Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 159 of 211
Found at i:47010117 original size:82 final size:82
Alignment explanation
Indices: 47009950--47010135 Score: 187
Period size: 82 Copynumber: 2.3 Consensus size: 82
47009940 GCTCTATACT
* ** * *
47009950 TAGCAAGCTTAATGCCAGTGAAATAATTCAGACTTTATGTCTAGCAAGCTTAATGCCGGTGAAAT
1 TAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACATCTAGCAAGCTTAATACCGATGAAAT
* * * *
47010015 ATTTCAGACTTTACGTC
66 ATATCAGACGTTAAGCC
* * * ***
47010032 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATTTAGCAGGCTTAATACCGATGTTCT
1 TAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACATCTAGCAAGCTTAATACCGATGAAAT
*
47010097 GA-ATCAGGCGTTAAGCC
66 -ATATCAGACGTTAAGCC
*
47010114 TAGCAGGC-TACATGCTAGTGAA
1 TAGCAGGCTTA-ATGCCAGTGAA
47010136 TCATTTTAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 2 0.02
82 82 0.96
83 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (82 bp):
TAGCAGGCTTAATGCCAGTGAAATAATTCAGACTTTACATCTAGCAAGCTTAATACCGATGAAAT
ATATCAGACGTTAAGCC
Found at i:47013219 original size:11 final size:10
Alignment explanation
Indices: 47013196--47013237 Score: 59
Period size: 11 Copynumber: 4.1 Consensus size: 10
47013186 CACTAAATCA
47013196 AAAATATTTGG
1 AAAA-ATTTGG
47013207 AAAAATTTAGG
1 AAAAATTT-GG
47013218 AAAAATTT-G
1 AAAAATTTGG
47013227 AAAAATTTGG
1 AAAAATTTGG
47013237 A
1 A
47013238 CTGCAGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.31
10 6 0.21
11 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (10 bp):
AAAAATTTGG
Found at i:47042232 original size:43 final size:43
Alignment explanation
Indices: 47042120--47042233 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
47042110 TGTGTTATCG
* *
47042120 TGTAAGACCACGTCCGGGACGTTGGCATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTGTGATTTACA
* *
47042164 TGTAAGACC-CTGTTTGGGAAG-TGGCATCG-TTAGGTGATTT-CA
1 TGTAAGACCAC-GTCTGGGACGTTGGCATCGATT--GTGATTTACA
*
47042206 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
47042234 TGTATGATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
41 2 0.03
42 17 0.29
43 23 0.40
44 16 0.28
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTGTGATTTACA
Found at i:47047562 original size:16 final size:16
Alignment explanation
Indices: 47047541--47047573 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47047531 TGTTCATACA
47047541 CCCATGGTTAGCTTTT
1 CCCATGGTTAGCTTTT
47047557 CCCATGGTTAGCTTTT
1 CCCATGGTTAGCTTTT
47047573 C
1 C
47047574 TTTGTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (16 bp):
CCCATGGTTAGCTTTT
Found at i:47048909 original size:31 final size:32
Alignment explanation
Indices: 47048858--47048919 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
47048848 ATATAAGAAT
47048858 TATTGTTACATACTTTTTATCATTTTAGTCAC
1 TATTGTTACATACTTTTTATCATTTTAGTCAC
*
47048890 TATTGTTACATA-TTTTTATCGTTTTAGTCA
1 TATTGTTACATACTTTTTATCATTTTAGTCA
47048920 TCGGTTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.55
Consensus pattern (32 bp):
TATTGTTACATACTTTTTATCATTTTAGTCAC
Found at i:47048928 original size:32 final size:32
Alignment explanation
Indices: 47048859--47048929 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
47048849 TATAAGAATT
*
47048859 ATTGTTACATACTTTTTATCATTTTAGTCACT
1 ATTGTTACATACTTTTTATCATTTTAGTCACG
*
47048891 ATTGTTACATA-TTTTTATCGTTTTAGTCATCG
1 ATTGTTACATACTTTTTATCATTTTAGTCA-CG
*
47048923 GTTGTTA
1 ATTGTTA
47048930 ATTTACCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.54
Consensus pattern (32 bp):
ATTGTTACATACTTTTTATCATTTTAGTCACG
Found at i:47049305 original size:20 final size:21
Alignment explanation
Indices: 47049282--47049326 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47049272 AATGAAAAAG
* *
47049282 AAAAATGAA-TTTTTTCTATA
1 AAAAATCAAGTTTTTCCTATA
*
47049302 AAAATTCAAGTTTTTCCTATA
1 AAAAATCAAGTTTTTCCTATA
47049323 AAAA
1 AAAA
47049327 CCTAAGTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAATCAAGTTTTTCCTATA
Found at i:47050927 original size:25 final size:23
Alignment explanation
Indices: 47050898--47050952 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
47050888 GTTAAGATAG
*
47050898 TTTATGTT-ATGTTTTTGTTGTATT
1 TTTATGTTAATATTTTT-TTGT-TT
*
47050922 TGTTATTTTAATATTTTTTTGTTT
1 T-TTATGTTAATATTTTTTTGTTT
47050946 TTTATGT
1 TTTATGT
47050953 AGGTAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 10 0.38
26 7 0.27
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.73
Consensus pattern (23 bp):
TTTATGTTAATATTTTTTTGTTT
Found at i:47052091 original size:14 final size:14
Alignment explanation
Indices: 47052072--47052106 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
47052062 TTGACATTTT
*
47052072 TTCTAATGATATTA
1 TTCTAACGATATTA
47052086 TTCTAACGATATTA
1 TTCTAACGATATTA
47052100 TTCTAAC
1 TTCTAAC
47052107 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (14 bp):
TTCTAACGATATTA
Found at i:47052776 original size:12 final size:13
Alignment explanation
Indices: 47052757--47052793 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
47052747 AACTAGAGCT
47052757 AGAGCCAAAGCCC
1 AGAGCCAAAGCCC
*
47052770 A-AGCCAAAG-CA
1 AGAGCCAAAGCCC
47052781 AGAGCCAAAGCCC
1 AGAGCCAAAGCCC
47052794 GCTCTAGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.10
12 16 0.80
13 2 0.10
ACGTcount: A:0.43, C:0.35, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAGCCAAAGCCC
Found at i:47053373 original size:48 final size:48
Alignment explanation
Indices: 47053207--47053462 Score: 300
Period size: 48 Copynumber: 5.3 Consensus size: 48
47053197 TTATTTATTT
* ** * **
47053207 AATTAGATTA-ATTGCAACATTAAAACTTGGAACAAACTTTATGGTTATA
1 AATTAGA-TACATTACAACATTAAAACGAGGAACAAACTTTGT-AATATA
* ** **
47053256 AATTAGATTA-ATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGA-TACATTACAACATTAAAACGAGGAACAAACTTTGTAAT-ATA
*
47053305 AATTAGATACATTACAACATTAAAACGAGAAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
*
47053353 AATTAGATACATTACAACATTAAAACGAGGGACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
* * * *
47053401 AATTAGAAATATTACAACATTAAAATGAAGAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
*
47053449 AATTAGGTACATTA
1 AATTAGATACATTA
47053463 GCTCAATTCC
Statistics
Matches: 187, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
48 107 0.57
49 80 0.43
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (48 bp):
AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
Found at i:47057302 original size:4 final size:4
Alignment explanation
Indices: 47057293--47057338 Score: 67
Period size: 4 Copynumber: 11.2 Consensus size: 4
47057283 AAAAATACGT
47057293 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTC TTTC TTTC TTT- TTTC T
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC TTTC TTTC T
47057339 CCCTCTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.08
4 30 0.77
5 4 0.10
6 2 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:47057335 original size:18 final size:18
Alignment explanation
Indices: 47057297--47057334 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
47057287 ATACGTTTTC
47057297 TTTCTTTCTTTCTTCTCT
1 TTTCTTTCTTTCTTCTCT
47057315 TTTCTTTCTTTCTT-TCT
1 TTTCTTTCTTTCTTCTCT
47057332 TTT
1 TTT
47057335 TTCTCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTCTTCTCT
Found at i:47057350 original size:26 final size:26
Alignment explanation
Indices: 47057293--47057347 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
47057283 AAAAATACGT
* *
47057293 TTTCTTTCTTTCTTTCTTCTCTTTTC
1 TTTCTTTCTTTCTTTCTTCTCCTCTC
*
47057319 TTTCTTTCTTTCTTTTTTCTCCCTCTC
1 TTTCTTTCTTTCTTTCTTCT-CCTCTC
47057346 TT
1 TT
47057348 CTTCCTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCTTTCTTTCTTTCTTCTCCTCTC
Found at i:47057350 original size:30 final size:30
Alignment explanation
Indices: 47057293--47057359 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
47057283 AAAAATACGT
* * *
47057293 TTTCTTTCTTTCTTTCTTCTCTTTTCTTTC
1 TTTCTTTCTTTCTTTCTCCTCTCTTCTTCC
47057323 TTTCTTTCTTT-TTTCTCCCTCTCTTCTTCC
1 TTTCTTTCTTTCTTTCT-CCTCTCTTCTTCC
47057353 TTATCTT
1 TT-TCTT
47057360 CTGCTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 5 0.16
30 23 0.72
31 4 0.12
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTCTTTCTTTCTTTCTCCTCTCTTCTTCC
Found at i:47059332 original size:17 final size:16
Alignment explanation
Indices: 47059283--47059334 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 16
47059273 GTTCAACAAA
47059283 CTAACTTCTTTAACAG
1 CTAACTTCTTTAACAG
47059299 ----CTT-TTTAACAG
1 CTAACTTCTTTAACAG
47059310 CTAACTTCTTTAACAG
1 CTAACTTCTTTAACAG
47059326 TCTAACTTC
1 -CTAACTTC
47059335 ACAACTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
11 8 0.27
12 3 0.10
15 3 0.10
16 8 0.27
17 8 0.27
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (16 bp):
CTAACTTCTTTAACAG
Found at i:47070396 original size:16 final size:17
Alignment explanation
Indices: 47070368--47070403 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47070358 GTCTTTTTAA
*
47070368 ATTTTATTTGATTTTTT
1 ATTTTATTTGATTTGTT
47070385 ATTTTA-TTGATTTGTT
1 ATTTTATTTGATTTGTT
47070401 ATT
1 ATT
47070404 GTCGAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (17 bp):
ATTTTATTTGATTTGTT
Found at i:47072359 original size:3 final size:3
Alignment explanation
Indices: 47072340--47072393 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
47072330 AATTTATTTC
* * * *
47072340 ATA AT- ATA ATA ACA ATA ATA TTA ATA ATG ACA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47072386 ATA A-A ATA
1 ATA ATA ATA
47072394 TCATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:47073637 original size:21 final size:22
Alignment explanation
Indices: 47073613--47073675 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
47073603 TATATGTAAG
* *
47073613 TATAATGATAATAACAT-ATAA
1 TATAATAATAATAAAATAATAA
47073634 TATAATAATAATAAAATAATAA
1 TATAATAATAATAAAATAATAA
* *
47073656 TAACAATATTAATAAAATAA
1 T-ATAATAATAATAAAATAA
47073676 ATTAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 15 0.42
22 5 0.14
23 16 0.44
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (22 bp):
TATAATAATAATAAAATAATAA
Found at i:47073641 original size:3 final size:3
Alignment explanation
Indices: 47073614--47073675 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
47073604 ATATGTAAGT
* *
47073614 ATA ATG ATA ATA ACA TATA AT- ATA ATA ATA ATA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
47073658 ACA ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA A
47073676 ATTAAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:47073658 original size:11 final size:11
Alignment explanation
Indices: 47073620--47073675 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
47073610 AAGTATAATG
*
47073620 ATAATAACAT-
1 ATAATAAAATA
*
47073630 ATAATATAATA
1 ATAATAAAATA
47073641 ATAATAAAATA
1 ATAATAAAATA
47073652 ATAATAACAATA
1 ATAATAA-AATA
*
47073664 TTAATAAAATA
1 ATAATAAAATA
47073675 A
1 A
47073676 ATTAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 8 0.21
11 21 0.54
12 10 0.26
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:47075476 original size:100 final size:100
Alignment explanation
Indices: 47075315--47075506 Score: 285
Period size: 100 Copynumber: 1.9 Consensus size: 100
47075305 CTCAACTGCA
* * *
47075315 ATGTCGGGGAAACCAGATCCACCATCGTAGCTTCAATCTATTCCATTGCACCACTAAGGAAGTAA
1 ATGTCGGGGAAACCAGATCCACCATCGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAA
*
47075380 GATCCGTCGTTGTGGCTTCAATCTTTTTAATTGAT
66 GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAT
*** * * * *
47075415 ATGTCGGGGAAACCAGATCTGTCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAA
1 ATGTCGGGGAAACCAGATCCACCATCGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAA
47075480 GATCCGCCGTTGTGGCTTCAATCTTTT
66 GATCCGCCGTTGTGGCTTCAATCTTTT
47075507 CCACTGTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (100 bp):
ATGTCGGGGAAACCAGATCCACCATCGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAA
GATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAT
Found at i:47087972 original size:3 final size:3
Alignment explanation
Indices: 47087950--47087995 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
47087940 ATATGTAAGT
* *
47087950 ATA ATG ATA ATA ACA TATA ATA ATA ATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
47087995 A
1 A
47087996 CAATTTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47087983 original size:14 final size:14
Alignment explanation
Indices: 47087949--47087994 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
47087939 TATATGTAAG
*
47087949 TATAATGATAATAACA
1 TATAATAATAAT-A-A
47087965 TATAATAATAATAA
1 TATAATAATAATAA
47087979 TATAATAATAATAA
1 TATAATAATAATAA
47087993 TA
1 TA
47087995 ACAATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 17 0.59
15 1 0.03
16 11 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:47089352 original size:8 final size:8
Alignment explanation
Indices: 47089327--47089359 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
47089317 TTACTCATAA
47089327 AAAATATT
1 AAAATATT
*
47089335 AAAA-AAT
1 AAAATATT
47089342 AAAATATT
1 AAAATATT
47089350 AAAATATT
1 AAAATATT
47089358 AA
1 AA
47089360 GAAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATATT
Found at i:47089376 original size:9 final size:9
Alignment explanation
Indices: 47089362--47089404 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
47089352 AATATTAAGA
47089362 AAAATTATT
1 AAAATTATT
47089371 AAAATTATAT
1 AAAATTAT-T
* *
47089381 AAACTTATA
1 AAAATTATT
47089390 AAAATTA-T
1 AAAATTATT
47089398 AAAATTA
1 AAAATTA
47089405 ACTTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATT
Found at i:47089410 original size:22 final size:22
Alignment explanation
Indices: 47089382--47089423 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47089372 AAATTATATA
47089382 AACTTATAAAAATTATAAAATT
1 AACTTATAAAAATTATAAAATT
*
47089404 AACTTATAAATATTATAAAA
1 AACTTATAAAAATTATAAAA
47089424 AAGTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AACTTATAAAAATTATAAAATT
Found at i:47089465 original size:19 final size:19
Alignment explanation
Indices: 47089323--47089593 Score: 112
Period size: 19 Copynumber: 13.9 Consensus size: 19
47089313 TATTTTACTC
47089323 ATAAAAAA-TATTAAAAA--
1 ATAAAAAATTA-TAAAAATT
* *
47089340 ATAAAATATTA-AAATATT
1 ATAAAAAATTATAAAAATT
*
47089358 A-AGAAAAATTATTAAAATT
1 ATA-AAAAATTATAAAAATT
* *
47089377 ATATAAACTTATAAAAATT
1 ATAAAAAATTATAAAAATT
*
47089396 ATAAAATTAACTTATAAATATT
1 ATAAAA--AA-TTATAAAAATT
47089418 ATAAAAAAGTTAT--AAATT
1 ATAAAAAA-TTATAAAAATT
* * *
47089436 CCTTAATAAATTCTAAAAATT
1 --ATAAAAAATTATAAAAATT
47089457 ATAAAAAATTAT-AAAATT
1 ATAAAAAATTATAAAAATT
* *
47089475 AATAAAAACA-TATTTAAAATA
1 -ATAAAAA-ATTA-TAAAAATT
* **
47089496 ATAATATTTTATAAAAATGT
1 ATAAAAAATTATAAAAAT-T
* * *
47089516 AT-TAGAATTCTTAAAAATT
1 ATAAAAAATT-ATAAAAATT
* *
47089535 ATAAAAAAATATTAAAATTT
1 ATAAAAAATTA-TAAAAATT
* **
47089555 ATATAAGCTTATAAAATTTATT
1 ATAAAAAATTATAAAA---ATT
*
47089577 TTAAAAAATTATAAAAA
1 ATAAAAAATTATAAAAA
47089594 AATATTAAAA
Statistics
Matches: 184, Mismatches: 45, Indels: 48
0.66 0.16 0.17
Matches are distributed among these distances:
16 4 0.02
17 8 0.04
18 20 0.11
19 62 0.34
20 49 0.27
21 11 0.06
22 30 0.16
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATT
Found at i:47089567 original size:30 final size:30
Alignment explanation
Indices: 47089533--47089622 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
47089523 TTCTTAAAAA
47089533 TTATAAAAAAATATTAAAATTTATATAAGC
1 TTATAAAAAAATATTAAAATTTATATAAGC
* **
47089563 TTAT---AAAAT-TT---ATTT-TAAAAAA
1 TTATAAAAAAATATTAAAATTTATATAAGC
*
47089585 TTATAAAAAAATATTAAAATTGATATAAGC
1 TTATAAAAAAATATTAAAATTTATATAAGC
47089615 TTATAAAA
1 TTATAAAA
47089623 TTTATTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
22 8 0.18
23 4 0.09
25 5 0.11
26 4 0.09
27 5 0.11
29 3 0.07
30 16 0.36
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (30 bp):
TTATAAAAAAATATTAAAATTTATATAAGC
Found at i:47089591 original size:52 final size:52
Alignment explanation
Indices: 47089528--47089644 Score: 225
Period size: 52 Copynumber: 2.2 Consensus size: 52
47089518 TAGAATTCTT
*
47089528 AAAAATTATAAAAAAATATTAAAATTTATATAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
47089580 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
1 AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
47089632 AAAAATTATAAAA
1 AAAAATTATAAAA
47089645 GCTTAAATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (52 bp):
AAAAATTATAAAAAAATATTAAAATTGATATAAGCTTATAAAATTTATTTTA
Found at i:47089593 original size:10 final size:10
Alignment explanation
Indices: 47089361--47089644 Score: 68
Period size: 10 Copynumber: 28.3 Consensus size: 10
47089351 AAATATTAAG
47089361 AAAAATTAT-
1 AAAAATTATA
*
47089370 TAAAATTATA
1 AAAAATTATA
* *
47089380 TAAACTTAT-
1 AAAAATTATA
47089389 AAAAATTATA
1 AAAAATTATA
47089399 AAATTAACTTAT-
1 AAA--AA-TTATA
*
47089411 AAATATTATA
1 AAAAATTATA
47089421 AAAAAGTTATA
1 AAAAA-TTATA
****
47089432 AATTCCT-TA
1 AAAAATTATA
* *
47089441 ATAAATTCT-
1 AAAAATTATA
47089450 AAAAATTATA
1 AAAAATTATA
47089460 AAAAATTAT-
1 AAAAATTATA
47089469 -AAAATTAATA
1 AAAAATT-ATA
*
47089479 AAAACA-TATT
1 AAAA-ATTATA
* *
47089489 TAAAATAATA
1 AAAAATTATA
* **
47089499 ATATTTTAT-
1 AAAAATTATA
47089508 AAAAATGTAT-
1 AAAAAT-TATA
* * * *
47089518 TAGAATTCTT
1 AAAAATTATA
47089528 AAAAATTATA
1 AAAAATTATA
* *
47089538 AAAAAATATT
1 AAAAATTATA
*
47089548 AAAATTTATA
1 AAAAATTATA
* **
47089558 TAAGCTTATA
1 AAAAATTATA
* *
47089568 AAATTTATTTTA
1 AAA--AATTATA
47089580 AAAAATTATA
1 AAAAATTATA
*
47089590 AAAAAATAT-
1 AAAAATTATA
*
47089599 TAAAATTGATA
1 AAAAATT-ATA
* **
47089610 TAAGCTTATA
1 AAAAATTATA
* *
47089620 AAATTTATTTTA
1 AAA--AATTATA
47089632 AAAAATTATA
1 AAAAATTATA
47089642 AAA
1 AAA
47089645 GCTTAAATTG
Statistics
Matches: 192, Mismatches: 61, Indels: 43
0.65 0.21 0.15
Matches are distributed among these distances:
8 6 0.03
9 43 0.22
10 103 0.54
11 16 0.08
12 20 0.10
13 4 0.02
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAAATTATA
Found at i:47093470 original size:84 final size:85
Alignment explanation
Indices: 47093349--47093511 Score: 247
Period size: 84 Copynumber: 1.9 Consensus size: 85
47093339 CGCCTTTGTT
* * *
47093349 TGGAAACAAAACAATATCGAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAGATTTT
1 TGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAAATTTT
47093414 ATTTAA-TTTAATTCTAATC
66 ATTTAATTTTAATTCTAATC
* * * * *
47093433 TGGAAACGAAATAAAATCAAATAAAATCTTGTTAAACGGCTGGAGTAAATCCCAAAATAAATTTT
1 TGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAAATTTT
47093498 ATTTAATTTTAATT
66 ATTTAATTTTAATT
47093512 TCTCGTTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 63 0.90
85 7 0.10
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (85 bp):
TGGAAACAAAACAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCAAAACAAATTTT
ATTTAATTTTAATTCTAATC
Found at i:47093675 original size:87 final size:84
Alignment explanation
Indices: 47093561--47093759 Score: 197
Period size: 85 Copynumber: 2.3 Consensus size: 84
47093551 TTGAATGACA
** * * *
47093561 GGAATAAATCCCAAAGCATATTTTATTTTAA-TTTAA-TACTCGTTTTGGAAATAAAATTAAAAT
1 GGAATAAATCCCAAA-CGGATTTTATTTTAACTTTAATTACCCG-TTT-GAAA-AAAATAAAAAG
** *
47093624 TGGAATAAAATTTATTGAACGGC
62 TGGAATAAAATCCATTAAACGGC
* * *
47093647 GAGAATAAATCCCTAAACGGATTATA-TTTAACTTTAATTTCCCGTTTGAAAATAATAAAAAGTG
1 G-GAATAAATCCC-AAACGGATTTTATTTTAACTTTAATTACCCGTTTGAAAAAAATAAAAAGTG
*
47093711 GAATAAAATCCATTAAATGGC
64 GAATAAAATCCATTAAACGGC
*
47093732 GGAATAAATCTCGAAACGGATTTTATTT
1 GGAATAAATC-CCAAACGGATTTTATTT
47093760 ACTTTTAATT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
84 20 0.22
85 31 0.33
86 10 0.11
87 25 0.27
88 7 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (84 bp):
GGAATAAATCCCAAACGGATTTTATTTTAACTTTAATTACCCGTTTGAAAAAAATAAAAAGTGGA
ATAAAATCCATTAAACGGC
Found at i:47096608 original size:33 final size:33
Alignment explanation
Indices: 47096484--47096628 Score: 91
Period size: 33 Copynumber: 4.3 Consensus size: 33
47096474 TGAACTGAAG
* *
47096484 GATAAGACCATAACTGGGTTATGGCACTATGAAC
1 GATAAGACCATAACTGGGTTATGGCATTATG-AT
* * ** *
47096518 G-TAAGACCATGATTGGACTATGGTAGTGTTTAT-AT
1 GATAAGACCATAACTGGGTTATGGCA----TTATGAT
* * *
47096553 G-TAAGACCA-AAGCTAGGCTATGGCATTCTGAT
1 GATAAGACCATAA-CTGGGTTATGGCATTATGAT
* *
47096585 GATAAGACCATAACTGGGTTATGGCACTATGAA
1 GATAAGACCATAACTGGGTTATGGCATTATGAT
*
47096618 CATAAGACCAT
1 GATAAGACCAT
47096629 GGTTAGATCA
Statistics
Matches: 84, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
31 3 0.04
32 3 0.04
33 52 0.62
34 4 0.05
35 19 0.23
37 3 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (33 bp):
GATAAGACCATAACTGGGTTATGGCATTATGAT
Found at i:47096659 original size:101 final size:101
Alignment explanation
Indices: 47096484--47096714 Score: 365
Period size: 101 Copynumber: 2.3 Consensus size: 101
47096474 TGAACTGAAG
* * *
47096484 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGATTGGACTATGGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTAGACTATGGAAGTGTTT
47096549 ATATGTAAGACCAAAGCTAGGCTATGGCATTCTGAT
66 ATATGTAAGACCAAAGCTAGGCTATGGCATTCTGAT
*
47096585 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGGTTAGA-TCATGGAAGTGTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTAGACT-ATGGAAGTGTT
* * *
47096649 TATATGTAAGACCATAGCTGGGCTATGGTATTCTGAT
65 TATATGTAAGACCAAAGCTAGGCTATGGCATTCTGAT
* *
47096686 GATAATACCATAATTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
47096715 CGAATGTAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 119 0.99
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACATAAGACCATGATTAGACTATGGAAGTGTTT
ATATGTAAGACCAAAGCTAGGCTATGGCATTCTGAT
Found at i:47100541 original size:17 final size:17
Alignment explanation
Indices: 47100521--47100564 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
47100511 ATTTTTCAAA
47100521 AAATAATTTTTTTGTTC
1 AAATAATTTTTTTGTTC
*
47100538 AAATAATTTTTTTGTTT
1 AAATAATTTTTTTGTTC
*
47100555 AAATTATTTT
1 AAATAATTTT
47100565 ATTCCACAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (17 bp):
AAATAATTTTTTTGTTC
Found at i:47102655 original size:19 final size:20
Alignment explanation
Indices: 47102627--47102665 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
47102617 ATAGCGTACC
47102627 ATTTTGGTAT-TTATTTTTT
1 ATTTTGGTATCTTATTTTTT
* *
47102646 ATTTTTGTATCTTCTTTTTT
1 ATTTTGGTATCTTATTTTTT
47102666 TTTCTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (20 bp):
ATTTTGGTATCTTATTTTTT
Found at i:47105520 original size:41 final size:41
Alignment explanation
Indices: 47105426--47105716 Score: 204
Period size: 41 Copynumber: 7.2 Consensus size: 41
47105416 TGGACTTTCG
* * * *
47105426 GGGATTTAGTGTCGTATTTTAGG-AAGCTCCGCTAATGCTCA
1 GGGATTTAGCGGCGT-TTTTGGGAAAGCGCCGCTAATGCTCA
* * *
47105467 -GGACATTGGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTA
1 GGGA-TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * * * *
47105508 GGGATTTAGCGGCATTTTCGAGAAAGCGCTGCTAAAGATCA
1 GGGATTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
** * ** * *
47105549 GGCTTTTTGCGGCGTTTTTTAGAAAGCGACGCTAATGCTTA
1 GGGATTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* ** *
47105590 GGGCTTTA---GCAATTTTGAGG-AAGCGTCGCTAATGCT-A
1 GGGATTTAGCGGCGTTTTTG-GGAAAGCGCCGCTAATGCTCA
* *
47105627 GGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTATTGCTCA
1 GGGATTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
* * * *
47105668 AGGATTTAGTGGCGTTTTCT--AAAATGCGCCGCTAATACTCA
1 GGGATTTAGCGGCGTTTT-TGGGAAA-GCGCCGCTAATGCTCA
47105709 GGGATTTA
1 GGGATTTA
47105717 AAATAATTTA
Statistics
Matches: 193, Mismatches: 46, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
37 9 0.05
38 21 0.11
39 3 0.02
40 33 0.17
41 123 0.64
42 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (41 bp):
GGGATTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCA
Found at i:47105563 original size:82 final size:81
Alignment explanation
Indices: 47105475--47105686 Score: 236
Period size: 78 Copynumber: 2.6 Consensus size: 81
47105465 CAGGACATTG
47105475 GCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCG-CTG
1 GCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGTC-G
*
47105539 CTAAAGATCA-GGCTTTTT
65 CTAAAGAT-AGGGC-TTTA
** * * * *
47105557 GCGGCGTTTTTTAGAAAGCGACGCTAATGCTTAGGGCTTTAGC--AATTTT-GAGGAAGCGTCGC
1 GCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGTCGC
* *
47105619 TAATGCTAGGGCTTTA
66 TAAAGATAGGGCTTTA
* * * * *
47105635 GCGGCGTTTTTGGGAAAGCGCCGCTATTGCTCAAGGATTTAGTGGCGTTTTC
1 GCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTC
47105687 TAAAATGCGC
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 39 0.37
79 18 0.17
80 10 0.09
82 39 0.37
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (81 bp):
GCGGCGTTTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGTCGC
TAAAGATAGGGCTTTA
Found at i:47105682 original size:119 final size:120
Alignment explanation
Indices: 47105482--47105703 Score: 263
Period size: 119 Copynumber: 1.9 Consensus size: 120
47105472 TTGGCGGCGT
*
47105482 TTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGCTGCTAAAGAT
1 TTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGCCGCTAAAGAT
* * *
47105547 CAGGCTTTTTGCGGCGTTTTTTAGAAA-GCGACGCTAATGCTTAGGGCTTTAGCAA
66 CAGGCATTTAGCGGCGTTTTCTA-AAATGCGACGCTAATGCTTAGGGCTTTAGCAA
* * * * * ** *
47105602 TTTTGAGG-AAGCGTCGCTAATGC-TAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTATTGC
1 TTTTG-GGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGCCGCTAAAGA
* *
47105665 TCAAGG-ATTTAGTGGCGTTTTCTAAAATGCGCCGCTAAT
65 TC-AGGCATTTAGCGGCGTTTTCTAAAATGCGACGCTAAT
47105704 ACTCAGGGAT
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.04
119 58 0.68
120 22 0.26
121 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (120 bp):
TTTTGGGAAAGCGCCGCTAATGCTTAGGGATTTAGCGGCATTTTCGAGAAAGCGCCGCTAAAGAT
CAGGCATTTAGCGGCGTTTTCTAAAATGCGACGCTAATGCTTAGGGCTTTAGCAA
Found at i:47106377 original size:15 final size:15
Alignment explanation
Indices: 47106357--47106385 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47106347 AAATTTTAAG
47106357 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
47106372 GTTTAGGGATTATG
1 GTTTAGGGATTATG
47106386 GATTATGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:47112052 original size:24 final size:24
Alignment explanation
Indices: 47112012--47112075 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
47112002 TGGGGCATAT
**
47112012 GAGCCAGAGCCAAAGCC-AAAGCTA
1 GAGCCAGAGCCCGAGCCTAAA-CTA
* *
47112036 GAGCCCGAGCCCGAGCCTAAACTT
1 GAGCCAGAGCCCGAGCCTAAACTA
*
47112060 GAGCTAGAGCCCGAGC
1 GAGCCAGAGCCCGAGC
47112076 GGTCGCATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.31, C:0.33, G:0.28, T:0.08
Consensus pattern (24 bp):
GAGCCAGAGCCCGAGCCTAAACTA
Found at i:47112052 original size:30 final size:30
Alignment explanation
Indices: 47112012--47112075 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
47112002 TGGGGCATAT
47112012 GAGCCAGAGCC-AAAGCCAAAGCTAGAGCCC
1 GAGCCAGAGCCTAAA-CCAAAGCTAGAGCCC
* ***
47112042 GAGCCCGAGCCTAAACTTGAGCTAGAGCCC
1 GAGCCAGAGCCTAAACCAAAGCTAGAGCCC
47112072 GAGC
1 GAGC
47112076 GGTCGCATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.31, C:0.33, G:0.28, T:0.08
Consensus pattern (30 bp):
GAGCCAGAGCCTAAACCAAAGCTAGAGCCC
Found at i:47112243 original size:33 final size:33
Alignment explanation
Indices: 47112206--47112310 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
47112196 CGCAGTATAG
* * *
47112206 CACTCCTCTTGGCTCGTATACACCGCATTATTC
1 CACTCCTCTTGGCTCGTATCCACCGCAATACTC
* *
47112239 CACTCCTCTTTGCTCGTATCCACTGCAATACT-
1 CACTCCTCTTGGCTCGTATCCACCGCAATACTC
** * *
47112271 C-CTCCTCCCGGATCGTATCCACCGCAGTACTC
1 CACTCCTCTTGGCTCGTATCCACCGCAATACTC
47112303 CACTCCTC
1 CACTCCTC
47112311 CCGGCTCAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
31 24 0.41
32 2 0.03
33 33 0.56
ACGTcount: A:0.17, C:0.42, G:0.11, T:0.30
Consensus pattern (33 bp):
CACTCCTCTTGGCTCGTATCCACCGCAATACTC
Found at i:47112314 original size:33 final size:33
Alignment explanation
Indices: 47112192--47112317 Score: 114
Period size: 33 Copynumber: 3.9 Consensus size: 33
47112182 CAGTCTACTA
* **
47112192 CCACCGCAGTA-TAGCACTCCTCTTGGCTCGTAT
1 CCACCGCAGTACT-CCACTCCTCCCGGCTCGTAT
* * * ***
47112225 ACACCGCATTATTCCACTCCTCTTTGCTCGTAT
1 CCACCGCAGTACTCCACTCCTCCCGGCTCGTAT
* * *
47112258 CCACTGCAATACT-C-CTCCTCCCGGATCGTAT
1 CCACCGCAGTACTCCACTCCTCCCGGCTCGTAT
47112289 CCACCGCAGTACTCCACTCCTCCCGGCTC
1 CCACCGCAGTACTCCACTCCTCCCGGCTC
47112318 AAGTTCATCG
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
31 24 0.32
32 2 0.03
33 48 0.64
34 1 0.01
ACGTcount: A:0.17, C:0.42, G:0.13, T:0.27
Consensus pattern (33 bp):
CCACCGCAGTACTCCACTCCTCCCGGCTCGTAT
Found at i:47112687 original size:48 final size:48
Alignment explanation
Indices: 47112616--47112938 Score: 463
Period size: 48 Copynumber: 6.7 Consensus size: 48
47112606 ACTTTGTAAT
* *
47112616 ATGAATAAACTTTGTAATATAAATTAGATACATTACAATATTAAAATG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* * *
47112664 ATGAACACAA-TTTGCAATATAAATTAGATACATTATAATATTAAAATG
1 ATGAACA-AACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* *
47112712 ATGAACAAAATTTGTAATATAAATTAGATACATTACAACATTAAAACG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* * * *
47112760 AGGAACAAACTTTGTAATATGAATTAAATACATTACAACATTAAAACG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
*
47112808 A-GAAACAAACTTTGTAATATAAATTAGATATATTACAACATTAAAATG
1 ATG-AACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
* *
47112856 AGGAACAAACTTTGTAATATAAATTAGATGCATTACAACATTAAAATG
1 ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
*
47112904 AAT-AACAAACTTTGTAATATAAATTAGGTACATTA
1 -ATGAACAAACTTTGTAATATAAATTAGATACATTA
47112939 GCTCAATTCC
Statistics
Matches: 250, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
47 3 0.01
48 243 0.97
49 4 0.02
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (48 bp):
ATGAACAAACTTTGTAATATAAATTAGATACATTACAACATTAAAATG
Found at i:47116899 original size:27 final size:27
Alignment explanation
Indices: 47116861--47116925 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
47116851 TTAATACACT
* *
47116861 AGTGCCGCCTATCAGATAGGGGTCACC
1 AGTGCCGCCTATCAGATAAGGGCCACC
*
47116888 AGTGCCGCCTATCAGATAAGGGCCACT
1 AGTGCCGCCTATCAGATAAGGGCCACC
*
47116915 AGTGCTGCCTA
1 AGTGCCGCCTA
47116926 CCACACCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (27 bp):
AGTGCCGCCTATCAGATAAGGGCCACC
Found at i:47122208 original size:68 final size:68
Alignment explanation
Indices: 47122127--47122264 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
47122117 CCAAATCAAT
47122127 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
1 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
47122192 TTC
66 TTC
47122195 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
1 CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
47122260 TTC
66 TTC
47122263 CA
1 CA
47122265 ATTTCTTCTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (68 bp):
CAGTTAGACCCTAAACCTGAATTAGTGTATGGTCATTAATATTTTTACCAGAGTTGATTTTGGTT
TTC
Found at i:47122992 original size:2 final size:2
Alignment explanation
Indices: 47122979--47123014 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
47122969 ATCTAAATAT
*
47122979 TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
47123015 CATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:47126154 original size:44 final size:44
Alignment explanation
Indices: 47126091--47126180 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
47126081 TTTAGTTAAA
47126091 TGTAGTCTACGATAAGATTCTTGTTTTCTTGAAAAGCGCTCTCG
1 TGTAGTCTACGATAAGATTCTTGTTTTCTTGAAAAGCGCTCTCG
47126135 TGTAGTCTACGATAAGATTCTTGTTTTCTTGAAAAGCGCTCTCG
1 TGTAGTCTACGATAAGATTCTTGTTTTCTTGAAAAGCGCTCTCG
47126179 TG
1 TG
47126181 AAGCTTTCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (44 bp):
TGTAGTCTACGATAAGATTCTTGTTTTCTTGAAAAGCGCTCTCG
Found at i:47128672 original size:8 final size:8
Alignment explanation
Indices: 47128648--47128686 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
47128638 TTTACTTTAA
47128648 TTTT-AAT
1 TTTTAAAT
47128655 TTTTAGAAT
1 TTTTA-AAT
47128664 TTTTAAAT
1 TTTTAAAT
47128672 TTTTAAAT
1 TTTTAAAT
47128680 TTTTAAA
1 TTTTAAA
47128687 AAGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 4 0.13
8 18 0.60
9 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTAAAT
Found at i:47131095 original size:25 final size:26
Alignment explanation
Indices: 47131067--47131115 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47131057 AGAGGAAAGT
47131067 TTAAAGAACAT-AAAAGAAAAAAAAA
1 TTAAAGAACATAAAAAGAAAAAAAAA
** *
47131092 TTAAATTACTTAAAAAGAAAAAAA
1 TTAAAGAACATAAAAAGAAAAAAA
47131116 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.18
Consensus pattern (26 bp):
TTAAAGAACATAAAAAGAAAAAAAAA
Found at i:47133955 original size:55 final size:56
Alignment explanation
Indices: 47133833--47133989 Score: 230
Period size: 55 Copynumber: 2.8 Consensus size: 56
47133823 TTCTAATTGT
* *
47133833 TGGGACATTGATGGTCGACATCCTTGTACTAGATTTGAGAAAAAAAATTTTGGGTGC
1 TGGGACACTGATGGTCGACACCCTTGTACTAGATTTGA-AAAAAAAATTTTGGGTGC
*
47133890 TGGCACACTGATGGTCGACACCCTTGTACTAGATTTGAAAAAAAAA-TTTGGGTGC
1 TGGGACACTGATGGTCGACACCCTTGTACTAGATTTGAAAAAAAAATTTTGGGTGC
* *
47133945 TGGGACACTGATGGGT-AACACCCTTGTACCAGATTT-AAAAAAAAA
1 TGGGACACTGAT-GGTCGACACCCTTGTACTAGATTTGAAAAAAAAA
47133990 GGTGTTGTGA
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
54 9 0.10
55 38 0.41
56 11 0.12
57 35 0.38
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (56 bp):
TGGGACACTGATGGTCGACACCCTTGTACTAGATTTGAAAAAAAAATTTTGGGTGC
Found at i:47134007 original size:50 final size:53
Alignment explanation
Indices: 47133833--47134008 Score: 164
Period size: 55 Copynumber: 3.3 Consensus size: 53
47133823 TTCTAATTGT
* * * *
47133833 TGGGACATTGAT-GGTCGACATCCTTGTACTAGATTTGAGAAAAAAAATTTTGGGTGC
1 TGGGACACTGATGGGTCAACACCCTTGTACCAGATTTGA-AAAAAAAA---T-GGTGC
* * *
47133890 TGGCACACTGAT-GGTCGACACCCTTGTACTAGATTTGAAAAAAAAATTTGGGTGC
1 TGGGACACTGATGGGTCAACACCCTTGTACCAGATTTGAAAAAAAAA--T-GGTGC
*
47133945 TGGGACACTGATGGGT-AACACCCTTGTACCAGATTT-AAAAAAAAA-GGTGT
1 TGGGACACTGATGGGTCAACACCCTTGTACCAGATTTGAAAAAAAAATGGTGC
*
47133995 TGTGACACTGATGG
1 TGGGACACTGATGG
47134009 CCAGCACCCT
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
50 17 0.15
54 9 0.08
55 38 0.35
56 11 0.10
57 35 0.32
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (53 bp):
TGGGACACTGATGGGTCAACACCCTTGTACCAGATTTGAAAAAAAAATGGTGC
Found at i:47137084 original size:47 final size:48
Alignment explanation
Indices: 47137025--47137116 Score: 143
Period size: 47 Copynumber: 1.9 Consensus size: 48
47137015 TATCCAATTA
*
47137025 TTAAATAAATAAAATTTTTAA-TTATTATATAGTG-TAAAATAAATGTT
1 TTAAATAAAT-AAATTATTAAGTTATTATATAGTGTTAAAATAAATGTT
*
47137072 TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAGTAAAT
1 TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAATAAAT
47137117 AAATTATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 9 0.22
47 23 0.56
48 9 0.22
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (48 bp):
TTAAATAAATAAATTATTAAGTTATTATATAGTGTTAAAATAAATGTT
Found at i:47137166 original size:80 final size:82
Alignment explanation
Indices: 47136995--47137201 Score: 281
Period size: 80 Copynumber: 2.6 Consensus size: 82
47136985 TAGTGTGAAA
* * *
47136995 TAAATAAA-AAATTATTCAATTATCCA-AT--TATTAAA-TAAATAAAATT-TTTAATTATTATA
1 TAAATAAATAAATTATTCAATTAT-TATATAGTGTTAAAGTAAAT-AAATTATTCAATTATTATA
*
47137054 TAGTGTAAAATAAATGTTT
64 TAGTGTAAAACAAATGTTT
47137073 TAAATAAATAAATTATT-AAGTTATTATATAGTGTTAAAGTAAATAAATTATTCAATTA-T-TAT
1 TAAATAAATAAATTATTCAA-TTATTATATAGTGTTAAAGTAAATAAATTATTCAATTATTATAT
47137135 AGTGTAAAACAAATGTTT
65 AGTGTAAAACAAATGTTT
47137153 TAAATAAATAAATTATTCAATTATTATATAGTG-TAAAGTAAATAAATTA
1 TAAATAAATAAATTATTCAATTATTATATAGTGTTAAAGTAAATAAATTA
47137202 AATAAACAAA
Statistics
Matches: 117, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
78 11 0.09
79 30 0.26
80 50 0.43
81 14 0.12
82 12 0.10
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (82 bp):
TAAATAAATAAATTATTCAATTATTATATAGTGTTAAAGTAAATAAATTATTCAATTATTATATA
GTGTAAAACAAATGTTT
Found at i:47137203 original size:47 final size:47
Alignment explanation
Indices: 47137106--47137250 Score: 206
Period size: 47 Copynumber: 3.1 Consensus size: 47
47137096 TTATATAGTG
* ***
47137106 TTAAAGTAAATAAATTATTCAATTA-T-TATAGTGTAAAACAAATGTT
1 TTAAA-TAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
*
47137152 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAGTAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
*
47137199 TTAAATAAACAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
1 TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
47137246 -TAAAT
1 TTAAAT
47137251 TATTCAACAA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
45 19 0.21
46 11 0.12
47 60 0.67
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.38
Consensus pattern (47 bp):
TTAAATAAATAAATTATTCAATTATTATATAGTGTAAAATAAATAAA
Found at i:47140517 original size:36 final size:37
Alignment explanation
Indices: 47140444--47140526 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 37
47140434 ATTTTTGTCC
*
47140444 CCAATTTAACCAATGGTCTACTTACAATTTAAAGGCCT
1 CCAATTTAACCAATGGTCTAATTA-AATTTAAAGGCCT
*
47140482 CCAATTTAACCAATGGTCTAATT-AATTTAAGGGCCT
1 CCAATTTAACCAATGGTCTAATTAAATTTAAAGGCCT
47140518 CCAATTTAA
1 CCAATTTAA
47140527 AATTTCATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 21 0.49
38 22 0.51
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (37 bp):
CCAATTTAACCAATGGTCTAATTAAATTTAAAGGCCT
Found at i:47140691 original size:5 final size:5
Alignment explanation
Indices: 47140673--47140717 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
47140663 ATTGTAGACC
*
47140673 ATAAGA ATATA ATAAA AT-AA ATAAA AT-AA ATAAA AT-AA ATAAA AT
1 ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
47140718 TTTCCTTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
4 12 0.35
5 19 0.56
6 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
ATAAA
Found at i:47140697 original size:9 final size:9
Alignment explanation
Indices: 47140673--47140717 Score: 72
Period size: 9 Copynumber: 4.8 Consensus size: 9
47140663 ATTGTAGACC
47140673 ATAAGAATATA
1 ATAA-AATA-A
47140684 ATAAAATAA
1 ATAAAATAA
47140693 ATAAAATAA
1 ATAAAATAA
47140702 ATAAAATAA
1 ATAAAATAA
47140711 ATAAAAT
1 ATAAAAT
47140718 TTTCCTTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 26 0.76
10 4 0.12
11 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
ATAAAATAA
Found at i:47141098 original size:20 final size:19
Alignment explanation
Indices: 47141073--47141127 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
47141063 ATAGGAATAG
47141073 ATAAATAATATAAAAAGGAA
1 ATAAATAATATAAAAA-GAA
* * * *
47141093 ATAAATAAAATAGAAATAT
1 ATAAATAATATAAAAAGAA
*
47141112 ATCAATAATATAAAAA
1 ATAAATAATATAAAAA
47141128 TAATATTCTA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (19 bp):
ATAAATAATATAAAAAGAA
Found at i:47141213 original size:34 final size:32
Alignment explanation
Indices: 47141118--47141230 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 32
47141108 ATATATCAAT
* * *
47141118 AATATAAAAATAATATTCTAATATATTATAAATAA
1 AATATATAAAT-A-ATTCTAATATAATATATAT-A
* *
47141153 AATAGATAAATAAAT-TAATA-AA-ATATATA
1 AATATATAAATAATTCTAATATAATATATATA
47141182 AATATATAAATCAATTCTAATACTAATATATATTA
1 AATATATAAAT-AATTCTAATA-TAATATATA-TA
47141217 GAATATATATAATA
1 -AATATATA-AATA
47141231 GAATTAATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
29 11 0.17
30 8 0.13
31 6 0.10
32 5 0.08
33 4 0.06
34 6 0.10
35 11 0.17
36 9 0.14
37 3 0.05
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (32 bp):
AATATATAAATAATTCTAATATAATATATATA
Found at i:47141828 original size:110 final size:107
Alignment explanation
Indices: 47141626--47141856 Score: 331
Period size: 110 Copynumber: 2.1 Consensus size: 107
47141616 TGGATTAAGA
* * *
47141626 TTTAAGAA-GATATTTGGCTATTTGGTCAAATGAAAAGTCGAAACCCAACACATTAGGGCACGTT
1 TTTAA-AAGGATATTTGGCTATTTGGTCAAATGAAAAATCAAAACCCAACACATTAGGGCACGCT
*
47141690 TTCTCGAATTTCCAAAAGAAAAATATTGCCTTATTTTGAAATT
65 TTCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
* *
47141733 TTTAAAAGGATATTTGGCTATTTGGTCGAACGA-GAAAAAATCAAAACCTAGCACATTAGGGCAC
1 TTTAAAAGGATATTTGGCTATTTGGTC-AA--ATG-AAAAATCAAAACCCAACACATTAGGGCAC
* *
47141797 GCTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
62 GCTTTCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
47141843 TTTAAAAGGATATT
1 TTTAAAAGGATATT
47141857 AGTATGCGTA
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
106 2 0.02
107 24 0.22
108 2 0.02
109 1 0.01
110 82 0.74
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (107 bp):
TTTAAAAGGATATTTGGCTATTTGGTCAAATGAAAAATCAAAACCCAACACATTAGGGCACGCTT
TCTCGAATTTCCAAAAGAAAAACATTGCCTTATTTTGAAATT
Found at i:47142177 original size:12 final size:11
Alignment explanation
Indices: 47142145--47142195 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
47142135 TTAAAATTAT
*
47142145 TATATAAAAAA
1 TATATAATAAA
47142156 TATAT-ATAAA
1 TATATAATAAA
47142166 TATATAAGTAAA
1 TATATAA-TAAA
* *
47142178 CATATACATACA
1 TATATA-ATAAA
47142190 TATATA
1 TATATA
47142196 CGTATGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 9 0.27
11 6 0.18
12 17 0.52
13 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:47142391 original size:40 final size:41
Alignment explanation
Indices: 47142341--47142451 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 41
47142331 CGTTTGGACA
47142341 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGC-TTTTTG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTTTG
* ** * *
47142381 AAAAATGCCACTAAAGGTCTAGCATTAGTGGCGCTTTTTTG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTTTG
* *
47142422 -AAAACGCCGCTAAAAAT-AAGTATTAGCGGC
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGC
47142452 ATTTTTCAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 10 0.17
40 42 0.72
41 6 0.10
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTTTG
Found at i:47142578 original size:41 final size:41
Alignment explanation
Indices: 47142512--47142751 Score: 327
Period size: 41 Copynumber: 5.9 Consensus size: 41
47142502 GAGTTTTAGG
* * *
47142512 GGGCATTTAGCGGCGTTTTTGAAAAATCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
* *
47142553 GGGCCTTTAGCGGCGTTTTTAAAAAAGCACCGCCAATGCTC
1 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
* * * *
47142594 GGGCCTTTAGCGGCATTTTTAAAGAAGCGCCACTAATACTC
1 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
* * **
47142635 AGGCCTTTAGCGTCGTTTTTTGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
* *
47142676 GGGCCTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
* *
47142717 GTGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTA
1 GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTA
47142752 GTAATAATAA
Statistics
Matches: 172, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 172 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
Found at i:47144992 original size:17 final size:17
Alignment explanation
Indices: 47144970--47145002 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47144960 ATTTTTATTT
47144970 TGTAGCATTAAGTTTTC
1 TGTAGCATTAAGTTTTC
47144987 TGTAGCATTAAGTTTT
1 TGTAGCATTAAGTTTT
47145003 TATTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (17 bp):
TGTAGCATTAAGTTTTC
Found at i:47145585 original size:42 final size:43
Alignment explanation
Indices: 47145392--47145598 Score: 290
Period size: 43 Copynumber: 4.8 Consensus size: 43
47145382 TTTTTGCTAG
* * * * * *
47145392 AAGCACCGCAAAAGGTCATAGTCTATAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
*
47145435 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
*
47145478 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGACGTTTGTGAGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
**
47145521 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTG-GGG
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
* * *
47145563 AAGCGCTGCTAAAAGTCGTGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
47145599 TTTTCGGCGC
Statistics
Matches: 149, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 34 0.23
43 115 0.77
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAA
Found at i:47145677 original size:22 final size:22
Alignment explanation
Indices: 47145641--47145683 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47145631 TAACGGCGCT
*
47145641 AAAAAGCGTCACTAAAGGCCTA
1 AAAAAGCGTCACTAAAAGCCTA
**
47145663 AAAAAGCGTTGCTAAAAGCCT
1 AAAAAGCGTCACTAAAAGCCT
47145684 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (22 bp):
AAAAAGCGTCACTAAAAGCCTA
Found at i:47147491 original size:44 final size:44
Alignment explanation
Indices: 47147433--47147657 Score: 173
Period size: 44 Copynumber: 5.2 Consensus size: 44
47147423 TGCAACTCTA
* * *
47147433 GAGAGATAAAATCTGTGGTTTTAATCCGCTCCACTACAACTTCG
1 GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCG
47147477 GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTC-
1 GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCG
* * * ** * * *
47147520 GAGGGGATAGGAT-TG-GTTTCTTTTGTCTGCTCCACTACGACTTAG
1 GA-GAGATAAGATCTGTG-GT-TTTAATCTGCTCCACTGCAACTTCG
* *** *
47147565 G-GAGATAAGA-CT-T-GATGCGATCTGCTCTACTGCAAC-TC-
1 GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCG
* **
47147603 CAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAG
1 GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTC-G
47147648 G-GAGATAAGA
1 GAGAGATAAGA
47147658 CTTGCTATCT
Statistics
Matches: 136, Mismatches: 32, Indels: 26
0.70 0.16 0.13
Matches are distributed among these distances:
39 10 0.07
40 16 0.12
41 1 0.01
42 17 0.12
43 15 0.11
44 76 0.56
45 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCG
Found at i:47159188 original size:109 final size:107
Alignment explanation
Indices: 47158999--47159228 Score: 334
Period size: 109 Copynumber: 2.1 Consensus size: 107
47158989 TGGATTAAGA
* * * * *
47158999 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAGTCGAAACCCAACACATTAGGGCACGTTT
1 TTTAAAAGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAACACATTAGGGCACGCTT
* * * *
47159064 TTTTGAATTTCCAAACGCAAAATATTGCCTTATTTTTAAATT
66 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
47159106 TTTAAAAGGATATTTAGCTATTTGGTCGAACAAGAAAAATCGAAACCTAGCACATTAGGGCACGC
1 TTTAAAAGGATATTTAGCTATTTGGTCGAAC--GAAAAATCGAAACCCAACACATTAGGGCACGC
*
47159171 TTTCTCGAATTTCCAAACGCGAAACATTGCCTTATTTTGAAATT
64 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
47159215 TTTAAAAGGATATT
1 TTTAAAAGGATATT
47159229 AGTATGCGTA
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
107 29 0.27
109 80 0.73
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (107 bp):
TTTAAAAGGATATTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAACACATTAGGGCACGCTT
TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:47164754 original size:7 final size:7
Alignment explanation
Indices: 47164742--47164825 Score: 50
Period size: 7 Copynumber: 11.6 Consensus size: 7
47164732 AGTATTTTGA
47164742 AAAATAT
1 AAAATAT
47164749 AAAATAT
1 AAAATAT
47164756 AAAA-ATT
1 AAAATA-T
*
47164763 ATAATAT
1 AAAATAT
47164770 AAAATAT
1 AAAATAT
47164777 ATAAAT-T
1 A-AAATAT
47164784 AATAA-A-
1 AA-AATAT
*
47164790 AAATTAT
1 AAAATAT
*
47164797 GAAATTAT
1 -AAAATAT
47164805 AACAAATAT
1 -A-AAATAT
47164814 AAATATAT
1 AAA-ATAT
47164822 AAAA
1 AAAA
47164826 GAACTAAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
5 1 0.02
6 5 0.08
7 30 0.48
8 21 0.34
9 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (7 bp):
AAAATAT
Found at i:47164760 original size:8 final size:8
Alignment explanation
Indices: 47164741--47164825 Score: 61
Period size: 8 Copynumber: 10.5 Consensus size: 8
47164731 TAGTATTTTG
47164741 AAAAATAT
1 AAAAATAT
47164749 -AAAATAT
1 AAAAATAT
47164756 AAAAAT-T
1 AAAAATAT
*
47164763 -ATAATAT
1 AAAAATAT
47164770 AAAATATAT
1 AAAA-ATAT
47164779 AAATTAATA-
1 AAA--AATAT
47164788 AAAAATTAT
1 AAAAA-TAT
* *
47164797 GAAATTAT
1 AAAAATAT
47164805 AACAAATAT
1 AA-AAATAT
*
47164814 AAATATAT
1 AAAAATAT
47164822 AAAA
1 AAAA
47164826 GAACTAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
6 4 0.07
7 11 0.18
8 21 0.35
9 20 0.33
10 3 0.05
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:47164768 original size:14 final size:15
Alignment explanation
Indices: 47164741--47164825 Score: 73
Period size: 17 Copynumber: 5.3 Consensus size: 15
47164731 TAGTATTTTG
47164741 AAAAATATAAAATAT
1 AAAAATATAAAATAT
*
47164756 AAAAAT-TATAATAT
1 AAAAATATAAAATAT
*
47164770 AAAATATATAAATTAAT
1 AAAA-ATATAAAAT-AT
*
47164787 AAAAAATTATGAAATTAT
1 -AAAAA-TAT-AAAATAT
47164805 AACAAATATAAATATAT
1 AA-AAATATAAA-ATAT
47164822 AAAA
1 AAAA
47164826 GAACTAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
14 11 0.19
15 8 0.14
16 9 0.16
17 13 0.22
18 12 0.21
19 5 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:47164768 original size:21 final size:21
Alignment explanation
Indices: 47164744--47164784 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47164734 TATTTTGAAA
47164744 AATATAAAATATAAAAATTAT
1 AATATAAAATATAAAAATTAT
*
47164765 AATATAAAATATATAAATTA
1 AATATAAAATATAAAAATTA
47164785 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATAAAATATAAAAATTAT
Found at i:47164778 original size:9 final size:9
Alignment explanation
Indices: 47164741--47164825 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 9
47164731 TAGTATTTTG
47164741 AAAA-ATAT
1 AAAATATAT
*
47164749 AAAATATAA
1 AAAATATAT
47164758 AAATTATAATAT
1 AAA--AT-ATAT
47164770 AAAATATAT
1 AAAATATAT
*
47164779 AAATTA-AT
1 AAAATATAT
*
47164787 AAAAAATTAT
1 AAAATA-TAT
*
47164797 GAAAT-TAT
1 AAAATATAT
47164805 AACAA-ATAT
1 AA-AATATAT
47164814 -AAATATAT
1 AAAATATAT
47164822 AAAA
1 AAAA
47164826 GAACTAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
7 2 0.03
8 19 0.32
9 23 0.39
10 7 0.12
11 2 0.03
12 6 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:47164792 original size:19 final size:19
Alignment explanation
Indices: 47164744--47164814 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
47164734 TATTTTGAAA
* *
47164744 AATATAAAATATAAAAATTAT
1 AATAAAAAATATATAAA-T-T
*
47164765 AATATAAAATATATAAATT
1 AATAAAAAATATATAAATT
47164784 AATAAAAAAT-TATGAAATT
1 AATAAAAAATATAT-AAATT
*
47164803 -ATAACAAATATA
1 AATAAAAAATATA
47164815 AATATATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.24
19 17 0.38
20 1 0.02
21 16 0.36
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
AATAAAAAATATATAAATT
Found at i:47189854 original size:16 final size:17
Alignment explanation
Indices: 47189835--47189868 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47189825 CAAATTCGAG
47189835 AAAATTC-AAGCTAAAA
1 AAAATTCGAAGCTAAAA
*
47189851 AAAATTCGAATCTAAAA
1 AAAATTCGAAGCTAAAA
47189868 A
1 A
47189869 GGATCGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAATTCGAAGCTAAAA
Found at i:47190039 original size:31 final size:31
Alignment explanation
Indices: 47189997--47190074 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
47189987 CACTTGTACT
* *
47189997 AAAAATTAATTAAACCCTCGTAAAATAATTG
1 AAAAATAAATTAAACCCTCATAAAATAATTG
* * * *
47190028 AAAAATAAATTAAGCCCTCATAAATTTATTT
1 AAAAATAAATTAAACCCTCATAAAATAATTG
*
47190059 AAAAATCAATTAAACC
1 AAAAATAAATTAAACC
47190075 TTTTTCATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (31 bp):
AAAAATAAATTAAACCCTCATAAAATAATTG
Found at i:47199730 original size:33 final size:33
Alignment explanation
Indices: 47199693--47199759 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
47199683 CAATGAAAGC
* *
47199693 AGCACTCATTCTTAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
47199726 AGCACTCATGCATAGTTTAAACAAATACACAGT
1 AGCACTCATGCATAGTTTAAACAAATACACAGT
47199759 A
1 A
47199760 CATTTCCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (33 bp):
AGCACTCATGCATAGTTTAAACAAATACACAGT
Found at i:47207834 original size:22 final size:23
Alignment explanation
Indices: 47207786--47207839 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
47207776 GACCCGTTTT
* *
47207786 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAACTATATTGTTA
47207809 TTAAAATTAAAACTA-ATTGTTA
1 TTAAAATTAAAACTATATTGTTA
47207831 TTAAAATTA
1 TTAAAATTA
47207840 TATCAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAAAATTAAAACTATATTGTTA
Found at i:47207848 original size:22 final size:22
Alignment explanation
Indices: 47207786--47207848 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
47207776 GACCCGTTTT
* * *
47207786 TTAAAATTAAAATTATATTTTTA
1 TTAAAATTAAAA-CAAATTGTTA
*
47207809 TTAAAATTAAAACTAATTGTTA
1 TTAAAATTAAAACAAATTGTTA
* *
47207831 TTAAAATTATATCAAATT
1 TTAAAATTAAAACAAATT
47207849 ATATATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAATTAAAACAAATTGTTA
Found at i:47210111 original size:7 final size:7
Alignment explanation
Indices: 47210100--47210142 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
47210090 CAGATGCACG
*
47210100 GGGAAAG
1 GGGAAAT
47210107 GGGAAAT
1 GGGAAAT
47210114 GGGAAAT
1 GGGAAAT
47210121 GGGAAAT
1 GGGAAAT
47210128 GGGAAAT
1 GGGAAAT
47210135 GGGAAAT
1 GGGAAAT
47210142 G
1 G
47210143 TAATAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.47, T:0.12
Consensus pattern (7 bp):
GGGAAAT
Found at i:47213276 original size:3 final size:3
Alignment explanation
Indices: 47213268--47213322 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
47213258 TGAAAGCATC
47213268 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
47213316 ATA ATA A
1 ATA ATA A
47213323 GGAATATCCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47213659 original size:6 final size:6
Alignment explanation
Indices: 47213648--47213680 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
47213638 AGCTTTACAA
47213648 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAA
47213681 TATAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:47218492 original size:35 final size:36
Alignment explanation
Indices: 47218452--47218537 Score: 113
Period size: 35 Copynumber: 2.4 Consensus size: 36
47218442 ATGCATTTTG
*
47218452 TTATATATATACATACGTACATATT-TTTAATTTA-T
1 TTATATATATACATACGTACATATTATTT-ATATACT
* *
47218487 TTATATATATACATACTTATATATTATTTATATACT
1 TTATATATATACATACGTACATATTATTTATATACT
*
47218523 TTATATATGTACATA
1 TTATATATATACATA
47218538 TATGTGTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
35 27 0.60
36 18 0.40
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.51
Consensus pattern (36 bp):
TTATATATATACATACGTACATATTATTTATATACT
Found at i:47224704 original size:23 final size:23
Alignment explanation
Indices: 47224678--47224744 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 23
47224668 TTTTGAGCAA
47224678 TATATTTTAAGTCATGGTAACTT
1 TATATTTTAAGTCATGGTAACTT
* *
47224701 TATA----AAATCATGATCAA---
1 TATATTTTAAGTCATGGT-AACTT
47224718 TATATTTTAAGTCATGGTAACTT
1 TATATTTTAAGTCATGGTAACTT
47224741 TATA
1 TATA
47224745 AAAACATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
17 4 0.12
19 8 0.25
20 4 0.12
21 8 0.25
23 8 0.25
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (23 bp):
TATATTTTAAGTCATGGTAACTT
Found at i:47226549 original size:27 final size:27
Alignment explanation
Indices: 47226484--47226553 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
47226474 CAAATTTTAG
* *
47226484 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
47226511 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
47226538 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
47226554 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:47227956 original size:14 final size:14
Alignment explanation
Indices: 47227933--47227974 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
47227923 ACAGAAAAGT
*
47227933 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
47227947 AAATCATTTTACGG
1 AAAACATTTTACAG
47227961 AAAACATTTTACAG
1 AAAACATTTTACAG
47227975 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:47227958 original size:34 final size:35
Alignment explanation
Indices: 47227898--47227964 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47227888 CAAACACCAG
* *
47227898 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
47227933 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
47227965 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:47241727 original size:14 final size:13
Alignment explanation
Indices: 47241702--47241726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47241692 AGTTTGGTAA
47241702 TATTTTTAAAAAG
1 TATTTTTAAAAAG
47241715 TATTTTTAAAAA
1 TATTTTTAAAAA
47241727 ATTTAATTTA
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TATTTTTAAAAAG
Found at i:47242645 original size:22 final size:23
Alignment explanation
Indices: 47242619--47242666 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
47242609 AAATCATTTT
47242619 TAGTCT-TTTATAACCCATCGGC
1 TAGTCTCTTTATAACCCATCGGC
47242641 TAGTCTCCTTTATAACCCATCGGC
1 TAGTCT-CTTTATAACCCATCGGC
47242665 TA
1 TA
47242667 ACCCATGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.25
24 18 0.75
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.35
Consensus pattern (23 bp):
TAGTCTCTTTATAACCCATCGGC
Found at i:47246358 original size:25 final size:26
Alignment explanation
Indices: 47246314--47246364 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
47246304 AAACCCCAAA
*
47246314 TTTTCTTTCTTTCCTTCCCT-TTTTC
1 TTTTCTTTCTTTCCTCCCCTGTTTTC
47246339 TTTTCTTTCCTTT-CTCCCCTGTTTTC
1 TTTTCTTT-CTTTCCTCCCCTGTTTTC
47246365 GTTTGCCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTCTTTCTTTCCTCCCCTGTTTTC
Found at i:47247131 original size:14 final size:15
Alignment explanation
Indices: 47247100--47247132 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47247090 GTTGGGATAT
*
47247100 TAGTTTTTAAAAATA
1 TAGTTTATAAAAATA
47247115 TAGTTTATAAAAA-A
1 TAGTTTATAAAAATA
47247129 TAGT
1 TAGT
47247133 CCCTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (15 bp):
TAGTTTATAAAAATA
Found at i:47251676 original size:61 final size:61
Alignment explanation
Indices: 47251581--47251702 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
47251571 GCCACATGAC
47251581 CGTGTACCCCCTCCACACGGTTCGGTCACATGGTCGTATGTCCCCTATTTTCAGATTTTAT
1 CGTGTACCCCCTCCACACGGTTCGGTCACATGGTCGTATGTCCCCTATTTTCAGATTTTAT
47251642 CGTGTACCCCCTCCACACGGTTCGGTCACATGGTCGTATGTCCCCTATTTTCAGATTTTAT
1 CGTGTACCCCCTCCACACGGTTCGGTCACATGGTCGTATGTCCCCTATTTTCAGATTTTAT
47251703 AAAATTTCCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.34
Consensus pattern (61 bp):
CGTGTACCCCCTCCACACGGTTCGGTCACATGGTCGTATGTCCCCTATTTTCAGATTTTAT
Found at i:47251729 original size:28 final size:28
Alignment explanation
Indices: 47251689--47251757 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
47251679 ATGTCCCCTA
*
47251689 TTTTCAGATTTTATAAAATTT-CCCTTAT
1 TTTTCAAATTTTA-AAAATTTGCCCTTAT
* * **
47251717 TTTTTAAATTTTACAGTTTTGCCCTTAT
1 TTTTCAAATTTTAAAAATTTGCCCTTAT
47251745 TTTTCAAATTTTA
1 TTTTCAAATTTTA
47251758 CAATTTTACC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.12
28 30 0.88
ACGTcount: A:0.26, C:0.13, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTTCAAATTTTAAAAATTTGCCCTTAT
Found at i:47251908 original size:28 final size:28
Alignment explanation
Indices: 47251710--47251902 Score: 205
Period size: 28 Copynumber: 6.9 Consensus size: 28
47251700 TATAAAATTT
* *
47251710 CCCTTATTTTTTAAATTTTACAGTTTTG
1 CCCTTATTTTTTAGATTTTACAATTTTG
* *
47251738 CCCTTATTTTTCAAATTTTACAATTTT-
1 CCCTTATTTTTTAGATTTTACAATTTTG
* *
47251765 ACCTCTATTTTCTAGATTTTACAATTTTG
1 CCCT-TATTTTTTAGATTTTACAATTTTG
* * *
47251794 CCCATGTTTTGTAGATTTTA-AAGTTTTG
1 CCCTTATTTTTTAGATTTTACAA-TTTTG
*
47251822 CCC-TATTTTTTAGATTTTACAGTTTTG
1 CCCTTATTTTTTAGATTTTACAATTTTG
* * * *
47251849 -CCTCTATTTTCTAGATTTTATAGTTTTA
1 CCCT-TATTTTTTAGATTTTACAATTTTG
47251877 CCCTTATTTTTTAGATTTTACAATTT
1 CCCTTATTTTTTAGATTTTACAATTT
47251903 CCCCCTACTT
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.01
27 24 0.17
28 108 0.78
29 5 0.04
ACGTcount: A:0.22, C:0.15, G:0.08, T:0.55
Consensus pattern (28 bp):
CCCTTATTTTTTAGATTTTACAATTTTG
Found at i:47251909 original size:83 final size:82
Alignment explanation
Indices: 47251686--47251920 Score: 249
Period size: 83 Copynumber: 2.8 Consensus size: 82
47251676 CGTATGTCCC
* * * * *
47251686 CTATTTTC-AGATTTTATAAAATTTCCCTTATTTTTTAAATTTTACAGTTTTGCCCTTATTTTTC
1 CTATTTTCTAGATTTTAT-AATTTTCCCTTATTTTTTAGATTTTACA-ATTTCCCCCTATTTTTC
47251750 AAATTTTACAATTTTACCT
64 AAATTTTACAATTTTACCT
* * * * ** *
47251769 CTATTTTCTAGATTTTACAATTTTGCCCATGTTTTGTAGATTTTA-AAGTTTTGCCCTATTTTTT
1 CTATTTTCTAGATTTTATAATTTT-CCCTTATTTTTTAGATTTTACAA-TTTCCCCCTATTTTTC
* * *
47251833 AGATTTTACAGTTTTGCCT
64 AAATTTTACAATTTTACCT
* * *
47251852 CTATTTTCTAGATTTTATAGTTTTACCCTTATTTTTTAGATTTTACAATTTCCCCCTACTTTACA
1 CTATTTTCTAGATTTTATAATTTT-CCCTTATTTTTTAGATTTTACAATTTCCCCCTATTTTTCA
47251917 AATT
65 AATT
47251921 ACAACTTTGC
Statistics
Matches: 122, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
83 96 0.79
84 26 0.21
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (82 bp):
CTATTTTCTAGATTTTATAATTTTCCCTTATTTTTTAGATTTTACAATTTCCCCCTATTTTTCAA
ATTTTACAATTTTACCT
Found at i:47252489 original size:43 final size:42
Alignment explanation
Indices: 47252400--47252627 Score: 102
Period size: 43 Copynumber: 5.1 Consensus size: 42
47252390 ATTTTCATCC
* * * **
47252400 TTTAACTGCAAATATGTTGTACATCTACAACCCATCAACA-ACT
1 TTTACCTGCAAATATGTTGTGCATCTACAGCCCAT-GGCAGA-T
47252443 TTTACCTGCAAATATGTTGTGCATCTACAGCCCAGTGGCAGAT
1 TTTACCTGCAAATATGTTGTGCATCTACAGCCCA-TGGCAGAT
* * * * * * *
47252486 TTTATCTGC-GATATTTTGCTATGCACCCACAGCCTAATGG-TGAT
1 TTTACCTGCAAATATGTTG---TGCATCTACAGCC-CATGGCAGAT
* * * * * *
47252530 GTTTATCCTTTAATTGCAAATATGTTTTACATCCATAACCCATCGGCAGCT
1 -TTTA-CC------TGCAAATATGTTGTGCATCTACAGCCCAT-GGCAGAT
* *
47252581 TTTACCTGCAAATATATTGTGCATCTACTGCCCAGTGGCAGAT
1 TTTACCTGCAAATATGTTGTGCATCTACAGCCCA-TGGCAGAT
47252624 TTTA
1 TTTA
47252628 TCTGTGATAT
Statistics
Matches: 136, Mismatches: 31, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
42 7 0.05
43 73 0.54
44 6 0.04
45 18 0.13
46 2 0.01
49 4 0.03
50 15 0.11
51 2 0.01
52 3 0.02
53 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (42 bp):
TTTACCTGCAAATATGTTGTGCATCTACAGCCCATGGCAGAT
Found at i:47252617 original size:138 final size:138
Alignment explanation
Indices: 47252369--47252659 Score: 413
Period size: 138 Copynumber: 2.1 Consensus size: 138
47252359 AAGTGGCAGG
* * ** *
47252369 TGCACCCACAACCCAGTGGCAAT-TTTCATCCTTTAACTGCAAATATGTTGTACATCTACAACCC
1 TGCACCCACAACCTAATGGTGATGTTT-ATCCTTTAACTGCAAATATGTTGTACATCCACAACCC
*
47252433 ATCAACAACTTTTACCTGCAAATATGTTGTGCATCTACAGCCCAGTGGCAGATTTTATCTGCGAT
65 ATCAACAACTTTTACCTGCAAATATATTGTGCATCTACAGCCCAGTGGCAGATTTTATCTGCGAT
47252498 ATTTTGCTA
130 ATTTTGCTA
* * * *
47252507 TGCACCCACAGCCTAATGGTGATGTTTATCCTTTAATTGCAAATATGTTTTACATCCATAACCCA
1 TGCACCCACAACCTAATGGTGATGTTTATCCTTTAACTGCAAATATGTTGTACATCCACAACCCA
** * * *
47252572 TCGGCAGCTTTTACCTGCAAATATATTGTGCATCTACTGCCCAGTGGCAGATTTTATCTGTGATA
66 TCAACAACTTTTACCTGCAAATATATTGTGCATCTACAGCCCAGTGGCAGATTTTATCTGCGATA
*
47252637 TTTTGCTG
131 TTTTGCTA
*
47252645 TGTACCCACAACCTA
1 TGCACCCACAACCTA
47252660 GTGGCAGGTT
Statistics
Matches: 134, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 131 0.98
139 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (138 bp):
TGCACCCACAACCTAATGGTGATGTTTATCCTTTAACTGCAAATATGTTGTACATCCACAACCCA
TCAACAACTTTTACCTGCAAATATATTGTGCATCTACAGCCCAGTGGCAGATTTTATCTGCGATA
TTTTGCTA
Found at i:47252699 original size:45 final size:45
Alignment explanation
Indices: 47252611--47252715 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
47252601 GCATCTACTG
* * *
47252611 CCCAGTGGCAGATTTTATCTGTGATATTTTGCTGTGTACCCACAA
1 CCCAGTGGCAGATTTCATCTATGATATTTTACTGTGTACCCACAA
* * * * *
47252656 CCTAGTGGCAGGTTTCATCTATGA-ATTTTTACTTTGTATCCACAG
1 CCCAGTGGCAGATTTCATCTATGATA-TTTTACTGTGTACCCACAA
*
47252701 CCCAGTGGAAGATTT
1 CCCAGTGGCAGATTT
47252716 TATTTGCAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (45 bp):
CCCAGTGGCAGATTTCATCTATGATATTTTACTGTGTACCCACAA
Found at i:47253783 original size:87 final size:86
Alignment explanation
Indices: 47253638--47253801 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
47253628 TACATGCATA
* * * *
47253638 AGGTTGACTTCTTTCTCTTAATGAATTCATATCCTAAAGTTTTGGTGGTATTATTGAGACGGACT
1 AGGTTGACTTCTTACTCTTAATGAATTCATATCCTAAAGTTTGGGTGGTACTATTGAGACGAACT
47253703 TGATGAATTCATCAACATGTG
66 TGATGAATTCATCAACATGTG
* * * *
47253724 AGGTTGAATTTCTTACTCTTAATGAGTTCATATTCTAGAA-TTTGGGTGGTCCTATTGAGACGAA
1 AGGTTG-ACTTCTTACTCTTAATGAATTCATATCCTA-AAGTTTGGGTGGTACTATTGAGACGAA
47253788 CTTGATGAATTCAT
64 CTTGATGAATTCAT
47253802 TGAACTTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 6 0.09
87 60 0.88
88 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (86 bp):
AGGTTGACTTCTTACTCTTAATGAATTCATATCCTAAAGTTTGGGTGGTACTATTGAGACGAACT
TGATGAATTCATCAACATGTG
Found at i:47254947 original size:18 final size:20
Alignment explanation
Indices: 47254905--47254952 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
47254895 TTTATGAAGT
*
47254905 TTTTAAAATTATTTTTAATA
1 TTTTAAAATTATTTTTAAGA
47254925 TTTTAAAATTA-TTTT-AGA
1 TTTTAAAATTATTTTTAAGA
*
47254943 TTTTAGAATT
1 TTTTAAAATT
47254953 TTACTTAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
20 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTAAAATTATTTTTAAGA
Found at i:47255120 original size:15 final size:15
Alignment explanation
Indices: 47255102--47255137 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
47255092 GTTAATAATA
47255102 AAAATGTATAGTTCT
1 AAAATGTATAGTTCT
47255117 AAAATGTATAGTTCT
1 AAAATGTATAGTTCT
47255132 AAAATG
1 AAAATG
47255138 GTAAGCCATT
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:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (15 bp):
AAAATGTATAGTTCT
Found at i:47255927 original size:25 final size:25
Alignment explanation
Indices: 47255899--47255977 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
47255889 CTCGTTTGGT
* * *
47255899 CTTACCGTTACTCAGCTCGCATGAG
1 CTTACCATTACTCAGCTCGAAAGAG
* **
47255924 CTTATCATTTTTCAGCTCGAAAGAG
1 CTTACCATTACTCAGCTCGAAAGAG
*
47255949 CTTACCATTA--CAGCTCGTAAGAG
1 CTTACCATTACTCAGCTCGAAAGAG
*
47255972 CATACC
1 CTTACC
47255978 GATTCAAAGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
23 17 0.39
25 27 0.61
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (25 bp):
CTTACCATTACTCAGCTCGAAAGAG
Found at i:47255970 original size:23 final size:25
Alignment explanation
Indices: 47255936--47256001 Score: 82
Period size: 23 Copynumber: 2.7 Consensus size: 25
47255926 TATCATTTTT
* *
47255936 CAGCTCGAAAGAGCTTACC-ATT-A
1 CAGCTCGTAAGAGCATACCGATTCA
47255959 CAGCTCGTAAGAGCATACCGATTCA
1 CAGCTCGTAAGAGCATACCGATTCA
* *
47255984 AAGCTCGTATGAGCATAC
1 CAGCTCGTAAGAGCATAC
47256002 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 17 0.46
24 3 0.08
25 17 0.46
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (25 bp):
CAGCTCGTAAGAGCATACCGATTCA
Found at i:47258887 original size:36 final size:38
Alignment explanation
Indices: 47258814--47258906 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 38
47258804 TAGATCTTCC
* * *
47258814 CAAG-CTCCTGAAAGAGATAT-TAGGTATTCTTAGTCT
1 CAAGACTCCTGAATGAGATATCTAGGTATTCTCAATCT
*
47258850 CAA-ACTCCTGAATGAGATATCTA-GTCTTCTCAATCT
1 CAAGACTCCTGAATGAGATATCTAGGTATTCTCAATCT
*
47258886 CAAGA-TCCTGAATAAGATATC
1 CAAGACTCCTGAATGAGATATC
47258907 GAGTTTTCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
36 46 0.94
37 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (38 bp):
CAAGACTCCTGAATGAGATATCTAGGTATTCTCAATCT
Found at i:47264423 original size:16 final size:17
Alignment explanation
Indices: 47264402--47264438 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
47264392 AGATGAAAAA
47264402 GAAAG-AAAGGAAAGGG
1 GAAAGAAAAGGAAAGGG
47264418 GAAAGAAAAGGAAAGGG
1 GAAAGAAAAGGAAAGGG
47264435 GAAA
1 GAAA
47264439 ACTAGGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAGGAAAGGG
Found at i:47265564 original size:23 final size:23
Alignment explanation
Indices: 47265537--47265622 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
47265527 GTTTTGCCGA
*
47265537 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
**
47265560 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
* **
47265581 TCAGGCACCTTGTGTGT--TGCT
1 TCAGGCACCTTATGTGTCGTATT
*
47265602 TCAGGCA-CTTATGTGCCGTAT
1 TCAGGCACCTTATGTGTCGTAT
47265623 ACTGATTAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 7 0.14
21 23 0.46
22 1 0.02
23 18 0.36
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:47269466 original size:13 final size:13
Alignment explanation
Indices: 47269448--47269473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47269438 TGCTAAATAA
47269448 GAAACTTTTGGCT
1 GAAACTTTTGGCT
47269461 GAAACTTTTGGCT
1 GAAACTTTTGGCT
47269474 TTTCAAACGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
GAAACTTTTGGCT
Found at i:47274394 original size:31 final size:32
Alignment explanation
Indices: 47274325--47274394 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 32
47274315 ATTTTAAAAT
47274325 AAAATAACACAAATGTGTTAAAATAATTAATTA
1 AAAATAACACAAATGTGTT-AAATAATTAATTA
*
47274358 AAAATAATACAAATGTGTT-AAT-ATGTAATTA
1 AAAATAACACAAATGTGTTAAATAAT-TAATTA
*
47274389 CAAATA
1 AAAATA
47274395 TTTAATGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.06
31 14 0.41
33 18 0.53
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (32 bp):
AAAATAACACAAATGTGTTAAATAATTAATTA
Found at i:47286920 original size:18 final size:18
Alignment explanation
Indices: 47286899--47286933 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47286889 CTGGGGTAGG
47286899 TTTGGG-TTTCAGTTTGGT
1 TTTGGGCTTT-AGTTTGGT
47286917 TTTGGGCTTTAGTTTGG
1 TTTGGGCTTTAGTTTGG
47286934 GTACTAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.06, C:0.06, G:0.34, T:0.54
Consensus pattern (18 bp):
TTTGGGCTTTAGTTTGGT
Found at i:47288229 original size:27 final size:27
Alignment explanation
Indices: 47288176--47288230 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
47288166 TGCCAGTAGG
*
47288176 TCTGGCGAGCTAGTGTTCGATCTTTGA
1 TCTGGCGAGCTAGTGTTCGATCGTTGA
* *
47288203 TCTGGCGAGCT-GATGTTCGCTGGTTGA
1 TCTGGCGAGCTAG-TGTTCGATCGTTGA
47288230 T
1 T
47288231 TCAGCGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.13, C:0.18, G:0.33, T:0.36
Consensus pattern (27 bp):
TCTGGCGAGCTAGTGTTCGATCGTTGA
Found at i:47293818 original size:109 final size:109
Alignment explanation
Indices: 47293627--47293826 Score: 391
Period size: 109 Copynumber: 1.8 Consensus size: 109
47293617 TTTCTAATTG
47293627 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
47293692 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTATAAAATA
66 CGTTCAACCAAATAGCTAAACATCCTTTCAAAAATTATAAAATA
47293736 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
47293801 CGTTCAACCAAATAGCTAAACATCCT
66 CGTTCAACCAAATAGCTAAACATCCT
47293827 CTTGAATTTT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 90 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATAGCTAAACATCCTTTCAAAAATTATAAAATA
Found at i:47302252 original size:23 final size:23
Alignment explanation
Indices: 47302205--47302253 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
47302195 TTACTTTCTC
*
47302205 AATAAGAAGTTCACCGAATGCGA
1 AATAAGAAGTTCACCGAATGAGA
47302228 AATAAGATA-TTCACC-AATCGAGA
1 AATAAGA-AGTTCACCGAAT-GAGA
47302251 AAT
1 AAT
47302254 TATGCTGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 19 0.83
24 1 0.04
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (23 bp):
AATAAGAAGTTCACCGAATGAGA
Found at i:47305775 original size:25 final size:25
Alignment explanation
Indices: 47305747--47305796 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47305737 CAGTTAAAAA
* *
47305747 GATTAAAGCCACATCTGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
47305772 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
47305797 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:47305900 original size:25 final size:25
Alignment explanation
Indices: 47305872--47305921 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47305862 CAGTTAAAAA
* *
47305872 GATTAAAGCCACATCAGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
47305897 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
47305922 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:47306043 original size:25 final size:25
Alignment explanation
Indices: 47305997--47306046 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
47305987 CAGTTAAAAA
* * *
47305997 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
47306022 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
47306047 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:47306150 original size:25 final size:25
Alignment explanation
Indices: 47306122--47306171 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47306112 CAGTTAAAAA
* *
47306122 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
*
47306147 GATTAAAGCTACAACAGTGAATCTT
1 GATTAAAGCCACAACAGTGAATCTT
47306172 ACGCCCCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
GATTAAAGCCACAACAGTGAATCTT
Found at i:47306418 original size:25 final size:25
Alignment explanation
Indices: 47306372--47306421 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
47306362 CAGTTAAAAA
* * *
47306372 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
47306397 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
47306422 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Done.