Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 317 of 345
Found at i:95152974 original size:38 final size:38
Alignment explanation
Indices: 95152866--95152985 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
95152856 ATTTGATGTG
* * * *
95152866 TATCCGGGCTTAAAGACCCGCAGG-CTATATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCCTA-GTGCTGGTATTA
* * *
95152906 TATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
95152944 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
95152982 TATC
1 TATC
95152986 TAAGTTTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 56 0.81
39 6 0.09
40 7 0.10
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:95153014 original size:40 final size:38
Alignment explanation
Indices: 95152912--95153022 Score: 141
Period size: 38 Copynumber: 2.9 Consensus size: 38
95152902 ATTATATTCG
**
95152912 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAA
* *
95152950 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTAA
1 GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC-AA
* * *
95152989 GTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTAT
1 GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTAT
95153023 GTTCGGGTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 34 0.55
39 6 0.10
40 22 0.35
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
GGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCAA
Found at i:95161878 original size:15 final size:17
Alignment explanation
Indices: 95161844--95161881 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
95161834 CTCATAACCA
95161844 TTCAA-CCTCTCCAGTT
1 TTCAAGCCTCTCCAGTT
95161860 TTCAAGCCT-TCCA-TT
1 TTCAAGCCTCTCCAGTT
95161875 TTCAAGC
1 TTCAAGC
95161882 ACATAGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 9 0.43
17 3 0.14
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (17 bp):
TTCAAGCCTCTCCAGTT
Found at i:95162582 original size:29 final size:29
Alignment explanation
Indices: 95162540--95162598 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
95162530 AAAGTATAAT
95162540 TAATTGACACACTATCTAAATGGTGCATG
1 TAATTGACACACTATCTAAATGGTGCATG
95162569 TAATTGACACACTATCTAAATGGTGCATG
1 TAATTGACACACTATCTAAATGGTGCATG
95162598 T
1 T
95162599 GTAATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (29 bp):
TAATTGACACACTATCTAAATGGTGCATG
Found at i:95164940 original size:8 final size:8
Alignment explanation
Indices: 95164892--95164941 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
95164882 GTCATGTCAA
*
95164892 TAAATAAT
1 TAAAAAAT
*
95164900 TTAAAAAT
1 TAAAAAAT
*
95164908 TAAAATAT
1 TAAAAAAT
*
95164916 TCAAAAAAA
1 T-AAAAAAT
95164925 TAAAAAAT
1 TAAAAAAT
95164933 TAAAAAAT
1 TAAAAAAT
95164941 T
1 T
95164942 CATAAATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
TAAAAAAT
Found at i:95165089 original size:31 final size:31
Alignment explanation
Indices: 95165054--95165113 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
95165044 GATTTGATTA
* * * *
95165054 TTTTTGAAAGGTTAATTGTCAAATTTAACTC
1 TTTTTAAAAGATTAATGGTAAAATTTAACTC
*
95165085 TTTTTAAAATATTAATGGTAAAATTTAAC
1 TTTTTAAAAGATTAATGGTAAAATTTAAC
95165114 AAAAAAAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (31 bp):
TTTTTAAAAGATTAATGGTAAAATTTAACTC
Found at i:95176460 original size:17 final size:17
Alignment explanation
Indices: 95176438--95176470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95176428 TTTTTACCAT
*
95176438 TTATCATTTATCGGGCA
1 TTATCATTGATCGGGCA
95176455 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
95176471 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:95188996 original size:46 final size:48
Alignment explanation
Indices: 95188909--95189026 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 48
95188899 TTTTGACTAC
* * * **
95188909 ATATGTATTGGCACTTAGTGTACGGGACTGAAATAGCTTCGG-T-TAT
1 ATATATATTGGCACTTAGTGTGCGGAACTGAAATAAATTCGGCTATAT
* * *
95188955 ATATATATTGGCACTTAGTGTGCGTAATTGAGATAAATTCGGCTATAT
1 ATATATATTGGCACTTAGTGTGCGGAACTGAAATAAATTCGGCTATAT
* *
95189003 ATATACATTGGCATTTAGTGTGCG
1 ATATATATTGGCACTTAGTGTGCG
95189027 AGATCGATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 34 0.57
47 1 0.02
48 25 0.42
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (48 bp):
ATATATATTGGCACTTAGTGTGCGGAACTGAAATAAATTCGGCTATAT
Found at i:95190933 original size:222 final size:223
Alignment explanation
Indices: 95190529--95190977 Score: 846
Period size: 222 Copynumber: 2.0 Consensus size: 223
95190519 AGTGTGATGA
95190529 CTCTTAATATTTTTAAAATGTGTTTTCATATAGTAAATAGATCCCAATCGAGTTGTAGTTGATGA
1 CTCTTAATATTTTTAAAATGTGTTTTCATATAGTAAATAGATCCCAATCGAGTTGTAGTTGATGA
95190594 GGTTGAAAGTAATGTGCCAGCTCCCAATCAAGAGACAGTGCCTTCTAAATCTAGACTCGTATCAG
66 GGTTGAAAGTAATGTGCCAGCTCCCAATCAAGAGACAGTGCCTTCTAAATCTAGACTCGTATCAG
95190659 GTAGCCAGGGAGGAGAGGCTAACGAAGCCTTCTTCCAAATGATGAACGAATGATTCACGTAGTAT
131 GTAGCCAGGGAGGAGAGGCTAACGAAGCCTTCTTCCAAATGATGAACGAATGATTCACGTAGTAT
*
95190724 GTCTTGACAAATTCGGCTGCTCAACAAC
196 GTCTTGAAAAATTCGGCTGCTCAACAAC
95190752 CTCTTAATATTTTTAAAATGTGTTTTCATATAGTAAATAGATCCCAATCGAGTTGTAGTTGATGA
1 CTCTTAATATTTTTAAAATGTGTTTTCATATAGTAAATAGATCCCAATCGAGTTGTAGTTGATGA
* * *
95190817 GGTTGAAAGTAATGTGCCAGCT-CCACTCAAGAGATAGTGCCTTCTAAATCTAGACTCGTATCGG
66 GGTTGAAAGTAATGTGCCAGCTCCCAATCAAGAGACAGTGCCTTCTAAATCTAGACTCGTATCAG
95190881 GTAGCCAGGGAGGAGAGGCTAACGAAGCCTTCTTCCAAATGATGAACGAATGATTCACGTAGTAT
131 GTAGCCAGGGAGGAGAGGCTAACGAAGCCTTCTTCCAAATGATGAACGAATGATTCACGTAGTAT
*
95190946 GTCTTGAAAAATTCGGTTGCTCAACAAC
196 GTCTTGAAAAATTCGGCTGCTCAACAAC
95190974 CTCT
1 CTCT
95190978 ACCCCTACCT
Statistics
Matches: 221, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
222 134 0.61
223 87 0.39
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (223 bp):
CTCTTAATATTTTTAAAATGTGTTTTCATATAGTAAATAGATCCCAATCGAGTTGTAGTTGATGA
GGTTGAAAGTAATGTGCCAGCTCCCAATCAAGAGACAGTGCCTTCTAAATCTAGACTCGTATCAG
GTAGCCAGGGAGGAGAGGCTAACGAAGCCTTCTTCCAAATGATGAACGAATGATTCACGTAGTAT
GTCTTGAAAAATTCGGCTGCTCAACAAC
Found at i:95210017 original size:46 final size:46
Alignment explanation
Indices: 95209925--95210083 Score: 167
Period size: 46 Copynumber: 3.4 Consensus size: 46
95209915 CTAATTATGT
* * * ** * *
95209925 GCACTTGGTGTGTGAGATTAGAAATAGTTTCGACTACATATGTATTG
1 GCACTTAGTGTGCGAGATT-GAAATAGCTTCGGTTATATATATATTG
*
95209972 GCACTTAGTGTGCGAGACTGAAATAGCTTCGGTTATATATATATTG
1 GCACTTAGTGTGCGAGATTGAAATAGCTTCGGTTATATATATATTG
* * *
95210018 GCACTTAGTGTGTGTA-ATTGAGATAGCTTCGGCTATATATATACATTG
1 GCACTTAGTGTGCG-AGATTGAAATAGCTTCGG-T-TATATATATATTG
*
95210066 GCACGTAGTGTGCGAGAT
1 GCACTTAGTGTGCGAGAT
95210084 CGATATTACT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
46 49 0.52
47 19 0.20
48 26 0.28
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (46 bp):
GCACTTAGTGTGCGAGATTGAAATAGCTTCGGTTATATATATATTG
Found at i:95219415 original size:18 final size:18
Alignment explanation
Indices: 95219392--95219427 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
95219382 TCTTCCTGGT
95219392 TTCCTACCTGGTGCACAG
1 TTCCTACCTGGTGCACAG
95219410 TTCCTACCTGGTGCACAG
1 TTCCTACCTGGTGCACAG
95219428 CTTCTATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (18 bp):
TTCCTACCTGGTGCACAG
Found at i:95227838 original size:22 final size:22
Alignment explanation
Indices: 95227810--95227858 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
95227800 GCTCATGAAT
95227810 TCATCCATGGCACATTTAAAAA
1 TCATCCATGGCACATTTAAAAA
95227832 TCATCCATGGCACATTTAAAAA
1 TCATCCATGGCACATTTAAAAA
95227854 TCATC
1 TCATC
95227859 ATCAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (22 bp):
TCATCCATGGCACATTTAAAAA
Found at i:95231365 original size:7 final size:7
Alignment explanation
Indices: 95231355--95231382 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
95231345 ACCCGAGCTC
95231355 TGAATCT
1 TGAATCT
95231362 TGAATCT
1 TGAATCT
95231369 TGAATCT
1 TGAATCT
95231376 TGAATCT
1 TGAATCT
95231383 CGAACCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (7 bp):
TGAATCT
Found at i:95232162 original size:15 final size:17
Alignment explanation
Indices: 95232142--95232178 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
95232132 AGGTATAGTA
*
95232142 AAATA-TTAAA-ATAAT
1 AAATATTTAAAGAAAAT
95232157 AAATATTTAAAGAAAAT
1 AAATATTTAAAGAAAAT
95232174 AAATA
1 AAATA
95232179 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 5 0.26
17 9 0.47
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATATTTAAAGAAAAT
Found at i:95232896 original size:17 final size:16
Alignment explanation
Indices: 95232876--95232917 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
95232866 TATATGTTAT
95232876 AAATTACATAATATATA
1 AAATTACATAATATA-A
*
95232893 AAATAACATAATATAA
1 AAATTACATAATATAA
95232909 AACATTACA
1 AA-ATTACA
95232918 AACTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTACATAATATAA
Found at i:95233507 original size:14 final size:14
Alignment explanation
Indices: 95233483--95233521 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
95233473 TCATAATTTG
95233483 ATTCTCAATTTCTT
1 ATTCTCAATTTCTT
* * *
95233497 GTTCTCGATTTGTT
1 ATTCTCAATTTCTT
95233511 ATTCTCAATTT
1 ATTCTCAATTT
95233522 TTTAATCTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (14 bp):
ATTCTCAATTTCTT
Found at i:95240374 original size:22 final size:22
Alignment explanation
Indices: 95240349--95240396 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
95240339 GCATACCTTA
*
95240349 AAACTATAACAATGTCTATCTC
1 AAACTATAACAACGTCTATCTC
95240371 AAACTATAACAACGTCTATCTC
1 AAACTATAACAACGTCTATCTC
95240393 AAAC
1 AAAC
95240397 GCCAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (22 bp):
AAACTATAACAACGTCTATCTC
Found at i:95240889 original size:15 final size:15
Alignment explanation
Indices: 95240871--95240901 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
95240861 AATATTTTAA
95240871 AAAATTATAAAAAAT
1 AAAATTATAAAAAAT
*
95240886 AAAATTTTAAAAAAT
1 AAAATTATAAAAAAT
95240901 A
1 A
95240902 TAGGAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTATAAAAAAT
Found at i:95246340 original size:20 final size:21
Alignment explanation
Indices: 95246315--95246354 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
95246305 TAAATTCAAC
95246315 TATTTTATATTAG-GTAAATT
1 TATTTTATATTAGTGTAAATT
* *
95246335 TATTTTCTTTTAGTGTAAAT
1 TATTTTATATTAGTGTAAAT
95246355 GCAGGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (21 bp):
TATTTTATATTAGTGTAAATT
Found at i:95246704 original size:22 final size:20
Alignment explanation
Indices: 95246678--95246731 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
95246668 ATAAATTTTC
*
95246678 TAAATTTTTTTTATATTTTTT
1 TAAATTTTTTTTAT-TTATTT
95246699 TGAAATTATTTATTTATTTATTT
1 T-AAATT-TTT-TTTATTTATTT
95246722 T-AATTTTTTT
1 TAAATTTTTTT
95246732 ATGAATTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 5 0.17
22 5 0.17
23 9 0.31
24 5 0.17
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TAAATTTTTTTTATTTATTT
Found at i:95246732 original size:22 final size:22
Alignment explanation
Indices: 95246680--95246733 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
95246670 AAATTTTCTA
95246680 AATTTTTTT-TATATTTTTTTG
1 AATTTTTTTATATATTTTTTTG
* * *
95246701 AAATTATTTATTTATTTATTTT-
1 AATTTTTTTATATATTT-TTTTG
95246723 AATTTTTTTAT
1 AATTTTTTTAT
95246734 GAATTATATG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
AATTTTTTTATATATTTTTTTG
Found at i:95247434 original size:20 final size:20
Alignment explanation
Indices: 95247409--95247446 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
95247399 AATAACAAAA
95247409 CAATCACTCAACTTTCAACT
1 CAATCACTCAACTTTCAACT
*
95247429 CAATCACTTAACTTTCAA
1 CAATCACTCAACTTTCAA
95247447 AAAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (20 bp):
CAATCACTCAACTTTCAACT
Found at i:95247621 original size:20 final size:20
Alignment explanation
Indices: 95247593--95247645 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
95247583 ACAAAACAGT
95247593 AAAAGAAGAAGAAGAGGAGA
1 AAAAGAAGAAGAAGAGGAGA
* *
95247613 AAAATAAGAATAAGAGGAAGA
1 AAAAGAAGAAGAAGAGG-AGA
*
95247634 AGAAG-AGAAGAA
1 AAAAGAAGAAGAA
95247646 TATATTGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (20 bp):
AAAAGAAGAAGAAGAGGAGA
Found at i:95251373 original size:20 final size:20
Alignment explanation
Indices: 95251348--95251387 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
95251338 TAGTAGTTGA
95251348 TGCATGATGATTAGAAACTT
1 TGCATGATGATTAGAAACTT
95251368 TGCATGATGATTAGAAACTT
1 TGCATGATGATTAGAAACTT
95251388 ACTTGGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
TGCATGATGATTAGAAACTT
Found at i:95257150 original size:30 final size:31
Alignment explanation
Indices: 95257091--95257152 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
95257081 ACTTAACAAG
95257091 CAAATGCTTCTAAAATAATAAAAAAAATTAA
1 CAAATGCTTCTAAAATAATAAAAAAAATTAA
* *
95257122 CAAATGCTTTTAAAATAAT-AAGAAAATTAA
1 CAAATGCTTCTAAAATAATAAAAAAAATTAA
95257152 C
1 C
95257153 GATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAAAAAAATTAA
Found at i:95258452 original size:38 final size:36
Alignment explanation
Indices: 95258410--95258480 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
95258400 ATTAATTAAT
95258410 TTTTAAAA-AATTAAAAATATTTTTTGTAATTTTTATAC
1 TTTTAAAATAATT-AAAATA-TTTTT-TAATTTTTATAC
**
95258448 TTTTAAAATAATTTTAATATTTTTTAATTTTTA
1 TTTTAAAATAATTAAAATATTTTTTAATTTTTA
95258481 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 9 0.30
37 5 0.17
38 12 0.40
39 4 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (36 bp):
TTTTAAAATAATTAAAATATTTTTTAATTTTTATAC
Found at i:95258489 original size:27 final size:27
Alignment explanation
Indices: 95258428--95258496 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
95258418 AATTAAAAAT
*
95258428 ATTTTTTGTAAT-TTTTATACTTTTAAA
1 ATTTTTT-TAATATTTTATAATTTTAAA
** * *
95258455 ATAATTTTAATATTTTTTAATTTTTAA
1 ATTTTTTTAATATTTTATAATTTTAAA
*
95258482 ATTTTTTTAAAATTT
1 ATTTTTTTAATATTT
95258497 AAAAAAAACT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
ATTTTTTTAATATTTTATAATTTTAAA
Found at i:95258497 original size:17 final size:18
Alignment explanation
Indices: 95258457--95258499 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
95258447 CTTTTAAAAT
*
95258457 AATTTTAATATTTTTTAA
1 AATTTAAATATTTTTTAA
**
95258475 TTTTTAAAT-TTTTTTAA
1 AATTTAAATATTTTTTAA
95258492 AATTTAAA
1 AATTTAAA
95258500 AAAAACTTAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTAAATATTTTTTAA
Found at i:95260432 original size:30 final size:29
Alignment explanation
Indices: 95260353--95260436 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
95260343 TAGTTAGGTA
* *
95260353 ATAAAAATAAAAGGAACAATAATTAGGTG
1 ATAAAAATAAAAAGAACAATAATTAGATG
* * **
95260382 A-ACAATTAAAAA-ATTAATAATTAGATG
1 ATAAAAATAAAAAGAACAATAATTAGATG
95260409 ATAAAAATAAAAAGAGACAATAATTAGA
1 ATAAAAATAAAAAGA-ACAATAATTAGA
95260437 AGACTTATGA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
27 13 0.31
28 17 0.40
29 2 0.05
30 10 0.24
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.23
Consensus pattern (29 bp):
ATAAAAATAAAAAGAACAATAATTAGATG
Found at i:95263113 original size:5 final size:6
Alignment explanation
Indices: 95263098--95263127 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
95263088 TCTAGAGAGA
*
95263098 AAAAAT AAAAAT AAAAAT AAAAAT ATAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
95263128 GGTTATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:95268376 original size:43 final size:42
Alignment explanation
Indices: 95268298--95268378 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
95268288 AAAATCTTCA
*
95268298 ATTCTCAATCTGCTTCCTTGCAACCTTAGGAAGATAAGACTT
1 ATTCTCAATCTGCTTCCTTGCAACCTCAGGAAGATAAGACTT
* *
95268340 ATTCTTCAATCTGCTTTCTTGCTACCTCA-GAGAGATAAG
1 ATTC-TCAATCTGCTTCCTTGCAACCTCAGGA-AGATAAG
95268379 GCTTGTGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 6 0.18
43 28 0.82
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (42 bp):
ATTCTCAATCTGCTTCCTTGCAACCTCAGGAAGATAAGACTT
Found at i:95268550 original size:176 final size:177
Alignment explanation
Indices: 95268152--95269004 Score: 766
Period size: 176 Copynumber: 4.8 Consensus size: 177
95268142 TTACTGCAGC
* * * * * * * *
95268152 TAAGACTCAATCTTCAACTTGCTCTTTTGCTACCTCAGAGAGAT-AGGGTTAATGGCTAAAATCT
1 TAAGACTTATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTT-GTGGCTTAAATCT
* ** * *
95268216 GCTCCATTGCCGATACATGGAGAGAAGATTCGCCATCTTCGATCCACTCTGCTAATGTAACTTTA
65 GCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGC---TGCAACTTTA
* * * *
95268281 GGGAGATAAAATCTTCAATTCTCAATCTGCTTCC-TTGCAACCTTAGGAAGA
127 GGGAGATAAAATCTT-AATTCTCAGTCTGCTTCCACTGCAACCTCAAGAAGA
* * *
95268332 TAAGACTTATTCTTCAATCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTTGTGGCTTAAATCTG
1 TAAGACTTATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTTGTGGCTTAAATCTG
* * * * *
95268397 CTCCATTGTCGATACATAGAGATAAGATTCACTAT-TCTCGATCTGCTCCACTGCAACTTTAGGG
66 CTCCATTGCCGATACATGGAGATAAGATTCGCCATCT-TCGATCTGCTCCGCTGCAACTTTAGGG
* * *
95268461 AGATAAAATCTTAAATCTCAGTCTGCTTCC-TTGCTACCTCAAGAAGA
130 AGATAAAATCTTAATTCTCAGTCTGCTTCCACTGCAACCTCAAGAAGA
* * *
95268508 TAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAGGGCTTGTGACTTAAATCTG
1 TAAGACTTATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTTGTGGCTTAAATCTG
* ** *
95268573 CTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGC-TTAGGAA
66 CTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTGCAACTTTAGGGA
* * * *
95268637 GAT-AAATCTGTGATTTTCAGTCTG-TTCCACTGCAACCTCAGGGAGA
131 GATAAAATCT-TAATTCTCAGTCTGCTTCCACTGCAACCTCAAGAAGA
* * * * * * * * *
95268683 TAAGACTTGTATATTGAGCCTGCTC-CACTGC-AACTTCAGGGAGATAAGGCTTATTGCTTAAAT
1 TAAGACTTAT-TCTTCAACCTGCTCTC-TTGCTACCTT-AGAGAGATAAGGCTTGTGGCTTAAAT
* * * * * * * * **
95268746 CTGCTCCATTACTGATACATGGAGATAAGATTCGCCATTTTTGATCTACTTCGTTACTGC-TTAG
63 CTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTGCAACTTTAG
* *
95268810 GGAGAT-AAATCTGTGATTTTCAGTCTGC-TCCACTGCAACCTC-AGAGAGA
128 GGAGATAAAATCT-TAATTCTCAGTCTGCTTCCACTGCAACCTCAAGA-AGA
* * * * * * * * * * *
95268859 TAAAACTTGTATATTGAGCCTGCTC-CACTG-TAACTTTAGGGAGATAAGGCTGGTAG-TAAAAT
1 TAAGACTTAT-TCTTCAACCTGCTCTC-TTGCT-ACCTTAGAGAGATAAGGCTTGTGGCTTAAAT
* * * *
95268921 TTGCTCCATTGCCGATACATAGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGCAACTTCAG
63 CTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTGCAACTTTAG
*
95268986 GGAGATAAGATCTTCAATT
128 GGAGATAAAATCTT-AATT
95269005 TTCACCAATA
Statistics
Matches: 567, Mismatches: 91, Indels: 33
0.82 0.13 0.05
Matches are distributed among these distances:
174 10 0.02
175 99 0.17
176 326 0.57
177 36 0.06
179 1 0.00
180 90 0.16
181 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (177 bp):
TAAGACTTATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTTGTGGCTTAAATCTG
CTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTGCAACTTTAGGGA
GATAAAATCTTAATTCTCAGTCTGCTTCCACTGCAACCTCAAGAAGA
Found at i:95268682 original size:88 final size:87
Alignment explanation
Indices: 95268590--95268861 Score: 223
Period size: 88 Copynumber: 3.1 Consensus size: 87
95268580 GCCGATACAT
* *
95268590 GGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTTAGGAAGATAAATCTGTGATTTTC
1 GGAGATAAGATTCGCCATATT-GATCTGCTCCGCTACTGCTTAGGGAGATAAATCTGTGATTTTC
*
95268655 AGTCTGTTCCACTGCAACCTCAG
65 AGTCTGCTCCACTGCAACCTCAG
* * * * ** **
95268678 GGAGATAAGACTT-G-TATATTGAGCCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-T-ATTG
1 GGAGATAAGA-TTCGCCATATTGA-TCTGCTCCGCTACTGCTT-AGGGAGATAAATCTGTGATT-
* * * * * *
95268739 CTTAAATCTGCTCCATTACTGA--TACAT
62 -TTCAGTCTGCTCCACTGC-AACCT-CAG
* * * *
95268766 GGAGATAAGATTCGCCATTTTTGATCTACTTCGTTACTGCTTAGGGAGATAAATCTGTGATTTTC
1 GGAGATAAGATTCGCCA-TATTGATCTGCTCCGCTACTGCTTAGGGAGATAAATCTGTGATTTTC
95268831 AGTCTGCTCCACTGCAACCTCAG
65 AGTCTGCTCCACTGCAACCTCAG
*
95268854 AGAGATAA
1 GGAGATAA
95268862 AACTTGTATA
Statistics
Matches: 134, Mismatches: 36, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
86 5 0.04
87 22 0.16
88 83 0.62
89 16 0.12
90 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
GGAGATAAGATTCGCCATATTGATCTGCTCCGCTACTGCTTAGGGAGATAAATCTGTGATTTTCA
GTCTGCTCCACTGCAACCTCAG
Found at i:95268750 original size:44 final size:44
Alignment explanation
Indices: 95268657--95268753 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
95268647 TGATTTTCAG
* * * *
95268657 TCTGTTCCACTGCAACCTCAGGGAGATAAGACTTGTATATTGAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATATATTAAA
* * * *
95268701 CCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTAT-TGCTTAAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAT-ATTAAA
95268745 TCTGCTCCA
1 TCTGCTCCA
95268754 TTACTGATAC
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATATATTAAA
Found at i:95268900 original size:88 final size:87
Alignment explanation
Indices: 95268630--95268905 Score: 221
Period size: 88 Copynumber: 3.1 Consensus size: 87
95268620 CCGCTACTGC
* *
95268630 TTAGGAAGATAAATCTGTGATTTTCAGTCTGTTCCACTGCAACCTCAGGGAGATAAGACTTGTAT
1 TTAGGGAGATAAATCTGTGATTTTCAGTCTGCTCCACTGCAACCTCA-GGAGATAAGACTTGTAT
*
95268695 ATTGAGCCTGCTCCACTGCAACT
65 ATTGAGCCTGCTCCACTGTAACT
* ** * * *
95268718 TCAGGGAGATAAGGCT-T-ATTGCTTAAATCTGCTCCATTACTG-ATACAT--GGAGATAAGA-T
1 TTAGGGAGATAAATCTGTGATT--TTCAGTCTGCTCC---ACTGCA-ACCTCAGGAGATAAGACT
* * * * * *
95268777 TCGCCATTTTTGA-TCTACT--TC-GTTACT
60 T-G-TA-TATTGAGCCTGCTCCACTGTAACT
*
95268804 GCTTAGGGAGATAAATCTGTGATTTTCAGTCTGCTCCACTGCAACCTCAGAGAGATAAAACTTGT
1 --TTAGGGAGATAAATCTGTGATTTTCAGTCTGCTCCACTGCAACCTCAG-GAGATAAGACTTGT
95268869 ATATTGAGCCTGCTCCACTGTAACT
63 ATATTGAGCCTGCTCCACTGTAACT
95268894 TTAGGGAGATAA
1 TTAGGGAGATAA
95268906 GGCTGGTAGT
Statistics
Matches: 138, Mismatches: 28, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
85 7 0.05
86 13 0.09
87 10 0.07
88 78 0.57
89 9 0.07
90 14 0.10
91 7 0.05
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (87 bp):
TTAGGGAGATAAATCTGTGATTTTCAGTCTGCTCCACTGCAACCTCAGGAGATAAGACTTGTATA
TTGAGCCTGCTCCACTGTAACT
Found at i:95268903 original size:44 final size:44
Alignment explanation
Indices: 95268805--95268905 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
95268795 TTCGTTACTG
* * *
95268805 CTTAGGGAGATAAATCTGTGATTTTCAGTCTGCTCCACTGCAAC
1 CTTAGGGAGATAAAACTGTGATATTCAGCCTGCTCCACTGCAAC
* * * *
95268849 CTCAGAGAGATAAAACT-TGTATATTGAGCCTGCTCCACTGTAAC
1 CTTAGGGAGATAAAACTGTG-ATATTCAGCCTGCTCCACTGCAAC
*
95268893 TTTAGGGAGATAA
1 CTTAGGGAGATAA
95268906 GGCTGGTAGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
43 2 0.04
44 44 0.96
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTAGGGAGATAAAACTGTGATATTCAGCCTGCTCCACTGCAAC
Found at i:95278184 original size:8 final size:7
Alignment explanation
Indices: 95278157--95278183 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
95278147 TTACAGAGTA
95278157 AAAAAAT
1 AAAAAAT
95278164 AAAAAAT
1 AAAAAAT
95278171 AAAAAAT
1 AAAAAAT
95278178 AAAAAA
1 AAAAAA
95278184 AAACACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:95283546 original size:2 final size:2
Alignment explanation
Indices: 95283539--95283569 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
95283529 AAAGATAAAC
*
95283539 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
95283570 ATTTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:95286546 original size:7 final size:7
Alignment explanation
Indices: 95286536--95286561 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
95286526 AATTAAATAA
95286536 AAAATTT
1 AAAATTT
95286543 AAAATTT
1 AAAATTT
95286550 AAAATTT
1 AAAATTT
95286557 AAAAT
1 AAAAT
95286562 ATATAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:95287048 original size:12 final size:12
Alignment explanation
Indices: 95287031--95287056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95287021 AATTAGATTT
95287031 TTGTGTAATTAC
1 TTGTGTAATTAC
95287043 TTGTGTAATTAC
1 TTGTGTAATTAC
95287055 TT
1 TT
95287057 CAATTCTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGTGTAATTAC
Found at i:95293597 original size:43 final size:43
Alignment explanation
Indices: 95293549--95293635 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
95293539 TATATAAAAG
95293549 AACCATAATTAAGACATTGTAGATAAACACAACTGTCATGCTT
1 AACCATAATTAAGACATTGTAGATAAACACAACTGTCATGCTT
95293592 AACCATAATTAAGACATTGTAGATAAACACAACTGTCATGCTT
1 AACCATAATTAAGACATTGTAGATAAACACAACTGTCATGCTT
95293635 A
1 A
95293636 CTTCGAGAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (43 bp):
AACCATAATTAAGACATTGTAGATAAACACAACTGTCATGCTT
Found at i:95303967 original size:25 final size:26
Alignment explanation
Indices: 95303935--95303991 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
95303925 GTTTAACTAC
95303935 AGTTTTCAATA-TATACTAACTAGAGT
1 AGTTTTCAA-AGTATACTAACTAGAGT
* *
95303961 A-TTTTCAAAGTATACTACCTATAGT
1 AGTTTTCAAAGTATACTAACTAGAGT
95303986 AGTTTT
1 AGTTTT
95303992 TGAATAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 21 0.78
26 5 0.19
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (26 bp):
AGTTTTCAAAGTATACTAACTAGAGT
Found at i:95304851 original size:34 final size:34
Alignment explanation
Indices: 95304790--95304868 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
95304780 CTATCTCAGT
*
95304790 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
1 ACAGTATC-AATATGCAGTAGGACCTTAGCCCATC
* * *
95304825 ACAGTATCAGTATGCATTAGGACCTTATCCCATC
1 ACAGTATCAATATGCAGTAGGACCTTAGCCCATC
95304859 ACAGTATCAA
1 ACAGTATCAA
95304869 CAGCAGTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 31 0.79
35 8 0.21
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (34 bp):
ACAGTATCAATATGCAGTAGGACCTTAGCCCATC
Found at i:95312366 original size:22 final size:20
Alignment explanation
Indices: 95312328--95312372 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
95312318 TTACCGATCG
*
95312328 ATTTACAACATATAGCATAC
1 ATTTACAACATAAAGCATAC
*
95312348 ATTTATCAATCATAAAGCATTC
1 ATTTA-CAA-CATAAAGCATAC
95312370 ATT
1 ATT
95312373 CTCATAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 3 0.14
22 13 0.62
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (20 bp):
ATTTACAACATAAAGCATAC
Found at i:95314244 original size:25 final size:25
Alignment explanation
Indices: 95314216--95314265 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
95314206 GATTTCTTTC
95314216 TTGATCTATATGAATTCAAAATTAA
1 TTGATCTATATGAATTCAAAATTAA
95314241 TTGATCTATATGAATTCAAAATTAA
1 TTGATCTATATGAATTCAAAATTAA
95314266 CTTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (25 bp):
TTGATCTATATGAATTCAAAATTAA
Found at i:95317141 original size:25 final size:25
Alignment explanation
Indices: 95317070--95317178 Score: 134
Period size: 26 Copynumber: 4.4 Consensus size: 25
95317060 CTGGAGGCCT
95317070 AGCCTCTTTTAAT-AACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
* *
95317094 AGCCCTTTTGATCAACTGGGGCA-A
1 AGCCCTTTTAATAAACTGGGGCATA
95317118 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
* *
95317144 AGCTCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
95317170 AGCCCTTTT
1 AGCCCTTTT
95317179 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.09
24 24 0.32
25 12 0.16
26 33 0.43
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:95317253 original size:20 final size:20
Alignment explanation
Indices: 95317228--95317322 Score: 151
Period size: 20 Copynumber: 4.8 Consensus size: 20
95317218 TTATGATTAC
*
95317228 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
95317248 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
95317268 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
95317288 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
95317308 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
95317323 TCCCATATAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
18 8 0.11
20 63 0.86
21 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:95317259 original size:11 final size:11
Alignment explanation
Indices: 95317228--95317303 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
95317218 TTATGATTAC
95317228 ATCATGTGCAT
1 ATCATGTGCAT
* *
95317239 TTCA--TACAT
1 ATCATGTGCAT
95317248 ATCATGTGCAT
1 ATCATGTGCAT
*
95317259 ATCA--TACAT
1 ATCATGTGCAT
95317268 ATCATGTGCAT
1 ATCATGTGCAT
*
95317279 ATCA--TACAT
1 ATCATGTGCAT
95317288 ATCATGTGCAT
1 ATCATGTGCAT
95317299 ATCAT
1 ATCAT
95317304 ATCAATCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:95317268 original size:9 final size:9
Alignment explanation
Indices: 95317240--95317292 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
95317230 CATGTGCATT
95317240 TCATACATA
1 TCATACATA
*
95317249 TCATGTGCATA
1 TCA--TACATA
95317260 TCATACATA
1 TCATACATA
*
95317269 TCATGTGCATA
1 TCA--TACATA
95317280 TCATACATA
1 TCATACATA
95317289 TCAT
1 TCAT
95317293 GTGCATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (9 bp):
TCATACATA
Found at i:95317376 original size:25 final size:25
Alignment explanation
Indices: 95317348--95317395 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95317338 TTACAAATAC
* * *
95317348 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
95317373 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
95317396 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:95325495 original size:26 final size:26
Alignment explanation
Indices: 95325413--95325547 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
95325403 CTGGAGGCCT
95325413 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* *
95325437 AGCCCTTTT-GATCAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
95325461 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
95325487 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95325513 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
95325539 AGCCTTTTT
1 AGCCCTTTT
95325548 GCACTTCCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 7 0.07
24 24 0.24
25 12 0.12
26 59 0.58
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:95325622 original size:20 final size:20
Alignment explanation
Indices: 95325597--95325691 Score: 151
Period size: 20 Copynumber: 4.8 Consensus size: 20
95325587 TTATGATTAC
*
95325597 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
95325617 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
95325637 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
95325657 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
95325677 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
95325692 TCCCACATAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
18 8 0.11
20 63 0.86
21 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:95325628 original size:11 final size:11
Alignment explanation
Indices: 95325597--95325672 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
95325587 TTATGATTAC
95325597 ATCATGTGCAT
1 ATCATGTGCAT
* *
95325608 TTCA--TACAT
1 ATCATGTGCAT
95325617 ATCATGTGCAT
1 ATCATGTGCAT
*
95325628 ATCA--TACAT
1 ATCATGTGCAT
95325637 ATCATGTGCAT
1 ATCATGTGCAT
*
95325648 ATCA--TACAT
1 ATCATGTGCAT
95325657 ATCATGTGCAT
1 ATCATGTGCAT
95325668 ATCAT
1 ATCAT
95325673 ATCAATCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:95325637 original size:9 final size:9
Alignment explanation
Indices: 95325609--95325661 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
95325599 CATGTGCATT
95325609 TCATACATA
1 TCATACATA
*
95325618 TCATGTGCATA
1 TCA--TACATA
95325629 TCATACATA
1 TCATACATA
*
95325638 TCATGTGCATA
1 TCA--TACATA
95325649 TCATACATA
1 TCATACATA
95325658 TCAT
1 TCAT
95325662 GTGCATATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (9 bp):
TCATACATA
Found at i:95325749 original size:25 final size:25
Alignment explanation
Indices: 95325717--95325764 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
95325707 TTACAAATAC
* *
95325717 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
95325742 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
95325765 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:95343197 original size:47 final size:46
Alignment explanation
Indices: 95343114--95343212 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 46
95343104 GTGCCGACGC
* *
95343114 CATGTCCCAGCATGGTCTTACACTAGCTCATTTCTCA-AGTCGATG
1 CATGTCCCAGCATGGTCTTACACTAGCTCATATCTCATAGCCGATG
95343159 TCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCATAGCCGATG
1 -CATGTCCCAG-CATGGTCTTACACTAG-CTCAT-ATCTCATAGCCGATG
95343207 CATGTC
1 CATGTC
95343213 TCAGTCAGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
46 13 0.28
47 27 0.57
48 7 0.15
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGCATGGTCTTACACTAGCTCATATCTCATAGCCGATG
Found at i:95346810 original size:2 final size:2
Alignment explanation
Indices: 95346803--95346834 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95346793 ACATTCTAAC
95346803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95346835 TTCAATACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95352768 original size:23 final size:23
Alignment explanation
Indices: 95352709--95352777 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
95352699 CCATAGTATA
* **
95352709 ATATGCATCGTAGTGCCTGAATG
1 ATATGCATCGAAGTGCCAAAATG
* *
95352732 ATATGCAGCAAAGTGCCAAAATG
1 ATATGCATCGAAGTGCCAAAATG
*
95352755 ATATGCATCGAAGTGGCAAAATG
1 ATATGCATCGAAGTGCCAAAATG
95352778 CTCCCACCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (23 bp):
ATATGCATCGAAGTGCCAAAATG
Found at i:95358040 original size:45 final size:43
Alignment explanation
Indices: 95357973--95358070 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 43
95357963 ACATTTATTT
* * ** * *
95357973 TTGTTGTGTACCCATAGTCATAGGCAGATTCCACCTATGACAGTC
1 TTGTTGTGCACCCACAACCATA-GCAAATTCCACCTACGACA-TC
* *
95358018 TTGTTGTGCACCCACAACCATAGCAAATTCCACCTGCGACATT
1 TTGTTGTGCACCCACAACCATAGCAAATTCCACCTACGACATC
95358061 TTGTTGTGCA
1 TTGTTGTGCA
95358071 TTAACAACCC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
43 11 0.24
44 16 0.36
45 18 0.40
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (43 bp):
TTGTTGTGCACCCACAACCATAGCAAATTCCACCTACGACATC
Found at i:95360545 original size:28 final size:27
Alignment explanation
Indices: 95360512--95360564 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
95360502 TTAGAATACT
*
95360512 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
95360540 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
95360565 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:95360551 original size:27 final size:27
Alignment explanation
Indices: 95360521--95360619 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
95360511 TTTAGTTTAC
95360521 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
95360548 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
95360575 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
95360602 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
95360620 CCCGATTTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 6 0.10
27 56 0.90
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:95360620 original size:54 final size:54
Alignment explanation
Indices: 95360521--95360627 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
95360511 TTTAGTTTAC
* * *
95360521 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
95360575 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
95360628 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:95360635 original size:27 final size:27
Alignment explanation
Indices: 95360605--95360666 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
95360595 CGACTTGTAA
95360605 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
95360632 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
95360659 AATTACCA
1 AATTACCA
95360667 TTTTACCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:95360667 original size:27 final size:27
Alignment explanation
Indices: 95360616--95360810 Score: 129
Period size: 27 Copynumber: 6.8 Consensus size: 27
95360606 ATTACCAAAG
95360616 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
95360643 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* * *
95360670 TACCCCCGTTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCCCG-ATT----T--AC--AG--AATTACCATTT
* * *
95360708 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * **
95360735 TACCGTCGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCATTT
** * *
95360762 TACCCTTGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
95360789 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
95360811 TAAAATACCC
Statistics
Matches: 139, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
27 110 0.79
28 2 0.01
29 1 0.01
31 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
36 1 0.01
37 2 0.01
38 17 0.12
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:95360674 original size:54 final size:54
Alignment explanation
Indices: 95360616--95360810 Score: 165
Period size: 54 Copynumber: 3.4 Consensus size: 54
95360606 ATTACCAAAG
* * *
95360616 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* *
95360670 TACCCCCGTTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCCCG----A---T----TTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
** * * * * *
95360735 TACCGTCGATTTATAGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
* *
95360789 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
95360811 TAAAATACCC
Statistics
Matches: 113, Mismatches: 17, Indels: 22
0.74 0.11 0.14
Matches are distributed among these distances:
54 64 0.57
58 2 0.02
61 2 0.02
65 45 0.40
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTT
Found at i:95360682 original size:38 final size:38
Alignment explanation
Indices: 95360640--95360721 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
95360630 AGAATTACCA
* *
95360640 TTTTACCCCCGATTTACATAATTACCATTTTACCCCCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
* * *
95360678 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
*
95360716 ATTTAC
1 TTTTAC
95360722 AGAATTATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.38
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:95360720 original size:65 final size:65
Alignment explanation
Indices: 95360616--95360738 Score: 183
Period size: 65 Copynumber: 1.9 Consensus size: 65
95360606 ATTACCAAAG
* *
95360616 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCCCCGTTT
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCCCCGTTT
* * * * *
95360681 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACC
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACC
95360739 GTCGATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.26, C:0.30, G:0.08, T:0.36
Consensus pattern (65 bp):
TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCCCCGTTT
Found at i:95360812 original size:27 final size:27
Alignment explanation
Indices: 95360677--95360811 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
95360667 TTTTACCCCC
* *
95360677 GTTTTACCCTCGACTTACAGAATTACC
1 GTTTTACCCTCGATTTACAGAATTACT
95360704 GTTTTACCCTCGATTTACAGAATTA-T
1 GTTTTACCCTCGATTTACAGAATTACT
* *
95360730 CGTTTTACCGTCGATTTATAGAATTACT
1 -GTTTTACCCTCGATTTACAGAATTACT
* *
95360758 GTTTTACCCTTGATTTATAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
* *
95360785 ATTTTACCCTCGATTTACAAAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
95360812 AAAATACCCT
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
27 95 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
GTTTTACCCTCGATTTACAGAATTACT
Found at i:95360819 original size:27 final size:27
Alignment explanation
Indices: 95360762--95360956 Score: 146
Period size: 27 Copynumber: 7.2 Consensus size: 27
95360752 ATTACTGTTT
* * * ***
95360762 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* *
95360789 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
95360816 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* *
95360843 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
95360870 TACCCT-TAGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* *
95360897 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
95360924 TACCC-CTGATTTATAAAGTTACAAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
95360951 TACCCT
1 TACCCT
95360957 TGACTTTCTA
Statistics
Matches: 143, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.01
27 140 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:95360847 original size:81 final size:81
Alignment explanation
Indices: 95360762--95360956 Score: 205
Period size: 81 Copynumber: 2.4 Consensus size: 81
95360752 ATTACTGTTT
* * * *** * * *
95360762 TACCCTTGATTTATAGAATTACTATTTTACCCTCGA-TTTACAAAATTACTAAAATACCCTTAGT
1 TACCCCTGATTTATAAAATTACCAAAATACCCT-GAGTTTACAAAATTACCAAAATACCCTCAAT
95360826 TTGTAAAATTACCAAAA
65 TTGTAAAATTACCAAAA
* * *** *
95360843 TACCCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCTGA-TTTATAAAATTACCAAAATACCCTGAGTTTACAAAATTACCAAAATACCCTCAAT
95360907 TTGTAAAATTACCAAAA
65 TTGTAAAATTACCAAAA
* *
95360924 TACCCCTGATTTATAAAGTTACAAAAATACCCT
1 TACCCCTGATTTATAAAATTACCAAAATACCCT
95360957 TGACTTTCTA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
80 2 0.02
81 90 0.97
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (81 bp):
TACCCCTGATTTATAAAATTACCAAAATACCCTGAGTTTACAAAATTACCAAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:95360956 original size:54 final size:53
Alignment explanation
Indices: 95360789--95360956 Score: 196
Period size: 54 Copynumber: 3.1 Consensus size: 53
95360779 ATTACTATTT
* ** *
95360789 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGT-AAATTACCAAAA
* *
95360843 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTTGT-AAATTACCAAAA
* * *
95360897 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTATAAAGTTACAAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAG-TTTGTAAA-TTACCAAAA
95360951 TACCCT
1 TACCCT
95360957 TGACTTTCTA
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 5 0.05
54 92 0.94
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAATTACCAAAA
Found at i:95360957 original size:81 final size:81
Alignment explanation
Indices: 95360804--95360957 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
95360794 TCGATTTACA
* * * * *
95360804 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACAAAA
95360869 ATACCCTTAGTTTGTG
66 ATACCCTTAGTTTGTG
* *
95360885 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTATAAAGTTACAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTATAAAATTACAAA
95360949 AATACCCTT
65 AATACCCTT
95360958 GACTTTCTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTACAAAA
ATACCCTTAGTTTGTG
Found at i:95361000 original size:27 final size:27
Alignment explanation
Indices: 95360967--95361018 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
95360957 TGACTTTCTA
95360967 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
95360994 AAAATTACTGAAATACCTTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
95361019 GTTGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:95361104 original size:27 final size:27
Alignment explanation
Indices: 95361070--95361137 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
95361060 ATGCCCTTAT
*
95361070 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
95361097 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
95361124 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
95361138 GAATATGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:95362427 original size:11 final size:11
Alignment explanation
Indices: 95362391--95362446 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
95362381 CATGGTATGT
95362391 ATGATATGCAC
1 ATGATATGCAC
* *
95362402 ATGACATG--T
1 ATGATATGCAC
95362411 ATGATATGCAC
1 ATGATATGCAC
*
95362422 ATGATATG--T
1 ATGATATGCAC
95362431 ATGATATGCAC
1 ATGATATGCAC
95362442 ATGAT
1 ATGAT
95362447 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:95362446 original size:20 final size:20
Alignment explanation
Indices: 95362380--95362446 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
95362370 ATTTTGATAA
*
95362380 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95362400 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
95362420 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
95362440 ACATGAT
1 ACATGAT
95362447 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:95362527 original size:23 final size:23
Alignment explanation
Indices: 95362497--95362592 Score: 174
Period size: 23 Copynumber: 4.1 Consensus size: 23
95362487 AGGAAGTGAA
95362497 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
95362520 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
95362544 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95362567 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95362590 AAA
1 AAA
95362593 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
23 48 0.69
24 22 0.31
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:95362552 original size:24 final size:23
Alignment explanation
Indices: 95362496--95362614 Score: 168
Period size: 23 Copynumber: 5.0 Consensus size: 23
95362486 GAGGAAGTGA
95362496 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
95362519 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
95362542 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
95362566 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
95362590 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95362614 A
1 A
95362615 TGATAAAGCA
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 43 0.49
24 34 0.39
25 10 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:95362565 original size:47 final size:47
Alignment explanation
Indices: 95362496--95362613 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 47
95362486 GAGGAAGTGA
95362496 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
95362543 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
95362590 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95362614 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
47 56 0.84
48 11 0.16
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:95362845 original size:31 final size:31
Alignment explanation
Indices: 95362807--95362870 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
95362797 CGTTTACAGT
*
95362807 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAAAATGA
* **
95362838 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCGACCCAGTAATATGAAAAATGA
95362869 AA
1 AA
95362871 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAAAATGA
Found at i:95371617 original size:52 final size:52
Alignment explanation
Indices: 95371459--95371617 Score: 196
Period size: 52 Copynumber: 3.0 Consensus size: 52
95371449 GTTGGACCAT
* *
95371459 GGAAAAAAGTGATATGTGATATCCGTATAAAACCATAGCTGGGCTATGGCATC
1 GGAAAAAAGTGATAAGTG-TATCCGTATAAGACCATAGCTGGGCTATGGCATC
* *
95371512 AGAAAATAAGTGATAAGTG-ATCCGTATAAGACCATAGCTGGGCTATGGTATC
1 GGAAAA-AAGTGATAAGTGTATCCGTATAAGACCATAGCTGGGCTATGGCATC
* * * * *
95371564 GGAGAAAAGTGATAAGTGCTAT-CGTGTAAGTCCATATCTGGGATATGGCATC
1 GGAAAAAAGTGATAAGTG-TATCCGTATAAGACCATAGCTGGGCTATGGCATC
95371616 GG
1 GG
95371618 TATGATATAT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
51 12 0.13
52 62 0.67
53 7 0.08
54 11 0.12
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (52 bp):
GGAAAAAAGTGATAAGTGTATCCGTATAAGACCATAGCTGGGCTATGGCATC
Found at i:95373309 original size:2 final size:2
Alignment explanation
Indices: 95373302--95373332 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95373292 ATTATTTGTT
95373302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95373333 TTGTATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95375152 original size:21 final size:20
Alignment explanation
Indices: 95375128--95375173 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
95375118 TTCTAACAGA
95375128 CAAAAATTTGTAACCAAATAT
1 CAAAAATTTGTAA-CAAATAT
* * *
95375149 CAAAAGTTTTTAACAGATAT
1 CAAAAATTTGTAACAAATAT
95375169 CAAAA
1 CAAAA
95375174 TTTTCTATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (20 bp):
CAAAAATTTGTAACAAATAT
Found at i:95375225 original size:21 final size:21
Alignment explanation
Indices: 95375192--95375234 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
95375182 GGGTACCAGA
* *
95375192 ATTTCTAATAGATACTAAAAT
1 ATTTCTAAGAGATACCAAAAT
*
95375213 ATTTTTAAGAGATACCAAAAT
1 ATTTCTAAGAGATACCAAAAT
95375234 A
1 A
95375235 CCAAAATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (21 bp):
ATTTCTAAGAGATACCAAAAT
Found at i:95375664 original size:23 final size:23
Alignment explanation
Indices: 95375618--95375664 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
95375608 GCATTAAAAT
**
95375618 ATAAAATAATTAAAATATTGTAA
1 ATAAAATAATTAAAATATACTAA
95375641 ATAAAAT-ATATAAAATATACTAA
1 ATAAAATAAT-TAAAATATACTAA
95375664 A
1 A
95375665 AGTTACAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAAATAATTAAAATATACTAA
Found at i:95378706 original size:24 final size:24
Alignment explanation
Indices: 95378678--95378729 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
95378668 TTTCTAGAAG
* *
95378678 ATTTAGTATTTAGTAGTATAATAT
1 ATTTAGCATTTAGTAGCATAATAT
* *
95378702 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTAGTAGCATAATAT
95378726 ATTT
1 ATTT
95378730 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTAGTAGCATAATAT
Found at i:95393898 original size:2 final size:2
Alignment explanation
Indices: 95393893--95393922 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
95393883 ATTATATATA
95393893 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
95393923 AATGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:95394096 original size:15 final size:15
Alignment explanation
Indices: 95394078--95394134 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
95394068 TATCTATTTT
95394078 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
95394093 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
95394108 ATTGAATTTATATTG
1 ATTGAATTTATATTG
95394123 ATTGAA-TTATAT
1 ATTGAATTTATAT
95394135 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:95394113 original size:30 final size:28
Alignment explanation
Indices: 95394072--95394132 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 28
95394062 TATGAATATC
95394072 TATTTTATTGAATTTATATTGATTGAAAT
1 TATTTTATTGAATTTATATTGATTG-AAT
95394101 TATTTTGATTGAATTTATATTGATTGAAT
1 TATTTT-ATTGAATTTATATTGATTGAAT
95394130 TAT
1 TAT
95394133 ATAATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (28 bp):
TATTTTATTGAATTTATATTGATTGAAT
Found at i:95394575 original size:21 final size:21
Alignment explanation
Indices: 95394517--95394635 Score: 130
Period size: 21 Copynumber: 5.5 Consensus size: 21
95394507 AGGCACTTTA
* *
95394517 TGTGTCGTATTTCAGTCACCTCT
1 TGTGTCGTA--TCAGGCACCTCG
95394540 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
95394563 TGTGTCGTATCAGACACCTCG
1 TGTGTCGTATCAGGCACCTCG
95394584 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
95394605 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
95394626 TGTGTCGTAT
1 TGTGTCGTAT
95394636 ACTGATCAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 56 0.65
23 30 0.35
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:95398238 original size:17 final size:19
Alignment explanation
Indices: 95398196--95398239 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
95398186 ATGAAATTTT
*
95398196 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
95398215 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
95398233 AA-TATTA
1 AATTATTA
95398240 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:95398270 original size:12 final size:12
Alignment explanation
Indices: 95398253--95398277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95398243 TATGTATGTT
95398253 TGAAAATTTTTA
1 TGAAAATTTTTA
95398265 TGAAAATTTTTA
1 TGAAAATTTTTA
95398277 T
1 T
95398278 TATTTACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:95400113 original size:27 final size:28
Alignment explanation
Indices: 95400035--95400104 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
95400025 TGCGTAGATC
* *
95400035 CCGAAATTACCCCTAAAGAGCAAAATTA
1 CCGAAATTACCCCTAAAGTGTAAAATTA
*
95400063 TCGAAATTACCCCTAAAGTGTAAAATTA
1 CCGAAATTACCCCTAAAGTGTAAAATTA
*
95400091 CCGATA-TACCCCTA
1 CCGAAATTACCCCTA
95400105 GGGTTTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 8 0.22
28 29 0.78
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (28 bp):
CCGAAATTACCCCTAAAGTGTAAAATTA
Found at i:95403376 original size:2 final size:2
Alignment explanation
Indices: 95403371--95403416 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
95403361 TATATATATA
*
95403371 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
95403413 TG TG
1 TG TG
95403417 AATGAGATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:95403602 original size:15 final size:15
Alignment explanation
Indices: 95403572--95403628 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
95403562 TATCTATTTT
95403572 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
95403587 ATTAAAATTATTTTG
1 ATTGAATTTATATTG
95403602 ATTGAATTTATATTG
1 ATTGAATTTATATTG
95403617 ATTGAA-TTATAT
1 ATTGAATTTATAT
95403629 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:95404030 original size:23 final size:22
Alignment explanation
Indices: 95404000--95404067 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
95403990 GCTTTATCGA
*
95404000 TCAGGCACTTTATGTGTAGTATT
1 TCAGGCACTCT-TGTGTAGTATT
*
95404023 TCAGGCACCTCTTGTGTCGTATT
1 TCAGGCA-CTCTTGTGTAGTATT
* * *
95404046 TCAAGCACCTCGTGTGTCGTAT
1 TCAGGCA-CTCTTGTGTAGTAT
95404068 CAGACACCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 37 0.93
24 3 0.08
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (22 bp):
TCAGGCACTCTTGTGTAGTATT
Found at i:95404114 original size:21 final size:21
Alignment explanation
Indices: 95404023--95404130 Score: 126
Period size: 21 Copynumber: 5.0 Consensus size: 21
95404013 GTGTAGTATT
*
95404023 TCAGGCACCTCTTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
95404044 TTTCAAGCACCTCGTGTGTCGTA
1 --TCAGGCACCTCGTGTGTCGTA
*
95404067 TCAGACACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
*
95404088 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
* * **
95404109 TTAGGCACTTTATGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
95404130 T
1 T
95404131 ACTGATCAGG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 55 0.74
23 19 0.26
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:95408928 original size:26 final size:28
Alignment explanation
Indices: 95408879--95408941 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
95408869 ACAACGTAAA
*
95408879 ACACAGCTGCGATATGGCCATGTGAACC
1 ACACAGCTGCGATACGGCCATGTGAACC
**
95408907 ACACAGCTGCGATACGGCTGTGTGAACC
1 ACACAGCTGCGATACGGCCATGTGAACC
95408935 ACACAGC
1 ACACAGC
95408942 CTAGACACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (28 bp):
ACACAGCTGCGATACGGCCATGTGAACC
Found at i:95411737 original size:43 final size:43
Alignment explanation
Indices: 95411569--95411739 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
95411559 ATATCGTACA
* * *
95411569 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGGAATCACATATCG
*
95411612 ATGCC-ACTGTCCCAGACATGGTCTTACA-CGAATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGGAATCACATA-T-CG
* * *
95411655 ATGCCGATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GGAATCACATATCG
*
95411698 ATGCCAACGTCCCAAACATGGTCTTACATGGGAAT-ACATATC
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GGAATCACATATC
95411740 AGAAATCCTA
Statistics
Matches: 108, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
42 10 0.09
43 83 0.77
44 14 0.13
45 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGGAATCACATATCG
Found at i:95413109 original size:16 final size:16
Alignment explanation
Indices: 95413059--95413117 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
95413049 TTCTTCTTTC
*
95413059 TCTTTCTC-CCCCTCT
1 TCTTTCTCTCCCCTAT
* **
95413074 CCTTTTCTCTCTTCTA-
1 TC-TTTCTCTCCCCTAT
95413090 TCTTTCTCTCCCCTAT
1 TCTTTCTCTCCCCTAT
*
95413106 TCTTTCTTTCCC
1 TCTTTCTCTCCC
95413118 ACTGACCCCC
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
15 12 0.36
16 18 0.55
17 3 0.09
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.53
Consensus pattern (16 bp):
TCTTTCTCTCCCCTAT
Found at i:95415190 original size:19 final size:20
Alignment explanation
Indices: 95415149--95415191 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
95415139 TTTCTGTTTA
*
95415149 TTTTTATATTTACTTTTTTTC
1 TTTTTATATTTAC-TTTTGTC
*
95415170 TTTTTATGTTTA-TTTTGTC
1 TTTTTATATTTACTTTTGTC
95415189 TTT
1 TTT
95415192 ATATTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTATATTTACTTTTGTC
Found at i:95417006 original size:27 final size:27
Alignment explanation
Indices: 95416971--95417087 Score: 164
Period size: 27 Copynumber: 4.4 Consensus size: 27
95416961 ATATATACCT
*
95416971 CATATAAGGGCAAAACAATCATCTTAC
1 CATATAAGGGCAAAACAATCATTTTAC
* *
95416998 CATATAAGGGCAAAATAGTCATTTTAC
1 CATATAAGGGCAAAACAATCATTTTAC
*
95417025 CATATAAGGGCAAAACAGTCATTTTAC
1 CATATAAGGGCAAAACAATCATTTTAC
* * *
95417052 CACATAAGGGAAAAACAATCATTTTAT
1 CATATAAGGGCAAAACAATCATTTTAC
95417079 CAT-TAAGGG
1 CATATAAGGG
95417088 TCCAGGTACG
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 6 0.07
27 75 0.93
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
CATATAAGGGCAAAACAATCATTTTAC
Found at i:95419561 original size:33 final size:33
Alignment explanation
Indices: 95419481--95419561 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
95419471 TGCATTTTGC
*
95419481 ACTGTACTGATACTAAATAGGGCTTAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTTAGGCCCAG
* *
95419514 ACTGTACTGATACTGAATAGGGCTTTGGCCTAG
1 ACTGTACTGATACTGAATAGGGCTTAGGCCCAG
95419547 ACTGTACTGATACTG
1 ACTGTACTGATACTG
95419562 TGTTATTCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTAGGCCCAG
Found at i:95420867 original size:18 final size:18
Alignment explanation
Indices: 95420841--95420893 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
95420831 CTTGGCTCAT
95420841 TGCAGTAACAATAAAT-AG
1 TGCAGTAACAAT-AATCAG
* *
95420859 TGTAGTAACAGTAATCAG
1 TGCAGTAACAATAATCAG
*
95420877 TGCAGTAACAGTAATCA
1 TGCAGTAACAATAATCA
95420894 AGTCCTACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (18 bp):
TGCAGTAACAATAATCAG
Found at i:95421291 original size:27 final size:27
Alignment explanation
Indices: 95421214--95421293 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
95421204 ATATATACCT
* *
95421214 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
95421241 CATATAAGGGCAAAATAGTGATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
95421268 CACATAAGGGCAAAACAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
95421294 TCGATTAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:95421302 original size:27 final size:26
Alignment explanation
Indices: 95421221--95421304 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
95421211 CCTCACATAG
*
95421221 GGGCAAAACAGTCATCTTACCATATAA
1 GGGCAAAACAGTCATTTTACCAT-TAA
* * *
95421248 GGGCAAAATAGTGATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCA-TTAA
*
95421275 GGGCAAAACAGTCATTTTATCGATTAA
1 GGGCAAAACAGTCATTTTA-CCATTAA
95421302 GGG
1 GGG
95421305 TCTAGGTATG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
27 45 0.96
28 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (26 bp):
GGGCAAAACAGTCATTTTACCATTAA
Found at i:95430792 original size:43 final size:43
Alignment explanation
Indices: 95430744--95430891 Score: 181
Period size: 43 Copynumber: 3.4 Consensus size: 43
95430734 GTCCACACGG
** *
95430744 GTGTGTGCTTCAGTCACACAGCCATGTGCCTTTCTTCACATGA
1 GTGTGTGCCACAGTCACACAGCCATGTGCCTTTCTTCACAGGA
* * * * *
95430787 GTGTGTGCCACAGTCACACAGCCGTGTACCTTTTTTCATAGGG
1 GTGTGTGCCACAGTCACACAGCCATGTGCCTTTCTTCACAGGA
*
95430830 GTGTGTGCCACAGTCACACAGCCATGTGCCTCTCTTCACACGG-
1 GTGTGTGCCACAGTCACACAGCCATGTGCCTTTCTTCACA-GGA
**
95430873 GCATGTGCCACAGTCACAC
1 GTGTGTGCCACAGTCACAC
95430892 GGTTGTGTGC
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 87 0.98
44 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (43 bp):
GTGTGTGCCACAGTCACACAGCCATGTGCCTTTCTTCACAGGA
Found at i:95431886 original size:27 final size:27
Alignment explanation
Indices: 95431856--95431946 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
95431846 GGAAAAACAA
* * * *
95431856 TCATTTTACCCTACAGGGGTATCTCGG
1 TCATTTTACACTACAAGGGTATTTTGG
95431883 TCATTTTACACTACAAGGGTATTTTGG
1 TCATTTTACACTACAAGGGTATTTTGG
* *
95431910 TAATTTTACACTACAAGGGTATTTTGA
1 TCATTTTACACTACAAGGGTATTTTGG
95431937 TCATTTTACA
1 TCATTTTACA
95431947 AACCGAGGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATTTTGG
Found at i:95431916 original size:54 final size:54
Alignment explanation
Indices: 95431858--95431973 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
95431848 AAAAACAATC
* * * * *
95431858 ATTTTACCCTACAGGGGTATCTCGGTCATTTTACACTA-CAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATCTCGATCATTTTACA-AACCAAGGGTATTTTGATA
* * * *
95431912 ATTTTACACTACAAGGGTATTTTGATCATTTTACAAACCGAGGGTGTTTTGATA
1 ATTTTACACTACAAGGGTATCTCGATCATTTTACAAACCAAGGGTATTTTGATA
95431966 ATTTTACA
1 ATTTTACA
95431974 AATAGAGGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (54 bp):
ATTTTACACTACAAGGGTATCTCGATCATTTTACAAACCAAGGGTATTTTGATA
Found at i:95431955 original size:27 final size:27
Alignment explanation
Indices: 95431898--95432687 Score: 717
Period size: 27 Copynumber: 29.7 Consensus size: 27
95431888 TTACACTACA
* * *
95431898 AGGGTATTTTGGTAATTTTAC-ACTACA
1 AGGGTATTTTGATAATTTTACAAAT-CG
* *
95431925 AGGGTATTTTGATCATTTTACAAACCG
1 AGGGTATTTTGATAATTTTACAAATCG
* *
95431952 AGGGTGTTTTGATAATTTTACAAATAG
1 AGGGTATTTTGATAATTTTACAAATCG
* *
95431979 AGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * * * *
95432006 AGGGTGTTTCGGTAATTTTAGAAATAG
1 AGGGTATTTTGATAATTTTACAAATCG
*
95432033 AGGGT-TTTTCGGTAATTTTACAAATCG
1 AGGGTATTTT-GATAATTTTACAAATCG
* * *
95432060 AGGGTGTTTT-AGTAATTTCACAAATAG
1 AGGGTATTTTGA-TAATTTTACAAATCG
* *
95432087 GGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
95432114 GGGGTATTTCGATAATTTGAC-AATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
95432140 A-GATATTTCGGTAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * * * *
95432166 AAGGTGTTTCGGTAATTTCACAAATC-
1 AGGGTATTTTGATAATTTTACAAATCG
* *
95432192 AGGGGTATTTTGGTAATTTTACAAAT-T
1 A-GGGTATTTTGATAATTTTACAAATCG
*
95432219 AGGGGTATTTCGATAATTTTACAAATCG
1 A-GGGTATTTTGATAATTTTACAAATCG
* *
95432247 GGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*
95432274 AGGGTATTTT-AGTAATTTCAC-AATCG
1 AGGGTATTTTGA-TAATTTTACAAATCG
* * *
95432300 AGGGTATTTCGGTAATTTTACCAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
95432327 AGGGTATTTT-AGTAATTTTAC-AATCG
1 AGGGTATTTTGA-TAATTTTACAAATCG
* *
95432353 AGGGTA-TTTCAGTAATTTCAC-AATCG
1 AGGGTATTTTGA-TAATTTTACAAATCG
*
95432379 AGGGTATTTTGATAATTTTACAAATTG
1 AGGGTATTTTGATAATTTTACAAATCG
* * * *
95432406 AGAGTATTTTAATAA-TTCAC-AATCA
1 AGGGTATTTTGATAATTTTACAAATCG
*
95432431 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
95432458 GGGGTATTTCGATAATTTCAC-AATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
95432484 AGTGTATTTCGATAACTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*
95432511 AGGGTATTTT-AGTAATTTCAC-AATCG
1 AGGGTATTTTGA-TAATTTTACAAATCG
* * *
95432537 AGGGTA-TTTCACTAATTTTATAAATTG
1 AGGGTATTTTGA-TAATTTTACAAATCG
* *
95432564 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGATAATTTTACAAATCG
*
95432591 AAGGTATTTT-AGTAA-TTT-CATAATCG
1 AGGGTATTTTGA-TAATTTTACA-AATCG
*
95432617 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* *
95432644 GGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
**
95432671 AGGG-ATTTCAATAATTT
1 AGGGTATTTTGATAATTT
95432688 CTCTTTATTA
Statistics
Matches: 640, Mismatches: 94, Indels: 59
0.81 0.12 0.07
Matches are distributed among these distances:
25 39 0.06
26 158 0.25
27 432 0.68
28 11 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGATAATTTTACAAATCG
Found at i:95433066 original size:28 final size:28
Alignment explanation
Indices: 95433002--95433067 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
95432992 TTTGGCCCCT
* *
95433002 TTAGGCCCAATCTCGTTCACATGGCCCA
1 TTAGGCCCAATCACATTCACATGGCCCA
* * * *
95433030 TCAGACCCAATCACATTCATATGGCCTA
1 TTAGGCCCAATCACATTCACATGGCCCA
95433058 TTAGGCCCAA
1 TTAGGCCCAA
95433068 CTACTTCCCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (28 bp):
TTAGGCCCAATCACATTCACATGGCCCA
Found at i:95436004 original size:54 final size:54
Alignment explanation
Indices: 95435940--95436678 Score: 811
Period size: 53 Copynumber: 13.9 Consensus size: 54
95435930 TTACACTACA
* * * *
95435940 AGGGTATTTTGGTAATTTTAC-ACTACAAGAGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAATAATTTTACAAATCG
* * * * * * * *
95435994 AAGGTGTTTTGATAATTTTACAAATTGGGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * **
95436048 AGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTCTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * * *
95436102 AGGGTGTTTCAGTAATTTCAAAAATCG-GGGTATTTTC-ATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTA-TTTCAATAATTTTACAAATCG
* * ***
95436155 GGGGTATTTCGATAATTTTAC-AATCGAGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * *
95436208 AAGGTGTTTCGGTAATTTCACAAATC-AGGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTCAATAATTTTACAAATCG
* *
95436262 AGGGTATTTCGGTAATTTTAGAAATC-AGGGGTATTTCATTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTCAATAATTTTACAAATCG
* * **
95436316 AGGGTATTTCAGTAATTTCAC-AATCGAGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * *
95436369 GGGGTATTTCGGTAATTTTAC-AATCGAGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * *
95436421 AGGGTATTTCGATAATTTTACAAATCGAGGATATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * * * *
95436474 AGGGTATTTCGATAATTTTATAAATCGGGGGTATTTCGATAATTTCAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * *
95436527 AGTGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-TAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
* * * *
95436580 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
*
95436633 AGGGTATTTCGGTAATTTTATAAATCGAGGGTATTTCAATAATTTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTT
95436679 TCTTTATTAT
Statistics
Matches: 591, Mismatches: 84, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
52 32 0.05
53 346 0.59
54 211 0.36
55 2 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCG
Found at i:95436666 original size:27 final size:27
Alignment explanation
Indices: 95435940--95436678 Score: 793
Period size: 27 Copynumber: 27.7 Consensus size: 27
95435930 TTACACTACA
* * *
95435940 AGGGTATTTTGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* **
95435967 AGAGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
95435994 AAGGTGTTTTGATAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
95436021 GGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
95436048 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436075 AGGGTGTCTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
95436102 AGGGTGTTTCAGTAATTTCAAAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436129 -GGGTATTTTC-ATAATTTTACAAATTG
1 AGGGTA-TTTCGGTAATTTTACAAATCG
* *
95436155 GGGGTATTTCGATAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
95436181 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
95436208 AAGGTGTTTCGGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
*
95436234 AGGGGTATTTCAGTAATTTTACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
*
95436262 AGGGTATTTCGGTAATTTTAGAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
**
95436288 AGGGGTATTTCATTAATTTTACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
95436316 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436342 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
95436369 GGGGTATTTCGGTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *
95436395 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
95436421 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
95436448 AGGATATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436474 AGGGTATTTCGATAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
95436501 GGGGTATTTCGATAATTTCAC-AATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436527 AGTGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436554 AGGGTATTTCAGTAATTTTA-TAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436580 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
95436607 AGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
95436633 AGGGTATTTCGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
**
95436660 AGGGTATTTCAATAATTTT
1 AGGGTATTTCGGTAATTTT
95436679 TCTTTATTAT
Statistics
Matches: 601, Mismatches: 96, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
26 198 0.33
27 399 0.66
28 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:95437035 original size:28 final size:28
Alignment explanation
Indices: 95436993--95437054 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
95436983 GCCCCTTTAG
* *
95436993 GCCCAATCTCGTTCACATGGCCCATCAA
1 GCCCAATCACATTCACATGGCCCATCAA
* *
95437021 GCCCAATCACATTCATATGGCCCATCAG
1 GCCCAATCACATTCACATGGCCCATCAA
95437049 GCCCAA
1 GCCCAA
95437055 CTACTTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (28 bp):
GCCCAATCACATTCACATGGCCCATCAA
Found at i:95440004 original size:3 final size:3
Alignment explanation
Indices: 95439996--95440047 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
95439986 TCCTTGCCAT
95439996 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95440043 -AA TAA
1 TAA TAA
95440048 ATTTAAACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:95440156 original size:12 final size:11
Alignment explanation
Indices: 95440137--95440173 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
95440127 TGTAATAACC
95440137 ATATATATCAT
1 ATATATATCAT
95440148 ATCATATATCAT
1 AT-ATATATCAT
95440160 ATATAT-T-AT
1 ATATATATCAT
95440169 ATATA
1 ATATA
95440174 AAAATGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 6 0.24
12 11 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATATCAT
Found at i:95440287 original size:36 final size:35
Alignment explanation
Indices: 95440231--95440325 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 35
95440221 AGACCCATTA
* *
95440231 TTAACTTAATTTAATAACATTATATAATAATTTAAT
1 TTAATTTAATTTAATCACATTATATAATAA-TTAAT
*
95440267 TTAATTTAATTTAATCACATTATATACTAATTAAT
1 TTAATTTAATTTAATCACATTATATAATAATTAAT
*
95440302 TTAATTTAA-TT-ATCATATTATATA
1 TTAATTTAATTTAATCACATTATATA
95440326 CTTTTGTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
33 12 0.22
34 2 0.04
35 14 0.25
36 27 0.49
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.49
Consensus pattern (35 bp):
TTAATTTAATTTAATCACATTATATAATAATTAAT
Found at i:95440363 original size:26 final size:27
Alignment explanation
Indices: 95440268--95440363 Score: 72
Period size: 26 Copynumber: 3.5 Consensus size: 27
95440258 TAATTTAATT
*
95440268 TAATTTAATTTAATCACATTATATACTAA
1 TAATTTAATTTAATCACA-T-CATACTAA
* *
95440297 TTAATTTAATTTAAT--TATCATATTATA
1 -TAATTTAATTTAATCACATCATACTA-A
* **
95440324 TACTTTTGTATTAATCACATCATA-TAA
1 TAATTTAAT-TTAATCACATCATACTAA
95440351 TAATTTAATTTAA
1 TAATTTAATTTAA
95440364 ATTAATTTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
26 15 0.29
27 14 0.27
28 3 0.06
29 6 0.12
30 14 0.27
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (27 bp):
TAATTTAATTTAATCACATCATACTAA
Found at i:95440975 original size:11 final size:10
Alignment explanation
Indices: 95440961--95440994 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
95440951 TTTAAACGTT
95440961 TTTGTTTTAGA
1 TTTGTTTTA-A
95440972 TTTGTTTTAA
1 TTTGTTTTAA
*
95440982 TATGTTTTAA
1 TTTGTTTTAA
95440992 TTT
1 TTT
95440995 AAGATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (10 bp):
TTTGTTTTAA
Found at i:95442714 original size:27 final size:28
Alignment explanation
Indices: 95442682--95442735 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
95442672 GATTGCTTTC
95442682 ATGTTG-TCATCTGGATGTCATTTTCTT
1 ATGTTGTTCATCTGGATGTCATTTTCTT
** *
95442709 ATGTTGTTTTTTTGGATGTCATTTTCT
1 ATGTTGTTCATCTGGATGTCATTTTCT
95442736 CAAGTAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.13, C:0.11, G:0.19, T:0.57
Consensus pattern (28 bp):
ATGTTGTTCATCTGGATGTCATTTTCTT
Done.