Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 25 of 425
Found at i:6347501 original size:28 final size:28
Alignment explanation
Indices: 6347448--6347501 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
6347438 CCATTGTTGA
* *
6347448 AAATTTTTAAATTTAAATTTTGAAAAAT
1 AAATTTTTAAATTTAAATATTCAAAAAT
6347476 AAATTTTTAAATATTAAA-ATTCAAAA
1 AAATTTTTAAAT-TTAAATATTCAAAA
6347502 TTATAGTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
AAATTTTTAAATTTAAATATTCAAAAAT
Found at i:6347572 original size:14 final size:14
Alignment explanation
Indices: 6347553--6347584 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6347543 ATTTTAACAT
6347553 TTTATTTAATTTAA
1 TTTATTTAATTTAA
*
6347567 TTTATTTAATTTAT
1 TTTATTTAATTTAA
6347581 TTTA
1 TTTA
6347585 ATGTTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTAATTTAA
Found at i:6348534 original size:13 final size:13
Alignment explanation
Indices: 6348499--6348539 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 13
6348489 AAAATTTTTA
6348499 ATTTTAAGAAAAAT
1 ATTTTAA-AAAAAT
6348513 ATTTGTAAAAAAAT
1 ATTT-TAAAAAAAT
6348527 ATTTTAAAAAAAT
1 ATTTTAAAAAAAT
6348540 TTGACGGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.35
14 14 0.54
15 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (13 bp):
ATTTTAAAAAAAT
Found at i:6348583 original size:8 final size:8
Alignment explanation
Indices: 6348570--6348597 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6348560 TTATTTAATT
6348570 TTTTTATA
1 TTTTTATA
6348578 TTTTTATA
1 TTTTTATA
6348586 TTTTTATA
1 TTTTTATA
6348594 TTTT
1 TTTT
6348598 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:6348604 original size:16 final size:16
Alignment explanation
Indices: 6348570--6348605 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6348560 TTATTTAATT
* *
6348570 TTTTTATATTTTTATA
1 TTTTTATATTTTCAAA
6348586 TTTTTATATTTTCAAA
1 TTTTTATATTTTCAAA
6348602 TTTT
1 TTTT
6348606 AATAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTATATTTTCAAA
Found at i:6356802 original size:65 final size:65
Alignment explanation
Indices: 6356698--6356887 Score: 220
Period size: 72 Copynumber: 2.8 Consensus size: 65
6356688 TTTGATCAGT
* *
6356698 GACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAA-TCGACAAG
1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGT-GACAAG
6356762 C
65 C
* *
6356763 GACAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGTGACAAGTGATAAGTGATAAGT
1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG---A-T--C-AGTGATAAGTGACAAGT
* *
6356828 GATAAGT
59 GACAAGC
* * *
6356835 GATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGA
6356888 TAAATGTAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
65 46 0.43
66 1 0.01
68 2 0.02
69 2 0.02
71 1 0.01
72 54 0.50
73 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (65 bp):
GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATAAGTGACAAGTGACAAGC
Found at i:6356820 original size:7 final size:7
Alignment explanation
Indices: 6356799--6356849 Score: 84
Period size: 7 Copynumber: 7.3 Consensus size: 7
6356789 TACAATTATC
*
6356799 TGATCAG
1 TGATAAG
*
6356806 TGACAAG
1 TGATAAG
6356813 TGATAAG
1 TGATAAG
6356820 TGATAAG
1 TGATAAG
6356827 TGATAAG
1 TGATAAG
6356834 TGATAAG
1 TGATAAG
6356841 TGATAAG
1 TGATAAG
6356848 TG
1 TG
6356850 GTAGTTTTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.39, C:0.04, G:0.29, T:0.27
Consensus pattern (7 bp):
TGATAAG
Found at i:6356842 original size:72 final size:72
Alignment explanation
Indices: 6356739--6356890 Score: 234
Period size: 72 Copynumber: 2.1 Consensus size: 72
6356729 TTATCTGATC
6356739 AGTGATAAGTGACAATCGACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATC
1 AGTGATAAGTGACAATCGACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATC
6356804 AGTGACA
66 AGTGACA
* * * * * *
6356811 AGTGATAAGTGATAAGT-GATAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGAT
1 AGTGATAAGTGACAA-TCGACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGAT
6356875 CAGTGACA
65 CAGTGACA
6356883 AGTGATAA
1 AGTGATAA
6356891 ATGTAATCAG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
72 72 0.99
73 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.28
Consensus pattern (72 bp):
AGTGATAAGTGACAATCGACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATC
AGTGACA
Found at i:6357945 original size:13 final size:13
Alignment explanation
Indices: 6357929--6357956 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6357919 ATAAATAAAT
6357929 TATTAATTAAAAA
1 TATTAATTAAAAA
6357942 TATTAATTAAAAA
1 TATTAATTAAAAA
6357955 TA
1 TA
6357957 AAATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:6361111 original size:22 final size:21
Alignment explanation
Indices: 6361077--6361131 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
6361067 TGTTATTAAA
*
6361077 TTTTAATAAAATATTAAATATAT
1 TTTTAAT-TAATATTAAATAT-T
**
6361100 TTTTAATTAATATTTTATATT
1 TTTTAATTAATATTAAATATT
6361121 TTTTAAATTAA
1 TTTT-AATTAA
6361132 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 16 0.57
23 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAATTAATATTAAATATT
Found at i:6362923 original size:8 final size:8
Alignment explanation
Indices: 6362903--6362931 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6362893 CTTAATATTA
6362903 TAAAATT-
1 TAAAATTC
6362910 TAAAATTC
1 TAAAATTC
6362918 TAAAATTC
1 TAAAATTC
6362926 TAAAAT
1 TAAAAT
6362932 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAAATTC
Found at i:6362937 original size:2 final size:2
Alignment explanation
Indices: 6362930--6362958 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6362920 AAATTCTAAA
6362930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6362959 AACCCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6375012 original size:17 final size:17
Alignment explanation
Indices: 6374992--6375027 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6374982 AAATTTAAAA
6374992 TTAAATAAAAAAATTAT
1 TTAAATAAAAAAATTAT
* *
6375009 TTAAATTAAATAATTAT
1 TTAAATAAAAAAATTAT
6375026 TT
1 TT
6375028 TTTTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAAAAAAATTAT
Found at i:6375380 original size:14 final size:14
Alignment explanation
Indices: 6375337--6375380 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
6375327 TAAAATGGTA
6375337 AAATTTTAATTTA-
1 AAATTTTAATTTAT
6375350 AACATTTTATAATTTAT
1 AA-A-TTT-TAATTTAT
6375367 AAATTTTAATTTAT
1 AAATTTTAATTTAT
6375381 TAATGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 6 0.22
16 8 0.30
17 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTTTAATTTAT
Found at i:6380011 original size:25 final size:25
Alignment explanation
Indices: 6379987--6380034 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
6379977 ATGTGGAATA
*
6379987 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
6380011 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
6380035 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:6380045 original size:25 final size:24
Alignment explanation
Indices: 6379995--6380047 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
6379985 TAATGTATAG
**
6379995 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
6380019 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
6380044 AATA
1 AATA
6380048 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:6383648 original size:23 final size:23
Alignment explanation
Indices: 6383604--6383653 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 23
6383594 ATTAAACTGA
6383604 AAAATTCATCCGTACAATTGCA-T
1 AAAATTCA-CCGTACAATTGCACT
6383627 AAAATTCA-CGTATCAATGTGCACT
1 AAAATTCACCGTA-CAAT-TGCACT
6383651 AAA
1 AAA
6383654 TGAAGGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 12 0.50
24 4 0.17
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (23 bp):
AAAATTCACCGTACAATTGCACT
Found at i:6387822 original size:11 final size:11
Alignment explanation
Indices: 6387806--6387865 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
6387796 GTAACATTAA
6387806 AAAATATATAT
1 AAAATATATAT
6387817 AAAATATATATT
1 AAAATATATA-T
*
6387829 AAAAGACTTATAT
1 AAAATA--TATAT
* *
6387842 ATAACATATAT
1 AAAATATATAT
6387853 GAAAA-ATATAT
1 -AAAATATATAT
6387864 AA
1 AA
6387866 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:6387868 original size:25 final size:24
Alignment explanation
Indices: 6387805--6387864 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
6387795 AGTAACATTA
* * *
6387805 AAAAATATATATAAAATATATATT
1 AAAAATATATATATAACATATATG
6387829 AAAAGACT-TATATATAACATATATG
1 AAAA-A-TATATATATAACATATATG
6387854 AAAAATATATA
1 AAAAATATATA
6387865 ATATTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.03
24 9 0.30
25 19 0.63
26 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAAATATATATATAACATATATG
Found at i:6388601 original size:12 final size:14
Alignment explanation
Indices: 6388565--6388592 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6388555 AAAAGAGAGA
6388565 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
6388579 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
6388593 GAGAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Found at i:6390556 original size:9 final size:9
Alignment explanation
Indices: 6390539--6390568 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6390529 ACCAATCTAC
6390539 TATTCGAAT
1 TATTCGAAT
*
6390548 TATTTGAAT
1 TATTCGAAT
6390557 TATTCGAAT
1 TATTCGAAT
6390566 TAT
1 TAT
6390569 AAAATTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6392834 original size:19 final size:21
Alignment explanation
Indices: 6392789--6392835 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
6392779 TCATATCATC
*
6392789 TTATATTTTTTATCAATTATT
1 TTATATTATTTATCAATTATT
* *
6392810 TAATATTATTT-T-AATTTTT
1 TTATATTATTTATCAATTATT
6392829 TTATATT
1 TTATATT
6392836 TAACACATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 12 0.55
20 1 0.05
21 9 0.41
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATTATTTATCAATTATT
Found at i:6392926 original size:21 final size:20
Alignment explanation
Indices: 6392887--6392926 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6392877 CTTTGAACCC
*
6392887 TAGATTTAAACCTTAAATCT
1 TAGATTTAAACCCTAAATCT
*
6392907 TAGACTTTAAACCCTGAATC
1 TAGA-TTTAAACCCTAAATC
6392927 CAAGGTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (20 bp):
TAGATTTAAACCCTAAATCT
Found at i:6400981 original size:26 final size:24
Alignment explanation
Indices: 6400931--6400981 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
6400921 TTTTAAAGCT
6400931 AGAGAAAAAGAAAAAAAAAGAAGA
1 AGAGAAAAAGAAAAAAAAAGAAGA
*
6400955 AGAGGAAAAGAAGAAGAAAAAGAAGA
1 AGAGAAAAAGAA-AA-AAAAAGAAGA
6400981 A
1 A
6400982 AAATTGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.46
25 2 0.08
26 11 0.46
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (24 bp):
AGAGAAAAAGAAAAAAAAAGAAGA
Found at i:6408753 original size:32 final size:32
Alignment explanation
Indices: 6408712--6408775 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
6408702 ACTGTCATCG
*
6408712 TCTATCCAAATGGAATTTAAAAAGTTCTAAAA
1 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
6408744 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
1 TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
6408776 GAGAATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (32 bp):
TCTATCCAAATGGAATTTAAAAAGCTCTAAAA
Found at i:6409347 original size:18 final size:17
Alignment explanation
Indices: 6409326--6409390 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 17
6409316 AAAATTACAA
6409326 AAAAATTAAAATATTTAT
1 AAAAATTAAAA-ATTTAT
*
6409344 AAAAATTTCAAAATTTAT
1 AAAAA-TTAAAAATTTAT
*** *
6409362 -ATTTTTAAAAAAATTAT
1 AAAAATT-AAAAATTTAT
6409379 AAAAATTAAAAA
1 AAAAATTAAAAA
6409391 GCTAAAGAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
16 2 0.06
17 14 0.40
18 14 0.40
19 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAATTAAAAATTTAT
Found at i:6415573 original size:20 final size:20
Alignment explanation
Indices: 6415534--6415579 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6415524 TTTAATAGTA
6415534 ATTTAATATTAAAATGATAT
1 ATTTAATATTAAAATGATAT
* * *
6415554 ATTTGATATTAAATTTATAT
1 ATTTAATATTAAAATGATAT
6415574 -TTTAAT
1 ATTTAAT
6415580 TGAATTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTAATATTAAAATGATAT
Found at i:6416325 original size:8 final size:8
Alignment explanation
Indices: 6416312--6416341 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6416302 TTGTATTTCC
6416312 ATATATAA
1 ATATATAA
6416320 ATATATAA
1 ATATATAA
6416328 ATATATAA
1 ATATATAA
6416336 ATATAT
1 ATATAT
6416342 TATATATCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATATAA
Found at i:6432600 original size:46 final size:47
Alignment explanation
Indices: 6432537--6432810 Score: 351
Period size: 46 Copynumber: 5.9 Consensus size: 47
6432527 TTCGACATGA
* * * * * *
6432537 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCACGT
* ** * ** *
6432583 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCACGT
* *
6432630 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCACGT
*
6432676 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCACGT
* *
6432722 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCACGT
6432768 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCA
6432811 GAGAGCACAC
Statistics
Matches: 203, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 170 0.84
47 33 0.16
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCACGT
Found at i:6434926 original size:55 final size:55
Alignment explanation
Indices: 6434855--6434975 Score: 217
Period size: 55 Copynumber: 2.2 Consensus size: 55
6434845 CTTCTTTTCT
6434855 TCTTACTCTTTCTCACGTTGGTTTGCATGGAAAGGAAAGATGATGAAAATTCTTCA
1 TCTT-CTCTTTCTCACGTTGGTTTGCATGGAAAGGAAAGATGATGAAAATTCTTCA
*
6434911 TCTTCTCTTTCTCACGTTGGTTTGTATGGAAAGGAAAGATGATGAAAATTCTTCA
1 TCTTCTCTTTCTCACGTTGGTTTGCATGGAAAGGAAAGATGATGAAAATTCTTCA
6434966 TCTT-TCTTTC
1 TCTTCTCTTTC
6434976 CTTATATACT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 6 0.09
55 54 0.84
56 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (55 bp):
TCTTCTCTTTCTCACGTTGGTTTGCATGGAAAGGAAAGATGATGAAAATTCTTCA
Found at i:6435006 original size:11 final size:11
Alignment explanation
Indices: 6434990--6435041 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
6434980 TATACTAAAT
6434990 AAATAATAATA
1 AAATAATAATA
*
6435001 AAATAAT-ATT
1 AAATAATAATA
* *
6435011 AAATATCTCATA
1 AAATA-ATAATA
*
6435023 AAATATTAATA
1 AAATAATAATA
6435034 AAATAATA
1 AAATAATA
6435042 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:6440218 original size:16 final size:17
Alignment explanation
Indices: 6440195--6440234 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
6440185 CCATACATTG
6440195 TATACATA-TTCCAATC
1 TATACATACTTCCAATC
*
6440211 TGTACATACGTTCCAATC
1 TATACATAC-TTCCAATC
6440229 TATACA
1 TATACA
6440235 AGCGTGTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (17 bp):
TATACATACTTCCAATC
Found at i:6443483 original size:13 final size:14
Alignment explanation
Indices: 6443467--6443502 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6443457 CAATCTCATA
6443467 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
6443480 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
6443493 TCTC-ATTTCA
1 TCTCAATTTCA
6443503 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:6443492 original size:18 final size:19
Alignment explanation
Indices: 6443454--6443494 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6443444 TGGTTCATGT
6443454 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
6443473 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
6443491 TTTC
1 TTTC
6443495 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:6443723 original size:23 final size:23
Alignment explanation
Indices: 6443655--6443729 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
6443645 CCTGATCAGT
** *
6443655 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
6443677 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
6443697 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
6443720 ATACGACACA
1 ATACGACACA
6443730 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:6443737 original size:23 final size:23
Alignment explanation
Indices: 6443655--6443741 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
6443645 CCTGATCAGT
*
6443655 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
6443677 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
6443697 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
6443720 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
6443742 TCGATAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.62
22 1 0.02
23 18 0.34
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:6444144 original size:15 final size:15
Alignment explanation
Indices: 6444120--6444172 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
6444110 ATATATATAT
*
6444120 TATAATTTCAATCAA
1 TATAAATTCAATCAA
6444135 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
6444150 AATGATTTCAATCAA
1 TATAAATTCAATCAA
6444165 TATAAATT
1 TATAAATT
6444173 TGATAAATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:6444924 original size:15 final size:15
Alignment explanation
Indices: 6444904--6444932 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6444894 TTCGTTTCCA
6444904 CATTCTGTTTCTTTT
1 CATTCTGTTTCTTTT
6444919 CATTCTGTTTCTTT
1 CATTCTGTTTCTTT
6444933 CCTTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CATTCTGTTTCTTTT
Found at i:6444944 original size:20 final size:21
Alignment explanation
Indices: 6444921--6444963 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
6444911 TTTCTTTTCA
* *
6444921 TTCTGTTTCTTTCCTTTA-TT
1 TTCTGTTTATTTACTTTACTT
*
6444941 TTCTTTTTATTTACTTTACTT
1 TTCTGTTTATTTACTTTACTT
6444962 TT
1 TT
6444964 AATAATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.72
Consensus pattern (21 bp):
TTCTGTTTATTTACTTTACTT
Found at i:6445165 original size:21 final size:22
Alignment explanation
Indices: 6445112--6445166 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
6445102 CAATTTAAAT
*
6445112 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
6445134 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
6445155 AATAATAATAAT
1 AATAATAATAAT
6445167 TTAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:6448240 original size:75 final size:72
Alignment explanation
Indices: 6448153--6448323 Score: 206
Period size: 75 Copynumber: 2.4 Consensus size: 72
6448143 GTTTTCCTCA
** * * **
6448153 TTGA-AATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 TTGATAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
6448216 TCAGTATGG
65 TCAGTAT-G
* *
6448225 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAG
1 --TTGATAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
6448290 CTCAGTATG
64 CTCAGTATG
6448299 --GATAATACCATACCTACATTTCACA
1 TTGATAATACCATACCTACATTTCACA
6448324 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 25 0.29
74 8 0.09
75 54 0.62
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (72 bp):
TTGATAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATG
Found at i:6448335 original size:35 final size:35
Alignment explanation
Indices: 6448157--6448323 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
6448147 TCCTCATTGA
** * *
6448157 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
* ** *
6448192 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAGCTCAGTAT-G----GAT
6448232 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAGCTCAGTATGGAT
6448267 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAGCTCAGTATGGAT
6448302 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
6448324 CTTTGCCATG
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
35 89 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAGCTCAGTATGGAT
Found at i:6459819 original size:19 final size:19
Alignment explanation
Indices: 6459795--6459833 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6459785 AATAAATATA
*
6459795 TATTTT-TAATAATATAATT
1 TATTTTGTAA-AAAATAATT
6459814 TATTTTGTAAAAAATAATT
1 TATTTTGTAAAAAATAATT
6459833 T
1 T
6459834 TTGTAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TATTTTGTAAAAAATAATT
Found at i:6461594 original size:34 final size:34
Alignment explanation
Indices: 6461555--6461620 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
6461545 AGGTATAACA
* *
6461555 ATAATATGATA-TAAAAGTATATATATATATATAT
1 ATAATACGATATTAAAAG-ACATATATATATATAT
*
6461589 ATAATACGATATTAAAAGACGTATATATATAT
1 ATAATACGATATTAAAAGACATATATATATAT
6461621 TAGGAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 22 0.79
35 6 0.21
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (34 bp):
ATAATACGATATTAAAAGACATATATATATATAT
Found at i:6463831 original size:40 final size:35
Alignment explanation
Indices: 6463746--6463913 Score: 196
Period size: 35 Copynumber: 4.7 Consensus size: 35
6463736 TTTCCTCATT
** *
6463746 GAAATACCATACCTACATTTTTCAACTCGGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
* **
6463781 GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
*
6463816 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-G
1 ----GA-AATACCATACCTACATTTCACAACTCAGTATGG
6463855 GATAATACCATACCTACATTTCACAACTCAGTAT-G
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
*
6463890 GATATACCATACCTACATTTCACA
1 GAAATACCATACCTACATTTCACA
6463914 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
34 21 0.18
35 67 0.57
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:6463831 original size:75 final size:74
Alignment explanation
Indices: 6463744--6463913 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
6463734 GTTTTCCTCA
** * * **
6463744 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
6463808 CAGTATGGAT
65 CAGTATGGAT
*
6463818 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
6463883 CAGTATGGA-
65 CAGTATGGAT
6463892 -T---ATACCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
6463914 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
69 21 0.24
73 1 0.01
74 7 0.08
75 58 0.67
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:6471328 original size:40 final size:35
Alignment explanation
Indices: 6471243--6471410 Score: 196
Period size: 35 Copynumber: 4.7 Consensus size: 35
6471233 TTTCCTCATT
** *
6471243 GAAATACCATACCTACATTTTTCAACTCGGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
* **
6471278 GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
*
6471313 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-G
1 ----GA-AATACCATACCTACATTTCACAACTCAGTATGG
6471352 GATAATACCATACCTACATTTCACAACTCAGTAT-G
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
*
6471387 GATATACCATACCTACATTTCACA
1 GAAATACCATACCTACATTTCACA
6471411 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
34 21 0.18
35 67 0.57
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:6471328 original size:75 final size:74
Alignment explanation
Indices: 6471241--6471410 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
6471231 GTTTTCCTCA
** * * **
6471241 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
6471305 CAGTATGGAT
65 CAGTATGGAT
*
6471315 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
6471380 CAGTATGGA-
65 CAGTATGGAT
6471389 -T---ATACCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
6471411 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
69 21 0.24
73 1 0.01
74 7 0.08
75 58 0.67
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:6480312 original size:27 final size:27
Alignment explanation
Indices: 6480259--6480313 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
6480249 AATATTAAAG
* **
6480259 ACATTTTCAAACCTACTCTGAGGATTC
1 ACATTTTCAAACCTACTCGGACAATTC
6480286 ACATTTTCAAACCTACTCGGACAATTC
1 ACATTTTCAAACCTACTCGGACAATTC
6480313 A
1 A
6480314 ATATTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (27 bp):
ACATTTTCAAACCTACTCGGACAATTC
Found at i:6481469 original size:21 final size:21
Alignment explanation
Indices: 6481426--6481467 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
6481416 ACATGTAAAA
6481426 AAATTATAAATAATATTATTT
1 AAATTATAAATAATATTATTT
*
6481447 AAATTGTAATATAATATTATT
1 AAATTATAA-ATAATATTATT
6481468 AATATTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTATAAATAATATTATTT
Found at i:6481513 original size:15 final size:16
Alignment explanation
Indices: 6481494--6481552 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
6481484 TTTTTGTATT
6481494 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
* *
6481510 TTTTTAAAATTAAATA
1 ATTTTAATATTAAATA
* *
6481526 ACTTTAATA-TAAATG
1 ATTTTAATATTAAATA
6481541 ATTTTAAATATT
1 ATTTT-AATATT
6481553 TTTAAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
15 9 0.26
16 24 0.71
17 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:6488809 original size:35 final size:35
Alignment explanation
Indices: 6488782--6488947 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
6488772 CATGGCAAAG
*
6488782 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
6488817 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
6488852 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
6488892 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
6488927 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
6488948 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:6488901 original size:75 final size:75
Alignment explanation
Indices: 6488782--6488952 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
6488772 CATGGCAAAG
** *
6488782 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
6488841 CCATACTGAGC
65 CCATACCGAGC
6488852 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
6488917 CATACCGAGT
66 CATACCGAGC
**
6488927 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
6488953 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:6496290 original size:35 final size:35
Alignment explanation
Indices: 6496251--6496416 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
6496241 CCATGGAAAG
6496251 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
6496286 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
6496321 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
6496361 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
6496396 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
6496417 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:6496369 original size:75 final size:75
Alignment explanation
Indices: 6496251--6496421 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
6496241 CCATGGAAAG
** *
6496251 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
6496310 CCATACTGAGC
65 CCATACCGAGC
6496321 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
6496386 CATACCGAGT
66 CATACCGAGC
**
6496396 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
6496422 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:6497972 original size:3 final size:3
Alignment explanation
Indices: 6497960--6498030 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
6497950 TACCAATAGA
* * *
6497960 AAT AAT -AT AAT AAT GAC AA- AAGT AAC AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
6498004 AAT AAT AAT AAT AAT -AT CAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT
6498031 GATGATGATG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.10
3 48 0.83
4 4 0.07
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6502091 original size:45 final size:44
Alignment explanation
Indices: 6502000--6502129 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 44
6501990 ACCTACTTAC
* * *
6502000 CATGATGCCATAGCATCTTTCAATTATGGCCTTACTTAATTATGT
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTAC-TCATTATGT
* *
6502045 CATGATGCCAAAGCATCTTTCAACTATGGTCATACTCATCCT-TGT
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCAT--TATGT
* * *
6502090 CATGGTGCCATAGCATCTTTCAGCTATGATCTTACTCATT
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATT
6502130 TTAGGCGTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
45 68 0.93
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (44 bp):
CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATTATGT
Found at i:6505266 original size:20 final size:20
Alignment explanation
Indices: 6505237--6505283 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
6505227 ATGTTTTTTT
6505237 TTTCTT-CAAAATTTTCATA
1 TTTCTTACAAAATTTTCATA
6505256 TTTCTTACAAAATTTTCATA
1 TTTCTTACAAAATTTTCATA
6505276 TTTCTTAC
1 TTTCTTAC
6505284 CAAGCATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTCTTACAAAATTTTCATA
Found at i:6507126 original size:35 final size:35
Alignment explanation
Indices: 6507058--6507226 Score: 169
Period size: 35 Copynumber: 4.6 Consensus size: 35
6507048 TCCTCATTGA
*** *
6507058 AATACCATACCTACATTTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA--TTTCACAACTCAGTAT-GGAT
* **
6507095 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
6507135 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
6507170 AATACCATACCTACATTTCACACCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
6507205 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
6507227 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
35 74 0.63
37 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:6507238 original size:35 final size:35
Alignment explanation
Indices: 6507132--6507227 Score: 174
Period size: 35 Copynumber: 2.7 Consensus size: 35
6507122 GTATGGATTT
*
6507132 GATAATACCATACCTACATTTCACAGCTCAGTATG
1 GATAATACCATACCTACATTTCACACCTCAGTATG
6507167 GATAATACCATACCTACATTTCACACCTCAGTATG
1 GATAATACCATACCTACATTTCACACCTCAGTATG
*
6507202 GATGATACCATACCTACATTTCACAC
1 GATAATACCATACCTACATTTCACAC
6507228 TTTGCCATGG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (35 bp):
GATAATACCATACCTACATTTCACACCTCAGTATG
Found at i:6508943 original size:29 final size:30
Alignment explanation
Indices: 6508908--6508970 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
6508898 ATTTATACCG
* *
6508908 AAATCAAAGTTT-ATGTTTATAATTGCACA
1 AAATCAAAGTTTAAAGTTTAGAATTGCACA
6508937 AAATCAAAGTTTAAAGTTTAGAATTGCACA
1 AAATCAAAGTTTAAAGTTTAGAATTGCACA
6508967 AAAT
1 AAAT
6508971 TAATATGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTTAAAGTTTAGAATTGCACA
Found at i:6509230 original size:28 final size:30
Alignment explanation
Indices: 6509164--6509230 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
6509154 TATTATTAAA
* * *
6509164 ACATCATTTTTTTTTAATTTTATAATTATC
1 ACATCAATATTTTTTAATTTTATAAATATC
* *
6509194 AAATTAATATTTTTT-ATTTTA-AAATATC
1 ACATCAATATTTTTTAATTTTATAAATATC
6509222 ACATCAATA
1 ACATCAATA
6509231 AATAAAAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 13 0.43
29 6 0.20
30 11 0.37
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (30 bp):
ACATCAATATTTTTTAATTTTATAAATATC
Found at i:6518846 original size:9 final size:9
Alignment explanation
Indices: 6518828--6518865 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
6518818 CAAGGCCACC
6518828 AAGAAAAAG
1 AAGAAAAAG
6518837 AA-AAAGAAG
1 AAGAAA-AAG
*
6518846 AAGAAGAAG
1 AAGAAAAAG
6518855 AAGAAAAAG
1 AAGAAAAAG
6518864 AA
1 AA
6518866 ACGTACTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 3 0.12
9 20 0.80
10 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:6520117 original size:23 final size:23
Alignment explanation
Indices: 6520078--6520127 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6520068 ACGTTTATTG
*
6520078 TATTAATAAAATTTTTAATTTAT
1 TATTAATAAAATTTTTAATTTAA
*
6520101 TATTGAATAAAA-TTTTATTTTAA
1 TATT-AATAAAATTTTTAATTTAA
6520124 TATT
1 TATT
6520128 TTTATACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TATTAATAAAATTTTTAATTTAA
Found at i:6523051 original size:19 final size:18
Alignment explanation
Indices: 6523008--6523057 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6522998 TAATATTATC
6523008 TAAAAATATATAATAATA
1 TAAAAATATATAATAATA
* *
6523026 TCGAAAATATATACATGATA
1 T-AAAAATATATA-ATAATA
*
6523046 TAAAAAGATATA
1 TAAAAATATATA
6523058 GGGTTAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 19 0.73
20 6 0.23
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (18 bp):
TAAAAATATATAATAATA
Found at i:6523080 original size:25 final size:25
Alignment explanation
Indices: 6523051--6523101 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6523041 TGATATAAAA
6523051 AGATATAGGGTTAAAAGGATTATAC
1 AGATATAGGGTTAAAAGGATTATAC
6523076 AGATATAGGGTTAAAAGGATTATAC
1 AGATATAGGGTTAAAAGGATTATAC
6523101 A
1 A
6523102 TACTTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (25 bp):
AGATATAGGGTTAAAAGGATTATAC
Found at i:6526884 original size:15 final size:15
Alignment explanation
Indices: 6526864--6526893 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6526854 GAGTCCTAAG
*
6526864 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
6526879 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
6526894 TTTTTTGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:6529062 original size:12 final size:12
Alignment explanation
Indices: 6529045--6529075 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6529035 TACGTGGAGA
6529045 TTCAAGAAGACT
1 TTCAAGAAGACT
*
6529057 TTCAAGAAGATT
1 TTCAAGAAGACT
6529069 TTCAAGA
1 TTCAAGA
6529076 TTGGCAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (12 bp):
TTCAAGAAGACT
Found at i:6529305 original size:15 final size:17
Alignment explanation
Indices: 6529267--6529306 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
6529257 TTTCAGTATT
*
6529267 CTCTCTTTGTAAACACT
1 CTCTCTTTGTAAACACC
6529284 CTCTCTTTGTAAA-ACC
1 CTCTCTTTGTAAACACC
6529300 CT-TCTTT
1 CTCTCTTT
6529307 TTACTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.23
16 4 0.18
17 13 0.59
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (17 bp):
CTCTCTTTGTAAACACC
Found at i:6556025 original size:70 final size:69
Alignment explanation
Indices: 6555907--6556038 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 69
6555897 AGGATAGTTT
* *
6555907 TTATAATTTATGGAATAATATTTGATGTAATAACATAATAAATTATCATTAAATTAAACAAAAAA
1 TTATAAATTATGGAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAA-AAAAAA
6555972 ATATC
65 ATATC
** *
6555977 TTATAAATTATGGAATAATATTTTTTGTAATAACATGATAAATCATCATTAAATTAAAAAAA
1 TTATAAATTATGGAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAAAAAA
6556039 TTGAAGAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
69 4 0.07
70 53 0.93
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (69 bp):
TTATAAATTATGGAATAATATTTGATGTAATAACATAATAAATCATCATTAAATTAAAAAAAAAA
TATC
Found at i:6556550 original size:18 final size:18
Alignment explanation
Indices: 6556514--6556565 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
6556504 TAATAATTCA
6556514 AAAAATTATAAAAATATTT
1 AAAAATT-TAAAAATATTT
6556533 AAAAATTTAACAAA-ATTT
1 AAAAATTTAA-AAATATTT
* *
6556551 TAAAAGTTAATAAAT
1 AAAAATTTAA-AAAT
6556566 TTTTTAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATTTAAAAATATTT
Found at i:6556971 original size:7 final size:7
Alignment explanation
Indices: 6556959--6556998 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
6556949 TTTAGGATTC
6556959 GAAAAAA
1 GAAAAAA
6556966 G-AAAAA
1 GAAAAAA
6556972 G-AAAAA
1 GAAAAAA
6556978 GAAAAAA
1 GAAAAAA
6556985 GAAAAAA
1 GAAAAAA
6556992 GAAAAAA
1 GAAAAAA
6556999 ATTAAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:6556972 original size:6 final size:6
Alignment explanation
Indices: 6556961--6556997 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
6556951 TAGGATTCGA
6556961 AAAAAG AAAAAG AAAAAG AAAAAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG -AAAAAG AAAAA
6556998 AATTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6556977 original size:13 final size:13
Alignment explanation
Indices: 6556959--6556997 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
6556949 TTTAGGATTC
6556959 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
6556972 G-AAAAAGAAAAAA
1 GAAAAAAG-AAAAA
6556985 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
6556998 AATTAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:6580077 original size:39 final size:39
Alignment explanation
Indices: 6580024--6580102 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
6580014 TAAAATGGTT
*
6580024 TTAATTAATAATAAAACAAAGTGGCATAGGGGAGTGAGA
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGAGA
*
6580063 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGAGA
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGAGA
6580102 T
1 T
6580103 CAGCTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.25, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGAGA
Found at i:6595686 original size:137 final size:137
Alignment explanation
Indices: 6595438--6596306 Score: 1362
Period size: 137 Copynumber: 6.3 Consensus size: 137
6595428 TCTGAAAAAT
* * * * * *
6595438 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCG-A--CACAAGTCTTATCTCCCTAAAG
* *
6595503 TTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAA
63 TTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAA
*
6595568 GCTATAAACT
128 GCTATAAACC
* *
6595578 ACAGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGACACAAGTCTTATCTCCCTGAAGTTG
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
*
6595643 CAATGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
66 CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
6595708 ATAAACC
131 ATAAACC
* * * *
6595715 ACAGATCTCATCTCCCTGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTAACTCCCTGAAGTTG
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
*
6595780 TAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
66 CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
6595845 ATAAACC
131 ATAAACC
* * * * *
6595852 ACAGATCTCATCTCTCTGAAGTTGCTGTAGAGTAGATCAATACAAGTCTTAACTCCCTAAAGTTA
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
6595917 CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
66 CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
6595982 ATAAACC
131 ATAAACC
*
6595989 ACAGATCTCATCTCTTTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
* * *
6596054 CAGTGGAACAGACTAAAGATAACAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCT
66 CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
6596119 ATAAACC
131 ATAAACC
* * *
6596126 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACATAAGTCTTGTCTTCCTAAAGTTG
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
* * * * *
6596191 CAGTGGAGCAAACT-AAGATAGTAGATCTTATCTCCCTGAAGTTGCATTGGAACAGATTGAAGCT
66 CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
*
6596255 ATAAATC
131 ATAAACC
* * *
6596262 ACATATCTCATCTCTCTGAAGTTGCAGTAGAGAAGATCGAAACAA
1 ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAA
6596307 ACCCTATCCC
Statistics
Matches: 681, Mismatches: 48, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
136 91 0.13
137 555 0.81
139 1 0.00
140 34 0.05
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (137 bp):
ACAGATCTCATCTCTCTGAAGTTGCAGTAGAGTAGATCGACACAAGTCTTATCTCCCTAAAGTTG
CAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT
ATAAACC
Found at i:6597743 original size:39 final size:39
Alignment explanation
Indices: 6597690--6597764 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
6597680 TAAAATGGTT
6597690 TTAATTAATAATAAAACAAAGT-GACATAGGGGAGTGAGA
1 TTAATTAATAATAAAACAAAGTAG-CATAGGGGAGTGAGA
*
6597729 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTG
1 TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTG
6597765 GGATCAGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 33 0.97
40 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATAGGGGAGTGAGA
Found at i:6599784 original size:8 final size:8
Alignment explanation
Indices: 6599761--6599795 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
6599751 AGTTTCAACA
6599761 ATATACAT
1 ATATACAT
*
6599769 ATAGACAT
1 ATATACAT
*
6599777 ACATACAT
1 ATATACAT
6599785 ATATACAT
1 ATATACAT
6599793 ATA
1 ATA
6599796 CATATAGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.31
Consensus pattern (8 bp):
ATATACAT
Found at i:6609203 original size:26 final size:26
Alignment explanation
Indices: 6609167--6609276 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
6609157 CATGAAATTC
6609167 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
6609193 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6609219 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
6609245 TTATCATGGAACACTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6609271 TTATCA
1 TTATCA
6609277 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 78 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:6616341 original size:25 final size:25
Alignment explanation
Indices: 6616305--6616366 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
6616295 ACAAATGTGC
*
6616305 TAATC-GATGAGCACTGACATGCTAA
1 TAATCAGA-GAGCACTAACATGCTAA
*
6616330 TAATTAGAGAGCACTAACATGCTAA
1 TAATCAGAGAGCACTAACATGCTAA
6616355 TAATCAGAGAGC
1 TAATCAGAGAGC
6616367 GTGCTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACATGCTAA
Found at i:6616928 original size:15 final size:15
Alignment explanation
Indices: 6616905--6616934 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6616895 AACATCTGTA
6616905 CATTATTTCACATAT
1 CATTATTTCACATAT
*
6616920 CATTGTTTCACATAT
1 CATTATTTCACATAT
6616935 TTCTTTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (15 bp):
CATTATTTCACATAT
Found at i:6618691 original size:2 final size:2
Alignment explanation
Indices: 6618684--6618708 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6618674 TGTGAAATCC
6618684 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
6618709 CACTTTGAAT
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:6624566 original size:20 final size:21
Alignment explanation
Indices: 6624510--6624567 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
6624500 TTTACATCCA
* *
6624510 TTTTTCTTGTCGTTTTGCTATT
1 TTTTTCTTGT-ATTTTTCTATT
* *
6624532 TGTTTCTTCTATTTTTC-ATT
1 TTTTTCTTGTATTTTTCTATT
*
6624552 TTTTTCTTGTTTTTTT
1 TTTTTCTTGTATTTTT
6624568 TTTACTGCTC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 16 0.55
21 5 0.17
22 8 0.28
ACGTcount: A:0.05, C:0.12, G:0.09, T:0.74
Consensus pattern (21 bp):
TTTTTCTTGTATTTTTCTATT
Found at i:6626490 original size:15 final size:15
Alignment explanation
Indices: 6626470--6626511 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
6626460 CTACATGAGT
6626470 AATTTTTTTATTGTC
1 AATTTTTTTATTGTC
6626485 AA---TTTT-TTGTC
1 AATTTTTTTATTGTC
6626496 AATTTTTTTATTGTC
1 AATTTTTTTATTGTC
6626511 A
1 A
6626512 TATAATCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
11 7 0.30
12 4 0.17
14 4 0.17
15 8 0.35
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (15 bp):
AATTTTTTTATTGTC
Found at i:6627752 original size:20 final size:20
Alignment explanation
Indices: 6627727--6627764 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6627717 GCGGAGTGGA
6627727 AGACAAAACCCTCTATTGAG
1 AGACAAAACCCTCTATTGAG
* *
6627747 AGACAACACCTTCTATTG
1 AGACAAAACCCTCTATTG
6627765 TTGAAGGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (20 bp):
AGACAAAACCCTCTATTGAG
Found at i:6628258 original size:15 final size:15
Alignment explanation
Indices: 6628240--6628292 Score: 72
Period size: 16 Copynumber: 3.5 Consensus size: 15
6628230 ATATATTTTT
6628240 AAATTAAAATATAAA
1 AAATTAAAATATAAA
**
6628255 AAATTAAAATTATACT
1 AAATTAAAA-TATAAA
6628271 AAATTAAAATAT-AA
1 AAATTAAAATATAAA
6628285 AAATTAAA
1 AAATTAAA
6628293 TTCTAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 8 0.24
15 12 0.36
16 13 0.39
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAAAATATAAA
Found at i:6628299 original size:14 final size:14
Alignment explanation
Indices: 6628240--6628292 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
6628230 ATATATTTTT
6628240 AAATTAAAATATAAA
1 AAATTAAAATAT-AA
*
6628255 AAATTAAAATTATACT
1 AAATTAAAA-TATA-A
6628271 AAATTAAAATATAA
1 AAATTAAAATATAA
6628285 AAATTAAA
1 AAATTAAA
6628293 TTCTAAATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 8 0.24
15 14 0.41
16 12 0.35
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATTAAAATATAA
Found at i:6629029 original size:21 final size:22
Alignment explanation
Indices: 6629005--6629061 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
6628995 AACTATATGA
6629005 TTTATAATTTTTTAA-GTTATT
1 TTTATAATTTTTTAATGTTATT
* *
6629026 TTTATAATTTTATAATTTTTATT
1 TTTATAATTTTTTAA-TGTTATT
6629049 TTTATATATTTTT
1 TTTATA-ATTTTT
6629062 AAATTCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.47
23 11 0.37
24 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTATAATTTTTTAATGTTATT
Found at i:6629045 original size:17 final size:18
Alignment explanation
Indices: 6629023--6629089 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 18
6629013 TTTTTAAGTT
6629023 ATTTTTATAATTTTATA-
1 ATTTTTATAATTTTATAG
*
6629040 ATTTTTAT--TTTTATAT
1 ATTTTTATAATTTTATAG
*
6629056 ATTTTTA-AATTCTATTAG
1 ATTTTTATAATTTTA-TAG
*
6629074 TTTTTTAATAATTTTA
1 ATTTTT-ATAATTTTA
6629090 AAAAAATTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.17
16 7 0.17
17 12 0.30
18 7 0.17
19 1 0.03
20 6 0.15
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
ATTTTTATAATTTTATAG
Found at i:6629071 original size:23 final size:21
Alignment explanation
Indices: 6629005--6629071 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 21
6628995 AACTATATGA
* *
6629005 TTTATAATTTTTTAAGTTATT
1 TTTATAATTTTTAAATTTATT
*
6629026 TTTATAATTTTATAATTTTTATT
1 TTTATAATTTT-TAA-ATTTATT
6629049 TTTATATATTTTTAAATTCTATT
1 TTTATA-ATTTTTAAATT-TATT
6629072 AGTTTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 11 0.29
22 4 0.11
23 18 0.47
24 5 0.13
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (21 bp):
TTTATAATTTTTAAATTTATT
Found at i:6629422 original size:29 final size:30
Alignment explanation
Indices: 6629390--6629447 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
6629380 AAATGTTATA
*
6629390 ATTTAA-TCACTGAACTATTAAAAATTTTC
1 ATTTAAGTCACTGAACCATTAAAAATTTTC
* *
6629419 ATTTAAGTCATTGAACCATTAAAATTTTT
1 ATTTAAGTCACTGAACCATTAAAAATTTT
6629448 TTATCTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (30 bp):
ATTTAAGTCACTGAACCATTAAAAATTTTC
Found at i:6636017 original size:47 final size:47
Alignment explanation
Indices: 6635944--6636039 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
6635934 CATTACATGC
*
6635944 AGACATATATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCATT
1 AGACATAAATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCATT
*
6635991 AGACATAAATTCGAGGACACTTGTTCACTTTCAATCCTACTGCCATT
1 AGACATAAATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCATT
6636038 AG
1 AG
6636040 CAAATTCTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (47 bp):
AGACATAAATTCGAGGACACTAGTTCACTTTCAATCCTACTGCCATT
Found at i:6639966 original size:3 final size:3
Alignment explanation
Indices: 6639958--6640435 Score: 130
Period size: 3 Copynumber: 160.0 Consensus size: 3
6639948 AACGAAAACG
* * * * * * *
6639958 ATA ATA ATA ATG ATA ATA TTG ATA ATA ATA ATA GTA GTA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6640006 ATA AT- ATA GTA ATA GTA ATA AAA AGA A-A AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6640051 GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGT- ATA ATA GT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA
* * * * *
6640095 TTA GATA GTA A-A AAA ATA AAA ATA A-A ATA ATA ATA ATA GTA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
6640139 A-A AAA ATG ATA ATA GTG ATA TTA GTA GTA ATA GTA ATA A-A GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
6640185 GTA ATA AAA ATA GTA CTA ATG TTA ATA GTA ATA A-A ATA A-A GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
6640229 ATA AAA ATT GTA ATA ATA ATA ATG AT- GTAA ATA ATA ATA TATA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA
* * ** * *
6640276 A-A ATA TATA TATA TATA TATA TATG ATG ATA ACG AT- ATGA A-A TTT
1 ATA ATA -ATA -ATA -ATA -ATA -ATA ATA ATA ATA ATA AT-A ATA ATA
* * * * * * *
6640321 ATGG GT- TTA ATG CTA A-G ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6640365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTCA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA
* * *
6640412 ATG ACA ATA GTA GA-A ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA
6640436 GTATTTGAAT
Statistics
Matches: 341, Mismatches: 103, Indels: 62
0.67 0.20 0.12
Matches are distributed among these distances:
2 28 0.08
3 278 0.82
4 33 0.10
5 2 0.01
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6640064 original size:14 final size:14
Alignment explanation
Indices: 6640033--6640073 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6640023 ATAAAAAGAA
*
6640033 AATA-TAATAATAAT
1 AATAGTAATAAT-AC
6640047 AATAGTAATAATAC
1 AATAGTAATAATAC
6640061 AATAGTAATAATA
1 AATAGTAATAATA
6640074 ATAAAAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAGTAATAATAC
Found at i:6640138 original size:26 final size:26
Alignment explanation
Indices: 6640109--6640250 Score: 74
Period size: 26 Copynumber: 5.4 Consensus size: 26
6640099 ATAGTAAAAA
6640109 AATAAAAATAAAATAATAATAATAGT
1 AATAAAAATAAAATAATAATAATAGT
* * * *
6640135 AATAAAAA-AATGATAATAGTGATATT
1 AATAAAAATAA-AATAATAATAATAGT
* ** * *
6640161 AGTAGTAATAGTAATAA-AGTAATAGT
1 AATAAAAATA-AAATAATAATAATAGT
* * **
6640187 AATAAAAATAGTACTAATGTTAATAGT
1 AATAAAAATA-AAATAATAATAATAGT
* * *
6640214 AAT-AAAATAAAGAAAATAAAAATTGT
1 AATAAAAATAAA-ATAATAATAATAGT
*
6640240 AATAATAATAA
1 AATAAAAATAA
6640251 TGATGTAAAT
Statistics
Matches: 85, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
25 3 0.04
26 61 0.72
27 21 0.25
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.29
Consensus pattern (26 bp):
AATAAAAATAAAATAATAATAATAGT
Found at i:6640217 original size:41 final size:41
Alignment explanation
Indices: 6640166--6640245 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
6640156 ATATTAGTAG
* * *
6640166 TAATAGTAATAAAGTAATAG-TAATAAAAATAGTACTAATGT
1 TAATAGTAATAAAATAA-AGAAAATAAAAATAGTAATAATGT
*
6640207 TAATAGTAATAAAATAAAGAAAATAAAAATTGTAATAAT
1 TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAAT
6640246 AATAATGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (41 bp):
TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAATGT
Found at i:6642118 original size:68 final size:68
Alignment explanation
Indices: 6641972--6642785 Score: 1254
Period size: 68 Copynumber: 12.0 Consensus size: 68
6641962 TCAATTTACT
* *
6641972 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAA-CTGCT-CAATGCCATTTCAGGGAGAAGA
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTC-AAGCCGCTCCAACGCCATTTCAGGGAGAAGA
6642035 GATC
65 GATC
* *
6642039 CACTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642104 ATC
66 ATC
* *
6642107 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCACTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642172 ATC
66 ATC
* *
6642175 CGCTGAAACTTTAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642240 ATC
66 ATC
* * * * * *
6642243 TGCTGAAACTTTAAGGAGATCTGCTGTGGCTTAAAGCCACTCCAACTCCATTTCAGGGAGAAGTG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642308 ATC
66 ATC
** * *
6642311 AACTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGTTCCAACGCCATTTCAAGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
*
6642376 GTC
66 ATC
* * *
6642379 TGCTAAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642444 ATC
66 ATC
* * * *
6642447 CGCTGAAACTTTAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAATGCCATTTCAAGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
*
6642512 ATT
66 ATC
* * *
6642515 TGCTGAAACTTCAAGGAGATCTGCTGTGGCTTAAAGCCGCTCCAACGCCATTTTAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642580 ATC
66 ATC
* *
6642583 CACTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTTAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642648 ATC
66 ATC
* * * *
6642651 CGCTGAAACTTCAAGAAGATCTGCTGTGGCTTCTAGCCGTTCCAACGCCATTTCAGGGAGAAGAA
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642716 ATC
66 ATC
* * *
6642719 TGCTGAAACTTCAAAGAGATCTGCTATGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
6642784 AT
66 AT
6642786 TTGTAATTCC
Statistics
Matches: 682, Mismatches: 63, Indels: 3
0.91 0.08 0.00
Matches are distributed among these distances:
66 1 0.00
67 36 0.05
68 645 0.95
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (68 bp):
CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTCAAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
ATC
Found at i:6642948 original size:88 final size:88
Alignment explanation
Indices: 6642773--6643269 Score: 683
Period size: 88 Copynumber: 5.6 Consensus size: 88
6642763 ACGCCATTTC
* ** ** * *
6642773 AGGGAGA-AGAGATTTGTAATTCCCAGCCTGTTACCCTA-TCGCTTAGGGGGTTAAGGCTTACCA
1 AGGGAGACA-AGATCTGTAATTTTCAGCCTGTTACCCTACT-GCTTAGGGGGTTAAGGCCCATCG
* * * *
6642836 TATTTGATCTACTCCACTATTGCTT
64 TCTTCGATCTGCTCCACTACTGCTT
* ** ** *
6642861 AGAGAGGTAAGATCTAAAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
*
6642926 TTTGATCTGCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * *
6642949 AGGGAGACGAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAAGCCCATCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
*
6643014 TTCGATCTTCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
* * * *
6643037 AGGGTGACAAGATCTGTAATTTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCCTTCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
* *
6643102 TTCGATATGCTCCACTACTACTT
66 TTCGATCTGCTCCACTACTGCTT
* *
6643125 AGGGAGACAAGATATGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
6643190 TTCGATCTGCTCCACTACTGCTT
66 TTCGATCTGCTCCACTACTGCTT
*
6643213 AGGGAGACAAGATCTGTAATTTTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
6643270 TTACGAATTC
Statistics
Matches: 365, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
88 363 0.99
89 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (88 bp):
AGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGTC
TTCGATCTGCTCCACTACTGCTT
Found at i:6643252 original size:44 final size:44
Alignment explanation
Indices: 6642940--6643260 Score: 142
Period size: 44 Copynumber: 7.3 Consensus size: 44
6642930 ATCTGCTCCA
* * *
6642940 CTACTGCTTAGGGAGACGAGATCTGTAATTTTCAGCCTATTACC
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* * ** ** *
6642984 CTACTGCTTAGGGGGTTA-AAG-CCCATCGTCTTC-GATCT-TCT-CC
1 CTACTGCTTAGGGAG--ACAAGATCTGTAATTTTCAG-TCTGT-TACC
* * *
6643027 ACTACTGCTTAGGGTGACAAGATCTGTAATTTTTAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* * ** ** ** * * *
6643072 CTACTACTTAGGGGGTTAAGGCCCT-TCGTCTTC-GATATGCT-CC
1 CTACTGCTTAGGGAGACAA-GATCTGTAATTTTCAG-TCTGTTACC
* * *
6643115 ACTACTACTTAGGGAGACAAGATATGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
* ** ** ** * *
6643160 CTACTGCTTAGGGGGTTAAGGCCCT-TCGTCTTC-GATCTGCT-CC
1 CTACTGCTTAGGGAGACAA-GATCTGTAATTTTCAG-TCTGTTACC
6643203 ACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
1 -CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
6643248 CTACTGCTTAGGG
1 CTACTGCTTAGGG
6643261 GGTTAAGGCT
Statistics
Matches: 191, Mismatches: 64, Indels: 44
0.64 0.21 0.15
Matches are distributed among these distances:
42 1 0.01
43 18 0.09
44 154 0.81
45 17 0.09
46 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.33
Consensus pattern (44 bp):
CTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGTCTGTTACC
Found at i:6650515 original size:3 final size:3
Alignment explanation
Indices: 6650507--6650847 Score: 104
Period size: 3 Copynumber: 116.3 Consensus size: 3
6650497 AACGAAAACG
* * * * * * *
6650507 ATA ATA ATA ATG ATA ATA TTG ATA ATA ATA ATA GTA GTA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6650555 ATA AT- ATA GTA ATA GTA ATA AAA AGA A-A AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6650600 GTA ATA A-A ATA GTA ATA ATA ATA AAA AGGT- ATA ATA GT- ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
* * *
6650644 GATA GTA A-A A-A ATA AAA ATA A-A ATA ATA ATA ATA GTA ATA A-A
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * *
6650686 AAA ATG ATA ATA GTG ATA TTA GTA GTA ATA GTA ATA A-A GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
6650733 ATA AAA ATA GTA CTA ATG TTA ATA GTA ATA A-A ATA A-A GAAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * *
6650777 AAA ATT GTA ATA ATA ATA ATG AT- GTAA ATA ATA ATA TATA CATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA ATA
*
6650823 AT- ATA TATA TATA AT- ATA ATG ATA A
1 ATA ATA -ATA -ATA ATA ATA ATA ATA A
6650848 CGATATGAAA
Statistics
Matches: 241, Mismatches: 74, Indels: 46
0.67 0.20 0.13
Matches are distributed among these distances:
2 29 0.12
3 194 0.80
4 18 0.07
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6650635 original size:16 final size:17
Alignment explanation
Indices: 6650548--6650684 Score: 80
Period size: 17 Copynumber: 8.3 Consensus size: 17
6650538 TAGTAGTAAA
* *
6650548 AATAAAAATAATATAGT
1 AATAATAATAAAATAGT
*
6650565 AATAGTAATAAAA-AG-
1 AATAATAATAAAATAGT
*
6650580 AA-AAT-ATAATAATAAT
1 AATAATAATAA-AATAGT
*
6650596 AATAGTAATAAAATAGT
1 AATAATAATAAAATAGT
6650613 AATAATAATAAAA-AGGT
1 AATAATAATAAAATA-GT
*
6650630 -ATAATAGTATATTAGATAGT
1 AATAATA--ATA--AAATAGT
6650650 AA-AA-AATAAAA-A-T
1 AATAATAATAAAATAGT
6650663 AA-AATAATAATAATAGT
1 AATAATAATAA-AATAGT
6650680 AATAA
1 AATAA
6650685 AAAAATGATA
Statistics
Matches: 93, Mismatches: 10, Indels: 33
0.68 0.07 0.24
Matches are distributed among these distances:
13 9 0.10
14 10 0.11
15 7 0.08
16 12 0.13
17 37 0.40
18 9 0.10
19 1 0.01
20 6 0.06
21 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (17 bp):
AATAATAATAAAATAGT
Found at i:6650649 original size:48 final size:46
Alignment explanation
Indices: 6650554--6650684 Score: 115
Period size: 48 Copynumber: 2.8 Consensus size: 46
6650544 TAAAAATAAA
* *
6650554 AATAATATAGTAATAGTAATAAAAAGAAAATATAATAATAATAATAGT
1 AATAAAATAGTAATAATAATAAAAAG--AATATAATAATAATAATAGT
* *
6650602 AATAAAATAGTAATAATAATAAAAAG-GTATAATAGTATATTAGATAGT
1 AATAAAATAGTAATAATAATAAAAAGAATATAATA--ATAATA-ATAGT
** * *
6650650 AA-AAAATAAAAATAA-AATAATAATAATAGTAATAA
1 AATAAAATAGTAATAATAATAAAAAGAATA-TAATAA
6650685 AAAAATGATA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
45 7 0.10
46 8 0.12
47 18 0.26
48 36 0.52
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.28
Consensus pattern (46 bp):
AATAAAATAGTAATAATAATAAAAAGAATATAATAATAATAATAGT
Found at i:6650722 original size:58 final size:56
Alignment explanation
Indices: 6650595--6650735 Score: 135
Period size: 58 Copynumber: 2.4 Consensus size: 56
6650585 ATAATAATAA
* **
6650595 TAATAGTAATAAAATAGTAAT-A-ATAATAAAAAGGTATAATAGTATATTAGATAG
1 TAATAGTAATAAAATAATAATAATATAATAAAAAAATATAATAGTATATTAGATAG
**
6650649 TAAAAAATAAAAATAAAATAATAATAATAGTAATAAAAAAATGATAATAGTGATATTAG-TAG
1 T----AATAGTAATAAAATAATAATAATA-TAATAAAAAAAT-ATAATAGT-ATATTAGATAG
* *
6650711 TAATAGTAATAAAGTAATAGTAATA
1 TAATAGTAATAAAATAATAATAATA
6650736 AAAATAGTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
54 1 0.01
58 37 0.54
59 1 0.01
60 1 0.01
61 10 0.14
62 12 0.17
63 7 0.10
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (56 bp):
TAATAGTAATAAAATAATAATAATATAATAAAAAAATATAATAGTATATTAGATAG
Found at i:6650762 original size:41 final size:41
Alignment explanation
Indices: 6650711--6650790 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
6650701 ATATTAGTAG
* * *
6650711 TAATAGTAATAAAGTAATAG-TAATAAAAATAGTACTAATGT
1 TAATAGTAATAAAATAA-AGAAAATAAAAATAGTAATAATGT
*
6650752 TAATAGTAATAAAATAAAGAAAATAAAAATTGTAATAAT
1 TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAAT
6650791 AATAATGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (41 bp):
TAATAGTAATAAAATAAAGAAAATAAAAATAGTAATAATGT
Found at i:6652884 original size:21 final size:21
Alignment explanation
Indices: 6652842--6652884 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6652832 AAAAGTAGTG
* * **
6652842 GTGATGAGATTAATTATTGTA
1 GTGATGAGAATAATAAGAGTA
6652863 GTGATGAGAATAATAAGAGTA
1 GTGATGAGAATAATAAGAGTA
6652884 G
1 G
6652885 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
GTGATGAGAATAATAAGAGTA
Found at i:6669230 original size:17 final size:17
Alignment explanation
Indices: 6669205--6669241 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6669195 TAACTACATG
6669205 ATATATAAAAATTTAAA
1 ATATATAAAAATTTAAA
* *
6669222 ATATGTAAAACTTTAAA
1 ATATATAAAAATTTAAA
6669239 ATA
1 ATA
6669242 CATGGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATATAAAAATTTAAA
Found at i:6670934 original size:45 final size:45
Alignment explanation
Indices: 6670861--6671026 Score: 140
Period size: 45 Copynumber: 3.7 Consensus size: 45
6670851 TAGTTTTAAC
* * * *
6670861 CTGCTCCACTGTAATTTCAGGG-GAATAAGATTTGCTATTTTCAGT
1 CTGCCCCACTGCAACTTCAGGGAG-ATAAGATTTGCTATTTTCAAT
* * * * *
6670906 CTGCCCCACTGCAATTTCAGTGAGATAAGACTTG-TAACTTT-AAC
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCT-ATTTTCAAT
* * * *
6670950 CTGCCCCACTGCGACTTCAGGGGGATAAGGTTCGCTATTCTTCAAT
1 CTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATT-TTCAAT
***
6670996 CTATTCCACTGCAACTTCAGGGAGATAAGAT
1 CTGCCCCACTGCAACTTCAGGGAGATAAGAT
6671027 CTGTAACTTC
Statistics
Matches: 94, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
44 31 0.33
45 35 0.37
46 28 0.30
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (45 bp):
CTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTTTCAAT
Found at i:6671033 original size:90 final size:89
Alignment explanation
Indices: 6670855--6671035 Score: 220
Period size: 89 Copynumber: 2.0 Consensus size: 89
6670845 AACTCGTAGT
* * * * * *
6670855 TTTAACCTGCTCCACTGTAATTTCAGGGGAATAAGATTTGCTATTTTCAGTCTGCCCCACTGCAA
1 TTTAACCTGCCCCACTGCAACTTCAGGGGAATAAGATTCGCTATTTTCAATCTACCCCACTGCAA
* *
6670920 TTTCAGTGAGATAAGACTTGTAAC
66 CTTCAGGGAGATAAGACTTGTAAC
* * * **
6670944 TTTAACCTGCCCCACTGCGACTTCAGGGGGATAAGGTTCGCTATTCTTCAATCTATTCCACTGCA
1 TTTAACCTGCCCCACTGCAACTTCAGGGGAATAAGATTCGCTATT-TTCAATCTACCCCACTGCA
6671009 ACTTCAGGGAGATAAGA-TCTGTAAC
65 ACTTCAGGGAGATAAGACT-TGTAAC
6671034 TT
1 TT
6671036 CAATCTACTC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
89 39 0.51
90 38 0.49
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (89 bp):
TTTAACCTGCCCCACTGCAACTTCAGGGGAATAAGATTCGCTATTTTCAATCTACCCCACTGCAA
CTTCAGGGAGATAAGACTTGTAAC
Found at i:6671057 original size:90 final size:89
Alignment explanation
Indices: 6670858--6671058 Score: 215
Period size: 90 Copynumber: 2.2 Consensus size: 89
6670848 TCGTAGTTTT
* * * * * *
6670858 AACCTGCTCCACTGTAATTTCAGGGGAATAAGATTTGCTATTTTCAGTCTGCCCCACTGCAATTT
1 AACCTACTCCACTGTAACTTCAGGGGAATAAGATTCGCTATTTTCAATCTACCCCACTGCAACTT
* *
6670923 CAGTGAGATAAGACTTGTAACTTT
66 CAGGGAGATAAGACTTGTAACTTC
* * ** * * **
6670947 AACCTGCCCCACTGCGACTTCAGGGGGATAAGGTTCGCTATTCTTCAATCTATTCCACTGCAACT
1 AACCTACTCCACTGTAACTTCAGGGGAATAAGATTCGCTATT-TTCAATCTACCCCACTGCAACT
6671012 TCAGGGAGATAAGA-TCTGTAACTTC
65 TCAGGGAGATAAGACT-TGTAACTTC
* *
6671037 AATCTACTCCTCTGTAACTTCA
1 AACCTACTCCACTGTAACTTCA
6671059 AGGAGATGGG
Statistics
Matches: 90, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
89 36 0.40
90 54 0.60
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (89 bp):
AACCTACTCCACTGTAACTTCAGGGGAATAAGATTCGCTATTTTCAATCTACCCCACTGCAACTT
CAGGGAGATAAGACTTGTAACTTC
Found at i:6679295 original size:19 final size:20
Alignment explanation
Indices: 6679258--6679300 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
6679248 GGTCTTTTCG
* *
6679258 TGAAATTTAATACATATG-A
1 TGAAATGTAATACAAATGAA
*
6679277 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATACAAATGAA
6679297 TGAA
1 TGAA
6679301 TGCAAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATACAAATGAA
Found at i:6683213 original size:17 final size:17
Alignment explanation
Indices: 6683188--6683224 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6683178 TAACTACATG
6683188 ATATATAAAAATTTAAA
1 ATATATAAAAATTTAAA
* *
6683205 ATATGTAAAACTTTAAA
1 ATATATAAAAATTTAAA
6683222 ATA
1 ATA
6683225 CATGGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATATAAAAATTTAAA
Found at i:6686288 original size:26 final size:26
Alignment explanation
Indices: 6686258--6686313 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
6686248 TGATAAAAAT
6686258 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6686284 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6686310 TGAT
1 TGAT
6686314 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6687829 original size:26 final size:26
Alignment explanation
Indices: 6687800--6687852 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6687790 TTTACAGTTT
6687800 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6687826 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6687852 T
1 T
6687853 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:6691059 original size:166 final size:168
Alignment explanation
Indices: 6690644--6691142 Score: 896
Period size: 166 Copynumber: 3.0 Consensus size: 168
6690634 AACCAAATGT
* *
6690644 AAAAAAAAAAA-GTTTTGGGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGTTTTTTTGAGAG
1 AAAAAAAAAAAGGTTTT-TGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGGTTTTTTGAGAG
6690708 TAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTGGAGATTA
65 TAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTGGAGATTA
*
6690773 ATCAAAGATCAAAGTAAAAGAGGTTTCTTTGTCTAAAAC
130 ATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTCTAAAAC
*
6690812 AAAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAAGATTTTTGAGAGGTTTTTTGAGAG
1 -AAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGGTTTTTTGAGAG
*
6690877 TAATCAAGGAGAAGAGTTATTGTAAAGGTTAGTTTTTGGAGAGGCTAG-TTTTTTTTGGAGATTA
65 TAATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTGGAGATTA
6690941 ATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTCTAAAAC
130 ATCAAAGATCAAAGCAAAAGAGGTTTCTTTGTCTAAAAC
6690980 -AAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGGTTTTTTGAGAGT
1 AAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGGTTTTTTGAGAGT
*
6691044 AATCAAGGCGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTGGAGATTAA
66 AATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTGGAGATTAA
*
6691109 TTAAAGATCAAAGCAAAAGAGGTTTCTTTGTCTA
131 TCAAAGATCAAAGCAAAAGAGGTTTCTTTGTCTA
6691143 TTCTCGTTTT
Statistics
Matches: 319, Mismatches: 9, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
166 108 0.34
167 50 0.16
168 54 0.17
169 102 0.32
170 5 0.02
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (168 bp):
AAAAAAAAAAAGGTTTTTGGGGGAGAAAGTTATTGTAAAGGATTTTTGAGAGGTTTTTTGAGAGT
AATCAAGGAGAAGAGTTATTGTAAAGGCTAGTTTTTGGAGAGGCTAGTTTTTTTTTGGAGATTAA
TCAAAGATCAAAGCAAAAGAGGTTTCTTTGTCTAAAAC
Found at i:6691475 original size:25 final size:25
Alignment explanation
Indices: 6691384--6691591 Score: 79
Period size: 25 Copynumber: 8.2 Consensus size: 25
6691374 ATTATATTTC
* * *
6691384 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
6691408 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
6691429 TAAATTCTATATTACGTATATATAT
1 TTAATACTATATTATGTATATATAT
* * *
6691454 ATATTATACTATTTTATGTATATATCT
1 -T-TAATACTATATTATGTATATATAT
* *
6691481 TTAATATTATATTATTTATATATATT
1 TTAATACTATATTATGTATATATA-T
** * * *
6691507 TTTTTTCTACATGTTATCTTATGTATATAT
1 TTAATACT--ATATTAT-GTA--TATATAT
* *
6691537 CTT-A-ACTATATTATGTATGTATTT
1 -TTAATACTATATTATGTATATATAT
* * *
6691561 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
6691586 TTAATA
1 TTAATA
6691592 TTATCACGTA
Statistics
Matches: 137, Mismatches: 32, Indels: 29
0.69 0.16 0.15
Matches are distributed among these distances:
21 2 0.01
22 15 0.11
23 16 0.12
24 9 0.07
25 42 0.31
26 9 0.07
27 24 0.18
28 6 0.04
29 5 0.04
30 1 0.01
31 8 0.06
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:6691771 original size:16 final size:16
Alignment explanation
Indices: 6691752--6691791 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
6691742 ATTATTCTAT
6691752 TATTTTGATATTTTA-A
1 TATTTT-ATATTTTATA
6691768 TATTTTATATTTTATA
1 TATTTTATATTTTATA
6691784 TATTTTAT
1 TATTTTAT
6691792 TATTCACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTATATTTTATA
Found at i:6691771 original size:24 final size:24
Alignment explanation
Indices: 6691744--6691796 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6691734 TAATTATTAT
6691744 TATTCTATTATTTT-GATATTTTAA
1 TATTCTA-TATTTTAGATATTTTAA
* * *
6691768 TATTTTATATTTTATATATTTTAT
1 TATTCTATATTTTAGATATTTTAA
6691792 TATTC
1 TATTC
6691797 ACATCATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTCTATATTTTAGATATTTTAA
Found at i:6691779 original size:7 final size:7
Alignment explanation
Indices: 6691709--6691784 Score: 50
Period size: 7 Copynumber: 10.4 Consensus size: 7
6691699 TTTTTATTTC
6691709 TATTTTA
1 TATTTTA
*
6691716 TTTTTTA
1 TATTTTA
6691723 T-TTTTCA
1 TATTTT-A
*
6691730 -ATATTA
1 TATTTTA
6691736 -ATTATTA
1 TATT-TTA
*
6691743 TTATTCTA
1 -TATTTTA
6691751 TTATTTTGA
1 -TATTTT-A
6691760 TATTTTAA
1 TATTTT-A
6691768 TATTTTA
1 TATTTTA
6691775 TATTTTA
1 TATTTTA
6691782 TAT
1 TAT
6691785 ATTTTATTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
6 7 0.12
7 25 0.44
8 21 0.37
9 4 0.07
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (7 bp):
TATTTTA
Found at i:6694409 original size:2 final size:2
Alignment explanation
Indices: 6694402--6694439 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6694392 TAAGTACATA
6694402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6694440 TAAATTTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6704203 original size:35 final size:37
Alignment explanation
Indices: 6704164--6704236 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 37
6704154 AAATGATGAC
*
6704164 ATGTT-AATAAAGACAATAATAAG-TAAT-AATAAATA
1 ATGTTAAATAAA-ACAATAATAAGACAATAAATAAATA
**
6704199 ATGTTAAATAAATTAATAATAAGACAATAAATAAATA
1 ATGTTAAATAAAACAATAATAAGACAATAAATAAATA
6704236 A
1 A
6704237 ACACAAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 14 0.44
36 9 0.28
37 9 0.28
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (37 bp):
ATGTTAAATAAAACAATAATAAGACAATAAATAAATA
Done.