Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 9 of 199
Found at i:3583362 original size:45 final size:44
Alignment explanation
Indices: 3583274--3583401 Score: 149
Period size: 45 Copynumber: 3.0 Consensus size: 44
3583264 GCCGACTACT
* *
3583274 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGA-A----TACT
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGATACTGTTACC
* *
3583313 GTTACTGTTACCGACTCGGCACTTTGTGTGTCGAGTACTGTTACC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCGA-TACTGTTACC
* *
3583358 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTAC
1 GTTACTGTTACAGATTCGGCACTTTGTGTGTCG-ATACTGTTAC
3583402 TACTACCGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
39 32 0.43
41 1 0.01
45 41 0.55
46 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (44 bp):
GTTACTGTTACAGATTCGGCACTTTGTGTGTCGATACTGTTACC
Found at i:3583401 original size:39 final size:39
Alignment explanation
Indices: 3583243--3583402 Score: 160
Period size: 39 Copynumber: 4.0 Consensus size: 39
3583233 AATTGCCGGC
* * * * *
3583243 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
3583281 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* * *
3583320 TTACCGACTCGGCACTTTGTGTGTCGAGTACTGTTACCGTTACTG
1 TTACAGATTCGGCACTTTGTGTGTCGA--A----TACTGTTACTG
* *
3583365 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 TTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACT
3583403 ACTACCGTTA
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
38 14 0.14
39 54 0.52
41 1 0.01
43 1 0.01
45 33 0.32
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:3590232 original size:32 final size:31
Alignment explanation
Indices: 3590181--3590253 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 31
3590171 GATTAGAGAA
* **
3590181 TTCTATTAAATTCTATTCTTATTCTATTTAAT
1 TTCTATTAAATCCTATTCTT-TAATATTTAAT
3590213 TTCTATTAAATCC-ATTTCTTTAATATTTAAT
1 TTCTATTAAATCCTA-TTCTTTAATATTTAAT
*
3590244 TT-AATTAAAT
1 TTCTATTAAAT
3590254 AAATCACGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.19
31 12 0.33
32 17 0.47
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (31 bp):
TTCTATTAAATCCTATTCTTTAATATTTAAT
Found at i:3606195 original size:64 final size:65
Alignment explanation
Indices: 3606092--3606238 Score: 230
Period size: 64 Copynumber: 2.3 Consensus size: 65
3606082 TCCACGATGG
3606092 AACAGGAAAAAATGGA-TGACACCCATTCTTGATTACAATGTTC-TTTAAGGATAATTCGACAAA
1 AACAGGAAAAAAT-GATTGACACCCATTCTTGATTACAATGTTCTTTTAAGGATAATTCGACAAA
3606155 C
65 C
*
3606156 AACAGGAAAAAATGATTGACACCCATTCTTGATTGCAATGTTCTTTTAAGGATAATTCGACAAAC
1 AACAGGAAAAAATGATTGACACCCATTCTTGATTACAATGTTCTTTTAAGGATAATTCGACAAAC
*
3606221 -A-AGGAGAAAACTGATTGA
1 AACAGGA-AAAAATGATTGA
3606239 TTTGCACTAC
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
63 6 0.08
64 51 0.65
65 21 0.27
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (65 bp):
AACAGGAAAAAATGATTGACACCCATTCTTGATTACAATGTTCTTTTAAGGATAATTCGACAAAC
Found at i:3607877 original size:18 final size:17
Alignment explanation
Indices: 3607844--3607878 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3607834 TTCGATGCGA
3607844 TATTTTTTATTCATATT
1 TATTTTTTATTCATATT
*
3607861 TATTTTTTCATTTATATT
1 TATTTTTT-ATTCATATT
3607879 CAATAGTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTATTCATATT
Found at i:3608069 original size:16 final size:16
Alignment explanation
Indices: 3608048--3608083 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3608038 TTTGGTTCGC
*
3608048 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
3608064 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
3608080 TGTA
1 TGTA
3608084 ATAGCTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:3608336 original size:16 final size:16
Alignment explanation
Indices: 3608299--3608353 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
3608289 TTAATCAAAT
*
3608299 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
3608315 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
3608330 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
3608348 -TAAAAT
1 TTAAAAT
3608354 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:3608346 original size:18 final size:18
Alignment explanation
Indices: 3608305--3608353 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
3608295 AAATTTAAAC
3608305 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
3608323 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
3608339 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
3608354 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:3608490 original size:156 final size:156
Alignment explanation
Indices: 3608206--3608676 Score: 789
Period size: 156 Copynumber: 3.0 Consensus size: 156
3608196 TAGAATACCC
3608206 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
3608271 TTATCAGTAATAAATATTTTAATCAAATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
3608336 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* * *
3608362 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATATTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
3608427 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
3608492 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
3608518 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * * ****
3608583 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
3608648 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
3608675 TT
1 TT
3608677 CATATTCTTA
Statistics
Matches: 295, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
156 289 0.98
157 6 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:3608496 original size:18 final size:17
Alignment explanation
Indices: 3608475--3608509 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3608465 TTATTATTAA
*
3608475 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3608493 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3608510 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3613075 original size:23 final size:23
Alignment explanation
Indices: 3613049--3613096 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
3613039 GAAAAAAAAG
3613049 GAGAATAGAAACGAAACAGAAGA
1 GAGAATAGAAACGAAACAGAAGA
*
3613072 GAGAATAGGAACGAAACAGAAGA
1 GAGAATAGAAACGAAACAGAAGA
3613095 GA
1 GA
3613097 AAAGGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.08, G:0.29, T:0.04
Consensus pattern (23 bp):
GAGAATAGAAACGAAACAGAAGA
Found at i:3613102 original size:21 final size:21
Alignment explanation
Indices: 3613049--3613108 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
3613039 GAAAAAAAAG
* *
3613049 GAGAATAGAAACGAAACAGAA
1 GAGAAAAGGAACGAAACAGAA
3613070 GAGAGAATAGGAACGAAACAGAA
1 GAGA-AA-AGGAACGAAACAGAA
*
3613093 GAGAAAAGGAAAGAAA
1 GAGAAAAGGAACGAAA
3613109 AAGAGAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.38
22 3 0.09
23 18 0.53
ACGTcount: A:0.62, C:0.07, G:0.28, T:0.03
Consensus pattern (21 bp):
GAGAAAAGGAACGAAACAGAA
Found at i:3614008 original size:41 final size:39
Alignment explanation
Indices: 3613963--3614096 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 39
3613953 ACCTCGAGTA
3613963 GATGAGACACTAGGTGTCAATCTATTACTTCGGATTAATTC
1 GATGAGACACTAGGTGTCAA-CTATTACTTCGGATT-ATTC
* * * * *
3614004 GATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGTC
1 GATGAGACACTAGGTGTCAACTATTACTTCGGATTATTC
* * * *
3614041 GATGAGACGCTAAGTGTCAACTTATTACTTCGAATTATCC
1 GATGAGACACTAGGTGTCAAC-TATTACTTCGGATTATTC
* *
3614081 GATTAGACACTGGGTG
1 GATGAGACACTAGGTG
3614097 CCAAACTGGT
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 18 0.25
38 11 0.15
39 2 0.03
40 24 0.33
41 17 0.24
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
GATGAGACACTAGGTGTCAACTATTACTTCGGATTATTC
Found at i:3616028 original size:103 final size:104
Alignment explanation
Indices: 3615784--3616049 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
3615774 GTTGTACATA
** *
3615784 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
3615849 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
3615888 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
3615952 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
3615991 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
3616050 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:3619365 original size:52 final size:48
Alignment explanation
Indices: 3619280--3619496 Score: 261
Period size: 46 Copynumber: 4.6 Consensus size: 48
3619270 TTTGAGTACT
* *
3619280 TCTGATCAAGTG--ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * *
3619326 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
3619378 TCTGATCAAGTG--ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
3619424 TCTGATCAAGTGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
3619470 TCTGATCAAGAGAC--AAAGTGATAAGTG
1 TCTGATCAAGTGACATAAAGTGATAAGTG
3619497 GCTACACTTA
Statistics
Matches: 153, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
46 110 0.72
48 1 0.01
49 2 0.01
50 1 0.01
52 39 0.25
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (48 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:3619504 original size:37 final size:37
Alignment explanation
Indices: 3619460--3619605 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
3619450 GATAGCTTTA
*
3619460 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
3619497 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
3619534 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
3619571 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
3619606 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:3623239 original size:20 final size:20
Alignment explanation
Indices: 3623216--3623253 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3623206 TTTAATTAAT
*
3623216 TTAGCTTAATTAACTTAAAC
1 TTAGCTTAATTAAATTAAAC
*
3623236 TTAGTTTAATTAAATTAA
1 TTAGCTTAATTAAATTAA
3623254 GCTAACATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAGCTTAATTAAATTAAAC
Found at i:3624048 original size:15 final size:15
Alignment explanation
Indices: 3624028--3624057 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3624018 CATTACCTGT
3624028 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
3624043 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
3624058 GCGCGGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:3629281 original size:12 final size:12
Alignment explanation
Indices: 3629247--3629281 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3629237 GAAACGAAGC
*
3629247 TATATATATAGA
1 TATATATATACA
*
3629259 TATAGATATACA
1 TATATATATACA
3629271 TATATATATAC
1 TATATATATAC
3629282 TGTTGGATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (12 bp):
TATATATATACA
Found at i:3657909 original size:30 final size:29
Alignment explanation
Indices: 3657844--3657911 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
3657834 GTTTTAAAAT
**
3657844 ATTAAAATAATAATTATTTGATAGACTTTT
1 ATTAAAA-AATAATTATTTGATAGACTTAA
* * *
3657874 TTTAAAAAATATTTATTTGATATACTTAAA
1 ATTAAAAAATAATTATTTGATAGACTT-AA
3657904 ATTAAAAA
1 ATTAAAAA
3657912 GTTTTTACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (29 bp):
ATTAAAAAATAATTATTTGATAGACTTAA
Found at i:3668985 original size:19 final size:19
Alignment explanation
Indices: 3668961--3669004 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
3668951 TATTTTTTTA
3668961 ATTTTTTTAATTTTAAAAT
1 ATTTTTTTAATTTTAAAAT
*
3668980 ATTTTTTTATTTTTAAAAT
1 ATTTTTTTAATTTTAAAAT
3668999 ATTTTT
1 ATTTTT
3669005 AAAATACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAATTTTAAAAT
Found at i:3669003 original size:17 final size:17
Alignment explanation
Indices: 3668942--3669005 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
3668932 CAGATATAAT
* *
3668942 AAATATATTTATTTTTT
1 AAATATTTTTATTTTTA
* * *
3668959 TAATTTTTTTAATTTTA
1 AAATATTTTTATTTTTA
3668976 AAATATTTTTTTATTTTTA
1 AAATA--TTTTTATTTTTA
3668995 AAATATTTTTA
1 AAATATTTTTA
3669006 AAATACATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 21 0.57
19 16 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AAATATTTTTATTTTTA
Found at i:3669017 original size:13 final size:11
Alignment explanation
Indices: 3668971--3669038 Score: 56
Period size: 11 Copynumber: 6.4 Consensus size: 11
3668961 ATTTTTTTAA
3668971 TTTTAAAATAT
1 TTTTAAAATAT
*
3668982 TTTT---TTAT
1 TTTTAAAATAT
3668990 TTTTAAAATAT
1 TTTTAAAATAT
3669001 TTTTAAAATACAT
1 TTTTAAAAT--AT
3669014 TTTT-AAAT-T
1 TTTTAAAATAT
*
3669023 TTTAAAAATAAT
1 TTTTAAAAT-AT
3669035 TTTT
1 TTTT
3669039 TGGTACTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
8 7 0.16
9 4 0.09
10 4 0.09
11 16 0.36
12 8 0.18
13 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3669024 original size:32 final size:32
Alignment explanation
Indices: 3668971--3669038 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
3668961 ATTTTTTTAA
**
3668971 TTTTAAAATATTTTTTTATTTTT-AAAAT-AT
1 TTTTAAAATATTTTTAAATTTTTAAAAATAAT
3669001 TTTTAAAATACATTTTTAAATTTTTAAAAATAAT
1 TTTTAAAAT--ATTTTTAAATTTTTAAAAATAAT
3669035 TTTT
1 TTTT
3669039 TGGTACTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.28
32 12 0.38
33 5 0.16
34 6 0.19
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTAAAATATTTTTAAATTTTTAAAAATAAT
Found at i:3669025 original size:21 final size:21
Alignment explanation
Indices: 3668988--3669038 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
3668978 ATATTTTTTT
*
3668988 ATTTTTAAAATATTTTTAAAATA
1 ATTTTT-AAAT-TTTTAAAAATA
3669011 CATTTTTAAATTTTTAAAAATA
1 -ATTTTTAAATTTTTAAAAATA
3669033 ATTTTT
1 ATTTTT
3669039 TGGTACTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 6 0.23
22 10 0.38
23 4 0.15
24 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAAATTTTTAAAAATA
Found at i:3669138 original size:33 final size:34
Alignment explanation
Indices: 3669068--3669148 Score: 128
Period size: 34 Copynumber: 2.4 Consensus size: 34
3669058 TGGGCCGGGC
*
3669068 TGGGCCAGGCCCGGGACCCGGGTCGAATTTTTTA
1 TGGGCCAGGCCCGGGACCCGAGTCGAATTTTTTA
*
3669102 TGGGCCGGGCCCGGGACCCGAGTCGAA-TTTTTA
1 TGGGCCAGGCCCGGGACCCGAGTCGAATTTTTTA
*
3669135 TGGGCCCGGCCCGG
1 TGGGCCAGGCCCGG
3669149 CCCATGAGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 19 0.43
34 25 0.57
ACGTcount: A:0.12, C:0.30, G:0.38, T:0.20
Consensus pattern (34 bp):
TGGGCCAGGCCCGGGACCCGAGTCGAATTTTTTA
Found at i:3671416 original size:22 final size:23
Alignment explanation
Indices: 3671360--3671418 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
3671350 TTGAAGTCCC
3671360 GTAC-TAAATAATTATGAAATCT
1 GTACTTAAATAATTATGAAATCT
* *
3671382 GTATTTAAA-AATT-TTAAAGTCT
1 GTACTTAAATAATTATGAAA-TCT
3671404 GT-CTTAAATAATTAT
1 GTACTTAAATAATTAT
3671419 ACCAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
21 9 0.30
22 16 0.53
23 5 0.17
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (23 bp):
GTACTTAAATAATTATGAAATCT
Found at i:3696484 original size:3 final size:3
Alignment explanation
Indices: 3696472--3696510 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
3696462 GCTAAAATGT
3696472 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
3696511 AACCGATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3700026 original size:16 final size:16
Alignment explanation
Indices: 3699993--3700026 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3699983 CCAGATTGTT
* *
3699993 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
3700009 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
3700025 AA
1 AA
3700027 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:3702849 original size:21 final size:21
Alignment explanation
Indices: 3702823--3702863 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3702813 AGACGAGCAA
* *
3702823 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3702844 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3702864 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3704801 original size:16 final size:16
Alignment explanation
Indices: 3704768--3704801 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3704758 GGAGATTGTT
* *
3704768 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
3704784 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
3704800 AA
1 AA
3704802 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:3710901 original size:15 final size:17
Alignment explanation
Indices: 3710871--3710903 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
3710861 AATGATTCGT
3710871 TAATCAACTCATCATCA
1 TAATCAACTCATCATCA
3710888 TAATCAA-T-ATCATCA
1 TAATCAACTCATCATCA
3710903 T
1 T
3710904 CCTCAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATCAACTCATCATCA
Found at i:3712101 original size:15 final size:15
Alignment explanation
Indices: 3712081--3712115 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
3712071 ATATAAAGAT
*
3712081 AAATTTTTTATATTA
1 AAATTTTTTATATGA
3712096 AAA-TTTTTATATGA
1 AAATTTTTTATATGA
3712110 AAATTT
1 AAATTT
3712116 ATCTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AAATTTTTTATATGA
Found at i:3717157 original size:5 final size:5
Alignment explanation
Indices: 3717143--3717180 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
3717133 ACAATATCTC
*
3717143 TTTCT TTTCT CTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
3717181 TATTTCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:3721017 original size:29 final size:28
Alignment explanation
Indices: 3720915--3721012 Score: 164
Period size: 28 Copynumber: 3.5 Consensus size: 28
3720905 AAAAATAAAA
3720915 ATTTACCAAAATATTACAA-TTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
3720942 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
3720970 ATTTACCAAAATATATA-AACTTTTTTTTT
1 ATTTACCAAAATAT-TACAAC-TTTTTTTT
3720999 ATTTACCAAAATAT
1 ATTTACCAAAATAT
3721013 ATAAAAAAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 19 0.28
28 25 0.37
29 24 0.35
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:3721080 original size:27 final size:27
Alignment explanation
Indices: 3721050--3721135 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
3721040 CCTGACACCA
* *
3721050 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
* * *
3721077 GCCAAAGAAATTGGTGGCACCATTGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
*
3721104 GCCAAAGT-CATTGGCGGCACC-ATGGT
1 GCCAAA-TAAATTGGCGGCACCAATGGT
3721130 GCCAAA
1 GCCAAA
3721136 GGAAAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAATGGT
Found at i:3721237 original size:19 final size:19
Alignment explanation
Indices: 3721210--3721279 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
3721200 TCAACTCATT
*
3721210 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
3721229 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
3721247 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
3721266 TTTTAATTTAATAA
1 TTTTAATTTAATAA
3721280 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:3721260 original size:37 final size:37
Alignment explanation
Indices: 3721215--3721285 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
3721205 TCATTTTTTT
3721215 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
3721252 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
3721286 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:3721506 original size:20 final size:20
Alignment explanation
Indices: 3721483--3721543 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
3721473 ATTCCCCTTC
3721483 AACTCATTTTTTTATTTAAT
1 AACTCATTTTTTTATTTAAT
* *
3721503 AACTC-TATTTTAATTTAAT
1 AACTCATTTTTTTATTTAAT
3721522 AAACT-A-TTTTTTATTTTAAT
1 -AACTCATTTTTTTA-TTTAAT
3721542 AA
1 AA
3721544 ACATTTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
AACTCATTTTTTTATTTAAT
Found at i:3721544 original size:20 final size:19
Alignment explanation
Indices: 3721490--3721549 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
3721480 TTCAACTCAT
*
3721490 TTTTTTATTTAAT-AACTC
1 TTTTTTATTTAATAAACTA
*
3721508 TATTTTAATTTAATAAACTA
1 T-TTTTTATTTAATAAACTA
3721528 TTTTTTATTTTAATAAAC-A
1 TTTTTTA-TTTAATAAACTA
3721547 TTT
1 TTT
3721550 AATAACTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.03
19 20 0.56
20 15 0.42
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTTATTTAATAAACTA
Found at i:3721549 original size:19 final size:18
Alignment explanation
Indices: 3721490--3721549 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
3721480 TTCAACTCAT
3721490 TTTTTTATTTAAT-AAC-
1 TTTTTTATTTAATAAACA
3721506 TCTATTTTAATTTAATAAACTA
1 T-T-TTTT-ATTTAATAAAC-A
3721528 TTTTTTATTTTAATAAACA
1 TTTTTTA-TTTAATAAACA
3721547 TTT
1 TTT
3721550 AATAACTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 4 0.11
19 12 0.32
20 17 0.46
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTATTTAATAAACA
Found at i:3721709 original size:27 final size:27
Alignment explanation
Indices: 3721679--3721738 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
3721669 TTTTTTTTCC
3721679 TTTGGCACCAATGGTGCCACCAATTTA
1 TTTGGCACCAATGGTGCCACCAATTTA
** *
3721706 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACCAATGGTGCCACCAATTTA
*
3721733 ATTGGC
1 TTTGGC
3721739 TGGTGTCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
TTTGGCACCAATGGTGCCACCAATTTA
Found at i:3721833 original size:28 final size:27
Alignment explanation
Indices: 3721770--3721871 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 27
3721760 TTTGATTTTT
3721770 TTTATATATTTTGATAAATAAAAAAAA-
1 TTTA-ATATTTTGATAAATAAAAAAAAG
*
3721797 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTA-ATATTTTGATAAATAAAAAAAAG
*
3721825 TTGTAATATTTTGGTAAATAAAAAAAAG
1 TT-TAATATTTTGATAAATAAAAAAAAG
3721853 TTATAATATTTTGATAAAT
1 TT-TAATATTTTGATAAAT
3721872 TTTTATTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 26 0.37
28 42 0.60
29 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTAATATTTTGATAAATAAAAAAAAG
Found at i:3721895 original size:11 final size:11
Alignment explanation
Indices: 3721853--3721900 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
3721843 TAAAAAAAAG
3721853 TTATAATATTT
1 TTATAATATTT
*
3721864 TGATAA-ATTT
1 TTATAATATTT
* *
3721874 TTAT-TTTTTT
1 TTATAATATTT
3721884 TTATAATATTT
1 TTATAATATTT
3721895 TTATAA
1 TTATAA
3721901 AAAACCCGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
10 14 0.48
11 15 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTATAATATTT
Found at i:3723131 original size:6 final size:6
Alignment explanation
Indices: 3723120--3723160 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
3723110 AATTCACCCC
3723120 TGCACA TGCACA TGCACA TGCACA TGCACA TGCACA TGCAC
1 TGCACA TGCACA TGCACA TGCACA TGCACA TGCACA TGCAC
3723161 TGCTACCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
TGCACA
Found at i:3723434 original size:31 final size:30
Alignment explanation
Indices: 3723396--3723454 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
3723386 TTTATTTTAG
3723396 ACTATTTTTAAAAATTATTTTCATTTTAAAT
1 ACTATTTTTAAAAA-TATTTTCATTTTAAAT
* *
3723427 ACTATTTTTTAAAATATTTTTATTTTAA
1 ACTATTTTTAAAAATATTTTCATTTTAA
3723455 CTATTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
ACTATTTTTAAAAATATTTTCATTTTAAAT
Found at i:3723452 original size:30 final size:31
Alignment explanation
Indices: 3723383--3723454 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
3723373 AAAGATAAGA
3723383 ATTTTTATTTT--AGACTATTTTTAAAAATT
1 ATTTTTATTTTAAAGACTATTTTTAAAAATT
* * *
3723412 ATTTTCATTTTAAATACTATTTTTTAAAA-T
1 ATTTTTATTTTAAAGACTATTTTTAAAAATT
3723442 ATTTTTATTTTAA
1 ATTTTTATTTTAA
3723455 CTATTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 10 0.27
30 13 0.35
31 14 0.38
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (31 bp):
ATTTTTATTTTAAAGACTATTTTTAAAAATT
Found at i:3723474 original size:30 final size:29
Alignment explanation
Indices: 3723383--3723474 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
3723373 AAAGATAAGA
**
3723383 ATTTTTATTTTAGACTATTTTTAAAAAT-T
1 ATTTTTATTTTA-ACTATTTTTATTAATAT
* * *
3723412 ATTTTCATTTTAAATACTATTTT-TTAAAAT
1 ATTTTTATTTTAACTA-T-TTTTATTAATAT
3723442 ATTTTTATTTTAACTATTTATTATTAATAT
1 ATTTTTATTTTAACTATTT-TTATTAATAT
3723472 ATT
1 ATT
3723475 ATACACTCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.10
29 17 0.34
30 28 0.56
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (29 bp):
ATTTTTATTTTAACTATTTTTATTAATAT
Found at i:3726050 original size:12 final size:12
Alignment explanation
Indices: 3726033--3726075 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
3726023 ACTAATCCTA
3726033 TCTCAAATTTCT
1 TCTCAAATTTCT
3726045 TCTC-AATTTCT
1 TCTCAAATTTCT
3726056 TCT-AAATTTGC-
1 TCTCAAATTT-CT
3726067 TCTCAAATT
1 TCTCAAATT
3726076 GCTCTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (12 bp):
TCTCAAATTTCT
Found at i:3726140 original size:51 final size:51
Alignment explanation
Indices: 3726069--3726166 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
3726059 AAATTTGCTC
*
3726069 TCAAATTGCTCTTAAATTCCT-TCAAAATTTCTCTAAAATCCATATTTATTT
1 TCAAATTGCTCTCAAATTCCTCT-AAAATTTCTCTAAAATCCATATTTATTT
* * * * *
3726120 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAAATTGCTCTCAAATTCCTCTAAAATTTCTCTAAAATCCATATTT
3726167 TTAAATCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAAATTGCTCTCAAATTCCTCTAAAATTTCTCTAAAATCCATATTTATTT
Found at i:3727312 original size:7 final size:7
Alignment explanation
Indices: 3727300--3727332 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
3727290 TAGTCGATTG
3727300 GTATTTA
1 GTATTTA
3727307 GTATTTA
1 GTATTTA
3727314 GTATTTA
1 GTATTTA
3727321 GTATTTA
1 GTATTTA
3727328 GTATT
1 GTATT
3727333 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:3727948 original size:27 final size:27
Alignment explanation
Indices: 3727908--3727967 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
3727898 CAGTTCAACC
* **
3727908 GATGATACCTACGCAACCGCCTTTTTA
1 GATGATACCCACGCAACCGCCTTTCCA
3727935 GATGATACCCACGCAACCGCCTTTCCA
1 GATGATACCCACGCAACCGCCTTTCCA
3727962 GATGAT
1 GATGAT
3727968 GCCGATGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.25
Consensus pattern (27 bp):
GATGATACCCACGCAACCGCCTTTCCA
Found at i:3730126 original size:23 final size:23
Alignment explanation
Indices: 3730100--3730175 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
3730090 AGTGTTATTG
3730100 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3730123 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
3730146 TTCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
3730169 ATCAGTG
1 ATCAGTG
3730176 TGACACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:3732782 original size:124 final size:125
Alignment explanation
Indices: 3732620--3732912 Score: 378
Period size: 126 Copynumber: 2.3 Consensus size: 125
3732610 CCAAACATGT
3732620 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATA-AAGCAT-TCTG
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCA-AGAAGCATGT-TG
* * *
3732683 CTAGAAGC-AATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGG-AC
64 CTAGAAGCGAATTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
* * * *
3732743 TAACTGTAGCAAAAGTGCGTCCACGAGGGCTCGATTTCACAAATTCTTCTCAAGCAGCATGTTGC
1 T-ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAGAAGCATGTTGC
* * **
3732808 TTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
65 TAGAAGCG-AATTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
* * * * *
3732870 TATTGTAGTAAAAGCGCGTACACGTGGGCGCGACTTCAAAAAT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAAT
3732913 CCATTTGATA
Statistics
Matches: 145, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
123 2 0.01
124 60 0.41
125 1 0.01
126 79 0.54
127 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCAAGAAGCATGTTGCT
AGAAGCGAATTTTATACTATTTGCTCAGAAACGTAAACTCAAAATTATTTTTCCAGGAAC
Found at i:3733817 original size:31 final size:31
Alignment explanation
Indices: 3733739--3733823 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
3733729 GACTAATATT
* *
3733739 TTATGTATCATTATAATAAATTATTTAAATA
1 TTATTTATCATTATATTAAATTATTTAAATA
* * * *
3733770 TAATTTATCATAATATTAAATTATTTAATTC
1 TTATTTATCATTATATTAAATTATTTAAATA
*
3733801 TTATTTATTATTATATTTAAATT
1 TTATTTATCATTATA-TTAAATT
3733824 TGTAAAAAGG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 37 0.84
32 7 0.16
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (31 bp):
TTATTTATCATTATATTAAATTATTTAAATA
Found at i:3734191 original size:2 final size:2
Alignment explanation
Indices: 3734184--3734208 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3734174 AATTGTAAGT
3734184 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3734209 TAAATTTAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3741791 original size:30 final size:28
Alignment explanation
Indices: 3741755--3741816 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 28
3741745 AAATAAATTA
3741755 ATTTAATTTGATTAATTGATCGATTAACTG
1 ATTTAATTTGATTAA-TGATCGATTAA-TG
* *
3741785 ATTTAATTTGGTTAATGGTCGATTAATG
1 ATTTAATTTGATTAATGATCGATTAATG
3741813 ATTT
1 ATTT
3741817 TTTGAAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.20
29 10 0.33
30 14 0.47
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (28 bp):
ATTTAATTTGATTAATGATCGATTAATG
Found at i:3757791 original size:18 final size:19
Alignment explanation
Indices: 3757770--3757805 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3757760 CTAAAATGGT
3757770 ACAAAAATT-AAAAAAAAC
1 ACAAAAATTGAAAAAAAAC
*
3757788 ACAACAATTGAAAAAAAA
1 ACAAAAATTGAAAAAAAA
3757806 AGATGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.11, G:0.03, T:0.11
Consensus pattern (19 bp):
ACAAAAATTGAAAAAAAAC
Found at i:3757954 original size:6 final size:6
Alignment explanation
Indices: 3757892--3758002 Score: 74
Period size: 6 Copynumber: 19.0 Consensus size: 6
3757882 AGATTCGGCT
* * *
3757892 GAAGGA GAA-GA -AA-GA AAAGGA -AAGGA GAAGAA GAAGAA GAAGGA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* * *
3757936 GAAGGA GAAGGA GAAGGA GGCGCAGGTA GAA-GA GAAAGA GAAGGA GAAGAA
1 GAAGGA GAAGGA GAAGGA ---GAAGG-A GAAGGA GAAGGA GAAGGA GAAGGA
*
3757987 GAA-GA GGAGG- GAAGGA
1 GAAGGA GAAGGA GAAGGA
3758003 AGGGAAAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.05
5 20 0.23
6 55 0.64
7 2 0.02
9 4 0.05
10 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.01
Consensus pattern (6 bp):
GAAGGA
Found at i:3758567 original size:159 final size:159
Alignment explanation
Indices: 3758279--3760110 Score: 2678
Period size: 159 Copynumber: 11.6 Consensus size: 159
3758269 TACGAAAAGA
* * *
3758279 AATAAAAAATGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TCGGG-AAAAATAAAAATACGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAAGAAAAATACGA
* * *
3758342 ACAAATGACCAAAATAAGGAG-TTTTGACTAAATTTATATAAAAAACACACTAAATTAATACATT
65 ACAAAGGGCCAAAATAAGG-GTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATT
3758406 TCAAACATTATGTACTAAAATAATATAAAAT
129 TCAAACATTATGTACTAAAATAATATAAAAT
* *
3758437 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGGGGAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* *
3758502 AAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATATAAAACACACTAAATTAATACATTTC
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
*
3758567 AAATATTATGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
*
3758596 AATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
*
3758661 -AAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATGCATTT
66 CAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTT
* *
3758725 CAAACATTATCTAATAAAATAATATAAAAT
130 CAAACATTATGTACTAAAATAATATAAAAT
* * *
3758755 AATAAAATACGAAAATTGTATATTTTTTGAAAGTAATAAAATATGGG----AA-AAAATTACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* *
3758815 TAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
3758880 AAACATTATGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
* * *
3758909 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATATGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * * * *
3758974 CAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACATATTAAAATAATACATTTC
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3759039 AAATATAATGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
* * * *
3759068 AATAAAATTCAAAAATAATATATTTTTTGAAAGTAATAAAAT-TCGGGAAAAAAGAAAAATATGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAAGAAAAATACGA
3759132 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
65 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATT
3759197 TCAAACGA-TATGTACTAAAATAATATAAAAT
129 TCAAAC-ATTATGTACTAAAATAATATAAAAT
* *
3759228 AATAAAATACAAAAATAGTAAATTTTTTGAAAGTAATAAAATCTGGG----AA-AAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* *
3759288 CAAAGGGCCAAAAT-AGGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTT
66 CAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTT
*
3759352 CAAACATAATGTACTAAAATAATATAAAAT
130 CAAACATTATGTACTAAAATAATATAAAAT
* *
3759382 AATAAAATACGAAAATAGTATATTTTTTGAAATTAATAAAATCTGGAAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * *
3759447 CAAAGGGCTAAAATAAGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3759512 AAACATAATGTACTAAAATAATATTAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
*
3759541 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * * *
3759606 CAAAGGGCCAAAATAAGAGTTTTTTAAT-AATTTATTTAAAAAACACACTAAAATAATACATTTC
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* * *
3759670 AAATATAATGTACTAACATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
** * ** * *
3759699 AATAAAATTTGAAAATAGTAT-TTTTTTTAAAGTAATAAAATCCAGTAAAAAATAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
* * *
3759763 C-AATGGCCAAAAATATAAGAGTTCTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
66 CAAAGGGCC--AAA-ATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACA
* *
3759827 TTTCAAACATAATGTACTAAAATTATATAAAAT
127 TTTCAAACATTATGTACTAAAATAATATAAAAT
* *
3759860 AATAAAATACGAAAATAGTATATTTTTTAAAAGTAATAAAATC--CG---AAA-AAAAAT--GAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
*
3759917 CAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
66 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
*
3759982 AAACATTCTGTACTAAAATAATATAAAAT
131 AAACATTATGTACTAAAATAATATAAAAT
3760011 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TCGGGAAAAAAGAAAAATACGA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAAGAAAAATACGA
* *
3760075 ACAAATGGCCAAAATAAGGATTTTTTTACTAAATTT
65 ACAAAGGGCCAAAATAAGG-GTTTTTTACTAAATTT
3760111 GTTTTGAAGT
Statistics
Matches: 1533, Mismatches: 102, Indels: 76
0.90 0.06 0.04
Matches are distributed among these distances:
151 94 0.06
152 24 0.02
153 5 0.00
154 228 0.15
155 68 0.04
156 17 0.01
157 49 0.03
158 149 0.10
159 689 0.45
160 117 0.08
161 73 0.05
162 20 0.01
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.29
Consensus pattern (159 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA
CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
AAACATTATGTACTAAAATAATATAAAAT
Found at i:3759397 original size:473 final size:472
Alignment explanation
Indices: 3758279--3760110 Score: 2708
Period size: 473 Copynumber: 3.9 Consensus size: 472
3758269 TACGAAAAGA
* * * *
3758279 AATAAAAAATGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TCGGGAAAAATAAAAATACGAA
1 AATAAAATACGAAAATAGTAAATTTTTTGAAAGTAATAAAATCTAGGG---AATAAAAATACGAA
* * *
3758343 CAAATGACCAAAATAAGGAGTTTTGACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
63 CAAATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
* *
3758408 AAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAA
128 AAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAA
* * *
3758473 TAAAATCTGGGGAAAAAGAAAAATACGAAAAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTAT
193 TAAAATC-CGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTAT
* * * *
3758538 ATATAAAACACACTAAATTAATACATTTCAAATATTATGTACTAAAATAATATAAAATAATAAAA
257 ATAAAAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAA
3758603 TACGAAAATAATATATTTTTTGAAAGTAATAAAA-TCTGGGAAAAAAGAAAAATACGAA-AAAGG
322 TACGAAAATAATATATTTTTTGAAAGTAATAAAATTC-GGGAAAAAAGAAAAATACGAACAAAGG
*
3758666 GCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATGCATTTCAAACA
386 GCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACA
* *
3758731 TTATCTAATAAAATAATATAAAAT
450 -TATGTACTAAAATAATATAAAAT
* * * * *
3758755 AATAAAATACGAAAATTGTATATTTTTTGAAAGTAATAAAATAT-GGGAA-AAAATTACGAATAA
1 AATAAAATACGAAAATAGTAAATTTTTTGAAAGTAATAAAATCTAGGGAATAAAAATACGAACAA
*
3758818 ATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAA
66 ATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAA
*
3758883 CATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAA
131 CATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAA
* * * *
3758948 AATCCGAGAAAAAAGAAAAATATGAACAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTA
196 AATCCG-GAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATA
* * * *
3759013 AAAAACATATTAAAATAATACATTTCAAATATAATGTACTAAAATAATATAAAATAATAAAATTC
260 AAAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATAC
* *
3759078 AAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATATGAACAAAGGGCCA
325 GAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCA
3759143 AAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACGATAT
390 AAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACATTTCAAAC-ATAT
3759208 GTACTAAAATAATATAAAAT
453 GTACTAAAATAATATAAAAT
*
3759228 AATAAAATACAAAAATAGTAAATTTTTTGAAAGTAATAAAATCT-GGGAA-AAAAATACGAACAA
1 AATAAAATACGAAAATAGTAAATTTTTTGAAAGTAATAAAATCTAGGGAATAAAAATACGAACAA
* * * *
3759291 AGGGCCAAAATAGGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTCAAA
66 ATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAA
*
3759356 CATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAATTAATAA
131 CATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAA
* * * *
3759421 AATCTGGAAAAAAAGAAAAATACGAACAAAGGGCTAAAATAAGGATTTTTTACTAAATTTATTTA
196 AATCCGG-AAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATA
*
3759486 AAAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATTAAATAATAAAATAC
260 AAAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATAC
* *
3759551 GAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAACAAAGGGCCA
325 GAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCA
* * * * *
3759616 AAATAAGAGTTTTTTAAT-AATTTATTTAAAAAACACACTAAAATAATACATTTCAAATATAATG
390 AAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACAT-ATG
*
3759680 TACTAACATAATATAAAAT
454 TACTAAAATAATATAAAAT
** * * ***
3759699 AATAAAATTTGAAAATAGT-ATTTTTTTTAAAGTAATAAAATCCAGTAAAAAATAAAAATACGAA
1 AATAAAATACGAAAATAGTAAATTTTTTGAAAGTAATAAAAT-C--TAGGGAATAAAAATACGAA
* *
3759763 C-AATGGCCAAAAATATAAGAGTTCTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
63 CAAATGGCC-AAAATA-AGGA-TTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACA
* *
3759827 TTTCAAACATAATGTACTAAAATTATATAAAATAATAAAATACGAAAATAGTATATTTTTTAAAA
124 TTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAA
*
3759892 GTAATAAAATCC-G---AAA-AAAAAT--GAACAAATGGCCAAAATAAGGGTTTTTTACTAAATT
189 GTAATAAAATCCGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATT
* **
3759950 TATATAAAAAACACACTAAATTAATACATTTCAAACATTCTGTACTAAAATAATATAAAATAATA
254 TATATAAAAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATA
*
3760015 AAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAA
319 AAATACGAAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAA
* *
3760080 TGGCCAAAATAAGGATTTTTTTACTAAATTT
384 GGGCCAAAATAAGG-GTTTTTTACTAAATTT
3760111 GTTTTGAAGT
Statistics
Matches: 1244, Mismatches: 93, Indels: 42
0.90 0.07 0.03
Matches are distributed among these distances:
470 191 0.15
471 76 0.06
472 341 0.27
473 451 0.36
474 9 0.01
475 18 0.01
476 44 0.04
477 19 0.02
478 95 0.08
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.29
Consensus pattern (472 bp):
AATAAAATACGAAAATAGTAAATTTTTTGAAAGTAATAAAATCTAGGGAATAAAAATACGAACAA
ATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAA
CATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAA
AATCCGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAA
AAAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACG
AAAATAATATATTTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCAA
AATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATATGTA
CTAAAATAATATAAAAT
Found at i:3759543 original size:632 final size:628
Alignment explanation
Indices: 3758279--3760110 Score: 2803
Period size: 632 Copynumber: 2.9 Consensus size: 628
3758269 TACGAAAAGA
* * * * *
3758279 AATAAAAAATGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGGGAAAAATAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAGAAAAATACGAAC
* * * *
3758344 AAATGACCAAAATAAGGAG-TTTTGACTAAATTTATATAAAAAACACACTAAATTAATACATTTC
66 AAATGGCCAAAATAA-GAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
* * *
3758408 AAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAA
130 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAA
* *
3758473 TAAAA-TCTGGGGAAAAAGAAAAATACGAAAAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTA
195 TAAAATTC-GGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTA
* *
3758537 TAT-ATAAAACACACTAAATTAATACATTTCAAATATTATGTACTAAAATAATATAAAATAATAA
259 TATAAAAAAACACACTAAATTAATACATTTCAAACA-TATGTACTAAAATAATATAAAATAATAA
*
3758601 AATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAGAAAAATACGAA-AAAG
323 AATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGG----AA-AAAAATACGAACAAAG
*
3758665 GGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATGCATTTCAAAC
383 GGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAAC
* * *
3758730 ATTATCTAATAAAATAATATAAAATAATAAAATACGAAAATTGTATATTTTTTGAAAGTAATAAA
447 ATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAA
* * * *
3758795 ATATGG---GAA-AAAATTACGAATAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAA
512 AT-TGGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAA
* *
3758856 AAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
576 AAACACACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
*
3758909 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAGAAAAAAGAAAAATATGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCG-GAAAAAAGAAAAATACGAA
* *
3758974 CAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACATATTAAAATAATACATTTC
65 CAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
*
3759039 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCAAAAATAATATATTTTTTGAAAGTAA
130 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAA
*
3759104 TAAAATTCGGGAAAAAAGAAAAATATGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTAT
195 TAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTAT
3759169 ATAAAAAAACACACTAAATTAATACATTTCAAACGATATGTACTAAAATAATATAAAATAATAAA
260 ATAAAAAAACACACTAAATTAATACATTTCAAAC-ATATGTACTAAAATAATATAAAATAATAAA
* *
3759234 ATACAAAAATAGTAAATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCAA
324 ATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCAA
* * *
3759299 AAT-AGGGATTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTCAAACATAATG
389 AATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTATG
*
3759363 TACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAATTAATAAAATCTGG
453 TACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-TGG
* * *
3759428 AAAAAAAGAAAAATACGAACAAAGGGCTAAAATAAGGATTTTTTACTAAATTTATTTAAAAAACA
517 -AAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACA
*
3759493 CACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATTAAAT
581 CACTAAAATAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
3759541 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCC-GGAAAAAAGAAAAATACGAA
* *
3759606 CAAAGGGCCAAAATAAGAGTTTTTTAAT-AATTTATTTAAAAAACACACTAAAATAATACATTTC
65 CAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTC
* * * *
3759670 AAATATAATGTACTAACATAATATAAAATAATAAAATTTGAAAATAGTAT-TTTTTTTAAAGTAA
130 AAATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAA
* * * * * * *
3759734 TAAAATCCAGTAAAAAATAAAAATACGAAC-AATGGCCAAAAATATAAGAGTTCTTTACTAAATT
195 TAAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCC--AAA-ATAAGGGTTTTTTACTAAATT
*
3759798 TATATAAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATTATATAAAATAAT
257 TATATAAAAAAACACACTAAATTAATACATTTCAAACAT-ATGTACTAAAATAATATAAAATAAT
* * * *
3759863 AAAATACGAAAATAGTATATTTTTTAAAAGTAATAAAATC--CGAAAAAAA-ATGAACAAATGGC
321 AAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGC
*
3759925 CAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTC
386 CAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTA
3759990 TGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTC
451 TGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATT-
3760055 GGGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTTACTAAATTT
515 -GGAAAAAAGAAAAATACGAACAAATGGCCAAAATAAGGA-TTTTTTACTAAATTT
3760111 GTTTTGAAGT
Statistics
Matches: 1106, Mismatches: 76, Indels: 40
0.91 0.06 0.03
Matches are distributed among these distances:
627 127 0.11
628 16 0.01
629 170 0.15
630 112 0.10
631 280 0.25
632 399 0.36
633 2 0.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.29
Consensus pattern (628 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGAAAAAAGAAAAATACGAAC
AAATGGCCAAAATAAGAGTTTTTTACTAAATTTATTTAAAAAACACACTAAAATAATACATTTCA
AATATAATGTACTAAAATAATATAAAATAATAAAATTCGAAAATAATATATTTTTTGAAAGTAAT
AAAATTCGGGAAAAAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATA
TAAAAAAACACACTAAATTAATACATTTCAAACATATGTACTAAAATAATATAAAATAATAAAAT
ACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAAATACGAACAAAGGGCCAAAA
TAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTTCAAACATTATGTAC
TAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATTGGAAAA
AAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTACTAAATTTATATAAAAAACACACTA
AAATAATACATTTCAAACATAATGTACTAAAATAATATAAAAT
Found at i:3763391 original size:37 final size:37
Alignment explanation
Indices: 3763323--3763470 Score: 113
Period size: 37 Copynumber: 3.9 Consensus size: 37
3763313 TAATAGTTTT
3763323 TTTTACTAAAAATAATACTAACTAACAATAATAATTAGGG
1 TTTTACTAAAAAT-A-A-TAACTAACAATAATAATTAGGG
**
3763363 TTTTACTAAAAATAATAACTAACAATAAT-A-TAATG
1 TTTTACTAAAAATAATAACTAACAATAATAATTAGGG
*** *
3763398 TAAAAACTAACAATCATACTAACTAA-AATAATAATTAGGG
1 T-TTTACTAA-AA--ATAATAACTAACAATAATAATTAGGG
*** *
3763438 TTTTTACTAATCTTAATAACTAACCATAATAAT
1 -TTTTACTAAAAATAATAACTAACAATAATAAT
3763471 AATATTAGTT
Statistics
Matches: 84, Mismatches: 16, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
35 4 0.05
36 6 0.07
37 25 0.30
38 15 0.18
39 12 0.14
40 21 0.25
41 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (37 bp):
TTTTACTAAAAATAATAACTAACAATAATAATTAGGG
Found at i:3763424 original size:23 final size:23
Alignment explanation
Indices: 3763379--3763425 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
3763369 TAAAAATAAT
*
3763379 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
3763402 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
3763425 A
1 A
3763426 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:3763455 original size:76 final size:77
Alignment explanation
Indices: 3763327--3763473 Score: 217
Period size: 76 Copynumber: 1.9 Consensus size: 77
3763317 AGTTTTTTTT
3763327 ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
1 ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
3763392 -ATAATGTAAAA
66 AATAATGTAAAA
* * *** *
3763403 ACTAACAATCATACTAACTAA-AATAATAATTAGGGTTTTTACTAATCTTAATAACTAACCATAA
1 ACTAAAAATAATACTAACTAACAATAATAATTAGGG-TTTTACTAAAAATAATAACTAACAATAA
3763467 TAATAAT
65 TAATAAT
3763474 ATTAGTTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 14 0.22
76 44 0.70
77 5 0.08
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (77 bp):
ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
AATAATGTAAAA
Found at i:3764027 original size:5 final size:5
Alignment explanation
Indices: 3764017--3764074 Score: 80
Period size: 5 Copynumber: 11.2 Consensus size: 5
3764007 GTATGTTATT
* *
3764017 ATATA ATATA ATATA ATGTA ATATA ATATA ATATA ATATA ATATTA TTATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA-TA ATATA
3764068 TATATA A
1 -ATATA A
3764075 AACAAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 39 0.83
6 8 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:3764789 original size:14 final size:15
Alignment explanation
Indices: 3764770--3764798 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3764760 GTTCTACAAG
3764770 ATTATTTT-TTTAAA
1 ATTATTTTATTTAAA
3764784 ATTATTTTATTTAAA
1 ATTATTTTATTTAAA
3764799 TGTCTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTTTATTTAAA
Found at i:3764836 original size:5 final size:5
Alignment explanation
Indices: 3764828--3764857 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
3764818 AATTATTTAG
*
3764828 AAATA AAATA AAATA AAGTA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
3764858 TTATGGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:3765173 original size:25 final size:23
Alignment explanation
Indices: 3765145--3765247 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 23
3765135 ACTTTAGCGC
*
3765145 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTG--TATTAGCACGTTAGT
*
3765170 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTG-TA-TTAGCACGTTAGT
*
3765195 GCTCTCTGT-TTAGCACATCT-GT
1 GCTCTCTGTATTAGCACGT-TAGT
*
3765217 GCTCTCTGTA-TAGCACTTTAGT
1 GCTCTCTGTATTAGCACGTTAGT
3765239 GCTCTCTGT
1 GCTCTCTGT
3765248 TCATTAGTGC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.01
22 37 0.54
24 3 0.04
25 27 0.40
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (23 bp):
GCTCTCTGTATTAGCACGTTAGT
Found at i:3766068 original size:13 final size:13
Alignment explanation
Indices: 3766054--3766094 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
3766044 TCTATTTTTT
*
3766054 TCTTCTCTTTCTT
1 TCTTCTCTTTCTC
3766067 TC-TC-CTTTCTC
1 TCTTCTCTTTCTC
*
3766078 TATTCTCTTTCTC
1 TCTTCTCTTTCTC
3766091 TCTT
1 TCTT
3766095 TTTCTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 7 0.30
12 4 0.17
13 12 0.52
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTCTCTTTCTC
Found at i:3766162 original size:13 final size:15
Alignment explanation
Indices: 3766120--3766164 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 15
3766110 CGGCACCGCC
3766120 CTTTTCTTCTTCTTT
1 CTTTTCTTCTTCTTT
3766135 CTTCTTCTTCTTCTTT
1 CTT-TTCTTCTTCTTT
3766151 -TTTTCTTC-TCTTT
1 CTTTTCTTCTTCTTT
3766164 C
1 C
3766165 AGCTGAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.18
14 6 0.21
15 5 0.18
16 12 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CTTTTCTTCTTCTTT
Found at i:3766804 original size:18 final size:18
Alignment explanation
Indices: 3766756--3766804 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3766746 AAAAAAACTT
*
3766756 AAATCTTTTTTAGGGCCAA
1 AAATC-TTTTTATGGCCAA
*
3766775 AAACCTTTTTATGG-CAA
1 AAATCTTTTTATGGCCAA
3766792 AAATCTTTATTAT
1 AAATCTTT-TTAT
3766805 CTTTTTCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 12 0.46
19 4 0.15
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (18 bp):
AAATCTTTTTATGGCCAA
Found at i:3768890 original size:20 final size:20
Alignment explanation
Indices: 3768867--3768904 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3768857 TTCTTTTTAC
3768867 TTAAAAAAAGTTTAAAAATA
1 TTAAAAAAAGTTTAAAAATA
3768887 TTAAAAAAAGTTTAAAAA
1 TTAAAAAAAGTTTAAAAA
3768905 CATTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TTAAAAAAAGTTTAAAAATA
Found at i:3768910 original size:10 final size:11
Alignment explanation
Indices: 3768867--3768904 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
3768857 TTCTTTTTAC
3768867 TTAAAAAAAGT
1 TTAAAAAAAGT
*
3768878 TTAAAAATA--
1 TTAAAAAAAGT
3768887 TTAAAAAAAGT
1 TTAAAAAAAGT
3768898 TTAAAAA
1 TTAAAAA
3768905 CATTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (11 bp):
TTAAAAAAAGT
Found at i:3769324 original size:18 final size:18
Alignment explanation
Indices: 3769301--3769335 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3769291 CCCAGCCATC
3769301 TTCTCATTTCTTTCTCAT
1 TTCTCATTTCTTTCTCAT
3769319 TTCTCATTTCTTTCTCA
1 TTCTCATTTCTTTCTCA
3769336 CGTCTGAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTCATTTCTTTCTCAT
Found at i:3770602 original size:7 final size:7
Alignment explanation
Indices: 3770590--3770617 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3770580 ATATGTGGAA
3770590 ATCAAGT
1 ATCAAGT
3770597 ATCAAGT
1 ATCAAGT
3770604 ATCAAGT
1 ATCAAGT
3770611 ATCAAGT
1 ATCAAGT
3770618 TTCGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
ATCAAGT
Found at i:3772367 original size:61 final size:61
Alignment explanation
Indices: 3772294--3772487 Score: 191
Period size: 61 Copynumber: 3.2 Consensus size: 61
3772284 TTTTATTATT
*
3772294 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * * *
3772355 ATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGTATC
1 ATATATTATAATTTAAGTAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-AATC
* * * * *
3772414 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
*
3772475 ATATATTTTAATT
1 ATATATTATAATT
3772488 AAAATATATT
Statistics
Matches: 101, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 4 0.04
59 33 0.33
60 14 0.14
61 44 0.44
62 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (61 bp):
ATATATTATAATTTAAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:3772459 original size:120 final size:118
Alignment explanation
Indices: 3772254--3772518 Score: 440
Period size: 120 Copynumber: 2.2 Consensus size: 118
3772244 AAAATTTGAT
* * *
3772254 TATATTTAATAATAATTATGTTATATTATATTTTATTATTATATATTATAATTTTAGTAAATTCA
1 TATATTTAATAATAATTATGTTAAATTATATTTTATTATCATATATTATAATTTGAGTAAATTCA
*
3772319 TATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
66 TATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
*
3772372 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTAT--TATCATATATTATAATTTGAGTAAATT
* *
3772437 CATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
64 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
3772492 TATATTTAATAATAATTATGTTTAAAT
1 TATATTTAATAATAATTATG-TTAAAT
3772519 ATGATTAAAT
Statistics
Matches: 137, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
118 35 0.26
120 96 0.70
121 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (118 bp):
TATATTTAATAATAATTATGTTAAATTATATTTTATTATCATATATTATAATTTGAGTAAATTCA
TATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
Found at i:3772490 original size:18 final size:17
Alignment explanation
Indices: 3772462--3772496 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3772452 ATTATTAAGA
*
3772462 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
3772479 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
3772497 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:3772687 original size:39 final size:40
Alignment explanation
Indices: 3772644--3772748 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
3772634 TTCCATTATG
3772644 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
3772683 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
3772728 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
3772749 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:3772742 original size:45 final size:44
Alignment explanation
Indices: 3772642--3772751 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
3772632 TTTTCCATTA
3772642 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
3772681 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
3772726 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
3772752 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:3772751 original size:16 final size:16
Alignment explanation
Indices: 3772730--3772762 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3772720 TTGATTTGCT
*
3772730 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
3772746 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
3772762 A
1 A
3772763 ATATAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:3777327 original size:8 final size:8
Alignment explanation
Indices: 3777314--3777434 Score: 57
Period size: 8 Copynumber: 14.4 Consensus size: 8
3777304 CATACAAAAA
3777314 ATTACAAT
1 ATTACAAT
3777322 ATTACAAT
1 ATTACAAT
* * *
3777330 ATATCCCGAC
1 AT-T-ACAAT
3777340 ATTACAAT
1 ATTACAAT
*
3777348 ATTTATACAAA
1 A--T-TACAAT
*
3777359 ATTATAAT
1 ATTACAAT
3777367 ATTACAAT
1 ATTACAAT
3777375 ATTACAAT
1 ATTACAAT
3777383 ATT-C-AT
1 ATTACAAT
** * *
3777389 ACAAAAAA
1 ATTACAAT
3777397 ATTACAAT
1 ATTACAAT
*
3777405 ATTCATACAAA
1 A-T--TACAAT
*
3777416 ATTATAAT
1 ATTACAAT
3777424 ATTACAAT
1 ATTACAAT
3777432 ATT
1 ATT
3777435 CATACAAAAA
Statistics
Matches: 81, Mismatches: 22, Indels: 20
0.66 0.18 0.16
Matches are distributed among these distances:
6 3 0.04
7 1 0.01
8 55 0.68
9 4 0.05
10 6 0.07
11 12 0.15
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (8 bp):
ATTACAAT
Found at i:3777376 original size:27 final size:27
Alignment explanation
Indices: 3777340--3777466 Score: 117
Period size: 27 Copynumber: 4.8 Consensus size: 27
3777330 ATATCCCGAC
*
3777340 ATTACAATATTTATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
*
3777367 ATTACAATATTACAATATTCATACAA--A-AAA
1 ATTACAATATT-C-ATA--CA-A-AATTATAAT
3777397 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTATAAT
3777424 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTATAAT
*
3777446 ATTACAATATTCATACTAAAT
1 ATTACAATATTCATACAAAAT
3777467 ATAGATAATC
Statistics
Matches: 86, Mismatches: 3, Indels: 25
0.75 0.03 0.22
Matches are distributed among these distances:
22 16 0.19
23 5 0.06
24 3 0.03
25 1 0.01
26 6 0.07
27 29 0.34
28 3 0.03
29 4 0.05
30 13 0.15
31 3 0.03
32 1 0.01
33 2 0.02
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTATAAT
Found at i:3777378 original size:16 final size:16
Alignment explanation
Indices: 3777353--3777456 Score: 50
Period size: 16 Copynumber: 6.1 Consensus size: 16
3777343 ACAATATTTA
*
3777353 TACAAAATTATAATAT
1 TACAAAATTACAATAT
*
3777369 TACAATATTACAATATT
1 TACAAAATTACAATA-T
3777386 CATACAAAAAAATTACAATATT
1 --TAC---AAAATTACAATA-T
*
3777408 CATACAAAATTATAATAT
1 --TACAAAATTACAATAT
* *
3777426 TACAATATT-C-ATAC
1 TACAAAATTACAATAT
* *
3777440 AAAAAAATTACAATAT
1 TACAAAATTACAATAT
3777456 T
1 T
3777457 CATACTAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 24 0.35
17 1 0.01
18 1 0.01
19 14 0.21
22 18 0.26
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
TACAAAATTACAATAT
Found at i:3777401 original size:22 final size:22
Alignment explanation
Indices: 3777375--3777461 Score: 129
Period size: 22 Copynumber: 3.7 Consensus size: 22
3777365 ATATTACAAT
3777375 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
3777397 ATTACAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
3777423 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
3777446 ATTACAATATTCATAC
1 ATTACAATATTCATAC
3777462 TAAATATAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
22 32 0.53
23 5 0.08
24 1 0.02
25 1 0.02
26 5 0.08
27 16 0.27
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:3777437 original size:49 final size:49
Alignment explanation
Indices: 3777367--3777466 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
3777357 AAATTATAAT
3777367 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
1 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
* *
3777416 ATTATAATATTACAATATTCATACAAAAAAATTACAATATTCATACTAA
1 ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
3777465 AT
1 AT
3777467 ATAGATAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (49 bp):
ATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAA
Found at i:3777665 original size:134 final size:134
Alignment explanation
Indices: 3777517--3777765 Score: 462
Period size: 134 Copynumber: 1.9 Consensus size: 134
3777507 TGCAATTTTA
*
3777517 TATGAATATTGTAATATTATAATTTTGTGTGAATATTGTAATGTCGGGATATATTGTAATATTGT
1 TATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
*
3777582 AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTTTTAGTAATCTAAATTTTAAATGA
66 AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTGTTAGTAATCTAAATTTTAAATGA
3777647 TTTG
131 TTTG
*
3777651 TATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
1 TATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
*
3777716 AATTTTTTGTATGAATATTGTAATTATTTTATAATTAATTTGTTAGTAAT
66 AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTGTTAGTAAT
3777766 TTAGGATTAT
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 111 1.00
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (134 bp):
TATGAATATTGTAATATTATAATTTTGTATGAATATTGTAATGTCGGGATATATTGTAATATTGT
AATTTTTTGTATGAATATTGAAATTATTTTATAATTAATTTGTTAGTAATCTAAATTTTAAATGA
TTTG
Found at i:3777879 original size:19 final size:19
Alignment explanation
Indices: 3777855--3777896 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3777845 ACAAACACAA
*
3777855 AAATTTATAACATAATCCT
1 AAATTTATAACATAACCCT
3777874 AAATTTATAACATAACCCT
1 AAATTTATAACATAACCCT
3777893 AAAT
1 AAAT
3777897 CCGAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTTATAACATAACCCT
Found at i:3777945 original size:27 final size:27
Alignment explanation
Indices: 3777912--3777987 Score: 134
Period size: 27 Copynumber: 2.8 Consensus size: 27
3777902 AAAACCAGAA
3777912 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
* *
3777939 CATTGGCGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
3777966 CATTGGCGCCTCCCAAATAGGC
1 CATTGGCGCCTCCCAAATAGGC
3777988 GCCAATACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.17
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:3782309 original size:21 final size:21
Alignment explanation
Indices: 3782283--3782356 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
3782273 CATATTTTAG
3782283 ATATAAAATAATTA-AATATAA
1 ATAT-AAATAATTATAATATAA
*
3782304 ATATAAATAATTATATTATAA
1 ATATAAATAATTATAATATAA
* *
3782325 ATATTAATTATTATTAAT-TAA
1 ATATAAATAATTA-TAATATAA
*
3782346 TTATATAATAA
1 ATATA-AATAA
3782357 CCCAACAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 9 0.21
21 27 0.63
22 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATAAATAATTATAATATAA
Found at i:3797445 original size:24 final size:24
Alignment explanation
Indices: 3797411--3797461 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
3797401 TTTCTAAAAG
* *
3797411 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
3797435 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
3797459 ATT
1 ATT
3797462 CCACTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:3801903 original size:16 final size:16
Alignment explanation
Indices: 3801865--3801903 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3801855 GTCAAAAGGT
* *
3801865 GAAAAAAAAATGAAAG
1 GAAAAATAAATGAAAA
*
3801881 GATAAATAAATGAAAA
1 GAAAAATAAATGAAAA
3801897 GAAAAAT
1 GAAAAAT
3801904 TGCAAATAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (16 bp):
GAAAAATAAATGAAAA
Found at i:3802983 original size:1 final size:1
Alignment explanation
Indices: 3802977--3803001 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3802967 AATCAACAGC
3802977 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3803002 CAGTAATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3809672 original size:32 final size:31
Alignment explanation
Indices: 3809621--3809682 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
3809611 AAGATTTAAG
*
3809621 AAAAAAGAGAGCTTAGATTAGAAACATACTT
1 AAAAAAGAGAGCTCAGATTAGAAACATACTT
* *
3809652 AAAAAGAGAGAGCTCGGATTAGTAACATACT
1 AAAAA-AGAGAGCTCAGATTAGAAACATACT
3809683 CATTTTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 5 0.19
32 22 0.81
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (31 bp):
AAAAAAGAGAGCTCAGATTAGAAACATACTT
Found at i:3810334 original size:2 final size:2
Alignment explanation
Indices: 3810329--3810359 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3810319 ATATTATATA
3810329 TG TG TG 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 TG TG TG T
3810360 CCATCGTCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3813573 original size:71 final size:71
Alignment explanation
Indices: 3813457--3813669 Score: 390
Period size: 71 Copynumber: 3.0 Consensus size: 71
3813447 TATTCATTAA
*
3813457 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTTTAAGAAAAAGACACTGTAAGATAGTCCA
1 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
3813522 CAAGAC
66 CAAGAC
* *
3813528 TTACAAAAGGTAGTAATAAATTTATCAGATAAACTTATAAGAAAAAGATACTGTAAGATAGTCCA
1 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
3813593 CAAGAC
66 CAAGAC
*
3813599 TTACAAAAGGTAGTACTAAATTTATCATATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
1 TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
3813664 CAAGAC
66 CAAGAC
3813670 CCATTCCTTT
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 136 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (71 bp):
TTACAAAAGGTAGTACTAAATTTATCAGATAAACTTATAAGAAAAAGACACTGTAAGATAGTCCA
CAAGAC
Found at i:3813601 original size:37 final size:37
Alignment explanation
Indices: 3813560--3813669 Score: 86
Period size: 37 Copynumber: 3.1 Consensus size: 37
3813550 TATCAGATAA
3813560 ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
1 ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
* ** * ** * *
3813597 ACTTACAA-AAGGTAG-TACT-AAATTTA-T-CATATAA
1 ACTTATAAGAA-AAAGATACTGTAAGATAGTCCACA-AG
*
3813631 ACTTATAAGAAAAAGACACTGTAAGATAGTCCACAAG
1 ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
3813668 AC
1 AC
3813670 CCATTCCTTT
Statistics
Matches: 49, Mismatches: 17, Indels: 14
0.61 0.21 0.17
Matches are distributed among these distances:
33 3 0.06
34 11 0.22
35 9 0.18
36 10 0.20
37 13 0.27
38 3 0.06
ACGTcount: A:0.48, C:0.15, G:0.14, T:0.24
Consensus pattern (37 bp):
ACTTATAAGAAAAAGATACTGTAAGATAGTCCACAAG
Found at i:3820442 original size:3 final size:3
Alignment explanation
Indices: 3820423--3820472 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
3820413 AATTTATTTC
* * * *
3820423 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATA ACA ATA ACA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3820469 ATA A
1 ATA A
3820473 AATGTCATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:3821626 original size:39 final size:41
Alignment explanation
Indices: 3821581--3821686 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 41
3821571 TTTCCTTATG
*
3821581 CTATTACACTTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACACTTCTATTCCATTCAACCAAACAAAAGAATTAC
* *
3821621 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTA---CAC--TTCTATTCCATTCAACCAAACAAAAGAATTAC
* *
3821666 CTATTACGCCTCTATTCCATT
1 CTATTACACTTCTATTCCATT
3821687 ACGCATCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 4 0.08
40 1 0.02
41 10 0.19
42 2 0.04
43 2 0.04
44 26 0.49
45 4 0.08
46 4 0.08
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (41 bp):
CTATTACACTTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:3821661 original size:44 final size:46
Alignment explanation
Indices: 3821594--3821686 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
3821584 TTACACTTCT
*
3821594 ATTCCATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
3821638 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
3821684 ATT
1 ATT
3821687 ACGCATCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 23 0.50
45 4 0.09
46 19 0.41
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:3821689 original size:16 final size:16
Alignment explanation
Indices: 3821668--3821720 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
3821658 AGAATTACCT
3821668 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
3821684 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
3821700 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
3821716 ATTAC
1 ATTAC
3821721 AGCCAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:3824871 original size:58 final size:63
Alignment explanation
Indices: 3824728--3824873 Score: 162
Period size: 64 Copynumber: 2.4 Consensus size: 63
3824718 TATATTATAT
* * ***
3824728 ATTAT-ATATAATAAAACATAAAAATTTAATATATATATATATTATATTATATTATATTTCAAA
1 ATTATAATATAAGAAAACATAAAAATATAATATATATATATATTATATTATA-TATAAAACAAA
* *
3824791 ATTATATTATAATAAAACATAAAAATATAATATA-ATATATATTATATTATA-ATAAAACAAA
1 ATTATAATATAAGAAAACATAAAAATATAATATATATATATATTATATTATATATAAAACAAA
3824852 A-TA-AATA-AAGAATAA-ATAAAAA
1 ATTATAATATAAGAA-AACATAAAAA
3824874 GATAGATAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
58 11 0.15
59 5 0.07
60 2 0.03
61 8 0.11
63 22 0.30
64 26 0.35
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.37
Consensus pattern (63 bp):
ATTATAATATAAGAAAACATAAAAATATAATATATATATATATTATATTATATATAAAACAAA
Found at i:3825638 original size:24 final size:24
Alignment explanation
Indices: 3825610--3825656 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
3825600 ATTGAAACGA
3825610 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
3825634 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
3825657 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:3833391 original size:9 final size:9
Alignment explanation
Indices: 3833377--3833408 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
3833367 AACTTGGTGC
3833377 ATTTTGTTT
1 ATTTTGTTT
3833386 ATTTTGTTT
1 ATTTTGTTT
3833395 ATTTTGTTT
1 ATTTTGTTT
3833404 ATTTT
1 ATTTT
3833409 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:3837828 original size:9 final size:9
Alignment explanation
Indices: 3837814--3837845 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
3837804 AACTTGGTGC
3837814 ATTTTGTTT
1 ATTTTGTTT
3837823 ATTTTGTTT
1 ATTTTGTTT
3837832 ATTTTGTTT
1 ATTTTGTTT
3837841 ATTTT
1 ATTTT
3837846 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:3848821 original size:2 final size:2
Alignment explanation
Indices: 3848814--3848846 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3848804 GGTTAAGTGA
3848814 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3848847 TCTTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3867743 original size:2 final size:2
Alignment explanation
Indices: 3867738--3867767 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3867728 GGGGGGGTTA
3867738 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3867768 GGGAGAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3868034 original size:17 final size:17
Alignment explanation
Indices: 3868014--3868049 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
3868004 GTATTTAATA
3868014 AATA-TAATATAAAAAAT
1 AATACTAATA-AAAAAAT
3868031 AATACTAATAAAAAAAT
1 AATACTAATAAAAAAAT
3868048 AA
1 AA
3868050 AATTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AATACTAATAAAAAAAT
Found at i:3890122 original size:1 final size:1
Alignment explanation
Indices: 3890116--3890141 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3890106 AGCAAAATAC
3890116 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
3890142 GGGTATAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3895904 original size:2 final size:2
Alignment explanation
Indices: 3895897--3895947 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3895887 GTTAAAAGGC
3895897 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3895939 GA GA GA GA G
1 GA GA GA GA G
3895948 CCCCCCTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3902992 original size:67 final size:67
Alignment explanation
Indices: 3902879--3903072 Score: 325
Period size: 67 Copynumber: 2.9 Consensus size: 67
3902869 CAATTCAGAT
* *
3902879 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGAATTACTAGTCCAAGCTAAATCTCCTACAAG
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACTAGTCCAAGCTAAATCCCCTACAAG
3902944 AG
66 AG
**
3902946 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCGGTCCAAGCTAAATCCCCTACAAG
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACTAGTCCAAGCTAAATCCCCTACAAG
*
3903011 AT
66 AG
* *
3903013 AGCACATTCCCGCGAACCTCATTTCTTACAGCGGGATTACTAGTCCAGGCTAAATCCCCT
1 AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACTAGTCCAAGCTAAATCCCCT
3903073 GTAATGACAA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 118 1.00
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (67 bp):
AGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACTAGTCCAAGCTAAATCCCCTACAAG
AG
Found at i:3918402 original size:67 final size:67
Alignment explanation
Indices: 3918275--3918402 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
3918265 CATTGAGTTG
* * * ** * * ** *
3918275 ATCCATTCCCTGCAGTTCAAGTCTATTGCTTTTGGACTTGATTCGATGTCCTTGTGGCATTCAAC
1 ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAACGTCAGTGTAGCATTCAAC
3918340 TC
66 TC
3918342 ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAACGTCAGTGTAGCATT
1 ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAACGTCAGTGTAGCATT
3918403 GGCTGTTGAG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 51 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (67 bp):
ATCCATTCCCTGCAGTTCAAATCTATTACTTCTGGACCCGATTCAACGTCAGTGTAGCATTCAAC
TC
Found at i:3918731 original size:17 final size:18
Alignment explanation
Indices: 3918709--3918744 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3918699 TGGACATTTT
3918709 AATTATTTT-TGAAAAAA
1 AATTATTTTCTGAAAAAA
*
3918726 AATTATTTTCTTAAAAAA
1 AATTATTTTCTGAAAAAA
3918744 A
1 A
3918745 TTTTGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTATTTTCTGAAAAAA
Found at i:3927345 original size:25 final size:23
Alignment explanation
Indices: 3927269--3927372 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 23
3927259 TGCACTAAGG
*
3927269 AACAGAGAGCACTGAAGTGCTAT
1 AACAGAGAGCACTGACGTGCTAT
* *
3927292 -ACAGAGAGCACAGATGTGCTA-
1 AACAGAGAGCACTGACGTGCTAT
*
3927313 AACAGAGAGTACTGACGTGCTAGT
1 AACAGAGAGCACTGACGTGCTA-T
**
3927337 AATCAGAGAGCACCAACGTGCTAAT
1 AA-CAGAGAGCACTGACGTGCT-AT
3927362 AATCAGAGAGC
1 AA-CAGAGAGC
3927373 GCGCTAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
22 37 0.54
24 2 0.03
25 28 0.41
26 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.16
Consensus pattern (23 bp):
AACAGAGAGCACTGACGTGCTAT
Found at i:3946190 original size:17 final size:18
Alignment explanation
Indices: 3946162--3946195 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3946152 ATCGGCTAAT
*
3946162 AATAAGATATTATTTAAA
1 AATAAGATATTAGTTAAA
3946180 AATAA-ATATTAGTTAA
1 AATAAGATATTAGTTAA
3946196 TGTTTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAGATATTAGTTAAA
Found at i:3949453 original size:60 final size:60
Alignment explanation
Indices: 3949324--3949437 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
3949314 TTTGTTTTAA
* * * *
3949324 AATTTGGTACGTAAACTTGACCCTTTTTCTTAAGTTGGTACTTAATATTTTTGGGGGTTT
1 AATTTGGTACCTAAACTTGACCCTTTTTCCTAAGTTGCTACTTAATATTTTTGGGGGTTC
* *
3949384 AATTTGGTACCTAAACTTGACTCTTTTTCCTAATTTGCTA-TCTAATCATTTTTG
1 AATTTGGTACCTAAACTTGACCCTTTTTCCTAAGTTGCTACT-TAAT-ATTTTTG
3949438 TTGTTCGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
59 1 0.02
60 39 0.83
61 7 0.15
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (60 bp):
AATTTGGTACCTAAACTTGACCCTTTTTCCTAAGTTGCTACTTAATATTTTTGGGGGTTC
Found at i:3949861 original size:14 final size:15
Alignment explanation
Indices: 3949842--3949870 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3949832 TTCAAGTGCC
3949842 AAATTAGAC-CCAAA
1 AAATTAGACACCAAA
3949856 AAATTAGACACCAAA
1 AAATTAGACACCAAA
3949871 TTAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.14
Consensus pattern (15 bp):
AAATTAGACACCAAA
Found at i:3955812 original size:30 final size:30
Alignment explanation
Indices: 3955776--3955838 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
3955766 ATTTATTTTA
3955776 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
3955806 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
3955836 TTG
1 TTG
3955839 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:3957115 original size:2 final size:2
Alignment explanation
Indices: 3957108--3957171 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
3957098 AAGGGTTTAA
*
3957108 AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
3957150 AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC
3957172 CACCAAAGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Done.