Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 21 of 100
Found at i:6157044 original size:15 final size:15
Alignment explanation
Indices: 6157026--6157089 Score: 89
Period size: 14 Copynumber: 4.5 Consensus size: 15
6157016 TAGGATTTTT
6157026 GATTTTAGAGGTTTG
1 GATTTTAGAGGTTTG
*
6157041 GATTTAAG-GGTTTG
1 GATTTTAGAGGTTTG
*
6157055 GATTTTAGAGTTTTG
1 GATTTTAGAGGTTTG
6157070 GATTTTA-AGGTTTG
1 GATTTTAGAGGTTTG
6157084 G-TTTTA
1 GATTTTA
6157090 ATTTTAGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
13 5 0.11
14 20 0.45
15 19 0.43
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (15 bp):
GATTTTAGAGGTTTG
Found at i:6157046 original size:14 final size:14
Alignment explanation
Indices: 6157026--6157104 Score: 83
Period size: 14 Copynumber: 5.6 Consensus size: 14
6157016 TAGGATTTTT
6157026 GATTTTAGAGGTTTG
1 GATTTTA-AGGTTTG
6157041 GA-TTTAAGGGTTTG
1 GATTTTAA-GGTTTG
*
6157055 GATTTTAGAGTTTTG
1 GATTTTA-AGGTTTG
6157070 GATTTTAAGGTTTG
1 GATTTTAAGGTTTG
*
6157084 G-TTTTAA-TTTTAG
1 GATTTTAAGGTTT-G
6157097 GATTTTAA
1 GATTTTAA
6157105 AACATGAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
12 3 0.05
13 9 0.16
14 25 0.45
15 18 0.32
16 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
GATTTTAAGGTTTG
Found at i:6157046 original size:29 final size:29
Alignment explanation
Indices: 6157026--6157089 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
6157016 TAGGATTTTT
6157026 GATTTTAGAGGTTTGGATTTAAGGGTTTG
1 GATTTTAGAGGTTTGGATTTAAGGGTTTG
*
6157055 GATTTTAGAGTTTTGGATTTTAA-GGTTTG
1 GATTTTAGAGGTTTGGA-TTTAAGGGTTTG
6157084 G-TTTTA
1 GATTTTA
6157090 ATTTTAGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 5 0.15
29 23 0.70
30 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (29 bp):
GATTTTAGAGGTTTGGATTTAAGGGTTTG
Found at i:6158192 original size:13 final size:13
Alignment explanation
Indices: 6158153--6158193 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6158143 GAGGATTGTG
* *
6158153 TTGTTTTTTTCTC
1 TTGTTTTTTTTTT
*
6158166 TTGTTTTTTGTTT
1 TTGTTTTTTTTTT
6158179 TTGTTTTTTTTTT
1 TTGTTTTTTTTTT
6158192 TT
1 TT
6158194 TGGTTTTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (13 bp):
TTGTTTTTTTTTT
Found at i:6158828 original size:37 final size:37
Alignment explanation
Indices: 6158746--6158833 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
6158736 CAGGACGACG
6158746 TCGTAAGTCGAGAAGTAAGAAAATGACCGGGACAACA
1 TCGTAAGTCGAGAAGTAAGAAAATGACCGGGACAACA
* ** * * **
6158783 CCACAAGTCAAGAAGTAA-ATAATCGATTGGGACAACA
1 TCGTAAGTCGAGAAGTAAGAAAAT-GACCGGGACAACA
6158820 TCGTAAGTCGAGAA
1 TCGTAAGTCGAGAA
6158834 ATTATGCCTC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
36 4 0.10
37 35 0.90
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (37 bp):
TCGTAAGTCGAGAAGTAAGAAAATGACCGGGACAACA
Found at i:6158856 original size:22 final size:22
Alignment explanation
Indices: 6158830--6158885 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6158820 TCGTAAGTCG
*
6158830 AGAAATTATGCCTCGAA-GTCTT
1 AGAAATCATG-CTCGAAGGTCTT
*
6158852 AGAAATCATGTTCGAAGGTCTT
1 AGAAATCATGCTCGAAGGTCTT
6158874 ACAGAAATCATG
1 --AGAAATCATG
6158886 TCCAGAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 14 0.48
24 10 0.34
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (22 bp):
AGAAATCATGCTCGAAGGTCTT
Found at i:6158866 original size:21 final size:23
Alignment explanation
Indices: 6158842--6158886 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
6158832 AAATTATGCC
6158842 TCGAA-GTCTT-AGAAATCATGT
1 TCGAAGGTCTTAAGAAATCATGT
6158863 TCGAAGGTCTTACAGAAATCATGT
1 TCGAAGGTCTTA-AGAAATCATGT
6158887 CCAGAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
24 11 0.52
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (23 bp):
TCGAAGGTCTTAAGAAATCATGT
Found at i:6158894 original size:24 final size:24
Alignment explanation
Indices: 6158852--6158902 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
6158842 TCGAAGTCTT
*
6158852 AGAAATCATGTTCGAAGGTCTTAC
1 AGAAATCATGTCCGAAGGTCTTAC
*
6158876 AGAAATCATGTCC-AGAGGTTTTAC
1 AGAAATCATGTCCGA-AGGTCTTAC
6158900 AGA
1 AGA
6158903 TTCGATTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (24 bp):
AGAAATCATGTCCGAAGGTCTTAC
Found at i:6159211 original size:16 final size:16
Alignment explanation
Indices: 6159187--6159219 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6159177 TGAATCAAAA
*
6159187 TCATGCCCGGAGGTCT
1 TCATACCCGGAGGTCT
6159203 TCATACCCGGAGGTCT
1 TCATACCCGGAGGTCT
6159219 T
1 T
6159220 ATAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.27, T:0.27
Consensus pattern (16 bp):
TCATACCCGGAGGTCT
Found at i:6159320 original size:236 final size:236
Alignment explanation
Indices: 6158988--6159439 Score: 568
Period size: 236 Copynumber: 1.9 Consensus size: 236
6158978 GAAGTATGAG
* * *
6158988 AAATCATGCCCGGAGGTCTTACAAAATTGATTGAGATAACACCGTAAGACAAGAATAATGAATCA
1 AAATCATACCCGGAGGTCTTACAAAATCGATAGAGATAACACCGTAAGACAAGAATAATGAATCA
* ** *
6159053 ATCAGGATAATATCGTAAATCAAAATTATG-CCGAAAGGTCTTAAAAATTATGC-CTGGAGGTCT
66 ATCAGGATAACATCACAAATCAAAATTATGCCCG-AAGGTCTTAAAAATCATGCTC-GGAGGTCT
* * * * * * * *
6159116 TACAGAATTGACTGAGATAACACCACAAGTTGAAATTAAAGAATTGATTGGGATAACACCATGAA
129 TACAGAATCGACTGAGACAACACCACAAGTTAAAATTAAAAAATCGATCGAGATAACACCACGAA
6159181 TCAAAATCATGCCCGGAGGTCTTCATACCCGGAGGTCTTATAA
194 TCAAAATCATGCCCGGAGGTCTTCATACCCGGAGGTCTTATAA
* * * * *
6159224 AAATCATACCCGTAGGTCTTACAGAATCGACTAG-GATAACATCGTAAGTCGAGAATAATGAATC
1 AAATCATACCCGGAGGTCTTACAAAATCGA-TAGAGATAACACCGTAAGACAAGAATAATGAATC
* ** * * * * *
6159288 GATTGGGATAACATCACGAATTAAAATTATGCCCGGAGTTCTTAAAAATCATGTTCGGAGGTCTT
65 AATCAGGATAACATCACAAATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCTCGGAGGTCTT
* *
6159353 ACAGAATCGACTGAGACAACACTACAAGTTAAAATTAAAAAATCGATCGAGATAACACCGCGAAT
130 ACAGAATCGACTGAGACAACACCACAAGTTAAAATTAAAAAATCGATCGAGATAACACCACGAAT
* *
6159418 CTAAATCATGCTCGGAGGTCTT
195 CAAAATCATGCCCGGAGGTCTT
6159440 AAAAAATCTA
Statistics
Matches: 181, Mismatches: 32, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
236 175 0.97
237 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (236 bp):
AAATCATACCCGGAGGTCTTACAAAATCGATAGAGATAACACCGTAAGACAAGAATAATGAATCA
ATCAGGATAACATCACAAATCAAAATTATGCCCGAAGGTCTTAAAAATCATGCTCGGAGGTCTTA
CAGAATCGACTGAGACAACACCACAAGTTAAAATTAAAAAATCGATCGAGATAACACCACGAATC
AAAATCATGCCCGGAGGTCTTCATACCCGGAGGTCTTATAA
Found at i:6159479 original size:87 final size:87
Alignment explanation
Indices: 6159332--6159527 Score: 259
Period size: 87 Copynumber: 2.3 Consensus size: 87
6159322 GGAGTTCTTA
* * * * *
6159332 AAAATCATGTTCGGAGGTCTTACAGAATCGACTGAGACAACACTACAAGTTAAAATTAAAAAATC
1 AAAATCATGCTCGGAGGTCTTAAAAAATCGACTGAGACAACACCACAAGTCAAAATTAAAAAATC
*
6159397 GATCGAGATAACACCGCGAATC
66 GATCGAAATAACACCGCGAATC
* *
6159419 TAAATCATGCTCGGAGGTCTTAAAAAATCTACT-AGGACAACACCACAAGTCAAAATTAAAAAAT
1 AAAATCATGCTCGGAGGTCTTAAAAAATCGACTGA-GACAACACCACAAGTCAAAATTAAAAAAT
* *
6159483 CGATTGAAATAACATCGCGAATC
65 CGATCGAAATAACACCGCGAATC
* * *
6159506 AAAATTATGCCCGTAGGTCTTA
1 AAAATCATGCTCGGAGGTCTTA
6159528 GAAATCATGT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 1 0.01
87 93 0.99
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.22
Consensus pattern (87 bp):
AAAATCATGCTCGGAGGTCTTAAAAAATCGACTGAGACAACACCACAAGTCAAAATTAAAAAATC
GATCGAAATAACACCGCGAATC
Found at i:6159559 original size:196 final size:197
Alignment explanation
Indices: 6159284--6159644 Score: 512
Period size: 196 Copynumber: 1.8 Consensus size: 197
6159274 GAGAATAATG
** * * *
6159284 AATCGATTGGGATAACATCACGAATTAAAATTATGCCCGGAGTTCTTAAAAATCATGTTCGGAGG
1 AATCGATTGAAATAACATCACGAATCAAAATTATGCCCGGAGGTCTTAAAAATCATGTTCGAAGG
* * *
6159349 TCTTACAGAATCGACTGAGACAACACTACAAGTTAAAATTAAAAAATCGATC-GAGATAACACCG
66 TCTTACAAAATCGACTGAGACAACAATACAAGTCAAAATTAAAAAATCGATCAG-GATAACACCG
* *
6159413 CGAATCTAAATCATGCTCGGAGGTCTTA-AAAAATCTACTAGGACAACACCACAAGTCAAAATTA
130 CGAATCGAAATCATGCCCGGAGGTCTTACAAAAATCTACTAGGACAACACCACAAGTCAAAATTA
6159477 AAA
195 AAA
* * *
6159480 AATCGATTGAAATAACATCGCGAATCAAAATTATGCCCGTAGGTCTTAGAAATCATG-TCTGAAG
1 AATCGATTGAAATAACATCACGAATCAAAATTATGCCCGGAGGTCTTAAAAATCATGTTC-GAAG
* * * * *
6159544 GTCTTACAAAATCGACTGGGACAACAATGCAAGTCAAAATTAAAGAATCGATCAGGATAACGCTG
65 GTCTTACAAAATCGACTGAGACAACAATACAAGTCAAAATTAAAAAATCGATCAGGATAACACCG
*
6159609 TGAATCGAAATCATGCCCGGAGGTCTTACAAAAATC
130 CGAATCGAAATCATGCCCGGAGGTCTTACAAAAATC
6159645 ATGCCCAGAG
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
195 2 0.01
196 133 0.93
197 8 0.06
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (197 bp):
AATCGATTGAAATAACATCACGAATCAAAATTATGCCCGGAGGTCTTAAAAATCATGTTCGAAGG
TCTTACAAAATCGACTGAGACAACAATACAAGTCAAAATTAAAAAATCGATCAGGATAACACCGC
GAATCGAAATCATGCCCGGAGGTCTTACAAAAATCTACTAGGACAACACCACAAGTCAAAATTAA
AA
Found at i:6159614 original size:109 final size:108
Alignment explanation
Indices: 6159420--6159966 Score: 398
Period size: 109 Copynumber: 5.0 Consensus size: 108
6159410 CCGCGAATCT
* * * * * * *
6159420 AAATCATGCTCGGAGGTCTTAAAAAATCTACTAGGACAACACCACAAGTCAAAATTAAAAAATCG
1 AAATCATGC-CGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCG
* ** * * *
6159485 ATTGAAATAACATCGCGAATCAAAATTATGCCCGTAGGTCTTAG
65 ATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAA
* * **
6159529 AAATCATGTCTGAAGGTCTTACAAAATCGACTGGGACAACAATGCAAGTCAAAATTAAAGAATCG
1 AAATCATG-CCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCG
* * * *
6159594 ATCAGGATAAC-GCTGTGAATCGAAATCATGCCCGGAGGTCTTACAA
65 ATCGGGATAACATC-GTGAATCAAAATTATGCCCGGAGGTCTT--AA
* ** * * * ** *
6159640 AAATCATGCCCAGAGGTCTTACAGAATTAACTGAGACAATACCGTAAGTTGAAATTAAAAAAAAT
1 AAATCATGCCGA-AGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAAATT--AAAGAAT
* * **** * *
6159705 CGATCGAGATAACATCGTGAATCGAAATTATTTTTGGAGGTTTTAG
63 CGATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAA
* * * * ** * *
6159751 AAATCATGCCCGGAGGTCTTACAGAATCGACTAGGATAATATTGTAAGTCAAAATTAAAG-ATCA
1 AAATCATG-CCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCG
* * * * * *
6159815 ATCGGGATAATACCGTGAATCAAAATTATACTC-GACAGTTTTAA
65 ATCGGGATAACATCGTGAATCAAAATTATGCCCGGA-GGTCTTAA
* * * ** * *
6159859 AAATCATACCCGAAGATCTTACAGAATTGACTGGGATGACACCACAAGTCGAAATTAAAGAATCG
1 AAATCAT-GCCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCG
** ** *
6159924 ATCGGGATAACATCGTGAATTGAAATTATATCCAGAGGTCTTA
65 ATCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTA
6159967 CATAATTGAC
Statistics
Matches: 340, Mismatches: 85, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
107 2 0.01
108 83 0.24
109 123 0.36
110 5 0.01
111 85 0.25
112 2 0.01
113 39 0.11
114 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (108 bp):
AAATCATGCCGAAGGTCTTACAGAATCGACTGGGACAACACCGCAAGTCAAAATTAAAGAATCGA
TCGGGATAACATCGTGAATCAAAATTATGCCCGGAGGTCTTAA
Found at i:6159643 original size:24 final size:24
Alignment explanation
Indices: 6159616--6159662 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6159606 CTGTGAATCG
*
6159616 AAATCATGCCCGGAGGTCTTACAA
1 AAATCATGCCCAGAGGTCTTACAA
6159640 AAATCATGCCCAGAGGTCTTACA
1 AAATCATGCCCAGAGGTCTTACA
6159663 GAATTAACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (24 bp):
AAATCATGCCCAGAGGTCTTACAA
Found at i:6159798 original size:111 final size:109
Alignment explanation
Indices: 6159638--6159952 Score: 312
Period size: 108 Copynumber: 2.9 Consensus size: 109
6159628 GAGGTCTTAC
* * * *
6159638 AAAAATCATGCCCAGAGGTCTTACAGAATTAACTGAGACAATACCGTAAGTTGAAATTAAAAAAA
1 AAAAATCATGCCCGGAGGTCTTACAGAATTGACTG-GATAATACCGTAAGTCGAAATT--AAAAA
* ** * *
6159703 ATCGATCGAGATAACATCGTGAATCGAAATTATTTTTGGA-GGTTTT
63 ATCGATCGGGATAACATCGTGAATCGAAATTATTACTCGACAGTTTT
* * ** * *
6159749 AGAAATCATGCCCGGAGGTCTTACAGAATCGACTAGGATAATATTGTAAGTCAAAATT-AAAGAT
1 AAAAATCATGCCCGGAGGTCTTACAGAATTGACT-GGATAATACCGTAAGTCGAAATTAAAAAAT
* * * *
6159813 CAATCGGGATAATACCGTGAATCAAAATTA-TACTCGACAGTTTT
65 CGATCGGGATAACATCGTGAATCGAAATTATTACTCGACAGTTTT
* * * * * ** *
6159857 AAAAATCATACCCGAAGATCTTACAGAATTGACTGGGATGACACCACAAGTCGAAATTAAAGAAT
1 AAAAATCATGCCCGGAGGTCTTACAGAATTGACT-GGATAATACCGTAAGTCGAAATTAAAAAAT
*
6159922 CGATCGGGATAACATCGTGAATTGAAATTAT
65 CGATCGGGATAACATCGTGAATCGAAATTAT
6159953 ATCCAGAGGT
Statistics
Matches: 161, Mismatches: 39, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
107 4 0.02
108 80 0.50
109 29 0.18
111 47 0.29
112 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (109 bp):
AAAAATCATGCCCGGAGGTCTTACAGAATTGACTGGATAATACCGTAAGTCGAAATTAAAAAATC
GATCGGGATAACATCGTGAATCGAAATTATTACTCGACAGTTTT
Found at i:6160003 original size:87 final size:87
Alignment explanation
Indices: 6159875--6160039 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 87
6159865 TACCCGAAGA
* * * * * * **
6159875 TCTTACAGAATTGACTGGGATGACACCACAAGTCGAAATTAAAGAATCGATCGGGATAACATCGT
1 TCTTACAGAATTGACTAGAATAACACCACAAGTCAAAATTAAAGAATCGATCGAGATAACACCAC
6159940 GAATTGAAATTATATCCAGAGG
66 GAATTGAAATTATATCCAGAGG
* * * *
6159962 TCTTACATAATTGACTAGAATAATACCATAAGTCAAAATTAAAGAATCGATTGAGATAACACCAC
1 TCTTACAGAATTGACTAGAATAACACCACAAGTCAAAATTAAAGAATCGATCGAGATAACACCAC
6160027 GAATTGAAATTAT
66 GAATTGAAATTAT
6160040 GCCCGGAGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (87 bp):
TCTTACAGAATTGACTAGAATAACACCACAAGTCAAAATTAAAGAATCGATCGAGATAACACCAC
GAATTGAAATTATATCCAGAGG
Found at i:6160102 original size:196 final size:194
Alignment explanation
Indices: 6159750--6160358 Score: 650
Period size: 196 Copynumber: 3.1 Consensus size: 194
6159740 GGAGGTTTTA
* **
6159750 GAAATCATGCCCGGAGGTCTTACAGAATCGACTAGGATAATATTGTAAGTCAAAATTAAAG-ATC
1 GAAATCATG-CCAGAGGTCTTACAGAATCGACTAGGATAATACCGTAAGTCAAAATTAAAGAATC
* * * * * * * * * * * *
6159814 AATCGGGATAATACCGTGAATCAAAATTATACTCGACAGTTTTAAAAATCATACCCGAAGATCTT
65 GATCGAGATAACACCGCGAATCAAAATTATGCCCGA-GGTTTTAGAAATCATGCCTGGAGGTCTT
* * ** * *
6159879 ACAGAATTGACTGGGATGACACCACAAGTCGAAATTAAAGAATCGATCGGGATAACATCGTGAAT
129 ACAGAATCGACTGAGACAACACCACAAGTCAAAATTAAAGAATCGATCGGGATAACACCGTGAAT
6159944 T
194 T
* * * * * *
6159945 GAAATTATATCCAGAGGTCTTACATAATTGACTAGAATAATACCATAAGTCAAAATTAAAGAATC
1 GAAATCAT-GCCAGAGGTCTTACAGAATCGACTAGGATAATACCGTAAGTCAAAATTAAAGAATC
* * **
6160010 GATTGAGATAACACCACGAATTGAAATTATGCCCGGAGGTTTTAGAAATCATGCCTGGAGGTCTT
65 GATCGAGATAACACCGCGAATCAAAATTATGCCC-GAGGTTTTAGAAATCATGCCTGGAGGTCTT
* * * *
6160075 ACAGAATCGATTGAGACAACACCACAAGTCAAAATTAAAAAATCGATTGAGATAACACCGTGAAT
129 ACAGAATCGACTGAGACAACACCACAAGTCAAAATTAAAGAATCGATCGGGATAACACCGTGAAT
*
6160140 C
194 T
* * * * * *
6160141 GAAATCATGCCTGAAGGTCTTACAGAATCGACTGGGACAACACCGTAAGTCGAGAA-TAATGAAT
1 GAAATCATGCCAG-AGGTCTTACAGAATCGACTAGGATAATACCGTAAGTC-AAAATTAAAGAAT
* * * * *
6160205 TGATCGAGATAACATCGCGAATCAAAATTATGCCTAGAGATCTTAGAAATCATG-CTCGGAGGTC
64 CGATCGAGATAACACCGCGAATCAAAATTATGCC-CGAGGTTTTAGAAATCATGCCT-GGAGGTC
* *
6160269 TTACAAAATCGACT-AGGACAACACCGCAAGTCAAAATTAAAGAATCGATCGGGATAACACCGTG
127 TTACAGAATCGACTGA-GACAACACCACAAGTCAAAATTAAAGAATCGATCGGGATAACACCGTG
6160333 AATT
191 AATT
*
6160337 GAAATCATGCCCGGAGGTCTTA
1 GAAATCATG-CCAGAGGTCTTA
6160359 TATAAATCAA
Statistics
Matches: 340, Mismatches: 65, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
195 57 0.17
196 275 0.81
197 8 0.02
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.23
Consensus pattern (194 bp):
GAAATCATGCCAGAGGTCTTACAGAATCGACTAGGATAATACCGTAAGTCAAAATTAAAGAATCG
ATCGAGATAACACCGCGAATCAAAATTATGCCCGAGGTTTTAGAAATCATGCCTGGAGGTCTTAC
AGAATCGACTGAGACAACACCACAAGTCAAAATTAAAGAATCGATCGGGATAACACCGTGAATT
Found at i:6160214 original size:87 final size:87
Alignment explanation
Indices: 6160054--6160239 Score: 230
Period size: 87 Copynumber: 2.1 Consensus size: 87
6160044 GGAGGTTTTA
* *
6160054 GAAATCATGCCTGGAGGTCTTACAGAATCGATTGAGACAACACCACAAGTCAAAATTAAAAAATC
1 GAAATCATGCCTGAAGGTCTTACAGAATCGACTGAGACAACACCACAAGTCAAAATTAAAAAATC
* *
6160119 GATTGAGATAACACCGTGAATC
66 GATCGAGATAACACCGCGAATC
* ** * **
6160141 GAAATCATGCCTGAAGGTCTTACAGAATCGACTGGGACAACACCGTAAGTCGAGAA-TAATGAAT
1 GAAATCATGCCTGAAGGTCTTACAGAATCGACTGAGACAACACCACAAGTC-AAAATTAAAAAAT
* *
6160205 TGATCGAGATAACATCGCGAATC
65 CGATCGAGATAACACCGCGAATC
* *
6160228 AAAATTATGCCT
1 GAAATCATGCCT
6160240 AGAGATCTTA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 81 0.96
88 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (87 bp):
GAAATCATGCCTGAAGGTCTTACAGAATCGACTGAGACAACACCACAAGTCAAAATTAAAAAATC
GATCGAGATAACACCGCGAATC
Found at i:6160347 original size:109 final size:109
Alignment explanation
Indices: 6160141--6160347 Score: 265
Period size: 109 Copynumber: 1.9 Consensus size: 109
6160131 ACCGTGAATC
* * * * * *
6160141 GAAATCATGCCTGAAGGTCTTACAGAATCGACTGGGACAACACCGTAAGTCGAGAATAATGAATT
1 GAAATCATGCCTGAAGGTCTTACAAAATCGACTAGGACAACACCGCAAGTCGAAAATAAAGAATC
* *
6160206 GATCGAGATAACATCGCGAATCAAAATTATGCCTAGAGATCTTA
66 GATCGAGATAACACCGCGAATCAAAATCATGCCTAGAGATCTTA
*
6160250 GAAATCATG-CTCGGAGGTCTTACAAAATCGACTAGGACAACACCGCAAGTC-AAAATTAAAGAA
1 GAAATCATGCCT-GAAGGTCTTACAAAATCGACTAGGACAACACCGCAAGTCGAAAA-TAAAGAA
* * **
6160313 TCGATCGGGATAACACCGTGAATTGAAATCATGCC
64 TCGATCGAGATAACACCGCGAATCAAAATCATGCC
6160348 CGGAGGTCTT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 5 0.06
109 78 0.94
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (109 bp):
GAAATCATGCCTGAAGGTCTTACAAAATCGACTAGGACAACACCGCAAGTCGAAAATAAAGAATC
GATCGAGATAACACCGCGAATCAAAATCATGCCTAGAGATCTTA
Found at i:6160699 original size:18 final size:18
Alignment explanation
Indices: 6160672--6160706 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6160662 CTCATCAAAT
*
6160672 GATGCTAATGGAAATGTC
1 GATGCAAATGGAAATGTC
*
6160690 GATGCAAATGTAAATGT
1 GATGCAAATGGAAATGT
6160707 TAATGCAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (18 bp):
GATGCAAATGGAAATGTC
Found at i:6162377 original size:13 final size:13
Alignment explanation
Indices: 6162361--6162393 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6162351 CTTTTATTTG
*
6162361 TTTTTTTT-TTAA
1 TTTTTTTTGTTTA
6162373 TTTTTTTTGTTTA
1 TTTTTTTTGTTTA
6162386 TTTTTTTT
1 TTTTTTTT
6162394 ATTTTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (13 bp):
TTTTTTTTGTTTA
Found at i:6162381 original size:21 final size:22
Alignment explanation
Indices: 6162352--6162404 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
6162342 AAGATGTATC
*
6162352 TTTTATTTGTTT-TTTTTTTAA
1 TTTTTTTTGTTTATTTTTTTAA
*
6162373 TTTTTTTTGTTTATTTTTTTTA
1 TTTTTTTTGTTTATTTTTTTAA
*
6162395 TTTTTGTTGT
1 TTTTTTTTGT
6162405 GATGCCTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.09, C:0.00, G:0.08, T:0.83
Consensus pattern (22 bp):
TTTTTTTTGTTTATTTTTTTAA
Found at i:6165005 original size:22 final size:22
Alignment explanation
Indices: 6164971--6165038 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
6164961 AGTAGTAAAT
* *
6164971 TAGTTAATAATTGATAACTTTG
1 TAGTAAATAATTGATAACTTTA
* * *
6164993 TAGTAAATCATTGATAAATTAA
1 TAGTAAATAATTGATAACTTTA
6165015 TAGTAAATAAGTT-ATAACTTTA
1 TAGTAAATAA-TTGATAACTTTA
6165037 TA
1 TA
6165039 ACAAATCATC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.41
Consensus pattern (22 bp):
TAGTAAATAATTGATAACTTTA
Found at i:6165131 original size:22 final size:22
Alignment explanation
Indices: 6165078--6165131 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6165068 AGCAACAATT
* **
6165078 TAGTAATAAATCATTTATAACT
1 TAGTAATAAACCATTTATAAAG
*
6165100 TTGTAATAAACCATTTATAAAG
1 TAGTAATAAACCATTTATAAAG
*
6165122 TAGTAGTAAA
1 TAGTAATAAA
6165132 TTAATGTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
TAGTAATAAACCATTTATAAAG
Found at i:6165153 original size:22 final size:22
Alignment explanation
Indices: 6165128--6165178 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6165118 AAAGTAGTAG
* * *
6165128 TAAATTAATGTTAATTTAGCAA
1 TAAATCAATGATAATTTAGAAA
*
6165150 TAAATCATTGATAATTTAGAAA
1 TAAATCAATGATAATTTAGAAA
*
6165172 TATATCA
1 TAAATCA
6165179 TTAATAGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (22 bp):
TAAATCAATGATAATTTAGAAA
Found at i:6165179 original size:22 final size:22
Alignment explanation
Indices: 6165139--6165190 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
6165129 AAATTAATGT
* *
6165139 TAATTTAGCAATAAATCATTGA
1 TAATTTAGAAATAAATCATTAA
*
6165161 TAATTTAGAAATATATCATTAA
1 TAATTTAGAAATAAATCATTAA
*
6165183 TAGTTTAG
1 TAATTTAG
6165191 TATTAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (22 bp):
TAATTTAGAAATAAATCATTAA
Found at i:6165623 original size:21 final size:21
Alignment explanation
Indices: 6165599--6165639 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6165589 ATCAAACTAA
*
6165599 TATTAAAGGTTACCAAAATTG
1 TATTAAAGGTTACAAAAATTG
* *
6165620 TATTGAATGTTACAAAAATT
1 TATTAAAGGTTACAAAAATT
6165640 TTATCAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
TATTAAAGGTTACAAAAATTG
Found at i:6165734 original size:3 final size:3
Alignment explanation
Indices: 6165717--6165761 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
6165707 TCAAAATTAA
* *
6165717 ATT ATT AAT ATTT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6165762 CATAGTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:6168187 original size:14 final size:14
Alignment explanation
Indices: 6168168--6168194 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6168158 AAAGCTACCA
6168168 TTTTCCAATAAAGT
1 TTTTCCAATAAAGT
6168182 TTTTCCAATAAAG
1 TTTTCCAATAAAG
6168195 CTACCGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (14 bp):
TTTTCCAATAAAGT
Found at i:6172118 original size:15 final size:15
Alignment explanation
Indices: 6172098--6172127 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6172088 TCTTTTAATT
6172098 CGAGAATAGGGTATA
1 CGAGAATAGGGTATA
6172113 CGAGAATAGGGTATA
1 CGAGAATAGGGTATA
6172128 TTATTCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
CGAGAATAGGGTATA
Found at i:6179195 original size:30 final size:30
Alignment explanation
Indices: 6179161--6179280 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 30
6179151 AAGTAAAAGT
*
6179161 TTAAGAATTTATTTGGATATAAATTAAAAA
1 TTAAGAATTTATTTGAATATAAATTAAAAA
** *
6179191 TTAAGGGTTTATTTGAATATAAATTAAAGA
1 TTAAGAATTTATTTGAATATAAATTAAAAA
* *
6179221 TTAA-AGATTTATTTAAATGT-AA-TAAAAA
1 TTAAGA-ATTTATTTGAATATAAATTAAAAA
* *
6179249 TATAAAAATTTATTT-AA-ATAAAATAATAAA
1 T-TAAGAATTTATTTGAATATAAATTAA-AAA
6179279 TT
1 TT
6179281 TCAAGGACTT
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
27 1 0.01
28 10 0.14
29 17 0.23
30 46 0.62
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (30 bp):
TTAAGAATTTATTTGAATATAAATTAAAAA
Found at i:6182896 original size:32 final size:32
Alignment explanation
Indices: 6182860--6182925 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
6182850 AGTAGATCAC
6182860 ATCGAAATGGAAAATAAACTAAATGCCATTAA
1 ATCGAAATGGAAAATAAACTAAATGCCATTAA
6182892 ATCGAAATGGAAAATAAACTAAATGCCATTAA
1 ATCGAAATGGAAAATAAACTAAATGCCATTAA
6182924 AT
1 AT
6182926 TTTCGTTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (32 bp):
ATCGAAATGGAAAATAAACTAAATGCCATTAA
Found at i:6182915 original size:16 final size:16
Alignment explanation
Indices: 6182864--6182916 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
6182854 GATCACATCG
6182864 AAATGGAAAATAAACT
1 AAATGGAAAATAAACT
** * *
6182880 AAAT-GCCATTAAATCG
1 AAATGGAAAATAAA-CT
6182896 AAATGGAAAATAAACT
1 AAATGGAAAATAAACT
6182912 AAATG
1 AAATG
6182917 CCATTAAATT
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (16 bp):
AAATGGAAAATAAACT
Found at i:6184865 original size:2 final size:2
Alignment explanation
Indices: 6184858--6184901 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6184848 ACAATGCCAA
*
6184858 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6184900 AT
1 AT
6184902 TCTTCTTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6188157 original size:26 final size:26
Alignment explanation
Indices: 6188119--6188171 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
6188109 ATCGGCATAG
* * *
6188119 ATTTTTTATTAAAATTTTTATCAAATT
1 ATTTTTAATAAAAAATTTTA-CAAATT
6188146 ATTTTTAATAAAAAATTTTACAAATT
1 ATTTTTAATAAAAAATTTTACAAATT
6188172 TCACTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTTTTAATAAAAAATTTTACAAATT
Found at i:6190068 original size:22 final size:22
Alignment explanation
Indices: 6190023--6190087 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
6190013 TTTTTCAATA
6190023 AAAATATATTAATTTA-ATTAATTT
1 AAAATA-A-TAATTTATATT-ATTT
6190047 AAAATAATAATTTATATTATTT
1 AAAATAATAATTTATATTATTT
6190069 AATAA-AA-AATTATATATTA
1 AA-AATAATAATT-TATATTA
6190088 AATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.11
22 22 0.58
23 6 0.16
24 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAATAATAATTTATATTATTT
Found at i:6200156 original size:22 final size:21
Alignment explanation
Indices: 6200116--6200159 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6200106 TCATTGTCTT
**
6200116 AAAAAAAAAATCATGCACAAA
1 AAAAAAAAAATCAAACACAAA
6200137 AAAAAAAAAATTCAAACACAAA
1 AAAAAAAAAA-TCAAACACAAA
6200159 A
1 A
6200160 CTCATACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.75, C:0.14, G:0.02, T:0.09
Consensus pattern (21 bp):
AAAAAAAAAATCAAACACAAA
Found at i:6200273 original size:3 final size:3
Alignment explanation
Indices: 6200265--6200387 Score: 105
Period size: 3 Copynumber: 42.0 Consensus size: 3
6200255 ATCAAAATTG
* * * *
6200265 ATT ATT ATT ATT ATA ATT ATT ATTT GTT ATT AAT ATT ATT ATTT GTT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT ATT
** *
6200312 ATT ATT GGT ATT ATT A-T ATT A-T ATT ATT A-T ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
6200357 A-T ATT ATAT ATT TTT ATT -TT ATT -TT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
6200388 CTTCTTTCCA
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
2 12 0.13
3 76 0.80
4 7 0.07
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6200294 original size:19 final size:20
Alignment explanation
Indices: 6200272--6200387 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 20
6200262 TTGATTATTA
6200272 TTATTATA-ATTATTATTTG
1 TTATTATATATTATTATTTG
6200291 TTATTA-ATATTATTATTTG
1 TTATTATATATTATTATTTG
*
6200310 TTATTATTGGTATTATTATATT-
1 TTATTA-T-ATATTATTAT-TTG
* **
6200332 ATATTAT-TA-TATTA-TCA
1 TTATTATATATTATTATTTG
6200349 TTATTATTATATTATATATTT-
1 TTATTA-TATATTAT-TATTTG
* *
6200370 TTATTTTATTTTATTATT
1 TTATTATATATTATTATT
6200388 CTTCTTTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
16 1 0.01
17 5 0.06
18 7 0.09
19 31 0.39
20 10 0.13
21 8 0.10
22 15 0.19
23 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (20 bp):
TTATTATATATTATTATTTG
Found at i:6200305 original size:22 final size:22
Alignment explanation
Indices: 6200266--6200387 Score: 88
Period size: 22 Copynumber: 5.4 Consensus size: 22
6200256 TCAAAATTGA
* *
6200266 TTATTATTATTATAATTATTAT
1 TTATTATTAATATTATTATTAT
*
6200288 TTGTTATTAATATTATTATT-T
1 TTATTATTAATATTATTATTAT
**
6200309 GTTATTATTGGTATTATTA-TAT
1 -TTATTATTAATATTATTATTAT
*
6200331 TATATTATTATATTATCATTATTAT
1 T-TATTATTA-A-TATTATTATTAT
* *
6200356 TATATTATATATTTTTATT-TTATT
1 T-TATTAT-TAATATTATTATTA-T
6200380 TTATTATT
1 TTATTATT
6200388 CTTCTTTCCA
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
21 3 0.04
22 41 0.51
23 9 0.11
24 14 0.17
25 11 0.14
26 2 0.03
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (22 bp):
TTATTATTAATATTATTATTAT
Found at i:6200333 original size:5 final size:5
Alignment explanation
Indices: 6200323--6200386 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
6200313 TTATTGGTAT
*
6200323 TATTA TATTA TA-T- TATTA TATTA TCATTA TTATTA TATTA TA-TA T-TTT
1 TATTA TATTA TATTA TATTA TATTA T-ATTA -TATTA TATTA TATTA TATTA
* *
6200371 TATTT TATTT TATTA T
1 TATTA TATTA TATTA T
6200387 TCTTCTTTCC
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
3 2 0.04
4 7 0.14
5 33 0.65
6 8 0.16
7 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (5 bp):
TATTA
Found at i:6201190 original size:19 final size:19
Alignment explanation
Indices: 6201162--6201242 Score: 83
Period size: 19 Copynumber: 4.2 Consensus size: 19
6201152 CGATTACAGG
*
6201162 TTTTTCTTTTTTTATTTTA
1 TTTTTATTTTTTTATTTTA
*
6201181 TTTTTATTTTTTGATTTTA
1 TTTTTATTTTTTTATTTTA
**
6201200 TATTTTAAGTTTTTATTTTA
1 T-TTTTATTTTTTTATTTTA
*
6201220 -TTTTATTGATTTTATTATTA
1 TTTTTATT-TTTTTATT-TTA
6201240 TTT
1 TTT
6201243 ATTTTGTAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
18 5 0.10
19 25 0.50
20 18 0.36
21 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTTTTATTTTA
Found at i:6206199 original size:34 final size:33
Alignment explanation
Indices: 6206159--6206288 Score: 92
Period size: 31 Copynumber: 4.0 Consensus size: 33
6206149 TCGATCCAAA
*
6206159 TCATCTTTTTAACTCGCAGTTCAATCTCGATCAT
1 TCATCTTTTTAACTCG-AGTTCGATCTCGATCAT
** * *
6206193 TCATC-TTCGACCTCGA-CTCGAT-TCTGATCAT
1 TCATCTTTTTAACTCGAGTTCGATCTC-GATCAT
*
6206224 TC-TGCTTTTTAACTCGTAGTTCGATCTCGATCAC
1 TCAT-CTTTTTAACTCG-AGTTCGATCTCGATCAT
* * * *
6206258 TCAT-TTTTGATCTCGA-CTCGATCTAGATCAT
1 TCATCTTTTTAACTCGAGTTCGATCTCGATCAT
6206289 CTTTCTAACT
Statistics
Matches: 74, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
30 3 0.04
31 25 0.34
32 9 0.12
33 17 0.23
34 17 0.23
35 3 0.04
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (33 bp):
TCATCTTTTTAACTCGAGTTCGATCTCGATCAT
Found at i:6206251 original size:65 final size:65
Alignment explanation
Indices: 6206163--6206288 Score: 182
Period size: 65 Copynumber: 1.9 Consensus size: 65
6206153 TCCAAATCAT
*
6206163 CTTTTTAACTCGCAGTTCAATCTCGATCATTCATCTTCGACCTCGACTCGATTCT-GATCATTCT
1 CTTTTTAACTCGCAGTTCAATCTCGATCACTCATCTTCGACCTCGACTCGA-TCTAGATCATTCT
6206227 G
65 G
* * * * *
6206228 CTTTTTAACTCGTAGTTCGATCTCGATCACTCATTTTTGATCTCGACTCGATCTAGATCAT
1 CTTTTTAACTCGCAGTTCAATCTCGATCACTCATCTTCGACCTCGACTCGATCTAGATCAT
6206289 CTTTCTAACT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 3 0.06
65 51 0.94
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.40
Consensus pattern (65 bp):
CTTTTTAACTCGCAGTTCAATCTCGATCACTCATCTTCGACCTCGACTCGATCTAGATCATTCTG
Found at i:6206324 original size:61 final size:61
Alignment explanation
Indices: 6206127--6206332 Score: 202
Period size: 61 Copynumber: 3.3 Consensus size: 61
6206117 ATTATTACTT
* * * * * *
6206127 ATCACTCACTTTT-GATCTTGACTCGATCCAAATCATCTTTTTAACTCGCAGTTCAATCTCG
1 ATCATTCA-TTTTCGATCTCGACTCGATCTAGATCATCTTTTTAACTCGTAGTTCGATCTCG
* *
6206188 ATCATTCATCTTCGACCTCGACTCGATTCT-GATCATTCTGCTTTTTAACTCGTAGTTCGATCTC
1 ATCATTCATTTTCGATCTCGACTCGA-TCTAGATCA---T-CTTTTTAACTCGTAGTTCGATCTC
6206252 G
61 G
* * * * * *
6206253 ATCACTCATTTTTGATCTCGACTCGATCTAGATCATCTTTCTAACTTGTAGTTTGATC-CC
1 ATCATTCATTTTCGATCTCGACTCGATCTAGATCATCTTTTTAACTCGTAGTTCGATCTCG
6206313 AGTCATTCATTTTCGATCTC
1 A-TCATTCATTTTCGATCTC
6206333 AACTTAGTCC
Statistics
Matches: 119, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
60 5 0.04
61 57 0.48
62 3 0.03
64 4 0.03
65 50 0.42
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (61 bp):
ATCATTCATTTTCGATCTCGACTCGATCTAGATCATCTTTTTAACTCGTAGTTCGATCTCG
Found at i:6206754 original size:17 final size:17
Alignment explanation
Indices: 6206734--6206795 Score: 90
Period size: 17 Copynumber: 3.7 Consensus size: 17
6206724 AAACTTAAAA
6206734 TCTTACGAATCTTTCAT
1 TCTTACGAATCTTTCAT
*
6206751 TCTTATGAATCTTTCAT
1 TCTTACGAATCTTTCAT
*
6206768 TCTTATGAATCTTTC-T
1 TCTTACGAATCTTTCAT
*
6206784 TCTTGCGAATCT
1 TCTTACGAATCT
6206796 AAAACTATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
16 11 0.26
17 31 0.74
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.50
Consensus pattern (17 bp):
TCTTACGAATCTTTCAT
Found at i:6207180 original size:110 final size:110
Alignment explanation
Indices: 6207027--6207235 Score: 251
Period size: 110 Copynumber: 1.9 Consensus size: 110
6207017 AGACTTATGA
* * * * * * *
6207027 TTCAATCCCAGTCGTTCGATCTTGACTATGTCCAGATCATTTTTTTTACTTATGATTCAATCCCG
1 TTCAATCCCAGTCATTCAATCTCGACTATGTCCAAATCATTTTTTTGACTTACGATTCAATCCCA
* * *
6207092 ATAGCTTGATCTTGGCTT-AGTTCAGATCATTTTTCTAGCTTGCGG
66 ATAGCTTGATCTCGG-TTCAGTCCAGACCATTTTTCTAGCTTGCGG
* * *
6207137 TTCAATCCC-GATCATTCAATCTCGACTCTGTCTAAATCATTTTTTTGACTTACGGTTCAATCCC
1 TTCAATCCCAG-TCATTCAATCTCGACTATGTCCAAATCATTTTTTTGACTTACGATTCAATCCC
* *
6207201 AATCGTTTGATCTCGGTTCAGTCCAGACCATTTTT
65 AATAGCTTGATCTCGGTTCAGTCCAGACCATTTTT
6207236 TTTAGATTTA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
109 3 0.04
110 79 0.96
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (110 bp):
TTCAATCCCAGTCATTCAATCTCGACTATGTCCAAATCATTTTTTTGACTTACGATTCAATCCCA
ATAGCTTGATCTCGGTTCAGTCCAGACCATTTTTCTAGCTTGCGG
Found at i:6207214 original size:55 final size:54
Alignment explanation
Indices: 6207009--6207215 Score: 150
Period size: 55 Copynumber: 3.8 Consensus size: 54
6206999 TTTAAATTTT
* * * * *
6207009 ATTTTTTCAGACTTATGATTCAATCCCAGTCGTTCGATCTTGACTATGTCCAGATC
1 ATTTTTT-TGACTTACGATTCAATCCCAATCGTTCGATCTCGACT-TGTCTAGATC
* * * * * *
6207065 ATTTTTTTTACTTATGATTCAATCCCGATAGCTT-GATCTTGGCTTAGT-TCAGATC
1 ATTTTTTTGACTTACGATTCAATCCCAATCG-TTCGATCTCGACTT-GTCT-AGATC
* * * * * * *
6207120 ATTTTTCT-AGCTTGCGGTTCAATCCCGATCATTCAATCTCGACTCTGTCTAAATC
1 ATTTTTTTGA-CTTACGATTCAATCCCAATCGTTCGATCTCGACT-TGTCTAGATC
* *
6207175 ATTTTTTTGACTTACGGTTCAATCCCAATCGTTTGATCTCG
1 ATTTTTTTGACTTACGATTCAATCCCAATCGTTCGATCTCG
6207216 GTTCAGTCCA
Statistics
Matches: 120, Mismatches: 23, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
54 4 0.03
55 104 0.87
56 12 0.10
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (54 bp):
ATTTTTTTGACTTACGATTCAATCCCAATCGTTCGATCTCGACTTGTCTAGATC
Found at i:6207233 original size:55 final size:54
Alignment explanation
Indices: 6207056--6207237 Score: 159
Period size: 55 Copynumber: 3.3 Consensus size: 54
6207046 TCTTGACTAT
* * * * *
6207056 GTCCAGATCATTTTTTTTACTTATGATTCAATCCCGATAGCTTGATCTTGGCTT-A
1 GTCCAGATCA-TTTTTTTACTTACGGTTCAATCCCGATCGTTTGATCTCGG-TTCA
* * * * ** ** *
6207111 GTTCAGATCATTTTTCTAGCTTGCGGTTCAATCCCGATCATTCAATCTCGACTCT
1 GTCCAGATCATTTTTTTA-CTTACGGTTCAATCCCGATCGTTTGATCTCGGTTCA
* * *
6207166 GTCTAAATCATTTTTTTGACTTACGGTTCAATCCCAATCGTTTGATCTCGGTTCA
1 GTCCAGATCATTTTTTT-ACTTACGGTTCAATCCCGATCGTTTGATCTCGGTTCA
*
6207221 GTCCAGACCATTTTTTT
1 GTCCAGATCATTTTTTT
6207238 TAGATTTATG
Statistics
Matches: 95, Mismatches: 29, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
54 8 0.08
55 86 0.91
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (54 bp):
GTCCAGATCATTTTTTTACTTACGGTTCAATCCCGATCGTTTGATCTCGGTTCA
Found at i:6208125 original size:84 final size:82
Alignment explanation
Indices: 6208028--6208195 Score: 246
Period size: 84 Copynumber: 2.0 Consensus size: 82
6208018 TGGGATGAAT
* *
6208028 TTTTGAATTTTTTGGTTCAATTTTTCGAAGAGATTCCGACGATTTTTTCAAAAATTGATGAAGTT
1 TTTTGAATCTTTTGGTTCAATTTTTCGAAGAGATTCCGACGATTTTTTAAAAAATTGATGAAGTT
6208093 GTCCTATTTTTGGTAGGTG
66 GTCCTA--TTTGGTAGGTG
** * * * *
6208112 TTTTGAATCTTTTGGTTGGATTTTTTGACGAGATTCTGATGATTTTTTAAAAAATTGATGAAGTT
1 TTTTGAATCTTTTGGTTCAATTTTTCGAAGAGATTCCGACGATTTTTTAAAAAATTGATGAAGTT
6208177 GTCCTATTTGGTAGGTG
66 GTCCTATTTGGTAGGTG
6208194 TT
1 TT
6208196 ATTAATACTT
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
82 13 0.17
84 63 0.83
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (82 bp):
TTTTGAATCTTTTGGTTCAATTTTTCGAAGAGATTCCGACGATTTTTTAAAAAATTGATGAAGTT
GTCCTATTTGGTAGGTG
Found at i:6214062 original size:2 final size:2
Alignment explanation
Indices: 6214055--6214089 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6214045 ATATTATGTA
*
6214055 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6214090 GGGAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6214068 original size:10 final size:10
Alignment explanation
Indices: 6214044--6214082 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
6214034 GGATAGCTTT
6214044 TATAT-TATG
1 TATATATATG
6214053 TAATATATATG
1 T-ATATATATG
*
6214064 TATATATATA
1 TATATATATG
6214074 TATATATAT
1 TATATATAT
6214083 ATTATATGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 1 0.04
10 21 0.78
11 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (10 bp):
TATATATATG
Found at i:6214519 original size:12 final size:12
Alignment explanation
Indices: 6214502--6214526 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6214492 TATCCTTATG
6214502 TTTTATTTTTTA
1 TTTTATTTTTTA
6214514 TTTTATTTTTTA
1 TTTTATTTTTTA
6214526 T
1 T
6214527 ATAAAAATTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:6214742 original size:15 final size:14
Alignment explanation
Indices: 6214715--6214741 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6214705 TATTTTCAAA
6214715 TTTTTTTTCTTTTG
1 TTTTTTTTCTTTTG
6214729 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
6214742 TTCTCTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTCTTTTG
Found at i:6216244 original size:20 final size:19
Alignment explanation
Indices: 6216215--6216282 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
6216205 ATTTATTAAT
*
6216215 ATAAAATTTAATACTTATTA
1 ATAAATTTTAATA-TTATTA
*
6216235 ATAAATTTTATTATTTATTA
1 ATAAATTTTAATA-TTATTA
* * * *
6216255 GT-AATTTTTATATAATAA
1 ATAAATTTTAATATTATTA
6216273 ATAAATTTTA
1 ATAAATTTTA
6216283 TAAATATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
18 5 0.14
19 14 0.38
20 18 0.49
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (19 bp):
ATAAATTTTAATATTATTA
Found at i:6216295 original size:20 final size:19
Alignment explanation
Indices: 6216257--6216296 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6216247 ATTTATTAGT
*
6216257 AATTTTTATATAATAAATA
1 AATTTTTAAATAATAAATA
*
6216276 AATTTTATAAATATTAAATA
1 AATTTT-TAAATAATAAATA
6216296 A
1 A
6216297 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTTAAATAATAAATA
Found at i:6216298 original size:19 final size:18
Alignment explanation
Indices: 6216256--6216299 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
6216246 TATTTATTAG
*
6216256 TAATTTTTATATAATAAA
1 TAATTTTTAAATAATAAA
*
6216274 TAAATTTTATAAATATTAAA
1 T-AATTTT-TAAATAATAAA
6216294 TAATTT
1 TAATTT
6216300 AAAATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 11 0.50
20 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTTTTAAATAATAAA
Found at i:6218024 original size:2 final size:2
Alignment explanation
Indices: 6218019--6218055 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6218009 GATGAGTTTT
6218019 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
6218056 GGCTTACTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6218432 original size:11 final size:11
Alignment explanation
Indices: 6218416--6218440 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6218406 TTAAAAAATC
6218416 TTTTGGACATG
1 TTTTGGACATG
6218427 TTTTGGACATG
1 TTTTGGACATG
6218438 TTT
1 TTT
6218441 GCCCTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (11 bp):
TTTTGGACATG
Found at i:6223756 original size:2 final size:2
Alignment explanation
Indices: 6223749--6223776 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6223739 TGTTTGTTTC
6223749 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6223777 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6223781 original size:2 final size:2
Alignment explanation
Indices: 6223776--6223809 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6223766 GTGTGTGTGT
6223776 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6223810 ATCCAACTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6235542 original size:21 final size:21
Alignment explanation
Indices: 6235518--6235557 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6235508 AAATTATATT
*
6235518 TATAATTAAATATTACATTCA
1 TATAACTAAATATTACATTCA
*
6235539 TATAACTAATTATTACATT
1 TATAACTAAATATTACATT
6235558 ATTAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAACTAAATATTACATTCA
Found at i:6236714 original size:36 final size:36
Alignment explanation
Indices: 6236651--6236719 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
6236641 GAACCACTCA
* * * *
6236651 TCTTGGTTTCGTTATGGGTCGAGGGAGAAGCACTTG
1 TCTTGGTCTCGTCATGGGCCGAAGGAGAAGCACTTG
*
6236687 TCTTGGTCTCGTCCTGGGCCGAAGGAGAAGCAC
1 TCTTGGTCTCGTCATGGGCCGAAGGAGAAGCAC
6236720 CCATCATACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (36 bp):
TCTTGGTCTCGTCATGGGCCGAAGGAGAAGCACTTG
Found at i:6240208 original size:20 final size:18
Alignment explanation
Indices: 6240180--6240222 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6240170 CCAAATTAAA
6240180 TTATATATTTTTATTAATTT
1 TTATATA-TTTT-TTAATTT
*
6240200 TTATCTATTTTTTAATTT
1 TTATATATTTTTTAATTT
6240218 TTATA
1 TTATA
6240223 AAATAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATATTTTTTAATTT
Found at i:6240272 original size:21 final size:23
Alignment explanation
Indices: 6240246--6240292 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6240236 TATTTTATAT
* *
6240246 AAATC-TATTTAAAT-ATATTAA
1 AAATCTTATTAAAATAATATAAA
6240267 AAATCTTATTAAAATAATATAAA
1 AAATCTTATTAAAATAATATAAA
6240290 AAA
1 AAA
6240293 AATTTAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 8 0.36
23 9 0.41
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATCTTATTAAAATAATATAAA
Found at i:6241384 original size:25 final size:24
Alignment explanation
Indices: 6241350--6241400 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
6241340 ATAAATATTT
* * *
6241350 ATTTCTATTTTTATTTTTCTAAGTA
1 ATTTCCATTTATATTTTTATAA-TA
6241375 ATTTCCATTTATATTTTTATAATA
1 ATTTCCATTTATATTTTTATAATA
6241399 AT
1 AT
6241401 ATAGCAGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTCCATTTATATTTTTATAATA
Found at i:6244674 original size:26 final size:25
Alignment explanation
Indices: 6244645--6244704 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
6244635 AATCTCAAAC
*
6244645 TCAAGCTTAAGCTTGAGCACAAATAA
1 TCAAGCTTAAGCTCGAGCACAAA-AA
* * *
6244671 TCAAGCTCAAGCTCGAGTATAAAAA
1 TCAAGCTTAAGCTCGAGCACAAAAA
6244696 TCAAGCTTA
1 TCAAGCTTA
6244705 TTTTTACATG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (25 bp):
TCAAGCTTAAGCTCGAGCACAAAAA
Found at i:6248385 original size:20 final size:18
Alignment explanation
Indices: 6248357--6248399 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6248347 TCAAATCAAA
6248357 TTATATATTTTTATTAATTT
1 TTATATA-TTTT-TTAATTT
*
6248377 TTATCTATTTTTTAATTT
1 TTATATATTTTTTAATTT
6248395 TTATA
1 TTATA
6248400 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATATTTTTTAATTT
Found at i:6248449 original size:21 final size:23
Alignment explanation
Indices: 6248423--6248470 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6248413 TATTTTATAT
* *
6248423 AAATC-TATTTAAAT-ATATTAA
1 AAATCTTATTAAAATAATATAAA
6248444 AAATCTTATTAAAATAATATAAA
1 AAATCTTATTAAAATAATATAAA
6248467 AAAT
1 AAAT
6248471 AAAATTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 10 0.43
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATCTTATTAAAATAATATAAA
Found at i:6249873 original size:18 final size:18
Alignment explanation
Indices: 6249850--6249885 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6249840 AGTAACTTGT
6249850 TTAGATTCATGGTTTCAA
1 TTAGATTCATGGTTTCAA
6249868 TTAGATTCATGGTTTCAA
1 TTAGATTCATGGTTTCAA
6249886 CTGTTGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
TTAGATTCATGGTTTCAA
Found at i:6251700 original size:12 final size:12
Alignment explanation
Indices: 6251677--6251713 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6251667 CTTGTGTAAG
*
6251677 TTATTATTATTA
1 TTATTGTTATTA
*
6251689 TTGTTGTTATTA
1 TTATTGTTATTA
6251701 TTATTGTTATTA
1 TTATTGTTATTA
6251713 T
1 T
6251714 CTTGAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:6251700 original size:15 final size:15
Alignment explanation
Indices: 6251676--6251713 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
6251666 TCTTGTGTAA
6251676 GTTATTATTATTATT
1 GTTATTATTATTATT
*
6251691 GTTGTTATTATTATT
1 GTTATTATTATTATT
6251706 GTTATTAT
1 GTTATTAT
6251714 CTTGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
GTTATTATTATTATT
Found at i:6252479 original size:16 final size:16
Alignment explanation
Indices: 6252458--6252488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6252448 TCAACTTCAA
6252458 AATAAAAAGAAAAAAC
1 AATAAAAAGAAAAAAC
*
6252474 AATAAAAGGAAAAAA
1 AATAAAAAGAAAAAA
6252489 TCAAGGAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.06
Consensus pattern (16 bp):
AATAAAAAGAAAAAAC
Found at i:6255443 original size:54 final size:53
Alignment explanation
Indices: 6255312--6255445 Score: 162
Period size: 56 Copynumber: 2.5 Consensus size: 53
6255302 GTTTTCAATT
** * * * *
6255312 TTAAAAAATAATTTCGTACTATATTTTTTTTAATTAAAGATCGTAGTTTCATA
1 TTAAAAAATAATTTTTTACAATAATTTTTTTAATTAAAGATCATAGTTTCACA
6255365 TTAAAAAAACTTAATTTTTTACAATAATTTTTTTAATTAAAGATCAT-GTTTTCACA
1 TT-AAAAAA--TAATTTTTTACAATAATTTTTTTAATTAAAGATCATAG-TTTCACA
6255421 TTAAAAAATAATTTTTATACAATAA
1 TTAAAAAATAATTTTT-TACAATAA
6255446 ATTAAAAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
53 10 0.14
54 14 0.20
55 7 0.10
56 39 0.56
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (53 bp):
TTAAAAAATAATTTTTTACAATAATTTTTTTAATTAAAGATCATAGTTTCACA
Found at i:6255884 original size:56 final size:57
Alignment explanation
Indices: 6255775--6255906 Score: 151
Period size: 56 Copynumber: 2.3 Consensus size: 57
6255765 TAAAAAACTA
* * * * * *
6255775 AAAACATGATCTTTAATTAAAAAAATTTATTTTATAATGACTACATTTTTTAAAATG
1 AAAACATAATTTTTAATTAAAAAAATTTATTATAAAATGACTACATTTCTTAAAACG
** * *
6255832 AAAATGTAATTTTTAATTAAAAAAA-TTATTATACAAAT-ATTACGTTTCTTAAAACG
1 AAAACATAATTTTTAATTAAAAAAATTTATTATA-AAATGACTACATTTCTTAAAACG
6255888 AAAACATAATTTTTAATTA
1 AAAACATAATTTTTAATTA
6255907 TACACAACTG
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
56 38 0.61
57 24 0.39
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (57 bp):
AAAACATAATTTTTAATTAAAAAAATTTATTATAAAATGACTACATTTCTTAAAACG
Found at i:6257213 original size:71 final size:71
Alignment explanation
Indices: 6257097--6257232 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 71
6257087 TTTTTTGTTA
* * *
6257097 AAGTTTGAAAAATAAAAAACTATGGATGAATTAAGAAGCTTAA-GGGAAAAAGAATAACAAAGAA
1 AAGTTTGAAAAACAAAAAACTATAGATAAATTAAGAAGCTTAAGGGGAAAAAG-ATAACAAAGAA
6257161 AGATAGG
65 AGATAGG
* *
6257168 AAGTTTGAAAAACAAAAAACTATAGATAAATTAAGAAGCTTAAGGGGAAAATGATAGCAAAGAAA
1 AAGTTTGAAAAACAAAAAACTATAGATAAATTAAGAAGCTTAAGGGGAAAAAGATAACAAAGAAA
6257233 TATGGGAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 51 0.86
72 8 0.14
ACGTcount: A:0.57, C:0.05, G:0.20, T:0.18
Consensus pattern (71 bp):
AAGTTTGAAAAACAAAAAACTATAGATAAATTAAGAAGCTTAAGGGGAAAAAGATAACAAAGAAA
GATAGG
Found at i:6259912 original size:3 final size:3
Alignment explanation
Indices: 6259906--6259963 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6259896 GTTGTTGTTG
6259906 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6259954 TTA TTA TTA T
1 TTA TTA TTA T
6259964 AACTTTGGCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6265531 original size:17 final size:17
Alignment explanation
Indices: 6265505--6265547 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6265495 CTAATATCTT
6265505 TTTCTTTTTCTCCCTCTA
1 TTTCTTTTTCTCCCT-TA
*
6265523 TTT-TTTTTCTCTCTTA
1 TTTCTTTTTCTCCCTTA
6265539 TTTCTTTTT
1 TTTCTTTTT
6265548 TGTTATAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 15 0.65
18 3 0.13
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTTTTTCTCCCTTA
Found at i:6270952 original size:36 final size:36
Alignment explanation
Indices: 6270855--6270952 Score: 97
Period size: 36 Copynumber: 2.7 Consensus size: 36
6270845 AGAGTAATCC
* * * * *
6270855 TCTCTACCTAAGAGTATTGAGTAGGGTGAGCAGTCC
1 TCTCTACCAAAGAGTGTTGAGTAAGGTAAGCAGTCA
* * * * *
6270891 TTTCTATCAGAGAGTGTTAAATAAGGTAAGCAGTCA
1 TCTCTACCAAAGAGTGTTGAGTAAGGTAAGCAGTCA
*
6270927 TCTCCACCAAAGAGTGTTGAGTAAGG
1 TCTCTACCAAAGAGTGTTGAGTAAGG
6270953 AGAGTTATCT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (36 bp):
TCTCTACCAAAGAGTGTTGAGTAAGGTAAGCAGTCA
Found at i:6273791 original size:20 final size:21
Alignment explanation
Indices: 6273748--6273794 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6273738 TTATGAAAAA
6273748 TTCTTCTCTTCTTCCTTCTAT
1 TTCTTCTCTTCTTCCTTCTAT
*
6273769 TTCTTCT-TT-TTCTCTTTTAT
1 TTCTTCTCTTCTTC-CTTCTAT
6273789 TTCTTC
1 TTCTTC
6273795 CATGTTCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 7 0.29
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCTTCTCTTCTTCCTTCTAT
Found at i:6274213 original size:17 final size:17
Alignment explanation
Indices: 6274183--6274220 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6274173 ATCATAGCAC
*
6274183 AAAAAAAGGTAGAAAAA
1 AAAAAAAAGTAGAAAAA
6274200 TAAAAAAAAG-AGAAAAA
1 -AAAAAAAAGTAGAAAAA
6274217 AAAA
1 AAAA
6274221 CTAATGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (17 bp):
AAAAAAAAGTAGAAAAA
Found at i:6274410 original size:12 final size:12
Alignment explanation
Indices: 6274393--6274418 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6274383 CAATAATATG
6274393 TTAAAAAAATTA
1 TTAAAAAAATTA
6274405 TTAAAAAAATTA
1 TTAAAAAAATTA
6274417 TT
1 TT
6274419 TATAATTCAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAAAAAATTA
Found at i:6274529 original size:10 final size:10
Alignment explanation
Indices: 6274500--6274534 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6274490 TAAAAATATA
*
6274500 TATAAAAATT
1 TATAAAATTT
6274510 TATTAAAATTT
1 TA-TAAAATTT
6274521 TATAAAATTT
1 TATAAAATTT
6274531 TATA
1 TATA
6274535 TACTTAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATAAAATTT
Found at i:6277429 original size:17 final size:18
Alignment explanation
Indices: 6277407--6277443 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6277397 TTCTTTTTTA
*
6277407 TTATTTGTTTTTA-ATAT
1 TTATTTATTTTTATATAT
6277424 TTATTTATTTTTATATAT
1 TTATTTATTTTTATATAT
6277442 TT
1 TT
6277444 CAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTATTTATTTTTATATAT
Found at i:6278213 original size:84 final size:84
Alignment explanation
Indices: 6278065--6278228 Score: 274
Period size: 84 Copynumber: 2.0 Consensus size: 84
6278055 TAGATTGTTG
* *
6278065 TCATTAGGGTTCTGAGAATAGGTAGTTTTATCATGATACTGGATTTAATGATAATGTTTGTGATT
1 TCATTAGGGTTCTGAGAATAGGTAGTTTTATCATGATACTGGATTTAATGATAATGGTTCTGATT
6278130 TCTGAATGCCATCTTGTAA
66 TCTGAATGCCATCTTGTAA
* * *
6278149 TCATTAGGGTTTTGAGAATGGGTAGTTTTATCTTGATACTGGATTTAATGATAATGGTTCTGATT
1 TCATTAGGGTTCTGAGAATAGGTAGTTTTATCATGATACTGGATTTAATGATAATGGTTCTGATT
*
6278214 TCTGAATGTCATCTT
66 TCTGAATGCCATCTT
6278229 ATATTTTTAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (84 bp):
TCATTAGGGTTCTGAGAATAGGTAGTTTTATCATGATACTGGATTTAATGATAATGGTTCTGATT
TCTGAATGCCATCTTGTAA
Found at i:6285340 original size:7 final size:7
Alignment explanation
Indices: 6285328--6285423 Score: 61
Period size: 7 Copynumber: 13.3 Consensus size: 7
6285318 TCACTTTATT
6285328 TTTTTTA
1 TTTTTTA
6285335 TTTTTTA
1 TTTTTTA
6285342 TTTTTTA
1 TTTTTTA
6285349 --TTTTA
1 TTTTTTA
*
6285354 TATTTTA
1 TTTTTTA
*
6285361 TTTTATA
1 TTTTTTA
*
6285368 TTATATATA
1 TT-T-TTTA
* *
6285377 TATATTA
1 TTTTTTA
6285384 TTTCTTTA
1 TTT-TTTA
6285392 TTTTTTA
1 TTTTTTA
*
6285399 TGTATTTA
1 T-TTTTTA
**
6285407 TCATTTA
1 TTTTTTA
6285414 TTTATTTA
1 TTT-TTTA
6285422 TT
1 TT
6285424 ATGACTATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
5 5 0.07
7 41 0.58
8 20 0.28
9 5 0.07
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (7 bp):
TTTTTTA
Found at i:6285352 original size:12 final size:12
Alignment explanation
Indices: 6285322--6285366 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
6285312 ATTGGTTCAC
6285322 TTTATTTT-TTT
1 TTTATTTTATTT
6285333 TATT-TTTTATTT
1 T-TTATTTTATTT
*
6285345 TTTATTTTATAT
1 TTTATTTTATTT
6285357 TTTATTTTAT
1 TTTATTTTAT
6285367 ATTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 7 0.23
12 23 0.77
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:6285354 original size:19 final size:19
Alignment explanation
Indices: 6285326--6285423 Score: 65
Period size: 19 Copynumber: 5.0 Consensus size: 19
6285316 GTTCACTTTA
6285326 TTTT-TTTTATTTTTTATT
1 TTTTATTTTATTTTTTATT
*
6285344 TTTTATTTTATATTTTATT
1 TTTTATTTTATTTTTTATT
* * * *
6285363 TTATATTATATATATATATT
1 TTTTATTTTAT-TTTTTATT
* *
6285383 ATTT-CTTTATTTTTTATGT
1 TTTTATTTTATTTTTTAT-T
*
6285402 ATTTATCATTTATTTATTTATT
1 TTTTAT--TTTATTT-TTTATT
6285424 ATGACTATTT
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
18 9 0.15
19 31 0.52
20 7 0.12
22 8 0.13
23 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (19 bp):
TTTTATTTTATTTTTTATT
Found at i:6285412 original size:26 final size:27
Alignment explanation
Indices: 6285357--6285435 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 27
6285347 TATTTTATAT
* *
6285357 TTTATTTTATATTA-TAT-ATATATATTA
1 TTTA-TTTAT-TTATTATGATATTTATCA
* *
6285384 TTTCTTTATTTTTTATG-TATTTATCA
1 TTTATTTATTTATTATGATATTTATCA
6285410 TTTATTTATTTATTATGACTATTTAT
1 TTTATTTATTTATTATGA-TATTTAT
6285436 TAATGTATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 2 0.05
26 30 0.71
27 3 0.07
28 7 0.17
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTATTTATTTATTATGATATTTATCA
Found at i:6285418 original size:4 final size:4
Alignment explanation
Indices: 6285331--6285570 Score: 90
Period size: 4 Copynumber: 60.8 Consensus size: 4
6285321 CTTTATTTTT
* * *
6285331 TTTA TTT- TTTA TTT- TTTA TTT- TATA TTTTA TTTTA TATTA TATA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA T-TTA TTTA TTTA
* * *
6285379 TATTA TTTC TTTA TTT- TTTA TGTA TTTA -TCA TTTA TTTA TTTA -TTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * * *
6285425 TGACTA TTTA TTAA TGTA TATT- TTTA TCTG TTAA TATA TTTA TATA TTTA
1 T--TTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
6285475 TTTA TTTA TATA -TTA -TTA TTTA TCT- GTTA ATTA -TTG TTTA TCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
6285519 TTAA TTAA TATA -TTA TCTTT TTTA TATTA TTTA TTTA TTTA TTTA TCTA
1 TTTA TTTA TTTA TTTA T-TTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
6285568 TTT
1 TTT
6285571 TTTTTCTTCT
Statistics
Matches: 173, Mismatches: 44, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
3 28 0.16
4 119 0.69
5 23 0.13
6 3 0.02
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:6285425 original size:18 final size:17
Alignment explanation
Indices: 6285331--6285570 Score: 91
Period size: 18 Copynumber: 14.4 Consensus size: 17
6285321 CTTTATTTTT
6285331 TTTATTT-TT-TATTT-
1 TTTATTTATTATATTTA
6285345 TTTA-TT-TTATATTTTA
1 TTTATTTATTATA-TTTA
*
6285361 TTTTATATTA-TATATATA
1 -TTTAT-TTATTATATTTA
*
6285379 TATTATTTCTT-TATTT-
1 T-TTATTTATTATATTTA
*
6285395 TTTATGTATTTATCATTTA
1 TTTATTTA-TTAT-ATTTA
*
6285414 TTTATTTATTATGA-CTA
1 TTTATTTATTAT-ATTTA
*
6285431 TTTATTAATGTATA-TT-
1 TTTATTTAT-TATATTTA
* * *
6285447 TTTATCTGTTA-ATATA
1 TTTATTTATTATATTTA
*
6285463 TTTATATATT-TATTTA
1 TTTATTTATTATATTTA
*
6285479 TTTATATATTATTATTTA
1 TTTATTTATTA-TATTTA
* * * *
6285497 TCTGTTAATTATTGTTTA
1 TTTATTTATTA-TATTTA
* *
6285515 TCTATTAATTAATATATTA
1 TTTATTTATT-ATAT-TTA
*
6285534 TCT-TTT-TTATA-TTA
1 TTTATTTATTATATTTA
6285548 TTTATTTATT-TATTTA
1 TTTATTTATTATATTTA
*
6285564 TCTATTT
1 TTTATTT
6285571 TTTTTCTTCT
Statistics
Matches: 175, Mismatches: 27, Indels: 46
0.71 0.11 0.19
Matches are distributed among these distances:
13 4 0.02
14 12 0.07
15 16 0.09
16 45 0.26
17 26 0.15
18 52 0.30
19 20 0.11
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTATTTATTATATTTA
Found at i:6286392 original size:22 final size:21
Alignment explanation
Indices: 6286358--6286474 Score: 73
Period size: 21 Copynumber: 5.5 Consensus size: 21
6286348 TCAGGTTTTT
6286358 TTTTCATT-TTATTTTTATTTA
1 TTTT-ATTATTATTTTTATTTA
*
6286379 TTATTATTATTATTATTTATTGA
1 TT-TTATTATTATT-TTTATTTA
** *
6286402 TTAAATTA-TATTTGTT-TAATA
1 TTTTATTATTATTT-TTAT-TTA
*
6286423 CTTTTATT-TTATTTTTCTTTA
1 -TTTTATTATTATTTTTATTTA
* *
6286444 TTTTTATTTTTA-TTTTCTTTA
1 -TTTTATTATTATTTTTATTTA
6286465 TTTTATTATT
1 TTTTATTATT
6286475 TTATTTTCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
20 11 0.14
21 32 0.42
22 25 0.32
23 9 0.12
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTATTATTTTTATTTA
Found at i:6286394 original size:19 final size:20
Alignment explanation
Indices: 6286366--6286404 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6286356 TTTTTTCATT
*
6286366 TTATTTTTATTTATT-ATTA
1 TTATTATTATTTATTGATTA
6286385 TTATTATTATTTATTGATTA
1 TTATTATTATTTATTGATTA
6286405 AATTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTATTATTATTTATTGATTA
Found at i:6286409 original size:19 final size:19
Alignment explanation
Indices: 6286372--6286414 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6286362 CATTTTATTT
*
6286372 TTATTTATTATTATTATTA
1 TTATTTATTATTATAATTA
6286391 TTATTTATTGATTA-AATTA
1 TTATTTATT-ATTATAATTA
6286410 -TATTT
1 TTATTT
6286415 GTTTAATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 13 0.59
20 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTTATTATTATAATTA
Found at i:6286434 original size:5 final size:5
Alignment explanation
Indices: 6286424--6286481 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
6286414 TGTTTAATAC
*
6286424 TTTTA TTTTA TTTT- TCTTTA TTTTTA TTTTTA TTTT- CTTTA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA
6286470 --TTA TTTTA TTTT
1 TTTTA TTTTA TTTT
6286482 CTTTAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
3 3 0.07
4 4 0.09
5 27 0.60
6 10 0.22
7 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:6286450 original size:21 final size:22
Alignment explanation
Indices: 6286424--6286486 Score: 87
Period size: 21 Copynumber: 2.9 Consensus size: 22
6286414 TGTTTAATAC
6286424 TTTTATTTTATTTTTCTTTA-T
1 TTTTATTTTATTTTTCTTTATT
6286445 TTTTATTTT-TATTTTCTTTATT
1 TTTTATTTTAT-TTTTCTTTATT
6286467 TTATTATTTTA-TTTTCTTTA
1 TT-TTATTTTATTTTTCTTTA
6286487 AATAAAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.03
21 18 0.47
22 12 0.32
23 7 0.18
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTATTTTATTTTTCTTTATT
Found at i:6286476 original size:22 final size:20
Alignment explanation
Indices: 6286424--6286486 Score: 90
Period size: 22 Copynumber: 3.0 Consensus size: 20
6286414 TGTTTAATAC
6286424 TTTTATTTTATTTTTCTTTAT
1 TTTTATTTTA-TTTTCTTTAT
6286445 TTTTATTTTTATTTTCTTTATT
1 TTTTA-TTTTATTTTCTTTA-T
6286467 TTATTATTTTATTTTCTTTA
1 TT-TTATTTTATTTTCTTTA
6286487 AATAAAATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
21 14 0.36
22 22 0.56
23 3 0.08
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTATTTTCTTTAT
Found at i:6286579 original size:57 final size:56
Alignment explanation
Indices: 6286508--6286720 Score: 237
Period size: 57 Copynumber: 3.7 Consensus size: 56
6286498 AAAAATATAT
6286508 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
* * * * * *
6286564 AGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTCCAAAAAATGA
1 A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC-AAAAA--A
* * * * * *
6286625 ATTTTTTGAGGAAAAGTTGAAAATATCGATTTTTCTTAGAAACAAGTTTTCAAAAGTGA
1 A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAA--AA
*
6286684 ATTTTTGAGGAAAAGTTGAAAGTAGCAATTTTTCTTA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
6286721 CATAAAAGCA
Statistics
Matches: 128, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
56 1 0.01
57 39 0.30
58 37 0.29
59 11 0.09
60 4 0.03
61 36 0.28
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (56 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA
Found at i:6286642 original size:30 final size:29
Alignment explanation
Indices: 6286607--6286700 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 29
6286597 CCTTGAAATT
6286607 AAAGTTTCCAAAAAATGAATTTTTTGAGGA
1 AAAGTTT-CAAAAAATGAATTTTTTGAGGA
* * * *
6286637 AAAG-TTGAAAATATCG-ATTTTTCTTAGAA
1 AAAGTTTCAAAAAAT-GAATTTTT-TGAGGA
*
6286666 ACAAGTTTTC-AAAAGTGAA-TTTTTGAGGA
1 A-AAG-TTTCAAAAAATGAATTTTTTGAGGA
6286695 AAAGTT
1 AAAGTT
6286701 GAAAGTAGCA
Statistics
Matches: 49, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
27 2 0.04
28 15 0.31
29 13 0.27
30 12 0.24
31 5 0.10
32 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.35
Consensus pattern (29 bp):
AAAGTTTCAAAAAATGAATTTTTTGAGGA
Found at i:6286642 original size:118 final size:119
Alignment explanation
Indices: 6286496--6286715 Score: 311
Period size: 118 Copynumber: 1.8 Consensus size: 119
6286486 AAATAAAATT
* *
6286496 CAAAAAATATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
1 CAAAAAATATATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAAACAAATTTTCAAA
*
6286561 A-AAAGGTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAGTTTC
66 AGAAA-GTTTTGAGAAAAAGTTGAAAGTAGCAATTTTCCTTGAAATTAAAGTTTC
* * *
6286615 CAAAAAATGA-AT-TTTTTGAGGAAAAGTTGAAAATATCGATTTTTCTTAGAAACAAGTTTTCAA
1 CAAAAAAT-ATATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAAACAAATTTTCAA
* * *
6286678 AAGTGAATTTTTGAGGAAAAGTTGAAAGTAGCAATTTT
65 AAG-AAAGTTTTGAGAAAAAGTTGAAAGTAGCAATTTT
6286716 TCTTACATAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
118 48 0.54
119 38 0.43
120 3 0.03
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.35
Consensus pattern (119 bp):
CAAAAAATATATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAAAACAAATTTTCAAA
AGAAAGTTTTGAGAAAAAGTTGAAAGTAGCAATTTTCCTTGAAATTAAAGTTTC
Found at i:6286700 original size:58 final size:58
Alignment explanation
Indices: 6286509--6286720 Score: 243
Period size: 58 Copynumber: 3.6 Consensus size: 58
6286499 AAAATATATA
* *
6286509 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA-AAAATAAATTTTCAAAA-AAAG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAA-AAGTTTTCAAAATGAAG
* * * * *
6286566 GTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-GAAATTAAAGTTTCCAAAAAATGAAT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA--AAAGTTTTC--AAAATGAAG
* * *
6286627 TTTTTGAGGAAAAGTTGAAAATATCGATTTTTCTTAGAAACAAGTTTTCAAAAGTGAA-
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAAAAGTTTTCAAAA-TGAAG
*
6286685 TTTTTGAGGAAAAGTTGAAAGTAGCAATTTTTCTTA
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTA
6286721 CATAAAAGCA
Statistics
Matches: 130, Mismatches: 17, Indels: 15
0.80 0.10 0.09
Matches are distributed among these distances:
57 35 0.27
58 43 0.33
59 5 0.04
60 11 0.08
61 32 0.25
62 4 0.03
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.37
Consensus pattern (58 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAAAAGTTTTCAAAATGAAG
Found at i:6286716 original size:28 final size:28
Alignment explanation
Indices: 6286624--6286716 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
6286614 CCAAAAAATG
* *
6286624 AATTTTTTGAGGAAAAGTTGAAAATATC
1 AATTTTTTGAGGAAAAGTTGAAAGTAGC
* * * *
6286652 GATTTTTCTTAGAAACAAGTTTTCAAAAGT-G-
1 AATTTTT-TGAGGAA-AAG--TT-GAAAGTAGC
6286683 AA-TTTTTGAGGAAAAGTTGAAAGTAGC
1 AATTTTTTGAGGAAAAGTTGAAAGTAGC
6286710 AATTTTT
1 AATTTTT
6286717 CTTACATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 16
0.64 0.14 0.22
Matches are distributed among these distances:
25 5 0.11
26 3 0.06
27 2 0.04
28 13 0.28
29 10 0.21
30 7 0.15
31 1 0.02
32 2 0.04
33 4 0.09
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (28 bp):
AATTTTTTGAGGAAAAGTTGAAAGTAGC
Found at i:6290675 original size:14 final size:14
Alignment explanation
Indices: 6290656--6290709 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
6290646 TGAATAAAAA
6290656 ATGAAAAAAAAATG
1 ATGAAAAAAAAATG
6290670 ATGAAAAAAAAA-G
1 ATGAAAAAAAAATG
* *
6290683 AAAGAAGAAAAAATG
1 -ATGAAAAAAAAATG
*
6290698 A-GAAAATAAAAT
1 ATGAAAAAAAAAT
6290710 TGAAAACCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 10 0.29
14 23 0.68
15 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (14 bp):
ATGAAAAAAAAATG
Found at i:6292374 original size:42 final size:42
Alignment explanation
Indices: 6292325--6292429 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
6292315 GATTGTTAAT
* * *
6292325 GAGCAATTTATTTTTCAAAAGTT-TCGTTGCCTTTGTTTAGAA-
1 GAGCAATTTATTTTTCAAAAGTTGT-GGTGCCTCTGATTA-AAG
**
6292367 GAGCAATTTGCTTTTC-AAAGTTGTGGTGCCTCTGATTAAAG
1 GAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGATTAAAG
6292408 GAGTC-ATTTATTTTTCAAAAGT
1 GAG-CAATTTATTTTTCAAAAGT
6292430 CGTTGAACCT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
40 2 0.04
41 29 0.56
42 21 0.40
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (42 bp):
GAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTGATTAAAG
Found at i:6292477 original size:11 final size:10
Alignment explanation
Indices: 6292461--6292498 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
6292451 AGCTTTGATC
*
6292461 AAAATTTAAA
1 AAAAATTAAA
6292471 AAAAATTAAA
1 AAAAATTAAA
*
6292481 AAAAATAAAA
1 AAAAATTAAA
6292491 AAAAATTA
1 AAAAATTA
6292499 CCTCTGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:6292628 original size:42 final size:42
Alignment explanation
Indices: 6292520--6292628 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
6292510 AGGAGCTTTG
* * *
6292520 TTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGATGAGCCA
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGACTAGATGAGCCA
* *
6292562 TTTATTTTTCAAAAGTCATTGAGCCTCTGACTAGATGAGTCA
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGACTAGATGAGCCA
6292604 TTTATTTTTC-AAAGTCGTTGGAGCC
1 TTTATTTTTCAAAAGTCGTT-GAGCC
6292629 ATTTATTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 8 0.13
42 52 0.87
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (42 bp):
TTTATTTTTCAAAAGTCGTTGAGCCTCTGACTAGATGAGCCA
Found at i:6292652 original size:25 final size:25
Alignment explanation
Indices: 6292597--6292653 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
6292587 TCTGACTAGA
*
6292597 TGAGTCATTTATTTTTCAAAGTCGT
1 TGAGCCATTTATTTTTCAAAGTCGT
6292622 TGGAGCCATTTATTTTTCAAAGTCGT
1 T-GAGCCATTTATTTTTCAAAGTCGT
6292648 TGAGCC
1 TGAGCC
6292654 TCTGATTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (25 bp):
TGAGCCATTTATTTTTCAAAGTCGT
Found at i:6292660 original size:109 final size:108
Alignment explanation
Indices: 6292520--6292736 Score: 298
Period size: 109 Copynumber: 2.0 Consensus size: 108
6292510 AGGAGCTTTG
* * *
6292520 TTTATTTTTCAAAAGTTGTTGAGCCTTTGATTAGATGAGCCATTTATTTTTCAAAAGTCATTGAG
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTC-AAAGTCATTGAG
6292585 CCTCTGACTAGATG-AGTCATTTA-T-TTTTCAAAGTCGTTGGAGCCA
65 CCTCTGACTAGA-GAAG-C-TTTATTATTTTCAAAGTCGTT-GAGCCA
* *
6292630 TTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTCAAAGTCGTTGAGC
1 TTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGC
*
6292694 CTCTGATTAGAGAAGCTTTATTCATTTTCAAAGTCGTTGAGCC
66 CTCTGACTAGAGAAGCTTTATT-ATTTTCAAAGTCGTTGAGCC
6292737 TCTAATTAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
106 4 0.04
107 3 0.03
108 29 0.30
109 51 0.53
110 10 0.10
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (108 bp):
TTTATTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGC
CTCTGACTAGAGAAGCTTTATTATTTTCAAAGTCGTTGAGCCA
Found at i:6292668 original size:41 final size:42
Alignment explanation
Indices: 6292623--6292797 Score: 205
Period size: 41 Copynumber: 4.1 Consensus size: 42
6292613 CAAAGTCGTT
6292623 GGAGCCATTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGA
1 GGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGA
*
6292664 GGAGCCGTTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGA
1 GGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGA
* * *
6292705 GAAG-C-TTTATTCATTTTCAAAGTCGTTGAGCCTCTAATTAAA
1 GGAGCCATTTATT--TTTTCAAAGTCGTTGAGCCTCTGATTAGA
* * *
6292747 GGAGCATTATTTATGTTTTTCAAAAGTTGTTGAGCCTCTGCTTAGA
1 GGAGC--CATTTAT-TTTTTC-AAAGTCGTTGAGCCTCTGATTAGA
6292793 GGAGC
1 GGAGC
6292798 TTTGATCAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
39 4 0.03
40 2 0.02
41 43 0.37
42 30 0.26
45 5 0.04
46 30 0.26
47 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (42 bp):
GGAGCCATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGA
Found at i:6292675 original size:67 final size:67
Alignment explanation
Indices: 6292555--6292694 Score: 219
Period size: 67 Copynumber: 2.1 Consensus size: 67
6292545 TTTGATTAGA
* *
6292555 TGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGACTAGATGAGTCATTTATTTTTCAAAGTC
1 TGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGACTAGAGGAGCCATTTATTTTTCAAAGTC
6292620 GT
66 GT
* * *
6292622 TGGAGCCATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTCAAAGT
1 T-GAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGACTAGAGGAGCCATTTATTTTTCAAAGT
6292686 CGT
65 CGT
6292689 TGAGCC
1 TGAGCC
6292695 TCTGATTAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
66 5 0.07
67 46 0.69
68 16 0.24
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (67 bp):
TGAGCCATTTATTTTTCAAAAGTCATTGAGCCTCTGACTAGAGGAGCCATTTATTTTTCAAAGTC
GT
Found at i:6292731 original size:83 final size:86
Alignment explanation
Indices: 6292635--6292800 Score: 230
Period size: 83 Copynumber: 1.9 Consensus size: 86
6292625 AGCCATTTAT
* * *
6292635 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC-CGTTTA-TTTTTC-AAAGTCGTTGAGCCTC
1 TTTTCAAAGTCGTTGAGCCTCTAATTAAAGGAGCACATTTAGTTTTTCAAAAGTCGTTGAGCCTC
6292697 TGATTAGAGAAGCTTTATTCA
66 TGATTAGAGAAGCTTTATTCA
* *
6292718 TTTTCAAAGTCGTTGAGCCTCTAATTAAAGGAGCATTATTTATGTTTTTCAAAAGTTGTTGAGCC
1 TTTTCAAAGTCGTTGAGCCTCTAATTAAAGGAGCA-CATTTA-GTTTTTCAAAAGTCGTTGAGCC
* *
6292783 TCTGCTTAGAGGAGCTTT
64 TCTGATTAGAGAAGCTTT
6292801 GATCAAATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
83 32 0.45
85 4 0.06
87 6 0.08
88 29 0.41
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (86 bp):
TTTTCAAAGTCGTTGAGCCTCTAATTAAAGGAGCACATTTAGTTTTTCAAAAGTCGTTGAGCCTC
TGATTAGAGAAGCTTTATTCA
Found at i:6292735 original size:42 final size:41
Alignment explanation
Indices: 6292635--6292800 Score: 192
Period size: 42 Copynumber: 3.9 Consensus size: 41
6292625 AGCCATTTAT
6292635 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTTA-T-
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-C-TTTATTA
*
6292676 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGAAGCTTTATTCA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATT-A
* * *
6292718 TTTTCAAAGTCGTTGAGCCTCTAATTAAAGGAGCATTATTTA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTA-TTA
* *
6292760 TGTTTTTCAAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
1 ---TTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
6292801 GATCAAATCT
Statistics
Matches: 107, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
39 4 0.04
40 2 0.02
41 32 0.30
42 35 0.33
43 2 0.02
45 5 0.05
46 27 0.25
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.39
Consensus pattern (41 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTA
Found at i:6293006 original size:12 final size:12
Alignment explanation
Indices: 6292984--6293021 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6292974 GTCCACTTTG
*
6292984 TTTTTTTTTAT-
1 TTTTATTTTATA
6292995 TTTGTATTTTATA
1 TTT-TATTTTATA
6293008 TTTTATTTTATA
1 TTTTATTTTATA
6293020 TT
1 TT
6293022 ATATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:6293013 original size:19 final size:21
Alignment explanation
Indices: 6292989--6293032 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
6292979 CTTTGTTTTT
*
6292989 TTTTATTTTGTATT-T-TATA
1 TTTTATTTTATATTATATATA
6293008 TTTTATTTTATATTATATATA
1 TTTTATTTTATATTATATATA
6293029 TTTT
1 TTTT
6293033 TTCTTTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATTTTATATTATATATA
Found at i:6293129 original size:24 final size:22
Alignment explanation
Indices: 6293091--6293149 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
6293081 AATGTATGTT
* *
6293091 TTTATCTGTTAATATATTTATATA
1 TTTATCTATTAATAT-GTTAT-TA
*
6293115 TTTATCTATTTATATGTTATTA
1 TTTATCTATTAATATGTTATTA
*
6293137 TTTATCTGTTAAT
1 TTTATCTATTAAT
6293150 TATTGTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 13 0.43
23 4 0.13
24 13 0.43
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTATCTATTAATATGTTATTA
Found at i:6293152 original size:18 final size:18
Alignment explanation
Indices: 6293108--6293169 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
6293098 GTTAATATAT
6293108 TTATATATTTATCTATTTATA
1 TTAT-TATTTATCTA-TTA-A
*
6293129 TGTTATTATTTATCTGTTAA
1 --TTATTATTTATCTATTAA
*
6293149 TTATTGTTTATCTATTAA
1 TTATTATTTATCTATTAA
6293167 TTA
1 TTA
6293170 ATTTATTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 19 0.53
20 1 0.03
21 3 0.08
22 9 0.25
23 4 0.11
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
TTATTATTTATCTATTAA
Found at i:6293190 original size:26 final size:27
Alignment explanation
Indices: 6293113--6293212 Score: 73
Period size: 26 Copynumber: 3.6 Consensus size: 27
6293103 TATATTTATA
* *
6293113 TATTTATCTATTTATATGTTATT-ATT
1 TATTTATCTATTTTTATATTATTAATT
6293139 TATCTGTTAAT-TATTGTTTATCTATTAATTAATT
1 TA--T-TT-ATCTATT-TTTA--TATT-ATTAATT
*
6293173 TA-TTATCT-TTTTTATATTATTTATT
1 TATTTATCTATTTTTATATTATTAATT
6293198 TATTTATCTATTTTT
1 TATTTATCTATTTTT
6293213 TTTCCTTCAA
Statistics
Matches: 59, Mismatches: 3, Indels: 23
0.69 0.04 0.27
Matches are distributed among these distances:
25 8 0.14
26 12 0.20
27 5 0.08
28 5 0.08
29 10 0.17
30 8 0.14
32 3 0.05
33 3 0.05
34 5 0.08
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (27 bp):
TATTTATCTATTTTTATATTATTAATT
Found at i:6293410 original size:14 final size:14
Alignment explanation
Indices: 6293387--6293416 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6293377 ATAGGTACTG
*
6293387 GAACAGAGAGAAAA
1 GAACACAGAGAAAA
6293401 GAACACAGAGAAAA
1 GAACACAGAGAAAA
6293415 GA
1 GA
6293417 TTTAAAAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.27, T:0.00
Consensus pattern (14 bp):
GAACACAGAGAAAA
Found at i:6293749 original size:20 final size:21
Alignment explanation
Indices: 6293713--6293764 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
6293703 ATCCAAAATT
6293713 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
6293733 AATATAAATATTATTTTTT-A
1 AATATAAATATTATTTTTTAA
6293753 AATATAAATATT
1 AATATAAATATT
6293765 TAAAAATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:6293813 original size:12 final size:12
Alignment explanation
Indices: 6293798--6293830 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6293788 ATATATATAC
6293798 ATAAATAATTAA
1 ATAAATAATTAA
*
6293810 ATAATTAATTAA
1 ATAAATAATTAA
6293822 A-AAATAATT
1 ATAAATAATT
6293831 TTTTATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAATAATTAA
Done.