
101817937 ATTTTTATTA
1 ATTTTTATTA
101817947 TTGTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 13 0.59
15 5 0.23
16 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (14 bp):
ATTTTTATTAATAG
Found at i:101817938 original size:13 final size:13
Alignment explanation
Indices: 101817920--101817960 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
101817910 TTGTTATTAA
101817920 ATAGATTTTTATT
1 ATAGATTTTTATT
101817933 ATAGATTTTTATT
1 ATAGATTTTTATT
* *
101817946 ATTG-TTATTATT
1 ATAGATTTTTATT
101817958 ATA
1 ATA
101817961 TTATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
ATAGATTTTTATT
Found at i:101826094 original size:18 final size:18
Alignment explanation
Indices: 101826073--101826144 Score: 83
Period size: 18 Copynumber: 4.0 Consensus size: 18
101826063 TAAATGATAC
*
101826073 TGACAGTTACTGAATAAT
1 TGACTGTTACTGAATAAT
*
101826091 TGACTGGTACTGAATAAT
1 TGACTGTTACTGAATAAT
* * *
101826109 TGATTGTCACTGAACAAT
1 TGACTGTTACTGAATAAT
101826127 TGA-TCGTTACTGAATAAT
1 TGACT-GTTACTGAATAAT
101826145 ATTGATAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
17 1 0.02
18 44 0.98
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (18 bp):
TGACTGTTACTGAATAAT
Found at i:101828908 original size:21 final size:22
Alignment explanation
Indices: 101828865--101828910 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
101828855 TATAAATTAT
* *
101828865 TTTCTTACTCTTTCAATTTAAA
1 TTTCTTAATCTTTCAATTAAAA
*
101828887 TTTCTTAAT-TTTCTATTAAAA
1 TTTCTTAATCTTTCAATTAAAA
101828908 TTT
1 TTT
101828911 ATCAATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTCTTAATCTTTCAATTAAAA
Found at i:101828917 original size:21 final size:21
Alignment explanation
Indices: 101828875--101828927 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
101828865 TTTCTTACTC
* * *
101828875 TTTCAATTTAAATTTCTTAAT
1 TTTCAATTAAAATTTATCAAT
*
101828896 TTTCTATTAAAATTTATCAAT
1 TTTCAATTAAAATTTATCAAT
101828917 TTAATCAATTA
1 TT--TCAATTA
101828928 TATATCATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 19 0.76
23 6 0.24
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTCAATTAAAATTTATCAAT
Found at i:101831598 original size:103 final size:108
Alignment explanation
Indices: 101831412--101831611 Score: 275
Period size: 111 Copynumber: 1.9 Consensus size: 108
101831402 GTCTCAAATA
*
101831412 AAGTTTTAAGTTTGAATTTTATTAATATCAAATACTGATAAAAAAAAGAAGAAGGTGTAAGTCAC
1 AAGTTTTAAGTTTGAATCTTATTAATATCAAATACTGATAAAAAAAAGAAGAAGGTGTAAGT---
* *
101831477 ATTCACTCGTGTAGGGTAGAAAGCCGGATGAATTTGTTTTTTTTTT
63 ATTCACTCGTGTAAGGTAGAAAGCCGAATGAATTTGTTTTTTTTTT
* * *
101831523 AAGTTTTAAGTTTGAATCTTATTGATATTAAATATTGAT-AAAAAAAGAA-AAGGTGT-A-T-TT
1 AAGTTTTAAGTTTGAATCTTATTAATATCAAATACTGATAAAAAAAAGAAGAAGGTGTAAGTATT
*
101831583 CACTCGTGTAAGGTAGAACGCCGAATGAA
66 CACTCGTGTAAGGTAGAAAGCCGAATGAA
101831612 AAGGATGAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
103 28 0.34
107 1 0.01
108 1 0.01
109 7 0.09
110 10 0.12
111 35 0.43
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (108 bp):
AAGTTTTAAGTTTGAATCTTATTAATATCAAATACTGATAAAAAAAAGAAGAAGGTGTAAGTATT
CACTCGTGTAAGGTAGAAAGCCGAATGAATTTGTTTTTTTTTT
Found at i:101834038 original size:22 final size:22
Alignment explanation
Indices: 101834013--101834058 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
101834003 ATGTGTATAT
101834013 ATATATTATATAATTTAAGTTA
1 ATATATTATATAATTTAAGTTA
101834035 ATATATTATATAATTTAAGTTA
1 ATATATTATATAATTTAAGTTA
101834057 AT
1 AT
101834059 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATATTATATAATTTAAGTTA
Found at i:101837649 original size:19 final size:20
Alignment explanation
Indices: 101837625--101837666 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
101837615 TAATAAGTAA
*
101837625 ATACATGTGTACA-AAAAAT
1 ATACATATGTACATAAAAAT
*
101837644 ATACATATGTACATAATAAT
1 ATACATATGTACATAAAAAT
101837664 ATA
1 ATA
101837667 TGAATACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (20 bp):
ATACATATGTACATAAAAAT
Found at i:101837721 original size:10 final size:10
Alignment explanation
Indices: 101837677--101837723 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
101837667 TGAATACTTA
101837677 ATATT-TAAGT
1 ATATTATAA-T
*
101837687 ATATAATAAT
1 ATATTATAAT
*
101837697 ATAATATAAT
1 ATATTATAAT
101837707 ATATTATAAT
1 ATATTATAAT
101837717 ATATTAT
1 ATATTAT
101837724 TATAAATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 29 0.91
11 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (10 bp):
ATATTATAAT
Found at i:101838734 original size:40 final size:37
Alignment explanation
Indices: 101838654--101838737 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
101838644 CGACCTGAGT
* **
101838654 CGATGAGACACTGGGTGCCAACTTACTTCGGTTTAGC
1 CGATGAGACACTGAGTGCCAACTTACTTCGAATTAGC
* *
101838691 CGATGAGACACTGAGTGTCAACTTATTACTTCGAATTATC
1 CGATGAGACACTGAGTGCCAAC---TTACTTCGAATTAGC
101838731 CGATGAG
1 CGATGAG
101838738 GTACTGGGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 20 0.51
40 19 0.49
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (37 bp):
CGATGAGACACTGAGTGCCAACTTACTTCGAATTAGC
Found at i:101842551 original size:17 final size:17
Alignment explanation
Indices: 101842529--101842571 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
101842519 AGATTTTGGG
* *
101842529 AAAATAGAATAAAATGA
1 AAAATAAAATAAAATAA
101842546 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
101842563 AAAATAAAA
1 AAAATAAAA
101842572 AGGTTAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:101843415 original size:13 final size:12
Alignment explanation
Indices: 101843395--101843429 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
101843385 AAGAAAAATA
101843395 TATAATTTTTTT
1 TATAATTTTTTT
*
101843407 TATTAATTTTGTT
1 TA-TAATTTTTTT
101843420 TATAATTTTT
1 TATAATTTTT
101843430 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TATAATTTTTTT
Found at i:101844936 original size:126 final size:126
Alignment explanation
Indices: 101844712--101845019 Score: 519
Period size: 126 Copynumber: 2.5 Consensus size: 126
101844702 ATTAAGTATT
*
101844712 AATTAC-AAAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
1 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
* * *
101844776 GAGAAGATGTTTCTGAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAA
66 GAAAAGATGTTTCTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
* *
101844837 AATTACGAAAAAAATCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATGTGAAAAAATAATTTT
1 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
*
101844902 GAAAAGATGTTTTTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
66 GAAAAGATGTTTCTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
* * *
101844963 AATTAAGGAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGTATCTGAAAAA
1 AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
101845020 GCTTTAGTCT
Statistics
Matches: 170, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
125 6 0.04
126 164 0.96
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (126 bp):
AATTACGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
GAAAAGATGTTTCTGAAAAAATAGTGTAAAAAACGCTTCAAGAAGGATGCACAGTCAGCAA
Found at i:101854748 original size:22 final size:21
Alignment explanation
Indices: 101854720--101854762 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
101854710 TTTTATTTAC
* *
101854720 TTATTTATGCTTTTATTCATTT
1 TTATTTAAGATTTTATT-ATTT
101854742 TTATTTAAGATTTTATTATTT
1 TTATTTAAGATTTTATTATTT
101854763 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (21 bp):
TTATTTAAGATTTTATTATTT
Found at i:101856198 original size:11 final size:10
Alignment explanation
Indices: 101856149--101856198 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
101856139 TTGACAAAAA
101856149 TTGAGAGAAAT
1 TTGAGAG-AAT
*
101856160 TTGAAAGAAT
1 TTGAGAGAAT
101856170 TTGGAGAGAAT
1 TT-GAGAGAAT
101856181 TTAGAGAGAAT
1 TT-GAGAGAAT
101856192 TGTGAGA
1 T-TGAGA
101856199 TGACTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.15
11 28 0.82
12 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:101856198 original size:22 final size:21
Alignment explanation
Indices: 101856149--101856198 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
101856139 TTGACAAAAA
101856149 TTGAGAGAAATTTGAAAGAAT
1 TTGAGAGAAATTTGAAAGAAT
*
101856170 TTG-GAGAGAATTTAGAGAGAAT
1 TTGAGAGA-AATTT-GAAAGAAT
101856192 TGTGAGA
1 T-TGAGA
101856199 TGACTATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 8 0.33
23 2 0.08
24 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAGAGAAATTTGAAAGAAT
Found at i:101859964 original size:18 final size:19
Alignment explanation
Indices: 101859938--101859991 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 19
101859928 AGTAAAGCTT
*
101859938 ATATTAAAATTCTTGAAGG
1 ATATTAAAATTCTTGAAGC
* *
101859957 AT-TTAAAATGCTAGAAGC
1 ATATTAAAATTCTTGAAGC
*
101859975 ATATTGAAATTCTTGAA
1 ATATTAAAATTCTTGAA
101859992 AAGTTTTTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (19 bp):
ATATTAAAATTCTTGAAGC
Found at i:101862096 original size:19 final size:19
Alignment explanation
Indices: 101862072--101862108 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101862062 AATAAACGTG
*
101862072 ACAAAAAGTAGAAAAATGA
1 ACAAAAAGAAGAAAAATGA
*
101862091 ACAAAAAGAAGGAAAATG
1 ACAAAAAGAAGAAAAATG
101862109 GAAAAAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.19, T:0.08
Consensus pattern (19 bp):
ACAAAAAGAAGAAAAATGA
Found at i:101874943 original size:40 final size:40
Alignment explanation
Indices: 101874850--101875228 Score: 475
Period size: 40 Copynumber: 9.5 Consensus size: 40
101874840 TGGATGATAA
* * *
101874850 CCGGGCTAAGTCTCGAAGGTATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
** * *
101874891 CCGGGCTAAGTCCCGAAGGCATTTACGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
101874931 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
101874971 CCGGGCTAAGTCCCGAAGGTATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
101875012 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
101875052 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
101875092 CCGGGATAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
101875132 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
101875172 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
101875211 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
101875229 TACTTGGCTT
Statistics
Matches: 300, Mismatches: 30, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.05
39 20 0.07
40 205 0.68
41 53 0.18
42 7 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:101875064 original size:121 final size:121
Alignment explanation
Indices: 101874850--101875230 Score: 567
Period size: 121 Copynumber: 3.2 Consensus size: 121
101874840 TGGATGATAA
*
101874850 CCGGGCTAAGTCTCGAAGGTATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGTATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
*
101874915 ACGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 GCGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
101874971 CCGGGCTAAGTCCCGAAGGTATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGTATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
101875036 GCGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 GCGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
101875092 CCGGGATAAGTCCCGAAGGCATTTGTACG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCAA
1 CCGGGCTAAGTCCCGAAGGTATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
* * * * *
101875154 TTGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
64 TTGCGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
101875211 CC-GGTTAAATCCCGAAGGTA
1 CCGGGCTAAGTCCCGAAGGTA
101875231 CTTGGCTTGG
Statistics
Matches: 242, Mismatches: 15, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
118 17 0.07
119 17 0.07
120 64 0.26
121 141 0.58
122 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGTATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
GCGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:101884046 original size:29 final size:29
Alignment explanation
Indices: 101884004--101884114 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
101883994 TATATATGTG
*
101884004 AATTATCGAGCACTAAGTGTGCGAAGAAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
101884033 AATTAACGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
101884062 AATTATTGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
* *
101884091 AACTATCGGGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
101884115 TCTCATTGCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:101891741 original size:29 final size:29
Alignment explanation
Indices: 101891699--101891778 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
101891689 TATATATGTG
101891699 AATTATCGAGCACTAAGTGTGCGAAGAAA
1 AATTATCGAGCACTAAGTGTGCGAAGAAA
* *
101891728 AATTAACGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGAAA
*
101891757 AACTATCGAGCACTAAGTGTGC
1 AATTATCGAGCACTAAGTGTGC
101891779 AATCTCATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGAAA
Found at i:101901825 original size:2 final size:2
Alignment explanation
Indices: 101901818--101901854 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
101901808 AGCCAAATTG
101901818 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
101901855 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:101902363 original size:46 final size:46
Alignment explanation
Indices: 101902287--101902419 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 46
101902277 TTAATATTAT
* * * *
101902287 TGTATTCTCGAGTTTACAACATATGTAGGAGCTCAGAACCTAAACC
1 TGTATTCTCGAGTCTGCAACACATGCAGGAGCTCAGAACCTAAACC
* **
101902333 TGTATTCTTGAGTCTGCAACACATGCAGGAGCTCAGAACCTATTCC
1 TGTATTCTCGAGTCTGCAACACATGCAGGAGCTCAGAACCTAAACC
* * *
101902379 TGTATTCTCAAGTCCGCAACACGTGCAGGAGCTCAGAACCT
1 TGTATTCTCGAGTCTGCAACACATGCAGGAGCTCAGAACCT
101902420 GCACAAAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (46 bp):
TGTATTCTCGAGTCTGCAACACATGCAGGAGCTCAGAACCTAAACC
Found at i:101916082 original size:17 final size:17
Alignment explanation
Indices: 101916060--101916093 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
101916050 TTAAATTGAA
101916060 AGAAATCATAAGTTGGC
1 AGAAATCATAAGTTGGC
101916077 AGAAATCATAAGTTGGC
1 AGAAATCATAAGTTGGC
101916094 GGTTTCTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (17 bp):
AGAAATCATAAGTTGGC
Done.