Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 50 of 163
Found at i:16039917 original size:8 final size:8
Alignment explanation
Indices: 16039868--16039904 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
16039858 ACATGCAAAT
16039868 TTAAAAAA
1 TTAAAAAA
16039876 TTAAAAAAA
1 TT-AAAAAA
16039885 TTAAAAAA
1 TTAAAAAA
16039893 TT-AAAAA
1 TTAAAAAA
16039900 TTAAA
1 TTAAA
16039905 TAAAAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.26
8 12 0.44
9 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
TTAAAAAA
Found at i:16040525 original size:99 final size:97
Alignment explanation
Indices: 16040396--16040643 Score: 311
Period size: 99 Copynumber: 2.5 Consensus size: 97
16040386 ATGTAATATT
* *
16040396 ATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGAGTTTTATG-TTTTGTGATTTATTAG
1 ATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTAGGATTTTGTGATTTATTAG
* *
16040460 TAGTGTAAATTATTTTTAAAAAAAATG-TTATTGTC
66 TAATGT--A--ATTTTTAAAAAAAATGTTTATAGTC
* *
16040495 ATTTTGTTAGTAATTTATTATTAGTTTATAAATTGTTAGTGTTTAGTTTAGGATTTTGTGATTTT
1 ATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTG--T--TTTAGGATTTTGTGATTTA
*
16040560 TTAGTAATGTAATTTTTAAAAAAAATGATTTTATAGTT
62 TTAGTAATGTAATTTTTAAAAAAAATG--TTTATAGTC
16040598 ATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTT
1 ATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTT
16040644 AGTTTAGTGT
Statistics
Matches: 131, Mismatches: 8, Indels: 18
0.83 0.05 0.11
Matches are distributed among these distances:
99 39 0.30
100 16 0.12
101 3 0.02
102 1 0.01
103 34 0.26
104 23 0.18
105 15 0.11
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (97 bp):
ATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTTAGGATTTTGTGATTTATTAG
TAATGTAATTTTTAAAAAAAATGTTTATAGTC
Found at i:16040660 original size:105 final size:100
Alignment explanation
Indices: 16040385--16040682 Score: 376
Period size: 105 Copynumber: 2.9 Consensus size: 100
16040375 ATTTTTTATT
* *
16040385 AATGTAATA-TTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGAG--T--TTTA-TG
1 AATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGTG
* *
16040444 TTTTGTGATTTATTAGTAGTGTAAATTATTTTTAAAAAA
66 TTTTGTGATTTTTTAGTAATGT--A--ATTTTTAAAAAA
* * *
16040483 AATGTTATTGTCATTTTGTTAGTAATTTATTATTAGTTTATAAATTGTTAGTGTTTAGTTTAG-G
1 AATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGTG
16040547 ATTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAA
66 -TTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAA
16040583 AATGATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT
1 AATG---TTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTT
*
16040648 TAGTGTTTTGTGATTTTTTATTAATGTAACTTTTT
61 TAGTGTTTTGTGATTTTTTAGTAATGTAA-TTTTT
16040683 TATAATGTAA
Statistics
Matches: 175, Mismatches: 11, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
98 7 0.04
99 40 0.23
100 16 0.09
101 1 0.01
102 1 0.01
103 33 0.19
104 23 0.13
105 48 0.27
106 6 0.03
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (100 bp):
AATGTTATAGTTATTTTGTTAGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGTTTAGTG
TTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAA
Found at i:16040688 original size:16 final size:16
Alignment explanation
Indices: 16040660--16040696 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
16040650 GTGTTTTGTG
16040660 ATTTTTTATTAATGTA
1 ATTTTTTATTAATGTA
16040676 ACTTTTTTA-TAATGTA
1 A-TTTTTTATTAATGTA
16040692 ATTTT
1 ATTTT
16040697 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:16043489 original size:17 final size:16
Alignment explanation
Indices: 16043467--16043502 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
16043457 TGTTTTGTTA
16043467 TTTTTTATTAATGTAAT
1 TTTTTTA-TAATGTAAT
16043484 TTTTTTATAATGTAAT
1 TTTTTTATAATGTAAT
16043500 TTT
1 TTT
16043503 ATTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTTTTTATAATGTAAT
Found at i:16043567 original size:27 final size:27
Alignment explanation
Indices: 16043526--16043585 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
16043516 AATTTTTATT
16043526 GATAGGAGTCACCAGTGGCGCCTACCA
1 GATAGGAGTCACCAGTGGCGCCTACCA
* *
16043553 GATAGGAGTCGCCAGTGGCGCCTACTA
1 GATAGGAGTCACCAGTGGCGCCTACCA
16043580 GATAGG
1 GATAGG
16043586 TACCACCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.33, T:0.17
Consensus pattern (27 bp):
GATAGGAGTCACCAGTGGCGCCTACCA
Found at i:16048358 original size:17 final size:17
Alignment explanation
Indices: 16048330--16048366 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16048320 TATTATCGAG
16048330 TATCATCTATTTTTGAT
1 TATCATCTATTTTTGAT
16048347 TATCATCTATTTTTGAT
1 TATCATCTATTTTTGAT
16048364 TAT
1 TAT
16048367 TGCCTATCTA
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:0.24, C:0.11, G:0.05, T:0.59
Consensus pattern (17 bp):
TATCATCTATTTTTGAT
Found at i:16049676 original size:18 final size:19
Alignment explanation
Indices: 16049653--16049691 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16049643 AGCTACAACT
16049653 TTCAATA-TTTCTTGTTAA
1 TTCAATATTTTCTTGTTAA
*
16049671 TTCAATATTTTGTTGTTAA
1 TTCAATATTTTCTTGTTAA
16049690 TT
1 TT
16049692 AACACTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (19 bp):
TTCAATATTTTCTTGTTAA
Found at i:16049700 original size:19 final size:19
Alignment explanation
Indices: 16049664--16049701 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16049654 TCAATATTTC
*
16049664 TTGTTAATTCAATATTTTG
1 TTGTTAATTCAACATTTTG
16049683 TTGTTAATT-AACACTTTTG
1 TTGTTAATTCAACA-TTTTG
16049702 ACATTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (19 bp):
TTGTTAATTCAACATTTTG
Found at i:16049826 original size:15 final size:15
Alignment explanation
Indices: 16049806--16049844 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
16049796 AAGACTTCAA
*
16049806 TTATGACGAA-GATAT
1 TTATGAAGAAGGAT-T
16049821 TTATGAAGAAGGATT
1 TTATGAAGAAGGATT
16049836 TTATGAAGA
1 TTATGAAGA
16049845 CAGGGAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.86
16 3 0.14
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (15 bp):
TTATGAAGAAGGATT
Found at i:16052918 original size:23 final size:22
Alignment explanation
Indices: 16052875--16052918 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
16052865 TTATAAGTCG
16052875 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
16052898 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
16052919 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:16057708 original size:20 final size:21
Alignment explanation
Indices: 16057660--16057706 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
16057650 ATTTTACCCA
* *
16057660 ATTTTTAAACCTAAAAATACT
1 ATTTTTAAACATAAAAATACC
16057681 ATTTTTAAACATAAAAATACC
1 ATTTTTAAACATAAAAATACC
16057702 ATTTT
1 ATTTT
16057707 AATCTAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTTTTAAACATAAAAATACC
Found at i:16062305 original size:16 final size:17
Alignment explanation
Indices: 16062286--16062318 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16062276 CAAAATCTAG
16062286 CCATTTCAACC-TAGAT
1 CCATTTCAACCATAGAT
*
16062302 CCATTTTAACCATAGAT
1 CCATTTCAACCATAGAT
16062319 GCAAAGGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (17 bp):
CCATTTCAACCATAGAT
Found at i:16068223 original size:19 final size:18
Alignment explanation
Indices: 16068188--16068238 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
16068178 TCTTTCCATT
* *
16068188 TTTCCCTTCTTTTTCTCAG
1 TTTCCCTT-TTTCTCTCAA
*
16068207 TTTTCCTTTATTCTCTCAA
1 TTTCCCTTT-TTCTCTCAA
16068226 TTTCCCTTTTTCT
1 TTTCCCTTTTTCT
16068239 TTTTTGCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.08, C:0.29, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTCCCTTTTTCTCTCAA
Found at i:16081900 original size:37 final size:37
Alignment explanation
Indices: 16081843--16081933 Score: 139
Period size: 37 Copynumber: 2.5 Consensus size: 37
16081833 ACACAAGTAG
16081843 TCCAACCGA-AACACGCCAAACGCTCATAAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
* * *
16081879 TCCAACCAATAACATGCCAAACGCTCATGAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
*
16081916 TACAACCGATAACACGCC
1 TCCAACCGATAACACGCC
16081934 TCGGCACTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 8 0.17
37 40 0.83
ACGTcount: A:0.41, C:0.33, G:0.13, T:0.13
Consensus pattern (37 bp):
TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
Found at i:16085536 original size:73 final size:74
Alignment explanation
Indices: 16085457--16085641 Score: 259
Period size: 73 Copynumber: 2.5 Consensus size: 74
16085447 GGCAGATGTA
* *
16085457 TAGCTCTTATGAGCATTTGGCATGTTATTGGTTGGATTA-TCTCTT-TGAGCATTTGGTGTGTTA
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGATTAGT-TCTTATGAGCATTTGGCGTGTTA
* *
16085520 TTGGTTGGAG
65 TCGGATGGAG
* * * *
16085530 TAGCTCTTATGACCACTTAGCGTGTTATCGGTTGGATTAGTTCTTATGAGCATTTGGCGTGTTAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGATTAGTTCTTATGAGCATTTGGCGTGTTAT
*
16085595 CGGATGGAT
66 CGGATGGAG
16085604 TAGCTCTTATGAGCATTTGGCGTGTT-TTGGTTGGATTA
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGATTA
16085642 CTTGTGTATT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
73 49 0.51
74 48 0.49
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.43
Consensus pattern (74 bp):
TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGATTAGTTCTTATGAGCATTTGGCGTGTTAT
CGGATGGAG
Found at i:16085564 original size:37 final size:37
Alignment explanation
Indices: 16085457--16085641 Score: 257
Period size: 37 Copynumber: 5.1 Consensus size: 37
16085447 GGCAGATGTA
*
16085457 TAGCTCTTATGAGCATTTGGCATGTTATTGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGAT
* * *
16085494 TATCTCTT-TGAGCATTTGGTGTGTTATTGGTTGGAG
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGAT
* * * *
16085530 TAGCTCTTATGACCACTTAGCGTGTTATCGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGAT
* * *
16085567 TAGTTCTTATGAGCATTTGGCGTGTTATCGGATGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGAT
16085604 TAGCTCTTATGAGCATTTGGCGTGTT-TTGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGAT
16085640 TA
1 TA
16085642 CTTGTGTATT
Statistics
Matches: 128, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
36 42 0.33
37 86 0.67
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.43
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGGCGTGTTATTGGTTGGAT
Found at i:16096957 original size:12 final size:12
Alignment explanation
Indices: 16096940--16096965 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16096930 TTCTTGGAGG
16096940 GTATATTTGGTT
1 GTATATTTGGTT
16096952 GTATATTTGGTT
1 GTATATTTGGTT
16096964 GT
1 GT
16096966 GTTGGAGGGT
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:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (12 bp):
GTATATTTGGTT
Found at i:16096976 original size:34 final size:35
Alignment explanation
Indices: 16096918--16096987 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
16096908 GTTGGGAGGC
*
16096918 TATATTTGGTTTTTCTTGGAGGGTATATTTGGTTG
1 TATATTTGGTTTGTCTTGGAGGGTATATTTGGTTG
*
16096953 TATATTTGG-TTGTGTTGGAGGGTATATTTGGTTG
1 TATATTTGGTTTGTCTTGGAGGGTATATTTGGTTG
16096987 T
1 T
16096988 GTTTGGAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.14, C:0.01, G:0.31, T:0.53
Consensus pattern (35 bp):
TATATTTGGTTTGTCTTGGAGGGTATATTTGGTTG
Found at i:16096982 original size:57 final size:58
Alignment explanation
Indices: 16096894--16097010 Score: 175
Period size: 57 Copynumber: 2.0 Consensus size: 58
16096884 TGTTTGAAAG
*
16096894 GTATATTTCGTTGTGTTGGGAGGCTATATTTGGTT-TTTCTTGGAGGGTATATTTGGTT
1 GTATATTTCGTTGTGTTGGGAGGCTATATTTGGTTGTGT-TTGGAGGGTATATTTGGTT
* * *
16096952 GTATATTTGGTTGTGTT-GGAGGGTATATTTGGTTGTGTTTGGAGGGTATGTTTGGTT
1 GTATATTTCGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGAGGGTATATTTGGTT
16097009 GT
1 GT
16097011 GTCTGGAGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
57 36 0.67
58 18 0.33
ACGTcount: A:0.13, C:0.03, G:0.35, T:0.50
Consensus pattern (58 bp):
GTATATTTCGTTGTGTTGGGAGGCTATATTTGGTTGTGTTTGGAGGGTATATTTGGTT
Found at i:16096997 original size:23 final size:23
Alignment explanation
Indices: 16096952--16097044 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
16096942 ATATTTGGTT
16096952 GTATATTTGGTTGTG-TTGGAGG
1 GTATATTTGGTTGTGTTTGGAGG
16096974 GTATATTTGGTTGTGTTTGGAGG
1 GTATATTTGGTTGTGTTTGGAGG
* *
16096997 GTATGTTTGGTTGTGTCTGGAGG
1 GTATATTTGGTTGTGTTTGGAGG
* *
16097020 CTATGA-TTGGTTGTGTTTGGTGG
1 GTAT-ATTTGGTTGTGTTTGGAGG
16097043 GT
1 GT
16097045 GATAGTTTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 15 0.24
23 47 0.76
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (23 bp):
GTATATTTGGTTGTGTTTGGAGG
Found at i:16097762 original size:22 final size:23
Alignment explanation
Indices: 16097725--16097768 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16097715 TGAACTAATT
16097725 AAATGATGATGATTTT-ATGAAG
1 AAATGATGATGATTTTAATGAAG
16097747 AAATGCATGATG-TTTTAATGAA
1 AAATG-ATGATGATTTTAATGAA
16097769 TATTCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.36
Consensus pattern (23 bp):
AAATGATGATGATTTTAATGAAG
Found at i:16106175 original size:16 final size:17
Alignment explanation
Indices: 16106136--16106175 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
16106126 TTAAATTCAC
16106136 TCATTTAAGATTAATTT
1 TCATTTAAGATTAATTT
*
16106153 T-AATTAAGA-TAATTT
1 TCATTTAAGATTAATTT
16106168 TCATTTAA
1 TCATTTAA
16106176 TAAATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (17 bp):
TCATTTAAGATTAATTT
Found at i:16106820 original size:31 final size:29
Alignment explanation
Indices: 16106769--16106846 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 29
16106759 AAAAAAAAAG
* * * *
16106769 TATATA-ATAATACTATGATATTATAATA
1 TATATATATAATAATAAGATATAACAATA
16106797 TTATATATATAAATAATAAGATATAACAATA
1 -TATATATAT-AATAATAAGATATAACAATA
* *
16106828 TATATGATATTACAATAAG
1 TATAT-ATATAATAATAAG
16106847 GGAAAATCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.15
30 14 0.35
31 20 0.50
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (29 bp):
TATATATATAATAATAAGATATAACAATA
Found at i:16107940 original size:22 final size:23
Alignment explanation
Indices: 16107903--16107946 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16107893 TGAACTAATT
16107903 AAATGATGATGATTTT-ATGAAG
1 AAATGATGATGATTTTAATGAAG
16107925 AAATGCATGATG-TTTTAATGAA
1 AAATG-ATGATGATTTTAATGAA
16107947 TATTCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.20, T:0.36
Consensus pattern (23 bp):
AAATGATGATGATTTTAATGAAG
Found at i:16116353 original size:16 final size:17
Alignment explanation
Indices: 16116314--16116353 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
16116304 TTAAATTCAC
16116314 TCATTTAAGATTAATTT
1 TCATTTAAGATTAATTT
*
16116331 T-AATTAAGA-TAATTT
1 TCATTTAAGATTAATTT
16116346 TCATTTAA
1 TCATTTAA
16116354 TAAATGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (17 bp):
TCATTTAAGATTAATTT
Found at i:16116998 original size:31 final size:29
Alignment explanation
Indices: 16116947--16117024 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 29
16116937 AAAAAAAAAG
* * * *
16116947 TATATA-ATAATACTATGATATTATAATA
1 TATATATATAATAATAAGATATAACAATA
16116975 TTATATATATAAATAATAAGATATAACAATA
1 -TATATATAT-AATAATAAGATATAACAATA
* *
16117006 TATATGATATTACAATAAG
1 TATAT-ATATAATAATAAG
16117025 GGAAAATCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.15
30 14 0.35
31 20 0.50
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (29 bp):
TATATATATAATAATAAGATATAACAATA
Found at i:16119664 original size:275 final size:276
Alignment explanation
Indices: 16119161--16119714 Score: 1101
Period size: 275 Copynumber: 2.0 Consensus size: 276
16119151 TCAAATAATC
16119161 TATATTATTATAATATATTTAATTGAGCTAGTGTAACCCATCAATCGAATCTCAATTCAATTGTG
1 TATATTATTATAATATATTTAATTGAGCTAGTGTAACCCATCAATCGAATCTCAATTCAATTGTG
16119226 AATTTTTCAAAAGCCCATTTTTTTACAAAGTAAAATATATATATCTATACTTACTATTATAATGT
66 AATTTTTCAAAAGCCCATTTTTTTACAAAGTAAAATATATATATCTATACTTACTATTATAATGT
16119291 GTTCGACTAAGTTAGTATCACCCATCAATCGAGTCCATTTATTTTACAAAACAACAAATATAAAA
131 GTTCGACTAAGTTAGTATCACCCATCAATCGAGTCCATTTATTTTACAAAACAACAAATATAAAA
16119356 CAAAATTTATTACATTATTACTTTTAACTACATCTTGATTTGCCATAATCTAGTATTGTTTACAA
196 CAAAATTTATTACATTATTACTTTTAACTACATCTTGATTTGCCATAATCTAGTATTGTTTACAA
16119421 GTTATACACAGTTAGT
261 GTTATACACAGTTAGT
16119437 TATATTATTAT-ATATATTTAATTGAGCTAGTGTAACCCATCAATCGAATCTCAATTCAATTGTG
1 TATATTATTATAATATATTTAATTGAGCTAGTGTAACCCATCAATCGAATCTCAATTCAATTGTG
16119501 AATTTTTCAAAAGCCCATTTTTTTACAAAGTAAAATATATATATCTATACTTACTATTATAATGT
66 AATTTTTCAAAAGCCCATTTTTTTACAAAGTAAAATATATATATCTATACTTACTATTATAATGT
16119566 GTTCGACTAAGTTAGTATCACCCATCAATCGAGTCCATTTATTTTACAAAACAACAAATATAAAA
131 GTTCGACTAAGTTAGTATCACCCATCAATCGAGTCCATTTATTTTACAAAACAACAAATATAAAA
16119631 CAAAATTTATTACATTATTACTTTTAACTACATCTTGATTTGCCATAATCTAGTATTGTTTACAA
196 CAAAATTTATTACATTATTACTTTTAACTACATCTTGATTTGCCATAATCTAGTATTGTTTACAA
16119696 GTTATACACAGTTAGT
261 GTTATACACAGTTAGT
16119712 TAT
1 TAT
16119715 TTAGAATTAT
Statistics
Matches: 278, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
275 267 0.96
276 11 0.04
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39
Consensus pattern (276 bp):
TATATTATTATAATATATTTAATTGAGCTAGTGTAACCCATCAATCGAATCTCAATTCAATTGTG
AATTTTTCAAAAGCCCATTTTTTTACAAAGTAAAATATATATATCTATACTTACTATTATAATGT
GTTCGACTAAGTTAGTATCACCCATCAATCGAGTCCATTTATTTTACAAAACAACAAATATAAAA
CAAAATTTATTACATTATTACTTTTAACTACATCTTGATTTGCCATAATCTAGTATTGTTTACAA
GTTATACACAGTTAGT
Found at i:16120023 original size:1 final size:1
Alignment explanation
Indices: 16120017--16120059 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
16120007 TGCTCTCCTA
** * *
16120017 TTTTTTTTTTTTTTTTTTTTTTTACTTTCTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16120060 ATAATAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.02, C:0.07, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:16120593 original size:28 final size:28
Alignment explanation
Indices: 16120553--16120613 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
16120543 ATTCTTTTCT
*
16120553 TTTGACAAAGAACTT-GAGGTTGAACTGA
1 TTTGACAAAGAACTTGGA-GTTGAACTAA
*
16120581 TTTGACTAAGAACTTGGAGTTGAACTAA
1 TTTGACAAAGAACTTGGAGTTGAACTAA
16120609 TTTGA
1 TTTGA
16120614 TTCTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (28 bp):
TTTGACAAAGAACTTGGAGTTGAACTAA
Found at i:16120650 original size:98 final size:96
Alignment explanation
Indices: 16120548--16120725 Score: 284
Period size: 97 Copynumber: 1.8 Consensus size: 96
16120538 TATATATTCT
* *
16120548 TTTCTTTTGACAAAGAACTTGAGGTTGAACTGATTTGACTAAGAACTTGGAGTTGAACTAATTTG
1 TTTCTTTTGACAAAGAACTTGAGGTTGAACTGA-TTAACTAAGAACTTGGAGCTGAACTAATTTG
*
16120613 ATTCTTGTTTTTTATTTTATTTTATTTTATTGG
65 ATTCTT-TGTTTTATTTTATTTTATTTTATTGG
* * *
16120646 TTTCTTTTTACCAAGAACTTGAGGTTGAACTGATTAACTAAGAACTTGGAGCTGAACTGATTTGA
1 TTTCTTTTGACAAAGAACTTGAGGTTGAACTGATTAACTAAGAACTTGGAGCTGAACTAATTTGA
16120711 TTCTTTGTTTTATTT
66 TTCTTTGTTTTATTT
16120726 GCAAGAAGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
96 9 0.12
97 34 0.46
98 31 0.42
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (96 bp):
TTTCTTTTGACAAAGAACTTGAGGTTGAACTGATTAACTAAGAACTTGGAGCTGAACTAATTTGA
TTCTTTGTTTTATTTTATTTTATTTTATTGG
Found at i:16128201 original size:20 final size:20
Alignment explanation
Indices: 16128172--16128222 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
16128162 TAAATATGTA
*
16128172 AAATTCATGGAAAAATTTTG
1 AAATTTATGGAAAAATTTTG
16128192 AAATTTATGGAAAAATTTTG
1 AAATTTATGGAAAAATTTTG
16128212 AAATTTATGGA
1 AAATTTATGGA
16128223 TTACTTGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (20 bp):
AAATTTATGGAAAAATTTTG
Found at i:16128397 original size:21 final size:20
Alignment explanation
Indices: 16128373--16128417 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
16128363 ATATGAATTG
* *
16128373 AATTGAATTGAATTGATTATA
1 AATTGAATTAAATTGAGT-TA
*
16128394 AATTGTATTAAATTGAGTTA
1 AATTGAATTAAATTGAGTTA
16128414 AATT
1 AATT
16128418 TAGTCGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
AATTGAATTAAATTGAGTTA
Found at i:16128886 original size:26 final size:25
Alignment explanation
Indices: 16128856--16128913 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
16128846 GGCTCTTCGA
* *
16128856 AGCTTCCCGATTAAAGTCTCTTTGTG
1 AGCTTCCCGATTAAAGGCTCTCTG-G
* *
16128882 AGCTTCCTGATTAATGGCTCTCTGG
1 AGCTTCCCGATTAAAGGCTCTCTGG
16128907 AGCTTCC
1 AGCTTCC
16128914 TAATATAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
AGCTTCCCGATTAAAGGCTCTCTGG
Found at i:16133285 original size:20 final size:20
Alignment explanation
Indices: 16133262--16133301 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16133252 TTTTTTATCA
16133262 GTTGAAAGTCCTTTTGATCG
1 GTTGAAAGTCCTTTTGATCG
16133282 GTTGAAAGTCCTTTTGATCG
1 GTTGAAAGTCCTTTTGATCG
16133302 AAGCACTAGT
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:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
GTTGAAAGTCCTTTTGATCG
Found at i:16141915 original size:30 final size:29
Alignment explanation
Indices: 16141850--16141915 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
16141840 TGAGTAGCTT
* *
16141850 AAAATTTAAGTCCCTCTACTTTTATTTTA
1 AAAATTTAAGCCCCTCTACTTTTAATTTA
*
16141879 AGAAATTT-AGCCCCTTTACTTTTTAGATTTA
1 A-AAATTTAAGCCCCTCTAC-TTTTA-ATTTA
16141910 AAAATT
1 AAAATT
16141916 CAATTGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 10 0.32
30 16 0.52
31 5 0.16
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (29 bp):
AAAATTTAAGCCCCTCTACTTTTAATTTA
Found at i:16149950 original size:75 final size:76
Alignment explanation
Indices: 16149833--16149973 Score: 230
Period size: 75 Copynumber: 1.9 Consensus size: 76
16149823 ATATTATTTC
16149833 ATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTT-GTTTTTTATAAATTG
1 ATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAGTTTTTTATAAATTG
16149897 ATTTGTTTTTT
66 ATTTGTTTTTT
* * * * *
16149908 ATTTTGAACAAAACGACTCCGTTTTGTTATGCTAAAATTTTTTTATTTTATTTTTTTATGAATTG
1 ATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAGTTTTTTATAAATTG
16149973 A
66 A
16149974 GTTATTTTGT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
75 46 0.77
76 14 0.23
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (76 bp):
ATTTTGAACAAAACGACGCCGTTTTGCTATGCTAAAAATTTTTTATTTTAGTTTTTTATAAATTG
ATTTGTTTTTT
Found at i:16150096 original size:212 final size:214
Alignment explanation
Indices: 16149733--16150118 Score: 573
Period size: 212 Copynumber: 1.8 Consensus size: 214
16149723 TTATAAAAAA
*
16149733 TTTTTATTTTGTTTTTTATAAATTGATTTATATTTTGCGGCGCTTTTATAGAAAACGCCGCTATT
1 TTTTTATTTTGTTTTTTATAAATTGATGTATATTTTGCGGCGCTTTTATAGAAAACGCCGCTATT
***** ** *
16149798 GCTTATCTTTTGCGGCGTTTGCAAGATATTATTTCATTTTGAACAAAACGACGCCGTTTTGCTAT
66 GCTTATCTTTAAAAACGTCCGCAAGATATTATTTCATTTTGAACAAAACGACGCCATTTTGCTAT
*
16149863 GCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTGTTTTTTATTTTGAACAAAACGACTCC
131 GCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTTATTTTGAACAAAACGACTCC
16149928 GTTTTGTTATGCTAAAATT
196 GTTTTGTTATGCTAAAATT
* * * *
16149947 TTTTTATTTTATTTTTTTATGAATTGA-GT-TATTTTGTGGCGTTTTTATAGAAAACGCCGCTAT
1 TTTTTATTTT-GTTTTTTATAAATTGATGTATATTTTGCGGCGCTTTTATAGAAAACGCCGCTAT
* *
16150010 TGCTTATCTTTAAAAACG-CCGCAA-ATTATTATTTCATTTTGAACAAAACGACTCTATTTTGCT
65 TGCTTATCTTTAAAAACGTCCGCAAGA-TATTATTTCATTTTGAACAAAACGACGCCATTTTGCT
*
16150073 ATGCTAAAATTTTTTTATTTTGTTTTTTATAAATTGATTTATTTTT
129 ATGCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTT
16150119 GCGGCGTTTT
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
211 1 0.01
212 82 0.54
213 45 0.29
214 11 0.07
215 14 0.09
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (214 bp):
TTTTTATTTTGTTTTTTATAAATTGATGTATATTTTGCGGCGCTTTTATAGAAAACGCCGCTATT
GCTTATCTTTAAAAACGTCCGCAAGATATTATTTCATTTTGAACAAAACGACGCCATTTTGCTAT
GCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTTATTTTGAACAAAACGACTCC
GTTTTGTTATGCTAAAATT
Found at i:16150918 original size:14 final size:14
Alignment explanation
Indices: 16150861--16150920 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 14
16150851 CCCTAAACCT
16150861 TAACGTCTAACCCC
1 TAACGTCTAACCCC
*
16150875 TAA-ATCCTTAAACCCC
1 TAACGT-C-T-AACCCC
*
16150891 TAACGTTTAA-CCC
1 TAACGTCTAACCCC
*
16150904 TAATGTCTAACCCC
1 TAACGTCTAACCCC
16150918 TAA
1 TAA
16150921 ACCTTAATCC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
13 12 0.33
14 12 0.33
15 2 0.06
16 9 0.25
17 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.27
Consensus pattern (14 bp):
TAACGTCTAACCCC
Found at i:16150941 original size:20 final size:20
Alignment explanation
Indices: 16150912--16150951 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16150902 CCTAATGTCT
*
16150912 AACCCCTAAACCTTAATCCC
1 AACCCCTAAACCATAATCCC
*
16150932 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
16150952 TAATTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:16151251 original size:14 final size:14
Alignment explanation
Indices: 16151237--16151285 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
16151227 TCTCAACCCT
*
16151237 TAAACCATAATCCT
1 TAAACCATAATCCC
*
16151251 TAATCCATAATCCC
1 TAAACCATAATCCC
*
16151265 TAAACCCATACTCCC
1 TAAA-CCATAATCCC
16151280 TAAACC
1 TAAACC
16151286 TTAAAATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:16151279 original size:15 final size:15
Alignment explanation
Indices: 16151237--16151285 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
16151227 TCTCAACCCT
16151237 TAAA-CCATAAT-CC
1 TAAACCCATAATCCC
* *
16151250 TTAATCCATAATCCC
1 TAAACCCATAATCCC
*
16151265 TAAACCCATACTCCC
1 TAAACCCATAATCCC
16151280 TAAACC
1 TAAACC
16151286 TTAAAATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 3 0.10
14 7 0.23
15 20 0.67
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:16151425 original size:23 final size:25
Alignment explanation
Indices: 16151398--16151452 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
16151388 TAAATAATAG
16151398 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCATGTGTTAT
* *
16151421 TATTTCAAATTATTTCTATGTGTTAT
1 TATTT-TAATTATTTCCATGTGTTAT
16151447 TATTTT
1 TATTTT
16151453 TTCTAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 11 0.42
26 6 0.23
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.64
Consensus pattern (25 bp):
TATTTTAATTATTTCCATGTGTTAT
Found at i:16151441 original size:25 final size:25
Alignment explanation
Indices: 16151404--16151451 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
16151394 ATAGTATTTT
16151404 AATTTTTCCATGTGTT-TTATTTCA
1 AATTTTTCCATGTGTTATTATTTCA
*
16151428 AATTATTTCTATGTGTTATTATTT
1 AATT-TTTCCATGTGTTATTATTT
16151452 TTTCTAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 11 0.52
26 6 0.29
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (25 bp):
AATTTTTCCATGTGTTATTATTTCA
Found at i:16151733 original size:114 final size:114
Alignment explanation
Indices: 16151543--16151964 Score: 681
Period size: 114 Copynumber: 3.7 Consensus size: 114
16151533 TAGCGGCACT
* *
16151543 TTTCC-AAAAACGCCGCTAAATCCCCCGAAAGCACAGAAAACGGCGTCGTTGAGCTTAGGTTTTT
1 TTTCCTAAAAACGCCGCTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* *
16151607 TTGCAGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGTGC
65 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGC
* *
16151657 TTTCAC-AAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTTGGTTTTT
1 TTTC-CTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
*
16151721 TTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGC
65 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGC
* * * *
16151771 TTTCCTAAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAACGACGTCGTT-GGCTTTTGTTTTTT
1 TTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC-TTAGGTTTTT
*
16151835 TTGCGGCGCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGTGC
65 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGC
16151885 TTTCCTAAAAACGCCGCTAAA-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTT
1 TTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTT
16151949 TGCGGCGCTTTCTCAA
66 TGCGGCGCTTTCTCAA
16151965 CCCCCTTTTC
Statistics
Matches: 288, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
113 56 0.19
114 216 0.75
115 16 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (114 bp):
TTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTT
TGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGC
Found at i:16153149 original size:114 final size:112
Alignment explanation
Indices: 16152960--16153169 Score: 293
Period size: 114 Copynumber: 1.9 Consensus size: 112
16152950 TCACCAATAA
*
16152960 GCGCTTTCCTAAAAACGTCGCTAAACCCCGAAAGCTCAGAAACGACGTCGTTGGGTTTAGATTTT
1 GCGCTTTCCTAAAAACGCCGCTAAACCCCGAAAGCTCAGAAACGACGTCGTTGGGTTTAGATTTT
16153025 TTTGCAGCGCTTTCAC-AAAAACGCCGCTAAAGCCCTGAGCATTAGCG
66 TTTGCAGCGCTTTC-CTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
16153072 GCGCTTTCAC-AAAAACGCCG-TGAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTT-G
1 GCGCTTTC-CTAAAAACGCCGCT-AAA-CCCCGAAAGCTCAG-AAACGACGTCGTTGGG-TTTAG
* * * *
16153134 GTTTTTTTGCGGCGCTTTCCTAAAATCGCTGCTAAA
61 ATTTTTTTGCAGCGCTTTCCTAAAAACGCCGCTAAA
16153170 TCCCCGAAAG
Statistics
Matches: 87, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
111 1 0.01
112 20 0.23
113 16 0.18
114 47 0.54
115 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (112 bp):
GCGCTTTCCTAAAAACGCCGCTAAACCCCGAAAGCTCAGAAACGACGTCGTTGGGTTTAGATTTT
TTTGCAGCGCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
Found at i:16153174 original size:73 final size:73
Alignment explanation
Indices: 16153069--16153242 Score: 280
Period size: 73 Copynumber: 2.4 Consensus size: 73
16153059 CTGAGCATTA
* *
16153069 GCGGCGCTTTCAC-AAAAACGCCG-TGAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTT
1 GCGGCGCTTTC-CTAAAAACGCTGCT-AAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGCTT
16153132 TGGTTTTTTT
64 TGGTTTTTTT
*
16153142 GCGGCGCTTTCCTAAAATCGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGCTTTG
1 GCGGCGCTTTCCTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGCTTTG
16153207 GTTTTTTT
66 GTTTTTTT
*
16153215 GCGGCGCTTTCTTAAAAACGCTGCTAAA
1 GCGGCGCTTTCCTAAAAACGCTGCTAAA
16153243 GCCCTAAGCA
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
72 1 0.01
73 92 0.98
74 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTCCTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGCTTTG
GTTTTTTT
Found at i:16153336 original size:186 final size:185
Alignment explanation
Indices: 16152960--16153355 Score: 516
Period size: 187 Copynumber: 2.1 Consensus size: 185
16152950 TCACCAATAA
*
16152960 GCGCTTTCCTAAAAACGTCGCTAAACCCCGAAAGCTCAGAAACGACGTCGTTGGGTTTAGATTTT
1 GCGCTTTCCTAAAAACGTCGCTAAACCCCGAAAGCTCAGAAACGACGTCATTGGGTTTAGATTTT
* * *
16153025 TTTGCAGCGCTTTCACAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCACAAAAACGC
66 TTTGCAGCGCTTTCACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCACTTTCACAAAAACAC
* *
16153090 CGTGAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTTGGTTTTTTTGCG
131 CGTGAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGAGCTTAGGTTTTTTTGCG
* *
16153145 GCGCTTTCCTAAAATCG-CTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGCTTT-GG
1 GCGCTTTCCTAAAAACGTC-GCTAAA-CCCCGAAAGCTCAG-AAACGACGTCATTGGG-TTTAGA
* ** * * *
16153208 TTTTTTTGCGGCGCTTTCTTAAAAACGCTGCTAAAGCCCTAAGCATTAGTGGCACTTTTC-TAAA
62 TTTTTTTGCAGCGCTTTCACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCAC-TTTCACAAA
* * *
16153272 AACACCGCT-AAA-CCCTGAAAGCTTAGAAAATGACGTCGTTGAGCTTAGGTTTTTTTGCG
126 AACACCG-TGAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGAGCTTAGGTTTTTTTGCG
* *
16153331 GCGCTTT-TTCAAAAACGCCGCTAAA
1 GCGCTTTCCT-AAAAACGTCGCTAAA
16153356 GCCCTGAGCA
Statistics
Matches: 184, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
184 1 0.01
185 23 0.12
186 75 0.41
187 77 0.42
188 8 0.04
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (185 bp):
GCGCTTTCCTAAAAACGTCGCTAAACCCCGAAAGCTCAGAAACGACGTCATTGGGTTTAGATTTT
TTTGCAGCGCTTTCACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCACTTTCACAAAAACAC
CGTGAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGAGCTTAGGTTTTTTTGCG
Found at i:16153354 original size:113 final size:114
Alignment explanation
Indices: 16153142--16153677 Score: 659
Period size: 114 Copynumber: 4.7 Consensus size: 114
16153132 TGGTTTTTTT
* * * * * * *
16153142 GCGGCGCTTTCCTAAAATCGCTGCTAAATCCCCGAAAGCTCAGAAAACGACGTCATTGGGCTTTG
1 GCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAG
* * *
16153207 GTTTTTTTGCGGCGCTTTCTTAAAAACGCTGCTAAAGCCCTAAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * * *
16153256 GTGGCACTTTTC-TAAAAACACCGCTAAA-CCCTGAAAGCTTAGAAAATGACGTCGTTGAGCTTA
1 GCGGCGC-TTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTA
*
16153319 GGTTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
65 GGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
16153369 GCGGCGCGTTCACAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGTGTCGTTGGGCTTTG
1 GCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAG
** * *
16153434 GTTTTTTTGCGGCGCTTTCTCAAAAATACCGTTAAAGCCTTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
16153483 GCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAG
** * *
16153548 GTTTTTTTGCTCCGCTTTCTCAAAAATGCCGCTAAATCCCTGAGCATTA
66 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
16153597 GCGGTGCTTTC-TCAAAAACGTCACGAAATCCCCGAATGCTCAGAAAATGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCAT-AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTA
16153661 GG--TTTTTGCGGCGCTTT
65 GGTTTTTTTGCGGCGCTTT
16153678 GCTTATTTTC
Statistics
Matches: 361, Mismatches: 57, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
112 16 0.04
113 95 0.26
114 246 0.68
115 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (114 bp):
GCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:16154203 original size:22 final size:20
Alignment explanation
Indices: 16154151--16154205 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
16154141 AACAGAAAGC
*
16154151 AAAAACAAGATAAAAACCTA
1 AAAAACAAGAGAAAAACCTA
*
16154171 AAAAACAAGAGAAAACCCTA
1 AAAAACAAGAGAAAAACCTA
16154191 AAAACTACAAGAGAA
1 AAAA--ACAAGAGAA
16154206 CGCAGACAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 22 0.71
22 9 0.29
ACGTcount: A:0.67, C:0.16, G:0.09, T:0.07
Consensus pattern (20 bp):
AAAAACAAGAGAAAAACCTA
Found at i:16155122 original size:21 final size:21
Alignment explanation
Indices: 16155096--16155155 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
16155086 ACCATTGTTT
16155096 CTAATCTCACCGCTACCGT-A
1 CTAATCTCACCGCTACCGTAA
* * *
16155116 TTCAATCTCACTGCTACAGTAA
1 CT-AATCTCACCGCTACCGTAA
*
16155138 CTAATCTCACCGCCACCG
1 CTAATCTCACCGCTACCG
16155156 CTGTTTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.27, C:0.38, G:0.10, T:0.25
Consensus pattern (21 bp):
CTAATCTCACCGCTACCGTAA
Found at i:16166175 original size:18 final size:18
Alignment explanation
Indices: 16166152--16166199 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
16166142 AAAATGTGAG
*
16166152 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
16166170 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
16166188 AAATGATGTTCA
1 AAATGATGTTCA
16166200 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:16166704 original size:72 final size:72
Alignment explanation
Indices: 16166623--16166794 Score: 233
Period size: 72 Copynumber: 2.4 Consensus size: 72
16166613 AACAACAATG
* * * * *
16166623 CTAAA-CTAGTTTTATCAACAGTTATTTATGTTTGGTTTTTGGATATTGACTTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
16166687 ATTTAT-
66 ATTTATA
* * *
16166693 GTGTAATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACT
16166758 TATTTATA
65 TATTTATA
*
16166766 CTAAAT-TAGTTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAAAAGTTGTTTAT
16166795 ATGTGATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.26
72 62 0.71
73 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:16169618 original size:24 final size:24
Alignment explanation
Indices: 16169574--16169619 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16169564 CTTGATAAAT
*
16169574 CATATATATGTTTACCTATTTTCA
1 CATATATATGTTCACCTATTTTCA
*
16169598 CATATATAT-TTCATCTAATTTT
1 CATATATATGTTCACCT-ATTTT
16169620 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.30, C:0.15, G:0.02, T:0.52
Consensus pattern (24 bp):
CATATATATGTTCACCTATTTTCA
Found at i:16198205 original size:26 final size:26
Alignment explanation
Indices: 16198176--16198225 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
16198166 TTATCAACTC
*
16198176 AAACTTGATTTCTGAAGTGAAAAAAA
1 AAACTTGATTTCTGAAATGAAAAAAA
16198202 AAACTTGATTTCTGAAATGAAAAA
1 AAACTTGATTTCTGAAATGAAAAA
16198226 CAAATATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (26 bp):
AAACTTGATTTCTGAAATGAAAAAAA
Found at i:16210163 original size:26 final size:27
Alignment explanation
Indices: 16210106--16210175 Score: 97
Period size: 26 Copynumber: 2.6 Consensus size: 27
16210096 AAAAATAAAA
* *
16210106 ATTTATCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATA-TATAACATTTTTTT
*
16210134 ATTTTCCAAAATATATAA-ATTTTTTT
1 ATTTACCAAAATATATAACATTTTTTT
16210160 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
16210176 CAAAAAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 22 0.58
27 5 0.13
28 11 0.29
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTACCAAAATATATAACATTTTTTT
Found at i:16215500 original size:18 final size:18
Alignment explanation
Indices: 16215457--16215501 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16215447 TTAACATGGT
*
16215457 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
16215475 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
16215493 TGGTGGCGA
1 TGGTGGCGA
16215502 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:16220454 original size:864 final size:861
Alignment explanation
Indices: 16218788--16220513 Score: 3172
Period size: 864 Copynumber: 2.0 Consensus size: 861
16218778 AACATTTGTA
16218788 ATTTCCGGCCTCCGATATGGCATCCATATAAACTGCATGAGTAATAACATTGTAACGAGTTAGAC
1 ATTTCCGGCCTCCGATATGGCATCCATATAAACTGCATGAGTAATAACATTGTAACGAGTTAGAC
16218853 CGATAACATGTGAGTAAGATATAGAAATAGAATAGATGTCATTAATAATAGAATAGCAGCTTACC
66 CGATAACATGTGAGTAAGATATAGAAATAGAATAGATGTCATTAATAATAGAATAGCAGCTTACC
* *
16218918 CCTTCCCGAGTATGCTATTCAATCCTGAGGCGATATATCGGGACATCACTCGACTTCCTATGCCT
131 CCTTCCCGAGCATGCTATTCAATCCTGAGGCGATATATCGGGACATCACTCGACTTCCGATGCCT
* *
16218983 GGACAGGTCGTCCACCTACAAAAATAAGCATTTGGTTTAGGGTTGGTAACATTGCCATATATATT
196 GGACAGGGCGTCCACCTACAAAAATAAGCATTCGGTTTAGGGTTGGTAACATTGCCATATATATT
16219048 ATTCGGGACAAATAATGATAATTTGTAATATTTTTATCACCTGAGTGGCAGTGGATACAGATAGA
261 ATTCGGGACAAATAATGATAATTTGTAATATTTTTATCACCTGAGTGGCAGTGGATACAGATAGA
*
16219113 GTTGGTGACTAACGCGTGCCAAAAACGACATCCGATAAAGCGCCCATGACTACAGCAGTATGAGG
326 GTTGGTGACTAACGCGTGCCAAAAACGACATCCGATAAAGCGCCCATGACTACAGCAGTATAAGG
16219178 CATCCACCGATGTCTTTAACTTGCGGCTGTCGCCCGACAAAGCTCCCAGTACAGCGTTGCTAGAA
391 CATCCACCGATGTCTTTAACTTGCGGCTGTCGCCCGACAAAGCTCCCAGTACAGCGTTGCTAGAA
*
16219243 CGGCAGAACCCCAGCTGTACGATCTAGCAGTGGAGAAATCAGCTAGCAAGGGCAAGTATGACAAA
456 CAGCAGAACCCCAGCTGTACGATCTAGCAGTGGAGAAATCAGCTAGCAAGGGCAAGTATGACAAA
16219308 TGCACTGTCGCCGTTTACATCAGGCATGAGTACTGCCCCTATCATATGCATGATGTACGCTCGAG
521 TGCACTGTCGCCGTTTACATCAGGCATGAGTACTGCCCCTATCA-ATGCATGATGTACGCTCGAG
*
16219373 CAGCGCACATCAGCTCACCTTCACTGGCGGTCGCTGATAATCCACATATTTTGCCTTTTAGCCAT
585 CAGCGCACATCAGCTCACCTTCACTGGCGGTCGCTGATAATCCACATATTTTACCTTTTAGCCAT
*
16219438 GTAAATTTTATGCCGGAAAAATATTTATCACCATCCTCTGGTGACTCTCCTAGGAGTTGATAGCA
650 GTAAATTTTATACCGGAAAAATATTTATCACCATCCTCTGGTGACTCTCCTAGGAGTTGATAGCA
16219503 AACTGCAGCCGGATCCGTGAATGAAGATACTCCCGTTACAGGGCTCCCGTCAATTGGGAGCCCAA
715 AACTGCAGCCGGATCCGTGAATGAAGATACTCCCGTTACAGGGCTCCCGTCAATTGGGAGCCCAA
*
16219568 GCTGCACTGCAACATCCTCCAAGGTCACTGTGCACTCCCCGCACGGAAAATGGAAAGTATGGGTC
780 GCTGCACTGCAACATCCTCCAAGGTCACCGTGCACTCCCCGCACGGAAAATGGAAAGTATGGGTC
16219633 TCCGGACGCCACCGCTC
845 TCCGGACGCCACCGCTC
16219650 ATTTCCGGCCTCCGATATGGCATCCATATAAACTGCATGAGTAATAACATTGTAACGAGTTAGAC
1 ATTTCCGGCCTCCGATATGGCATCCATATAAACTGCATGAGTAATAACATTGTAACGAGTTAGAC
16219715 CGATAACATGTGAGTAAGATATAGAAATAGAATAGATGTCATTAATAATAGAATAGCAGCTTACC
66 CGATAACATGTGAGTAAGATATAGAAATAGAATAGATGTCATTAATAATAGAATAGCAGCTTACC
* *
16219780 CCTTCCCGGGCATGCTGTTCAATCCTGAGGCGATATATCGGGACATCACTCGACTTCCCGATGCC
131 CCTTCCCGAGCATGCTATTCAATCCTGAGGCGATATATCGGGACATCACTCGACTT-CCGATGCC
* *
16219845 TGGACGGGGCGTCCACCTACAAAAATAAGTATTCGGTTTAGGGTTGGTAACATTGCCATATATAT
195 TGGACAGGGCGTCCACCTACAAAAATAAGCATTCGGTTTAGGGTTGGTAACATTGCCATATATAT
16219910 TATTCGGGACAAATAATGATAATTTGTAATATTTTTATCACCTGAGTGGCAGTGGATACAGATAG
260 TATTCGGGACAAATAATGATAATTTGTAATATTTTTATCACCTGAGTGGCAGTGGATACAGATAG
*
16219975 GGTTGGTGACTAACGCGTGCCAAAAAC-AGCATCCGATAAAGCGCCCATGAC-AGCAGCAGTATA
325 AGTTGGTGACTAACGCGTGCCAAAAACGA-CATCCGATAAAGCGCCCATGACTA-CAGCAGTATA
* *
16220038 AGGCATCCGCCGATGTCTTTAACTTGCGGCTCTGTCGCCCGACAAAGCTCCCGGTACAGCGTTGC
388 AGGCATCCACCGATGTCTTTAACTTGCGG--CTGTCGCCCGACAAAGCTCCCAGTACAGCGTTGC
* *
16220103 TAGAACAGCAGAACCCCAGTTGTACGATCTAGCAGTGGAGAAATCAGCTAGCAGGGGCAAGTATG
451 TAGAACAGCAGAACCCCAGCTGTACGATCTAGCAGTGGAGAAATCAGCTAGCAAGGGCAAGTATG
16220168 ACAAATGCACACTGTCGCCGTTTACATCAGGCATGAGTACTGCCCCTATC-ATGCATGATGTAC-
516 ACAAATG--CACTGTCGCCGTTTACATCAGGCATGAGTACTGCCCCTATCAATGCATGATGTACG
*
16220231 CTCGAGCAGCGCACATCATCTCACCTTCACTGGCGGTCGCTGATAATCCACATATTTTACCTTTT
579 CTCGAGCAGCGCACATCAGCTCACCTTCACTGGCGGTCGCTGATAATCCACATATTTTACCTTTT
16220296 AGCCATGTAAATTTTATACCGGAAAAATATTTATCACCATCCTCTGGTGACTCTCCTAGGAGTTG
644 AGCCATGTAAATTTTATACCGGAAAAATATTTATCACCATCCTCTGGTGACTCTCCTAGGAGTTG
16220361 ATAGCAAACTGCAGCCGGATCCGTGAATGAAGATACTCCCGTTACAGGGCTCCCGTCAATTGGGA
709 ATAGCAAACTGCAGCCGGATCCGTGAATGAAGATACTCCCGTTACAGGGCTCCCGTCAATTGGGA
*
16220426 GCCCAAGCTGCACTGCAATATCCTCCAAGGTCACCGTGCACTCCCCGCACGGAAAATGGAAAGTA
774 GCCCAAGCTGCACTGCAACATCCTCCAAGGTCACCGTGCACTCCCCGCACGGAAAATGGAAAGTA
16220491 TGGGTCTCCGGACGCCACCGCTC
839 TGGGTCTCCGGACGCCACCGCTC
16220514 CACAGCGCAG
Statistics
Matches: 837, Mismatches: 20, Indels: 12
0.96 0.02 0.01
Matches are distributed among these distances:
862 185 0.22
863 218 0.26
864 278 0.33
865 115 0.14
867 41 0.05
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (861 bp):
ATTTCCGGCCTCCGATATGGCATCCATATAAACTGCATGAGTAATAACATTGTAACGAGTTAGAC
CGATAACATGTGAGTAAGATATAGAAATAGAATAGATGTCATTAATAATAGAATAGCAGCTTACC
CCTTCCCGAGCATGCTATTCAATCCTGAGGCGATATATCGGGACATCACTCGACTTCCGATGCCT
GGACAGGGCGTCCACCTACAAAAATAAGCATTCGGTTTAGGGTTGGTAACATTGCCATATATATT
ATTCGGGACAAATAATGATAATTTGTAATATTTTTATCACCTGAGTGGCAGTGGATACAGATAGA
GTTGGTGACTAACGCGTGCCAAAAACGACATCCGATAAAGCGCCCATGACTACAGCAGTATAAGG
CATCCACCGATGTCTTTAACTTGCGGCTGTCGCCCGACAAAGCTCCCAGTACAGCGTTGCTAGAA
CAGCAGAACCCCAGCTGTACGATCTAGCAGTGGAGAAATCAGCTAGCAAGGGCAAGTATGACAAA
TGCACTGTCGCCGTTTACATCAGGCATGAGTACTGCCCCTATCAATGCATGATGTACGCTCGAGC
AGCGCACATCAGCTCACCTTCACTGGCGGTCGCTGATAATCCACATATTTTACCTTTTAGCCATG
TAAATTTTATACCGGAAAAATATTTATCACCATCCTCTGGTGACTCTCCTAGGAGTTGATAGCAA
ACTGCAGCCGGATCCGTGAATGAAGATACTCCCGTTACAGGGCTCCCGTCAATTGGGAGCCCAAG
CTGCACTGCAACATCCTCCAAGGTCACCGTGCACTCCCCGCACGGAAAATGGAAAGTATGGGTCT
CCGGACGCCACCGCTC
Found at i:16222304 original size:26 final size:26
Alignment explanation
Indices: 16222275--16222437 Score: 96
Period size: 26 Copynumber: 6.4 Consensus size: 26
16222265 CTTCCCTCTT
*
16222275 TTTCTTCTTTTTTTTTTCTCTTCTCC
1 TTTCTTCTTTTTTTCTTCTCTTCTCC
*
16222301 TTTCCTTC-TTTTTTCTTCTCTTTTCC
1 TTT-CTTCTTTTTTTCTTCTCTTCTCC
**
16222327 TTCTCTTCTTCTTATTTCTT-TCTT-TTT
1 TT-TCTTCTT-TT-TTTCTTCTCTTCTCC
* **
16222354 TTCTCTTCTCCTTTCCCTT-TCTT-TCC
1 TT-TCTTCT-TTTTTTCTTCTCTTCTCC
* *
16222380 -TTCTT-TTTCTTTCTTC-CCTCTCC
1 TTTCTTCTTTTTTTCTTCTCTTCTCC
16222403 TTTCTTCCTTTTTTTC-TCTCTT-T-C
1 TTTCTT-CTTTTTTTCTTCTCTTCTCC
16222427 TTTCTTTCTTT
1 TTTC-TTCTTT
16222438 CCCTCCCCTT
Statistics
Matches: 108, Mismatches: 16, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
22 7 0.06
23 4 0.04
24 18 0.17
25 6 0.06
26 43 0.40
27 18 0.17
28 6 0.06
29 6 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTCTTCTTTTTTTCTTCTCTTCTCC
Found at i:16222317 original size:21 final size:21
Alignment explanation
Indices: 16222287--16222438 Score: 81
Period size: 21 Copynumber: 7.3 Consensus size: 21
16222277 TCTTCTTTTT
16222287 TTTTTCTCTTCTCCTTTCCTTC
1 TTTTT-TCTTCTCCTTTCCTTC
*
16222309 TTTTTTCTTCTCTTTTCCTTC
1 TTTTTTCTTCTCCTTTCCTTC
* * *
16222330 TCTTCTTCTTATTTCTTT-CTT-
1 T-TTTTTCTT-CTCCTTTCCTTC
16222351 TTTTTCTCTTCTCCTTTCC--C
1 TTTTT-TCTTCTCCTTTCCTTC
*
16222371 TTTCTTTC--CTTCTTT--TTC
1 TTT-TTTCTTCTCCTTTCCTTC
* *
16222389 TTTCTTCCCTCTCCTTT-CTTC
1 TTT-TTTCTTCTCCTTTCCTTC
* *
16222410 CTTTTT-TTCTCTCTTTCTTTC
1 TTTTTTCTTCTC-CTTTCCTTC
16222431 TTTCTTTC
1 TTT-TTTC
16222439 CCTCCCCTTC
Statistics
Matches: 99, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
18 14 0.14
19 4 0.04
20 25 0.25
21 34 0.34
22 18 0.18
23 4 0.04
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTTCTTCTCCTTTCCTTC
Found at i:16222337 original size:40 final size:36
Alignment explanation
Indices: 16222266--16222425 Score: 124
Period size: 38 Copynumber: 4.6 Consensus size: 36
16222256 TTTTCCTTCC
* **
16222266 TTCCCTCTTTTTCTTCT-TTTTTTTTTCTCTTCTCCT
1 TTCCTTCTTTTTCTTCTCTTTTCCTTTCTCTTCT-CT
*
16222302 TTCCTTCTTTTTTCTTCTCTTTTCCTTCTCTTCTTCTTAT
1 TTCCTTC-TTTTTCTTCTCTTTTCCTT-TC-TCTTC-TCT
* * *
16222342 TTCTTTCTTTTT-TTCTCTTCTCCTTTCCCTT-TCT
1 TTCCTTCTTTTTCTTCTCTTTTCCTTTCTCTTCTCT
* *
16222376 TTCCTTCTTTTTCTT-TC-TTCCCTCTC-CTT-TC-
1 TTCCTTCTTTTTCTTCTCTTTTCCTTTCTCTTCTCT
16222407 TTCCTT-TTTTTC-TCTCTTT
1 TTCCTTCTTTTTCTTCTCTTT
16222426 CTTTCTTTCT
Statistics
Matches: 104, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.01
30 8 0.08
31 8 0.08
32 5 0.05
33 6 0.06
34 15 0.14
35 2 0.02
36 9 0.09
37 12 0.12
38 18 0.17
39 7 0.07
40 12 0.12
41 1 0.01
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (36 bp):
TTCCTTCTTTTTCTTCTCTTTTCCTTTCTCTTCTCT
Found at i:16222360 original size:64 final size:61
Alignment explanation
Indices: 16222245--16222421 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 61
16222235 ATTACCTTTT
* *
16222245 TTTTTTCTTTTTTTTCCTTC-CTTCCCTCTTTTTCTTCTTTTTTTTTTCTCTTCTCCTTTCCTTC
1 TTTTTTCTTCTTTTTCCTTCTCTTCCCTCTTTTTC-T-TTCTTTTTTTCTCTTCTCCTTTCC--C
*
16222309 TTTTTTCTTCTCTTTTCCTTCTCTT-CTTCTTATTTCTTTCTTTTTTTCTCTTCTCCTTTCCC
1 TTTTTTCTTCT-TTTTCCTTCTCTTCCCTCTT-TTTCTTTCTTTTTTTCTCTTCTCCTTTCCC
* *
16222371 TTTCTTTCCTTCTTTTT-CTT-TCTTCCCTCTCCTTTCTTCCTTTTTTTCTCT
1 TTT-TTT-CTTCTTTTTCCTTCTCTTCCCTCT-TTTTCTTTCTTTTTTTCTCT
16222422 CTTTCTTTCT
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
61 4 0.04
62 29 0.29
63 7 0.07
64 38 0.38
65 15 0.15
66 7 0.07
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (61 bp):
TTTTTTCTTCTTTTTCCTTCTCTTCCCTCTTTTTCTTTCTTTTTTTCTCTTCTCCTTTCCC
Found at i:16222384 original size:38 final size:38
Alignment explanation
Indices: 16222342--16222435 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 38
16222332 TTCTTCTTAT
*
16222342 TTCTTTCTTTTTTTCTCTTCTCCTTTC-CCTTTCTTTCC
1 TTCTTTCTTTTTTTCTCCTCTCCTTTCTCCTTT-TTTCC
*
16222380 TTCTTT-TTCTTTCTTC-CCTCTCCTTTCTTCCTTTTTTTC
1 TTCTTTCTT-TTT-TTCTCCTCTCCTTTC-TCCTTTTTTCC
*
16222419 TCTCTTTCTTTCTTTCT
1 T-TCTTTCTTTTTTTCT
16222436 TTCCCTCCCC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
37 2 0.04
38 19 0.41
39 11 0.24
40 12 0.26
41 2 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (38 bp):
TTCTTTCTTTTTTTCTCCTCTCCTTTCTCCTTTTTTCC
Found at i:16222622 original size:27 final size:27
Alignment explanation
Indices: 16222585--16222637 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16222575 TTTTTTTTTG
16222585 TTTTTTTATATATTTT-AGTAAATAAAT
1 TTTTTTTATATATTTTGA-TAAATAAAT
16222612 TTTTTTTATATATTTTGATAAATAAA
1 TTTTTTTATATATTTTGATAAATAAA
16222638 AAAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTTTTATATATTTTGATAAATAAAT
Found at i:16230233 original size:5 final size:5
Alignment explanation
Indices: 16230223--16230251 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
16230213 TATTTGGAAA
16230223 GATTT GATTT GATTT GATTT GATTT GATT
1 GATTT GATTT GATTT GATTT GATTT GATT
16230252 GTGTAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (5 bp):
GATTT
Found at i:16231780 original size:21 final size:20
Alignment explanation
Indices: 16231736--16231780 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16231726 TCAAGCCACT
* *
16231736 AATAGTGCAGACAAACTGCC
1 AATAATGCAGACAAACTACC
*
16231756 AATAATGCAGACAAGGCTACC
1 AATAATGCAGACAA-ACTACC
16231777 AATA
1 AATA
16231781 CTTCCTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.44, C:0.22, G:0.18, T:0.16
Consensus pattern (20 bp):
AATAATGCAGACAAACTACC
Found at i:16235660 original size:20 final size:20
Alignment explanation
Indices: 16235635--16235675 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16235625 TTATCCATTA
16235635 TAATCGGGCATATGACTAAT
1 TAATCGGGCATATGACTAAT
16235655 TAATCGGGCATATGACTAAT
1 TAATCGGGCATATGACTAAT
16235675 T
1 T
16235676 TATATACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (20 bp):
TAATCGGGCATATGACTAAT
Found at i:16238433 original size:5 final size:5
Alignment explanation
Indices: 16238423--16238471 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
16238413 TATCTAAAAA
16238423 GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATT
1 GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATT
16238472 GTGTAAATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (5 bp):
GATTT
Found at i:16243391 original size:24 final size:23
Alignment explanation
Indices: 16243355--16243400 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
16243345 AATATATATT
16243355 AAATATATATTTTAATTTTTAATC
1 AAATATATATTTT-ATTTTTAATC
*
16243379 AAATATATTTTTTATTTTTAAT
1 AAATATATATTTTATTTTTAAT
16243401 TTAGATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AAATATATATTTTATTTTTAATC
Found at i:16243414 original size:23 final size:24
Alignment explanation
Indices: 16243355--16243400 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
16243345 AATATATATT
16243355 AAATATATATTTTAATTTTTAATC
1 AAATATATATTTTAATTTTTAATC
*
16243379 AAATATAT-TTTTTATTTTTAAT
1 AAATATATATTTTAATTTTTAAT
16243401 TTAGATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
AAATATATATTTTAATTTTTAATC
Found at i:16245715 original size:16 final size:17
Alignment explanation
Indices: 16245694--16245729 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
16245684 TTCATTTTTT
16245694 TTTGAAT-TTTTATAAA
1 TTTGAATATTTTATAAA
16245710 TTTGAATATTTTATAAA
1 TTTGAATATTTTATAAA
16245727 TTT
1 TTT
16245730 TAAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTGAATATTTTATAAA
Found at i:16245740 original size:18 final size:18
Alignment explanation
Indices: 16245693--16245741 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
16245683 CTTCATTTTT
16245693 TTTTGAATT-TTTATAAA
1 TTTTGAATTATTTATAAA
16245710 -TTTGAA-TATTTTATAAA
1 TTTTGAATTA-TTTATAAA
*
16245727 TTTTAAATTATTTAT
1 TTTTGAATTATTTAT
16245742 TAACATGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 1 0.04
16 6 0.22
17 8 0.30
18 10 0.37
19 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTGAATTATTTATAAA
Found at i:16253392 original size:1 final size:1
Alignment explanation
Indices: 16253386--16253419 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
16253376 CTTATTGTTT
*
16253386 GGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
16253420 ACCTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:16253409 original size:17 final size:17
Alignment explanation
Indices: 16253387--16253419 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16253377 TTATTGTTTG
16253387 GGGGGGGGGGGGGGGGC
1 GGGGGGGGGGGGGGGGC
16253404 GGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGG
16253420 ACCTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (17 bp):
GGGGGGGGGGGGGGGGC
Found at i:16255431 original size:36 final size:36
Alignment explanation
Indices: 16255382--16255455 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
16255372 TCCTTCCAAT
16255382 ATTT-TTTTTTTTTTTTTTT-T-TTGGGTATTGAAA
1 ATTTGTTTTTTTTTTTTTTTGTGTTGGGTATTGAAA
16255415 ATTTGTTTTTTTTTTTTTTTGTGTTGGGTATTGAAA
1 ATTTGTTTTTTTTTTTTTTTGTGTTGGGTATTGAAA
16255451 ATTTG
1 ATTTG
16255456 GGTAGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
33 4 0.11
34 15 0.39
35 1 0.03
36 18 0.47
ACGTcount: A:0.15, C:0.00, G:0.16, T:0.69
Consensus pattern (36 bp):
ATTTGTTTTTTTTTTTTTTTGTGTTGGGTATTGAAA
Found at i:16263997 original size:12 final size:12
Alignment explanation
Indices: 16263980--16264004 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16263970 GGTGTTCATT
16263980 CGGTTAACCGAC
1 CGGTTAACCGAC
16263992 CGGTTAACCGAC
1 CGGTTAACCGAC
16264004 C
1 C
16264005 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:16264178 original size:9 final size:9
Alignment explanation
Indices: 16264164--16264240 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
16264154 TTTGGTTAAA
16264164 AATTACCCG
1 AATTACCCG
16264173 AATTACCCG
1 AATTACCCG
16264182 AATTACCCG
1 AATTACCCG
* *
16264191 AATTAACCT
1 AATTACCCG
*
16264200 AATTAACCG
1 AATTACCCG
16264209 AATTA-CCG
1 AATTACCCG
*
16264217 AAAAATACCCG
1 --AATTACCCG
16264228 AATTACCCG
1 AATTACCCG
16264237 AATT
1 AATT
16264241 TTTTTTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
8 3 0.05
9 50 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:16264399 original size:13 final size:13
Alignment explanation
Indices: 16264381--16264410 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16264371 TTTTAGTTTT
16264381 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
16264394 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
16264407 ATTG
1 ATTG
16264411 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:16267184 original size:42 final size:43
Alignment explanation
Indices: 16267138--16267219 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
16267128 ATGGAATATC
* *
16267138 GACATCG-TATACGATTTCGTGTAAGACC-CTGTCTGGGACAGT
1 GACATCGATATACGATTACATGTAAGACCAC-GTCTGGGACAGT
**
16267180 GACATCGATATTTGATTACATGTAAGACCACGTCTGGGAC
1 GACATCGATATACGATTACATGTAAGACCACGTCTGGGAC
16267220 GTTGGCATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 7 0.21
43 26 0.76
44 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
GACATCGATATACGATTACATGTAAGACCACGTCTGGGACAGT
Found at i:16270752 original size:19 final size:21
Alignment explanation
Indices: 16270728--16270767 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16270718 AGAAATATAA
*
16270728 TTTTTC-T-CTCTTTTTCTTT
1 TTTTTCTTCCTCTTATTCTTT
16270747 TTTTTCTTCCTCTTATTCTTT
1 TTTTTCTTCCTCTTATTCTTT
16270768 ACAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTCTTCCTCTTATTCTTT
Found at i:16271130 original size:26 final size:27
Alignment explanation
Indices: 16271094--16271145 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
16271084 GTTTTTTTTA
*
16271094 TTTCTATTAAAAA-GTCCGTTATAATTC
1 TTTCTATTAAAAATGTCCCTT-TAATTC
16271121 TTTCT-TTAAAAATGTCCCTTTAATT
1 TTTCTATTAAAAATGTCCCTTTAATT
16271146 TTTTTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (27 bp):
TTTCTATTAAAAATGTCCCTTTAATTC
Found at i:16271177 original size:13 final size:13
Alignment explanation
Indices: 16271159--16271184 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16271149 TTGATTTCAC
16271159 ATTACATAAATTA
1 ATTACATAAATTA
16271172 ATTACATAAATTA
1 ATTACATAAATTA
16271185 TTAAATCAAT
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTACATAAATTA
Found at i:16272637 original size:12 final size:12
Alignment explanation
Indices: 16272620--16272644 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16272610 TTTAATGTAT
16272620 ATAACAAAATTA
1 ATAACAAAATTA
16272632 ATAACAAAATTA
1 ATAACAAAATTA
16272644 A
1 A
16272645 AAAGGTAGAA
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACAAAATTA
Found at i:16274387 original size:518 final size:520
Alignment explanation
Indices: 16273372--16274415 Score: 1889
Period size: 519 Copynumber: 2.0 Consensus size: 520
16273362 AACCTTTTGC
16273372 TCGATCTGCCTTGTTCTTTTTTTCTACTTTGTTGCAAAAAATTTTTTTTTGAATCTGTTCTTTTT
1 TCGATCTGCCTTGTTCTTTTTTTCTACTTTGTTGC-AAAAATTTTTTTTTGAATCTGTTCTTTTT
* *
16273437 TTATTTCTTTTTTTCTGAAAAAAAAGTCGGCCCTAATATATTTTTAATCCGGCTTTTATAGCCGA
65 TTATTTCTTTATTTCTGAAAAAAAAGTCGGCCCTAATACATTTTTAATCCGGCTTTTATAGCCGA
* *
16273502 TTTTATACATTATTTTTATCTATTTCTACTGCTTGTTGTTGCGTTTTGGTTTCTCTCTTTGCAGG
130 TTTTACACATTATTTTTATCTATTTCTACTGCTTGTTGTTGCGTGTTGGTTTCTCTCTTTGCAGG
*
16273567 TGATTAACGCGGCAAGTGGGCATGGCGGTGGACGTGCGATGGGACGATGGTTGTAGGCTAGGGCG
195 TGATTAACGCGGCAAGTGGGCATGGCGGTGGACGTGCGATGGGACGATGGTTATAGGCTAGGGCG
*
16273632 GCGGCAGAGCAAGTGGACGACCCTAGGTGCGGCGCACCTAGGGTTAGGGTTACTTTTTTTGTTTT
260 GCGGCAGAGCAAGTGGACGACCCTAGGTACGGCGCACCTAGGGTTAGGGTTACTTTTTTTGTTTT
16273697 CTAATTTGGGTTATTTGGGTAGTTAGGTTATTGGGCCTTTAGGGTTATTGGGTCAGCATTGTAAT
325 CTAATTTGGGTTATTTGGGTAGTTAGGTTATTGGGCCTTTAGGGTTATTGGGTCAGCATTGTAAT
*
16273762 TGGGTTTGGGTAGGTTTAGGTGGGTTTTTAGGCCTGGGCAAAATTTGGGCTGTACAGCTGCCCCT
390 TGGGTTTGGGTAGGTTTAGGTGGGTTTTTAGGCCCGGGCAAAATTTGGGCTGTACAGCTGCCCCT
*
16273827 CTTTACTCGTTGTCGTGTAACGAGAACAAAGCAAACACCAAGAAAGACCAAATTTGCCCGATCTT
455 CTTTACTCGTTGTCATGTAACGAGAACAAAGCAAACACCAAGAAAGACCAAATTTGCCCGATCTT
16273892 G
520 G
*
16273893 TCGATCTGCCTTGTTCTTTTTTTCTACTTTGTTGC-AAATTTTTTTTTTGAATCTGTTCTTTTTT
1 TCGATCTGCCTTGTTCTTTTTTTCTACTTTGTTGCAAAAATTTTTTTTTGAATCTGTTCTTTTTT
*
16273957 TATTTCTTTATTTCTGAAGAAAAAG-CTGGCCCTAATACATTTTTAATCCGGCTTTTATAGCCGA
66 TATTTCTTTATTTCTGAAAAAAAAGTC-GGCCCTAATACATTTTTAATCCGGCTTTTATAGCCGA
* *
16274021 TTTTACATATTATTTTTATCTATTTCTACTGCTTGTTGTTGCGTGTTGGTTTCTCTCTTTGTAGG
130 TTTTACACATTATTTTTATCTATTTCTACTGCTTGTTGTTGCGTGTTGGTTTCTCTCTTTGCAGG
16274086 TGATTAACGCGGCAAGTGGGCATGGCGGTGGACGTGCGATGGGAC-AGTGGTTATAGGCTAGGGC
195 TGATTAACGCGGCAAGTGGGCATGGCGGTGGACGTGCGATGGGACGA-TGGTTATAGGCTAGGGC
16274150 GGCGGCAGAGCAAGTGGACGACCCTAGGTACGGCGCACCTAGGGTTAGGGTTAC-TTTTTTGTTT
259 GGCGGCAGAGCAAGTGGACGACCCTAGGTACGGCGCACCTAGGGTTAGGGTTACTTTTTTTGTTT
*
16274214 TCTGATTTGGGTTATTTGGGTAGTTAGGTTATTGGGCCTTTAGGGTTATTGGGTCAGCATTGTAA
324 TCTAATTTGGGTTATTTGGGTAGTTAGGTTATTGGGCCTTTAGGGTTATTGGGTCAGCATTGTAA
16274279 TTGGGTTTGGGTAGGTTTAGGTGGGTTTTTAGGCCCGGGCAAAATTTGGGCTGTACAGCTGCCCC
389 TTGGGTTTGGGTAGGTTTAGGTGGGTTTTTAGGCCCGGGCAAAATTTGGGCTGTACAGCTGCCCC
* * *
16274344 TCTTTGCTCGTTGTCATGTAACGAGAACAGAGCAAAGACCAAGAAAGACCAAATTTGCCCGATCT
454 TCTTTACTCGTTGTCATGTAACGAGAACAAAGCAAACACCAAGAAAGACCAAATTTGCCCGATCT
16274409 TG
519 TG
16274411 TCGAT
1 TCGAT
16274416 TCTTGACTTC
Statistics
Matches: 505, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
518 208 0.41
519 262 0.52
521 35 0.07
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (520 bp):
TCGATCTGCCTTGTTCTTTTTTTCTACTTTGTTGCAAAAATTTTTTTTTGAATCTGTTCTTTTTT
TATTTCTTTATTTCTGAAAAAAAAGTCGGCCCTAATACATTTTTAATCCGGCTTTTATAGCCGAT
TTTACACATTATTTTTATCTATTTCTACTGCTTGTTGTTGCGTGTTGGTTTCTCTCTTTGCAGGT
GATTAACGCGGCAAGTGGGCATGGCGGTGGACGTGCGATGGGACGATGGTTATAGGCTAGGGCGG
CGGCAGAGCAAGTGGACGACCCTAGGTACGGCGCACCTAGGGTTAGGGTTACTTTTTTTGTTTTC
TAATTTGGGTTATTTGGGTAGTTAGGTTATTGGGCCTTTAGGGTTATTGGGTCAGCATTGTAATT
GGGTTTGGGTAGGTTTAGGTGGGTTTTTAGGCCCGGGCAAAATTTGGGCTGTACAGCTGCCCCTC
TTTACTCGTTGTCATGTAACGAGAACAAAGCAAACACCAAGAAAGACCAAATTTGCCCGATCTTG
Found at i:16274668 original size:50 final size:50
Alignment explanation
Indices: 16274608--16274999 Score: 369
Period size: 50 Copynumber: 7.7 Consensus size: 50
16274598 TAAGGTTCGT
* *
16274608 CAGGGAAGTAAGATTCGCTGTTGTACCTTCAATCTGTTCCACTGCAACGC
1 CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
* * * * * *
16274658 CAGGGCAGTAAGATTCACTGTTGTAGCTTCAATCTGTGCCA-TGGAAGTAAGGTTCGT
1 CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACT----GCAA----CGC
* * *
16274715 CAAGGAAGTAAGA-CTCACTGTTGTAGCTTCAATCTGTTCCACTGCAATGC
1 CAGGGAAGTAAGATC-CGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
* * * ** * *
16274765 CAAGGAAGTAAGATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGT
1 CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
* * *
16274815 CGGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGC
1 CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
* * ** * *
16274865 CAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGT
1 CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
* *
16274915 C-GGGAAAGCAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGC-ACTGC
1 CAGGG-AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAC-GC
* * *
16274965 TAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
1 CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCT
16275000 TTTTAACTTG
Statistics
Matches: 279, Mismatches: 49, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.01
50 228 0.82
51 2 0.01
53 3 0.01
54 3 0.01
57 38 0.14
58 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGC
Found at i:16274874 original size:100 final size:100
Alignment explanation
Indices: 16274610--16275012 Score: 472
Period size: 100 Copynumber: 4.0 Consensus size: 100
16274600 AGGTTCGTCA
* * ** *
16274610 GGGAAGTAAGATTCGCTGTTGTACCTTCAATCTGTTCCACTGCAACGCCAGGGCAGTAAGATTCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGAAAGTAAGATCCA
* *** *
16274675 CTGTTGTAGCTTCAATCTGTGCCA-TGGAAGTAAGGTTCG
66 CTGTTGTAGCTTCAATCTTTTTAACTGCAA-T---G-TCG
* * *
16274714 TCAAGGAAGTAAGA-CTCACTGTTGTAGCTTCAATCTGTTCCACTGCAATGCCAAGG-AAGTAAG
1 ---GGGAAGTAAGATC-CGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCC-AGGAAAGTAAG
16274777 ATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCG
61 ATCCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCG
* * *
16274817 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCG
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGAAAGTAAGATCCA
16274882 CTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCG
66 CTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCG
* * * * *
16274917 GGAAAGCAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGC-ACTGCTAAGAAAGTAAGATCC
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAC-GCCAGGAAAGTAAGATCC
*
16274981 GCTGTTGTAGCTTCAATCTTTTTAACTTGCAA
65 ACTGTTGTAGCTTCAATCTTTTTAAC-TGCAA
16275013 CCTCAGGGGT
Statistics
Matches: 264, Mismatches: 25, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
99 4 0.02
100 169 0.64
101 6 0.02
103 3 0.01
104 1 0.00
107 74 0.28
108 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (100 bp):
GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGAAAGTAAGATCCA
CTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCG
Found at i:16276059 original size:41 final size:41
Alignment explanation
Indices: 16276001--16276232 Score: 367
Period size: 41 Copynumber: 5.7 Consensus size: 41
16275991 TTTTGGGGCA
*
16276001 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAAGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
*
16276042 TTAGCGGCGTTTGTGAAAAAGCGCCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* *
16276083 TTAGCGGTGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* *
16276124 TTAGCGGCGTTTTTGAAAAAGCGCCGCTATTGCTCATGCTT
1 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
* *
16276165 TTAGCAGCGTTTTT-AAAGAAGCGCCGCTAATGCTCTGGCTT
1 TTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCAGGCTT
*
16276206 TTAGCGGCGTTTTTGAAAATGCGCCGC
1 TTAGCGGCGTTTTTGAAAAAGCGCCGC
16276233 AAAAAACATT
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 3 0.02
41 168 0.97
42 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCTT
Found at i:16276589 original size:146 final size:146
Alignment explanation
Indices: 16276325--16276786 Score: 915
Period size: 146 Copynumber: 3.2 Consensus size: 146
16276315 GACTGATTGA
16276325 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
1 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
16276390 AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
66 AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
16276455 TTAAATTAATTAGTAT
131 TTAAATTAATTAGTAT
16276471 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
1 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
16276536 AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
66 AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
16276601 TTAAATTAATTAGTAT
131 TTAAATTAATTAGTAT
16276617 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
1 TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
16276682 AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
66 AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
16276747 TTAAATTAATTAGTAT
131 TTAAATTAATTAGTAT
*
16276763 TTTTTAATTTATATATTAATTAAG
1 TTTTTAATTTATATATTAAATAAG
16276787 TTCTTATATA
Statistics
Matches: 315, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 315 1.00
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.41
Consensus pattern (146 bp):
TTTTTAATTTATATATTAAATAAGGTTTAGGGGTTAGTAGTTAGGGGTTAGGGATTTGGGGTTAA
AGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGGTTTAAGGT
TTAAATTAATTAGTAT
Found at i:16276877 original size:7 final size:7
Alignment explanation
Indices: 16276807--16276891 Score: 73
Period size: 7 Copynumber: 12.1 Consensus size: 7
16276797 ATTGTAAAAG
16276807 AGGGGTT
1 AGGGGTT
*
16276814 AAGGGTT
1 AGGGGTT
*
16276821 AGGGGAT
1 AGGGGTT
*
16276828 AGGGGAT
1 AGGGGTT
**
16276835 AGTAGTT
1 AGGGGTT
16276842 AGGGGTT
1 AGGGGTT
*
16276849 TGGGGTTT
1 AGGGG-TT
16276857 A-GGGTT
1 AGGGGTT
*
16276863 TGGGGTT
1 AGGGGTT
16276870 AGGGGTT
1 AGGGGTT
*
16276877 AGAGGTT
1 AGGGGTT
*
16276884 AGAGGTT
1 AGGGGTT
16276891 A
1 A
16276892 AGAGTTAGTG
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
6 2 0.03
7 59 0.94
8 2 0.03
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (7 bp):
AGGGGTT
Found at i:16277073 original size:7 final size:7
Alignment explanation
Indices: 16277003--16277087 Score: 73
Period size: 7 Copynumber: 12.1 Consensus size: 7
16276993 ATTGTAAAAG
16277003 AGGGGTT
1 AGGGGTT
*
16277010 AAGGGTT
1 AGGGGTT
*
16277017 AGGGGAT
1 AGGGGTT
*
16277024 AGGGGAT
1 AGGGGTT
**
16277031 AGTAGTT
1 AGGGGTT
16277038 AGGGGTT
1 AGGGGTT
*
16277045 TGGGGTTT
1 AGGGG-TT
16277053 A-GGGTT
1 AGGGGTT
*
16277059 TGGGGTT
1 AGGGGTT
16277066 AGGGGTT
1 AGGGGTT
*
16277073 AGAGGTT
1 AGGGGTT
*
16277080 AGAGGTT
1 AGGGGTT
16277087 A
1 A
16277088 AGAGTTAGTG
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
6 2 0.03
7 59 0.94
8 2 0.03
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (7 bp):
AGGGGTT
Found at i:16277255 original size:196 final size:196
Alignment explanation
Indices: 16276674--16277224 Score: 1030
Period size: 196 Copynumber: 2.8 Consensus size: 196
16276664 TTAGGGATTT
* * * *
16276674 GGGGTTAAAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAAAGATTCGGGGTCAGGTTAGGG
1 GGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGGGTAAGGG
16276739 TTTAAGGTTTAAATTAATTAGTATTTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAA
66 TTTAAGGTTTAAATTAATTAGTA-TTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAA
16276804 AAGAGGGGTTAAGGGTTAGGGGATAGGGGATAGTAGTTAGGGGTTTGGGGTTTAGGGTTTGGGGT
130 AAGAGGGGTTAAGGGTTAGGGGATAGGGGATAGTAGTTAGGGGTTTGGGGTTTAGGGTTTGGGGT
16276869 TA
195 TA
16276871 GGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGGGTAAGGG
1 GGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGGGTAAGGG
16276936 TTTAAGGTTTAAATTAATTAGTATTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAAA
66 TTTAAGGTTTAAATTAATTAGTATTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAAA
16277001 AGAGGGGTTAAGGGTTAGGGGATAGGGGATAGTAGTTAGGGGTTTGGGGTTTAGGGTTTGGGGTT
131 AGAGGGGTTAAGGGTTAGGGGATAGGGGATAGTAGTTAGGGGTTTGGGGTTTAGGGTTTGGGGTT
16277066 A
196 A
16277067 GGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGGGTAAGGG
1 GGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGGGTAAGGG
16277132 TTTAAGGTTTAAATTAATTAGTATTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAAA
66 TTTAAGGTTTAAATTAATTAGTATTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAAA
* * *
16277197 AGAGGGGTTAGGGGATAAGGGATAGGGG
131 AGAGGGGTTAAGGGTTAGGGGATAGGGG
16277225 TTTAGGGTTT
Statistics
Matches: 347, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
196 263 0.76
197 84 0.24
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.37
Consensus pattern (196 bp):
GGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAAGGTTTAGAGATTCGGGGTCGGGTAAGGG
TTTAAGGTTTAAATTAATTAGTATTTTTAATTTATATATTAATTAAGTTCTTATATAATTGTAAA
AGAGGGGTTAAGGGTTAGGGGATAGGGGATAGTAGTTAGGGGTTTGGGGTTTAGGGTTTGGGGTT
A
Found at i:16278591 original size:38 final size:38
Alignment explanation
Indices: 16278511--16278592 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
16278501 GGTTACAAAC
* * * *
16278511 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
*
16278549 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
16278587 TTTATC
1 TTTATC
16278593 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
Found at i:16283962 original size:43 final size:43
Alignment explanation
Indices: 16283896--16284058 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
16283886 NNNNNNNNNT
*
16283896 AGAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
* *
16283939 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTATGAC
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
* *
16283982 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCATTTGTGAC
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
* * **
16284025 AAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGC
1 AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGC
16284059 ATTTCTTCAC
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (43 bp):
AGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAC
Found at i:16290330 original size:37 final size:37
Alignment explanation
Indices: 16290280--16290354 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
16290270 AACCAGCCTT
16290280 TTGTAGGCTGTGCAATTCTCTATTGAATACCCCGTAA
1 TTGTAGGCTGTGCAATTCTCTATTGAATACCCCGTAA
16290317 TTGTAGGCTGTGCAATTCTCTATTGAATACCCCGTAA
1 TTGTAGGCTGTGCAATTCTCTATTGAATACCCCGTAA
16290354 T
1 T
16290355 CCCCGCATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (37 bp):
TTGTAGGCTGTGCAATTCTCTATTGAATACCCCGTAA
Found at i:16292108 original size:29 final size:27
Alignment explanation
Indices: 16292075--16292129 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
16292065 GTGATTAAAT
16292075 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
16292104 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
16292130 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:16299486 original size:25 final size:25
Alignment explanation
Indices: 16299457--16299520 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
16299447 CTCATACGGG
*
16299457 CCAATATTGGGAAGGTTCAAGCGAA
1 CCAATATCGGGAAGGTTCAAGCGAA
* *
16299482 CCAATATCGAGAAGGTTCAAGCGAG
1 CCAATATCGGGAAGGTTCAAGCGAA
16299507 CCAATATCGGGAAG
1 CCAATATCGGGAAG
16299521 CTCCGGAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (25 bp):
CCAATATCGGGAAGGTTCAAGCGAA
Found at i:16299572 original size:27 final size:25
Alignment explanation
Indices: 16299516--16299586 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 25
16299506 GCCAATATCG
* * * *
16299516 GGAAGCTCCGGAGAGCCAATTAATTG
1 GGAAGCTCTGAAGAGCC-AGTAATTA
16299542 GGAAGCTCATGAAAGAGCCAGTAATTA
1 GGAAGCTC-TG-AAGAGCCAGTAATTA
16299569 GGAAGCTCTGAAGAGCCA
1 GGAAGCTCTGAAGAGCCA
16299587 TATATCGGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 8 0.21
26 10 0.26
27 15 0.38
28 6 0.15
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (25 bp):
GGAAGCTCTGAAGAGCCAGTAATTA
Found at i:16299755 original size:24 final size:25
Alignment explanation
Indices: 16299693--16299755 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
16299683 CAAGAACCAT
*
16299693 ATAATGGGAAGCTCATGAGAGCCAA
1 ATAACGGGAAGCTCATGAGAGCCAA
* * * *
16299718 ATATCAGGATGCTCATGAGAG-CTA
1 ATAACGGGAAGCTCATGAGAGCCAA
*
16299742 ATAACGGGACGCTC
1 ATAACGGGAAGCTC
16299756 TTTCGAGCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGAGAGCCAA
Found at i:16319913 original size:22 final size:23
Alignment explanation
Indices: 16319864--16319914 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
16319854 TTTATCGATG
* * *
16319864 ATAAATTTGAGACAAATATATTA
1 ATAAATTTAAAACAAATACATTA
16319887 A-AAATTTAAAACAAAT-CATTA
1 ATAAATTTAAAACAAATACATTA
16319908 ATAAATT
1 ATAAATT
16319915 AATGAATAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.21
22 18 0.75
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (23 bp):
ATAAATTTAAAACAAATACATTA
Found at i:16320559 original size:53 final size:51
Alignment explanation
Indices: 16320477--16320576 Score: 137
Period size: 53 Copynumber: 1.9 Consensus size: 51
16320467 TATGAAACTT
*
16320477 CCCCATTTCCTCAAAATCCAATCCATTTTCGCACTTTGTTCCAATCTTTATAA
1 CCCCATTTCCTCAAAATCCAATCCATTTTC-CACTATGTT-CAATCTTTATAA
* ** *
16320530 CCCCATTTCCTCAAAATCCCATCTTTTTTCCCCTATGTTCAATCTTT
1 CCCCATTTCCTCAAAATCCAATCCATTTTCCACTATGTTCAATCTTT
16320577 GAAATCTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 8 0.19
52 7 0.17
53 27 0.64
ACGTcount: A:0.23, C:0.34, G:0.03, T:0.40
Consensus pattern (51 bp):
CCCCATTTCCTCAAAATCCAATCCATTTTCCACTATGTTCAATCTTTATAA
Found at i:16321924 original size:41 final size:42
Alignment explanation
Indices: 16321866--16321954 Score: 171
Period size: 41 Copynumber: 2.1 Consensus size: 42
16321856 ATATGTATAT
16321866 TACTTTGATACATATTTTGGACATGACTGGTGTCAGACCATG
1 TACTTTGATACATATTTTGGACATGACTGGTGTCAGACCATG
16321908 -ACTTTGATACATATTTTGGACATGACTGGTGTCAGACCATG
1 TACTTTGATACATATTTTGGACATGACTGGTGTCAGACCATG
16321949 TACTTT
1 TACTTT
16321955 CTTTTCTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 41 0.89
42 5 0.11
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (42 bp):
TACTTTGATACATATTTTGGACATGACTGGTGTCAGACCATG
Found at i:16334374 original size:48 final size:48
Alignment explanation
Indices: 16334277--16334374 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 48
16334267 TTTTATTTTA
* * *
16334277 GGGATAATGTAAATTTTGGCCTCTTAACTTATCATGTAGATCCATATT
1 GGGATAATGTAAATTTTGGCCTCTTAACTTAGCAAGTAGATCCACATT
* * *
16334325 GGGATAATGTAACTTTTGGCC-CTTAAACTTGGCAAGTAGATCGACATT
1 GGGATAATGTAAATTTTGGCCTCTT-AACTTAGCAAGTAGATCCACATT
16334373 GG
1 GG
16334375 CCTTTAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 3 0.07
48 40 0.93
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (48 bp):
GGGATAATGTAAATTTTGGCCTCTTAACTTAGCAAGTAGATCCACATT
Found at i:16335300 original size:22 final size:22
Alignment explanation
Indices: 16335266--16335308 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16335256 TAACTGAAAA
16335266 TTAACACCACCCCCCCCCCCAC
1 TTAACACCACCCCCCCCCCCAC
* *
16335288 TTAACCCCCCCCCCCCCCCCA
1 TTAACACCACCCCCCCCCCCA
16335309 ACAAAACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.72, G:0.00, T:0.09
Consensus pattern (22 bp):
TTAACACCACCCCCCCCCCCAC
Found at i:16344961 original size:48 final size:48
Alignment explanation
Indices: 16344898--16345015 Score: 182
Period size: 48 Copynumber: 2.5 Consensus size: 48
16344888 ACACATAAGT
* * *
16344898 TTGTGGACAAGCCACCACATAAATACTGATGAACGGTCACATAACACA
1 TTGTGGATAAACCACCACATAAATACCGATGAACGGTCACATAACACA
* *
16344946 TTGTGGATAAACCACCACATAGATACCGATGAACGGTCACATAGCACA
1 TTGTGGATAAACCACCACATAAATACCGATGAACGGTCACATAACACA
*
16344994 TCGTGGATAAACCACCACATAA
1 TTGTGGATAAACCACCACATAA
16345016 TTGCCGATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (48 bp):
TTGTGGATAAACCACCACATAAATACCGATGAACGGTCACATAACACA
Found at i:16350421 original size:68 final size:68
Alignment explanation
Indices: 16350109--16350422 Score: 317
Period size: 68 Copynumber: 4.6 Consensus size: 68
16350099 AGATGTTTAA
* * * * ** * *
16350109 TGTGTAAGATCATAGCTGGGTTAGGGTAGCATATGAAGTCTATCAAAACAGTAAACATGATATTA
1 TGTGTAAGACCATAGCTGGGCTATGGCAGCATATGAAGTCTGCCAAGACAGTAAACATGAGATTA
*
16350174 CAT
66 TAT
* ** **
16350177 TGTGTAAGACCGTAGCTGGATTATGGCAGCATATGAAGTCCACCAAGACAGT-AACATGAGATTA
1 TGTGTAAGACCATAGCTGGGCTATGGCAGCATATGAAGTCTGCCAAGACAGTAAACATGAGATTA
16350241 TAT
66 TAT
** * ** * * * *
16350244 TGCATAAGACTATATTTGGGATATGGCATCATAAGAAGTCTGCCAGGACAGTAAACATG-GAATT
1 TGTGTAAGACCATAGCTGGGCTATGGCAGCATATGAAGTCTGCCAAGACAGTAAACATGAG-ATT
16350308 ATAT
65 ATAT
* * * * * * *
16350312 TGCGTAAGATCATGGTTGGGCTATGGCAACATATGAAGTCTGCCATGATAGTAAACATGAGATTA
1 TGTGTAAGACCATAGCTGGGCTATGGCAGCATATGAAGTCTGCCAAGACAGTAAACATGAGATTA
16350377 TAT
66 TAT
* *
16350380 TGTGTAAGACCATAGCTGGGCTATGGTAGTATATGAAGTCTGC
1 TGTGTAAGACCATAGCTGGGCTATGGCAGCATATGAAGTCTGC
16350423 TAGGACAAAG
Statistics
Matches: 203, Mismatches: 40, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
67 53 0.26
68 149 0.73
69 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (68 bp):
TGTGTAAGACCATAGCTGGGCTATGGCAGCATATGAAGTCTGCCAAGACAGTAAACATGAGATTA
TAT
Found at i:16366832 original size:16 final size:17
Alignment explanation
Indices: 16366811--16366847 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
16366801 GAAATAGCAG
*
16366811 AAATAAAAATTTAAA-T
1 AAATAAAAAATTAAATT
16366827 AAATAAAAAATTAAATT
1 AAATAAAAAATTAAATT
16366844 AAAT
1 AAAT
16366848 TGGAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAAAAAATTAAATT
Found at i:16368468 original size:7 final size:7
Alignment explanation
Indices: 16368458--16368494 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
16368448 TTTTAAAATG
16368458 CATTTCC
1 CATTTCC
16368465 CATTTCTC
1 CATTTC-C
16368473 CATTTCC
1 CATTTCC
16368480 CATTTCC
1 CATTTCC
16368487 CATTTCC
1 CATTTCC
16368494 C
1 C
16368495 CAAGTCCGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
CATTTCC
Found at i:16368496 original size:15 final size:14
Alignment explanation
Indices: 16368458--16368494 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
16368448 TTTTAAAATG
16368458 CATTTCCCATTTCTC
1 CATTTCCCATTTC-C
16368473 CATTTCCCATTTCC
1 CATTTCCCATTTCC
16368487 CATTTCCC
1 CATTTCCC
16368495 CAAGTCCGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (14 bp):
CATTTCCCATTTCC
Found at i:16369176 original size:3 final size:3
Alignment explanation
Indices: 16369159--16369199 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
16369149 AGGAAAGAGG
* * *
16369159 AGA AGA ATA ACA AGA AGA AGA AGA AGG AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
16369200 CAAAGGAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.02, G:0.32, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:16385083 original size:31 final size:31
Alignment explanation
Indices: 16385048--16385115 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
16385038 CGATGTTACA
*
16385048 TAGTTAGATCACAACATGCAAAGACAGTTTG
1 TAGTTAGATCACAACATGCAAAGACAATTTG
16385079 TAGTTAGATCACAACATGCAAAGACAATTTG
1 TAGTTAGATCACAACATGCAAAGACAATTTG
16385110 TA-TTAG
1 TAGTTAG
16385116 TAGATAAACC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (31 bp):
TAGTTAGATCACAACATGCAAAGACAATTTG
Found at i:16386390 original size:20 final size:21
Alignment explanation
Indices: 16386355--16386393 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16386345 TGAAGTAAGT
16386355 TTGAAATGGAAAAGTATTGGA
1 TTGAAATGGAAAAGTATTGGA
*
16386376 TTGAAAT-GTAAAGTATTG
1 TTGAAATGGAAAAGTATTG
16386394 CATGGTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (21 bp):
TTGAAATGGAAAAGTATTGGA
Found at i:16394597 original size:63 final size:63
Alignment explanation
Indices: 16394498--16394623 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
16394488 TGCTGTTTTC
16394498 AACTTCTTTTTAGCACTGACTAGTCCTTTTAAATTTTATAGCACCGCTTATGAGTTTAAAGAA
1 AACTTCTTTTTAGCACTGACTAGTCCTTTTAAATTTTATAGCACCGCTTATGAGTTTAAAGAA
16394561 AACTTCTTTTTAGCACTGACTAGTCCTTTTAAATTTTATAGCACCGCTTATGAGTTTAAAGAA
1 AACTTCTTTTTAGCACTGACTAGTCCTTTTAAATTTTATAGCACCGCTTATGAGTTTAAAGAA
16394624 TGGTAAGCAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (63 bp):
AACTTCTTTTTAGCACTGACTAGTCCTTTTAAATTTTATAGCACCGCTTATGAGTTTAAAGAA
Found at i:16394782 original size:2 final size:2
Alignment explanation
Indices: 16394775--16394805 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16394765 GAATTAAACA
16394775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16394806 AAAATCTAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16404872 original size:17 final size:17
Alignment explanation
Indices: 16404838--16404879 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16404828 ACAAACTAAT
* **
16404838 TATTTTATCATTTTATA
1 TATTTTATAATTCAATA
16404855 TATTTTATAATTCAATA
1 TATTTTATAATTCAATA
16404872 T-TTTTATA
1 TATTTTATA
16404880 TGATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTATAATTCAATA
Found at i:16405359 original size:234 final size:236
Alignment explanation
Indices: 16404931--16405409 Score: 926
Period size: 234 Copynumber: 2.0 Consensus size: 236
16404921 AAAAAATATA
* *
16404931 AAATTTAACTTTTTATATTTAAAAAATATTTTTTTCTCAATTTAAATATTTTAATTAAATTATTA
1 AAATATAATTTTTTATATTTAAAAAATATTTTTTTCTCAATTTAAATATTTTAATTAAATTATTA
16404996 ACATTCTTTTTTTTTTTAAATTTATCAACTATATTTTTGCTCAATCTTATATAGCATCATATTAG
66 ACATTCTTTTTTTTTTTAAATTTATCAACTATATTTTTGCTCAATCTTATATAGCATCATATTAG
16405061 CCAACTTAATAAGTTCTCAGTTTTTTGTATTTTCATAAATAAAAAAAACGTGTATCAACTAAAAA
131 CCAACTTAATAAGTTCTCAGTTTTTTGTATTTTCATAAATAAAAAAAACGTGTATCAACTAAAAA
16405126 TTCAAATAAAAAATTTGAAAGGATTTAACTTTTGAAGTGTT
196 TTCAAATAAAAAATTTGAAAGGATTTAACTTTTGAAGTGTT
16405167 AAATATAATTTTTTATA-TT-AAAAATATTTTTTTCTCAATTTAAATATTTTAATTAAATTATTA
1 AAATATAATTTTTTATATTTAAAAAATATTTTTTTCTCAATTTAAATATTTTAATTAAATTATTA
16405230 ACATTCTTTTTTTTTTTAAATTTATCAACTATATTTTTGCTCAATCTTATATAGCATCATATTAG
66 ACATTCTTTTTTTTTTTAAATTTATCAACTATATTTTTGCTCAATCTTATATAGCATCATATTAG
16405295 CCAACTTAATAAGTTCTCAGTTTTTTGTATTTTCATAAATAAAAAAAACGTGTATCAACTAAAAA
131 CCAACTTAATAAGTTCTCAGTTTTTTGTATTTTCATAAATAAAAAAAACGTGTATCAACTAAAAA
16405360 TTCAAATAAAAAATTTGAAAGGATTTAACTTTTGAAGTGTT
196 TTCAAATAAAAAATTTGAAAGGATTTAACTTTTGAAGTGTT
16405401 AAATATAAT
1 AAATATAAT
16405410 AACTAAACAT
Statistics
Matches: 241, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
234 224 0.93
235 2 0.01
236 15 0.06
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (236 bp):
AAATATAATTTTTTATATTTAAAAAATATTTTTTTCTCAATTTAAATATTTTAATTAAATTATTA
ACATTCTTTTTTTTTTTAAATTTATCAACTATATTTTTGCTCAATCTTATATAGCATCATATTAG
CCAACTTAATAAGTTCTCAGTTTTTTGTATTTTCATAAATAAAAAAAACGTGTATCAACTAAAAA
TTCAAATAAAAAATTTGAAAGGATTTAACTTTTGAAGTGTT
Found at i:16408766 original size:46 final size:46
Alignment explanation
Indices: 16408715--16408897 Score: 154
Period size: 46 Copynumber: 4.2 Consensus size: 46
16408705 TCGAATACGT
* *
16408715 CACAAAGGCCAATCAAAATACACCACAAAGGCTAATCATAATACAC
1 CACAAAGGCTAATCAAAATACACCACAAAGGCTAATCAGAATACAC
* **
16408761 TACAAAGG-----C----TA-A-CACAAAGGCTAATCAGAATATGC
1 CACAAAGGCTAATCAAAATACACCACAAAGGCTAATCAGAATACAC
* * * *
16408796 CACAAAGACTAATTAAAATACGCCACAAAGGCTAATCAGAATACGC
1 CACAAAGGCTAATCAAAATACACCACAAAGGCTAATCAGAATACAC
* * * * *
16408842 CAGAAAGGCTAATCAGAATACGCCACAAAGTCTAATCATAATACAC
1 CACAAAGGCTAATCAAAATACACCACAAAGGCTAATCAGAATACAC
*
16408888 CATAAAGGCT
1 CACAAAGGCT
16408898 CTATTTGGAT
Statistics
Matches: 109, Mismatches: 17, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
35 26 0.24
36 1 0.01
37 2 0.02
41 1 0.01
44 2 0.02
46 77 0.71
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (46 bp):
CACAAAGGCTAATCAAAATACACCACAAAGGCTAATCAGAATACAC
Found at i:16408770 original size:23 final size:23
Alignment explanation
Indices: 16408715--16408772 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
16408705 TCGAATACGT
*
16408715 CACAAAGGCCAATCAAAATACAC
1 CACAAAGGCTAATCAAAATACAC
*
16408738 CACAAAGGCTAATCATAATACAC
1 CACAAAGGCTAATCAAAATACAC
*
16408761 TACAAAGGCTAA
1 CACAAAGGCTAA
16408773 CACAAAGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.50, C:0.26, G:0.10, T:0.14
Consensus pattern (23 bp):
CACAAAGGCTAATCAAAATACAC
Found at i:16408787 original size:58 final size:58
Alignment explanation
Indices: 16408715--16408830 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
16408705 TCGAATACGT
* * *
16408715 CACAAAGGCCAATCAAAATACACCACAAAGGCTAATCATAATACACTACAAAGGCTAA
1 CACAAAGGCCAATCAAAATACACCACAAAGACTAATCAAAATACACCACAAAGGCTAA
* * ** * *
16408773 CACAAAGGCTAATCAGAATATGCCACAAAGACTAATTAAAATACGCCACAAAGGCTAA
1 CACAAAGGCCAATCAAAATACACCACAAAGACTAATCAAAATACACCACAAAGGCTAA
16408831 TCAGAATACG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.49, C:0.24, G:0.12, T:0.15
Consensus pattern (58 bp):
CACAAAGGCCAATCAAAATACACCACAAAGACTAATCAAAATACACCACAAAGGCTAA
Found at i:16408801 original size:35 final size:35
Alignment explanation
Indices: 16408738--16408807 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
16408728 CAAAATACAC
* * *
16408738 CACAAAGGCTAATCATAATACACTACAAAGGCTAA
1 CACAAAGGCTAATCAGAATACACCACAAAGACTAA
**
16408773 CACAAAGGCTAATCAGAATATGCCACAAAGACTAA
1 CACAAAGGCTAATCAGAATACACCACAAAGACTAA
16408808 TTAAAATACG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.16
Consensus pattern (35 bp):
CACAAAGGCTAATCAGAATACACCACAAAGACTAA
Found at i:16408807 original size:23 final size:23
Alignment explanation
Indices: 16408773--16408897 Score: 169
Period size: 23 Copynumber: 5.4 Consensus size: 23
16408763 CAAAGGCTAA
*
16408773 CACAAAGGCTAATCAGAATATGC
1 CACAAAGGCTAATCAGAATACGC
* * *
16408796 CACAAAGACTAATTAAAATACGC
1 CACAAAGGCTAATCAGAATACGC
16408819 CACAAAGGCTAATCAGAATACGC
1 CACAAAGGCTAATCAGAATACGC
*
16408842 CAGAAAGGCTAATCAGAATACGC
1 CACAAAGGCTAATCAGAATACGC
* * *
16408865 CACAAAGTCTAATCATAATACAC
1 CACAAAGGCTAATCAGAATACGC
*
16408888 CATAAAGGCT
1 CACAAAGGCT
16408898 CTATTTGGAT
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 88 1.00
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.17
Consensus pattern (23 bp):
CACAAAGGCTAATCAGAATACGC
Done.