Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 115 of 141
Found at i:33696724 original size:18 final size:18
Alignment explanation
Indices: 33696681--33696724 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
33696671 TATATGTAGG
33696681 TACAATAATAATAATATA
1 TACAATAATAATAATATA
33696699 TA-ATATAATAATAAT-TAA
1 TACA-ATAATAATAATAT-A
33696717 TACAATAA
1 TACAATAA
33696725 GAATGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 20 0.87
19 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
TACAATAATAATAATATA
Found at i:33697469 original size:100 final size:100
Alignment explanation
Indices: 33697359--33697557 Score: 371
Period size: 100 Copynumber: 2.0 Consensus size: 100
33697349 CACTTCTCTA
33697359 TTTTTTTTATTGTGAAAAATAATTATTTTTTATTGATTTCTTTCTTTTCGATCCCTATTACAGTA
1 TTTTTTTTATTGTGAAAAATAATTATTTTTTATTGATTTCTTTCTTTTCGATCCCTATTACAGTA
33697424 TGTTAAGATCGCTTTTATAGCAATCGTGAAACAAT
66 TGTTAAGATCGCTTTTATAGCAATCGTGAAACAAT
* *
33697459 TTTTTTTTATTGTGAAAAATACTTGTTTTTTATTGATTTCTTTCTTTTCGATCCCTATTACAGTA
1 TTTTTTTTATTGTGAAAAATAATTATTTTTTATTGATTTCTTTCTTTTCGATCCCTATTACAGTA
*
33697524 TGTTAAGATCGCTTTTATAGCAATCGTGAGACAA
66 TGTTAAGATCGCTTTTATAGCAATCGTGAAACAA
33697558 GAAGAAAAGA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.49
Consensus pattern (100 bp):
TTTTTTTTATTGTGAAAAATAATTATTTTTTATTGATTTCTTTCTTTTCGATCCCTATTACAGTA
TGTTAAGATCGCTTTTATAGCAATCGTGAAACAAT
Found at i:33697473 original size:21 final size:22
Alignment explanation
Indices: 33697449--33697493 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
33697439 TATAGCAATC
33697449 GTGAAACAAT-TT-TTTTTTATT
1 GTGAAA-AATATTGTTTTTTATT
33697470 GTGAAAAATACTTGTTTTTTATT
1 GTGAAAAATA-TTGTTTTTTATT
33697493 G
1 G
33697494 ATTTCTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 6 0.29
22 2 0.10
23 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (22 bp):
GTGAAAAATATTGTTTTTTATT
Found at i:33701543 original size:3 final size:3
Alignment explanation
Indices: 33701537--33702473 Score: 1829
Period size: 3 Copynumber: 312.3 Consensus size: 3
33701527 GACGATGATG
* * * **
33701537 ATA ATA ACA ATA ACA ATA ATA ATA ATG ACG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701585 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701633 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701681 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701729 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701777 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701825 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701873 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701921 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33701969 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702017 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702065 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702113 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702161 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702209 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702257 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702305 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702353 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702401 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33702449 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
33702474 AGAAGTAGGT
Statistics
Matches: 926, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
3 926 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33702872 original size:23 final size:23
Alignment explanation
Indices: 33702846--33702889 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33702836 TAAATATTAT
33702846 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* * *
33702869 TTTATTATTCTTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
33702890 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:33706012 original size:29 final size:28
Alignment explanation
Indices: 33705980--33706040 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
33705970 TAGAATAGAT
* *
33705980 AATAATATAACCATGCATATATATTAT-AA
1 AATAAT-TAAACATGCATATACA-TATGAA
33706009 AAT-ATTAAACATGCATATACATATGAA
1 AATAATTAAACATGCATATACATATGAA
33706036 AATAA
1 AATAA
33706041 AAGTGCACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 3 0.11
27 19 0.68
28 3 0.11
29 3 0.11
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (28 bp):
AATAATTAAACATGCATATACATATGAA
Found at i:33706248 original size:3 final size:3
Alignment explanation
Indices: 33706240--33706275 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33706230 AAGATGAAAC
33706240 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33706276 CAACACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33707778 original size:56 final size:57
Alignment explanation
Indices: 33707680--33707823 Score: 137
Period size: 56 Copynumber: 2.5 Consensus size: 57
33707670 AAAATTCTAG
* ** * **
33707680 AAAGGCAAGCCATTGTGGTGAACCTATTAAAGGGTAACCTTTGT-GAAAAACTTTCA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACCTTTGTGGAAAAACTTTCA
** * **
33707736 AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAGGCTTTGTGGTAAAACTTTGG
1 AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACCTTTGTGGAAAAACTTTCA
* * ** *
33707793 AAATGCAACCCTTCATGGCAAACCTGTTAAA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTAAA
33707824 GGATGCCTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
56 36 0.51
57 35 0.49
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (57 bp):
AAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACCTTTGTGGAAAAACTTTCA
Found at i:33707888 original size:28 final size:29
Alignment explanation
Indices: 33707821--33707895 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
33707811 CAAACCTGTT
* *
33707821 AAAGG-ATGCCTTTGTGGCAATCTCTGGA
1 AAAGGAATGCATTTGTGGCTATCTCTGGA
* *
33707849 TAATGAAT-CATTTGTGGCTATCTCT-GA
1 AAAGGAATGCATTTGTGGCTATCTCTGGA
*
33707876 AAAGGAATGCATTCGTGGCT
1 AAAGGAATGCATTTGTGGCT
33707896 CCACCTAAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.21
28 28 0.74
29 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAGGAATGCATTTGTGGCTATCTCTGGA
Found at i:33717749 original size:33 final size:33
Alignment explanation
Indices: 33717697--33717763 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
33717687 GAAGGGAGCA
*
33717697 AGGACAATGCGTCAGTTGGCAAGTAACAGGTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
* *
33717730 AGGACAATGTGTCATTTGGCAAGTAACAGCTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
33717763 A
1 A
33717764 CTAACTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (33 bp):
AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
Found at i:33726325 original size:19 final size:19
Alignment explanation
Indices: 33726303--33726367 Score: 76
Period size: 19 Copynumber: 3.2 Consensus size: 19
33726293 CAAAATTCTG
33726303 AAAAAAAGTATAAATAAAT
1 AAAAAAAGTATAAATAAAT
*
33726322 AAAAAAAGTATAAAATAAAAAAA
1 AAAAAAAGTAT-AAAT---AAAT
33726345 ATAAAAAAGTATAAATAAAT
1 A-AAAAAAGTATAAATAAAT
33726365 AAA
1 AAA
33726368 GTATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 13 0.33
20 8 0.21
23 8 0.21
24 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (19 bp):
AAAAAAAGTATAAATAAAT
Found at i:33726340 original size:24 final size:24
Alignment explanation
Indices: 33726312--33726389 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
33726302 GAAAAAAAGT
33726312 ATAAATAAATAAAAAAAGTATAAA
1 ATAAATAAATAAAAAAAGTATAAA
*
33726336 ATAAA-AAAAATAAAAAAGTAT-AA
1 ATAAATAAATA-AAAAAAGTATAAA
33726359 ATAAATAAAGTATAAAAAAAGTATAAA
1 ATAAAT-AA--ATAAAAAAAGTATAAA
33726386 ATAA
1 ATAA
33726390 GAAACGTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
23 11 0.24
24 15 0.33
25 2 0.04
26 10 0.22
27 8 0.17
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (24 bp):
ATAAATAAATAAAAAAAGTATAAA
Found at i:33726341 original size:15 final size:16
Alignment explanation
Indices: 33726342--33726375 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
33726332 TAAAATAAAA
33726342 AAAATAAA-AAAGTAT
1 AAAATAAATAAAGTAT
33726357 -AAATAAATAAAGTAT
1 AAAATAAATAAAGTAT
33726372 AAAA
1 AAAA
33726376 AAAGTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.41
15 7 0.41
16 3 0.18
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAAGTAT
Found at i:33735759 original size:27 final size:28
Alignment explanation
Indices: 33735719--33735773 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
33735709 TGTTAACTAT
*
33735719 GAGCTACATACAAG-AAAGCATGCATGC
1 GAGCTACATACAAGCAAAGAATGCATGC
* * *
33735746 GAGCTGCATGCAAGCAAGGAATGCATGC
1 GAGCTACATACAAGCAAAGAATGCATGC
33735774 AAGTTGTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (28 bp):
GAGCTACATACAAGCAAAGAATGCATGC
Found at i:33742419 original size:220 final size:221
Alignment explanation
Indices: 33742036--33742473 Score: 842
Period size: 220 Copynumber: 2.0 Consensus size: 221
33742026 TGTGTGATCC
* *
33742036 TAAAAGACTCCGTTGTGGTCCTTAGAGTTTAATAATTTTATGCATCTTTGAGGGACCAAGAGTAA
1 TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGTAA
33742101 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
66 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
33742166 TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
131 TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
33742231 TAGATTACTTTAGAGACATAAATTTG
196 TAGATTACTTTAGAGACATAAATTTG
33742257 TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGT-A
1 TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGTAA
33742321 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
66 AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
*
33742386 TAGAATTATTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
131 TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
33742451 TAGATTACTTTAGAGACATAAAT
196 TAGATTACTTTAGAGACATAAAT
33742474 ATTGACAATG
Statistics
Matches: 214, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
220 153 0.71
221 61 0.29
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (221 bp):
TAAAAGACTCCGTTGTGGTCCTTACAGTTTAAGAATTTTATGCATCTTTGAGGGACCAAGAGTAA
AAAAGGATCGAAGGCTCGACTTGGGAAATAGTACTGATGCGAGGGAAGGAAGTACAAATTACCTC
TAGAATTAGTTGAGAATTTTATAATGCTTCATTTTATGAGAAAAAATTTGTAGAAGAAACTGATT
TAGATTACTTTAGAGACATAAATTTG
Found at i:33748556 original size:24 final size:24
Alignment explanation
Indices: 33748529--33748624 Score: 129
Period size: 24 Copynumber: 4.0 Consensus size: 24
33748519 TTTACTGGAA
* *
33748529 TATTGAGTGGTTTAACCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
* *
33748553 TATTGAGTGGCTTGACCCCAATGC
1 TATTGAGTGGCTTGACCACAATGT
*
33748577 TATTGAGTGGCTTGGCCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
**
33748601 TATTGAGTGGCTTGGTCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
33748625 GGTGTGTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGT
Found at i:33748879 original size:53 final size:53
Alignment explanation
Indices: 33748821--33748931 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
33748811 AATTCTGTTT
* *
33748821 ATTTTATGTTGAATTCATATTGGGTTTTGAAAGCTCACCCCTTCAATTTCCTG
1 ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTCACCCCTTCAATTTCCTG
*
33748874 ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTTACCCCTTCAATTTCCTG
1 ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTCACCCCTTCAATTTCCTG
33748927 ATTTT
1 ATTTT
33748932 TCAAATAACC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (53 bp):
ATTTTATGTTGAATTCACATTGGATTTTGAAAGCTCACCCCTTCAATTTCCTG
Found at i:33750800 original size:21 final size:21
Alignment explanation
Indices: 33750776--33750817 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
33750766 GTCAGCTGCC
33750776 ATAAATATTTAATAGAAATAT
1 ATAAATATTTAATAGAAATAT
*
33750797 ATAAATGTTTAATAGAAATAT
1 ATAAATATTTAATAGAAATAT
33750818 TTATGAGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAAATATTTAATAGAAATAT
Found at i:33751641 original size:13 final size:13
Alignment explanation
Indices: 33751623--33751647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33751613 ATTTGTGAAC
33751623 AACCCCACAAACA
1 AACCCCACAAACA
33751636 AACCCCACAAAC
1 AACCCCACAAAC
33751648 CCCACAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (13 bp):
AACCCCACAAACA
Found at i:33754276 original size:14 final size:15
Alignment explanation
Indices: 33754241--33754276 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
33754231 AATGTTTGTG
33754241 AGAAAAAATAAATGA
1 AGAAAAAATAAATGA
33754256 AGAAAAAATAAATGA
1 AGAAAAAATAAATGA
33754271 AGAAAA
1 AGAAAA
33754277 GAAGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (15 bp):
AGAAAAAATAAATGA
Found at i:33761029 original size:6 final size:6
Alignment explanation
Indices: 33761018--33761042 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33761008 AGGTTTCCAA
33761018 AAATGG AAATGG AAATGG AAATGG A
1 AAATGG AAATGG AAATGG AAATGG A
33761043 TTACTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:33762128 original size:34 final size:34
Alignment explanation
Indices: 33762085--33762152 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
33762075 TTTACCACCA
33762085 AACACACAATTCACTCATTAGGTAGATTTCTGAT
1 AACACACAATTCACTCATTAGGTAGATTTCTGAT
33762119 AACACACAATTCACTCATTAGGTAGATTTCTGAT
1 AACACACAATTCACTCATTAGGTAGATTTCTGAT
33762153 TTCTTACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (34 bp):
AACACACAATTCACTCATTAGGTAGATTTCTGAT
Found at i:33765748 original size:23 final size:23
Alignment explanation
Indices: 33765698--33765831 Score: 169
Period size: 23 Copynumber: 5.8 Consensus size: 23
33765688 AGGGCGTTAC
*
33765698 AGAATACGCCACAAAAGGCTTCAT
1 AGAATACGCCAC-AAAGGCATCAT
* *
33765722 AGAATATGCCACAAAAGCATCAT
1 AGAATACGCCACAAAGGCATCAT
* * *
33765745 AGAATACACCACAAAGGCTTCAC
1 AGAATACGCCACAAAGGCATCAT
*
33765768 AGAATACGCCATAAAGGCATCAT
1 AGAATACGCCACAAAGGCATCAT
* *
33765791 AGAGTACGCAACAAAGGCATCAT
1 AGAATACGCCACAAAGGCATCAT
*
33765814 AGAATACACCACAAAGGC
1 AGAATACGCCACAAAGGC
33765832 TTTTCTTGAG
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
23 81 0.88
24 11 0.12
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.14
Consensus pattern (23 bp):
AGAATACGCCACAAAGGCATCAT
Found at i:33765793 original size:69 final size:70
Alignment explanation
Indices: 33765696--33765833 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 70
33765686 TGAGGGCGTT
* * *
33765696 ACAGAATACGCCACAAAAGGCTTCATAGAATATGCCACAAAAGCATCATAGAATACACCACAAAG
1 ACAGAATACGCCACAAAAGGCATCATAGAATACGCAACAAAAGCATCATAGAATACACCACAAAG
33765761 GCTTC
66 GCTTC
* * *
33765766 ACAGAATACGCCA-TAAAGGCATCATAGAGTACGCAACAAAGGCATCATAGAATACACCACAAAG
1 ACAGAATACGCCACAAAAGGCATCATAGAATACGCAACAAAAGCATCATAGAATACACCACAAAG
33765830 GCTT
66 GCTT
33765834 TTCTTGAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
69 49 0.79
70 13 0.21
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (70 bp):
ACAGAATACGCCACAAAAGGCATCATAGAATACGCAACAAAAGCATCATAGAATACACCACAAAG
GCTTC
Found at i:33773458 original size:6 final size:6
Alignment explanation
Indices: 33773447--33773485 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
33773437 GGTTTTATCC
**
33773447 AAAATG AAAATG GGAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
33773486 TTCATTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:33777343 original size:26 final size:26
Alignment explanation
Indices: 33777290--33777433 Score: 180
Period size: 27 Copynumber: 5.4 Consensus size: 26
33777280 TTCGGGCGTT
* **
33777290 ACAAAGGCATTCCTTTCATATTCCGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
* *
33777317 ACAAAGGCTTTCTTTTACATTATGCC
1 ACAAAGGCTTTCTTTCATATTATGCC
33777343 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
33777370 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTATGCC
** * *
33777397 ATGAATGCTTTCTTTCATATTACGCC
1 ACAAAGGCTTTCTTTCATATTATGCC
33777423 ACAAAGGCTTT
1 ACAAAGGCTTT
33777434 TTTTATTTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
26 46 0.45
27 56 0.55
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (26 bp):
ACAAAGGCTTTCTTTCATATTATGCC
Found at i:33777371 original size:53 final size:52
Alignment explanation
Indices: 33777290--33777438 Score: 192
Period size: 53 Copynumber: 2.8 Consensus size: 52
33777280 TTCGGGCGTT
* *
33777290 ACAAAGGCATTCCTTTCATATTCCGCCACAAAGGCTTTCTTTTACATTATGCC
1 ACAAAGGC-TTTCTTTCATATTACGCCACAAAGGCTTTCTTTTACATTATGCC
* * *
33777343 ACAAAGGCTTTTCTTTCATATTATGCCACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGC-TTTCTTTCATATTACGCCACAAAGGC-TTTCTTTTACATTATGCC
** *
33777397 ATGAATGCTTTCTTTCATATTACGCCACAAAGGCTTT-TTTTA
1 ACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTTA
33777439 TTTTTCATGC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 4 0.05
52 3 0.04
53 56 0.67
54 21 0.25
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (52 bp):
ACAAAGGCTTTCTTTCATATTACGCCACAAAGGCTTTCTTTTACATTATGCC
Found at i:33785100 original size:4 final size:4
Alignment explanation
Indices: 33785091--33785118 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
33785081 TATATCATGT
33785091 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
33785119 TTTATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:33785182 original size:21 final size:20
Alignment explanation
Indices: 33785152--33785191 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
33785142 AAATATATAT
33785152 TATTTATAA-TTATATTTAAC
1 TATTTATAATTTA-ATTTAAC
33785172 TATTATATAATTTAATTTAA
1 TATT-TATAATTTAATTTAA
33785192 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 11 0.61
22 3 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTTATAATTTAATTTAAC
Found at i:33787664 original size:21 final size:21
Alignment explanation
Indices: 33787639--33787682 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
33787629 ATGCCTTTTG
33787639 AAATTGTGCTTCAATAATAAA
1 AAATTGTGCTTCAATAATAAA
* *
33787660 AAATTGTGCTTTAATAATCAA
1 AAATTGTGCTTCAATAATAAA
33787681 AA
1 AA
33787683 TGCTAGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATTGTGCTTCAATAATAAA
Found at i:33794916 original size:35 final size:35
Alignment explanation
Indices: 33794877--33794971 Score: 95
Period size: 35 Copynumber: 2.8 Consensus size: 35
33794867 CCGAACCCGT
* * * *
33794877 AACCCAAAATCCTTGGACCCTGAACTTGAACCTTG
1 AACCCAAAACCCTTGAACCCTAAACTTGAACCTTA
* * *
33794912 AACCCCAAACCCTTGAACCTTAAACTTGAATCTTA
1 AACCCAAAACCCTTGAACCCTAAACTTGAACCTTA
* *
33794947 AACCC-CAA-GCTTGAACCCTAAACTT
1 AACCCAAAACCCTTGAACCCTAAACTT
33794972 TAAATCTCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 15 0.30
34 2 0.04
35 33 0.66
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.23
Consensus pattern (35 bp):
AACCCAAAACCCTTGAACCCTAAACTTGAACCTTA
Found at i:33795994 original size:15 final size:15
Alignment explanation
Indices: 33795974--33796015 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
33795964 AATTTTGTAT
33795974 TATTTTAATATTAAA
1 TATTTTAATATTAAA
*
33795989 TATTTTAAAATTAAA
1 TATTTTAATATTAAA
*
33796004 TAATATTAATAT
1 T-ATTTTAATAT
33796016 AATTGGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAATATTAAA
Found at i:33805198 original size:50 final size:50
Alignment explanation
Indices: 33805068--33805303 Score: 226
Period size: 50 Copynumber: 4.7 Consensus size: 50
33805058 GATAATAACA
* * *
33805068 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATAT-CGG
* * * *
33805117 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
** * * ** * * *
33805167 TGCCCGTGTCATGTCCCAGACATGGTTTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
** * * * *
33805217 TGCCAACACCATGTCCCAAATATGGTCTTACATGGGACATCTCGTATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
*
33805267 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
33805304 TCTTTTTACC
Statistics
Matches: 149, Mismatches: 35, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
48 1 0.01
49 39 0.26
50 109 0.73
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:33823775 original size:40 final size:40
Alignment explanation
Indices: 33823718--33824096 Score: 456
Period size: 40 Copynumber: 9.5 Consensus size: 40
33823708 AATTATTGAA
* *
33823718 TGATTGCATTTACGTGCCCCTGTTTGCACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* ** * * * * *
33823758 TGATTGCTCTTTTGTGCCCCTATTTATATTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
33823798 TGATTACACTTACATGCCCTTGTTTGTACTTTGGTACTCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* *
33823838 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
33823878 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACACC-
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTAC-CCT
* *
33823918 TGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
33823958 TGATTGCACTTGCATACCCTTATTTGTACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
*
33823998 TGATTGCACTTACGTGCCCCTATTTGTACTTCGGTATCCC-
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTA-CCCT
* * *
33824038 TGACTGCACTTACGTGCCCCTATTTGTACTTTGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
* *
33824078 TGGTTGCACTTCCGTGCCC
1 TGATTGCACTTACGTGCCC
33824097 TTGGTTATAC
Statistics
Matches: 290, Mismatches: 45, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
39 5 0.02
40 280 0.97
41 5 0.02
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:33823877 original size:20 final size:20
Alignment explanation
Indices: 33823854--33824076 Score: 130
Period size: 20 Copynumber: 11.2 Consensus size: 20
33823844 CACTTACATG
33823854 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * *
33823874 CCCCTGATTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
33823894 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * ** *
33823914 CACCTGATTGCACTTATGTG
1 CCCCTGTTTGTACTTCGGTA
*
33823934 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
33823954 CCCTTGATTGCACTT-GCATA
1 CCCCTGTTTGTACTTCG-GTA
* *
33823974 CCCTTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
33823994 CCCTTGATTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
*
33824014 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* ** * *
33824034 TCCCTGACTGCACTTAC-GTG
1 CCCCTGTTTGTACTT-CGGTA
* *
33824054 CCCCTATTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
33824074 CCC
1 CCC
33824077 TTGGTTGCAC
Statistics
Matches: 147, Mismatches: 48, Indels: 16
0.70 0.23 0.08
Matches are distributed among these distances:
19 3 0.02
20 140 0.95
21 4 0.03
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:33824098 original size:120 final size:119
Alignment explanation
Indices: 33823718--33824088 Score: 508
Period size: 120 Copynumber: 3.1 Consensus size: 119
33823708 AATTATTGAA
* * * * **
33823718 TGATTGCATTTACGTGCCCCTGTTTGCACTTCGGTACCCTTGATTGCTCTTTTGTGCCCCTATTT
1 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
* * * * * * *
33823783 ATATTTTGGTACCCCTGATTACACTTACATGCCCTTGTTTGTACTTTGGTACTCT
66 GTACTTCGGTA-CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
* *
33823838 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTACGTGCCCCTGTTT
1 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
*
33823903 GTACTTCGGTACACCTGATTGCACTTATGTGCCCCTGTTTGTACTTTGGTACCCT
66 GTACTTCGGTAC-CCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
* * * *
33823958 TGATTGCACTTGCATACCCTTATTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
1 TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
* *
33824023 GTACTTCGGTATCCCTGACTGCACTTACGTGCCCCTATTTGTACTTTGGTACCCT
66 GTACTTCGGTA-CCCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
*
33824078 TGGTTGCACTT
1 TGATTGCACTT
33824089 CCGTGCCCTT
Statistics
Matches: 223, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
119 1 0.00
120 221 0.99
121 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.40
Consensus pattern (119 bp):
TGATTGCACTTACATGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACTTACGTGCCCCTATTT
GTACTTCGGTACCCTGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCT
Found at i:33840848 original size:19 final size:19
Alignment explanation
Indices: 33840824--33840870 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
33840814 TTTATATTTC
*
33840824 TAAAAGAATTATAAA-AATT
1 TAAAAGAA-TATAAAGAATA
33840843 TAAAAGAATATAAAGAATA
1 TAAAAGAATATAAAGAATA
33840862 TATAAAGAA
1 TA-AAAGAA
33840871 AATTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (19 bp):
TAAAAGAATATAAAGAATA
Found at i:33842451 original size:19 final size:19
Alignment explanation
Indices: 33842423--33842464 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
33842413 AGTAACAGCT
* *
33842423 TAACTGCTAACAGACTTAG
1 TAACTACTAACAGAATTAG
33842442 TAACTACTAACAGAATTAG
1 TAACTACTAACAGAATTAG
33842461 TAAC
1 TAAC
33842465 AGCTTTGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (19 bp):
TAACTACTAACAGAATTAG
Found at i:33847064 original size:19 final size:19
Alignment explanation
Indices: 33847040--33847076 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33847030 ACAGCTTAAC
*
33847040 TGCTAATAGACTTAGTAAT
1 TGCTAACAGACTTAGTAAT
33847059 TGCTAACAGACTTAGTAA
1 TGCTAACAGACTTAGTAA
33847077 CAACTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
TGCTAACAGACTTAGTAAT
Found at i:33848272 original size:15 final size:17
Alignment explanation
Indices: 33848252--33848288 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
33848242 TTTTTTTCTC
33848252 TAAAAACA-GTTTAT-T
1 TAAAAACACGTTTATCT
*
33848267 TAAAAACACTTTTATCT
1 TAAAAACACGTTTATCT
33848284 TAAAA
1 TAAAA
33848289 GTGTTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAAACACGTTTATCT
Found at i:33853485 original size:146 final size:147
Alignment explanation
Indices: 33853220--33853493 Score: 487
Period size: 146 Copynumber: 1.9 Consensus size: 147
33853210 TTTGGCTGGG
* *
33853220 GGAGAGTGTTAGTATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGTTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
33853285 TGGTCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
33853350 CTCTCTCTCTGGCATGA
131 CTCTCTCTCTGGCATGA
* *
33853367 GGAGAGTGTTAGGATTTTGTTTTTGAGTAATCAGGAACA-TTTCTTTTGTTGTCTAAATGCTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
33853431 TGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
33853494 AGTGGCTAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
146 85 0.70
147 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (147 bp):
GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
CTCTCTCTCTGGCATGA
Found at i:33860463 original size:23 final size:19
Alignment explanation
Indices: 33860395--33860451 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
33860385 TTAAAGTTCC
*
33860395 AAAATAATTTTAATAA-TT-
1 AAAATAA-TTAAATAATTTA
*
33860413 AAATTAATTAAATAATTTA
1 AAAATAATTAAATAATTTA
33860432 AAAATAATTAAATATATTTA
1 AAAATAATTAAATA-ATTTA
33860452 CACAATCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
19 13 0.39
20 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATAATTAAATAATTTA
Found at i:33864991 original size:32 final size:32
Alignment explanation
Indices: 33864955--33865015 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
33864945 AAATAAACAC
33864955 ATAATTATTCATTT-AATA-TTATAAATATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAAATATTCAA
*
33864987 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAAATATT
33865016 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAAATATTCAA
Found at i:33870108 original size:5 final size:5
Alignment explanation
Indices: 33870098--33870263 Score: 118
Period size: 5 Copynumber: 33.2 Consensus size: 5
33870088 AAGTATAACT
* * * *
33870098 TATCA TATCA TAACGA -ATCA TAACA TATCA TATCA TATCA TATCG TATCG
1 TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * * * * * * *
33870148 TATCG TATCG TATCG TATCG TATCG TATCG TATCG TACCG TATCG TATCG
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * *
33870198 TATCG TATCG TATCA TATCA TATCA TATCA TATCG TAACA TAGCA TAGCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
*
33870248 TATCA AATCA TATCA T
1 TATCA TATCA TATCA T
33870264 GTCCTACCCC
Statistics
Matches: 144, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
4 1 0.01
5 142 0.99
6 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (5 bp):
TATCA
Found at i:33870506 original size:7 final size:7
Alignment explanation
Indices: 33870490--33870536 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
33870480 ACATGCATAA
33870490 CATA-AT
1 CATATAT
33870496 CATATAT
1 CATATAT
33870503 CATACT-T
1 CATA-TAT
33870510 ACATATAT
1 -CATATAT
33870518 CATATAT
1 CATATAT
33870525 CATATAT
1 CATATAT
33870532 CATAT
1 CATAT
33870537 GGCATACGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 4 0.11
7 27 0.73
8 6 0.16
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (7 bp):
CATATAT
Found at i:33870613 original size:14 final size:14
Alignment explanation
Indices: 33870594--33870624 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33870584 GTTTTAATTG
*
33870594 TAACATATTATATT
1 TAACATATCATATT
33870608 TAACATATCATATT
1 TAACATATCATATT
33870622 TAA
1 TAA
33870625 TTGTCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
TAACATATCATATT
Found at i:33870858 original size:49 final size:49
Alignment explanation
Indices: 33870767--33870985 Score: 224
Period size: 49 Copynumber: 4.5 Consensus size: 49
33870757 TCACGCGGTC
* * * ** * * *
33870767 TACAAAATCTCACATGGTCGTGTGCTCCACACAATCAAGCCACACGAGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * *
33870816 TATAAAAACACACACGGTTGTGTGCTCCACACAGCCTAGCCACACGTGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* *
33870865 TACAAAAACATACACGGTTGTGTGCTCCACACAGCCTAGCCACACGGGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * * * * * * *
33870914 TGCAAAAACGCACACGGCCGTGTACTCCATATAGCCTAGCCACATGGGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
*
33870963 TGA-AAAAATACACACGGTCGTGT
1 T-ACAAAAACACACACGGTCGTGT
33870986 AGTGCACATG
Statistics
Matches: 142, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
49 142 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (49 bp):
TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
Found at i:33871563 original size:31 final size:31
Alignment explanation
Indices: 33871528--33871587 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
33871518 AAGGCTTCCA
33871528 AAAAAAAAAAGAAAGAACAAGAAAGAGCAAG
1 AAAAAAAAAAGAAAGAACAAGAAAGAGCAAG
* * * *
33871559 AAAAATAAAAGAAATAAGAATAAAGAGCA
1 AAAAAAAAAAGAAAGAACAAGAAAGAGCA
33871588 CAAGAACAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (31 bp):
AAAAAAAAAAGAAAGAACAAGAAAGAGCAAG
Found at i:33872200 original size:27 final size:27
Alignment explanation
Indices: 33872170--33872223 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
33872160 TTCATACTTT
33872170 AATTA-TAAAATAATTAATTTTCAATTA
1 AATTATTAAAATAATTAATTTT-AATTA
* *
33872197 AATTATTAACATATTTAATTTTAATTA
1 AATTATTAAAATAATTAATTTTAATTA
33872224 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTATTAAAATAATTAATTTTAATTA
Found at i:33874107 original size:29 final size:30
Alignment explanation
Indices: 33874046--33874111 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
33874036 AAAATAAACA
* * * *
33874046 TTAGTGACCGATTTGTCATTTTTCTAAATT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
*
33874076 TTAGTGACTGAGTTGTAACTTTT-TAAAGT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
33874105 TTAGTGA
1 TTAGTGA
33874112 TTGTTTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (30 bp):
TTAGTGACCGAGTTGTAACTTTTCTAAAGT
Found at i:33876566 original size:18 final size:18
Alignment explanation
Indices: 33876552--33876607 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
33876542 CACAGTTTGG
33876552 CAAATTAATACAGTTCGC
1 CAAATTAATACAGTTCGC
* ** *
33876570 CATATTAATACAAATCAC
1 CAAATTAATACAGTTCGC
*
33876588 CAAATTAACACAGTTCGC
1 CAAATTAATACAGTTCGC
33876606 CA
1 CA
33876608 TAATAATATA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (18 bp):
CAAATTAATACAGTTCGC
Found at i:33876593 original size:36 final size:36
Alignment explanation
Indices: 33876552--33876639 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
33876542 CACAGTTTGG
* *
33876552 CAAATTAATACAGTTCGCCATATTAATACAAATCAC
1 CAAATTAACACAGTTCGCCATAATAATACAAATCAC
* *
33876588 CAAATTAACACAGTTCGCCATAATAATATAATTCAC
1 CAAATTAACACAGTTCGCCATAATAATACAAATCAC
* *
33876624 CAAGTTAACATAGTTC
1 CAAATTAACACAGTTC
33876640 ACAATATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (36 bp):
CAAATTAACACAGTTCGCCATAATAATACAAATCAC
Found at i:33877579 original size:6 final size:6
Alignment explanation
Indices: 33877568--33877604 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
33877558 GGGATTTTGG
*
33877568 TTTATT TTTA-T TTTA-T TTTATT TTTGTT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
33877605 TTTCTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:33877587 original size:16 final size:17
Alignment explanation
Indices: 33877568--33877607 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
33877558 GGGATTTTGG
33877568 TTTATTTTT-ATTTTAT
1 TTTATTTTTGATTTTAT
*
33877584 TTTATTTTTGTTTTTAT
1 TTTATTTTTGATTTTAT
33877601 TTT-TTTT
1 TTTATTTT
33877608 CTTTTCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTATTTTTGATTTTAT
Found at i:33877600 original size:22 final size:21
Alignment explanation
Indices: 33877572--33877612 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
33877562 TTTTGGTTTA
33877572 TTTTTATTTTATTTTATTTTTG
1 TTTTTATTTT-TTTTATTTTTG
*
33877594 TTTTTATTTTTTTTCTTTT
1 TTTTTATTTTTTTTATTTT
33877613 CTCTCTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTTG
Found at i:33880631 original size:23 final size:22
Alignment explanation
Indices: 33880578--33880631 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
33880568 CCTAACCTAA
*
33880578 AATTATTAATTCTAATTATTCT
1 AATTATTTATTCTAATTATTCT
33880600 AA-TATTTTATT-TAATTAATTTCT
1 AATTA-TTTATTCTAATT-A-TTCT
33880623 AATTATTTA
1 AATTATTTA
33880632 ATTATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 8 0.30
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTATTTATTCTAATTATTCT
Found at i:33880647 original size:32 final size:31
Alignment explanation
Indices: 33880582--33880648 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
33880572 ACCTAAAATT
* * *
33880582 ATTAATTCTAATTATTCTAATATTTTATTTA
1 ATTAATTCTAATTATTCTAATATATAATCTA
33880613 ATTAATTTCTAATTATT-TAATTATATAATCTA
1 ATTAA-TTCTAATTATTCTAA-TATATAATCTA
33880645 ATTA
1 ATTA
33880649 CAGTTTCCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATTCTAATTATTCTAATATATAATCTA
Found at i:33881214 original size:25 final size:25
Alignment explanation
Indices: 33881154--33881218 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
33881144 ATTTAAAACT
* *
33881154 TATATTTACATATAAATATATTTATA
1 TATATATA-ATATAAATATATTTACA
** * *
33881180 TGGATGTAATATAGATATATTTACA
1 TATATATAATATAAATATATTTACA
33881205 TATATATAATATAA
1 TATATATAATATAA
33881219 TTTTTTACCA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (25 bp):
TATATATAATATAAATATATTTACA
Found at i:33881834 original size:23 final size:24
Alignment explanation
Indices: 33881804--33881848 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
33881794 ATTATTTATT
33881804 AAATAATATATT-TTA-TAATTTC
1 AAATAATATATTATTACTAATTTC
33881826 AAATAAATATATTATTACTAATT
1 AAAT-AATATATTATTACTAATT
33881849 GAATAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 3 0.15
25 5 0.25
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATAATATATTATTACTAATTTC
Found at i:33884519 original size:125 final size:125
Alignment explanation
Indices: 33884297--33884584 Score: 495
Period size: 125 Copynumber: 2.3 Consensus size: 125
33884287 ATTTATTAAG
* * * * *
33884297 GAAATCTCTCCCATGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
33884362 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
33884422 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAGTAATTTCGATTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
33884487 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
*
33884547 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
33884585 CATGTTTGGG
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 154 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:33887912 original size:22 final size:21
Alignment explanation
Indices: 33887877--33887988 Score: 83
Period size: 22 Copynumber: 5.4 Consensus size: 21
33887867 TAGGGATTTA
*
33887877 AGAGAAATTAAGAGGAAATTG
1 AGAGAAATTGAGAGGAAATTG
*
33887898 AGAGCAAATTGAGAGCAAATTG
1 AGAG-AAATTGAGAGGAAATTG
* * *
33887920 AGATTAAA-T-A-TGG-ATTTG
1 AGA-GAAATTGAGAGGAAATTG
33887938 AGAGAAATTTG-GAAGGAAATTG
1 AGAGAAA-TTGAG-AGGAAATTG
*
33887960 AGAGCAATTTGAGAGGAAATTG
1 AGAG-AAATTGAGAGGAAATTG
33887982 AGA-AAAT
1 AGAGAAAT
33887989 AATTGAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 21
0.69 0.11 0.21
Matches are distributed among these distances:
17 3 0.04
18 7 0.10
19 2 0.03
20 4 0.06
21 7 0.10
22 44 0.63
23 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.28, T:0.23
Consensus pattern (21 bp):
AGAGAAATTGAGAGGAAATTG
Found at i:33887928 original size:11 final size:11
Alignment explanation
Indices: 33887877--33887922 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
33887867 TAGGGATTTA
*
33887877 AGAG-AAATTA
1 AGAGCAAATTG
*
33887887 AGAGGAAATTG
1 AGAGCAAATTG
33887898 AGAGCAAATTG
1 AGAGCAAATTG
33887909 AGAGCAAATTG
1 AGAGCAAATTG
33887920 AGA
1 AGA
33887923 TTAAATATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
10 4 0.12
11 29 0.88
ACGTcount: A:0.50, C:0.04, G:0.28, T:0.17
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:33887972 original size:62 final size:61
Alignment explanation
Indices: 33887864--33887984 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 61
33887854 AAATAATTAA
33887864 AAATAGGGATTTAAGAGAAATTAAGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTAAGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
* * ** * *
33887925 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTAAG-AGGAAATTGAGAGCAAATTGAGAGCAAATTGAGA
33887985 AAATAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 21 0.40
62 32 0.60
ACGTcount: A:0.45, C:0.02, G:0.28, T:0.24
Consensus pattern (61 bp):
AAATAGGGATTTAAGAGAAATTAAGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
Found at i:33889560 original size:17 final size:16
Alignment explanation
Indices: 33889537--33889580 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
33889527 AATAAGAGGA
33889537 TATTTTTAATTGAATAGT
1 TATTTTTAATTG--TAGT
*
33889555 TA-TTTTAACTGTAGT
1 TATTTTTAATTGTAGT
33889570 TATTTTTAATT
1 TATTTTTAATT
33889581 TCTAGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.26
16 7 0.30
17 8 0.35
18 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (16 bp):
TATTTTTAATTGTAGT
Found at i:33891509 original size:66 final size:66
Alignment explanation
Indices: 33891403--33891599 Score: 322
Period size: 66 Copynumber: 3.0 Consensus size: 66
33891393 CAAACAAAGA
* * * * *
33891403 CTATTCAAGTGTCACGGTTGGCGACCAAGAATGGAGGTCCTTATTACAAGGAGCTGAAGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
33891468 G
66 G
*
33891469 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTGCAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
33891534 G
66 G
* *
33891535 CTATTCAAGTTTCACAGTCGGTGACCAAGAATGGAGGTTCTTATTACAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
33891600 AACAAGACAT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.24
Consensus pattern (66 bp):
CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
G
Found at i:33893710 original size:87 final size:87
Alignment explanation
Indices: 33893518--33893772 Score: 377
Period size: 87 Copynumber: 2.9 Consensus size: 87
33893508 AAATTTAAAT
* *
33893518 TCGGTGAATTCATCAAGTTCGTCTCACTAGGACCACCCAAACTCTGGGATATGAACTCAATTAAG
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTC-ATTAAG
33893583 AGTAATAAACTCAACCTCACATG
65 AGTAATAAACTCAACCTCACATG
** * * * *
33893606 TTAGTGAATTCATCAAGTCCATCGCAATAGGACCACCCAAACTCTAGGATATAAACTCATTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
33893671 GTAATAAACTCAACCTCACATG
66 GTAATAAACTCAACCTCACATG
* * * *
33893693 TCGGTGAATTCATCAAGTCCGTCTTAATAGGACCACCCAAACTCTGGGCTATGAATTAATTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
*
33893758 GTAA-GAACTCAACCT
66 GTAATAAACTCAACCT
33893773 TATGCATGTA
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 10 0.07
87 88 0.59
88 50 0.34
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (87 bp):
TCGGTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGATATGAACTCATTAAGA
GTAATAAACTCAACCTCACATG
Found at i:33898730 original size:41 final size:40
Alignment explanation
Indices: 33898685--33898780 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
33898675 ACCGGCTTTT
* *
33898685 AGCCTGCTAGACTTAA-AGTCTAAATAATTTCACTGGCATTA
1 AGCCTGCTAGAC--AAGAGTCTAAATAATATCACTGGCATCA
* *
33898726 AGCCTGTTAGACAATGAGTCTAAATTATATCACTGGCATCA
1 AGCCTGCTAGACAA-GAGTCTAAATAATATCACTGGCATCA
*
33898767 AGCCTACTAGACAA
1 AGCCTGCTAGACAA
33898781 TAAATCTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.04
41 45 0.96
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (40 bp):
AGCCTGCTAGACAAGAGTCTAAATAATATCACTGGCATCA
Found at i:33898781 original size:41 final size:41
Alignment explanation
Indices: 33898701--33898781 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
33898691 CTAGACTTAA
* * **
33898701 AGTCTAAATAATTTCACTGGCATTAAGCCTGTTAGACAATG
1 AGTCTAAATAATATCACTGGCATCAAGCCTACTAGACAATG
*
33898742 AGTCTAAATTATATCACTGGCATCAAGCCTACTAGACAAT
1 AGTCTAAATAATATCACTGGCATCAAGCCTACTAGACAAT
33898782 AAATCTGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (41 bp):
AGTCTAAATAATATCACTGGCATCAAGCCTACTAGACAATG
Found at i:33898793 original size:41 final size:41
Alignment explanation
Indices: 33898685--33898793 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 41
33898675 ACCGGCTTTT
* * * * *
33898685 AGCCTGCTAGAC-TTAAAGTCTAAATAATTTCACTGGCATTA
1 AGCCTACTAGACAATAAA-TCTAAATTATATCACTGGCATCA
** * *
33898726 AGCCTGTTAGACAATGAGTCTAAATTATATCACTGGCATCA
1 AGCCTACTAGACAATAAATCTAAATTATATCACTGGCATCA
*
33898767 AGCCTACTAGACAATAAATCTGAATTA
1 AGCCTACTAGACAATAAATCTAAATTA
33898794 CATTCGATCA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 53 0.96
42 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (41 bp):
AGCCTACTAGACAATAAATCTAAATTATATCACTGGCATCA
Found at i:33903139 original size:12 final size:12
Alignment explanation
Indices: 33903122--33903153 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
33903112 GGTTGTTAGC
33903122 CATGTGACTTAA
1 CATGTGACTTAA
33903134 CATGTGACTTAA
1 CATGTGACTTAA
33903146 CATGTGAC
1 CATGTGAC
33903154 CTCTAACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (12 bp):
CATGTGACTTAA
Found at i:33904383 original size:23 final size:22
Alignment explanation
Indices: 33904340--33904386 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
33904330 TATAAAATCA
33904340 AATAAAAAATATATAATTATAT
1 AATAAAAAATATATAATTATAT
33904362 AAT-AAAAATATAT-ATTAATAT
1 AATAAAAAATATATAATT-ATAT
33904383 AATA
1 AATA
33904387 TTTATTAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAAATATATAATTATAT
Found at i:33905233 original size:20 final size:20
Alignment explanation
Indices: 33905204--33905247 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
33905194 CTACATATTG
*
33905204 GTATCGATACTTAAGGAGAA
1 GTATCAATACTTAAGGAGAA
*
33905224 GTATCAATACTTAGGGAGAA
1 GTATCAATACTTAAGGAGAA
33905244 GTAT
1 GTAT
33905248 TGGTACCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (20 bp):
GTATCAATACTTAAGGAGAA
Found at i:33906865 original size:17 final size:17
Alignment explanation
Indices: 33906833--33906870 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
33906823 AAATGAAACA
*
33906833 AAAATGAAATAAGAGATT
1 AAAATCAAATAAGAGA-T
33906851 AAAATCAAA-AAGAGAT
1 AAAATCAAATAAGAGAT
33906867 AAAA
1 AAAA
33906871 GAACTGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (17 bp):
AAAATCAAATAAGAGAT
Found at i:33908536 original size:175 final size:173
Alignment explanation
Indices: 33908331--33908835 Score: 713
Period size: 175 Copynumber: 2.9 Consensus size: 173
33908321 ATCTACTTTG
* * * *
33908331 CTACTGCTTAGGGAGACAAGATCTGCTATCTTCAATCTGCTTCACTTCAACCGATGGAGGCAAGG
1 CTACTGCTTAGGGAGGCAAGATCCGCTATCTT-AA-CTGCTCCACTTCAACCGAGGGAGGCAAGG
* * * * * *
33908396 CTTGTGTCTTCGATCCGCTTCGCTGTCAGAGCAGGAAGGCAATATCTGCTATCTTCAGCCTGCTC
64 CTAGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
* *
33908461 CACTACAACCGAGTGAGGCAAGGCTGGTATCTTTGATCTGCTCCA
129 CACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
* * *
33908506 CTACTGCTTAGGGCGGCAAGATCCGCTATCTGTAACCTGCTCCACTGCAACCGAGGGAGGCAAGA
1 CTACTGCTTAGGGAGGCAAGATCCGCTATCT-TAA-CTGCTCCACTTCAACCGAGGGAGGCAAGG
* * * *
33908571 CTGGTACCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTTAATCTGCTC
64 CTAGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
* *
33908636 CACTGCAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
129 CACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
33908681 CTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACTTGCTCCACTTCAACCGAGGGAGGCAAGG
1 CTACTGCTTAGGGAGGCAAGATCCGCTATC-TTAAC-TGCTCCACTTCAACCGAGGGAGGCAAGG
* * * * * *
33908746 CTAGTATCTTTGATCTTCTTCGTTGTAAGCGTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
64 CTAGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTC
33908811 CACTACAACCGAGGGAGGCAAGGCT
129 CACTACAACCGAGGGAGGCAAGGCT
33908836 TTGTTTTCGA
Statistics
Matches: 292, Mismatches: 35, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
174 1 0.00
175 289 0.99
176 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (173 bp):
CTACTGCTTAGGGAGGCAAGATCCGCTATCTTAACTGCTCCACTTCAACCGAGGGAGGCAAGGCT
AGTATCTTCGATCTGCTTCGCTGTCAGAGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCA
CTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTCCA
Found at i:33908568 original size:44 final size:44
Alignment explanation
Indices: 33908340--33908832 Score: 268
Period size: 44 Copynumber: 11.2 Consensus size: 44
33908330 GCTACTGCTT
* * * *
33908340 AGGGAGACAAGATCTGCTATCTTCAATCTGCTTCACTTCAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * * ** * * * *
33908384 ATGGAGGCAAG-GCTTG-TGTCTTCGATCCGCTTCGCTGTCAGAGC-
1 AGGGAGGCAAGATC-TGCTATCTTTAATCTGCTCCACTG-CA-ACCG
* * * ** *
33908428 AGGAAGGCAATATCTGCTATCTTCAGCCTGCTCCACTACAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * * * * ** **
33908472 AGTGAGGCAAG-GCTGGTATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * * *
33908515 AGGGCGGCAAGATCCGCTATCTGTAACCTGCTCCACTGCAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * ** * * **
33908559 AGGGAGGCAAGA-CTGGTACCTTCGATCTGCTTCGCTGTC-AGTG
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTG-CAACCG
* *
33908602 CAGGAAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCT
1 -AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* * ** * ** **
33908647 AGGGAGGCAAG-GCTGGTATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
* *
33908690 AGGGAGGCAAGATCCGCTATCTTTAA-CTTGCTCCACTTCAACCG
1 AGGGAGGCAAGATCTGCTATCTTTAATC-TGCTCCACTGCAACCG
* * * * ** * *
33908734 AGGGAGGCAAG-GCTAG-TATCTTTGATCTTCTTCGTTGTAAGCG
1 AGGGAGGCAAGATCT-GCTATCTTTAATCTGCTCCACTGCAACCG
* * *
33908777 TAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACCG
1 -AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
33908822 AGGGAGGCAAG
1 AGGGAGGCAAG
33908833 GCTTTGTTTT
Statistics
Matches: 320, Mismatches: 111, Indels: 36
0.69 0.24 0.08
Matches are distributed among these distances:
43 122 0.38
44 142 0.44
45 56 0.17
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGGAGGCAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCG
Found at i:33908643 original size:88 final size:87
Alignment explanation
Indices: 33908347--33908835 Score: 527
Period size: 88 Copynumber: 5.6 Consensus size: 87
33908337 CTTAGGGAGA
* * * * * * * *
33908347 CAAGATCTGCTATCTTCAATCTGCTTCACTTCAACCGATGGAGGCAAGGCTTGTGTCTTCGATCC
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
*
33908412 GCTTCGCTGTCAGAGCAGGAAGG
66 GCTTCGCTGT-AGTGCAGGAAGG
* * * * *
33908435 CAATATCTGCTATCTTCAGCCTGCTCCACTACAACCGAGTGAGGCAAGGCTGGTATCTTTGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
** * **
33908500 GC-TC-CACTACTGCTTAGGGCGG
66 GCTTCGCTGTAGTGC--AGGAAGG
* * * * *
33908522 CAAGATCCGCTATCTGTAACCTGCTCCACTGCAACCGAGGGAGGCAAGACTGGTACCTTCGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
33908587 GCTTCGCTGTCAGTGCAGGAAGG
66 GCTTCGCTGT-AGTGCAGGAAGG
* * *
33908610 CAAGATCTGCTATCTTTAATCTGCTCCACTGCAACCTAGGGAGGCAAGGCTGGTATCTTCGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
** * *
33908675 GC-TC-CACTACTGCTTAGGGAGG
66 GCTTCGCTGTAGTGC--AGGAAGG
* * * * *
33908697 CAAGATCCGCTATCTTTAACTTGCTCCACTTCAACCGAGGGAGGCAAGGCTAGTATCTTTGATCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * *
33908762 TCTTCGTTGTAAGCGTAGGAAGG
66 GCTTCGCTGT-AGTGCAGGAAGG
33908785 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCT
1 CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCT
33908836 TTGTTTTCGA
Statistics
Matches: 331, Mismatches: 60, Indels: 20
0.81 0.15 0.05
Matches are distributed among these distances:
85 7 0.02
86 4 0.01
87 131 0.40
88 180 0.54
89 3 0.01
90 6 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (87 bp):
CAAGATCTGCTATCTTTAACCTGCTCCACTACAACCGAGGGAGGCAAGGCTGGTATCTTCGATCT
GCTTCGCTGTAGTGCAGGAAGG
Found at i:33910116 original size:21 final size:21
Alignment explanation
Indices: 33910095--33910147 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
33910085 ACCTCTCCAT
33910095 TTTTCCTTTTTC-CTTTTTCA
1 TTTTCCTTTTTCACTTTTTCA
* *
33910115 TTTTCCATTTTCATTTTTTCA
1 TTTTCCTTTTTCACTTTTTCA
*
33910136 CTTTTCGTTTTT
1 -TTTTCCTTTTT
33910148 TTTCTTTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
21 7 0.26
22 9 0.33
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTCCTTTTTCACTTTTTCA
Found at i:33910118 original size:13 final size:13
Alignment explanation
Indices: 33910102--33910131 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33910092 CATTTTTCCT
*
33910102 TTTTCCTTTTTCA
1 TTTTCCATTTTCA
33910115 TTTTCCATTTTCA
1 TTTTCCATTTTCA
33910128 TTTT
1 TTTT
33910132 TTCACTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:33911108 original size:35 final size:35
Alignment explanation
Indices: 33911057--33911124 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
33911047 TTATTGATTT
33911057 TTCTTTTTTCGCTTTTGACTTTGATTTTTCTTTTTC
1 TTCTTTTTTCGCTTTTGACTTTGATTTTT-TTTTTC
* **
33911093 TTCTTTTTT-GTTTTTGTTTTTGATTTTTTTTT
1 TTCTTTTTTCGCTTTTGACTTTGATTTTTTTTT
33911125 ATTGAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.14
35 16 0.55
36 9 0.31
ACGTcount: A:0.04, C:0.10, G:0.09, T:0.76
Consensus pattern (35 bp):
TTCTTTTTTCGCTTTTGACTTTGATTTTTTTTTTC
Found at i:33913668 original size:34 final size:34
Alignment explanation
Indices: 33913626--33913690 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
33913616 TACTTGTAAC
33913626 CGCTCTTGCATATCCTTTTGCATTTGCTCCAATT
1 CGCTCTTGCATATCCTTTTGCATTTGCTCCAATT
*
33913660 CGCTCTTGCATATCCTTTTGTATTTGCTCCA
1 CGCTCTTGCATATCCTTTTGCATTTGCTCCA
33913691 GTTTCTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.14, C:0.29, G:0.12, T:0.45
Consensus pattern (34 bp):
CGCTCTTGCATATCCTTTTGCATTTGCTCCAATT
Found at i:33916116 original size:61 final size:61
Alignment explanation
Indices: 33916041--33916164 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
33916031 TTTTAAAACA
33916041 AATGTATAGTAATAAGTCAAAAATGATAATACCATGAATTTATAAATAACAAATAACACAT
1 AATGTATAGTAATAAGTCAAAAATGATAATACCATGAATTTATAAATAACAAATAACACAT
* *
33916102 AATGTATAGTAATAAGTCAAAAATGATAATACCATGAATTTATAAATAATAAATAAGACAT
1 AATGTATAGTAATAAGTCAAAAATGATAATACCATGAATTTATAAATAACAAATAACACAT
33916163 AA
1 AA
33916165 ATAAAACACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (61 bp):
AATGTATAGTAATAAGTCAAAAATGATAATACCATGAATTTATAAATAACAAATAACACAT
Found at i:33916273 original size:16 final size:15
Alignment explanation
Indices: 33916245--33916280 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
33916235 AACAATATGA
33916245 AATAATAGGAATAAT
1 AATAATAGGAATAAT
*
33916260 AATAATAGCTAATAAT
1 AATAATAG-GAATAAT
33916276 AATAA
1 AATAA
33916281 AAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (15 bp):
AATAATAGGAATAAT
Found at i:33916285 original size:28 final size:26
Alignment explanation
Indices: 33916245--33916299 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
33916235 AACAATATGA
**
33916245 AATAATAGGAATAATAATAATAGCTAAT
1 AATAATAAAAATAATAATAA-A-CTAAT
*
33916273 AATAATAAAAATATTAATAAACTAAT
1 AATAATAAAAATAATAATAAACTAAT
33916299 A
1 A
33916300 CTAAACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
AATAATAAAAATAATAATAAACTAAT
Found at i:33916781 original size:11 final size:11
Alignment explanation
Indices: 33916752--33916790 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
33916742 TTTCAAAACG
*
33916752 AAAACGAAA-A
1 AAAACAAAATA
*
33916762 AAAATAAAATA
1 AAAACAAAATA
33916773 AAAACAAAATA
1 AAAACAAAATA
33916784 AAAACAA
1 AAAACAA
33916791 GAACCCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.82, C:0.08, G:0.03, T:0.08
Consensus pattern (11 bp):
AAAACAAAATA
Found at i:33930354 original size:33 final size:32
Alignment explanation
Indices: 33930255--33930360 Score: 142
Period size: 32 Copynumber: 3.3 Consensus size: 32
33930245 TAAAGGAATA
* **
33930255 TTGTTATCATTTAACAAAATGCTAGTTGATAT
1 TTGTTATCATTTTACAAAATGAAAGTTGATAT
*
33930287 TTGTTATCATTTTACAAAATTAAAGTTGCA-AT
1 TTGTTATCATTTTACAAAATGAAAGTTG-ATAT
*
33930319 TTGTTATCTTTTTACAAAATGAAAAGTTGATAT
1 TTGTTATCATTTTACAAAATG-AAAGTTGATAT
33930352 TTGTTATCA
1 TTGTTATCA
33930361 GTTAATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
32 46 0.72
33 18 0.28
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.45
Consensus pattern (32 bp):
TTGTTATCATTTTACAAAATGAAAGTTGATAT
Found at i:33931307 original size:18 final size:17
Alignment explanation
Indices: 33931286--33931319 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33931276 TGAATATAAA
33931286 AAACAAAAGGAATATTAC
1 AAACAAAA-GAATATTAC
*
33931304 AAACCAAAGAATATTA
1 AAACAAAAGAATATTA
33931320 GTGGCGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (17 bp):
AAACAAAAGAATATTAC
Found at i:33931317 original size:17 final size:17
Alignment explanation
Indices: 33931271--33931319 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
33931261 GCAATTTCAT
* *
33931271 ACCAATGAATATAAAAA
1 ACCAAAGAATATTAAAA
* *
33931288 ACAAAAGGAATATTACAA
1 ACCAAA-GAATATTAAAA
33931306 ACCAAAGAATATTA
1 ACCAAAGAATATTA
33931320 GTGGCGATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.18
Consensus pattern (17 bp):
ACCAAAGAATATTAAAA
Found at i:33939130 original size:8 final size:8
Alignment explanation
Indices: 33939114--33939163 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
33939104 TTTATCAATT
33939114 TAAAA-CC
1 TAAAACCC
33939121 TAAAACCC
1 TAAAACCC
*
33939129 T-AAACCT
1 TAAAACCC
33939136 TAAAACCC
1 TAAAACCC
**
33939144 TAAAAAAC
1 TAAAACCC
33939152 TAGAAACCC
1 TA-AAACCC
33939161 TAA
1 TAA
33939164 TATAACAGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 11 0.32
8 17 0.50
9 6 0.18
ACGTcount: A:0.54, C:0.28, G:0.02, T:0.16
Consensus pattern (8 bp):
TAAAACCC
Found at i:33939139 original size:15 final size:14
Alignment explanation
Indices: 33939116--33939147 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
33939106 TATCAATTTA
33939116 AAACCTAAAACCCT
1 AAACCTAAAACCCT
33939130 AAACCTTAAAACCCT
1 AAACC-TAAAACCCT
33939145 AAA
1 AAA
33939148 AAACTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCTAAAACCCT
Found at i:33940729 original size:3 final size:3
Alignment explanation
Indices: 33940721--33940777 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
33940711 TATCACTATT
* *
33940721 ATA ATA ATA A-A AT- ATA ATA ATA ACA ATA ACA ATA ATA ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33940765 ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA ATA
33940778 TTATAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.27
3 32 0.73
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:33947644 original size:9 final size:10
Alignment explanation
Indices: 33947624--33947653 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
33947614 AATTATTTTG
33947624 TATTTGGTTT
1 TATTTGGTTT
33947634 TATTT-GTTT
1 TATTTGGTTT
33947643 TATTTGGTTT
1 TATTTGGTTT
33947653 T
1 T
33947654 GGCATTGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (10 bp):
TATTTGGTTT
Found at i:33948108 original size:44 final size:44
Alignment explanation
Indices: 33948050--33948252 Score: 187
Period size: 45 Copynumber: 4.6 Consensus size: 44
33948040 TTTTTAATCC
* * *
33948050 GCTCCACTACAACTTTAGGGAGATGGGATTAGTAGTTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAGTCT
* * * *
33948094 GCTTCACTGCAACTTCAGGGAGATAAGACTCGCTA-TCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGT-TTCAGTCT
* * *
33948139 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT-AATCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG-TTTCAGTCT
* * * *
33948183 GCTCCAGTGCAACTTCAGGGAGATAAGATTCGCCA-TCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGT-TTCAGTCT
* * *
33948228 GCCCCACTGTAACTTCAGGGGGATA
1 GCTCCACTGCAACTTCAGGGAGATA
33948253 AAACTTGTTT
Statistics
Matches: 127, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.01
44 61 0.48
45 64 0.50
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAGTCT
Found at i:33948201 original size:89 final size:89
Alignment explanation
Indices: 33948050--33948252 Score: 273
Period size: 89 Copynumber: 2.3 Consensus size: 89
33948040 TTTTTAATCC
* * * * *
33948050 GCTCCACTACAACTTTAGGGAGATGGGATTAGTAGTTTCAGTCTGCTTCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAATCTGCTCCACTGCAACTTCAGGGA
*
33948115 GATAAGACTCGCTATCTTCAGTCT
66 GATAAGACTCGCCATCTTCAGTCT
* * *
33948139 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT-AATCTGCTCCAGTGCAACTTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG-TTTCAATCTGCTCCACTGCAACTTCAGGG
*
33948203 AGATAAGATTCGCCATCTTCAGTCT
65 AGATAAGACTCGCCATCTTCAGTCT
* * *
33948228 GCCCCACTGTAACTTCAGGGGGATA
1 GCTCCACTGCAACTTCAGGGAGATA
33948253 AAACTTGTTT
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 97 0.97
90 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (89 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGTTTCAATCTGCTCCACTGCAACTTCAGGGA
GATAAGACTCGCCATCTTCAGTCT
Found at i:33948304 original size:45 final size:45
Alignment explanation
Indices: 33948086--33948341 Score: 227
Period size: 45 Copynumber: 5.8 Consensus size: 45
33948076 GATTAGTAGT
* *
33948086 TTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTCGCTATC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* ** **
33948131 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTATTGGC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * *
33948175 TTTAATCTGCTCCAGTGCAACTTCAGGGAGATAAGA-TTCGCCATC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTATC
* * * * * *
33948220 TTCAGTCTGCCCCACTGTAACTTCAGGGGGATAAAACTTGTTTTC
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * *
33948265 TTCAGTCTGCTCCCCTTCATCTTTAGGGAGATAAGACTTG--AT-
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * **
33948307 ATGA-TCTGCTCTACTGCAACTTCAAAGAGATAAGA
1 TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
33948342 TTGGTAATTT
Statistics
Matches: 165, Mismatches: 44, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
41 24 0.15
42 2 0.01
43 1 0.01
44 37 0.22
45 99 0.60
46 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (45 bp):
TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
Found at i:33948502 original size:50 final size:50
Alignment explanation
Indices: 33948427--33948992 Score: 393
Period size: 50 Copynumber: 11.3 Consensus size: 50
33948417 TGCAATGTCG
* * * *
33948427 GGGAAGTAAGATTTGCTATTGTAGCTTCAATCTGTTCCACTACGCTGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * ** * *
33948477 GGGAAGTAAAATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
33948527 GGGAGGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTACCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * * ** * * *
33948577 GGGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
33948627 GGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * * * ** * * *
33948677 GGGAAGTAAGATTCACCGTTGTGGCTTCAATATTTTTAATTGCAATGTCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * ** * * ** * * * *
33948727 AGGAAGCAAGATTTGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * * *
33948777 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCAGTGCACCGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * ** * * *
33948827 GGGAAGTAAGATTCG-TCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * ** * * *
33948876 GGGAAGCAAGATTCGCCGTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGATTCG-C-T--GTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
33948929 GGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGCCA
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACT-GCCA
*
33948980 GAGAAGTAAGATT
1 GGGAAGTAAGATT
33948993 TGCCATTTTG
Statistics
Matches: 412, Mismatches: 96, Indels: 16
0.79 0.18 0.03
Matches are distributed among these distances:
49 16 0.04
50 345 0.84
51 2 0.00
52 1 0.00
53 37 0.09
54 11 0.03
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
Found at i:33948551 original size:100 final size:100
Alignment explanation
Indices: 33948412--33949024 Score: 615
Period size: 100 Copynumber: 6.1 Consensus size: 100
33948402 TTTAGTCTAA
* * * * * *
33948412 TTAACTGCAATGTCGGGGAAGTAAGATTTGCTATTGTAGCTTCAATCTGTTCCACTACGCTGCCA
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
33948477 GGGAAGTAAAATTCGCTGTTGTAGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* *
33948512 TTAACTGCAATGTCAGGGAGGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTACCA
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
*
33948577 GGGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * *
33948612 TTAACTGCAATGTCGGGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* *
33948677 GGGAAGTAAGATTCACCGTTGTGGCTTCAATATTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * ** * * ** * * * *
33948712 TTAATTGCAATGTCAAGGAAGCAAGATTTGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * * *
33948777 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTAT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
** * ** * * * ** * * *
33948812 TCCAGTGCACCG-CTAGGGAAGTAAGATTCG-TCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 TTAACTGCAATGTC-AGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTGTTCCACTGCACTGC
*
33948875 C-GGGAAGCAAGATTCGCCGTCCGTTGTGGCTTCAATCTTT
64 CAGGGAAGTAAGATT---CG-CCGTTGTGGCTTCAATCTTT
* * *
33948915 TTAATTGCAATGTC-GGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGC
1 TTAACTGCAATGTCAGGG-AAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACT-GC
* * * *
33948978 CAGAGAAGTAAGATTTGCCATTTTGGCTTCAATCTTT
64 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
*
33949015 TTAATTGCAA
1 TTAACTGCAA
33949025 CCTCAGGGGT
Statistics
Matches: 430, Mismatches: 72, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
99 14 0.03
100 339 0.79
101 1 0.00
102 6 0.01
103 58 0.13
104 12 0.03
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
TTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCA
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
Found at i:33948645 original size:150 final size:149
Alignment explanation
Indices: 33948477--33949024 Score: 650
Period size: 150 Copynumber: 3.6 Consensus size: 149
33948467 TACGCTGCCA
* * * ** ** * *
33948477 GGGAAGTAAAATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCAGGGAGGCAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCG-CAGGGAAGTAAGATTCG
* * ** * * ** * *
33948542 CTGTTGTAGCTTCAATCTGTTCCACTGCACTACCAGGGAGGTAAGATTCGCCGTTGTGGCTTCAA
65 CTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
*
33948607 TCTTTTTAACTGCAATGTCG
130 TCTTTTTAATTGCAATGTCG
* * *
33948627 GGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCA
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCG-CAGGGAAGTAAGATTCG
* * * * *
33948692 CCGTTGTGGCTTCAATATTTTTAATTGCAATGTCAAGGAAGCAAGATTTGCCATTGTGGCTTCAA
65 CTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
33948757 TCTTTTTAATTGCAATGTCG
130 TCTTTTTAATTGCAATGTCG
*
33948777 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCAGTGCACCGCTAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGC-AGGGAAGTAAGATTCG
33948842 -TCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-GGGAAGCAAGATTCGCCGTCCGTTGTGGC
65 CT-GTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATT---CG-CCGTTGTGGC
33948905 TTCAATCTTTTTAATTGCAATGTCG
125 TTCAATCTTTTTAATTGCAATGTCG
* * * * * * *
33948930 GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGAGAAGTAAGATTTG
1 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCG-CAGGGAAGTAAGATTCG
** *
33948995 CCATTTTGGCTTCAATCTTTTTAATTGCAA
65 CTGTTGTGGCTTCAATCTTTTTAATTGCAA
33949025 CCTCAGGGGT
Statistics
Matches: 342, Mismatches: 48, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
149 13 0.04
150 212 0.62
152 1 0.00
153 115 0.34
154 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (149 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCGCAGGGAAGTAAGATTCGC
TGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAAT
CTTTTTAATTGCAATGTCG
Found at i:33953152 original size:23 final size:24
Alignment explanation
Indices: 33953110--33953166 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
33953100 GGGCTCTTTC
*
33953110 ATGAAATTTAATGCAAATG-ATGCA
1 ATGAAATGT-ATGCAAATGAATGCA
* *
33953134 ATGAAATGTATGCAGATGAATGGA
1 ATGAAATGTATGCAAATGAATGCA
33953158 ATG-AATGTA
1 ATGAAATGTA
33953167 AAAAGAGACG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (24 bp):
ATGAAATGTATGCAAATGAATGCA
Found at i:33956625 original size:21 final size:21
Alignment explanation
Indices: 33956560--33956626 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
33956550 AAATTGGGCC
*
33956560 ATTAAAATATTATTTTTAATT
1 ATTAAAATATTATTTTTTATT
* * *
33956581 TTTTAATTA-TATTTATTT-TT
1 ATTAAAATATTATTT-TTTATT
*
33956601 ATTAAAATATTATTTTTTATA
1 ATTAAAATATTATTTTTTATT
33956622 ATTAA
1 ATTAA
33956627 TGTAGCCTCA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 16 0.46
21 19 0.54
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTAAAATATTATTTTTTATT
Found at i:33963925 original size:21 final size:20
Alignment explanation
Indices: 33963892--33963930 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33963882 AAATTTTCAG
* *
33963892 AAATTTTATGATTTTTTTAA
1 AAATTTTAAGATTATTTTAA
33963912 AAATTATTAAGATTATTTT
1 AAATT-TTAAGATTATTTT
33963931 CCATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
AAATTTTAAGATTATTTTAA
Found at i:33965704 original size:29 final size:28
Alignment explanation
Indices: 33965671--33965727 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
33965661 ATGTTAGAAA
33965671 AAACAGAGTTGAAAATGGAAAAAATGTAT
1 AAACAGAGTTGAAAATGG-AAAAATGTAT
*
33965700 AAACAGCGTTGAAAATGGAAAAATGTAT
1 AAACAGAGTTGAAAATGGAAAAATGTAT
33965728 GTATAATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (28 bp):
AAACAGAGTTGAAAATGGAAAAATGTAT
Found at i:33971922 original size:234 final size:234
Alignment explanation
Indices: 33971489--33972164 Score: 1149
Period size: 234 Copynumber: 2.9 Consensus size: 234
33971479 TCGATGTAAA
* * *
33971489 TTTAGTTTGACCGTTGGATTTG-GGGAGCTCAACTATAAATAGAGAGCCTCCGCCTTAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
* *
33971553 ATCATTCATTGTTTCTGTATTCTTTAAGAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
33971618 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
131 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
33971683 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
* *
33971722 TTTAGTTTGACTGTTGAATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
33971787 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
66 ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
33971852 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
131 CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
* *
33971917 TATATAAATTGGTTTGGATGTTTTTGTTTTTAAGCATTC
196 TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
*
33971956 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAATTAGAGAGCCTCCCCCTCAGTTGTAA
1 TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
* *
33972021 ATCA-TCTATTGTTTCTGTATTCTTTGATAAAGTGAAAACAATTGAGAGCATTTAATCAAACACC
66 ATCATTC-ATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACC
* * * * * *
33972085 TCTCGTGCATAGTTTTTTATCGTTATTCTGTTCTTTAAGCATTCTTTTATCTTTGTGTTGCTTTC
130 TCTCGTGCATAG-TTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTC
*
33972150 ACTATATAAATTGGT
194 GCTATATAAATTGGT
33972165 GCCTTGGAGG
Statistics
Matches: 419, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
233 22 0.05
234 337 0.80
235 60 0.14
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (234 bp):
TTTAGTTTGACCGTTGGATTTGAGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCAGTTGTAA
ATCATTCATTGTTTCTGTATTCTTTGATAAAGTGAATACAATTGAGAGCATTTACTCAAACACCT
CTCGTGCATAGTTTTTATGGCTATTCTGTTATCTAAGCATTATTTTGTCTTTGTGTTGCTTTCGC
TATATAAATTGGTTTGAATGCTTTTGTTTTTAAGCATTC
Found at i:33976325 original size:6 final size:6
Alignment explanation
Indices: 33976317--33976351 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
33976307 AAAAAAAACC
*
33976317 TCAAAC TCAAAA TCAAAA TCAAAA TCAAAA TCAAA
1 TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA TCAAA
33976352 TGTTCTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (6 bp):
TCAAAA
Found at i:33989555 original size:33 final size:33
Alignment explanation
Indices: 33989483--33989546 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
33989473 AAACTCCTTC
33989483 CCCT-TAAGGCTCTTAGCCTTTTGTTTCTTTTT
1 CCCTCTAAGGCTCTTAGCCTTTTGTTTCTTTTT
*
33989515 CCCTCTAAGGCTTTTAGCCTTTTGTTTCTTTT
1 CCCTCTAAGGCTCTTAGCCTTTTGTTTCTTTT
33989547 CCTTTCTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (33 bp):
CCCTCTAAGGCTCTTAGCCTTTTGTTTCTTTTT
Found at i:33994610 original size:33 final size:32
Alignment explanation
Indices: 33994565--33994725 Score: 126
Period size: 33 Copynumber: 4.8 Consensus size: 32
33994555 ACATTCGTAG
*
33994565 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGTTATGGTCTTA-CATCAGAA
* * *
33994598 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGTTATGGTCTTACAT-CAGA-A
* * *** * *
33994632 CTGCCATTGTCCAACCATGGTCTTACATTCATAG
1 -TGCCATAGCCCAGTTATGGTCTTACA-TCAGAA
* * *
33994666 TGTCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGTTATGGTCTTA-CATCAGAA
33994699 TGCCATAGCCCAGCTT-TGGTCTTACAT
1 TGCCATAGCCCAG-TTATGGTCTTACAT
33994726 ATAAACACTG
Statistics
Matches: 100, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
32 6 0.06
33 64 0.64
34 5 0.05
35 24 0.24
36 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAGTTATGGTCTTACATCAGAA
Found at i:33994728 original size:101 final size:101
Alignment explanation
Indices: 33994553--33994792 Score: 399
Period size: 101 Copynumber: 2.4 Consensus size: 101
33994543 AATTCATCCT
* * *
33994553 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
33994618 CTTACATATAAACACTGCCATTGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
*
33994654 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTTTGGT
1 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
33994719 CTTACATATAAACACTGCCATGGTCCAGCCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
** *
33994755 TTATGTTCATAGTGTCATAACCCATTTATGGTCTTATC
1 TTACATTCATAGTGTCATAACCCAATTATGGTCTTATC
33994793 CGTCAATTCA
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 130 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACATTCATAGTGTCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:33998881 original size:16 final size:16
Alignment explanation
Indices: 33998851--33998884 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
33998841 CCAACTGCTC
33998851 AAAAATGAAACACAAA
1 AAAAATGAAACACAAA
33998867 AAAAGATGAAA-ACAAA
1 AAAA-ATGAAACACAAA
33998883 AA
1 AA
33998885 TCCAAAGACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.76, C:0.09, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAATGAAACACAAA
Found at i:33999468 original size:13 final size:13
Alignment explanation
Indices: 33999433--33999469 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
33999423 GAGATATTTG
33999433 TAATTTGAAAACT
1 TAATTTGAAAACT
33999446 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
33999460 TAATTTGAAA
1 TAATTTGAAA
33999470 TTTTGGAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:33999479 original size:21 final size:20
Alignment explanation
Indices: 33999450--33999506 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
33999440 AAAACTTAAG
*
33999450 TTTGAAAACTTAATTTGAAAT
1 TTTGAAAACTTAAATT-AAAT
*
33999471 TTTGGAAACTTAAAAATTAAAT
1 TTTGAAAACTT--AAATTAAAT
*
33999493 TTTGTAAACTTAAA
1 TTTGAAAACTTAAA
33999507 AATTTTGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 10 0.32
22 14 0.45
23 4 0.13
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTGAAAACTTAAATTAAAT
Found at i:33999492 original size:22 final size:22
Alignment explanation
Indices: 33999467--33999510 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33999457 ACTTAATTTG
33999467 AAATTTTGGAAACTTAAAAATT
1 AAATTTTGGAAACTTAAAAATT
*
33999489 AAATTTTGTAAACTTAAAAATT
1 AAATTTTGGAAACTTAAAAATT
33999511 TTGAGAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (22 bp):
AAATTTTGGAAACTTAAAAATT
Found at i:33999548 original size:22 final size:22
Alignment explanation
Indices: 33999509--33999551 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33999499 AACTTAAAAA
*
33999509 TTTTGAGAAACTTTGAGAAACT
1 TTTTGAGAAAATTTGAGAAACT
33999531 TTTTG-GAAAATTTGGAGAAAC
1 TTTTGAGAAAATTT-GAGAAAC
33999552 AACTCAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (22 bp):
TTTTGAGAAAATTTGAGAAACT
Found at i:33999792 original size:34 final size:34
Alignment explanation
Indices: 33999748--33999825 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
33999738 TTTTCTTATC
* *
33999748 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATCA
1 TTTTCTTGCAGGGAATATTCCCTGTTCACACAT-A
*
33999783 -TTTCTTGCAGGGAATCTTCCCTGTTCACACATA
1 TTTTCTTGCAGGGAATATTCCCTGTTCACACATA
33999816 TTTTCTTGCA
1 TTTTCTTGCA
33999826 TCATTTCTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (34 bp):
TTTTCTTGCAGGGAATATTCCCTGTTCACACATA
Found at i:34002673 original size:21 final size:23
Alignment explanation
Indices: 34002634--34002679 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
34002624 GAACAAATTG
34002634 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
34002656 TTGA-TCTA-TTCTTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTTGTAT
34002678 TT
1 TT
34002680 CTCTTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.70
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:34011054 original size:21 final size:22
Alignment explanation
Indices: 34011014--34011054 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34011004 ATTAATCATA
*
34011014 AAAAGAAGCAAATCTCTTTTCT
1 AAAAGAAGCAAATATCTTTTCT
*
34011036 AAAAGAAG-AAATATGTTTT
1 AAAAGAAGCAAATATCTTTT
34011055 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (22 bp):
AAAAGAAGCAAATATCTTTTCT
Found at i:34011060 original size:21 final size:22
Alignment explanation
Indices: 34011013--34011060 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
34011003 AATTAATCAT
* *
34011013 AAAAAGAAGCAAATCTCTTTTC
1 AAAAAGAAGCAAATATCTTTTA
* *
34011035 TAAAAGAAG-AAATATGTTTTA
1 AAAAAGAAGCAAATATCTTTTA
34011056 AAAAA
1 AAAAA
34011061 TTAACTGAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAAGAAGCAAATATCTTTTA
Found at i:34011116 original size:20 final size:23
Alignment explanation
Indices: 34011086--34011130 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
34011076 GGAAAAAGAG
34011086 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
34011107 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
34011129 AA
1 AA
34011131 CAATTTGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:34018613 original size:218 final size:218
Alignment explanation
Indices: 34018341--34018744 Score: 684
Period size: 218 Copynumber: 1.9 Consensus size: 218
34018331 TGCACCGCCT
* **
34018341 GGGAAATAAGATTCGCTATCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGACCTGCTTAC
1 GGGAAATAAGATTCGCCATCTTCAATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
* * * *
34018406 TCAGTCTGTTCCGCTGCAACTTTAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCA
66 TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
*
34018471 GAGAGATAAGATCTATAACTTTAATCC-GCTCCACTACTACTTCAGGGAGATAGGATTATCGGCT
131 GAGAGATAAGATCTATAACTTTAA-CCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCT
34018535 TCAATCTGCTCCACTGTAACTTCA
195 TCAATCTGCTCCACTGTAACTTCA
* * *
34018559 GGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
1 GGGAAATAAGATTCGCCATCTTCAATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
34018624 TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
66 TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
*
34018689 GAGAGATAAGATCTATTACTTTAACCTGCTCCACTACAACTTCAGGGAGATAGGAT
131 GAGAGATAAGATCTATAACTTTAACCTGCTCCACTACAACTTCAGGGAGATAGGAT
34018745 CTGTAATTTC
Statistics
Matches: 173, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 2 0.01
218 171 0.99
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (218 bp):
GGGAAATAAGATTCGCCATCTTCAATCTGCCCCACTGCAACTTCAGAAGGATAAGACCTGCTTAC
TCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACCTGATGCAATCCACTCTACTGCAACTTCA
GAGAGATAAGATCTATAACTTTAACCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTT
CAATCTGCTCCACTGTAACTTCA
Found at i:34018733 original size:44 final size:44
Alignment explanation
Indices: 34018459--34018746 Score: 162
Period size: 44 Copynumber: 6.6 Consensus size: 44
34018449 GATCCACTCT
* *
34018459 ACTGCAACTTCAGAGAGATAAGATCTATAACTTTAATCC-GCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTCAA-CCTGCTCC
* * * * ** *
34018503 ACTACTACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTAT-TACTTCAACCTGCTCC
* * * *** * * *
34018547 ACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCC
1 ACTGCAACTTCAGAGAGATAAGATCTATTA-CTTCAACCTGCTCC
* * **
34018592 ACTGCAACTTCAGA-AGGATAAGACCTGCTTAC-TCAGTCTGCTCC
1 ACTGCAACTTCAGAGA-GATAAGATCT-ATTACTTCAACCTGCTCC
* * * * * *
34018636 GCTGCAACTTCA-AGGAGATAAGA-C-CTGA-TGCAATCC-ACTCT
1 ACTGCAACTTCAGA-GAGATAAGATCTATTACTTCAA-CCTGCTCC
*
34018677 ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTATTACTTCAACCTGCTCC
* * *
34018721 ACTACAACTTCAGGGAGATAGGATCT
1 ACTGCAACTTCAGAGAGATAAGATCT
34018747 GTAATTTCCC
Statistics
Matches: 184, Mismatches: 45, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
41 28 0.15
42 3 0.02
43 10 0.05
44 107 0.58
45 35 0.19
46 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTATTACTTCAACCTGCTCC
Found at i:34018921 original size:128 final size:129
Alignment explanation
Indices: 34018732--34019139 Score: 649
Period size: 128 Copynumber: 3.2 Consensus size: 129
34018722 CTACAACTTC
* * * *
34018732 AGGGAGATAGGATCTGTAATTTCCCAACCTATTCCACTGCTAACCAGGAATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * *
34018797 TTAAATCAGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTTCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
*
34018861 AGGGAGACAAGATCTGTGATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * * *
34018925 TTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCC-ACTTCGATCTGCTCCGCTACTGCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
* * * *
34018988 AGGGATACAAGGTCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGATATAGGAATTGTGGC
1 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
*
34019053 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGCTCCGCTATTGCTT
66 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
34019117 AGGGAGACAAGATCTGTAATTTC
1 AGGGAGACAAGATCTGTAATTTC
34019140 ACAGATCTAT
Statistics
Matches: 253, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
127 40 0.16
128 150 0.59
129 63 0.25
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (129 bp):
AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTATTGCTT
Found at i:34021297 original size:39 final size:38
Alignment explanation
Indices: 34021254--34021346 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 38
34021244 TTTATTTTTC
*
34021254 TTTTTTCTTTTAATTT-TTTTGATTTTGATTTTGATTGAT
1 TTTTTTCTTTT--TTTACTTTGATTTTGATTTTGATTGAT
**
34021293 TTTTTTCATTTTTTTACTTTGATTTTGATTTTGATTTTT
1 TTTTTTC-TTTTTTTACTTTGATTTTGATTTTGATTGAT
34021332 TCTTTTTCTTTTTTT
1 T-TTTTTCTTTTTTT
34021347 TTTGAATCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.06
39 35 0.73
40 10 0.21
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.75
Consensus pattern (38 bp):
TTTTTTCTTTTTTTACTTTGATTTTGATTTTGATTGAT
Done.