Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_pilon, 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: 3030620
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:2220945 original size:44 final size:44
Alignment explanation
Indices: 2220872--2220967 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
2220862 TTTTAAAAGC
*
2220872 TATATAT-TAGATATATTTACAAAATATTTTAAAAACTATATAA
1 TATATATATAGATATATTCACAAAATATTTTAAAAACTATATAA
* * *
2220915 TATATATATATATATATTCA-AAAATCATTTTCAAAGCTATATAA
1 TATATATATAGATATATTCACAAAAT-ATTTTAAAAACTATATAA
2220959 TATATATAT
1 TATATATAT
2220968 TTTAAAAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 12 0.26
44 35 0.74
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (44 bp):
TATATATATAGATATATTCACAAAATATTTTAAAAACTATATAA
Found at i:2220968 original size:80 final size:75
Alignment explanation
Indices: 2220817--2220969 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 75
2220807 CTTTTTTAAA
* *
2220817 AAAATGTTTTAAAAACTATATATTATATATAAGTTTTCAAAAATATTTTAAAAGCTATATATTAG
1 AAAATATTTTAAAAACTATATATTATATATAAGTTTTCAAAAATATTTTAAAAGCTATATAATAG
2220882 ATATATTTAC
66 ATATATTTAC
*
2220892 AAAATATTTTAAAAACTATATAATATATATATATA-TATATTCAAAAATCATTTTCAAAGCTATA
1 AAAATATTTTAAAAACTATAT-AT-TATATATA-AGT-T-TTCAAAAAT-ATTTTAAAAGCTATA
*
2220956 TAATATATATATTT
60 TAATAGATATATTT
2220970 TAAAAAACTA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
75 20 0.29
76 2 0.03
77 9 0.13
78 2 0.03
79 9 0.13
80 26 0.38
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (75 bp):
AAAATATTTTAAAAACTATATATTATATATAAGTTTTCAAAAATATTTTAAAAGCTATATAATAG
ATATATTTAC
Found at i:2221088 original size:2 final size:2
Alignment explanation
Indices: 2221081--2221105 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2221071 ATATTAATAC
2221081 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 A
2221106 ATAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2222003 original size:86 final size:86
Alignment explanation
Indices: 2221763--2222936 Score: 1374
Period size: 86 Copynumber: 13.8 Consensus size: 86
2221753 ATGTGTCATC
* * * * ** ** *
2221763 GAGCTGAATGGAATCGAACTCGACA-GT-TTTTGTTGACAGATAGCTTTTCTCAACTTAAGCTAT
1 GAGCTGAGTGTAATCAAACTCGA-AGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
* ** *
2221826 GCTGTGAATTTGACATGCCCTT
65 GCTGTAAATTTGATGTGCCTTT
* * * * * * * *
2221848 AAGCTGAATGGAATCAAACTCGAAGGTATTTT-TTGATAGATAACCCTTCTCGTCTTGAGTTATA
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
2221912 CTGTAAATTTGATGTGCCTTT
66 CTGTAAATTTGATGTGCCTTT
* *
2221933 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCTCCTTGAGTTATG
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* *
2221998 TTGTAAATTTAATGTGCCTTT
66 CTGTAAATTTGATGTGCCTTT
* * * * *
2222019 GAGCTGAGTGTAATCAAACTCGAAGGTC-TTGGTTGACAAATAACCCTTCTCACCTTGAGTTATA
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
2222083 CTG---A--TG-TGT--CTTT
66 CTGTAAATTTGATGTGCCTTT
* * * * * *
2222096 GAGCTGGGTGTAATCAAACTTGAAGGTCTTTTGTTGACAGATAGCCCTTCTAGGCTTGAGCTATT
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
2222161 CTGTAAATTTGATGTGCCTTT
66 CTGTAAATTTGATGTGCCTTT
* * * * *
2222182 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACATATAACCCTTCTTGCCTTGAGTTATG
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* * *
2222246 TTGTAAATTGGATGTGTCTTT
66 CTGTAAATTTGATGTGCCTTT
* * * *
2222267 GAGCTGAGTGTAATCTAACTCAAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTTAGTTATG
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
2222332 CTGTAAATTTGATATGCCTTT
66 CTGTAAATTTGATGTGCCTTT
* * * * *
2222353 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCTCCTTGAGTTATA
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
2222417 CTGTAAA-TTGAATGTGCCTTT
66 CTGTAAATTTG-ATGTGCCTTT
* * * *
2222438 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTCATAGATAGCCCTTCTCGCCTTGAGCTATT
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
2222503 CTGTAAATTGGATGTGCCTTT
66 CTGTAAATTTGATGTGCCTTT
* * * * * * * *
2222524 GAGTTGAGTGTAGTCGAACTCGAAAGTCTTTTGTTGATAGATAGCCCTTATCTCCTTGAGCTATG
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
2222589 CTATAAATTTGATGTGCCTTT
66 CTGTAAATTTGATGTGCCTTT
* * *
2222610 GAGCTGAGTGTAATCGAACTCAAAGGTCTTTTTTTGACAGATAACCCCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAA-CCCTTCTCGCCTTGAGCTAT
2222675 GCTGTAAATTTGATGTGCCTTT
65 GCTGTAAATTTGATGTGCCTTT
* * * * * *
2222697 GAGCTGAGTGTAA-CTGAACTCGAAGTTC-TTAGTTAACAGATAACCCTTCTCGCCTTGGGTTAT
1 GAGCTGAGTGTAATC-AAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
* * *
2222760 GCTGTAAATTGGATATACCTTT
65 GCTGTAAATTTGATGTGCCTTT
* * * ** * *
2222782 GAGTTGAGTGTAATCAAACTCAAAGGTCTTTTGTTAACAGATAGTCATTCTCTCCTTGAGCTATG
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
2222847 CTGTAAATTTGATGTGCGTTT
66 CTGTAAATTTGATGTGCCTTT
* * *
2222868 GAGCTGAGTGTAATCAAACTTGAAGGCCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
2222933 CTGT
66 CTGT
2222937 CAATATTTCC
Statistics
Matches: 936, Mismatches: 133, Indels: 39
0.84 0.12 0.04
Matches are distributed among these distances:
77 30 0.03
78 31 0.03
79 3 0.00
80 1 0.00
81 1 0.00
82 1 0.00
83 2 0.00
84 7 0.01
85 332 0.35
86 463 0.49
87 65 0.07
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (86 bp):
GAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
CTGTAAATTTGATGTGCCTTT
Found at i:2222040 original size:171 final size:171
Alignment explanation
Indices: 2221790--2222936 Score: 1414
Period size: 171 Copynumber: 6.7 Consensus size: 171
2221780 ACTCGACAGT
* ** ** * * ** * *
2221790 TTTTGTTGACAGATAGCTTTTCTCAACTTAAGCTATGCTGTGAATTTGACATGCCCTTAAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* * * * ** * * *
2221855 ATGGAATCAAACTCGAAGGTATTTTTTGATAGATAACCCTTCTCGTCTTGAGTTATACTGTAAAT
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
*
2221920 TTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC
131 TTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
* * * *
2221961 TTTTGTTGACAGATAACCCTTCTCTCCTTGAGTTATGTTGTAAATTTAATGTGCCTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* * * *
2222026 GTGTAATCAAACTCGAAGGTCTTGGTTGACAAATAACCCTTCTCACCTTGAGTTATACTG---A-
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* **
2222087 -TG-TGT--CTTTGAGCTGGGTGTAATCAAACTTGAAGGTC
131 TTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
* * * *
2222124 TTTTGTTGACAGATAGCCCTTCTAGGCTTGAGCTATTCTGTAAATTTGATGTGCCTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* * *
2222189 GTGTAATCGAACTCGAAGGTCTTGGTTGACATATAACCCTTCTTGCCTTGAGTTATGTTGTAAAT
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
* * *
2222254 TGGATGTGTCTTTGAGCTGAGTGTAATCTAACTCAAAGGTC
131 TTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
* * *
2222295 TTTTGTTGACAGATAACCCTTCTCGCCTTTAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* *
2222360 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCTCCTTGAGTTATACTGTAAA-
66 GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
*
2222424 TTGAATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC
131 TTG-ATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
* * * * * *
2222466 TTTTGTTCATAGATAGCCCTTCTCGCCTTGAGCTATTCTGTAAATTGGATGTGCCTTTGAGTTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* * * * * * * * *
2222531 GTGTAGTCGAACTCGAAAGTCTTTTGTTGATAGATAGCCCTTATCTCCTTGAGCTATGCTATAAA
66 GTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA
*
2222596 TTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTC
130 TTTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
*
2222638 TTTTTTTGACAGATAACCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTG
1 TTTTGTTGACAGATAA-CCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTG
* * * *
2222703 AGTGTAA-CTGAACTCGAAGTTCTTAGTTAACAGATAACCCTTCTCGCCTTGGGTTATGCTGTAA
65 AGTGTAATC-GAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAA
* * * *
2222767 ATTGGATATACCTTTGAGTTGAGTGTAATCAAACTCAAAGGTC
129 ATTTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
* ** * * *
2222810 TTTTGTTAACAGATAGTCATTCTCTCCTTGAGCTATGCTGTAAATTTGATGTGCGTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
* * * * * *
2222875 GTGTAATCAAACTTGAAGGCCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGT
66 GTGTAATCGAACTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
2222937 CAATATTTCC
Statistics
Matches: 841, Mismatches: 120, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
163 141 0.17
165 3 0.00
166 3 0.00
168 2 0.00
169 3 0.00
170 2 0.00
171 417 0.50
172 205 0.24
173 65 0.08
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (171 bp):
TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGA
GTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAAT
TTGATGTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTC
Found at i:2224345 original size:96 final size:96
Alignment explanation
Indices: 2224181--2224364 Score: 307
Period size: 96 Copynumber: 1.9 Consensus size: 96
2224171 GCTCAATATT
*
2224181 ATAATCACCTTTATCAGGCTAGCTGACTCTTATCCATAAAGCTGGGGCGCTTAACCAATTGCATT
1 ATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGCTTAACCAATTGCATT
*
2224246 AGAGGGACAGCTCAAGCTTTATTGTATTAAA
66 AGAGGGACAGATCAAGCTTTATTGTATTAAA
* *
2224277 ATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTTC-TC
1 ATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGCTTAACCAATTGCAT-
*
2224341 TAGAGGGATAGATCAAGCTTTATT
65 TAGAGGGACAGATCAAGCTTTATT
2224365 ATATATATAT
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
95 1 0.01
96 81 0.99
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (96 bp):
ATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGCTTAACCAATTGCATT
AGAGGGACAGATCAAGCTTTATTGTATTAAA
Found at i:2227082 original size:26 final size:27
Alignment explanation
Indices: 2227053--2227112 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
2227043 TAATAACAAT
*
2227053 AATAAATCAAA-AGAATGAAAGATA-AA
1 AATAAATCAAATA-AATGAAAAATATAA
*
2227079 AATAAAT-AAATAAATGAAAAATATTA
1 AATAAATCAAATAAATGAAAAATATAA
2227105 AATAAATC
1 AATAAATC
2227113 CAAGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (27 bp):
AATAAATCAAATAAATGAAAAATATAA
Found at i:2227109 original size:22 final size:22
Alignment explanation
Indices: 2227081--2227128 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2227071 AAGATAAAAA
2227081 TAAATAAAT-AAATGAAAAATAT
1 TAAATAAATCAAA-GAAAAATAT
* *
2227103 TAAATAAATCCAAGAAAAATGT
1 TAAATAAATCAAAGAAAAATAT
2227125 TAAA
1 TAAA
2227129 ATGTAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAATAAATCAAAGAAAAATAT
Found at i:2228394 original size:22 final size:22
Alignment explanation
Indices: 2228358--2228414 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
2228348 AAACAAAGAA
* * *
2228358 AAAATAA-AAATAAATATTGAT
1 AAAATAATAAAAAAATACTAAT
2228379 AAAATAATAAAAAAATACTAAT
1 AAAATAATAAAAAAATACTAAT
2228401 AATAA-AATAAAAAA
1 AA-AATAATAAAAAA
2228415 TGTTTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 22 0.71
23 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAATAATAAAAAAATACTAAT
Found at i:2228487 original size:38 final size:37
Alignment explanation
Indices: 2228408--2228598 Score: 205
Period size: 36 Copynumber: 5.2 Consensus size: 37
2228398 AATAATAAAA
*
2228408 TAAAAAATGTTTCAAAAACTATATAATAT-T-TATTT
1 TAAAAAATGTTTTAAAAACTATATAATATATATATTT
*
2228443 TCAAAAAATGTTTTTAAAAAATATATAATATATATATTT
1 T-AAAAAATG-TTTTAAAAACTATATAATATATATATTT
*
2228482 T-AAAAATGTTTTAAAAACTATATATTATATATATTT
1 TAAAAAATGTTTTAAAAACTATATAATATATATATTT
* * *
2228518 T-CAAAATGTTTTAAAAATTGTATAATATATATATTTTT
1 TAAAAAATGTTTTAAAAACTATATAATATATATA--TTT
* * * *
2228556 TCAAAAATCATTTTCAAAGCTATAT-AT-TATATATTT
1 TAAAAAAT-GTTTTAAAAACTATATAATATATATATTT
2228592 TAAAAAA
1 TAAAAAA
2228599 AACCGATTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
35 1 0.01
36 72 0.54
37 25 0.19
38 11 0.08
39 13 0.10
40 11 0.08
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (37 bp):
TAAAAAATGTTTTAAAAACTATATAATATATATATTT
Found at i:2228708 original size:2 final size:2
Alignment explanation
Indices: 2228701--2228747 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
2228691 CACTATATTA
2228701 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2228742 A- AT AT A
1 AT AT AT A
2228748 ATAAAAAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2231005 original size:34 final size:30
Alignment explanation
Indices: 2230927--2231007 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 30
2230917 GATTTTCATA
2230927 AAATAAATAAATATTATTTATATATATTTAT
1 AAAT-AATAAATATTATTTATATATATTTAT
2230958 AAGACTTAGATAAATATTATTTATATATATATTGACAT
1 AA-A--TA-ATAAATATTATTTATATATAT-TT---AT
2230996 AAATAATAAATA
1 AAATAATAAATA
2231008 ATAATAGTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
31 2 0.05
32 1 0.02
33 1 0.02
34 29 0.69
35 4 0.10
37 1 0.02
38 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (30 bp):
AAATAATAAATATTATTTATATATATTTAT
Found at i:2231045 original size:16 final size:16
Alignment explanation
Indices: 2231021--2231051 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2231011 ATAGTAATAC
*
2231021 TAATGATAAATATATA
1 TAATCATAAATATATA
2231037 TAATCATAAATATAT
1 TAATCATAAATATAT
2231052 GAAAGTAAAA
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:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
TAATCATAAATATATA
Found at i:2232505 original size:25 final size:26
Alignment explanation
Indices: 2232459--2232508 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2232449 CATTTGGGCT
*
2232459 CTGTTGGGCTATCTGAAGTTGGGTCA
1 CTGTTGGGCCATCTGAAGTTGGGTCA
2232485 CTGTTGGGCCATCTGAA-TTGGGTC
1 CTGTTGGGCCATCTGAAGTTGGGTC
2232509 TGGAACTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.14, C:0.18, G:0.34, T:0.34
Consensus pattern (26 bp):
CTGTTGGGCCATCTGAAGTTGGGTCA
Found at i:2232553 original size:3 final size:3
Alignment explanation
Indices: 2232545--2232601 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
2232535 GGCCTGTTTG
**
2232545 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
2232590 TAA TAA TAA TAA
1 TAA TAA TAA TAA
2232602 CAAATAAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2232571 original size:21 final size:21
Alignment explanation
Indices: 2232545--2232608 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
2232535 GGCCTGTTTG
**
2232545 TAATAATAATAATTTTAATAA
1 TAATAATAATAATTAAAATAA
*
2232566 TAATAATAATAAATAAAATAA
1 TAATAATAATAATTAAAATAA
*
2232587 TAATAATAATAATAACAAATAA
1 TAATAATAATAATTA-AAATAA
2232609 ATAAAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 31 0.84
22 6 0.16
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAATAATAATAATTAAAATAA
Found at i:2232618 original size:12 final size:11
Alignment explanation
Indices: 2232560--2232627 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 11
2232550 ATAATAATTT
*
2232560 TAATAATAATAA
1 TAATAA-AAAAA
2232572 TAATAAATAAAA
1 TAATAAA-AAAA
*
2232584 TAATAATAATAA
1 TAATAA-AAAAA
*
2232596 TAAT-AACAAA
1 TAATAAAAAAA
2232606 TAAATAAAAAAA
1 T-AATAAAAAAA
2232618 TGAATAAAAA
1 T-AATAAAAA
2232628 TTAGTATCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 4 0.09
11 5 0.11
12 36 0.78
13 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (11 bp):
TAATAAAAAAA
Found at i:2237488 original size:2 final size:2
Alignment explanation
Indices: 2237483--2237536 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
2237473 TTCAAAAAAC
2237483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
2237524 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2237537 ATGTATAGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2237571 original size:37 final size:36
Alignment explanation
Indices: 2237528--2237761 Score: 286
Period size: 37 Copynumber: 6.6 Consensus size: 36
2237518 ATATATATAT
2237528 ATATATATAATGTATAGTTTTTGAAAATATTTTGAAA
1 ATATATATAAT-TATAGTTTTTGAAAATATTTTGAAA
* *
2237565 ACATATATAATGTATAGTTTTTGAAAACATTTTGAAA
1 ATATATATAAT-TATAGTTTTTGAAAATATTTTGAAA
2237602 ACT-TATAT-ATTATAG-TTTTGAAAATATTTTTGAAA
1 A-TATATATAATTATAGTTTTTGAAAATA-TTTTGAAA
* *
2237637 ATATATATAA-TATAGTTTTT-TAAACATTTTGAAA
1 ATATATATAATTATAGTTTTTGAAAATATTTTGAAA
* *
2237671 ATGTATATAA-TATAGTTTTTAAAAATATTTTGAAA
1 ATATATATAATTATAGTTTTTGAAAATATTTTGAAA
*
2237706 ATATATATAA-TATACATTTTTGAAAATATTTTTGAAA
1 ATATATATAATTATA-GTTTTTGAAAATA-TTTTGAAA
*
2237743 ATATATATTA-TATAGTTTT
1 ATATATATAATTATAGTTTT
2237762 AAAAACAATT
Statistics
Matches: 175, Mismatches: 14, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
34 38 0.22
35 53 0.30
36 22 0.13
37 62 0.35
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (36 bp):
ATATATATAATTATAGTTTTTGAAAATATTTTGAAA
Found at i:2237633 original size:35 final size:35
Alignment explanation
Indices: 2237531--2237806 Score: 221
Period size: 35 Copynumber: 7.8 Consensus size: 35
2237521 TATATATATA
* * *
2237531 TATATAATGTATAGTTTTTGAAAATA-TTTTGAAAACA
1 TATAT-ATATATAG-TTTTGAAAACATTTTTGAAAA-T
*
2237568 TATATAATGTATAGTTTTTGAAAACA-TTTTGAAAACT
1 TATAT-ATATATAG-TTTTGAAAACATTTTTGAAAA-T
*
2237605 TATATAT-TATAGTTTTGAAAATATTTTTGAAAA-
1 TATATATATATAGTTTTGAAAACATTTTTGAAAAT
**
2237638 TATATATAATATAGTTTTTTAAACA-TTTTGAAAAT
1 TATATAT-ATATAGTTTTGAAAACATTTTTGAAAAT
*
2237673 GTATATA-ATATAGTTTTTAAAA-ATATTTTGAAAAT
1 -TATATATATATAGTTTTGAAAACAT-TTTTGAAAAT
* * *
2237708 ATATATAATATACATTTTTGAAAATATTTTTGAAAA-
1 -TATAT-ATATATAGTTTTGAAAACATTTTTGAAAAT
* *
2237744 TATATATTATATAGTTTTAAAAACAATTTTT-AAAAA
1 TATATA-TATATAGTTTTGAAAAC-ATTTTTGAAAAT
* *
2237780 TATAT-TTTATATGGTTTGAAAACATTT
1 TATATATATATA-GTTTTGAAAACATTT
2237807 ATAAAAAAAC
Statistics
Matches: 207, Mismatches: 18, Indels: 31
0.81 0.07 0.12
Matches are distributed among these distances:
33 8 0.04
34 43 0.21
35 73 0.35
36 20 0.10
37 61 0.29
38 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (35 bp):
TATATATATATAGTTTTGAAAACATTTTTGAAAAT
Found at i:2237730 original size:106 final size:106
Alignment explanation
Indices: 2237528--2237784 Score: 317
Period size: 106 Copynumber: 2.4 Consensus size: 106
2237518 ATATATATAT
* *
2237528 ATATATATAATGTATAGTTTTTGAAAATATTTTGAAAACATATATAATGTATAGTTTTTGAAAAC
1 ATATATATAA--TATAGTTTTTGAAAACATTTTGAAAACATATATAA-GTATAGTTTTTAAAAAC
*
2237593 ATTTTGAAAACTTATATATTATAGTTTTGAAAATATTTTTGAAA
63 ATTTTGAAAACTTATATATTACAGTTTTGAAAATATTTTTGAAA
* ** *
2237637 ATATATATAATATAGTTTTT-TAAACATTTTGAAAATGTATATAA-TATAGTTTTTAAAAATATT
1 ATATATATAATATAGTTTTTGAAAACATTTTGAAAACATATATAAGTATAGTTTTTAAAAACATT
*
2237700 TTGAAAA-TATATATAATATACATTTTTGAAAATATTTTTGAAA
66 TTGAAAACT-TATAT-AT-TACAGTTTTGAAAATATTTTTGAAA
* * *
2237743 ATATATATTATATAG-TTTTAAAAACAATTTTTAAAA-ATATAT
1 ATATATATAATATAGTTTTTGAAAAC-ATTTTGAAAACATATAT
2237785 TTTATATGGT
Statistics
Matches: 131, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
103 1 0.01
104 29 0.22
105 6 0.05
106 66 0.50
107 19 0.15
109 10 0.08
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (106 bp):
ATATATATAATATAGTTTTTGAAAACATTTTGAAAACATATATAAGTATAGTTTTTAAAAACATT
TTGAAAACTTATATATTACAGTTTTGAAAATATTTTTGAAA
Found at i:2237812 original size:34 final size:35
Alignment explanation
Indices: 2237547--2237813 Score: 175
Period size: 34 Copynumber: 7.6 Consensus size: 35
2237537 ATGTATAGTT
* * * * *
2237547 TTTGAAAATATTTTGAAAACATATATAATGTATAGTT
1 TTTGAAAACATTTTTAAAA-ATATATATTATATAG-G
* * *
2237584 TTTGAAAACATTTTGAAAACT-TATA-TATTATAGT
1 TTTGAAAACATTTTTAAAAATATATATTA-TATAGG
* * * *
2237618 TTTGAAAATATTTTTGAAAATATATATAATATAGT
1 TTTGAAAACATTTTTAAAAATATATATTATATAGG
** * * * *
2237653 TTTTTAAACA-TTTTGAAAATGTATATAATATAGT
1 TTTGAAAACATTTTTAAAAATATATATTATATAGG
* * * **
2237687 TTTTAAAA-ATATTTTGAAAATATATATAATATACATT
1 TTTGAAAACAT-TTTT-AAAA-ATATATATTATATAGG
* * *
2237724 TTTGAAAATATTTTTGAAAATATATATTATATAGT
1 TTTGAAAACATTTTTAAAAATATATATTATATAGG
* *
2237759 TTTAAAAACAATTTTTAAAAATATATTTTATAT-GG
1 TTTGAAAAC-ATTTTTAAAAATATATATTATATAGG
*
2237794 TTTGAAAACATTTATAAAAA
1 TTTGAAAACATTTTTAAAAA
2237814 AACATATATG
Statistics
Matches: 190, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
33 1 0.01
34 59 0.31
35 59 0.31
36 29 0.15
37 40 0.21
38 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (35 bp):
TTTGAAAACATTTTTAAAAATATATATTATATAGG
Found at i:2239180 original size:8 final size:8
Alignment explanation
Indices: 2239169--2239202 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
2239159 TATTTTGTAT
2239169 TTTTTAAA
1 TTTTTAAA
2239177 TTTTTAAA
1 TTTTTAAA
2239185 TTTTT--A
1 TTTTTAAA
2239191 TTTTTAAA
1 TTTTTAAA
2239199 TTTT
1 TTTT
2239203 ATTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTAAA
Found at i:2239202 original size:13 final size:14
Alignment explanation
Indices: 2239176--2239209 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
2239166 TATTTTTTAA
2239176 ATTTTTAAATTTTT
1 ATTTTTAAATTTTT
2239190 ATTTTTAAA-TTTT
1 ATTTTTAAATTTTT
2239203 ATTTTTA
1 ATTTTTA
2239210 TTTCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTAAATTTTT
Found at i:2239225 original size:7 final size:7
Alignment explanation
Indices: 2239157--2239234 Score: 52
Period size: 7 Copynumber: 11.0 Consensus size: 7
2239147 TTATTTAAAC
2239157 TTTATTT
1 TTTATTT
*
2239164 TGTATTT
1 TTTATTT
2239171 TTTAAATTT
1 TTT--ATTT
* *
2239180 TTAAATT
1 TTTATTT
2239187 TTTA-TT
1 TTTATTT
**
2239193 TTTAAAT
1 TTTATTT
2239200 TTTA-TT
1 TTTATTT
2239206 TTTATTT
1 TTTATTT
**
2239213 CATATTT
1 TTTATTT
2239220 TTTATTT
1 TTTATTT
2239227 ATTTATTT
1 -TTTATTT
2239235 ATTTTTATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
6 11 0.20
7 31 0.56
8 7 0.13
9 6 0.11
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (7 bp):
TTTATTT
Found at i:2239241 original size:14 final size:14
Alignment explanation
Indices: 2239140--2239244 Score: 58
Period size: 14 Copynumber: 7.2 Consensus size: 14
2239130 TTTATTTTCT
2239140 TTTATTTTTATTTAAA
1 TTTATTTTTATTT--A
2239156 CTTTATTTTGTATTT-
1 -TTTATTTT-TATTTA
*
2239171 TTTAAATTTTTAAATT-
1 TTT--ATTTTT-ATTTA
**
2239187 TTTATTTTTAAAT-
1 TTTATTTTTATTTA
2239200 TTTATTTTTATTTCA
1 TTTATTTTTATTT-A
*
2239215 TAT-TTTTTATTTA
1 TTTATTTTTATTTA
2239228 TTTATTTATT-TTTA
1 TTTATTT-TTATTTA
2239242 TTT
1 TTT
2239245 TTGCAATCTT
Statistics
Matches: 74, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
13 17 0.23
14 28 0.38
15 5 0.07
16 11 0.15
17 8 0.11
18 5 0.07
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:2242027 original size:13 final size:13
Alignment explanation
Indices: 2241995--2242028 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
2241985 TAAGATTTTC
2241995 TTTGAAAATCATT
1 TTTGAAAATCATT
2242008 TTT-AAAATCATT
1 TTTGAAAATCATT
2242020 TTTGAAAAT
1 TTTGAAAAT
2242029 TACTCCCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
TTTGAAAATCATT
Found at i:2245078 original size:64 final size:64
Alignment explanation
Indices: 2244999--2245143 Score: 177
Period size: 64 Copynumber: 2.3 Consensus size: 64
2244989 AAATGAGCCT
* * * * **
2244999 GGAGTGCATCAATGCATG-GTCTGTGTATCGGTACATAAAATGCATTCGATGTTCAAAATATTCA
1 GGAGTGCATCGATGCATGCCT-TGTGCATCGGTACACAAAATGCATTCGAAATTCAAAATATTCA
**
2245063 GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACAAAATGCATTCGAAATTCAATTTATTCA
1 GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACAAAATGCATTCGAAATTCAAAATATTCA
*
2245127 -AAGGTGCATCGATGCAT
1 GGA-GTGCATCGATGCAT
2245144 TAGATGGTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
63 1 0.01
64 68 0.97
65 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (64 bp):
GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACAAAATGCATTCGAAATTCAAAATATTCA
Found at i:2252494 original size:321 final size:320
Alignment explanation
Indices: 2251912--2252874 Score: 1638
Period size: 321 Copynumber: 3.0 Consensus size: 320
2251902 TCTGATACCA
* *
2251912 CTAAATGTAACCCCCTCAAATCGATACGGATAGCCCGATCCGATCTGGAGTGTCACATTAGGGCC
1 CTAAATGTAACCCCCTCAAACCGATGCGGATAGCCCGATCCGATCTGGAGTGTCACATTAGGGCC
* * *
2251977 ACCGGAGTGACCCACCGTAAAAATAGCGAAAAATTTAAAACTTTTCTTAAAACTTGTAAACTCAT
66 ACTGGAGCGACCCACCGTAAAAATAGCAAAAAATTTAAAACTTTTCTTAAAACTTGTAAACTCAT
2252042 AAAATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
131 AAAATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
*
2252107 TATATAAAACAAAATATAATTACATTCCCCCTAATCATATGTACCATACTCTAGAAACTACGCCG
196 TATATAAAACAAAATATAATTACATGCCCCCTAATCATATGTACCATACTCT-GAAACTACGCCG
* * *
2252172 GAAGAGCTCCCTTACTAAATTCGATAGATGCACTGGTATAATTCTTTTAACCTCCAATGGT
260 GAAGAGCTCCCTTACTGAATTCGATAGATGCACTGGTACAATTCTTTTAACCTACAATGGT
*
2252233 CTAAATGTAACCCCCTCAAACCGATGCAGATAGCCCGATCCGATCTGGAGTGTCACATTAGGGCC
1 CTAAATGTAACCCCCTCAAACCGATGCGGATAGCCCGATCCGATCTGGAGTGTCACATTAGGGCC
*
2252298 ACTGGAGCGACCCACCGTAAAAATAGCAAAAAATTTAAAACTTTTCTTAAAACCTGTAAACTCAT
66 ACTGGAGCGACCCACCGTAAAAATAGCAAAAAATTTAAAACTTTTCTTAAAACTTGTAAACTCAT
2252363 AAAATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
131 AAAATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
2252428 TATATAAAACAAAATATAATTACATGCCCCCTAATCATATGTACCATACTCTGCAAACTACGCCG
196 TATATAAAACAAAATATAATTACATGCCCCCTAATCATATGTACCATACTCTG-AAACTACGCCG
* *
2252493 GAAGAGCTCCCTTACTGAATTCGATAGATGCACTAGTACAATTCTTTTAACCTATAATGGT
260 GAAGAGCTCCCTTACTGAATTCGATAGATGCACTGGTACAATTCTTTTAACCTACAATGGT
* * * * *
2252554 CTAAATATAACCCCCTCAAACTGATGCGGATAGCCTGATCTGATCTGGAGTGTCATATTAGGGCC
1 CTAAATGTAACCCCCTCAAACCGATGCGGATAGCCCGATCCGATCTGGAGTGTCACATTAGGGCC
* **
2252619 ACTGGAGCGACCCACCGTAAAAATAGCAGAAAATTTAAATTTTTTCTTAAAACTTGTAAACTCAT
66 ACTGGAGCGACCCACCGTAAAAATAGCAAAAAATTTAAAACTTTTCTTAAAACTTGTAAACTCAT
*
2252684 AATATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
131 AAAATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
* * * * *
2252749 TATATAAAACAAAATATAATTACATGACCCCTAATCACATATATCATACACTGTAAACTACGCCG
196 TATATAAAACAAAATATAATTACATGCCCCCTAATCATATGTACCATACTCTG-AAACTACGCCG
* *
2252814 GAAGAGCTCCCTTACTGAATTCGATAGATGCACTGGTACAATTCTTTTAGCCTGCAATGGT
260 GAAGAGCTCCCTTACTGAATTCGATAGATGCACTGGTACAATTCTTTTAACCTACAATGGT
2252875 GAGTAATAGA
Statistics
Matches: 607, Mismatches: 34, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
320 1 0.00
321 606 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (320 bp):
CTAAATGTAACCCCCTCAAACCGATGCGGATAGCCCGATCCGATCTGGAGTGTCACATTAGGGCC
ACTGGAGCGACCCACCGTAAAAATAGCAAAAAATTTAAAACTTTTCTTAAAACTTGTAAACTCAT
AAAATTATTTATGAGTACAAAATAAAAGTTATTAGTATTCGAAATAAACCAGATTTTCAGACTCA
TATATAAAACAAAATATAATTACATGCCCCCTAATCATATGTACCATACTCTGAAACTACGCCGG
AAGAGCTCCCTTACTGAATTCGATAGATGCACTGGTACAATTCTTTTAACCTACAATGGT
Found at i:2257376 original size:85 final size:85
Alignment explanation
Indices: 2257233--2257636 Score: 578
Period size: 85 Copynumber: 4.7 Consensus size: 85
2257223 GTATTACAGT
*
2257233 ATAGCTCAAGGAGAGAAGGGCTATCTGTCAA-AAACAACCTTCGAGTTCGATTCCATTCAGCTCA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAA-AACCTTCGAGTTCGATTCCATTCAGCTCA
2257297 AGGCCATATCAAATTTAAAGC
65 AGGCCATATCAAATTTAAAGC
*
2257318 ATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
2257383 GGCCATATCAAATTTATAA-C
66 GGCCATATCAAATTTA-AAGC
* * * *
2257403 ATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAAAATCTTCGAGTTCAATTCCATTCAGCTAAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
* * *
2257468 GGGCTTATCAAAATTTACAGC
66 GGCCATATC-AAATTTAAAGC
* * *
2257489 ATAGCTTAAGGCGAGAAGGGTTATCTGTCAACAAAAACCTTTGAGTTCGATTCCATTCAGCTCAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
* *
2257554 GGGCATATCAAATTTACAGC
66 GGCCATATCAAATTTAAAGC
* * ** * * *
2257574 ATAGCACAAGGCGACAATTGCTATCTGTCCACAAAAACCTTCAAGTTCAATTCCATTCAGCTC
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTC
2257637 TATGACAGCG
Statistics
Matches: 289, Mismatches: 26, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
85 210 0.73
86 79 0.27
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (85 bp):
ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAA
GGCCATATCAAATTTAAAGC
Found at i:2257538 original size:171 final size:170
Alignment explanation
Indices: 2257233--2257635 Score: 592
Period size: 171 Copynumber: 2.4 Consensus size: 170
2257223 GTATTACAGT
* * *
2257233 ATAGCTCAAGGAGAGAAGGGCTATCTGTCAA-AAACAACCTTCGAGTTCGATTCCATTCAGCTCA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAA-AACCTTCGAGTTCAATTCCATTCAGCTAA
*
2257297 AGGCCATATCAAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAAAACCTTCGA
65 AGGCCATATCAAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGA
*
2257362 GTTCGATTCCATTCAGCTCAAGGCCATATCAAATTTATAAC
130 GTTCGATTCCATTCAGCTCAAGGCCATATCAAATTTACAAC
* *
2257403 ATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAAAATCTTCGAGTTCAATTCCATTCAGCTAAA
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCAATTCCATTCAGCTAAA
* * * * * *
2257468 GGGCTTATCAAAATTTACAGCATAGCTTAAGGCGAGAAGGGTTATCTGTCAACAAAAACCTTTGA
66 GGCCATATC-AAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGA
* *
2257533 GTTCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAGC
130 GTTCGATTCCATTCAGCTCAAGGCCATATCAAATTTACAAC
* * ** * *
2257574 ATAGCACAAGGCGACAATTGCTATCTGTCCACAAAAACCTTCAAGTTCAATTCCATTCAGCT
1 ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCAATTCCATTCAGCT
2257636 CTATGACAGC
Statistics
Matches: 208, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
170 63 0.30
171 145 0.70
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (170 bp):
ATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCAATTCCATTCAGCTAAA
GGCCATATCAAATTTAAAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAG
TTCGATTCCATTCAGCTCAAGGCCATATCAAATTTACAAC
Found at i:2258317 original size:36 final size:35
Alignment explanation
Indices: 2258259--2258580 Score: 226
Period size: 36 Copynumber: 8.8 Consensus size: 35
2258249 AAACATCGGT
2258259 TTTTG-AAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATAT-A-ATATAGTTTTTGAAAACA
* *
2258295 TTTTAAAAAACATATATAATATATAGTTTTTGAAAACA
1 TTTT-GAAAATATATAT-A-ATATAGTTTTTGAAAACA
* *
2258333 TTTTGAAAACTTATATATTATATAG-TTTTGAAAATA
1 TTTTGAAAA--TATATATAATATAGTTTTTGAAAACA
* *
2258369 TTTTTGAAAATATATATAATATATAGTTTTTAAAAATA
1 -TTTTGAAAATATATAT-A-ATATAGTTTTTGAAAACA
* *
2258407 TCTTGAAAATATATATAATATA-TAGTTTTGAAAATA
1 TTTTGAAAATATATATAATATAGT--TTTTGAAAACA
* *
2258443 TTTTTG-AAATATATAAAATATA-TAGTTTT-AAAATA
1 -TTTTGAAAATATATATAATATAGT--TTTTGAAAACA
* *
2258478 TTTTTGAAAATATATATTATATAG-TTTTAAAAACA
1 -TTTTGAAAATATATATAATATAGTTTTTGAAAACA
* ** *
2258513 GTTTTTAAAAATATATATTTTATATGGTTTTGAAAACA
1 --TTTTGAAAATATATATAATATA-GTTTTTGAAAACA
** *
2258551 TTTAAAAAAACATATATGATATATAGTTTT
1 TTT-TGAAAATATATAT-A-ATATAGTTTT
2258581 AAAAATGCTT
Statistics
Matches: 243, Mismatches: 23, Indels: 38
0.80 0.08 0.12
Matches are distributed among these distances:
34 5 0.02
35 29 0.12
36 85 0.35
37 56 0.23
38 58 0.24
39 10 0.04
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (35 bp):
TTTTGAAAATATATATAATATAGTTTTTGAAAACA
Found at i:2258355 original size:37 final size:36
Alignment explanation
Indices: 2258258--2258585 Score: 308
Period size: 37 Copynumber: 8.9 Consensus size: 36
2258248 GAAACATCGG
2258258 TTTTTG-AAATATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAAT-TATATAATATATAG-TTTTGAAAACA
** *
2258295 TTTTAAAAAACATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAA-TTATATAATATATAG-TTTTGAAAACA
* *
2258333 -TTTTGAAAACTTATATATTATATAGTTTTGAAAATA
1 TTTTTGAAAA-TTATATAATATATAGTTTTGAAAACA
*
2258369 TTTTTGAAAATATATATAATATATAGTTTTTAAAA-A
1 TTTTTGAAAAT-TATATAATATATAGTTTTGAAAACA
* *
2258405 TATCTTGAAAATATATATAATATATAGTTTTGAAAATA
1 T-TTTTGAAAAT-TATATAATATATAGTTTTGAAAACA
* *
2258443 TTTTTG-AAATATATAAAATATATAGTTTT-AAAATA
1 TTTTTGAAAAT-TATATAATATATAGTTTTGAAAACA
* *
2258478 TTTTTGAAAA-TATATATTATATAGTTTTAAAAACA
1 TTTTTGAAAATTATATAATATATAGTTTTGAAAACA
* ** *
2258513 GTTTTTAAAAATATATATTTTATATGGTTTTGAAAACA
1 -TTTTTGAAAAT-TATATAATATATAGTTTTGAAAACA
*** * * *
2258551 TTTAAAAAAACATATATGATATATAGTTTTAAAAA
1 TTTTTGAAAA-TTATATAATATATAGTTTTGAAAA
2258586 TGCTTTTTAT
Statistics
Matches: 251, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
34 16 0.06
35 17 0.07
36 47 0.19
37 118 0.47
38 53 0.21
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTTGAAAATTATATAATATATAGTTTTGAAAACA
Found at i:2258383 original size:14 final size:13
Alignment explanation
Indices: 2258352--2258456 Score: 55
Period size: 12 Copynumber: 8.5 Consensus size: 13
2258342 CTTATATATT
*
2258352 ATATAGTTTTGAA
1 ATATATTTTTGAA
2258365 A-ATATTTTTGAA
1 ATATATTTTTGAA
* *
2258377 A-ATATATAT-AA
1 ATATATTTTTGAA
2258388 TATATAGTTTTT-AA
1 -ATATA-TTTTTGAA
* *
2258402 AAATA-TCTTGAA
1 ATATATTTTTGAA
* *
2258414 A-ATATATAT-AA
1 ATATATTTTTGAA
*
2258425 TATATAGTTTTGAA
1 -ATATATTTTTGAA
2258439 A-ATATTTTTGAA
1 ATATATTTTTGAA
2258451 ATATAT
1 ATATAT
2258457 AAAATATATA
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
11 10 0.14
12 34 0.49
13 18 0.26
14 7 0.10
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.46
Consensus pattern (13 bp):
ATATATTTTTGAA
Found at i:2258620 original size:15 final size:15
Alignment explanation
Indices: 2258600--2258643 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2258590 TTTTATTTTA
2258600 TTTTATATTAATATT
1 TTTTATATTAATATT
2258615 TTTTATATT--TATT
1 TTTTATATTAATATT
*
2258628 ATTT-TATTAATATT
1 TTTTATATTAATATT
2258642 TT
1 TT
2258644 CCCTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 5 0.20
15 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATATTAATATT
Found at i:2258635 original size:27 final size:25
Alignment explanation
Indices: 2258589--2258643 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
2258579 TTAAAAATGC
2258589 TTTTTATTTTATTTTATATTAATAT
1 TTTTTATTTTATTTTATATTAATAT
*
2258614 TTTTTATATTTATTATTTTATTAATAT
1 TTTTTAT-TTTATT-TTATATTAATAT
2258641 TTT
1 TTT
2258644 CCCTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 7 0.26
26 6 0.22
27 14 0.52
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTTATTTTATTTTATATTAATAT
Found at i:2263652 original size:59 final size:59
Alignment explanation
Indices: 2263530--2263660 Score: 131
Period size: 59 Copynumber: 2.2 Consensus size: 59
2263520 TCAATTGATC
* * * ** * * **
2263530 ATTTTGTAACTTTTAATAGTCGGGGACTCAACAAAATGAAGTCTTATAGTCGATGGACT
1 ATTTTGTAACTTTTAATAATCGAGGACTCAACAAAATCAACACATATAGTCGAGGGAAA
* *
2263589 ATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAA-CAACACATATAGTTGGGGGAAA
1 ATTTTGTAACTTTTAATAATC-GAGGACTCAACAAAATCAACACATATAGTCGAGGGAAA
2263648 ATTTT-TATACTTT
1 ATTTTGTA-ACTTT
2263661 ATCCTAAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 2 0.03
59 43 0.73
60 14 0.24
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAATCGAGGACTCAACAAAATCAACACATATAGTCGAGGGAAA
Found at i:2273385 original size:350 final size:355
Alignment explanation
Indices: 2272941--2273635 Score: 992
Period size: 351 Copynumber: 2.0 Consensus size: 355
2272931 TTATTTTTTT
*
2272941 TGCTTTTAGGTTTTTTGGGAACCTATAAATAGGCAATTTTATTTTGTAATGGAGGGGGGATTGTA
1 TGCTTTTAGGTTTTTTGGGAACCTATAAATAGGCAATCTTATTTTGTAATGGAGGGGGGATTGTA
* * * *
2273006 ACTTGAAAGATATGAGCAATAAGAGAAAACCTTTCACTACATGTAATTCCTTTTTGCGTGTGTTC
66 AATTGAAAGATAGGAGCAATAAGAGAAAACCTTTCACTACAAGTAATTCCTTTTTGCGTGCGTTC
2273071 TTTTATTTTGTTCAATTTCGAT-TTTTTCTCTTATCTTTTC-TTAAAAGAAAATTTATTGGTGGA
131 TTTTATTTTGTTCAATTTCGATATTTTTCTCTTATCTTTTCTTTAAAA-AAAATTTATTGGTGGA
* * * *
2273134 GAGAAAATTGAAGAATAAAGAAAAAGATTATCTTCAT-AAATTTTGCCTTTCTCGAGGTTTCTCA
195 GAGAAAATCGAAGAACAAAGAAAAAGACTATCTTAATAAAATTTT-CCTTTCTCGAGGTTTCTCA
* * * * * * *
2273198 GTGAAATCTGTCAATC-ATTTTTT-ATTTTTTATCTTTATTTTATTTTCATTATTTCTGTTAATC
259 GTGAAAACTGACAATCTATTTTTTCATTTTTTATATATATTTTATTTTAATTATTTCAGTCAATC
*
2273261 ATGATCTTTA-TTTTTTACTCCCCGAAGATAG
324 ATGATCTTGATTTTTTTACTCCCCGAAGATAG
* *
2273292 TGCTTTTAGGGTTTTTTGGGAGCC-ATAAATAGGTAATCTTATTTTGTAATGGA-GGGGGATTGT
1 TGCTTTTA-GGTTTTTTGGGAACCTATAAATAGGCAATCTTATTTTGTAATGGAGGGGGGATTGT
* * *
2273355 AAATTGAAAGATAGGAGCAATAAGAGAAAACCTTTGAGTACAAGTAATTCCTTTTTGTGTGCGTT
65 AAATTGAAAGATAGGAGCAATAAGAGAAAACCTTTCACTACAAGTAATTCCTTTTTGCGTGCGTT
* * * ****
2273420 CTTTTATTTTGTTCAATTTTGATATTTTTCTCTTCTTTTTTCTTTAAAATTTTTTTATTGGTGGA
130 CTTTTATTTTGTTCAATTTCGATATTTTTCTCTTATCTTTTCTTTAAAAAAAATTTATTGGTGGA
* * *
2273485 GAGAAAATCGAAGAACAAGGAAAAAGACTATCTTAATAAAATTTTCCTTTCTTGAGTTTTCTCAG
195 GAGAAAATCGAAGAACAAAGAAAAAGACTATCTTAATAAAATTTTCCTTTCTCGAGGTTTCTCAG
*
2273550 TGAAAACTGACAATCTTTTTTTTTCATTTTTTATATATATTTTATTTTAATTATTTCAGTCAATC
260 TGAAAACTGACAATC-TATTTTTTCATTTTTTATATATATTTTATTTTAATTATTTCAGTCAATC
*
2273615 GTGATCTTGATTTTTTTACTC
324 ATGATCTTGATTTTTTTACTC
2273636 GTCGAAAAAA
Statistics
Matches: 302, Mismatches: 34, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
350 90 0.30
351 126 0.42
352 27 0.09
353 6 0.02
354 43 0.14
355 10 0.03
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (355 bp):
TGCTTTTAGGTTTTTTGGGAACCTATAAATAGGCAATCTTATTTTGTAATGGAGGGGGGATTGTA
AATTGAAAGATAGGAGCAATAAGAGAAAACCTTTCACTACAAGTAATTCCTTTTTGCGTGCGTTC
TTTTATTTTGTTCAATTTCGATATTTTTCTCTTATCTTTTCTTTAAAAAAAATTTATTGGTGGAG
AGAAAATCGAAGAACAAAGAAAAAGACTATCTTAATAAAATTTTCCTTTCTCGAGGTTTCTCAGT
GAAAACTGACAATCTATTTTTTCATTTTTTATATATATTTTATTTTAATTATTTCAGTCAATCAT
GATCTTGATTTTTTTACTCCCCGAAGATAG
Found at i:2275498 original size:18 final size:17
Alignment explanation
Indices: 2275465--2275498 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2275455 TTTGTTTCTC
*
2275465 TTTTTATTTCTTATTTA
1 TTTTTATTTCTCATTTA
2275482 TTTTTATTTCATCATTT
1 TTTTTATTTC-TCATTT
2275499 CATATAGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTTCTCATTTA
Found at i:2276301 original size:20 final size:20
Alignment explanation
Indices: 2276276--2276320 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2276266 ATTTGGTATG
2276276 CATTTCCTCATGCATATATA
1 CATTTCCTCATGCATATATA
*
2276296 CATTTCCTCATGCATATATG
1 CATTTCCTCATGCATATATA
2276316 CATTT
1 CATTT
2276321 TAATTTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (20 bp):
CATTTCCTCATGCATATATA
Found at i:2280760 original size:88 final size:89
Alignment explanation
Indices: 2280603--2280798 Score: 218
Period size: 88 Copynumber: 2.2 Consensus size: 89
2280593 TTAAACCAAC
* * * * *
2280603 GAAGGGGAGTCATCCAAAAGAATATTCCACCTGGCTTAATCCTACGAAAGCGGTCGTCTGAAAAA
1 GAAGGGGAGTCATCCAAAAGAATATTCCACCTGGATTAAACCCACGAAAGAGGTCGTCTCAAAAA
* * *
2280668 ACATTTCACCCAGCTTAAAATCGT
66 ACATTTCACCCAACTTAAAACCAT
* * *
2280692 GAAGGGGAGTCATCC-GAAGAATACTT-CACCTGGATTAAACCCACGAAAGAGAGTCTTC-CAAT
1 GAAGGGGAGTCATCCAAAAGAATA-TTCCACCTGGATTAAACCCACGAAAGAG-GTCGTCTCAAA
* * *
2280754 GAACATTTCACTCAACTTAAACCCAT
64 AAACATTTCACCCAACTTAAAACCAT
*
2280780 GAAGGGGATTCATCCAAAA
1 GAAGGGGAGTCATCCAAAA
2280799 TGACATTTCA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
88 64 0.73
89 24 0.27
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (89 bp):
GAAGGGGAGTCATCCAAAAGAATATTCCACCTGGATTAAACCCACGAAAGAGGTCGTCTCAAAAA
ACATTTCACCCAACTTAAAACCAT
Found at i:2280931 original size:44 final size:44
Alignment explanation
Indices: 2280860--2281066 Score: 173
Period size: 44 Copynumber: 4.7 Consensus size: 44
2280850 TACCCGGCTT
* * * * *
2280860 AAGGGGAGTCATCTGAATAATACTTCACCTTGCTTAAACCCACG
1 AAGGGGAGTCATCCGAAGAACATTTCACCTGGCTTAAACCCACG
* * * *
2280904 AAGGGGAGTCATTCGAAGACCATTTCACATGGCTTAAACCCTCG
1 AAGGGGAGTCATCCGAAGAACATTTCACCTGGCTTAAACCCACG
** * * * * * * *
2280948 AAGATGAGTCATCTGAAGAATACTTCACTTGACTTAAACACGCG
1 AAGGGGAGTCATCCGAAGAACATTTCACCTGGCTTAAACCCACG
* * * *
2280992 ATGAGGG-GTTATCCGAAGAACATTTCACATGGCTTAAACCTACG
1 AAG-GGGAGTCATCCGAAGAACATTTCACCTGGCTTAAACCCACG
** *
2281036 AAGGAAAGTCATCCGAAGAACATTACACCTG
1 AAGGGGAGTCATCCGAAGAACATTTCACCTG
2281067 ACTTCACTAG
Statistics
Matches: 123, Mismatches: 38, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
43 1 0.01
44 121 0.98
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (44 bp):
AAGGGGAGTCATCCGAAGAACATTTCACCTGGCTTAAACCCACG
Found at i:2281016 original size:88 final size:88
Alignment explanation
Indices: 2280865--2281031 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
2280855 GGCTTAAGGG
* * * *
2280865 GAGTCATCTGAATAATACTTCACCTTGCTTAAACCCACGAAGGGGAGTCATTCGAAGACCATTTC
1 GAGTCATCTGAAGAATACTTCACCTTGCTTAAACACACGAAGGGGAGTCATCCGAAGAACATTTC
2280930 ACATGGCTTAAACCCTCGAAGAT
66 ACATGGCTTAAACCCTCGAAGAT
* * *
2280953 GAGTCATCTGAAGAATACTTCA-CTTGACTTAAACACGCGATGAGGG-GTTATCCGAAGAACATT
1 GAGTCATCTGAAGAATACTTCACCTTG-CTTAAACACACGAAG-GGGAGTCATCCGAAGAACATT
2281016 TCACATGGCTTAAACC
64 TCACATGGCTTAAACC
2281032 TACGAAGGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 4 0.06
88 63 0.90
89 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (88 bp):
GAGTCATCTGAAGAATACTTCACCTTGCTTAAACACACGAAGGGGAGTCATCCGAAGAACATTTC
ACATGGCTTAAACCCTCGAAGAT
Found at i:2281038 original size:88 final size:88
Alignment explanation
Indices: 2280860--2281055 Score: 238
Period size: 88 Copynumber: 2.2 Consensus size: 88
2280850 TACCCGGCTT
* * * * *
2280860 AAGGGGAGTCATCTGAATAATACTTCACCTTGCTTAAACCCACGAAGGGGAGTCATTCGAAGACC
1 AAGGAGAGTCATCTGAAGAATACTTCACCTTGCTTAAACACACGAAGGGGAGTCATCCGAAGAAC
2280925 ATTTCACATGGCTTAAACCCTCG
66 ATTTCACATGGCTTAAACCCTCG
* * *
2280948 AA-GATGAGTCATCTGAAGAATACTTCA-CTTGACTTAAACACGCGATGAGGG-GTTATCCGAAG
1 AAGGA-GAGTCATCTGAAGAATACTTCACCTTG-CTTAAACACACGAAG-GGGAGTCATCCGAAG
2281010 AACATTTCACATGGCTTAAA-CCTACG
63 AACATTTCACATGGCTTAAACCCT-CG
* *
2281036 AAGGAAAGTCATCCGAAGAA
1 AAGGAGAGTCATCTGAAGAA
2281056 CATTACACCT
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
87 8 0.09
88 80 0.86
89 5 0.05
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (88 bp):
AAGGAGAGTCATCTGAAGAATACTTCACCTTGCTTAAACACACGAAGGGGAGTCATCCGAAGAAC
ATTTCACATGGCTTAAACCCTCG
Found at i:2288345 original size:29 final size:30
Alignment explanation
Indices: 2288312--2288386 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
2288302 CTTTTAAAAC
* * *
2288312 TTGCAATACAGTCCCTAACA-TTAGTCCAT
1 TTGCAATATAGTCCCCAACATTTAGCCCAT
* *
2288341 TTGCAATATGGTCCCCAATATTTAGCCCAT
1 TTGCAATATAGTCCCCAACATTTAGCCCAT
*
2288371 TTGTAATATAGTCCCC
1 TTGCAATATAGTCCCC
2288387 GACGTAACTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (30 bp):
TTGCAATATAGTCCCCAACATTTAGCCCAT
Found at i:2290095 original size:16 final size:17
Alignment explanation
Indices: 2290066--2290098 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2290056 AGATTTTTTT
2290066 AACATAATTAATTAGAG
1 AACATAATTAATTAGAG
2290083 AACATAA-TAATTAGAG
1 AACATAATTAATTAGAG
2290099 CCTCCACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (17 bp):
AACATAATTAATTAGAG
Found at i:2291164 original size:13 final size:13
Alignment explanation
Indices: 2291141--2291176 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
2291131 TAAAAAGTAA
2291141 AAAAGAATAAAAAT
1 AAAA-AATAAAAAT
2291155 AAAAAATAAAAAAT
1 AAAAAAT-AAAAAT
2291169 AAAAAATA
1 AAAAAATA
2291177 CAATTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:2291174 original size:7 final size:7
Alignment explanation
Indices: 2291149--2291176 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2291139 AAAAAAGAAT
2291149 AAAAATA
1 AAAAATA
2291156 AAAAATA
1 AAAAATA
2291163 AAAAATA
1 AAAAATA
2291170 AAAAATA
1 AAAAATA
2291177 CAATTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:2292731 original size:25 final size:24
Alignment explanation
Indices: 2292697--2292750 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
2292687 CTTTCTTCGA
*
2292697 TATTGAAAATAAATATTAAAATAAT
1 TATTAAAAATAAATA-TAAAATAAT
* * *
2292722 TATTAAAAATATATATAAATTATT
1 TATTAAAAATAAATATAAAATAAT
2292746 TATTA
1 TATTA
2292751 TATCTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TATTAAAAATAAATATAAAATAAT
Found at i:2292732 original size:13 final size:12
Alignment explanation
Indices: 2292696--2292729 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2292686 CCTTTCTTCG
2292696 ATATTGAAAATAA
1 ATATT-AAAATAA
2292709 ATATTAAAATAA
1 ATATTAAAATAA
*
2292721 TTATTAAAA
1 ATATTAAAA
2292730 ATATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
ATATTAAAATAA
Found at i:2294124 original size:3 final size:3
Alignment explanation
Indices: 2294116--2294170 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
2294106 GGCCCGTTTG
* * *
2294116 TAA TAA TAA -AA TAA TAA TAA AAA TAA TAA TAA TAA TCA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2294163 TAA TAA TA
1 TAA TAA TA
2294171 GTAAATGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2294523 original size:17 final size:17
Alignment explanation
Indices: 2294501--2294556 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2294491 TTGAACAAGC
2294501 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
* *
2294518 TCTTCTTCTTCA-GATGAGT
1 TCTTCTTATT-ATGA--ACT
*
2294537 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
2294554 TCT
1 TCT
2294557 CTGGAAAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
17 16 0.53
18 2 0.07
19 12 0.40
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:2294833 original size:115 final size:113
Alignment explanation
Indices: 2294566--2295096 Score: 559
Period size: 115 Copynumber: 4.6 Consensus size: 113
2294556 TCTGGAAAAG
2294566 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
1 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
*
2294631 AACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
66 AACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACT
* * * * ** * * * *
2294679 CTGGAAAAGCTGATTTATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATG
1 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
*
2294744 AACTTTTTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-
66 AACTTATTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TACT
2294794 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
1 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
*
2294859 AACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
66 AACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACT
* * * *** * ** * *
2294907 CTGGAAAAGCTGATGTTGATCTATCTCTTTCTG-TGATAGCGTCGAGCAAAAGGTTGAACAGATT
1 CT-G----GC-AATGTTAATCCA--TC-AAATGATGA-A--TTTAAACAAAAGGTTGAACAAATT
* * *
2294971 CTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGCTCTTCTCATTATAAACTT-CAT
54 CTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTAC-T
* * ** * * * *
2295030 ATGGAAATGTTGGTCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATG
1 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
2295095 AA
66 AA
2295097 TTTCTTCTCA
Statistics
Matches: 347, Mismatches: 51, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
112 46 0.13
113 88 0.25
114 4 0.01
115 91 0.26
116 13 0.04
117 9 0.03
118 3 0.01
119 9 0.03
121 5 0.01
122 5 0.01
123 31 0.09
124 43 0.12
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (113 bp):
CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTACT
Found at i:2294890 original size:228 final size:228
Alignment explanation
Indices: 2294486--2295096 Score: 772
Period size: 228 Copynumber: 2.6 Consensus size: 228
2294476 GAATTATGCA
** *
2294486 AAAAGTTGAACAAGCTCTTCTTATTATGAAC--TTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAAAGTTGAACAAATTCTTCTCATTATGAACTTTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
2294549 GAACTTCTCTGGAAAAGCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAAC
66 GAA---CTCT-----A-CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAAC
2294614 AAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
122 AAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
*
2294679 CTGGAAAAGCTGAT-TT-ATC-A-AATGATG-GAT-TTGAGC
187 CTGGAAAAGCTGATGTTGATCTATAATGATGTGATGTCGAGC
2294715 AAAAGATTGAACAAATTCTTCTCATTATGAACTTTTTCTTCTTCTTCAGATGACGAGTTCTTCTC
1 AAAAG-TTGAACAAATTCTTCTCATTATGAAC-TTTTCTTCTTCTTCAGAT---GAGTTCTTCTC
2294780 ATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
61 ATTATGAACTCTA-CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
2294845 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
125 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
** **
2294910 GAAAAGCTGATGTTGATCTATCTCTTTCTGTGATAGCGTCGAGC
190 GAAAAGCTGATGTTGATCTA--TAATGATGTGAT---GTCGAGC
* * *
2294954 AAAAGGTTGAACAGATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGCTCTTCTCATT
1 AAAA-GTTGAACAAATTCTTCTCATTATGAACTT-TTCTTCTTCTTCAGATGAGTTCTTCTCATT
* * ** * * * *
2295019 ATAAACTTCATA-TGGAAATGTTGGTCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAATT
64 ATGAAC-TC-TACTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATT
2295083 CTTCTCATTATGAA
127 CTTCTCATTATGAA
2295097 TTTCTTCTCA
Statistics
Matches: 340, Mismatches: 20, Indels: 37
0.86 0.05 0.09
Matches are distributed among these distances:
228 128 0.38
229 7 0.02
230 26 0.08
231 1 0.00
233 20 0.06
234 3 0.01
235 3 0.01
236 96 0.28
237 2 0.01
238 4 0.01
239 49 0.14
240 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (228 bp):
AAAAGTTGAACAAATTCTTCTCATTATGAACTTTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTACTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTC
TCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG
CTGATGTTGATCTATAATGATGTGATGTCGAGC
Found at i:2295103 original size:17 final size:17
Alignment explanation
Indices: 2295081--2295113 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2295071 GTTGAACAAA
2295081 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAT
2295098 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
2295114 CTCTACCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (17 bp):
TTCTTCTCATTATGAAT
Found at i:2295137 original size:90 final size:90
Alignment explanation
Indices: 2295009--2295194 Score: 277
Period size: 90 Copynumber: 2.1 Consensus size: 90
2294999 TCAGATGAGC
* * *
2295009 TCTTCTCATTATAAACTTCATATGGAAATGTTGGTCCATCGAGTGATGAATTCAAACAAAAAGTT
1 TCTTCTCATTATAAACTTCATATGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTT
2295074 GAACAAATTCTTCTCATTATGAATT
66 GAACAAATTCTTCTCATTATGAATT
* * *
2295099 TCTTCTCATTATGAAC-TC-TACCTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGG
1 TCTTCTCATTATAAACTTCATA--TGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
*
2295162 TTGAACAAATTCTTCTTATTATGAATT
64 TTGAACAAATTCTTCTCATTATGAATT
2295189 TCTTCT
1 TCTTCT
2295195 TCCTTCTTCA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 2 0.02
89 2 0.02
90 83 0.95
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (90 bp):
TCTTCTCATTATAAACTTCATATGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTT
GAACAAATTCTTCTCATTATGAATT
Found at i:2295296 original size:113 final size:114
Alignment explanation
Indices: 2295098--2295581 Score: 493
Period size: 113 Copynumber: 4.2 Consensus size: 114
2295088 CATTATGAAT
* * * * * * *
2295098 TTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGG
1 TTCTTCTCATTATGAACTCTTCTCTAGCAATGCTGATCCATTAGATGATGAATTCAAGCAAAAAG
* *
2295162 TTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAG
66 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * *
2295211 TTCTTCTCATTATGAACT-TTCTCTAGCAATGCTAATCCATTAGGTGATGAATTTAAGCAAAAAG
1 TTCTTCTCATTATGAACTCTTCTCTAGCAATGCTGATCCATTAGATGATGAATTCAAGCAAAAAG
* *
2295275 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAG
66 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * * * *
2295324 TTCTTCTCATTATGAGCT-GTCTCTGGAAATGTTGATACTGATCTATCTCCTG-TCGTTAT-AGA
1 TTCTTCTCATTATGAACTCTTCTCTAGCAA---TG---CTGATCCAT-T--AGAT-G--ATGA-A
* * * *
2295386 GTCATGCAAAAGGCTGAACAAATTCTTCTCATTATGAACTTCTTC-TCC-TCTTCAGATGAG
53 TTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * * *
2295446 TTCTTCTTATTATGAACTCTT-TCTAGCAATACTGATCCA-TCGAATGATGAAATCGAGCAAAAA
1 TTCTTCTCATTATGAACTCTTCTCTAGCAATGCTGATCCATTAG-ATGATGAATTCAAGCAAAAA
*
2295509 GTTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCAGATGAG
65 GTTGAACAAATTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGATGAG
2295559 TTCTTCTCATTATGAACTCTTCT
1 TTCTTCTCATTATGAACTCTTCT
2295582 TTCTTCTTCA
Statistics
Matches: 306, Mismatches: 43, Indels: 43
0.78 0.11 0.11
Matches are distributed among these distances:
110 2 0.01
111 40 0.13
112 6 0.02
113 154 0.50
114 3 0.01
116 9 0.03
119 8 0.03
120 1 0.00
121 1 0.00
122 36 0.12
123 4 0.01
124 42 0.14
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (114 bp):
TTCTTCTCATTATGAACTCTTCTCTAGCAATGCTGATCCATTAGATGATGAATTCAAGCAAAAAG
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:2295592 original size:39 final size:39
Alignment explanation
Indices: 2295519--2295619 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
2295509 GTTGAACAAA
*
2295519 TTCTTCTCATTATGAATTCCTTCTTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACT-CTTCTTTCTTCTTCAGATGAG
2295559 TTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAG
2295598 TTCTTCTCATTATGAACT-TTCT
1 TTCTTCTCATTATGAACTCTTCT
2295620 CTGGAAAAGC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
38 4 0.07
39 39 0.65
40 17 0.28
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (39 bp):
TTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAG
Found at i:2295603 original size:152 final size:153
Alignment explanation
Indices: 2295408--2295728 Score: 451
Period size: 152 Copynumber: 2.1 Consensus size: 153
2295398 GCTGAACAAA
*
2295408 TTCTTCTCATTATGAA--CTTCTTCTCCTCTTCAGATGAGTTCTTCTTATTATGAACTCTT-TCT
1 TTCTTCTCATTATGAACTCTTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCT
*
2295470 AGCAATA-CTGATCCATCGAA-TGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATG
65 -GCAAAAGCTGATCCATC-AAGTGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATG
2295533 AA-TTCCTTCTTTC-TTCTTCAGATGAG
128 AACTT-CTTC-TTCATTCTTCAGATGAG
*
2295559 TTCTTCTCATTATGAACTCTTCTT-TCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTCTTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * * *
2295623 GAAAAGCTTATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 CAAAAGCTGATCCATCAAGTGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
2295688 TTCTTCTTCATTCTTCAGATGAG
131 TTCTTCTTCATTCTTCAGATGAG
2295711 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
2295729 TTCGTTGGAA
Statistics
Matches: 153, Mismatches: 10, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
151 27 0.18
152 118 0.77
153 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (153 bp):
TTCTTCTCATTATGAACTCTTCTTCTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
CAAAAGCTGATCCATCAAGTGATGAAATCGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCATTCTTCAGATGAG
Found at i:2295835 original size:224 final size:223
Alignment explanation
Indices: 2295557--2295990 Score: 660
Period size: 224 Copynumber: 1.9 Consensus size: 223
2295547 TCTTCAGATG
*
2295557 AGTTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTC
1 AGTTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-C
* * ** * *
2295621 TGGAAAAGCTT-ATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATG
65 TGGAAAAG-TTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
* *
2295685 AACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCGTTGGAAAAGTTGATCC
129 AACTTCTTCTTCATTCTTCAAATGAGTTCTTCTCATTATGAACTCTTC--CGGAAAAGTTGATCC
*
2295749 ATTG-TTATGGATTTGAACAAAAAGTTGAACA
192 ATTGATGATGGATTTGAACAAAAAGTTGAACA
2295780 AGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAAC-TCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
* *
2295845 TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
65 TGGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
* *
2295910 ACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCCGGAAATGTTGATCCATT
130 ACTTCTTCTTCATTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCCGGAAAAGTTGATCCATT
2295975 GAATGATGGATTTGAA
195 G-ATGATGGATTTGAA
2295991 TCTTTGCTAA
Statistics
Matches: 191, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
223 38 0.20
224 136 0.71
225 17 0.09
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (223 bp):
AGTTCTTCTCATTATGAACTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCT
GGAAAAGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAA
CTTCTTCTTCATTCTTCAAATGAGTTCTTCTCATTATGAACTCTTCCGGAAAAGTTGATCCATTG
ATGATGGATTTGAACAAAAAGTTGAACA
Found at i:2295917 original size:113 final size:113
Alignment explanation
Indices: 2295557--2295990 Score: 589
Period size: 113 Copynumber: 3.9 Consensus size: 113
2295547 TCTTCAGATG
*
2295557 AGTTCTTCTCATTATGAAC-TCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 AGTTCTTCTCATTATGAACTTCTTC-TTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCG
* * *
2295620 CTGGAAAAGCTT-ATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
65 CTGGAAAAG-TTGATCCATCAAATGATGGATTTGAACAAAAAGTTGAACA
*
2295669 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCGT
1 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCGC
** *
2295734 TGGAAAAGTTGATCCAT--TGTTATGGATTTGAACAAAAAGTTGAACA
66 TGGAAAAGTTGATCCATCAAATGATGGATTTGAACAAAAAGTTGAACA
*
2295780 AGTTCTTCTCATTATGAACTTCTTCTTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC
1 AGTTCTTCTCATTATGAACTTCTTC-TTCATTCTTCAGATGAGTTCTTCTCATTATGAACT-TTC
* * * **
2295844 -CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
64 GCTGGAAAAGTTGATCCATCAAATGATGGATTTGAACAAAAAGTTGAACA
* *
2295893 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTCTTC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCG
* **
2295957 C-GGAAATGTTGATCCATTGAATGATGGATTTGAA
65 CTGGAAAAGTTGATCCATCAAATGATGGATTTGAA
2295991 TCTTTGCTAA
Statistics
Matches: 290, Mismatches: 24, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
111 96 0.33
112 59 0.20
113 135 0.47
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCGC
TGGAAAAGTTGATCCATCAAATGATGGATTTGAACAAAAAGTTGAACA
Found at i:2296469 original size:22 final size:22
Alignment explanation
Indices: 2296390--2296466 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
2296380 GATAAAGCTT
*
2296390 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
2296412 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
2296434 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2296456 TCATCTTTGAA
1 TCATCTTTGAA
2296467 GAGTGTAGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2296910 original size:40 final size:40
Alignment explanation
Indices: 2296854--2296929 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
2296844 TTTCAGCTTA
*
2296854 GATGTAAAACACTTGACAACACATTCATCCTTTTCTATGG
1 GATGTAAAACACTTGACAACACATTCATCCCTTTCTATGG
* *
2296894 GATGTAAAACATTTGACAACGCATTCATCCCTTTCT
1 GATGTAAAACACTTGACAACACATTCATCCCTTTCT
2296930 GTGGACTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (40 bp):
GATGTAAAACACTTGACAACACATTCATCCCTTTCTATGG
Found at i:2299212 original size:114 final size:114
Alignment explanation
Indices: 2299012--2299324 Score: 554
Period size: 114 Copynumber: 2.7 Consensus size: 114
2299002 GATCATGCAG
* * * * * *
2299012 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
2299077 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
*
2299126 TTCATCTTTCAAATACAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
2299191 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
2299240 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
2299305 ACACTTCCAGAAGATGCTAT
66 ACACTTCCAGAAGATGCTAT
2299325 GAGCACATGG
Statistics
Matches: 190, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 190 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:2304929 original size:8 final size:8
Alignment explanation
Indices: 2304918--2304966 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
2304908 TGCCAAATGC
2304918 AAAATGTA
1 AAAATGTA
2304926 AAAATGT-
1 AAAATGTA
2304933 -AAATGT-
1 AAAATGTA
2304939 -AAATGTA
1 AAAATGTA
2304946 AAAATGTA
1 AAAATGTA
* *
2304954 CAAATGCA
1 AAAATGTA
2304962 AAAAT
1 AAAAT
2304967 ACAAATGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
6 12 0.33
8 24 0.67
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (8 bp):
AAAATGTA
Found at i:2304969 original size:14 final size:14
Alignment explanation
Indices: 2304890--2304975 Score: 50
Period size: 14 Copynumber: 6.0 Consensus size: 14
2304880 AGCAAACATG
2304890 AAAATACAAATGCA
1 AAAATACAAATGCA
* *
2304904 AAGATGCCAAATGCA
1 AAAAT-ACAAATGCA
* *
2304919 AAATGTAAAAATG--
1 AAA-ATACAAATGCA
* ** *
2304932 TAAATGTAAATGTA
1 AAAATACAAATGCA
2304946 AAAATGTACAAATGCA
1 AAAA--TACAAATGCA
2304962 AAAATACAAATGCA
1 AAAATACAAATGCA
2304976 TGTATGAAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
12 6 0.12
13 2 0.04
14 17 0.33
15 15 0.29
16 12 0.23
ACGTcount: A:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (14 bp):
AAAATACAAATGCA
Found at i:2306468 original size:18 final size:18
Alignment explanation
Indices: 2306441--2306486 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
2306431 TAATACCTTC
*
2306441 ATAA-ATAAAAAATATTA
1 ATAATATAAAAAATAATA
2306458 ATAATAT-AAAAATAATA
1 ATAATATAAAAAATAATA
2306475 AGTAATA-AAAAA
1 A-TAATATAAAAA
2306487 TTTGAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
ATAATATAAAAAATAATA
Found at i:2307164 original size:27 final size:28
Alignment explanation
Indices: 2307133--2307191 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
2307123 TTTTCTTCGA
*
2307133 TATTAAAAAATAAATATTAA-AATAATT
1 TATTAAAAAATAAATATAAATAATAATT
* *
2307160 TATT-AAAAATATATATAAATAATTATT
1 TATTAAAAAATAAATATAAATAATAATT
2307187 TATTA
1 TATTA
2307192 TATCTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TATTAAAAAATAAATATAAATAATAATT
Found at i:2308591 original size:3 final size:3
Alignment explanation
Indices: 2308583--2308637 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
2308573 GGCCCGTTTG
* *
2308583 TAA TAA TAA -AA TAA TAA TAA AAA TAA TAA TAA TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2308630 TAA TAA TA
1 TAA TAA TA
2308638 GTAAATGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2310271 original size:28 final size:28
Alignment explanation
Indices: 2310202--2310272 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
2310192 GAAGAACAAG
* * *
2310202 TATTCCAATGGTATTTATTTCATTTCTA
1 TATTGCAATGGTATCTATTTCATTTATA
**
2310230 TATTGCAACAGTATCTATTTCATTTATA
1 TATTGCAATGGTATCTATTTCATTTATA
2310258 TATTGCAATGGTATC
1 TATTGCAATGGTATC
2310273 AAGAAATATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (28 bp):
TATTGCAATGGTATCTATTTCATTTATA
Found at i:2320937 original size:2 final size:2
Alignment explanation
Indices: 2320926--2320956 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2320916 TAAAGGCGAT
2320926 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2320957 ATAAAGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2322807 original size:52 final size:54
Alignment explanation
Indices: 2322704--2322816 Score: 140
Period size: 52 Copynumber: 2.1 Consensus size: 54
2322694 TAACATGGTG
* * * *
2322704 TTTCAAAAGAATATTTTAGGAAACGAAACCTGATTGTCATGGGTTTCTTGATGT
1 TTTCAAAAGAATATTTTAGGAAACGAAACCTAATTGTCAGGGGTCTCTTGATAT
* * * *
2322758 TTTCAAAAGAA-ATTTTA-GAAACTAAGCCTAATTTTTAGGGGTCTCTTGATAT
1 TTTCAAAAGAATATTTTAGGAAACGAAACCTAATTGTCAGGGGTCTCTTGATAT
2322810 TTTCAAA
1 TTTCAAA
2322817 TGAGTTTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 34 0.67
53 6 0.12
54 11 0.22
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTCAAAAGAATATTTTAGGAAACGAAACCTAATTGTCAGGGGTCTCTTGATAT
Found at i:2322934 original size:104 final size:107
Alignment explanation
Indices: 2322801--2323019 Score: 311
Period size: 104 Copynumber: 2.1 Consensus size: 107
2322791 TTTAGGGGTC
*
2322801 TCTTGATATTTTCAAATGAGTTTTGAAAGAAGCTAAGTCCAATTTTTAGAAGTTTCTTGATGA-T
1 TCTTGATATTTTCAAATGAGTTTTGAAAGAAACTAAGTCCAATTTTTAGAAGTTTCTTGATGATT
2322865 TTTAAATAAGTTTTCAAAG-A-AAGTCTGATTTTAAGAAGTT
66 TTTAAATAAGTTTTCAAAGAATAAGTCTGATTTTAAGAAGTT
* * **
2322905 TCTTGATGATTTTTAAATGAGTTTT-AAAGAAATTAAGTCTGATTTTTAGAAGTTTCTTGATGAT
1 TCTTGAT-ATTTTCAAATGAGTTTTGAAAGAAACTAAGTCCAATTTTTAGAAGTTTCTTGATGAT
* * *
2322969 TTTTAAATGAGTTTTCAAAGAAATTAAGTCTGATTTTTAGAGGTT
65 TTTTAAATAAGTTTTCAAAG-AA-TAAGTCTGATTTTAAGAAGTT
2323014 TCTTGA
1 TCTTGA
2323020 CATAATGAAC
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
104 41 0.41
105 35 0.35
107 1 0.01
109 24 0.24
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (107 bp):
TCTTGATATTTTCAAATGAGTTTTGAAAGAAACTAAGTCCAATTTTTAGAAGTTTCTTGATGATT
TTTAAATAAGTTTTCAAAGAATAAGTCTGATTTTAAGAAGTT
Found at i:2322996 original size:55 final size:55
Alignment explanation
Indices: 2322774--2323019 Score: 308
Period size: 54 Copynumber: 4.6 Consensus size: 55
2322764 AAGAAATTTT
* * ** * * *
2322774 AGAAACTAAGCCTAATTTTTAGGGGTCTCTTGAT-ATTTTCAAATGAGTTTTGAA
1 AGAAACTAAGTCTGATTTTTAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
* ** *
2322828 AGAAGCTAAGTCCAATTTTTAGAAGTTTCTTGATGA-TTTTAAATAAGTTTTCAA
1 AGAAACTAAGTCTGATTTTTAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
*
2322882 AG--A--AAGTCTGATTTTAAGAAGTTTCTTGATGATTTTTAAATGAGTTTT-AA
1 AGAAACTAAGTCTGATTTTTAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
*
2322932 AGAAATTAAGTCTGATTTTTAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
1 AGAAACTAAGTCTGATTTTTAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
* *
2322987 AGAAATTAAGTCTGATTTTTAGAGGTTTCTTGA
1 AGAAACTAAGTCTGATTTTTAGAAGTTTCTTGA
2323020 CATAATGAAC
Statistics
Matches: 169, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
50 30 0.18
51 14 0.08
52 1 0.01
54 89 0.53
55 35 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (55 bp):
AGAAACTAAGTCTGATTTTTAGAAGTTTCTTGATGATTTTTAAATGAGTTTTCAA
Found at i:2323126 original size:60 final size:58
Alignment explanation
Indices: 2323049--2323188 Score: 199
Period size: 60 Copynumber: 2.4 Consensus size: 58
2323039 AGCTACCTGA
* * * *
2323049 TTTTAAGGGGTTTCTTGATGATTACTTCTAATGATTTTTTTAAAAAAAAGTTAAGCCTACG
1 TTTT-AGGGGTTTCTTGATGATTACTTCCAATGAATTTTTT-AAAAAAA-CTAAGCCTAAG
* *
2323110 TTTTAGGGGTTTCTTGATGATTACTTCCAATGAATTTTTTAAAGAAACTAAGCCTAAT
1 TTTTAGGGGTTTCTTGATGATTACTTCCAATGAATTTTTTAAAAAAACTAAGCCTAAG
2323168 TTTTAGGGGTTTCTTGATGAT
1 TTTTAGGGGTTTCTTGATGAT
2323189 AACTATAAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 29 0.40
59 6 0.08
60 34 0.47
61 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (58 bp):
TTTTAGGGGTTTCTTGATGATTACTTCCAATGAATTTTTTAAAAAAACTAAGCCTAAG
Found at i:2323213 original size:58 final size:57
Alignment explanation
Indices: 2323049--2323216 Score: 144
Period size: 58 Copynumber: 2.8 Consensus size: 57
2323039 AGCTACCTGA
* ** * * *
2323049 TTTTAAGGGGTTTCTTGATGATTACTT-CTAATGATTTTTTTAAAAAAAAGTTAAGCCTACG
1 TTTT-AGGGGTTTCTTGATGATAACTTAC-AAT-AAGTTTTT-AAAGAAA-CTAAGCCTAAG
* * * *
2323110 TTTTAGGGGTTTCTTGATGATTACTTCCAATGAATTTTTTAAAGAAACTAAGCCTAAT
1 TTTTAGGGGTTTCTTGATGATAACTTACAAT-AAGTTTTTAAAGAAACTAAGCCTAAG
2323168 TTTTAGGGGTTTCTTGATGATAACTATAAACAAT-AGTTTTT-AAGAAACT
1 TTTTAGGGGTTTCTTGATGATAACT-T--ACAATAAGTTTTTAAAGAAACT
2323217 GAGCATGATT
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
58 40 0.42
59 13 0.14
60 33 0.35
61 9 0.09
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (57 bp):
TTTTAGGGGTTTCTTGATGATAACTTACAATAAGTTTTTAAAGAAACTAAGCCTAAG
Found at i:2323634 original size:3 final size:3
Alignment explanation
Indices: 2323626--2323693 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
2323616 TATGGTGTTC
2323626 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2323674 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
2323694 GATTGTAAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2338712 original size:36 final size:36
Alignment explanation
Indices: 2338665--2338733 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
2338655 ACCTTAGGTC
* *
2338665 TATGAGGAATTAACATCTTGATCAGTGTTGAACATG
1 TATGAGGAATTAACAGCTTGATCAGAGTTGAACATG
* * *
2338701 TATGAGTAATTACCAGCTTGATCGGAGTTGAAC
1 TATGAGGAATTAACAGCTTGATCAGAGTTGAAC
2338734 TTATATACTC
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:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (36 bp):
TATGAGGAATTAACAGCTTGATCAGAGTTGAACATG
Found at i:2340560 original size:12 final size:12
Alignment explanation
Indices: 2340543--2340587 Score: 81
Period size: 12 Copynumber: 3.7 Consensus size: 12
2340533 AAAGTCAACG
2340543 GTCAAAGTTAAA
1 GTCAAAGTTAAA
2340555 GTCAAAGTTAACA
1 GTCAAAGTTAA-A
2340568 GTCAAAGTTAAA
1 GTCAAAGTTAAA
2340580 GTCAAAGT
1 GTCAAAGT
2340588 CAACTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 20 0.62
13 12 0.38
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (12 bp):
GTCAAAGTTAAA
Found at i:2340571 original size:25 final size:25
Alignment explanation
Indices: 2340530--2340591 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
2340520 TAACTTTTTG
*
2340530 GTCAAAGTCAACGGTCAAAGTTAAA
1 GTCAAAGTCAACAGTCAAAGTTAAA
*
2340555 GTCAAAGTTAACAGTCAAAGTTAAA
1 GTCAAAGTCAACAGTCAAAGTTAAA
2340580 GTCAAAGTCAAC
1 GTCAAAGTCAAC
2340592 TCTGGTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (25 bp):
GTCAAAGTCAACAGTCAAAGTTAAA
Found at i:2340606 original size:6 final size:6
Alignment explanation
Indices: 2340530--2340590 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
2340520 TAACTTTTTG
* * * *
2340530 GTCAAA GTCAACG GTCAAA GTTAAA GTCAAA GTTAACA GTCAAA GTTAAA
1 GTCAAA GTCAA-A GTCAAA GTCAAA GTCAAA GTCAA-A GTCAAA GTCAAA
2340580 GTCAAA GTCAA
1 GTCAAA GTCAA
2340591 CTCTGGTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
6 35 0.78
7 10 0.22
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
GTCAAA
Found at i:2343313 original size:36 final size:36
Alignment explanation
Indices: 2343245--2343320 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
2343235 ACCTTAGGTC
* * * ** *
2343245 CATAAGGAATTATCGGCTTGATCGGTGCTGAACCTG
1 CATAAGGAATTACCAGCTTGATCAGAACTGAACCTA
*
2343281 CATAAGGAATTACCAGCTTGATCAGAATTGAACCTA
1 CATAAGGAATTACCAGCTTGATCAGAACTGAACCTA
2343317 CATA
1 CATA
2343321 CTCCAGAATC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (36 bp):
CATAAGGAATTACCAGCTTGATCAGAACTGAACCTA
Found at i:2349449 original size:8 final size:7
Alignment explanation
Indices: 2349425--2349516 Score: 71
Period size: 7 Copynumber: 12.6 Consensus size: 7
2349415 TACTACACTC
*
2349425 AAAGAAG
1 AAAGAAA
2349432 AAAGAAAA
1 AAAG-AAA
2349440 AAAGAGAA
1 AAAGA-AA
2349448 AACATG-AA
1 AA-A-GAAA
2349456 AAAG-AA
1 AAAGAAA
2349462 AAAGAAAA
1 AAAG-AAA
2349470 AAAGAAA
1 AAAGAAA
2349477 GAAAGAAA
1 -AAAGAAA
*
2349485 AAAAAAA
1 AAAGAAA
*
2349492 AAAAAAA
1 AAAGAAA
*
2349499 AAAAAAA
1 AAAGAAA
*
2349506 AAAAAAA
1 AAAGAAA
2349513 AAAG
1 AAAG
2349517 TAATAAAAAG
Statistics
Matches: 75, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
6 7 0.09
7 39 0.52
8 27 0.36
9 1 0.01
10 1 0.01
ACGTcount: A:0.85, C:0.01, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAGAAA
Found at i:2349467 original size:30 final size:28
Alignment explanation
Indices: 2349425--2349528 Score: 103
Period size: 30 Copynumber: 3.7 Consensus size: 28
2349415 TACTACACTC
2349425 AAAGAAGAAAGAAAAAAAGAGAA-AACATGAA
1 AAAGAA-AAAGAAAAAAAGA-AAGAA-A-GAA
2349456 AAAGAAAAAGAAAAAAAGAAAGAAAGAA
1 AAAGAAAAAGAAAAAAAGAAAGAAAGAA
2349484 AAA-AAAAA-AAAAAAA-AAA-AAA-AA
1 AAAGAAAAAGAAAAAAAGAAAGAAAGAA
*
2349507 AAAAAAAAAGTAATAAAAAGAA
1 AAAGAAAAAG-AA-AAAAAGAA
2349529 TGAGAATGGG
Statistics
Matches: 67, Mismatches: 0, Indels: 15
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.07
24 8 0.12
25 3 0.04
26 9 0.13
27 10 0.15
28 8 0.12
29 3 0.04
30 15 0.22
31 6 0.09
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (28 bp):
AAAGAAAAAGAAAAAAAGAAAGAAAGAA
Found at i:2349471 original size:14 final size:14
Alignment explanation
Indices: 2349425--2349516 Score: 87
Period size: 14 Copynumber: 6.3 Consensus size: 14
2349415 TACTACACTC
2349425 AAAGAAGAAAGAAAA
1 AAAGAA-AAAGAAAA
* *
2349440 AAAGAGAAAACATGAA
1 AAAGA-AAAAGA-AAA
2349456 AAAGAAAAAGAAAA
1 AAAGAAAAAGAAAA
2349470 AAAGAAAGAAAGAAAA
1 AAAG-AA-AAAGAAAA
*
2349486 AAA-AAAAAAAAAA
1 AAAGAAAAAGAAAA
* *
2349499 AAAAAAAAAAAAAA
1 AAAGAAAAAGAAAA
2349513 AAAG
1 AAAG
2349517 TAATAAAAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.15
14 21 0.32
15 16 0.24
16 19 0.29
ACGTcount: A:0.85, C:0.01, G:0.13, T:0.01
Consensus pattern (14 bp):
AAAGAAAAAGAAAA
Found at i:2349481 original size:22 final size:21
Alignment explanation
Indices: 2349429--2349528 Score: 93
Period size: 21 Copynumber: 4.9 Consensus size: 21
2349419 ACACTCAAAG
*
2349429 AAGAAAGAAAAAAAGAGAAAAC
1 AAGAAAGAAAAAAA-AGAAAAA
* *
2349451 ATGAAA-AAGAAAAAGAAAAA
1 AAGAAAGAAAAAAAAGAAAAA
2349471 AAGAAAGAAAGAAAAA-AAAAA
1 AAGAAAGAAA-AAAAAGAAAAA
2349492 AA-AAA-AAAAAAAA-AAAAA
1 AAGAAAGAAAAAAAAGAAAAA
* *
2349510 AAAAAAGTAATAAAAAGAA
1 AAGAAAG-AAAAAAAAGAA
2349529 TGAGAATGGG
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 12 0.18
19 6 0.09
20 14 0.21
21 22 0.33
22 12 0.18
ACGTcount: A:0.84, C:0.01, G:0.12, T:0.03
Consensus pattern (21 bp):
AAGAAAGAAAAAAAAGAAAAA
Found at i:2349525 original size:1 final size:1
Alignment explanation
Indices: 2349454--2349515 Score: 79
Period size: 1 Copynumber: 62.0 Consensus size: 1
2349444 AGAAAACATG
* * * * *
2349454 AAAAAGAAAAAGAAAAAAAGAAAGAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2349516 GTAATAAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:2350805 original size:52 final size:52
Alignment explanation
Indices: 2350604--2350794 Score: 276
Period size: 52 Copynumber: 3.7 Consensus size: 52
2350594 TTTCAACTAG
2350604 AAGTAATCCATGTGGGGCATCTTGAAGGTTCACATCAGCATGAAAAAAGA-AA
1 AAGTAATCCATGTGGGGCATCTTGAAGGTTCACATCAGCATG-AAAAAGACAA
* **
2350656 GAAGTAATCCATGTGGGGCATCTTAAAGGTTCACATCAGCATGAAAAAGACTT
1 -AAGTAATCCATGTGGGGCATCTTGAAGGTTCACATCAGCATGAAAAAGACAA
* * *
2350709 AAGTAATCCACGTGGGGCATCTTGAATGTTCATATCAGCATGAAAAAGACAA
1 AAGTAATCCATGTGGGGCATCTTGAAGGTTCACATCAGCATGAAAAAGACAA
** *
2350761 AAGTAATCCATGTGGAACATCTTGAAGGCTCACA
1 AAGTAATCCATGTGGGGCATCTTGAAGGTTCACA
2350795 CCAATATGAA
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
52 81 0.66
53 41 0.34
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (52 bp):
AAGTAATCCATGTGGGGCATCTTGAAGGTTCACATCAGCATGAAAAAGACAA
Found at i:2351327 original size:54 final size:54
Alignment explanation
Indices: 2351243--2351351 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
2351233 CACTGACAAG
* * *
2351243 AAATCTGTGCAGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
1 AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
*
2351297 AAATCTGGGCAAAAGCCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGA
1 AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
2351351 A
1 A
2351352 CCAGTGATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (54 bp):
AAATCTGGGCAAAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGA
Found at i:2352564 original size:42 final size:42
Alignment explanation
Indices: 2352504--2352628 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
2352494 TTCTTGATTT
*
2352504 TTAAATCCTTCAGGTCATCAGTAAGTCTTTCGAGCATGATG-
1 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGC
* ** *
2352545 TGTAAATCCTTCGGGTCATCAGTAAGTCTTTTGAGTGTAATGC
1 T-TAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGC
* *
2352588 TTAAATCCTTCGGGTCATCTGTAA-TCCTTTCGAGCAAGATG
1 TTAAATCCTTCGGGTCATCAGTAAGT-CTTTCGAGCATGATG
2352629 ATAAGACTCC
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.03
42 67 0.96
43 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGC
Found at i:2352989 original size:104 final size:106
Alignment explanation
Indices: 2352789--2353310 Score: 398
Period size: 117 Copynumber: 4.7 Consensus size: 106
2352779 CTTGAGGGAT
* * * *
2352789 CAACATTTCCA-GAAGATTTCATAATGAGAAGAACTCGTCCTAA-AGG-AGAAAGTTCATAACGG
1 CAACATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCC-AACAGGAAGAAAGTTCATAATGA
* * * * *
2352851 GAATAACTTGTCCCTTTCAAAT-TAACCACAAAGGATGTGAAC
65 GAAGAACTTGTTCCTTTCAAATCTATCCA-GAAGGAGGTGAAC
2352893 CAACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCCTAA-AGG-AGAAAGTTCATAATGA
1 CAACATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCC-AACAGGAAGAAAGTTCATAATGA
* * * *
2352955 GAA-AACTTATTCCTTTCAAGTCTATCGCAGAAGGAGGTGGAT
65 GAAGAACTTGTTCCTTTCAAATCTATC-CAGAAGGAGGTGAAC
* *
2352997 CAACATTTTCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAAAAGTTCATAA
1 CAACATTTCCAG-GAAGAGTTCATAATGAGAAGAACTCATCCAAC-AGGAAG--AAAGTTCATAA
* * * *
2353062 TGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTGGATC
62 TGAGAAGAACTTGTT---CC-T--TTCAAATCTATC-CAGAAGGAGGT-GAAC
* * *
2353115 C-ACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCATCCAACGAGGAAAAGAAGTTCATAAT
1 CAACATTTCCAG-GAAGAGTTCATAATGAGAAGAACTCATCCAAC-AGGAAGA-AAGTTCATAAT
** * * * * *
2353179 GAGAAGAACTTGTTCAACCTTGGTTTGATTCCATCATAGAAGGAGGTGGAT
63 GAGAAGAACTTGTT---CC-T--TTCAAATCTATC-CAGAAGGAGGTGAAC
* * *
2353230 CAACATTTTCAATGG-AGAGTTCATAATGAGAAGAACTCATCCAATAAGGAATAAAAAGTTCATA
1 CAACA-TTTCCA-GGAAGAGTTCATAATGAGAAGAACTCATCCAA-CAGG-A-AGAAAGTTCATA
*
2353294 ATGCGAAGAACTTGTTC
61 ATGAGAAGAACTTGTTC
2353311 AACCTTGGTT
Statistics
Matches: 360, Mismatches: 34, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
103 15 0.04
104 83 0.23
105 4 0.01
106 28 0.08
107 3 0.01
108 2 0.01
110 17 0.05
111 7 0.02
114 3 0.01
115 4 0.01
116 90 0.25
117 98 0.27
118 6 0.02
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (106 bp):
CAACATTTCCAGGAAGAGTTCATAATGAGAAGAACTCATCCAACAGGAAGAAAGTTCATAATGAG
AAGAACTTGTTCCTTTCAAATCTATCCAGAAGGAGGTGAAC
Found at i:2353236 original size:116 final size:117
Alignment explanation
Indices: 2352906--2353344 Score: 607
Period size: 117 Copynumber: 3.9 Consensus size: 117
2352896 CATTTCCAGA
*
2352906 AGAGTTCATAATGAGAAGAACTCATCCTAA--AGG-AG--AAAGTTCATAATGAGAA-AACTTAT
1 AGAGTTCATAATGAGAAGAACTCATCC-AACGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGT
** * * *
2352965 T---CC-T--TTCAAGTCTATCGCAGAAGGAGGTGGATCAACATTTTCAGTGG
65 TCAACCTTGGTTTGATTCCATCACAGAAGGAGGTGGATCAACATTTTCAGTGG
2353012 AGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
* * *
2353077 CAACCTTGGTTCGATTCCATCACAGAAGGAGGTGGATCCACATTTCCAGTGG
66 CAACCTTGGTTTGATTCCATCACAGAAGGAGGTGGATCAACATTTTCAGTGG
* *
2353129 AGAGTTCATAATGATAAGAACTCATCCAACGAGGAA-AAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
* *
2353193 CAACCTTGGTTTGATTCCATCATAGAAGGAGGTGGATCAACATTTTCAATGG
66 CAACCTTGGTTTGATTCCATCACAGAAGGAGGTGGATCAACATTTTCAGTGG
** * *
2353245 AGAGTTCATAATGAGAAGAACTCATCCAATAAGGAATAAAAAGTTCATAATGCGAAGAACTTGTT
1 AGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
* *
2353310 CAACCTTGGTTTGATTCCATCGCATAAGGAGGTGG
66 CAACCTTGGTTTGATTCCATCACAGAAGGAGGTGG
2353345 TACACATATT
Statistics
Matches: 298, Mismatches: 22, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
105 2 0.01
106 27 0.09
107 3 0.01
108 2 0.01
110 17 0.06
111 7 0.02
114 2 0.01
115 1 0.00
116 107 0.36
117 130 0.44
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (117 bp):
AGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
CAACCTTGGTTTGATTCCATCACAGAAGGAGGTGGATCAACATTTTCAGTGG
Found at i:2359786 original size:16 final size:16
Alignment explanation
Indices: 2359765--2359812 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
2359755 CCAAAGATGT
2359765 CAACTTTCAATTTTGC
1 CAACTTTCAATTTTGC
*
2359781 CAACTTTCAATTTTAC
1 CAACTTTCAATTTTGC
*
2359797 CAACTTTCAACTTTGC
1 CAACTTTCAATTTTGC
2359813 TAATTTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.42
Consensus pattern (16 bp):
CAACTTTCAATTTTGC
Found at i:2363372 original size:23 final size:23
Alignment explanation
Indices: 2363330--2363404 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
2363320 CACTGAGGTG
* *
2363330 CCACATA--TTTGTCCCGAATGA
1 CCACATAGTTTTGCCCCCAATGA
*
2363351 CTACATAGTTTTGCCCCCAATGA
1 CCACATAGTTTTGCCCCCAATGA
* * *
2363374 CCACATAGTTTTGTCCCAAAGGA
1 CCACATAGTTTTGCCCCCAATGA
*
2363397 CCATATAG
1 CCACATAG
2363405 AACACTCGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.14
23 38 0.86
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (23 bp):
CCACATAGTTTTGCCCCCAATGA
Found at i:2370424 original size:23 final size:23
Alignment explanation
Indices: 2370379--2370461 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
2370369 ATAAATTGAA
2370379 CCGAAGTG-CCACATA--TTTGTC
1 CCGAAG-GACCACATAGTTTTGTC
2370400 CCGAAGGACCACATAGTTTTGTC
1 CCGAAGGACCACATAGTTTTGTC
* * *
2370423 CCAAATGACCACATAGTTTTGTA
1 CCGAAGGACCACATAGTTTTGTC
* *
2370446 CCGAATGACCATATAG
1 CCGAAGGACCACATAG
2370462 AACCCTCGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.02
21 13 0.24
23 40 0.74
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (23 bp):
CCGAAGGACCACATAGTTTTGTC
Found at i:2373130 original size:23 final size:24
Alignment explanation
Indices: 2373104--2373151 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
2373094 TGCATGACAT
2373104 TGTACATAGATGTTTTA-ACATCA
1 TGTACATAGATGTTTTATACATCA
2373127 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
2373151 T
1 T
2373152 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:2380143 original size:24 final size:24
Alignment explanation
Indices: 2380111--2380159 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2380101 TGCATGACAT
*
2380111 TGTACATAGATGTTTTATATATCA
1 TGTACATAGATGTTTTATACATCA
2380135 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
2380159 T
1 T
2380160 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:2400793 original size:3 final size:3
Alignment explanation
Indices: 2400785--2400840 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
2400775 TGTAAAAATG
* * *
2400785 TAA TAA TAA TAA TAA TAA TGA TAA TGA TAA -AA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2400832 TTAA TAA TA
1 -TAA TAA TA
2400841 TTTTTTAGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2401079 original size:40 final size:40
Alignment explanation
Indices: 2401035--2401187 Score: 105
Period size: 40 Copynumber: 3.7 Consensus size: 40
2401025 CATCTAAGGG
*
2401035 TGACACAACTCCTACGTGATGAGGAGATATGGTCGGTGGA
1 TGACACAATTCCTACGTGATGAGGAGATATGGTCGGTGGA
* * * ** *
2401075 TGACACGATTCCTATGCGATGAGGACG-GCTGGTTATCTAGTGG-
1 TGACACAATTCCTACGTGATGAGGA-GATATGG---TC-GGTGGA
* * *
2401118 TGACACGGA-TCCTACGTGATGAAGAGGTATGGTCGGTGGA
1 TGACAC-AATTCCTACGTGATGAGGAGATATGGTCGGTGGA
* * *
2401158 TGACATAGTTCTTACGTGATGAGGAAGATA
1 TGACACAATTCCTACGTGATGAGG-AGATA
2401188 AACCATCTTT
Statistics
Matches: 84, Mismatches: 19, Indels: 19
0.69 0.16 0.16
Matches are distributed among these distances:
39 4 0.05
40 44 0.52
41 5 0.06
42 1 0.01
43 24 0.29
44 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (40 bp):
TGACACAATTCCTACGTGATGAGGAGATATGGTCGGTGGA
Found at i:2401456 original size:131 final size:129
Alignment explanation
Indices: 2401083--2401465 Score: 405
Period size: 131 Copynumber: 2.9 Consensus size: 129
2401073 GATGACACGA
* * * * * *
2401083 TTCCTATGCGATGAGGACGGCTGGTTATCT-AGTGGTGACACGGATCCTACGTGATGAAGAGGTA
1 TTCCTACGCGATGAGGACGACTGATTATCTGAG-GGTGACACGGCT-CTACGTGATGAGGAGGTC
* * * *
2401147 TGGTCGGTGGATG-ACATAGTTCTTACGTGATGAGGAAGATAAACCATCTTTAGGGATGATAACA
64 TGGTCGGGGGATGAACAT-TTTC-TACGTGATGAGGATGATAGACCATCTTTAGGGATGATAACA
2401211 CAG
127 CAG
* *
2401214 TTCCTACGGGATGAGGACGACT-AGTTATCTGAGGGTGACACGGCTCTTACGTGATGAGGAAGTC
1 TTCCTACGCGATGAGGACGACTGA-TTATCTGAGGGTGACACGGCTC-TACGTGATGAGGAGGTC
* * * * * *
2401278 TGGTCGGGGAATGATACGA-TTCCTACATGATGAGGATAACAGACCATCTTTAGGGATGATAATA
64 TGGTCGGGGGATGA-AC-ATTTTCTACGTGATGAGGATGATAGACCATCTTTAGGGATGATAACA
**
2401342 TGG
127 CAG
* * *
2401345 TTCCTACGTGATGAGGACGAATGATTATCTGAGGTTGACACGGCTACTACGTGATGAGGAGGTCT
1 TTCCTACGCGATGAGGACGACTGATTATCTGAGGGTGACACGGCT-CTACGTGATGAGGAGGTCT
* * * *
2401410 GGTCGGGGGATGAAACATTTTCTACGCGATGAGGATGGTTGGCCATCTTTAGGGAT
65 GGTCGGGGGATG-AACATTTTCTACGTGATGAGGATGATAGACCATCTTTAGGGAT
2401466 TTGTTTCAAG
Statistics
Matches: 209, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
130 2 0.01
131 197 0.94
132 7 0.03
133 2 0.01
134 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (129 bp):
TTCCTACGCGATGAGGACGACTGATTATCTGAGGGTGACACGGCTCTACGTGATGAGGAGGTCTG
GTCGGGGGATGAACATTTTCTACGTGATGAGGATGATAGACCATCTTTAGGGATGATAACACAG
Found at i:2401591 original size:66 final size:66
Alignment explanation
Indices: 2401467--2401592 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
2401457 TTTAGGGATT
* ** **
2401467 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAATATTG
1 TGTTTCAAGAGAAACTATCTCAACAGAGACAAAATTCGTTTCAAGACAAACGATCTCAAATATTG
2401532 G
66 G
* * *
2401533 TGTTTCAAGATAAACTATTTCAACAGAGACAAAATTTGTTTCAAGACAAAC-ATACTCAAA
1 TGTTTCAAGAGAAACTATCTCAACAGAGACAAAATTCGTTTCAAGACAAACGAT-CTCAAA
2401593 GATTATAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.04
66 49 0.96
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTATCTCAACAGAGACAAAATTCGTTTCAAGACAAACGATCTCAAATATTG
G
Found at i:2401759 original size:39 final size:37
Alignment explanation
Indices: 2401642--2401759 Score: 121
Period size: 39 Copynumber: 3.1 Consensus size: 37
2401632 TGTGTTCTAA
*
2401642 AGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAG
1 AGAAAAATGTCTTAAGCGAGACGAAATTTGTTTTGAG
* * ***
2401679 A-AAAATTGTCTTAAGCGAGACAAAATTTTGTTTTTTT
1 AGAAAAATGTCTTAAGCGAGACGAAA-TTTGTTTTGAG
* **
2401716 AGAAAAATGATCTTTAGCGAGACGACGCTTTGTTTTGAG
1 AGAAAAATG-TCTTAAGCGAGACGA-AATTTGTTTTGAG
2401755 AGAAA
1 AGAAA
2401760 CAATCTCAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
36 21 0.33
37 10 0.16
38 6 0.10
39 26 0.41
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (37 bp):
AGAAAAATGTCTTAAGCGAGACGAAATTTGTTTTGAG
Found at i:2402934 original size:16 final size:16
Alignment explanation
Indices: 2402909--2402964 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
2402899 CTTCTTGTCC
2402909 TTTT-TTTCTTTACTT
1 TTTTCTTTCTTTACTT
*
2402924 TTTTCTTTCTTTGCTT
1 TTTTCTTTCTTTACTT
* *
2402940 TTTTCTATCTTTGATTT
1 TTTTCTTTCTTT-ACTT
2402957 TTTTCTTT
1 TTTTCTTT
2402965 GATTTTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 4 0.12
16 21 0.62
17 9 0.26
ACGTcount: A:0.05, C:0.14, G:0.04, T:0.77
Consensus pattern (16 bp):
TTTTCTTTCTTTACTT
Found at i:2402973 original size:16 final size:16
Alignment explanation
Indices: 2402909--2402984 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
2402899 CTTCTTGTCC
2402909 TTTTTTTCTTT-ACTTT
1 TTTTTTTCTTTGA-TTT
* *
2402925 TTTCTTTCTTTGCTTT
1 TTTTTTTCTTTGATTT
* *
2402941 TTTCTATCTTTGA---
1 TTTTTTTCTTTGATTT
2402954 TTTTTTTCTTTGATTT
1 TTTTTTTCTTTGATTT
2402970 TTTTCTTTGCTTTGA
1 TTTT-TTT-CTTTGA
2402985 ATTGATCTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
13 11 0.23
16 28 0.58
17 3 0.06
18 6 0.12
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.74
Consensus pattern (16 bp):
TTTTTTTCTTTGATTT
Found at i:2405807 original size:23 final size:23
Alignment explanation
Indices: 2405774--2405856 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 23
2405764 CATAACCATT
2405774 TTTTAGAAAAATAATTAAATATTA
1 TTTTA-AAAAATAATTAAATATTA
*
2405798 TTTTAAAAAATAATTAAATATCA
1 TTTTAAAAAATAATTAAATATTA
* *
2405821 TTTTAAAAAACAATTATGAATTTTA
1 TTTTAAAAAATAATTA--AATATTA
*
2405846 TTTTGAAAAAT
1 TTTTAAAAAAT
2405857 TAGTGATTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 32 0.63
24 5 0.10
25 14 0.27
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTTAAAAAATAATTAAATATTA
Found at i:2408307 original size:3 final size:3
Alignment explanation
Indices: 2408299--2408357 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
2408289 ATTGTTATAT
* * *
2408299 TAA TAA TAA TAA TAA TAA TGA TAA -AA TAA TGA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2408346 TAA TTAA TAA TA
1 TAA -TAA TAA TA
2408358 TTTTTTAGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.90
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2409795 original size:20 final size:20
Alignment explanation
Indices: 2409748--2409802 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2409738 ACTAAACCAA
*
2409748 TTGGAAATTGACAAAATCGG
1 TTGGAATTTGACAAAATCGG
2409768 TTGGAATTTGACAAAATCGG
1 TTGGAATTTGACAAAATCGG
**
2409788 TTTTAATTTGA-AAAA
1 TTGGAATTTGACAAAA
2409803 CTAATAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGGAATTTGACAAAATCGG
Found at i:2410147 original size:193 final size:193
Alignment explanation
Indices: 2409915--2410279 Score: 468
Period size: 193 Copynumber: 1.9 Consensus size: 193
2409905 AAACGTCTCA
* * * *
2409915 AAAGTATCGATACCTTACACAGATGTATCGATACATGACAATATAACATGTTCAAATTTGACAAA
1 AAAGTATCCATACCTTACACACATGTATCGATACATGACAATATAACATGTTCAAATCTGAAAAA
* * * * * * *
2409980 ACCGGTTTTAATTTGACAAAATCGGTAAAAAGCTACCGGA-A-GTCTTGACATTATCGA-TACTT
66 ACCAGTTTCAATTTGAAAAAACCAGTAAAAAGCTACCGAATATGT-TT-ACAGTATCGATTA-TT
*
2410042 TTATAAGTATATGTATCAAAGTATCA-GTACTGTAGGAATTGAAAATAATTGAATAATAAAGCCT
128 TTATAAGTATATGTACCAAAGTAT-ATGTACTGTAGGAATTGAAAATAATTGAATAATAAAGCCT
2410106 AT
192 AT
* * *
2410108 AAAGTATCCATACCTTAGACACATGTATCGATTCATGACAATATAACATGTTGAAATCTGAAAAA
1 AAAGTATCCATACCTTACACACATGTATCGATACATGACAATATAACATGTTCAAATCTGAAAAA
* ** * *
2410173 ACCAGTTTCAATTTTAAAAAACCAGTAAAGCGCTACCGAATATGTTTACGGTATTGATTATTTTA
66 ACCAGTTTCAATTTGAAAAAACCAGTAAAAAGCTACCGAATATGTTTACAGTATCGATTATTTTA
* *
2410238 TAAGTATATGTACCATAGTATATGTACTTTAGGAATTGAAAA
131 TAAGTATATGTACCAAAGTATATGTACTGTAGGAATTGAAAA
2410280 GAAATGAAAA
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
192 1 0.01
193 138 0.95
194 5 0.03
195 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (193 bp):
AAAGTATCCATACCTTACACACATGTATCGATACATGACAATATAACATGTTCAAATCTGAAAAA
ACCAGTTTCAATTTGAAAAAACCAGTAAAAAGCTACCGAATATGTTTACAGTATCGATTATTTTA
TAAGTATATGTACCAAAGTATATGTACTGTAGGAATTGAAAATAATTGAATAATAAAGCCTAT
Found at i:2412368 original size:12 final size:12
Alignment explanation
Indices: 2412351--2412386 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
2412341 AAAGGAAGAG
2412351 GAAGAAGAGAAT
1 GAAGAAGAGAAT
*
2412363 GAAGAAGAGAAG
1 GAAGAAGAGAAT
2412375 GAAGAAGAGAAT
1 GAAGAAGAGAAT
2412387 ATAGTAGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (12 bp):
GAAGAAGAGAAT
Found at i:2415472 original size:12 final size:12
Alignment explanation
Indices: 2415455--2415490 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
2415445 AAATACGGTA
2415455 TGAACAGTACCG
1 TGAACAGTACCG
*
2415467 TGAACAGTGCCG
1 TGAACAGTACCG
*
2415479 TGAACAATACCG
1 TGAACAGTACCG
2415491 GATTCTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:2416446 original size:39 final size:40
Alignment explanation
Indices: 2416392--2416467 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
2416382 TGAAATTTCT
2416392 CCCGAAGAACCACTATGTCC-GAAGGACCACTGTATATGC
1 CCCGAAGAACCACTATGTCCTGAAGGACCACTGTATATGC
* *
2416431 CCCGAAGGACTACTATGTCCTGAAGGACCACTGTATA
1 CCCGAAGAACCACTATGTCCTGAAGGACCACTGTATA
2416468 ACCCTCGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 18 0.53
40 16 0.47
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (40 bp):
CCCGAAGAACCACTATGTCCTGAAGGACCACTGTATATGC
Found at i:2416870 original size:16 final size:16
Alignment explanation
Indices: 2416851--2416885 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2416841 TGCATATCAA
2416851 ATAATTTACATAGAAC
1 ATAATTTACATAGAAC
*
2416867 ATAATTTACATAGCAC
1 ATAATTTACATAGAAC
2416883 ATA
1 ATA
2416886 TCAGTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAATTTACATAGAAC
Found at i:2419573 original size:16 final size:18
Alignment explanation
Indices: 2419538--2419574 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
2419528 TTTACATTCC
2419538 TTTCATATCATTTATACT
1 TTTCATATCATTTATACT
*
2419556 TTTCAT-TC-TTTATCCT
1 TTTCATATCATTTATACT
2419572 TTT
1 TTT
2419575 AACGTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCATATCATTTATACT
Found at i:2420362 original size:12 final size:12
Alignment explanation
Indices: 2420345--2420369 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2420335 TAAAGTTGAT
2420345 AAGTTAAATTTG
1 AAGTTAAATTTG
2420357 AAGTTAAATTTG
1 AAGTTAAATTTG
2420369 A
1 A
2420370 CTTGTCATCA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGTTAAATTTG
Found at i:2421409 original size:18 final size:18
Alignment explanation
Indices: 2421386--2421455 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
2421376 GTTACACAGG
2421386 GGTCATTCGGGACATAGT
1 GGTCATTCGGGACATAGT
2421404 GGTCATTCGGGACATATACAGT
1 GGTCATTCGGGAC--AT--AGT
* *
2421426 GGTCTTTCGGGATATAGT
1 GGTCATTCGGGACATAGT
*
2421444 GGTCCTTCGGGA
1 GGTCATTCGGGA
2421456 GAAATTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 27 0.60
20 4 0.09
22 14 0.31
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (18 bp):
GGTCATTCGGGACATAGT
Found at i:2426275 original size:48 final size:49
Alignment explanation
Indices: 2426193--2426298 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 49
2426183 TTAATTAGAT
* * * * *
2426193 TTATTATTTTATTAGGAATTAATATAGATTTAAAATATCATTTTATTTA
1 TTATTATTTTATTAGGAATTAAGATAAAATTAAAACATCATCTTATTTA
* *
2426242 TTATTATTTTATT-GGAATTAGGATAAAATTAAAACATTATCTTATTTA
1 TTATTATTTTATTAGGAATTAAGATAAAATTAAAACATCATCTTATTTA
2426290 TTATT-TTTT
1 TTATTATTTT
2426299 CAGTAGTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 4 0.08
48 33 0.66
49 13 0.26
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.54
Consensus pattern (49 bp):
TTATTATTTTATTAGGAATTAAGATAAAATTAAAACATCATCTTATTTA
Found at i:2428419 original size:185 final size:186
Alignment explanation
Indices: 2428101--2428471 Score: 699
Period size: 185 Copynumber: 2.0 Consensus size: 186
2428091 TGCTGATATT
2428101 CAACTAACAAAAGCTCCACCAAACCAAATGCAACCAAGATGTGGAAAACCTAGGCTTCTTATGAC
1 CAACTAACAAAAGCTCCACCAAACCAAATGCAACCAAGATGTGGAAAACCTAGGCTTCTTATGAC
* *
2428166 ATAAATCTTTTCTAAATTGAATTTCACAATCCCATAATTCAAATAAGACTATAATCCAAACGTTT
66 ATAAATCTTTTCTAAATTGAATTTCACAATCCCACAATTCAAATAAGACTATAATCCAAACATTT
2428231 ACATTGACTGGGAAAGAAAAATTGATCTTATGTTTTCATACCATGA-TATCCTCCA
131 ACATTGACTGGGAAAGAAAAATTGATCTTATGTTTTCATACCATGATTATCCTCCA
*
2428286 CAACTAACAAAAGCTCCACCAAACCTAATGCAACCAAGATGTGGAAAACCTAGGCTTCTTATGAC
1 CAACTAACAAAAGCTCCACCAAACCAAATGCAACCAAGATGTGGAAAACCTAGGCTTCTTATGAC
2428351 ATAAATCTTTTCTAAATTGAATTTCACAATCCCACAATTCAAATAAGACTATAATCCAAACATTT
66 ATAAATCTTTTCTAAATTGAATTTCACAATCCCACAATTCAAATAAGACTATAATCCAAACATTT
*
2428416 ACATTGACTGGGAAAGAAAAATTTATCTTATGTTTTCATACCATGATTATCCTCCA
131 ACATTGACTGGGAAAGAAAAATTGATCTTATGTTTTCATACCATGATTATCCTCCA
2428472 AGAGAACAAG
Statistics
Matches: 181, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
185 172 0.95
186 9 0.05
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (186 bp):
CAACTAACAAAAGCTCCACCAAACCAAATGCAACCAAGATGTGGAAAACCTAGGCTTCTTATGAC
ATAAATCTTTTCTAAATTGAATTTCACAATCCCACAATTCAAATAAGACTATAATCCAAACATTT
ACATTGACTGGGAAAGAAAAATTGATCTTATGTTTTCATACCATGATTATCCTCCA
Found at i:2430660 original size:51 final size:51
Alignment explanation
Indices: 2430571--2430678 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
2430561 GATTAGATTT
* * * *
2430571 ATTATTTTATTAGGAATTAAGATAGAGTTAAAATATTATTTTTAATTTATC
1 ATTATTTTATTAGGAATTAAGATAGAATCAAAACATTATCTTTAATTTATC
** *
2430622 ATTATTTTATTAGGAATTAAGATTTAATCAAAACATTATCTTTAGTTTATC
1 ATTATTTTATTAGGAATTAAGATAGAATCAAAACATTATCTTTAATTTATC
*
2430673 GTTATT
1 ATTATT
2430679 ATTTTATTCA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (51 bp):
ATTATTTTATTAGGAATTAAGATAGAATCAAAACATTATCTTTAATTTATC
Found at i:2434224 original size:35 final size:35
Alignment explanation
Indices: 2434167--2434368 Score: 223
Period size: 35 Copynumber: 5.7 Consensus size: 35
2434157 GAAATATTTT
*
2434167 TATATAT-ATATTA-TTTTGAAAACATTTTGAAAA
1 TATATATAATATAAGTTTTGAAAACATTTTGAAAA
* * *
2434200 CT-TATATAAGATAATTTTTAAAAACATTTTGAAAA
1 -TATATATAATATAAGTTTTGAAAACATTTTGAAAA
* *
2434235 TATATATATTATATAGTTTTGAAAATATTTTGAAAA
1 TATATATAATATA-AGTTTTGAAAACATTTTGAAAA
*
2434271 TATATATAATATTAGTTTTGAAAACATTTTGAAAA
1 TATATATAATATAAGTTTTGAAAACATTTTGAAAA
* *
2434306 TATATATGTTATATATAGTTTTGAAAATATTTTGAAAA
1 TATATA--TAATATA-AGTTTTGAAAACATTTTGAAAA
*
2434344 -AAATATATATATATAGTTTTGAAAA
1 TATATATA-ATATA-AGTTTTGAAAA
2434369 ATATATATTA
Statistics
Matches: 144, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
33 5 0.03
34 6 0.04
35 56 0.39
36 47 0.33
37 9 0.06
38 21 0.15
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (35 bp):
TATATATAATATAAGTTTTGAAAACATTTTGAAAA
Found at i:2434259 original size:71 final size:71
Alignment explanation
Indices: 2434167--2434369 Score: 245
Period size: 71 Copynumber: 2.8 Consensus size: 71
2434157 GAAATATTTT
* *
2434167 TATATATA-TAT-TA-TTTTGAAAACATTTTGAAAACT-TATATAAGATAATTTTTAAAAACATT
1 TATATATATTATATAGTTTTGAAAATATTTTGAAAA-TATATATAAGATAAGTTTTAAAAACATT
2434228 TTGAAAA
65 TTGAAAA
* * *
2434235 TATATATATTATATAGTTTTGAAAATATTTTGAAAATATATATAATATTAGTTTTGAAAACATTT
1 TATATATATTATATAGTTTTGAAAATATTTTGAAAATATATATAAGATAAGTTTTAAAAACATTT
2434300 TGAAAA
66 TGAAAA
* * *
2434306 TATATATGTTATATATAGTTTTGAAAATATTTTGAAAA-AAATATATATATATAGTTTTGAAAAA
1 TATATAT-AT-TATATAGTTTTGAAAATATTTTGAAAATATATATA-AGATA-AGTTTT-AAAAA
2434370 TATATATTAT
Statistics
Matches: 117, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
68 8 0.07
69 3 0.03
70 3 0.03
71 55 0.47
72 7 0.06
73 31 0.26
74 6 0.05
75 4 0.03
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (71 bp):
TATATATATTATATAGTTTTGAAAATATTTTGAAAATATATATAAGATAAGTTTTAAAAACATTT
TGAAAA
Done.