Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 13 of 204
Found at i:4041591 original size:22 final size:22
Alignment explanation
Indices: 4041566--4041607 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4041556 TTTTAACTTT
*
4041566 ATTAAAAATTTTAGAAGTTTCC
1 ATTAAAAATATTAGAAGTTTCC
* *
4041588 ATTACAAATATTAGATGTTT
1 ATTAAAAATATTAGAAGTTT
4041608 TTGATGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (22 bp):
ATTAAAAATATTAGAAGTTTCC
Found at i:4047218 original size:24 final size:24
Alignment explanation
Indices: 4047191--4047237 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4047181 AGCTCTAAAC
*
4047191 AGCAATTAAC-AGGTAGCACCGAAG
1 AGCAATTAACGA-GAAGCACCGAAG
4047215 AGCAATTAACGAGAAGCACCGAA
1 AGCAATTAACGAGAAGCACCGAA
4047238 TAGCCATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (24 bp):
AGCAATTAACGAGAAGCACCGAAG
Found at i:4056711 original size:8 final size:8
Alignment explanation
Indices: 4056692--4056728 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
4056682 TGGGTCAAAA
4056692 TTAAAA-T
1 TTAAAATT
4056699 TTAAAATT
1 TTAAAATT
4056707 TTAAAATT
1 TTAAAATT
4056715 TTAAAATT
1 TTAAAATT
4056723 TTAAAA
1 TTAAAA
4056729 AAATATTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TTAAAATT
Found at i:4067437 original size:29 final size:28
Alignment explanation
Indices: 4067389--4067450 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 28
4067379 CAACTTAACA
4067389 AACAAATACCTAAAATAATAAC-AAATT
1 AACAAATACCTAAAATAATAACAAAATT
4067416 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATA-C-CTAAAATAATAACAAAATT
4067446 AACAA
1 AACAA
4067451 TAAAGCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 8 0.25
28 1 0.03
29 13 0.41
30 10 0.31
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (28 bp):
AACAAATACCTAAAATAATAACAAAATT
Found at i:4082720 original size:7 final size:7
Alignment explanation
Indices: 4082708--4082741 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4082698 TTTGATAAAA
4082708 ATATATT
1 ATATATT
4082715 ATATATT
1 ATATATT
4082722 ATATATT
1 ATATATT
4082729 ATATATT
1 ATATATT
4082736 ATATAT
1 ATATAT
4082742 AAAGACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:4088900 original size:46 final size:46
Alignment explanation
Indices: 4088797--4089172 Score: 413
Period size: 46 Copynumber: 8.6 Consensus size: 46
4088787 TACGTATGAT
*
4088797 CACTTATCAC-TTATC-CTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
4088840 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
4088886 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
4088932 CACTTATCA-TTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTT-TCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
4088978 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A---T--
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *** *
4089014 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGT-A-GC-TAAGGC-TAC
4089064 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
4089100 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTTC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
4089146 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
4089173 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 13, Indels: 55
0.81 0.04 0.15
Matches are distributed among these distances:
36 59 0.20
38 5 0.02
39 1 0.00
40 1 0.00
41 2 0.01
42 2 0.01
43 12 0.04
44 7 0.02
45 25 0.09
46 141 0.48
47 4 0.01
48 2 0.01
50 30 0.10
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:4089019 original size:36 final size:36
Alignment explanation
Indices: 4088978--4089059 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
4088968 CTAAAGCTAC
*
4088978 CACTTATCACTTTGTCACTTGATCAGATAAGTATAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
4089014 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
4089050 CACTTATCAC
1 CACTTATCAC
4089060 ATAGCACTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
Found at i:4089073 original size:50 final size:50
Alignment explanation
Indices: 4089014--4089109 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
4089004 ATAAGTATAT
4089014 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACATAG
*
4089064 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCACTTATCAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCAC
4089110 TTTTTCACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (50 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACATAG
Found at i:4089100 original size:36 final size:36
Alignment explanation
Indices: 4089060--4089136 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
4089050 CACTTATCAC
4089060 ATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
1 ATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
4089096 ATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
1 ATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
*
4089132 GTAGC
1 ATAGC
4089137 TAAAGCTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (36 bp):
ATAGCACTTATCACTTTTTCACTTGATCAGATAAGT
Found at i:4092058 original size:17 final size:18
Alignment explanation
Indices: 4092022--4092062 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4092012 ATGTACATAC
4092022 AAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAA
* *
4092040 AAAATAAAA-AAATTGAA
1 AAAATAAAATAAAATAAA
4092057 AAAATA
1 AAAATA
4092063 TATTTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:4092333 original size:3 final size:3
Alignment explanation
Indices: 4092304--4092352 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
4092294 GTATGTAAGT
* * *
4092304 ATA ATT ATA ATA CTA TATA AT- ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4092349 ATA A
1 ATA A
4092353 CAACAAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:4092386 original size:13 final size:12
Alignment explanation
Indices: 4092357--4092385 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4092347 TAATAACAAC
4092357 AAAAACTAAAAA
1 AAAAACTAAAAA
4092369 AAAAACTAAAAA
1 AAAAACTAAAAA
4092381 AAAAA
1 AAAAA
4092386 AACCTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAACTAAAAA
Found at i:4093611 original size:77 final size:77
Alignment explanation
Indices: 4093519--4093702 Score: 325
Period size: 77 Copynumber: 2.4 Consensus size: 77
4093509 CTGGTGCTCC
4093519 AATCTGCCCCACTCTAATTTCAGGGAGATAGGATTCATACATCGTAGCTTCTCAAAAGAACAAAA
1 AATCTGCCCCACTCTAATTTCAGGGAGATAGGATTCATACATCGTAGCTTCTCAAAAGAACAAAA
4093584 ATTGCTATCTTT
66 ATTGCTATCTTT
*
4093596 AATCTGCCCCACTCTAATGTCAGGGAGATAGGATTCATACATCGTAGCTTCTCAAAAGAACAAAA
1 AATCTGCCCCACTCTAATTTCAGGGAGATAGGATTCATACATCGTAGCTTCTCAAAAGAACAAAA
4093661 ATTGCTATCTTT
66 ATTGCTATCTTT
* *
4093673 AATCTGCTCCACTGC-AACTTCAGGGAGATA
1 AATCTGCCCCACT-CTAATTTCAGGGAGATA
4093703 AGACTTATAG
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 101 0.99
78 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (77 bp):
AATCTGCCCCACTCTAATTTCAGGGAGATAGGATTCATACATCGTAGCTTCTCAAAAGAACAAAA
ATTGCTATCTTT
Found at i:4093955 original size:45 final size:45
Alignment explanation
Indices: 4093875--4094140 Score: 281
Period size: 44 Copynumber: 6.0 Consensus size: 45
4093865 ATAAGACTTG
* * *** *
4093875 TTTCTTTGATCTAATTCA-CGCCAGTACATGAAGACAAGATATGC
1 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
* * * *
4093919 TATCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCT-A
1 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
* *** *
4093963 TTTCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGT
1 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
* *
4094007 TTTCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-
1 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
* *** *
4094051 TTTCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGT
1 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
* *
4094095 TTTATTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
4094140 T
1 T
4094141 GCTTTTCAAC
Statistics
Matches: 180, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
43 39 0.22
44 81 0.45
45 60 0.33
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (45 bp):
TTTCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
Found at i:4094138 original size:88 final size:88
Alignment explanation
Indices: 4093860--4094138 Score: 452
Period size: 88 Copynumber: 3.2 Consensus size: 88
4093850 TGCAACTTCA
* * * * *
4093860 GGGAGATAAGA-CTTGTTTCTTTGATCTAATTCACGCCAGTACATGAAGACAAGATATGCTATCT
1 GGGAGACAAGATC-TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
4093924 TTGATCTACTCCACCACCAGTATG
65 TTGATCTACTCCACCACCAGTATG
*
4093948 GGGAGACAAGATCTATTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
4094013 TGATCTACTCCACCACCAGTATG
66 TGATCTACTCCACCACCAGTATG
*
4094036 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTATT
1 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
* *
4094101 TGATCTACTTCGCCACCAGTATG
66 TGATCTACTCCACCACCAGTATG
*
4094124 GGAAGACAAGATCTG
1 GGGAGACAAGATCTG
4094139 CTGCTTTTCA
Statistics
Matches: 179, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
88 178 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (88 bp):
GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
TGATCTACTCCACCACCAGTATG
Found at i:4095509 original size:47 final size:47
Alignment explanation
Indices: 4095438--4095529 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
4095428 CCATTTTTTA
* * *
4095438 TTTTTTATTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTC
1 TTTTTTATTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
*
4095485 TTTTTT-TTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTATTT-ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
4095530 CCATCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 3 0.08
47 37 0.93
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (47 bp):
TTTTTTATTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
Found at i:4095539 original size:47 final size:47
Alignment explanation
Indices: 4095448--4095540 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 47
4095438 TTTTTTATTT
* * * * * *
4095448 ACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTTTTTTTTG
1 ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCATCTTTTTTG
*
4095495 ACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCATCTTTTTT
1 ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCATCTTTTTT
4095541 AAGCAGAGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.42
Consensus pattern (47 bp):
ACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCATCTTTTTTG
Found at i:4107949 original size:29 final size:29
Alignment explanation
Indices: 4107912--4107970 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4107902 AAATAAGATT
* * *
4107912 TTTAAAAAATATATGTATATGTATATATA
1 TTTAAAAAAAAAATGTATAAGTATATATA
*
4107941 TTTACAAAAAAAATGTATAAGTATATATA
1 TTTAAAAAAAAAATGTATAAGTATATATA
4107970 T
1 T
4107971 AAAATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (29 bp):
TTTAAAAAAAAAATGTATAAGTATATATA
Found at i:4108215 original size:3 final size:3
Alignment explanation
Indices: 4108207--4108245 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
4108197 ATATGTATAG
*
4108207 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4108246 AATCATAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4109981 original size:132 final size:132
Alignment explanation
Indices: 4109823--4110981 Score: 2052
Period size: 132 Copynumber: 8.8 Consensus size: 132
4109813 TCTTGTGGTT
* *
4109823 TTCAATCTACTCCACTGCTGCTCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
4109887 CACAGGGAGGTAAAATTCACCATCTTTGATATGCTCCACTACTGCTTAGGGAGACAAGATCTGAA
65 CACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
4109952 ATC
130 ATC
*
4109955 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110020 ACAGGAAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110085 TC
131 TC
4110087 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110152 ACAGGGAGGTAAAATTCACCATATTTGATC-GCTCCACTACTGCTTGGGGAGACAAGATCTAAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110216 TC
131 TC
*
4110218 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
4110283 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110348 TC
131 TC
4110350 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110415 ACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110480 TC
131 TC
*
4110482 TTCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110547 ACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110612 TC
131 TC
* **
4110614 TTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACCATAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110679 ACAGGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGTTTGGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110744 TC
131 TC
* *
4110746 TTCAATCTATTCCATTGCTGCCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110811 ACATGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAAATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4110876 TC
131 TC
*
4110878 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4110943 ACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACT
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
4110982 GTCTATGCAG
Statistics
Matches: 985, Mismatches: 40, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
131 127 0.13
132 856 0.87
133 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
TC
Found at i:4109982 original size:44 final size:44
Alignment explanation
Indices: 4109920--4110114 Score: 105
Period size: 44 Copynumber: 4.4 Consensus size: 44
4109910 CTTTGATATG
* **
4109920 CTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA
1 CTCCACTGCTGCCCAGGGAGACAAGATCTGAAATCTTCAATCTA
* * * * *
4109964 TTCCACTGCTGCCCAGGGAAGTAGAA-TTACTG---GCTTCAATGTA
1 CTCCACTGCTGCCCAGGG-AG-ACAAGAT-CTGAAATCTTCAATCTA
* ** * * * ** *
4110007 CTCCACTG-TAGCCACAGGAAGGTAAAAT-TCACCATCTTTGATCTG
1 CTCCACTGCT-GCC-CAGGGAGACAAGATCTGA-AATCTTCAATCTA
* **
4110052 CTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA
1 CTCCACTGCTGCCCAGGGAGACAAGATCTGAAATCTTCAATCTA
*
4110096 TTCCACTGCTGCCCAGGGA
1 CTCCACTGCTGCCCAGGGA
4110115 AGTAGAATTA
Statistics
Matches: 104, Mismatches: 35, Indels: 24
0.64 0.21 0.15
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 22 0.21
44 51 0.49
45 20 0.19
46 7 0.07
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCACTGCTGCCCAGGGAGACAAGATCTGAAATCTTCAATCTA
Found at i:4110012 original size:43 final size:43
Alignment explanation
Indices: 4109954--4110409 Score: 126
Period size: 44 Copynumber: 10.4 Consensus size: 43
4109944 GATCTGAAAT
*
4109954 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
* * ***
4109997 CTTCAATGTACTCCACTG-TAGCCACA-GGAAGGTAAAATTCACCAT
1 CTTCAATCTACTCCACTGCT-GCC-CAGGGAA-GTAGAATT-ACTGG
** * * ** * * *
4110042 CTTTGATCTGCTCCACTACTGCTTAGGG-AG-ACAA-GATCTGAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTA-CTG---G
*
4110086 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
* * * * ***
4110129 CTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCAT
1 CTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATT-ACTGG
* ** * * *** ** ****
4110174 ATTTGATC-GCTCCACTACTGCTTGGGGAGACAAG-ATCTAAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGA-AGTAGAAT-TACTGG
* *
4110217 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
* * * * ***
4110260 CTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCAT
1 CTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATT-ACTGG
** * * ** * * * *
4110305 CTTTGATCTGCTCCACTACTG-CTTGGGGAG-ACAA-GATCTGAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTA-CTG---G
*
4110349 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
*
4110392 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
4110410 TAACCACAGA
Statistics
Matches: 279, Mismatches: 102, Indels: 64
0.63 0.23 0.14
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 9 0.03
43 99 0.35
44 103 0.37
45 48 0.17
46 14 0.05
47 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
Found at i:4112131 original size:6 final size:7
Alignment explanation
Indices: 4112112--4112162 Score: 77
Period size: 7 Copynumber: 7.3 Consensus size: 7
4112102 TTAGCCTCTC
4112112 CATTTTT
1 CATTTTT
*
4112119 AATTTTT
1 CATTTTT
4112126 CATTTTT
1 CATTTTT
4112133 CATTTTT
1 CATTTTT
4112140 CA-TTTT
1 CATTTTT
4112146 CATCTTTT
1 CAT-TTTT
4112154 CATTTTT
1 CATTTTT
4112161 CA
1 CA
4112163 CATCACTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 6 0.15
7 27 0.68
8 7 0.17
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:4112174 original size:21 final size:21
Alignment explanation
Indices: 4112128--4112174 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4112118 TAATTTTTCA
**
4112128 TTTTTCATTTTTCATTTTCAT
1 TTTTTCATTTTTCATCATCAT
*
4112149 CTTTTCATTTTTCA-CATCACT
1 TTTTTCATTTTTCATCATCA-T
4112170 TTTTT
1 TTTTT
4112175 TTTGGACTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTCATTTTTCATCATCAT
Found at i:4115092 original size:19 final size:19
Alignment explanation
Indices: 4115052--4115093 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4115042 ATAATCTTTG
* *
4115052 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
4115071 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
4115090 ATGC
1 ATGC
4115094 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:4115141 original size:13 final size:13
Alignment explanation
Indices: 4115123--4115148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4115113 TGTTCAATTT
4115123 TTTACTAGAAAAC
1 TTTACTAGAAAAC
4115136 TTTACTAGAAAAC
1 TTTACTAGAAAAC
4115149 AAATCCCTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:4116951 original size:29 final size:29
Alignment explanation
Indices: 4116914--4116972 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4116904 AAATAAGATT
* * *
4116914 TTTAAAAAATATATGTATATGTATATATA
1 TTTAAAAAAAAAATGTATAAGTATATATA
*
4116943 TTTACAAAAAAAATGTATAAGTATATATA
1 TTTAAAAAAAAAATGTATAAGTATATATA
4116972 T
1 T
4116973 AAAATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.41
Consensus pattern (29 bp):
TTTAAAAAAAAAATGTATAAGTATATATA
Found at i:4116998 original size:16 final size:16
Alignment explanation
Indices: 4116967--4117008 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4116957 GTATAAGTAT
4116967 ATATATAAAATATAAA
1 ATATATAAAATATAAA
*
4116983 GTATATAAAAGT-TAAA
1 ATATATAAAA-TATAAA
*
4116999 AAATATAAAA
1 ATATATAAAA
4117009 AAAACGTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
ATATATAAAATATAAA
Found at i:4117217 original size:3 final size:3
Alignment explanation
Indices: 4117209--4117253 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
4117199 ATATGTATAG
*
4117209 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4117254 AATCATAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4122097 original size:7 final size:7
Alignment explanation
Indices: 4122085--4122119 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
4122075 AAGTAATCCT
4122085 TACAGGA
1 TACAGGA
4122092 TACAGGA
1 TACAGGA
4122099 TACAGGA
1 TACAGGA
4122106 TACAGGA
1 TACAGGA
4122113 TACAGGA
1 TACAGGA
4122120 ACCTGGAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (7 bp):
TACAGGA
Found at i:4124592 original size:37 final size:37
Alignment explanation
Indices: 4124542--4124620 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
4124532 CAAGGTTTGC
4124542 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
1 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
4124579 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
1 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
4124616 ACTTC
1 ACTTC
4124621 ATCACAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.38, G:0.08, T:0.30
Consensus pattern (37 bp):
ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
Found at i:4128450 original size:23 final size:22
Alignment explanation
Indices: 4128379--4128464 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
4128369 CCTGATTAGT
*
4128379 ATACGACACAT-AAGTGTCTGA
1 ATACGACACATAAAGTGCCTGA
** *
4128400 A-ACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTGA
4128420 ATACGACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTG-A
4128443 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
4128465 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 9 0.16
21 24 0.44
22 1 0.02
23 21 0.38
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:4128461 original size:44 final size:41
Alignment explanation
Indices: 4128379--4128465 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
4128369 CCTGATTAGT
* * *
4128379 ATACGACACATAAGTGTCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
4128420 ATACGACACATAAAGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTG-AA-ACGACACACAAAGTGCCTG
4128464 AT
1 AT
4128466 CGGCAAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 8 0.21
43 2 0.05
44 18 0.46
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:4129427 original size:16 final size:16
Alignment explanation
Indices: 4129408--4129441 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4129398 TTACTTACTT
*
4129408 TATTTTAATAATAATA
1 TATTATAATAATAATA
*
4129424 TATTATAATAATCATA
1 TATTATAATAATAATA
4129440 TA
1 TA
4129442 ATAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATAATAATAATA
Found at i:4129623 original size:15 final size:16
Alignment explanation
Indices: 4129605--4129636 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4129595 TTAATTAATA
4129605 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
4129620 TAATTTAATAATATTT
1 TAATTTAATAATATTT
4129636 T
1 T
4129637 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:4129627 original size:25 final size:26
Alignment explanation
Indices: 4129592--4129644 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
4129582 TATTATCTTA
4129592 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
4129616 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
4129643 AT
1 AT
4129645 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:4130580 original size:15 final size:15
Alignment explanation
Indices: 4130557--4130617 Score: 86
Period size: 15 Copynumber: 3.9 Consensus size: 15
4130547 TTTAAATATC
*
4130557 AAAACCCTTTGTTTT
1 AAAAACCTTTGTTTT
4130572 AAAAACCTTTGTTTAT
1 AAAAACCTTTGTTT-T
*
4130588 CAAAACCCTTTGTTTT
1 -AAAAACCTTTGTTTT
4130604 AAAAACCTTTGTTT
1 AAAAACCTTTGTTT
4130618 ACACTTTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
15 26 0.63
16 2 0.05
17 13 0.32
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (15 bp):
AAAAACCTTTGTTTT
Found at i:4130594 original size:32 final size:32
Alignment explanation
Indices: 4130553--4130618 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
4130543 GACATTTAAA
4130553 TATCAAAACCCTTTGTTTTAAAAACCTTTGTT
1 TATCAAAACCCTTTGTTTTAAAAACCTTTGTT
4130585 TATCAAAACCCTTTGTTTTAAAAACCTTTGTT
1 TATCAAAACCCTTTGTTTTAAAAACCTTTGTT
4130617 TA
1 TA
4130619 CACTTTCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (32 bp):
TATCAAAACCCTTTGTTTTAAAAACCTTTGTT
Found at i:4143531 original size:18 final size:20
Alignment explanation
Indices: 4143510--4143548 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4143500 AAAGTAATGG
4143510 AGGAAAA-AAA-AAAGAAAA
1 AGGAAAAGAAACAAAGAAAA
*
4143528 AGGAAAAGAAACAATGAAAA
1 AGGAAAAGAAACAAAGAAAA
4143548 A
1 A
4143549 TGGTGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AGGAAAAGAAACAAAGAAAA
Found at i:4153000 original size:30 final size:30
Alignment explanation
Indices: 4152964--4153023 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4152954 TATTTAGAGT
4152964 TTGATTTTCGAGTAATTGAAATTAAATATG
1 TTGATTTTCGAGTAATTGAAATTAAATATG
4152994 TTGATTTTCGAGTAATTGAAATTAAATATG
1 TTGATTTTCGAGTAATTGAAATTAAATATG
4153024 AATTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (30 bp):
TTGATTTTCGAGTAATTGAAATTAAATATG
Found at i:4154637 original size:79 final size:79
Alignment explanation
Indices: 4154506--4154657 Score: 304
Period size: 79 Copynumber: 1.9 Consensus size: 79
4154496 CATGGTTTTC
4154506 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
1 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
4154571 TAATTGAAGTTTAA
66 TAATTGAAGTTTAA
4154585 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
1 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
4154650 TAATTGAA
66 TAATTGAA
4154658 TAAATACAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (79 bp):
TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
TAATTGAAGTTTAA
Found at i:4159002 original size:15 final size:17
Alignment explanation
Indices: 4158982--4159013 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4158972 CTATGCTTTC
4158982 GTCA-TTGGA-AGCTAT
1 GTCATTTGGACAGCTAT
4158997 GTCATTTGGACAGCTAT
1 GTCATTTGGACAGCTAT
4159014 TGCCGGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (17 bp):
GTCATTTGGACAGCTAT
Found at i:4166715 original size:27 final size:28
Alignment explanation
Indices: 4166665--4166734 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
4166655 AAATAAAAAA
*
4166665 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAAAATATATAAC-TTTTTTTAT
*
4166693 TTATCAAAAAATATATAA-TTTTTTTAT
1 TTACCAAAAAATATATAACTTTTTTTAT
*
4166720 TTACCAAAATATATA
1 TTACCAAAAAATATA
4166735 AAAAACAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.59
28 10 0.27
29 5 0.14
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAAAATATATAACTTTTTTTAT
Found at i:4166840 original size:27 final size:27
Alignment explanation
Indices: 4166810--4166876 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
4166800 AGGGAAGCAG
*
4166810 GTTGGCGGCACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGAATCCCT
****
4166837 GTTGGCGGCACCAGTGGAGGAATCCCT
1 GTTGGCGGCACCAAACAAGGAATCCCT
4166864 GTTGGCGGCACCA
1 GTTGGCGGCACCA
4166877 GTCCTGCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.21, C:0.28, G:0.34, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGAATCCCT
Found at i:4167201 original size:3 final size:3
Alignment explanation
Indices: 4167193--4167230 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4167183 AATTTTATAG
4167193 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4167231 AGATGTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4170283 original size:15 final size:15
Alignment explanation
Indices: 4170259--4170297 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4170249 CAATAACCAC
*
4170259 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
4170274 AATAATT-AAATTAG
1 AATAATTAAAACTAG
4170288 AATAATTAAA
1 AATAATTAAA
4170298 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:4170290 original size:14 final size:14
Alignment explanation
Indices: 4170271--4170299 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4170261 TAACTAAAAC
4170271 TAGAATAATTAAAT
1 TAGAATAATTAAAT
4170285 TAGAATAATTAAAT
1 TAGAATAATTAAAT
4170299 T
1 T
4170300 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:4171287 original size:17 final size:17
Alignment explanation
Indices: 4171265--4171301 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4171255 AGTAAGATGT
4171265 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
4171282 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
4171299 CAT
1 CAT
4171302 CTTACTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:4172629 original size:28 final size:28
Alignment explanation
Indices: 4172597--4172651 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4172587 TTAATTTATA
4172597 AATTTAGTGTGTTTTTT-CTGTTTTTTTT
1 AATTTAGTGTGTTTTTTACT-TTTTTTTT
** *
4172625 AATTTTTTTTGTTTTTTACTTTTTTTT
1 AATTTAGTGTGTTTTTTACTTTTTTTT
4172652 GATATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (28 bp):
AATTTAGTGTGTTTTTTACTTTTTTTTT
Found at i:4172639 original size:17 final size:17
Alignment explanation
Indices: 4172619--4172652 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4172609 TTTTTCTGTT
4172619 TTTTTTAATTTTTTTTG
1 TTTTTTAATTTTTTTTG
*
4172636 TTTTTTACTTTTTTTTG
1 TTTTTTAATTTTTTTTG
4172653 ATATATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTAATTTTTTTTG
Found at i:4172719 original size:28 final size:28
Alignment explanation
Indices: 4172653--4172722 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
4172643 CTTTTTTTTG
* *
4172653 ATATATTTTGATAAATAAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
4172681 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAAT-AAAAAAAGTTAT
4172710 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
4172723 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 27 0.69
29 12 0.31
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:4172782 original size:19 final size:19
Alignment explanation
Indices: 4172758--4172798 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4172748 TATAAAACCC
*
4172758 ATAATAAAAAATTACAAAA
1 ATAATAAAAAATTAAAAAA
*
4172777 ATAATAAAATATTAAAAAA
1 ATAATAAAAAATTAAAAAA
4172796 ATA
1 ATA
4172799 CCAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAATAAAAAATTAAAAAA
Found at i:4172804 original size:19 final size:19
Alignment explanation
Indices: 4172758--4172809 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
4172748 TATAAAACCC
* * *
4172758 ATAATAAAAAATTACAAAA
1 ATAACAAAATATTAAAAAA
*
4172777 ATAATAAAATATTAAAAAA
1 ATAACAAAATATTAAAAAA
*
4172796 ATACCAAAATATTA
1 ATAACAAAATATTA
4172810 TATATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAACAAAATATTAAAAAA
Found at i:4174045 original size:20 final size:20
Alignment explanation
Indices: 4174011--4174063 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
4174001 AATATATATA
** *
4174011 TAATATTTTGGTATTTTTTT
1 TAATATTTTATTATTTTTTG
4174031 TAATATTTTATTA-TTTTTG
1 TAATATTTTATTATTTTTTG
*
4174050 TAATGTTTTATTAT
1 TAATATTTTATTAT
4174064 GGGTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TAATATTTTATTATTTTTTG
Found at i:4174155 original size:26 final size:27
Alignment explanation
Indices: 4174099--4174166 Score: 95
Period size: 26 Copynumber: 2.5 Consensus size: 27
4174089 AAATAAAAAA
4174099 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA--TTTTTTTAT
4174127 TTACCAAAATATATATAA-TTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
*
4174153 TTATCAAAATATAT
1 TTACCAAAATATAT
4174167 CAAAAAAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 21 0.55
28 12 0.32
29 5 0.13
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:4174191 original size:18 final size:18
Alignment explanation
Indices: 4174168--4174210 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
4174158 AAAATATATC
4174168 AAAAAAAGTAAAAAAACA
1 AAAAAAAGTAAAAAAACA
*
4174186 AAAAAAA-TTAAAAAACA
1 AAAAAAAGTAAAAAAACA
*
4174203 GAAAAAAG
1 AAAAAAAG
4174211 CACACTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAAGTAAAAAAACA
Found at i:4175537 original size:17 final size:17
Alignment explanation
Indices: 4175515--4175551 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4175505 ATGGGGTAAG
4175515 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
4175532 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
4175549 ATG
1 ATG
4175552 ATATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:4177104 original size:50 final size:50
Alignment explanation
Indices: 4176989--4177181 Score: 280
Period size: 50 Copynumber: 3.8 Consensus size: 50
4176979 GATAATAACA
* ** *
4176989 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
4177040 TGCCCATGCCATGTCTCAGACATGGTCTTATA-GGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGG
4177090 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
4177140 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4177182 TTACCCAAAT
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
50 96 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:4177554 original size:30 final size:30
Alignment explanation
Indices: 4177519--4177576 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4177509 CATCGACTCT
4177519 AACTTTT-TCAAAATTACAATTTTGCCCCTA
1 AACTTTTGT-AAAATTACAATTTTGCCCCTA
* *
4177549 AACTTTTGTATAATTACATTTTTGCCCC
1 AACTTTTGTAAAATTACAATTTTGCCCC
4177577 AACGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTTTGTAAAATTACAATTTTGCCCCTA
Found at i:4179920 original size:736 final size:736
Alignment explanation
Indices: 4178510--4179985 Score: 2844
Period size: 736 Copynumber: 2.0 Consensus size: 736
4178500 CCTATCCCGA
4178510 ATTCGCCGTGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGG
1 ATTCGCCGTGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGG
* * * *
4178575 GGAATTAAGCATCGAAAATTTGTTGCGCTGTGGAACGATCGATTTCGTCGAAGACCTCAGAAGGT
66 GGAATTAAGCACCGAAAATTTATGGCGCTGTGGAACGATCGATTTCATCGAAGACCTCAGAAGGT
*
4178640 TATGGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGGGAAGCCAT
131 TATGGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGAGAAGCCAT
*
4178705 ATTTATACGGAGGCCAGTCGGTTGTAATCTCCCCGCACATGTAGCGACATGGGGGATCGGCCACA
196 ATTTATACGGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGGCCACA
4178770 GCGGCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGA
261 GCGGCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGA
4178835 GCCCCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTACCATCCGGATTTGTCAG
326 GCCCCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTACCATCCGGATTTGTCAG
4178900 GCACTGACAATTTACCGAGCTTCTCACGGCCAGAATATGCATACAACTTTGAACTATTCGGATCC
391 GCACTGACAATTTACCGAGCTTCTCACGGCCAGAATATGCATACAACTTTGAACTATTCGGATCC
4178965 TACTCGCCCAGCCCATATCCGCAGCATTATGGGACTCCCTCAGATGCATCAAGTTCGTCGCTGCC
456 TACTCGCCCAGCCCATATCCGCAGCATTATGGGACTCCCTCAGATGCATCAAGTTCGTCGCTGCC
*
4179030 GAACAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTATACCACCACCTGCGCCAAATG
521 GAACAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATG
*
4179095 ATAATGTCAGTCGTCGCGGGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGG
586 ATAATGTCAGTCGTCGCGAGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGG
4179160 ACTACACCATCGAACCATCAATTTTAGGGGTGTACGGCACATGTTTGTACATTAACACGTTTGTA
651 ACTACACCATCGAACCATCAATTTTAGGGGTGTACGGCACATGTTTGTACATTAACACGTTTGTA
4179225 CTTTTTTGTATCAATTTAATT
716 CTTTTTTGTATCAATTTAATT
4179246 ATTCGCCGTGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGG
1 ATTCGCCGTGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGG
4179311 GGAATTAAGCACCGAAAATTTATGGCGCTGTGGAACGATCGATTTCATCGAAGACCTCAGAAGGT
66 GGAATTAAGCACCGAAAATTTATGGCGCTGTGGAACGATCGATTTCATCGAAGACCTCAGAAGGT
4179376 TATGGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGAGAAGCCAT
131 TATGGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGAGAAGCCAT
4179441 ATTTATACGGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGGCCACA
196 ATTTATACGGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGGCCACA
4179506 GCGGCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGA
261 GCGGCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGA
*
4179571 GCCCCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTATCATCCGGATTTGTCAG
326 GCCCCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTACCATCCGGATTTGTCAG
* *
4179636 GCACTGACAATTTTCCGAGCTTCTCAGGGCCAGAATATGCATACAACTTTGAACTATTCGGATCC
391 GCACTGACAATTTACCGAGCTTCTCACGGCCAGAATATGCATACAACTTTGAACTATTCGGATCC
4179701 TACTCGCCCAGCCCATATCCGCAGCATTATGGGACTCCCTCAGATGCATCAAGTTCGTCGCTGCC
456 TACTCGCCCAGCCCATATCCGCAGCATTATGGGACTCCCTCAGATGCATCAAGTTCGTCGCTGCC
4179766 GAACAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATG
521 GAACAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATG
*
4179831 ATAATGTCAGTCGTCGCGAGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATGCCCCTAGG
586 ATAATGTCAGTCGTCGCGAGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGG
4179896 ACTACACCATCGAACCATCAATTTTAGGGGTGTACGGCACATGTTTGTACATTAACACGTTTGTA
651 ACTACACCATCGAACCATCAATTTTAGGGGTGTACGGCACATGTTTGTACATTAACACGTTTGTA
4179961 CTTTTTTGTATCAATTTAATT
716 CTTTTTTGTATCAATTTAATT
4179982 ATTC
1 ATTC
4179986 TAGTTTTAGT
Statistics
Matches: 728, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
736 728 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (736 bp):
ATTCGCCGTGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGG
GGAATTAAGCACCGAAAATTTATGGCGCTGTGGAACGATCGATTTCATCGAAGACCTCAGAAGGT
TATGGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGAGAAGCCAT
ATTTATACGGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGGCCACA
GCGGCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGA
GCCCCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTACCATCCGGATTTGTCAG
GCACTGACAATTTACCGAGCTTCTCACGGCCAGAATATGCATACAACTTTGAACTATTCGGATCC
TACTCGCCCAGCCCATATCCGCAGCATTATGGGACTCCCTCAGATGCATCAAGTTCGTCGCTGCC
GAACAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATG
ATAATGTCAGTCGTCGCGAGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGG
ACTACACCATCGAACCATCAATTTTAGGGGTGTACGGCACATGTTTGTACATTAACACGTTTGTA
CTTTTTTGTATCAATTTAATT
Found at i:4183536 original size:27 final size:27
Alignment explanation
Indices: 4183468--4183519 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4183458 GGTTGGCAGG
*
4183468 ACTGGTGCCGCCAACAGGGATTCCTCC
1 ACTGGTGCCGCCAACAGGGATCCCTCC
4183495 ACTGGTGCCGCCAACAGGGATCCCT
1 ACTGGTGCCGCCAACAGGGATCCCT
4183520 TGTTTGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.27, T:0.17
Consensus pattern (27 bp):
ACTGGTGCCGCCAACAGGGATCCCTCC
Found at i:4183648 original size:27 final size:28
Alignment explanation
Indices: 4183613--4183681 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
4183603 TTGTTTTTTT
4183613 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
*
4183640 TATATATTTTGGTACATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
4183668 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
4183682 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAGTTA
Found at i:4188200 original size:51 final size:51
Alignment explanation
Indices: 4188137--4188619 Score: 399
Period size: 51 Copynumber: 9.5 Consensus size: 51
4188127 GTGAAAGTGT
* * *
4188137 TGGTCACGTGTGTTGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * * *
4188188 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* *
4188239 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * ** * * * * *
4188290 TAGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * * *
4188341 TAGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * *
4188392 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TAA
* * *
4188443 TAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-A
* * * * *
4188493 TGATCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * *
4188542 TTGATCACGTGTGTAGTACTATGTGAAGGCTATTACGTGTATCGA-ATGATAA
1 -TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATA-AATAA
* * * *
4188594 TAGTAACATGGGTGGTACTATGTGAA
1 TGGTCACATGTGTAGTACTATGTGAA
4188620 AACCCAAATA
Statistics
Matches: 343, Mismatches: 76, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
50 88 0.26
51 250 0.73
52 5 0.01
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:4188312 original size:102 final size:102
Alignment explanation
Indices: 4188136--4188619 Score: 600
Period size: 102 Copynumber: 4.8 Consensus size: 102
4188126 AGTGAAAGTG
* *
4188136 TTGGTCACGTGTGTTGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGT
4188201 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
4188238 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGT
*
4188303 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * *
4188340 TTAGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGT
* *
4188405 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * * * * *
4188442 TTAGTCACATATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGTA
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAG-TCACATGTG
* ** * * **
4188505 TAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* * * * * * *
4188542 TTGATCACGTGTGTAGTACTATGTGAAGGCTATTACGTGTATCGA-ATGATAATAGTAACATGGG
1 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATA-AATAATAGTCACATGTG
* *
4188606 TGGTACTATGTGAA
65 TAGTACTAAGTGAA
4188620 AACCCAAATA
Statistics
Matches: 338, Mismatches: 39, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
100 41 0.12
101 59 0.17
102 238 0.70
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:4190727 original size:109 final size:107
Alignment explanation
Indices: 4190544--4190742 Score: 267
Period size: 109 Copynumber: 1.8 Consensus size: 107
4190534 AAGATATAAG
* * * *
4190544 AGGATATTTGGCTATTTGGTCCAACGAAAAATCGAAGCCCAGCACATTAAGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCCAACGAAAAATCAAAACCCAACACATTAAGGCACGCTTTCTCGA
*
4190609 ATTTCCAAATGCAAAACATTGCCTTATTTTGAAAATTTTAAA
66 ATTCCCAAATGCAAAACATTGCCTTATTTTGAAAATTTTAAA
* * *
4190651 AGGATATTTGGCTATTTTGTCGAACGAAAAAAAATCAAAACCCAACA-ATTAAGGCATGCTTTCT
1 AGGATATTTGGCTATTTGGTCCAACG---AAAAATCAAAACCCAACACATTAAGGCACGCTTTCT
*
4190715 CGAA-TCCACAAATGCAAAATATTGCCTT
63 CGAATTCC-CAAATGCAAAACATTGCCTT
4190743 TATTATTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
107 24 0.30
108 2 0.03
109 38 0.48
110 15 0.19
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCCAACGAAAAATCAAAACCCAACACATTAAGGCACGCTTTCTCGA
ATTCCCAAATGCAAAACATTGCCTTATTTTGAAAATTTTAAA
Found at i:4191568 original size:21 final size:21
Alignment explanation
Indices: 4191529--4191568 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4191519 AAATATGCAC
* *
4191529 GTATATATATATTATAAAAAT
1 GTATATATATATAACAAAAAT
4191550 GTATATATATATAACAAAA
1 GTATATATATATAACAAAA
4191569 CCTGGAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
GTATATATATATAACAAAAAT
Found at i:4194355 original size:132 final size:132
Alignment explanation
Indices: 4193015--4194302 Score: 2137
Period size: 132 Copynumber: 9.8 Consensus size: 132
4193005 ACTACATTGG
* * *
4193015 GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAAGGAGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4193080 CAACCTACTCGACTACTGCTTAGGGAGATTGGACTAATGGCTTAAATCTGCTTCGT-CACTATCT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTC-TCCACTATCT
4193144 TGA
130 TGA
*
4193147 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * * * *
4193212 CAACCTACTTCACTACTGCTTAGAGAGATAAGACTAATGGATTAAATCCGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4193277 GA
131 GA
*
4193279 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGTAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * *
4193344 CAACCTACTCCACTACTGCTTAGAGAGATAGGACTAATGGATTAAATATGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4193409 GA
131 GA
* *
4193411 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATTTGCAATTTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * *
4193476 CAACCTACTCCAATACTGCTTAGGGAGATAGGACTAATGGCTTAAATATACTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4193541 GA
131 GA
*
4193543 GAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * *
4193608 CAACCTACTCCACTACTGCTTAGAGAGATAGGACTAATGGATTAAATCTGCTTCTCCATTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4193673 GA
131 GA
* *
4193675 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACCGCTTAGGGTGACAGAATCTGCAATTTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4193740 CAACCTACTCCAATACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4193805 GA
131 GA
* *
4193807 GAAGACAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
*
4193872 CAACCTACTCCACTGCTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4193937 GA
131 GA
4193939 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4194004 CAACTTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCGCTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
*
4194069 GG
131 GA
* * *
4194071 GAAGATAAGATTCACCATCTTCGATCTGTTCCGCTACTGCTTAAGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * ** *
4194136 CAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCAGCTTCTCTGCTATATT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
*
4194201 GG
131 GA
*
4194203 GAAGATAAGATTCACCATCTTCGATCTGCTCAACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * *
4194268 TAACTTACTCCACTACTGTTTAGGGAGATAGGACT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACT
4194303 GGTGGTTTTG
Statistics
Matches: 1085, Mismatches: 70, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 1084 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
GA
Found at i:4194668 original size:24 final size:24
Alignment explanation
Indices: 4194629--4194686 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
4194619 TGGATTGCCC
*
4194629 CCACTGAAATCTTCAAAGTTCAA-T
1 CCACTGTAATCTTCAAAGTT-AAGT
* *
4194653 CCGCTGTAATCTTCAAGGTTAAGT
1 CCACTGTAATCTTCAAAGTTAAGT
4194677 CCACTGTAAT
1 CCACTGTAAT
4194687 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTAAGT
Found at i:4196020 original size:13 final size:12
Alignment explanation
Indices: 4195998--4196032 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
4195988 CCCTGCAGAG
4195998 GTTTGTTTTTTT
1 GTTTGTTTTTTT
4196010 GTTTGGTTTTTTT
1 GTTT-GTTTTTTT
4196023 GTTTTGTTTT
1 G-TTTGTTTT
4196033 GTTTTTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 14 0.67
14 3 0.14
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (12 bp):
GTTTGTTTTTTT
Found at i:4196029 original size:18 final size:17
Alignment explanation
Indices: 4195997--4196038 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
4195987 CCCCTGCAGA
*
4195997 GGTTTGTTTTTTTGTTT
1 GGTTTTTTTTTTTGTTT
4196014 GGTTTTTTTGTTTTGTTT
1 GGTTTTTTT-TTTTGTTT
*
4196032 TGTTTTT
1 GGTTTTT
4196039 GCCTCCAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (17 bp):
GGTTTTTTTTTTTGTTT
Found at i:4199543 original size:111 final size:107
Alignment explanation
Indices: 4199366--4199570 Score: 288
Period size: 111 Copynumber: 1.9 Consensus size: 107
4199356 GATTAAGATA
* * * * *
4199366 TAAGAGGATATTTGGCTATTTGGTCTAACGAGAAATCGAAGCCCAGCACATTAGGGCACGTTTTC
1 TAAGAGGATATTTGGCTATTTGGTCGAACGAAAAATCAAAGCCCAACACATTAGGGCACGCTTTC
4199431 TCGAATTTC-CAAATGCAAAACATTGCCTTATTTTGAAACTTT
66 TCGAA-TTCACAAATGCAAAACATTGCCTTATTTTGAAACTTT
4199473 TAAGAGGATATTTTGGCTATTTGGTCGAACGAAAAAAAATCAAAAG-CCAACACATTAGGGCACG
1 TAAGAGGATA-TTTGGCTATTTGGTCGAACG---AAAAATC-AAAGCCCAACACATTAGGGCACG
*
4199537 CTTTCTCGAATTCACAAATGCAAAATATTGCCTT
61 CTTTCTCGAATTCACAAATGCAAAACATTGCCTT
4199571 TATTATTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
107 10 0.12
108 19 0.22
110 3 0.03
111 51 0.59
112 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (107 bp):
TAAGAGGATATTTGGCTATTTGGTCGAACGAAAAATCAAAGCCCAACACATTAGGGCACGCTTTC
TCGAATTCACAAATGCAAAACATTGCCTTATTTTGAAACTTT
Found at i:4200121 original size:8 final size:8
Alignment explanation
Indices: 4200110--4200139 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
4200100 AAATAAATAA
4200110 ATAAAATT
1 ATAAAATT
4200118 ATAAAATT
1 ATAAAATT
4200126 ATAAAATT
1 ATAAAATT
4200134 ATAAAA
1 ATAAAA
4200140 ATGTACAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAAAATT
Found at i:4201915 original size:26 final size:26
Alignment explanation
Indices: 4201885--4201942 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
4201875 GAAGCTTCGG
4201885 AGAGCTA-TTAATC-AGAAAGCTCACAA
1 AGAGCTATTTAATCAAG-AAGCTCA-AA
*
4201911 AGAGC-ATTTAATCAAGAAGCTTAAA
1 AGAGCTATTTAATCAAGAAGCTCAAA
4201936 AGAGCTA
1 AGAGCTA
4201943 AGGTGTGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
25 8 0.29
26 18 0.64
27 2 0.07
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.21
Consensus pattern (26 bp):
AGAGCTATTTAATCAAGAAGCTCAAA
Found at i:4206521 original size:13 final size:14
Alignment explanation
Indices: 4206493--4206525 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4206483 GGAAAAGCAT
*
4206493 TTGATTGGAGGGAA
1 TTGATTGGACGGAA
4206507 TTGATT-GACGGAA
1 TTGATTGGACGGAA
4206520 TTGATT
1 TTGATT
4206526 TTCCGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.27, C:0.03, G:0.33, T:0.36
Consensus pattern (14 bp):
TTGATTGGACGGAA
Found at i:4207080 original size:34 final size:35
Alignment explanation
Indices: 4207022--4207088 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
4207012 CAAACACCAG
4207022 AAAATATTTTCCAATAAATTATTTTACAGAAAAGT
1 AAAATATTTTCCAATAAATTATTTTACAGAAAAGT
*
4207057 AAAATATTTTCCAA-AAATTATTTTACGGAAAA
1 AAAATATTTTCCAATAAATTATTTTACAGAAAA
4207089 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAATAAATTATTTTACAGAAAAGT
Found at i:4209915 original size:17 final size:18
Alignment explanation
Indices: 4209895--4209932 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
4209885 TTTCTTCAAC
* *
4209895 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
4209912 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
4209930 TTC
1 TTC
4209933 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:4218738 original size:15 final size:15
Alignment explanation
Indices: 4218720--4218749 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4218710 TATAAATGTC
4218720 ACAATAACAAATACA
1 ACAATAACAAATACA
*
4218735 ACAATAATAAATACA
1 ACAATAACAAATACA
4218750 GTAATGGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
ACAATAACAAATACA
Found at i:4219379 original size:3 final size:3
Alignment explanation
Indices: 4219371--4219423 Score: 81
Period size: 3 Copynumber: 17.3 Consensus size: 3
4219361 TGTACATGGG
4219371 AAT AAT AATT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4219417 AAT AAT A
1 AAT AAT A
4219424 GTAAAACTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.83
4 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4220032 original size:17 final size:17
Alignment explanation
Indices: 4220010--4220046 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4220000 ATTTTAAGTA
*
4220010 AAAATAAATAAATAAAT
1 AAAATAAACAAATAAAT
*
4220027 AAAATAAGCAAATAAAT
1 AAAATAAACAAATAAAT
4220044 AAA
1 AAA
4220047 GAAATGGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAATAAACAAATAAAT
Found at i:4220357 original size:16 final size:16
Alignment explanation
Indices: 4220336--4220375 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
4220326 TCTTCATTTG
4220336 TTTTGGGCCACTTGTA
1 TTTTGGGCCACTTGTA
4220352 TTTTGGG-C-CTTGTA
1 TTTTGGGCCACTTGTA
*
4220366 TTCTGGGCCA
1 TTTTGGGCCA
4220376 GCTCGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 12 0.57
15 2 0.10
16 7 0.33
ACGTcount: A:0.10, C:0.20, G:0.28, T:0.42
Consensus pattern (16 bp):
TTTTGGGCCACTTGTA
Found at i:4221229 original size:60 final size:60
Alignment explanation
Indices: 4221128--4221261 Score: 180
Period size: 60 Copynumber: 2.2 Consensus size: 60
4221118 GAAGTTTGAG
* * * * *
4221128 GATCAAATTAATAGAATTTGTCAATGTGAAGGTTCATATTTATTGAATTATTTAGAATTAG
1 GATCAAATTGATA-AATTTGCCAATGTGAAGGCTCAAATTTATTGAATTATTTAGAATTAA
**
4221189 GATCTCATTGATAAATTTGCCAATGTGAAGGGCT-AAATTTATTGAATTATTTAGAATTAA
1 GATCAAATTGATAAATTTGCCAATGTGAA-GGCTCAAATTTATTGAATTATTTAGAATTAA
4221249 GATCAAATTGATA
1 GATCAAATTGATA
4221262 GAATATGCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
60 50 0.79
61 13 0.21
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (60 bp):
GATCAAATTGATAAATTTGCCAATGTGAAGGCTCAAATTTATTGAATTATTTAGAATTAA
Found at i:4229802 original size:12 final size:12
Alignment explanation
Indices: 4229784--4229814 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4229774 GCTTGTATTA
4229784 AATTTTTTATAT
1 AATTTTTTATAT
*
4229796 TATTTTTTATAT
1 AATTTTTTATAT
4229808 AATTTTT
1 AATTTTT
4229815 AAATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
AATTTTTTATAT
Found at i:4232586 original size:32 final size:34
Alignment explanation
Indices: 4232531--4232594 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
4232521 TTCTCATAAA
* * *
4232531 TTTTAAAAAAATCGACTTATTTCTATAATTTTTT
1 TTTTAAAAAAATAGACATATTTCTAGAATTTTTT
4232565 TTTTAAAAAAA-AGACAT-TTTCTAGAATTTT
1 TTTTAAAAAAATAGACATATTTCTAGAATTTT
4232595 ATTCTAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 12 0.44
33 4 0.15
34 11 0.41
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (34 bp):
TTTTAAAAAAATAGACATATTTCTAGAATTTTTT
Found at i:4236803 original size:11 final size:10
Alignment explanation
Indices: 4236787--4236825 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
4236777 ATCATCAACA
4236787 TCTTCTTCTTT
1 TCTTCTT-TTT
4236798 TCTTCTTTTT
1 TCTTCTTTTT
4236808 T-TTCTTTTT
1 TCTTCTTTTT
4236817 TCTT-TTTTT
1 TCTTCTTTTT
4236826 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 14 0.52
10 6 0.22
11 7 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTCTTTTT
Found at i:4236821 original size:16 final size:17
Alignment explanation
Indices: 4236792--4236825 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4236782 CAACATCTTC
4236792 TTCTTTTCTTCTTTTTT
1 TTCTTTTCTTCTTTTTT
4236809 TTCTTTT-TTCTTTTTT
1 TTCTTTTCTTCTTTTTT
4236825 T
1 T
4236826 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTCTTTTCTTCTTTTTT
Found at i:4244178 original size:10 final size:10
Alignment explanation
Indices: 4244160--4244189 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4244150 GACTTAGATC
4244160 ATTTTAAGTT
1 ATTTTAAGTT
*
4244170 ATTTCAAGTT
1 ATTTTAAGTT
4244180 ATTTTAAGTT
1 ATTTTAAGTT
4244190 GGGGTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (10 bp):
ATTTTAAGTT
Found at i:4253769 original size:19 final size:18
Alignment explanation
Indices: 4253746--4253799 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 18
4253736 CAAATTTATT
4253746 ATTTTAGAAAATTTTTAA
1 ATTTTAGAAAATTTTTAA
* *
4253764 AGTTTTAAAAAATTTATAA
1 A-TTTTAGAAAATTTTTAA
*
4253783 AATTT-G-AAATTTTTAA
1 ATTTTAGAAAATTTTTAA
4253799 A
1 A
4253800 AATTATTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.33
18 4 0.13
19 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
ATTTTAGAAAATTTTTAA
Found at i:4255161 original size:55 final size:54
Alignment explanation
Indices: 4255064--4255372 Score: 203
Period size: 55 Copynumber: 5.6 Consensus size: 54
4255054 CGGTTCGTCA
* * * *
4255064 ATTTCATATCACAACTTTTTAATTGACAAGATCTTCAAAATCTCATAGTTCACCG
1 ATTTCATATCACAACTTTTAAATT-ACAATATTTTCATAATCTCATAGTTCACCG
* **
4255119 ATTTCATATCACAACCTTTTAAATTTCAATATTTTCATAATCTCACT-GTTCACTA
1 ATTTCATATCACAA-CTTTTAAATTACAATATTTTCATAATCTCA-TAGTTCACCG
* * * * * *
4255174 ATTTCAGAT-AGCGACATTTTAACTTACAATATTTTCAGAATCTCGTAATTCACCG
1 ATTTCATATCA-CAAC-TTTTAAATTACAATATTTTCATAATCTCATAGTTCACCG
* * * * ** * **
4255229 ATTTTAGATCATAAACTTTTAACTTACGAA-ATTTTCATAATCTTGTGGTTCGTCG
1 ATTTCATATCA-CAACTTTTAAATTAC-AATATTTTCATAATCTCATAGTTCACCG
* * * * * * * **
4255284 ATTTCATATCGCAACTTTTAACTTACAAGATTTTTAAAATTTTAGGGTTC-CCTG
1 ATTTCATATCACAACTTTTAAATTACAATATTTTCATAATCTCATAGTTCACC-G
* * *
4255338 ATTTCAGATCTCAACTTTTTAATTTACAATATTTT
1 ATTTCATATCACAAC-TTTTAAATTACAATATTTT
4255373 TAGAGTCTTG
Statistics
Matches: 204, Mismatches: 40, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
53 3 0.01
54 47 0.23
55 139 0.68
56 15 0.07
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (54 bp):
ATTTCATATCACAACTTTTAAATTACAATATTTTCATAATCTCATAGTTCACCG
Found at i:4258451 original size:54 final size:54
Alignment explanation
Indices: 4258149--4258451 Score: 237
Period size: 54 Copynumber: 5.6 Consensus size: 54
4258139 TAGCATCCTG
* * * * * *
4258149 CGGTTCACCGATTTACGATCGTAACCTCCCCTACTTACAACATTTTTAGAATCTTA
1 CGGTTCGCTGATTTACGATCGTGACCT--TCTACTTACAAGATTTTAAGAATCTTA
* * * * *
4258205 TGGTTTGCTGATTTACGATGGTGACCTCCTACTTACAAGATTTTAAGAATTTTA
1 CGGTTCGCTGATTTACGATCGTGACCTTCTACTTACAAGATTTTAAGAATCTTA
* ** * * * * *
4258259 CGATTCATTGATTTACGATTGTCACCTTCAACTTACAAGATTTTAAGAATATTG
1 CGGTTCGCTGATTTACGATCGTGACCTTCTACTTACAAGATTTTAAGAATCTTA
* * ** * * * * *
4258313 CGATTCACCCATTTACGATTGTGACCTTTTACTTATAAGATTTCAAGAACCTTA
1 CGGTTCGCTGATTTACGATCGTGACCTTCTACTTACAAGATTTTAAGAATCTTA
* * * ** * * * *
4258367 TGGTTCGCTAATTTACAATCGCAACATTCTACTTACAAGATTTCAAGGATTTTA
1 CGGTTCGCTGATTTACGATCGTGACCTTCTACTTACAAGATTTTAAGAATCTTA
* *
4258421 CGGTTGGTTGATTTACGATCGTGACCTTCTA
1 CGGTTCGCTGATTTACGATCGTGACCTTCTA
4258452 TCGTGACCTT
Statistics
Matches: 193, Mismatches: 54, Indels: 2
0.78 0.22 0.01
Matches are distributed among these distances:
54 172 0.89
56 21 0.11
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (54 bp):
CGGTTCGCTGATTTACGATCGTGACCTTCTACTTACAAGATTTTAAGAATCTTA
Found at i:4258456 original size:13 final size:13
Alignment explanation
Indices: 4258438--4258464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4258428 TTGATTTACG
4258438 ATCGTGACCTTCT
1 ATCGTGACCTTCT
4258451 ATCGTGACCTTCT
1 ATCGTGACCTTCT
4258464 A
1 A
4258465 CTTACAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.37
Consensus pattern (13 bp):
ATCGTGACCTTCT
Found at i:4258521 original size:54 final size:54
Alignment explanation
Indices: 4258457--4258646 Score: 194
Period size: 54 Copynumber: 3.5 Consensus size: 54
4258447 TTCTATCGTG
*
4258457 ACCTTCTACTTACAAGATTTTAAGAATCTTATGATTCATCGATTTACGGTCGCA
1 ACCTTCTACTTACAAGATTTTAAGAATCTTATGATTCATCGATTTACGATCGCA
* * * *
4258511 ACCATCTACTTACAAGATTTTCAA-AATCTTATAATTCGTCGATTTACAATCG-A
1 ACCTTCTACTTACAAGATTTT-AAGAATCTTATGATTCATCGATTTACGATCGCA
* * *
4258564 GA-CTTCCTACTTACAAGATATT-AGAAT-TTCGTGGTTCATCGATTT-CAGATCGCA
1 -ACCTT-CTACTTACAAGATTTTAAGAATCTT-ATGATTCATCGATTTAC-GATCGCA
* * *
4258618 ACCTTTTACTTACAATATTTTCAGAATCT
1 ACCTTCTACTTACAAGATTTTAAGAATCT
4258647 CGCAGTCAGT
Statistics
Matches: 111, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
52 4 0.04
53 35 0.32
54 69 0.62
55 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (54 bp):
ACCTTCTACTTACAAGATTTTAAGAATCTTATGATTCATCGATTTACGATCGCA
Found at i:4258555 original size:121 final size:121
Alignment explanation
Indices: 4258333--4258562 Score: 259
Period size: 121 Copynumber: 1.9 Consensus size: 121
4258323 ATTTACGATT
* * *
4258333 GTGACCTTTTACTTATAAGATTTCAAGAACCTTATGGTTCGCTAATTTACAATCGCAACATTCTA
1 GTGACCTTCTACTTACAAGATTTCAAGAACCTTATGATTCGCTAATTTACAATCGCAACATTCTA
* * ** * * *
4258398 CTTACAAGATTTCAAGGATTTTACGGTTGGTTGATTTACGATCGTGACCTTCTATC
66 CTTACAAGATTTCAAGAATCTTACAATTCGTCGATTTACAATCGTGACCTTCTATC
* * * * **
4258454 GTGACCTTCTACTTACAAGATTTTAAGAATCTTATGATTC-ATCGATTTACGGTCGCAACCA-TC
1 GTGACCTTCTACTTACAAGATTTCAAGAACCTTATGATTCGCT-AATTTACAATCGCAA-CATTC
*
4258517 TACTTACAAGATTTTCAA-AATCTTATAATTCGTCGATTTACAATCG
64 TACTTACAAGA-TTTCAAGAATCTTACAATTCGTCGATTTACAATCG
4258563 AGACTTCCTA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
120 1 0.01
121 80 0.90
122 8 0.09
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (121 bp):
GTGACCTTCTACTTACAAGATTTCAAGAACCTTATGATTCGCTAATTTACAATCGCAACATTCTA
CTTACAAGATTTCAAGAATCTTACAATTCGTCGATTTACAATCGTGACCTTCTATC
Found at i:4258661 original size:54 final size:55
Alignment explanation
Indices: 4258597--4259102 Score: 309
Period size: 55 Copynumber: 9.3 Consensus size: 55
4258587 GAATTTCGTG
* *
4258597 GTTCATCGATTTCAGATCGCAACCTTTT-ACTTACAATATTTTCAGAATCTCGCA
1 GTTCGTCGATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
* * * * * *
4258651 G-TCAGTCGATTTGAAATTGCGACCTTTTAACTTAGAATATTTTTAGAA--TC-CA
1 GTTC-GTCGATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
* * * * * * * *
4258703 ATTTGAT-GATTTCATATCGTAACTTTTTAACTTACAAGA-TTTCAGAGTCTTGCG
1 GTTCG-TCGATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
* * * * * * **
4258757 GTTCGTCAATTTCATATCACAACTTTTTAA-TTGACAAGATCTTCAAAATCTCATA
1 GTTCGTCGATTTCATATCGCAACCTTTTAACTT-ACAATATTTTCAGAATCTCGCA
** * * * *
4258812 GTTCACCGATTTCATATCACAACCTTTTAAATTACAATATTTTCATAATCTCACA
1 GTTCGTCGATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
* * * * *
4258867 GTTCG-CTAATTTCAGATCGCGACATTTTAACTTACAATGTTTTCAGAATCTCGCA
1 GTTCGTC-GATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
* ** * * * * * * *
4258922 ATTCACCGATTTTAGATCGTAAACTTTTAACTTACCAA-ATTTTCATAATCTTGCG
1 GTTCGTCGATTTCATATCGCAACCTTTTAACTTA-CAATATTTTCAGAATCTCGCA
* * * * * * **
4258977 GTTCGTCGATTTCATATCACAA-CTTTTAACTTACAAGATTTTTAAAATTTTGGG
1 GTTCGTCGATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
* * * * *
4259031 GTTCG-CTGATTTCAGATCTCAA-CTTTTAAATTTACAATATTTTCAGAGTCTTGCA
1 GTTCGTC-GATTTCATATCGCAACCTTTT-AACTTACAATATTTTCAGAATCTCGCA
* * *
4259086 GTTTGTTGATTTTATAT
1 GTTCGTCGATTTCATAT
4259103 TGATTTTGCT
Statistics
Matches: 346, Mismatches: 88, Indels: 35
0.74 0.19 0.07
Matches are distributed among these distances:
51 6 0.02
52 27 0.08
53 14 0.04
54 98 0.28
55 195 0.56
56 6 0.02
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (55 bp):
GTTCGTCGATTTCATATCGCAACCTTTTAACTTACAATATTTTCAGAATCTCGCA
Found at i:4263568 original size:8 final size:8
Alignment explanation
Indices: 4263557--4263586 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4263547 AGATTTTTTG
4263557 TTTTTA-T
1 TTTTTATT
4263564 TTTTTATT
1 TTTTTATT
4263572 TTTTTATT
1 TTTTTATT
4263580 TTTTTAT
1 TTTTTAT
4263587 AAAATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:4265588 original size:56 final size:54
Alignment explanation
Indices: 4265458--4265598 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
4265448 ATAAATTAGG
** * * ** *
4265458 TGCACCTACCTTATTGGCAAACTATGTTGATGGCTAGGTAAACGAATATATATA
1 TGCACCTACCTTGCTGGCGAACTGTGTTGGCGGCTAAGTAAACGAATATATATA
*
4265512 TGCACCTACCTTGCTAGCGAACTGTGTTGGCGGCTAAGTAAACGAATATAAATATA
1 TGCACCTACCTTGCTGGCGAACTGTGTTGGCGGCTAAGTAAACGAATAT--ATATA
4265568 TGCACCTACCTTGCTGGCGAACTGTGTTGGC
1 TGCACCTACCTTGCTGGCGAACTGTGTTGGC
4265599 AGATAGGCAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 41 0.54
56 35 0.46
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (54 bp):
TGCACCTACCTTGCTGGCGAACTGTGTTGGCGGCTAAGTAAACGAATATATATA
Found at i:4271637 original size:22 final size:22
Alignment explanation
Indices: 4271609--4271651 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4271599 TTTCATTGTT
4271609 TTGCTATCATTTCATTATTATA
1 TTGCTATCATTTCATTATTATA
* **
4271631 TTGCTATTATTTTGTTATTAT
1 TTGCTATCATTTCATTATTAT
4271652 TATTTGGGTA
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:0.23, C:0.09, G:0.07, T:0.60
Consensus pattern (22 bp):
TTGCTATCATTTCATTATTATA
Found at i:4274348 original size:32 final size:31
Alignment explanation
Indices: 4274303--4274398 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
4274293 CTTAGATAAT
4274303 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
4274334 TTTAAAGCGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
4274366 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
4274397 TT
1 TT
4274399 GTAATTTGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:4274754 original size:29 final size:27
Alignment explanation
Indices: 4274706--4274763 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
4274696 ATCCTTTTTA
4274706 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
4274735 TTTATTTATTCT-TGTT-TTATTTCTAAT
1 TTTATTTATT-TAT-TTATTATTTCTAAT
4274762 TT
1 TT
4274764 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:4275369 original size:29 final size:27
Alignment explanation
Indices: 4275321--4275378 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
4275311 ATCCTTTTTA
4275321 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
4275350 TTTATTTATTCT-TGTT-TTATTTCTAAT
1 TTTATTTATT-TAT-TTATTATTTCTAAT
4275377 TT
1 TT
4275379 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:4275660 original size:615 final size:615
Alignment explanation
Indices: 4274490--4275727 Score: 2476
Period size: 615 Copynumber: 2.0 Consensus size: 615
4274480 GTGTGAGGCA
4274490 AATTTTTTAGAGTAGAGTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTCGAGGGT
1 AATTTTTTAGAGTAGAGTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTCGAGGGT
4274555 ATTTCGGAGTTGCAAATATTCAAATTTCTTTTCCGTTCATCGGTGTTTCTAGAGGTTCTTCTTCT
66 ATTTCGGAGTTGCAAATATTCAAATTTCTTTTCCGTTCATCGGTGTTTCTAGAGGTTCTTCTTCT
4274620 AGGGGTTTCGTAGGGAGCCGCTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCCAT
131 AGGGGTTTCGTAGGGAGCCGCTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCCAT
4274685 AGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTTGT
196 AGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTTGT
4274750 TTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGTTT
261 TTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGTTT
4274815 CAGGCCATTCGATGTTATTTTTGAAGCTAAAATCATACTTGAAACGAGTCAAAATATCAAAAACA
326 CAGGCCATTCGATGTTATTTTTGAAGCTAAAATCATACTTGAAACGAGTCAAAATATCAAAAACA
4274880 CTTTTCATCGATTTCGTCGATTTAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAAAAA
391 CTTTTCATCGATTTCGTCGATTTAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAAAAA
4274945 AAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAAAAAAAAGTTGCCTACCTCTCATACGTA
456 AAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAAAAAAAAGTTGCCTACCTCTCATACGTA
4275010 GGTTTCTTCTTTTCCTATTATTATTTTTTTTAATTTTTTTCCAAAATTGAATTTTTTCCTTCTTC
521 GGTTTCTTCTTTTCCTATTATTATTTTTTTTAATTTTTTTCCAAAATTGAATTTTTTCCTTCTTC
4275075 TTTTCTTGACTCAAGTATAATTAAAGCTTC
586 TTTTCTTGACTCAAGTATAATTAAAGCTTC
4275105 AATTTTTTAGAGTAGAGTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTCGAGGGT
1 AATTTTTTAGAGTAGAGTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTCGAGGGT
4275170 ATTTCGGAGTTGCAAATATTCAAATTTCTTTTCCGTTCATCGGTGTTTCTAGAGGTTCTTCTTCT
66 ATTTCGGAGTTGCAAATATTCAAATTTCTTTTCCGTTCATCGGTGTTTCTAGAGGTTCTTCTTCT
4275235 AGGGGTTTCGTAGGGAGCCGCTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCCAT
131 AGGGGTTTCGTAGGGAGCCGCTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCCAT
4275300 AGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTTGT
196 AGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTTGT
4275365 TTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGTTT
261 TTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGTTT
4275430 CAGGCCATTCGATGTTATTTTTGAAGCTAAAATCATACTTGAAACGAGTCAAAATATCAAAAACA
326 CAGGCCATTCGATGTTATTTTTGAAGCTAAAATCATACTTGAAACGAGTCAAAATATCAAAAACA
4275495 CTTTTCATCGATTTCGTCGATTTAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAAAAA
391 CTTTTCATCGATTTCGTCGATTTAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAAAAA
4275560 AAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAAAAAAAAGTTGCCTACCTCTCATACGTA
456 AAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAAAAAAAAGTTGCCTACCTCTCATACGTA
4275625 GGTTTCTTCTTTTCCTATTATTATTTTTTTTAATTTTTTTCCAAAATTGAATTTTTTCCTTCTTC
521 GGTTTCTTCTTTTCCTATTATTATTTTTTTTAATTTTTTTCCAAAATTGAATTTTTTCCTTCTTC
4275690 TTTTCTTGACTCAAGTATAATTAAAGCTTC
586 TTTTCTTGACTCAAGTATAATTAAAGCTTC
4275720 AATTTTTT
1 AATTTTTT
4275728 TTGAAAATCT
Statistics
Matches: 623, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
615 623 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (615 bp):
AATTTTTTAGAGTAGAGTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTCGAGGGT
ATTTCGGAGTTGCAAATATTCAAATTTCTTTTCCGTTCATCGGTGTTTCTAGAGGTTCTTCTTCT
AGGGGTTTCGTAGGGAGCCGCTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCCAT
AGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTTGT
TTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGTTT
CAGGCCATTCGATGTTATTTTTGAAGCTAAAATCATACTTGAAACGAGTCAAAATATCAAAAACA
CTTTTCATCGATTTCGTCGATTTAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAAAAA
AAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAAAAAAAAGTTGCCTACCTCTCATACGTA
GGTTTCTTCTTTTCCTATTATTATTTTTTTTAATTTTTTTCCAAAATTGAATTTTTTCCTTCTTC
TTTTCTTGACTCAAGTATAATTAAAGCTTC
Found at i:4280563 original size:32 final size:31
Alignment explanation
Indices: 4280518--4280613 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
4280508 CTTAGATAAT
4280518 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
4280549 TTTAAAGAGTTTTTATTAGGATTCAATTACT-
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
4280580 TTTGAAAGAGTTTTATTAGAATTCAATTACTC
1 TTT-AAAGAGTTTTATTAGGATTCAATTACTC
4280612 TT
1 TT
4280614 GTAATTTGCC
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.47
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:4280965 original size:29 final size:27
Alignment explanation
Indices: 4280916--4280974 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
4280906 AATCTATCCT
*
4280916 TTTTATTTATTTATTTATTATTTAACTAA
1 TTTTATTTATTTAGTTATTATTT--CTAA
*
4280945 TTTTATTTATTCTCGTT-TTATTTCTAA
1 TTTTATTTATT-TAGTTATTATTTCTAA
4280972 TTT
1 TTT
4280975 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTATTTATTTAGTTATTATTTCTAA
Found at i:4284352 original size:36 final size:36
Alignment explanation
Indices: 4284305--4284483 Score: 223
Period size: 36 Copynumber: 4.7 Consensus size: 36
4284295 GCTAAACTAC
*
4284305 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
4284341 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
4284377 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
4284419 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
4284459 CACTTATCACTTTTTCACTTGATCA
1 CACTTATCACTTTTTCACTTGATCA
4284484 AATAGGTGTA
Statistics
Matches: 125, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
36 87 0.70
38 3 0.02
40 3 0.02
42 2 0.02
44 2 0.02
46 28 0.22
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:4284428 original size:46 final size:46
Alignment explanation
Indices: 4284377--4284531 Score: 186
Period size: 46 Copynumber: 3.6 Consensus size: 46
4284367 ATAAGTATAA
4284377 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
4284423 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
4284459 CACTTATCACTTTTTCACTTGATCAAATAGGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
4284505 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
4284532 AGTACTTAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 20
0.76 0.08 0.17
Matches are distributed among these distances:
36 26 0.29
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 52 0.58
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:4284435 original size:82 final size:82
Alignment explanation
Indices: 4284341--4284531 Score: 319
Period size: 82 Copynumber: 2.3 Consensus size: 82
4284331 ATAAGTATAG
* * *
4284341 CACTTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAAATA
4284406 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* * *
4284423 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAAATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAAATA
*
4284488 GGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
4284505 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
4284532 AGTACTTAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAAATA
AGTGTAGCTAAAGCTAC
Found at i:4284444 original size:118 final size:115
Alignment explanation
Indices: 4284262--4284483 Score: 383
Period size: 118 Copynumber: 1.9 Consensus size: 115
4284252 TACGTATGAT
4284262 CACTTATCATTTGTTCCTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGTCACTTGA
1 CACTTATCATTTGTTCCTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGTCACTTGA
4284327 TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAA
66 TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
4284377 CACTTATCACTTT-TTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CACTTATCA-TTTGTTC-C-TGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTTGTCAC
*
4284441 TTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCA
62 TTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCA
4284484 AATAGGTGTA
Statistics
Matches: 101, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
115 12 0.12
116 4 0.04
117 22 0.22
118 63 0.62
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (115 bp):
CACTTATCATTTGTTCCTGATCAGATAAGTGTAGCTAAACTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:4284493 original size:36 final size:36
Alignment explanation
Indices: 4284423--4284495 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
4284413 CTAAAGCTAC
* *
4284423 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAAATAAGTGTAG
* *
4284459 CACTTATCACTTTTTCACTTGATCAAATAGGTGTAG
1 CACTTATCACTTTGTCACTTGATCAAATAAGTGTAG
4284495 C
1 C
4284496 TAAAGCTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAAATAAGTGTAG
Found at i:4301542 original size:15 final size:16
Alignment explanation
Indices: 4301508--4301542 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4301498 ATTACTTGTT
4301508 TTTTATTATTATTTAA
1 TTTTATTATTATTTAA
4301524 -TTTATTATT-TTTAA
1 TTTTATTATTATTTAA
4301538 TTTTA
1 TTTTA
4301543 CGAAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTATTATTTAA
Found at i:4301682 original size:12 final size:11
Alignment explanation
Indices: 4301658--4301727 Score: 57
Period size: 10 Copynumber: 6.9 Consensus size: 11
4301648 AATATTATTT
4301658 TTTTAAAA-AA
1 TTTTAAAATAA
4301668 TTTTAAAATATA
1 TTTTAAAATA-A
4301680 TTTT--AA-AA
1 TTTTAAAATAA
4301688 TTTTAAAATAA
1 TTTTAAAATAA
*
4301699 -TTT--ATTAA
1 TTTTAAAATAA
4301707 TTTTAAAAGT-A
1 TTTTAAAA-TAA
4301718 TTTTAAAATA
1 TTTTAAAATA
4301728 TATATTTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 19
0.70 0.03 0.28
Matches are distributed among these distances:
8 9 0.19
9 4 0.08
10 16 0.33
11 13 0.27
12 6 0.12
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:4301708 original size:19 final size:20
Alignment explanation
Indices: 4301664--4301726 Score: 78
Period size: 20 Copynumber: 3.2 Consensus size: 20
4301654 ATTTTTTTAA
4301664 AAAATTTTAAAATATATTTT
1 AAAATTTTAAAATATATTTT
4301684 AAAATTTTAAAATA-A-TTT
1 AAAATTTTAAAATATATTTT
* *
4301702 ATTAATTTTAAAA-GTATTTT
1 A-AAATTTTAAAATATATTTT
4301722 AAAAT
1 AAAAT
4301727 ATATATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.11
19 15 0.41
20 18 0.49
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
AAAATTTTAAAATATATTTT
Found at i:4309323 original size:15 final size:15
Alignment explanation
Indices: 4309303--4309412 Score: 156
Period size: 15 Copynumber: 7.5 Consensus size: 15
4309293 GGACTAAAAT
4309303 CATAAATATTAATTA
1 CATAAATATTAATTA
4309318 CATAAATATTAATTA
1 CATAAATATTAATTA
*
4309333 CA-AACT-TATAATTA
1 CATAAATAT-TAATTA
4309347 CATAAATATTAATTA
1 CATAAATATTAATTA
4309362 CATAAATATTAATTA
1 CATAAATATTAATTA
*
4309377 CA-AACT-TATAATTA
1 CATAAATAT-TAATTA
4309391 CATAAATATTAATTA
1 CATAAATATTAATTA
4309406 CATAAAT
1 CATAAAT
4309413 GGAATTAACA
Statistics
Matches: 85, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.02
14 22 0.26
15 59 0.69
16 2 0.02
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
CATAAATATTAATTA
Found at i:4309353 original size:44 final size:44
Alignment explanation
Indices: 4309303--4309412 Score: 220
Period size: 44 Copynumber: 2.5 Consensus size: 44
4309293 GGACTAAAAT
4309303 CATAAATATTAATTACATAAATATTAATTACAAACTTATAATTA
1 CATAAATATTAATTACATAAATATTAATTACAAACTTATAATTA
4309347 CATAAATATTAATTACATAAATATTAATTACAAACTTATAATTA
1 CATAAATATTAATTACATAAATATTAATTACAAACTTATAATTA
4309391 CATAAATATTAATTACATAAAT
1 CATAAATATTAATTACATAAAT
4309413 GGAATTAACA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (44 bp):
CATAAATATTAATTACATAAATATTAATTACAAACTTATAATTA
Found at i:4309419 original size:29 final size:30
Alignment explanation
Indices: 4309303--4309412 Score: 156
Period size: 29 Copynumber: 3.7 Consensus size: 30
4309293 GGACTAAAAT
4309303 CATAAATATTAATTACATAAATATTAATTA
1 CATAAATATTAATTACATAAATATTAATTA
*
4309333 CA-AACT-TATAATTACATAAATATTAATTA
1 CATAAATAT-TAATTACATAAATATTAATTA
*
4309362 CATAAATATTAATTACA-AACT-TATAATTA
1 CATAAATATTAATTACATAAATAT-TAATTA
4309391 CATAAATATTAATTACATAAAT
1 CATAAATATTAATTACATAAAT
4309413 GGAATTAACA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
28 2 0.03
29 52 0.73
30 16 0.23
31 1 0.01
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (30 bp):
CATAAATATTAATTACATAAATATTAATTA
Found at i:4309928 original size:13 final size:13
Alignment explanation
Indices: 4309881--4309941 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
4309871 CTCAAAATTT
*
4309881 TCAAAAGCACCTC
1 TCAAAAGCACTTC
* * *
4309894 TTAAAAGCATTTT
1 TCAAAAGCACTTC
* *
4309907 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
4309920 TCAAAAGCACTTT
1 TCAAAAGCACTTC
*
4309933 TTAAAAGCA
1 TCAAAAGCA
4309942 ACGAAGAACT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:4309941 original size:26 final size:25
Alignment explanation
Indices: 4309877--4309941 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
4309867 AACACTCAAA
* *
4309877 ATTTTCAAAAGCACCTCTTAAAAGC
1 ATTTTTAAAAGCACCTCTCAAAAGC
* * *
4309902 ATTTTTCCACAGCACTTCTCAAAAGC
1 ATTTTT-AAAAGCACCTCTCAAAAGC
4309928 ACTTTTTAAAAGCA
1 A-TTTTTAAAAGCA
4309942 ACGAAGAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 5 0.16
26 21 0.68
27 5 0.16
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (25 bp):
ATTTTTAAAAGCACCTCTCAAAAGC
Found at i:4320041 original size:3 final size:3
Alignment explanation
Indices: 4320028--4320096 Score: 54
Period size: 3 Copynumber: 22.3 Consensus size: 3
4320018 TTTAGTCCCG
* *
4320028 TTA TT- TTA TTA TTA TTA TTA TTA -AA TTAA TTA GCTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA TTA
4320072 TTA TTA TTA TTGCA TTTA TTA TTA T
1 TTA TTA TTA TT--A -TTA TTA TTA T
4320097 GATCATTTAC
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
2 5 0.09
3 41 0.75
4 6 0.11
5 1 0.02
6 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4321953 original size:29 final size:30
Alignment explanation
Indices: 4321904--4321961 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
4321894 CTCGCACACT
4321904 TAGGGGTTCACACCTAAGGGTCCGCACAAG
1 TAGGGGTTCACACCTAAGGGTCCGCACAAG
* * *
4321934 TAGGGG-TCACATCTAGGGGTTCGCACAA
1 TAGGGGTTCACACCTAAGGGTCCGCACAA
4321962 ATAATTCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (30 bp):
TAGGGGTTCACACCTAAGGGTCCGCACAAG
Found at i:4327160 original size:25 final size:21
Alignment explanation
Indices: 4327115--4327155 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4327105 TAATCAGAAG
4327115 ACACAGAAAAACAAACTTACT
1 ACACAGAAAAACAAACTTACT
4327136 ACACAGAAAAACAAACTTAC
1 ACACAGAAAAACAAACTTAC
4327156 CTACTGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.24, G:0.05, T:0.12
Consensus pattern (21 bp):
ACACAGAAAAACAAACTTACT
Found at i:4330555 original size:34 final size:35
Alignment explanation
Indices: 4330511--4330577 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
4330501 CAGTAAAATA
*
4330511 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
4330545 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
4330578 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:4333670 original size:28 final size:27
Alignment explanation
Indices: 4333634--4333702 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
4333624 AAATAAAAAA
*
4333634 TTACCAAAATGT-TATACATTTTTTTTAT
1 TTACCAAAATATATATA-A-TTTTTTTAT
*
4333662 TTACCAAAAAATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
4333689 TTACCAAAATATAT
1 TTACCAAAATATAT
4333703 CAAAAAACCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.59
28 11 0.30
29 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Done.