Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold95
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: 582947
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Warning! 25 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:90823 original size:17 final size:18
Alignment explanation
Indices: 90801--90835 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
90791 TTGAATAAAT
*
90801 TTAATTTGATTA-AAAAA
1 TTAATTTAATTATAAAAA
90818 TTAATTTAATTATAAAAA
1 TTAATTTAATTATAAAAA
90836 ATATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAATTTAATTATAAAAA
Found at i:91930 original size:13 final size:13
Alignment explanation
Indices: 91912--91953 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
91902 TTTATTTATG
*
91912 ATATAATTATAAA
1 ATATAAATATAAA
*
91925 ATATAAATATAAT
1 ATATAAATATAAA
91938 ATA-AAATATGAAA
1 ATATAAATAT-AAA
91951 ATA
1 ATA
91954 ATATGAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATATAAATATAAA
Found at i:91942 original size:18 final size:18
Alignment explanation
Indices: 91912--91967 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
91902 TTTATTTATG
91912 ATATAATTATAAAATATAA
1 ATATAA-TATAAAATATAA
91931 ATATAATATAAAATATGAA
1 ATATAATATAAAATAT-AA
*
91950 A-ATAATATGAAAT-TAA
1 ATATAATATAAAATATAA
91966 AT
1 AT
91968 TAAATTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 21 0.62
19 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (18 bp):
ATATAATATAAAATATAA
Found at i:92086 original size:21 final size:21
Alignment explanation
Indices: 92057--92097 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
92047 TAAAAATATT
92057 TAAATTTAATATAA-AATAAA
1 TAAATTTAATATAAGAATAAA
92077 TAAATATTAATATAAGAATAA
1 TAAAT-TTAATATAAGAATAA
92098 TTTTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TAAATTTAATATAAGAATAAA
Found at i:92306 original size:28 final size:27
Alignment explanation
Indices: 92274--92352 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
92264 GTATAAAAAT
92274 TTATAAATATATAATATTTTAAATATGA
1 TTAT-AATATATAATATTTTAAATATGA
* *
92302 TTATAATATAAAAATAATTTAAATATGA
1 TTATAATAT-ATAATATTTTAAATATGA
*
92330 -TACGAATATATAA-ATTATTAAAT
1 TTA-TAATATATAATATT-TTAAAT
92353 TTACTAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
26 2 0.05
27 16 0.37
28 25 0.58
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (27 bp):
TTATAATATATAATATTTTAAATATGA
Found at i:92615 original size:28 final size:28
Alignment explanation
Indices: 92557--92615 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
92547 TAAACCATTA
* *
92557 TTAATTAAAATATATCATTTTCATTATT
1 TTAATTAAAATATATCATTTTCATGACT
*
92585 TTAATTAAGATATATCATTTTCATGACT
1 TTAATTAAAATATATCATTTTCATGACT
92613 TTA
1 TTA
92616 TTTTTCTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (28 bp):
TTAATTAAAATATATCATTTTCATGACT
Found at i:93009 original size:2 final size:2
Alignment explanation
Indices: 93002--93030 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92992 CATACATACC
93002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93031 TCAGTGATCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93686 original size:20 final size:18
Alignment explanation
Indices: 93643--93687 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
93633 CTTTGAATCG
93643 ATTTAAAATAATATTTTT
1 ATTTAAAATAATATTTTT
*
93661 AATTAAAATAATATATTTTT
1 ATTTAAAAT-A-ATATTTTT
93681 ATTTAAA
1 ATTTAAA
93688 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATAATATTTTT
Found at i:93688 original size:19 final size:18
Alignment explanation
Indices: 93643--93688 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
93633 CTTTGAATCG
93643 ATTTAAAATAATATTTTTA
1 ATTT-AAATAATATTTTTA
* *
93662 ATTAAAATAATATATTTTT
1 ATTTAAATAATAT-TTTTA
93681 ATTTAAAT
1 ATTTAAAT
93689 TTAATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAAATAATATTTTTA
Found at i:94279 original size:16 final size:18
Alignment explanation
Indices: 94260--94305 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
94250 TTTAATTTAA
94260 TTTTATTTATGA-ATA-T
1 TTTTATTTATGATATACT
* *
94276 TTTTATGTATAATATACT
1 TTTTATTTATGATATACT
94294 TTTTACTTTATG
1 TTTTA-TTTATG
94306 CAAATCTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 10 0.43
17 3 0.13
18 6 0.26
19 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (18 bp):
TTTTATTTATGATATACT
Found at i:94849 original size:13 final size:13
Alignment explanation
Indices: 94831--94883 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
94821 ATTTTAAATT
* *
94831 AATATGATTGTAA
1 AATATGAATATAA
94844 AATATGAATATAA
1 AATATGAATATAA
94857 AATAT-AA-A-AA
1 AATATGAATATAA
94867 TAATAT-AATATAA
1 -AATATGAATATAA
94880 AATA
1 AATA
94884 AATTTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 2 0.06
11 8 0.23
12 7 0.20
13 18 0.51
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (13 bp):
AATATGAATATAA
Found at i:95211 original size:18 final size:18
Alignment explanation
Indices: 95172--95212 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
95162 AATGTATCAA
95172 AATTTATAAATATATAAT
1 AATTTATAAATATATAAT
*
95190 -ATTT-TAAATATAATTAT
1 AATTTATAAATAT-ATAAT
95207 AATTTA
1 AATTTA
95213 AAAAATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTATAAATATATAAT
Found at i:95939 original size:2 final size:2
Alignment explanation
Indices: 95932--95960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
95922 TAAAGGGAAT
95932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95961 TCACTAGTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96578 original size:19 final size:18
Alignment explanation
Indices: 96554--96593 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
96544 AAGTTAAATT
96554 TTAATTTTAATATTTATAA
1 TTAATTTTAATATTTA-AA
* *
96573 TTAATTTTTATTTTTAAA
1 TTAATTTTAATATTTAAA
96591 TTA
1 TTA
96594 TAACTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATTTTAATATTTAAA
Found at i:97215 original size:23 final size:24
Alignment explanation
Indices: 97144--97215 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
97134 ACAATTTATA
* *
97144 TTATA-TAAATTTTAAATAATTATT
1 TTATATTATATTTTAAATCA-TATT
* *
97168 TTATTTTATATTTTAAATCACATT
1 TTATATTATATTTTAAATCATATT
* *
97192 TTA-ATTATTTTTTAAATCGTATT
1 TTATATTATATTTTAAATCATATT
97215 T
1 T
97216 AATGTTACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 17 0.44
24 10 0.26
25 12 0.31
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (24 bp):
TTATATTATATTTTAAATCATATT
Found at i:97575 original size:22 final size:21
Alignment explanation
Indices: 97532--97587 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
97522 GCTCATCTTG
*
97532 TTTTTCTTTTTAAAATTATTA
1 TTTTTCTTTTAAAAATTATTA
97553 TTTTATCTTTTAAAAGATT-TTA
1 TTTT-TCTTTTAAAA-ATTATTA
97575 TATATTTCTTTTA
1 T-T-TTTCTTTTA
97588 TTATTTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.13
22 13 0.43
23 11 0.37
24 2 0.07
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTCTTTTAAAAATTATTA
Found at i:97648 original size:17 final size:17
Alignment explanation
Indices: 97605--97664 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
97595 GGAATATATT
*
97605 ATTATTATATATACTAAA
1 ATTA-TATATAAACTAAA
* * *
97623 ATAAAATATAAACTAAT
1 ATTATATATAAACTAAA
97640 ATTATATATATACACTAAA
1 ATTATATATA-A-ACTAAA
97659 ATTATA
1 ATTATA
97665 CTTATAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 18 0.55
18 4 0.12
19 11 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATATATAAACTAAA
Found at i:97670 original size:19 final size:19
Alignment explanation
Indices: 97605--97664 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
97595 GGAATATATT
*
97605 ATTAT-TATATATACTAAA
1 ATTATATATATAAACTAAA
* *
97623 A-TA-AAATATAAACTAAT
1 ATTATATATATAAACTAAA
*
97640 ATTATATATATACACTAAA
1 ATTATATATATAAACTAAA
97659 ATTATA
1 ATTATA
97665 CTTATAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 13 0.39
18 3 0.09
19 17 0.52
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTATATATATAAACTAAA
Found at i:97862 original size:26 final size:25
Alignment explanation
Indices: 97833--97885 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
97823 TTAGTACATC
97833 ATTAGATTTAATAATTTATATATTTT
1 ATTAGATTTAATAATTTAT-TATTTT
* * *
97859 ATTATATTTTATATTTTATTATTTT
1 ATTAGATTTAATAATTTATTATTTT
97884 AT
1 AT
97886 AACCGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
ATTAGATTTAATAATTTATTATTTT
Found at i:97871 original size:17 final size:18
Alignment explanation
Indices: 97846--97886 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
97836 AGATTTAATA
97846 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
97864 ATTT-TATATTTTATTAT
1 ATTTATATATTTTATTAT
97881 -TTTATA
1 ATTTATA
97887 ACCGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:98287 original size:18 final size:18
Alignment explanation
Indices: 98264--98298 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98254 TATAAAATGA
* *
98264 TATTTATAGCTAATATAT
1 TATTTAGAGATAATATAT
98282 TATTTAGAGATAATATA
1 TATTTAGAGATAATATA
98299 AAACTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (18 bp):
TATTTAGAGATAATATAT
Found at i:98894 original size:2 final size:2
Alignment explanation
Indices: 98887--98941 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
98877 AATCCAGTGT
*
98887 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
98929 TA TG TA TG TA TA T
1 TA TA TA TA TA TA T
98942 GTGTGTAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:99014 original size:19 final size:21
Alignment explanation
Indices: 98992--99030 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98982 ATAAAATTGT
98992 AATTTTTT-A-AAAAAATATA
1 AATTTTTTGATAAAAAATATA
99011 AATTTTTTGATAAAAAATAT
1 AATTTTTTGATAAAAAATAT
99031 TAGTGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
AATTTTTTGATAAAAAATATA
Found at i:99652 original size:31 final size:31
Alignment explanation
Indices: 99617--99681 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
99607 AAAGTGTGAC
*
99617 ATTGATGTACAAATTCTTGAATTCAAATATT
1 ATTGATGTACAAAGTCTTGAATTCAAATATT
* *
99648 ATTGATGTACTAAGTCTTGAATTCATATATT
1 ATTGATGTACAAAGTCTTGAATTCAAATATT
99679 ATT
1 ATT
99682 TTCCCTTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTGATGTACAAAGTCTTGAATTCAAATATT
Found at i:102141 original size:3 final size:3
Alignment explanation
Indices: 102133--102172 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
102123 ACTTTGTTGG
102133 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
102173 GATAATAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:102508 original size:120 final size:119
Alignment explanation
Indices: 102370--102588 Score: 289
Period size: 120 Copynumber: 1.8 Consensus size: 119
102360 TTTCGTTATA
* * * * *
102370 TATTATTTATATACGAGTTTAATTATAAATACGTTGGGATATAAACCTCAAAA-CAATTATA-TA
1 TATTATTTATATACGAGTTTAATTATAAACACGTTAGAATACAAACCTCAAAATCAATAATATTA
* *
102433 TCATATATTAAAAGTAATTATATTAATTAATTAAATTAAATTTCAAGTTTCATTACG
66 TC-T-T-TTAAAAATAATTATATAAATTAATTAAATTAAATTTCAAGTTTCATTACG
* * * * *
102490 TATTATTTATATATGAGTTTCATTATAAACATGTTATAATGCAAACCTCAAAATCAATAATATTA
1 TATTATTTATATACGAGTTTAATTATAAACACGTTAGAATACAAACCTCAAAATCAATAATATTA
102555 TCTTTTAAAAATAATTATATAAATTAATTAAATT
66 TCTTTTAAAAATAATTATATAAATTAATTAAATT
102589 TATTATTTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 28 0.33
120 45 0.53
121 8 0.09
122 4 0.05
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (119 bp):
TATTATTTATATACGAGTTTAATTATAAACACGTTAGAATACAAACCTCAAAATCAATAATATTA
TCTTTTAAAAATAATTATATAAATTAATTAAATTAAATTTCAAGTTTCATTACG
Found at i:102600 original size:39 final size:39
Alignment explanation
Indices: 102550--102627 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
102540 AAATCAATAA
102550 TATTATCTTTTAAAAATAATTATATAAATTAATTAAATT
1 TATTATCTTTTAAAAATAATTATATAAATTAATTAAATT
*
102589 TATTATTTTTTAAAAATAATTATATAAATTAATTAAATT
1 TATTATCTTTTAAAAATAATTATATAAATTAATTAAATT
102628 AAATTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (39 bp):
TATTATCTTTTAAAAATAATTATATAAATTAATTAAATT
Found at i:104025 original size:32 final size:30
Alignment explanation
Indices: 103989--104048 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
103979 AGTTCGATTC
*
103989 AATTTAAATTAAATTTAAATATAATATTTTAT
1 AATTTAAATT-AATTAAAAT-TAATATTTTAT
*
104021 AATTTAAATTAATTAAAATTATTATTTT
1 AATTTAAATTAATTAAAATTAATATTTT
104049 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 8 0.31
32 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AATTTAAATTAATTAAAATTAATATTTTAT
Found at i:105272 original size:332 final size:329
Alignment explanation
Indices: 104662--105787 Score: 1271
Period size: 332 Copynumber: 3.4 Consensus size: 329
104652 GCAATGAAAA
* * * ** * * * *
104662 TTGAAATGAACAAATGAGGAAAGGTTAAACCTATTTACTCTCTTTAATTAAATCAATATCTTTTA
1 TTGAAATGAACAAATAAGTAAGGGTTCTAGCTACTTACTCTC-TTAATTAAACCAATATCTTTCA
* ***
104727 AAAATAATTAATGTTATAAGAA-TTTTAAACCAA---GACCT-TTTTTTGTCAAATTATGAATTT
65 AAAATAATTAATGTTATAAGAATTTTTAGACCAAGTTGGTTTATTTTTTGTCAAATTATGAATTT
* *
104787 AGTCCTCATACATTTGTTTAAATTTGAGATTTAATCCTTGAAAT-GA-AG---ACGAAAGGGGTT
130 AGTCCTTATACATTT-TTTAAATTTGAGATTTAGTCCTTGAAATGGACAGATAACG-AAGGGGTT
* * *
104847 TCAACTATTTACTCTTTTTTG-TTATACCAATACCTTTCAAAAATAATTAATGCTATAAGAATGT
193 ACAACTATTTACTC-TCTTTGATTATACCAATATCTTTCAAAAATAATTAATGCTATAAGAAT-T
* * *
104911 TTAGATC-AGTTGGGTTTTTTTTATTGTCAAATTGTGAATTTAGTCCCTACACATTTTTTAAATT
256 TTAGACCAAGTTGGG--TTTTTT-TTGTCAAATT-TGAATTTAGTCCCTATACATTGTTTAAATT
*
104975 TGAGATTTAGCCC
317 TGAGATTTAGTCC
* ** *
104988 TTGAAATGAACAAATAAGTAAGTGGTTCTAGCTACTTACCCTCATTAATTAAATGAATGTCTTTC
1 TTGAAATGAACAAATAAGTAAG-GGTTCTAGCTACTTACTCTC-TTAATTAAACCAATATCTTTC
*** *
105053 AAAAATAATTAAAACTATAAGAATTTTTAGACGAAGTTGGTCTT-TTTTTTGTCAAATTATGAAT
64 AAAAATAATTAATGTTATAAGAATTTTTAGACCAAGTTGGT-TTATTTTTTGTCAAATTATGAAT
* * *
105117 TTAGACCTTATACATTTTTTAAATTTGAGATTCAGTCCCTGAAATGGACAGATAACGAAGGGGTT
128 TTAGTCCTTATACATTTTTTAAATTTGAGATTTAGTCCTTGAAATGGACAGATAACGAAGGGGTT
* * * *
105182 CCAACTA-TTACTCTCTTTGATTAAACCATTATCTTTAAAAAATAATTAATGCTATAAGAAATTT
193 ACAACTATTTACTCTCTTTGATTATACCAATATCTTTCAAAAATAATTAATGCTATAAG-AATTT
* * * *
105246 TTGACCAAATTGGGCTTTTTTTGTCAAATTATGAATTTTA-CCCCTATACATTGTTTAAATTTGA
257 TAGACCAAGTTGGGTTTTTTTTGTCAAATT-TGAA-TTTAGTCCCTATACATTGTTTAAATTTGA
*
105310 GATTTTGTCC
320 GATTTAGTCC
* *
105320 TTGAAATGAACAAATAAAGAAAGGGTTCAAGCTACTTACTCTCCTTAATTAAACCAATATCTTTC
1 TTGAAATGAACAAAT-AAGTAAGGGTTCTAGCTACTTACTCT-CTTAATTAAACCAATATCTTTC
* * * *
105385 AAAAATAATTAATGTTAAAAGAGTTTTTAGACCAAGTTGGGTTTGTTTTTTGTCAAATTATGAGT
64 AAAAATAATTAATGTTATAAGAATTTTTAGACCAAGTT-GGTTTATTTTTTGTCAAATTATGAAT
* ** * * * * * *
105450 TTAGTCCCTATATGTTTTTTAAATTTGAAATTTAGTCTTTGAAATGAACAGATAAAGAAAGGGTA
128 TTAGTCCTTATACATTTTTTAAATTTGAGATTTAGTCCTTGAAATGGACAGATAACGAAGGGGTT
** * *
105515 ACAGTTATTTACTCTCTTTAATTATATCAATATCTTTCAAAAATAACTT-ATGCTATAAGAATTT
193 ACAACTATTTACTCTCTTTGATTATACCAATATCTTTCAAAAATAA-TTAATGCTATAAGAATTT
* *
105579 TAGAACCAAGTT-GGTTTTTTTTGGTCAAATTTCAATTTAGTCCCTATACGTTGTTTAAATTTGA
257 TAG-ACCAAGTTGGGTTTTTTTT-GTCAAATTTGAATTTAGTCCCTATACATTGTTTAAATTTGA
105643 GATTTAGTCC
320 GATTTAGTCC
* * * * * *
105653 TTGAAATGAATAGATAAGTAAGGGTT-TTGAATATTTACTCTCTCTAATTAAACCAATATCTTTT
1 TTGAAATGAACAAATAAGTAAGGGTTCTAG-CTACTTACTCTCT-TAATTAAACCAATATCTTTC
* *
105717 AAAAATAATTAATGTTTTAAGAATTTTTAGACCAAGTTGATTTTATTTTTTGTCAAATTATGAAT
64 AAAAATAATTAATGTTATAAGAATTTTTAGACCAAGTTG-GTTTATTTTTTGTCAAATTATGAAT
105782 TTAGTC
128 TTAGTC
105788 GTAGACATTG
Statistics
Matches: 678, Mismatches: 95, Indels: 48
0.83 0.12 0.06
Matches are distributed among these distances:
326 19 0.03
327 53 0.08
328 9 0.01
331 30 0.04
332 270 0.40
333 165 0.24
334 104 0.15
335 25 0.04
336 3 0.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (329 bp):
TTGAAATGAACAAATAAGTAAGGGTTCTAGCTACTTACTCTCTTAATTAAACCAATATCTTTCAA
AAATAATTAATGTTATAAGAATTTTTAGACCAAGTTGGTTTATTTTTTGTCAAATTATGAATTTA
GTCCTTATACATTTTTTAAATTTGAGATTTAGTCCTTGAAATGGACAGATAACGAAGGGGTTACA
ACTATTTACTCTCTTTGATTATACCAATATCTTTCAAAAATAATTAATGCTATAAGAATTTTAGA
CCAAGTTGGGTTTTTTTTGTCAAATTTGAATTTAGTCCCTATACATTGTTTAAATTTGAGATTTA
GTCC
Found at i:105494 original size:168 final size:166
Alignment explanation
Indices: 104662--105820 Score: 1171
Period size: 168 Copynumber: 7.0 Consensus size: 166
104652 GCAATGAAAA
* * * * *
104662 TTGAAATGAACAAATGAGGAAA-GGTTAAACCTATTTACTCTCTTTAATTAAATCAATATCTTTT
1 TTGAAATGAACAAATAAAGAAAGGGTTCAA-CTATTTACTCTCTTTAATTAAACCAATATCTTTC
* * ***
104726 AAAAATAATTAATGTTATAAGAA-TTTTAAACCAA----GACCTTTTTTTGTCAAATTATGAATT
65 AAAAATAATTAATGCTATAAGAATTTTTAGACCAAGTTGGGTTTTTTTTTGTCAAATTATGAATT
*
104786 TAGT-CCTCATACATTTGTTTAAATTTGAGATTTAATCC
130 TAGTCCCT-ATACA-TTGTTTAAATTTGAGATTTAGTCC
* ** * ** * *
104824 TTGAAATGAA-GACGAAAG---GGGTTTCAACTATTTACTCTTTTTTGTTATACCAATACCTTTC
1 TTGAAATGAACAAATAAAGAAAGGG-TTCAACTATTTACTCTCTTTAATTAAACCAATATCTTTC
* * *
104885 AAAAATAATTAATGCTATAAGAATGTTTAGATC-AGTTGGGTTTTTTTTATTGTCAAATTGTGAA
65 AAAAATAATTAATGCTATAAGAATTTTTAGACCAAGTTGGG-TTTTTTT-TTGTCAAATTATGAA
* * *
104949 TTTAGTCCCTACACATTTTTTAAATTTGAGATTTAGCCC
128 TTTAGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
* * * * * ** *
104988 TTGAAATGAACAAAT-AAGTAAGTGGTTCTAGCTACTTACCCTCATTAATTAAATGAATGTCTTT
1 TTGAAATGAACAAATAAAGAAAG-GGTTC-AACTATTTACTCTCTTTAATTAAACCAATATCTTT
** *
105052 CAAAAATAATTAAAACTATAAGAATTTTTAGACGAAGTT-GGTCTTTTTTTTGTCAAATTATGAA
64 CAAAAATAATTAATGCTATAAGAATTTTTAGACCAAGTTGGGT-TTTTTTTTGTCAAATTATGAA
* * * *
105116 TTTAGACCTTATACATTTTTTAAATTTGAGATTCAGTCC
128 TTTAGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
* * * * * * * *
105155 CTGAAATGGACAGATAACGAAGGGGTTCCAACTA-TTACTCTCTTTGATTAAACCATTATCTTTA
1 TTGAAATGAACAAATAAAGAAAGGGTT-CAACTATTTACTCTCTTTAATTAAACCAATATCTTTC
* *
105219 AAAAATAATTAATGCTATAAGAAATTTTT-GACCAAATTGGG-CTTTTTTTGTCAAATTATGAAT
65 AAAAATAATTAATGCTATAAG-AATTTTTAGACCAAGTTGGGTTTTTTTTTGTCAAATTATGAA-
* *
105282 TTTA-CCCCTATACATTGTTTAAATTTGAGATTTTGTCC
128 TTTAGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
* *
105320 TTGAAATGAACAAATAAAGAAAGGGTTCAAGCTACTTACTCTCCTTAATTAAACCAATATCTTTC
1 TTGAAATGAACAAATAAAGAAAGGGTTCAA-CTATTTACTCTCTTTAATTAAACCAATATCTTTC
* * * *
105385 AAAAATAATTAATGTTAAAAGAGTTTTTAGACCAAGTTGGGTTTGTTTTTTGTCAAATTATGAGT
65 AAAAATAATTAATGCTATAAGAATTTTTAGACCAAGTTGGGTTT-TTTTTTGTCAAATTATGAAT
** * * *
105450 TTAGTCCCTATATGTTTTTTAAATTTGAAATTTAGTCT
129 TTAGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
* * ** * *
105488 TTGAAATGAACAGATAAAGAAAGGGTAACAGTTATTTACTCTCTTTAATTATATCAATATCTTTC
1 TTGAAATGAACAAATAAAGAAAGGGT-TCAACTATTTACTCTCTTTAATTAAACCAATATCTTTC
* *
105553 AAAAATAACTT-ATGCTATAAGAA-TTTTAGAACCAAGTT-GGTTTTTTTTGGTCAAATT-TCAA
65 AAAAATAA-TTAATGCTATAAGAATTTTTAG-ACCAAGTTGGGTTTTTTTTTGTCAAATTATGAA
*
105614 TTTAGTCCCTATACGTTGTTTAAATTTGAGATTTAGTCC
128 TTTAGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
* * * * *
105653 TTGAAATGAATAGAT-AAGTAAGGGTTTTGAA-TATTTACTCTCTCTAATTAAACCAATATCTTT
1 TTGAAATGAACAAATAAAGAAAGGG--TTCAACTATTTACTCTCTTTAATTAAACCAATATCTTT
* * * **
105716 TAAAAATAATTAATGTTTTAAGAATTTTTAGACCAAGTTGATTTTATTTTTTGTCAAATTATGAA
64 CAAAAATAATTAATGCTATAAGAATTTTTAGACCAAGTTGGGTTT-TTTTTTGTCAAATTATGAA
* * * * * *
105781 TTTAGT-CGTAGACATTGTTTGAATTTAAAATTTAGGCC
128 TTTAGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
105819 TT
1 TT
105821 ATAGAATAAT
Statistics
Matches: 820, Mismatches: 138, Indels: 74
0.79 0.13 0.07
Matches are distributed among these distances:
159 52 0.06
160 10 0.01
161 3 0.00
162 10 0.01
163 3 0.00
164 105 0.13
165 166 0.20
166 165 0.20
167 107 0.13
168 191 0.23
169 8 0.01
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (166 bp):
TTGAAATGAACAAATAAAGAAAGGGTTCAACTATTTACTCTCTTTAATTAAACCAATATCTTTCA
AAAATAATTAATGCTATAAGAATTTTTAGACCAAGTTGGGTTTTTTTTTGTCAAATTATGAATTT
AGTCCCTATACATTGTTTAAATTTGAGATTTAGTCC
Found at i:105768 original size:500 final size:498
Alignment explanation
Indices: 104692--105783 Score: 1320
Period size: 500 Copynumber: 2.2 Consensus size: 498
104682 AAGGTTAAAC
* *
104692 CTATTTACTCTCTTTAATTAAATCAATATCTTTTAAAAATAATTAATGTTATAAGAA-TTTTAAA
1 CTATTTACTCTCTTTAATTAAACCAATATCTTTTAAAAATAATTAATGTTATAAGAATTTTTAGA
**
104756 CCAA--GACCTTTTTTTGTCAAATTATGAA-TTTAGTCCTCATACATTTGTTTAAATTTGAGATT
66 CCAATTGACCTTTTTTTGTCAAATTATGAATTTTACCCCTCATACATTTGTTTAAATTTGAGATT
* * * ** ** *
104818 TAATCCTTGAAATGAAGACGAAAGGGGTTTCAACTATTTACTCTTTTTTGTTATACCAATACCTT
131 TAATCCTTGAAATGAAAAAGAAAGGGGTTTCAACTACTTACTCTCCTTAATTAAACCAATACCTT
* * * *
104883 TCAAAAATAATTAATGCTATAAGAATGTTTAGATCAGTTGGGTTTTTTTTATTGTCAAATTGTGA
196 TCAAAAATAATTAATGCTAAAAGAATGTTTAGACCAGTTGGGTTTGTTTTATTGTCAAATTATGA
* *
104948 ATTTAGTCCCTACACATTTTTTAAATTTGAGATTTAGCCCTTGAAATGAACAAATAAGTAAGTGG
261 ATTTAGTCCCTACACATTTTTTAAATTTGAAATTTAGCCCTTGAAATGAACAAATAAGAAAGTGG
* * *
105013 TTCTAGCTACTTACCCTCATTAATTAAATGAATGTCTTTCAAAAATAATTAAAACTATAAGAATT
326 TACTAGCTACTTACCCTCATTAATTAAATCAATATCTTTCAAAAATAATTAAAACTATAAGAATT
* * * * *
105078 TTTAGACGAAGTTGGTCTTTTTTTTGTCAAATTATGAATTTAGACCTTATACATTTTTTAAATTT
391 TTTAGACCAAGTTGGTCTTTTTTTGGTCAAATTATCAATTTAGACCCTATACATTGTTTAAATTT
*
105143 GAGATTCAGTCCCTGAAATGGACAGATAACGAAGGGGTTCCAA
456 GAGATTCAGTCCCTGAAATGAACAGATAACGAAGGGGTTCCAA
* * * *
105186 CTA-TTACTCTCTTTGATTAAACCATTATCTTTAAAAAATAATTAATGCTATAAGAAATTTTT-G
1 CTATTTACTCTCTTTAATTAAACCAATATCTTTTAAAAATAATTAATGTTATAAG-AATTTTTAG
**
105249 ACCAAATTGGGCTTTTTTTGTCAAATTATGAATTTTACCCCT-ATACA-TTGTTTAAATTTGAGA
65 ACC-AATTGACCTTTTTTTGTCAAATTATGAATTTTACCCCTCATACATTTGTTTAAATTTGAGA
** *
105312 TTTTGTCCTTGAAATGAACAAATAAAGAAAGGG-TTCAAGCTACTTACTCTCCTTAATTAAACCA
129 TTTAATCCTTGAAATGAA-AAAGAAAG---GGGTTTCAA-CTACTTACTCTCCTTAATTAAACCA
* * * *
105376 ATATCTTTCAAAAATAATTAATGTTAAAAGAGTTTTTAGACCAAGTTGGGTTTGTTTT-TTGTCA
189 ATACCTTTCAAAAATAATTAATGCTAAAAGAATGTTTAGACC-AGTTGGGTTTGTTTTATTGTCA
* * ** * * *
105440 AATTATGAGTTTAGTCCCTATATGTTTTTTAAATTTGAAATTTAGTCTTTGAAATGAACAGATAA
253 AATTATGAATTTAGTCCCTACACATTTTTTAAATTTGAAATTTAGCCCTTGAAATGAACAAAT-A
* * * * * **
105505 AGAAAG-GGTAAC-AGTTATTTACTCTCTTTAATTATATCAATATCTTTCAAAAATAACTT-ATG
317 AGAAAGTGGT-ACTAGCTACTTACCCTCATTAATTAAATCAATATCTTTCAAAAATAA-TTAAAA
* *
105567 CTATAAGAA-TTTTAGAACCAAGTTGGT-TTTTTTTGGTCAAATT-TCAATTTAGTCCCTATACG
380 CTATAAGAATTTTTAG-ACCAAGTTGGTCTTTTTTTGGTCAAATTATCAATTTAGACCCTATACA
* * * * **
105629 TTGTTTAAATTTGAGATTTAGTCCTTGAAATGAATAGATAA-GTAAGGGTTTTGAA
444 TTGTTTAAATTTGAGATTCAGTCCCTGAAATGAACAGATAACG-AAGGGGTTCCAA
* *
105684 -TATTTACTCTCTCTAATTAAACCAATATCTTTTAAAAATAATTAATGTTTTAAGAATTTTTAGA
1 CTATTTACTCTCTTTAATTAAACCAATATCTTTTAAAAATAATTAATGTTATAAGAATTTTTAGA
**
105748 CCAAGTTGATTTTATTTTTTGTCAAATTATGAATTT
66 CCAA-TTGA-CCT-TTTTTTGTCAAATTATGAATTT
105784 AGTCGTAGAC
Statistics
Matches: 505, Mismatches: 71, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
493 46 0.09
494 8 0.02
495 6 0.01
496 32 0.06
497 44 0.09
498 119 0.24
499 27 0.05
500 200 0.40
501 23 0.05
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (498 bp):
CTATTTACTCTCTTTAATTAAACCAATATCTTTTAAAAATAATTAATGTTATAAGAATTTTTAGA
CCAATTGACCTTTTTTTGTCAAATTATGAATTTTACCCCTCATACATTTGTTTAAATTTGAGATT
TAATCCTTGAAATGAAAAAGAAAGGGGTTTCAACTACTTACTCTCCTTAATTAAACCAATACCTT
TCAAAAATAATTAATGCTAAAAGAATGTTTAGACCAGTTGGGTTTGTTTTATTGTCAAATTATGA
ATTTAGTCCCTACACATTTTTTAAATTTGAAATTTAGCCCTTGAAATGAACAAATAAGAAAGTGG
TACTAGCTACTTACCCTCATTAATTAAATCAATATCTTTCAAAAATAATTAAAACTATAAGAATT
TTTAGACCAAGTTGGTCTTTTTTTGGTCAAATTATCAATTTAGACCCTATACATTGTTTAAATTT
GAGATTCAGTCCCTGAAATGAACAGATAACGAAGGGGTTCCAA
Found at i:106297 original size:24 final size:24
Alignment explanation
Indices: 106278--106339 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
106268 TTAAAATTTA
106278 AATTAAAATCAAAATCAAAATACAT
1 AATTAAAAT-AAAATCAAAATACAT
*
106303 AATTATAATAAAATCAAAAT-CAT
1 AATTAAAATAAAATCAAAATACAT
* *
106326 CAATCAAAAGAAAA
1 -AATTAAAATAAAA
106340 AAAATAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.09
24 21 0.66
25 8 0.25
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.23
Consensus pattern (24 bp):
AATTAAAATAAAATCAAAATACAT
Found at i:106604 original size:43 final size:44
Alignment explanation
Indices: 106528--106611 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
106518 AATTTAAATT
*
106528 AATTTAATTTTAAAAAAATTATCTAATAATAAAAAATATTTATA
1 AATTTAATTATAAAAAAATTATCTAATAATAAAAAATATTTATA
* *
106572 AATTTAATTATAAAAATATATAT-TAAT-ATAAAAATTATTT
1 AATTTAATTATAAAAAAAT-TATCTAATAATAAAAAATATTT
106612 TTTATTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 12 0.33
44 21 0.58
45 3 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (44 bp):
AATTTAATTATAAAAAAATTATCTAATAATAAAAAATATTTATA
Found at i:106993 original size:19 final size:18
Alignment explanation
Indices: 106964--107000 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
106954 TAAAATGTTT
106964 ATTAATTTATTATAATAA
1 ATTAATTTATTATAATAA
*
106982 ATTAATTTTATTATTATAA
1 ATTAA-TTTATTATAATAA
107001 TAAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTAATTTATTATAATAA
Found at i:107238 original size:27 final size:27
Alignment explanation
Indices: 107194--107248 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
107184 TTAATTTAAT
* *
107194 TTTACTAACTTATTTTTAATATAAATA
1 TTTAATAACTTATTTTTAACATAAATA
107221 TTTAATAA-TTATTATTTAACATAAATA
1 TTTAATAACTTATT-TTTAACATAAATA
107248 T
1 T
107249 AATTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAATAACTTATTTTTAACATAAATA
Found at i:107334 original size:25 final size:24
Alignment explanation
Indices: 107272--107335 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
107262 ATTTTCTTAT
* * *
107272 TTAATATAAATTTTAATTATTTAT
1 TTAATAAAAATTTTAATAATTTAC
* *
107296 TTATATACATATTTTAATCAATTTAC
1 TTA-ATAAAAATTTTAAT-AATTTAC
107322 TTAATAAAAATTTT
1 TTAATAAAAATTTT
107336 TCTTTACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 3 0.09
25 21 0.66
26 8 0.25
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAATAAAAATTTTAATAATTTAC
Found at i:109151 original size:2 final size:2
Alignment explanation
Indices: 109133--109168 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
109123 AATTATTACA
* *
109133 AT AT AC AT AT AT GT 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
109169 GTATGTGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:109360 original size:24 final size:24
Alignment explanation
Indices: 109327--109388 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 24
109317 TTAAATTTTT
*
109327 TATATTTAAATAT-TTAATTATATA
1 TATATATAAATATATTAATTATA-A
109351 TATATATAAATATATATTAATTATAA
1 TATATAT-AA-ATATATTAATTATAA
109377 -ATA-ATAAATATA
1 TATATATAAATATA
109389 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 5 0.15
23 2 0.06
24 8 0.24
25 5 0.15
26 5 0.15
27 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATATAAATATATTAATTATAA
Found at i:109364 original size:8 final size:8
Alignment explanation
Indices: 109328--109388 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
109318 TAAATTTTTT
*
109328 ATATTTAA
1 ATATATAA
*
109336 ATATTTAA
1 ATATATAA
* *
109344 TTATATAT
1 ATATATAA
109352 ATATATAA
1 ATATATAA
109360 ATATATATTA
1 ATATATA--A
109370 AT-TATAA
1 ATATATAA
109377 ATA-ATAA
1 ATATATAA
109384 ATATA
1 ATATA
109389 ATATTTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 10 0.23
8 27 0.61
9 4 0.09
10 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
ATATATAA
Found at i:109397 original size:27 final size:29
Alignment explanation
Indices: 109335--109394 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
109325 TTTATATTTA
109335 AATATTTAATTATATATATATATAAATAT
1 AATATTTAATTATATATATATATAAATAT
109364 -ATA-TTAATTATA-A-ATA-ATAAATAT
1 AATATTTAATTATATATATATATAAATAT
109388 AATATTT
1 AATATTT
109395 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 8 0.28
25 6 0.21
26 3 0.10
27 9 0.31
28 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AATATTTAATTATATATATATATAAATAT
Found at i:109404 original size:22 final size:23
Alignment explanation
Indices: 109356--109406 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
109346 ATATATATAT
*
109356 ATAAATATATATTAATTATAAATA
1 ATAAATATATATT-ATTATAAAAA
109380 ATAAATATAATATT-TTA-AAAAA
1 ATAAATAT-ATATTATTATAAAAA
109402 ATAAA
1 ATAAA
109407 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 3 0.12
24 8 0.32
25 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAATATATATTATTATAAAAA
Found at i:109592 original size:12 final size:11
Alignment explanation
Indices: 109577--109619 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
109567 AAATTAATTT
109577 TATTATTTATTA
1 TATTATTT-TTA
109589 TATTATTTTTA
1 TATTATTTTTA
*
109600 TATTAATATTTA
1 TATT-ATTTTTA
109612 TA-TATTTT
1 TATTATTTT
109620 ATAATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 4 0.14
11 8 0.29
12 16 0.57
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:109617 original size:22 final size:22
Alignment explanation
Indices: 109586--109632 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
109576 TTATTATTTA
109586 TTATATTATTTT-TATATTAATAT
1 TTATATTATTTTATA-ATTAA-AT
109609 TTATA-TATTTTATAATTAAAT
1 TTATATTATTTTATAATTAAAT
109630 TTA
1 TTA
109633 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
23 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATATTATTTTATAATTAAAT
Found at i:109619 original size:21 final size:23
Alignment explanation
Indices: 109586--109632 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
109576 TTATTATTTA
109586 TTATATTATTTTTAT-ATTAATAT
1 TTATATTATTTTTATAATTAA-AT
109609 TTATA-TA-TTTTATAATTAAAT
1 TTATATTATTTTTATAATTAAAT
109630 TTA
1 TTA
109633 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 11 0.48
22 7 0.30
23 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATATTATTTTTATAATTAAAT
Found at i:109687 original size:52 final size:54
Alignment explanation
Indices: 109588--109701 Score: 119
Period size: 53 Copynumber: 2.1 Consensus size: 54
109578 ATTATTTATT
* * ** *
109588 ATATTATTTTTATATTAATATTTATATATTTTATAATTAAAT-TTAA-ATAAAA
1 ATATTATTTTTATATTAATAATAATATAAATTATAATTAAATATAAATATAAAA
*
109640 ATATTATTTTTATTATTAATTAATAATTTAAATTA-AATTAAA-ATAAATTATAAAA
1 ATATTATTTTTA-TATTAA-TAATAATATAAATTATAATTAAATATAAA-TATAAAA
109695 ATATTAT
1 ATATTAT
109702 CTAATACAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
52 12 0.24
53 16 0.31
54 10 0.20
55 13 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (54 bp):
ATATTATTTTTATATTAATAATAATATAAATTATAATTAAATATAAATATAAAA
Found at i:109939 original size:16 final size:16
Alignment explanation
Indices: 109918--110026 Score: 112
Period size: 16 Copynumber: 6.5 Consensus size: 16
109908 TGAAAATTTT
109918 TTATTTTAAATTTAAA
1 TTATTTTAAATTTAAA
*
109934 TTATTTTAATTTTAAA
1 TTATTTTAAATTTAAA
109950 TTATTTTAAATTTAAA
1 TTATTTTAAATTTAAA
* *
109966 TAATTTTAATTTTAAA
1 TTATTTTAAATTTAAA
109982 TTTATCAGATTTAACATTTAAA
1 -TTAT----TTTAA-ATTTAAA
**
110004 TTA-TTTAAATTTTGA
1 TTATTTTAAATTTAAA
110019 TTATTTTA
1 TTATTTTA
110027 TATTATTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.10
16 53 0.68
17 3 0.04
21 8 0.10
22 6 0.08
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTATTTTAAATTTAAA
Found at i:109955 original size:32 final size:32
Alignment explanation
Indices: 109918--110026 Score: 130
Period size: 32 Copynumber: 3.2 Consensus size: 32
109908 TGAAAATTTT
109918 TTATTTTAAATTTAAATTATTTTAATTTTAAA
1 TTATTTTAAATTTAAATTATTTTAATTTTAAA
*
109950 TTATTTTAAATTTAAATAATTTTAATTTTAAA
1 TTATTTTAAATTTAAATTATTTTAATTTTAAA
* *
109982 TTTATCAGATTTAACATTTAAATTATTTAAATTTT-GA
1 -TTAT----TTTAA-ATTTAAATTATTTTAATTTTAAA
110019 TTATTTTA
1 TTATTTTA
110027 TATTATTTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
32 35 0.52
33 4 0.06
36 4 0.06
37 6 0.09
38 18 0.27
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (32 bp):
TTATTTTAAATTTAAATTATTTTAATTTTAAA
Found at i:109964 original size:38 final size:38
Alignment explanation
Indices: 109922--110026 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 38
109912 AATTTTTTAT
109922 TTTAAATTTAAATTATTTTAATTTTAAATTATTTTAAA
1 TTTAAATTTAAATTATTTTAATTTTAAATTATTTTAAA
* * *
109960 TTTAAA--T--A--ATTTTAATTTTAAATT-TATCAGA
1 TTTAAATTTAAATTATTTTAATTTTAAATTATTTTAAA
* *
109991 TTTAACATTTAAATTATTTAAATTTT-GATTATTTTA
1 TTTAA-ATTTAAATTATTTTAATTTTAAATTATTTTA
110027 TATTATTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
31 9 0.17
32 17 0.33
34 2 0.04
36 2 0.04
37 3 0.06
38 19 0.37
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (38 bp):
TTTAAATTTAAATTATTTTAATTTTAAATTATTTTAAA
Found at i:110126 original size:30 final size:28
Alignment explanation
Indices: 110062--110126 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
110052 ATTTTAAATT
* *
110062 ATAAATTTTTTAAAATCAAATTAATTCA
1 ATAAATTTTTTAAAATCAAATGAAATCA
*
110090 ATTAAATTTTTTAAAATTCAAATGAGAATGA
1 A-TAAATTTTTTAAAA-TCAAATGA-AATCA
110121 ATAAAT
1 ATAAAT
110127 CAAAGACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 14 0.45
30 12 0.39
31 4 0.13
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (28 bp):
ATAAATTTTTTAAAATCAAATGAAATCA
Found at i:110950 original size:21 final size:22
Alignment explanation
Indices: 110910--110951 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
110900 AAATTAAAAG
110910 ATATTTTTACATTAATATTTAT
1 ATATTTTTACATTAATATTTAT
110932 ATATTTTATA-ATTAA-ATTTA
1 ATATTTT-TACATTAATATTTA
110952 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTTTTACATTAATATTTAT
Found at i:111758 original size:25 final size:24
Alignment explanation
Indices: 111715--111798 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
111705 ACAAATTAGT
*
111715 AATATATTAAAATTTATATAAGTATAA
1 AATATATT-AAA-TAATATAA-TATAA
* *
111742 AATATATTAAATAATATTATGATAT
1 AATATATTAAATAATATAAT-ATAA
* * *
111767 AATAAAATACATAAATATAATATAA
1 AATATATTAAAT-AATATAATATAA
111792 AATATAT
1 AATATAT
111799 GAATGTTTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
24 1 0.02
25 26 0.58
26 10 0.22
27 8 0.18
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATATTAAATAATATAATATAA
Found at i:112406 original size:25 final size:22
Alignment explanation
Indices: 112370--112423 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
112360 TAAATATTTT
* *
112370 TAATTTTTATTTTATTTTATTATTA
1 TAATTTTAATTTGA-TTT-TTA-TA
112395 TAATTTTAATTTGATTTTTATA
1 TAATTTTAATTTGATTTTTATA
112417 TAATTTT
1 TAATTTT
112424 TTAATTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 9 0.33
23 3 0.11
24 3 0.11
25 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TAATTTTAATTTGATTTTTATA
Found at i:112415 original size:20 final size:19
Alignment explanation
Indices: 112378--112416 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
112368 TTTAATTTTT
*
112378 ATTTTATTTTATTATTATA
1 ATTTTATTTGATTATTATA
*
112397 ATTTTAATTTGATTTTTATA
1 ATTTT-ATTTGATTATTATA
112417 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTTATTTGATTATTATA
Found at i:112422 original size:11 final size:12
Alignment explanation
Indices: 112370--112424 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
112360 TAAATATTTT
*
112370 TAATTTTTATTT
1 TAATTTTTATTA
*
112382 TATTTTATTATTA
1 TAATTT-TTATTA
*
112395 TAATTTTAATT-
1 TAATTTTTATTA
*
112406 TGATTTTTA-TA
1 TAATTTTTATTA
112417 TAATTTTT
1 TAATTTTT
112425 TAATTAAGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
10 1 0.03
11 14 0.41
12 9 0.26
13 10 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TAATTTTTATTA
Found at i:113222 original size:16 final size:17
Alignment explanation
Indices: 113192--113225 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
113182 ATTTTTATTT
113192 AAAATTTAACTTAAATAA
1 AAAATTTAAC-TAAATAA
113210 AAAATTTAA-TAAATAA
1 AAAATTTAACTAAATAA
113226 TTTAATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTTAACTAAATAA
Found at i:113849 original size:23 final size:24
Alignment explanation
Indices: 113823--113875 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
113813 TGATAAGAGC
*
113823 TTAAATAATTATTTA-ATTTTAA-T
1 TTAAATAATT-TTTATATTTAAACT
* *
113846 TTAAGTGATTTTTATATTTAAACT
1 TTAAATAATTTTTATATTTAAACT
113870 TTAAAT
1 TTAAAT
113876 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.17
23 14 0.58
24 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TTAAATAATTTTTATATTTAAACT
Found at i:115198 original size:13 final size:13
Alignment explanation
Indices: 115116--115200 Score: 64
Period size: 13 Copynumber: 6.2 Consensus size: 13
115106 CTTTAAATAT
115116 ATATATATATATAA
1 ATATATATATA-AA
* *
115130 ATATATTTAATTAAT
1 ATATATAT-A-TAAA
115145 ATATTAATATATAAA
1 ATA-T-ATATATAAA
* *
115160 AAATATCAT-TAAT
1 ATATAT-ATATAAA
*
115173 ATATATATTTAAA
1 ATATATATATAAA
115186 ATATATATATAAA
1 ATATATATATAAA
115199 AT
1 AT
115201 TTAGTTAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
12 2 0.04
13 27 0.48
14 10 0.18
15 10 0.18
16 4 0.07
17 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATATATAAA
Found at i:115415 original size:23 final size:24
Alignment explanation
Indices: 115359--115423 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
115349 TTTTAAACAG
* *
115359 TTATAAAAATTATATATATTTAATAA
1 TTATTAAAA-TATA-ATATATAATAA
115385 TT-TT-AAATATAATATATAA-AA
1 TTATTAAAATATAATATATAATAA
115406 TTATTAAAATATAATATA
1 TTATTAAAATATAATATA
115424 ATATGAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 4 0.11
22 9 0.26
23 16 0.46
24 3 0.09
25 1 0.03
26 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTATTAAAATATAATATATAATAA
Found at i:115451 original size:33 final size:32
Alignment explanation
Indices: 115414--115491 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
115404 AATTATTAAA
*
115414 ATATAATATAATATGAATAAAT-TTTTTAAATTT
1 ATATAATATAA-AT-AATAAATATTTTAAAATTT
*
115447 ATATAATATAAATAATTAATATTTTAAAATTT
1 ATATAATATAAATAATAAATATTTTAAAATTT
115479 ATATAAATATAAA
1 ATAT-AATATAAA
115492 ATATATTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 6 0.15
32 16 0.39
33 19 0.46
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
ATATAATATAAATAATAAATATTTTAAAATTT
Found at i:115726 original size:19 final size:19
Alignment explanation
Indices: 115690--115742 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
115680 AAATTAAATA
*
115690 TAAATTAA-AATA-TATAT
1 TAAATTAATTATATTATAT
*
115707 TAAATTAATTATTTTATAT
1 TAAATTAATTATATTATAT
* *
115726 TATATTTATTATATTAT
1 TAAATTAATTATATTAT
115743 TTTATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 8 0.28
18 2 0.07
19 19 0.66
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAATTAATTATATTATAT
Found at i:115747 original size:19 final size:19
Alignment explanation
Indices: 115702--115755 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
115692 AATTAAAATA
* * *
115702 TATATTAAATTAATTATTT
1 TATATTATATTTATTATAT
115721 TATATTATATTTATTATAT
1 TATATTATATTTATTATAT
*
115740 TATTTTATATTTATTA
1 TATATTATATTTATTA
115756 AATAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTATATTTATTATAT
Found at i:115770 original size:24 final size:23
Alignment explanation
Indices: 115699--115773 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 23
115689 ATAAATTAAA
* *
115699 ATATATATTAAATTAATTATTTT
1 ATATTTATTAAATAAATTATTTT
* * *
115722 ATATTATATTTATTATATTATTTT
1 ATATT-TATTAAATAAATTATTTT
*
115746 ATATTTATTAAATAAATTTTATTT
1 ATATTTATTAAATAAATTAT-TTT
115770 ATAT
1 ATAT
115774 CATAAATTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 15 0.37
24 26 0.63
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTTATTAAATAAATTATTTT
Found at i:115921 original size:15 final size:15
Alignment explanation
Indices: 115903--115936 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
115893 AAAATTTTGG
115903 TAATTT-AAATTAATT
1 TAATTTAAAATT-ATT
115918 TAATTTAAAATTATT
1 TAATTTAAAATTATT
115933 TAAT
1 TAAT
115937 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTTAAAATTATT
Found at i:116002 original size:22 final size:22
Alignment explanation
Indices: 115958--116012 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
115948 ATTTTTTATT
115958 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
115980 TAAATATTAA-TAT-AAAATA-A
1 TAAAT-TTAATTATAAAAATATA
*
116000 T-ATTTTAATTATA
1 TAAATTTAATTATA
116013 TAATTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.14
19 5 0.17
20 2 0.07
21 6 0.21
22 8 0.28
23 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:116941 original size:16 final size:18
Alignment explanation
Indices: 116920--116955 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
116910 TTTGATTAGT
116920 TTAATGATTG-TT-TTGA
1 TTAATGATTGATTGTTGA
116936 TTAATGATTGATTGTTGA
1 TTAATGATTGATTGTTGA
116954 TT
1 TT
116956 GTTTAGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (18 bp):
TTAATGATTGATTGTTGA
Found at i:117362 original size:123 final size:123
Alignment explanation
Indices: 117087--117345 Score: 349
Period size: 123 Copynumber: 2.1 Consensus size: 123
117077 CATGATCATG
* * * * *
117087 TTGAATTCTGGCATTCGTATTGATAGGGTGGGCAGTAGCCTCACTAGTTGCAGTTCCGGTATCAT
1 TTGAATTCTGGCATTCGTATTGATAGGATGGGCAGTAGCCTCACGAGTTGCAGTTCCAGCATCAC
* * * * *
117152 GGAACACTCAGCAATACCATCACCTTCCTCTATAGGAATGGCCCCAGTTCCGATCCTA
66 GGAACACTCAGCAACACCATCACCTTCCACAATAGCAATGGCCCCAGCTCCGATCCTA
* ** *
117210 TGGAATTCCAGCATTCGTATTGATAGGATGGGCAGTAGCCTGACGAGTTGCAGTTCCAGCATCAC
1 TTGAATTCTGGCATTCGTATTGATAGGATGGGCAGTAGCCTCACGAGTTGCAGTTCCAGCATCAC
* * *
117275 GGAACACTCAGCAACACCATCACCTTCCACAATAGCAACT-GCCCCGGCTCTGATCCTT
66 GGAACACTCAGCAACACCATCACCTTCCACAATAGCAA-TGGCCCCAGCTCCGATCCTA
117333 TTGAATTCTGGCA
1 TTGAATTCTGGCA
117346 AGCAGATTGA
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
123 114 0.99
124 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (123 bp):
TTGAATTCTGGCATTCGTATTGATAGGATGGGCAGTAGCCTCACGAGTTGCAGTTCCAGCATCAC
GGAACACTCAGCAACACCATCACCTTCCACAATAGCAATGGCCCCAGCTCCGATCCTA
Found at i:117388 original size:123 final size:123
Alignment explanation
Indices: 117102--117381 Score: 303
Period size: 123 Copynumber: 2.3 Consensus size: 123
117092 TTCTGGCATT
* * * * * * *
117102 CGTATTGATAGGGTGGGCAGTAGCCTCACTAGTTGCAGTTCCGGTATCATGGAACACTCAGCAAT
1 CGTATTGACAGGATGGCCAGTAGCCTCACTAGTTGCAGTTCCAGCATCACGGAACACTCAGCAAC
* * * * **
117167 ACCATCACCTTCCTCTATAGGAATGGCCCCAGTTCCGATCCTATGGAATTCCAGCATT
66 ACCATCACCTTCCACAATAGCAATGGCCCCAGCTCCGATCCTATGGAATTCCAGCAAG
* * * *
117225 CGTATTGATAGGATGGGCAGTAGCCTGACGAGTTGCAGTTCCAGCATCACGGAACACTCAGCAAC
1 CGTATTGACAGGATGGCCAGTAGCCTCACTAGTTGCAGTTCCAGCATCACGGAACACTCAGCAAC
* * * * **
117290 ACCATCACCTTCCACAATAGCAACT-GCCCCGGCTCTGATCCTTTTGAATTCTGGCAAG
66 ACCATCACCTTCCACAATAGCAA-TGGCCCCAGCTCCGATCCTATGGAATTCCAGCAAG
* *
117348 CAG-ATTGACAGGATGTCCAGTAGCCTTACTAGTT
1 C-GTATTGACAGGATGGCCAGTAGCCTCACTAGTT
117382 TAAGTTCTGG
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
123 129 0.98
124 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (123 bp):
CGTATTGACAGGATGGCCAGTAGCCTCACTAGTTGCAGTTCCAGCATCACGGAACACTCAGCAAC
ACCATCACCTTCCACAATAGCAATGGCCCCAGCTCCGATCCTATGGAATTCCAGCAAG
Found at i:120848 original size:28 final size:27
Alignment explanation
Indices: 120817--120880 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
120807 GTTAATTATC
*
120817 AATTATATTTAAATTTATATTTTTTAAA
1 AATTATATTT-AATATATATTTTTTAAA
*
120845 AATTATGA-TTAATATGTATTTTTTAAA
1 AATTAT-ATTTAATATATATTTTTTAAA
120872 AATATATAT
1 AAT-TATAT
120881 AATTATCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 19 0.61
28 11 0.35
29 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
AATTATATTTAATATATATTTTTTAAA
Found at i:121309 original size:10 final size:9
Alignment explanation
Indices: 121296--121336 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
121286 TAATTAAATC
121296 AAAATAATT
1 AAAATAATT
121305 CAAAATAATT
1 -AAAATAATT
121315 AAAAT--TT
1 AAAATAATT
121322 AAAATAATTT
1 AAAATAA-TT
121332 AAAAT
1 AAAAT
121337 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 7 0.25
9 5 0.18
10 16 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATAATT
Found at i:121329 original size:26 final size:25
Alignment explanation
Indices: 121296--121354 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
121286 TAATTAAATC
121296 AAAATAATTCAAAATAATT-AAAATTT
1 AAAATAATTCAAAAT--TTAAAAATTT
*
121322 AAAATAATTTAAAATTTAAAAATTT
1 AAAATAATTCAAAATTTAAAAATTT
121347 AAATATAA
1 AAA-ATAA
121355 AAAATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.07
25 10 0.33
26 18 0.60
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATAATTCAAAATTTAAAAATTT
Found at i:121364 original size:31 final size:31
Alignment explanation
Indices: 121306--121389 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
121296 AAAATAATTC
* * *
121306 AAAATAATTAAAATTTAAAATAATTTAAA-AT
1 AAAAAAATTTAAATATAAAA-AATTTAAATAT
**
121337 TTAAAAATTTAAATATAAAAAATTTTAAATAT
1 AAAAAAATTTAAATATAAAAAA-TTTAAATAT
121369 AAAAAAATTTAAA-ATAAAAAA
1 AAAAAAATTTAAATATAAAAAA
121390 AAACTCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 2 0.05
31 29 0.66
32 13 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAAAATTTAAATATAAAAAATTTAAATAT
Found at i:121384 original size:17 final size:17
Alignment explanation
Indices: 121313--121391 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
121303 TTCAAAATAA
* *
121313 TTAAAATTTAAAATAAT
1 TTAAAATATAAAAAAAT
*
121330 TTAAAAT-T-TAAAAAT
1 TTAAAATATAAAAAAAT
121345 TT-AAATAT-AAAAAAT
1 TTAAAATATAAAAAAAT
*
121360 TTTAAATATAAAAAAAT
1 TTAAAATATAAAAAAAT
121377 TTAAAATA-AAAAAAA
1 TTAAAATATAAAAAAA
121392 ACTCAAATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
14 4 0.07
15 16 0.29
16 14 0.25
17 21 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAATATAAAAAAAT
Found at i:121385 original size:15 final size:16
Alignment explanation
Indices: 121306--121390 Score: 93
Period size: 16 Copynumber: 5.4 Consensus size: 16
121296 AAAATAATTC
* * *
121306 AAAATAATTAAAATTT
1 AAAAAAATTTAAATAT
*
121322 AAAATAATTTAAA-AT
1 AAAAAAATTTAAATAT
**
121337 TTAAAAATTTAAATAT
1 AAAAAAATTTAAATAT
*
121353 AAAAAATTTTAAATAT
1 AAAAAAATTTAAATAT
121369 AAAAAAATTTAAA-AT
1 AAAAAAATTTAAATAT
121384 AAAAAAA
1 AAAAAAA
121391 AACTCAAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
15 20 0.34
16 39 0.66
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAAATTTAAATAT
Found at i:122043 original size:192 final size:189
Alignment explanation
Indices: 121716--122254 Score: 810
Period size: 192 Copynumber: 2.9 Consensus size: 189
121706 CCACCACCAC
* * * *
121716 AGCCGCGACTCCCATCGTCGATCGGATCATAAATCTTCCGCATCGCGCCGGGATGAGCGCGAGAG
1 AGCCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGATGAGCGCGAGAG
* * *
121781 ATCTTTTGAGGGGGAGGGTTCGAGAGATCGGAAGCATCGTGAGGGTTCCTATGAAGAAGTTGAAG
66 ATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGAAGAAGTTGAAG
121846 CGAAGAAGAGGAGGAAAGAGAGGGAAGAGAGTGAGGACTCCGACCACCACCAACATC-ACGA
131 CGAAGAAGA-GAGGAAAGAGAGGGAAGAGAGTGAGGACTCCGACCACCACCAACA-CAAC-A
* *
121907 TAGCCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGTGACGAGCGCGAGA
1 -AGCCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGATGAGCGCGAGA
*
121972 GATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCACCGTGAGGGTTCCTATGAAGAAGTTGAA
65 GATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGAAGAAGTTGAA
* *
122037 GCGAAGAAGA-A-G--AG-GA---AAGAGAGTGAGGACTCCGACCATCACCACCACAACA
130 GCGAAGAAGAGAGGAAAGAGAGGGAAGAGAGTGAGGACTCCGACCACCACCAACACAACA
* *
122089 A-CCACGACTCCCACCGGCGATCGGATCATAAATCTACCACATCGCGCCGCGATGAGCGCGAGAG
1 AGCCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGATGAGCGCGAGAG
* * *
122153 ATCTTCCGAGAGGGAGGGTTCTAGAGATAGGCAGCATCGTGAGGGTTCCTATGAAGAAGTTGAAG
66 ATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGAAGAAGTTGAAG
122218 CGAAGAAGAAGAGGAAAGAGAGGGAAGAGAGTGAGGA
131 CGAAGAAG-AGAGGAAAGAGAGGGAAGAGAGTGAGGA
122255 GAGAGTGGAG
Statistics
Matches: 318, Mismatches: 19, Indels: 23
0.88 0.05 0.06
Matches are distributed among these distances:
180 128 0.40
181 2 0.01
182 3 0.01
183 32 0.10
185 2 0.01
186 4 0.01
187 2 0.01
189 14 0.04
190 1 0.00
192 130 0.41
ACGTcount: A:0.31, C:0.22, G:0.32, T:0.15
Consensus pattern (189 bp):
AGCCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGATGAGCGCGAGAG
ATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGAAGAAGTTGAAG
CGAAGAAGAGAGGAAAGAGAGGGAAGAGAGTGAGGACTCCGACCACCACCAACACAACA
Found at i:122114 original size:180 final size:179
Alignment explanation
Indices: 121705--122239 Score: 773
Period size: 180 Copynumber: 2.9 Consensus size: 179
121695 CGGGACTACG
* * * * *
121705 ACCACCACCACAGCCGCGACTCCCATCGTCGATCGGATCATAAATCTTCCGCATCGCGCCGGGAT
1 ACCACCA-CACAACCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGAT
* * *
121770 GAGCGCGAGAGATCTTTTGAGGGGGAGGGTTCGAGAGATCGGAAGCATCGTGAGGGTTCCTATGA
65 GAGCGCGAGAGATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGA
121835 AGAAGTTGAAGCGAAGAAGAGGAGGAAAGAGAGGGAAGAGAGTGAGGACTCCGACCACC
130 AGAAGTTGAAGCGAAGAAGA--A-G--AG-GA---AAGAGAGTGAGGACTCCGACCACC
* *
121894 ACCAACATCACGATAGCCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGT
1 ACCACCA-CAC-A-A-CCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGC
* *
121959 GACGAGCGCGAGAGATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCACCGTGAGGGTTCCTA
62 GATGAGCGCGAGAGATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTA
*
122024 TGAAGAAGTTGAAGCGAAGAAGAAGAGGAAAGAGAGTGAGGACTCCGACCATC
127 TGAAGAAGTTGAAGCGAAGAAGAAGAGGAAAGAGAGTGAGGACTCCGACCACC
* *
122077 ACCACCACAACAACCACGACTCCCACCGGCGATCGGATCATAAATCTACCACATCGCGCCGCGAT
1 ACCACCAC-ACAACCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGAT
* * *
122142 GAGCGCGAGAGATCTTCCGAGAGGGAGGGTTCTAGAGATAGGCAGCATCGTGAGGGTTCCTATGA
65 GAGCGCGAGAGATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGA
122207 AGAAGTTGAAGCGAAGAAGAAGAGGAAAGAGAG
130 AGAAGTTGAAGCGAAGAAGAAGAGGAAAGAGAG
122240 GGAAGAGAGT
Statistics
Matches: 320, Mismatches: 22, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
180 142 0.44
181 1 0.00
182 2 0.01
183 31 0.10
186 2 0.01
187 2 0.01
189 10 0.03
190 2 0.01
192 128 0.40
ACGTcount: A:0.30, C:0.23, G:0.31, T:0.15
Consensus pattern (179 bp):
ACCACCACACAACCGCGACTCCCACCGGCGATCGGATCATAAATCTTCCACATCGCGCCGCGATG
AGCGCGAGAGATCTTTCGAGAGGGAGGGTTCGAGAGATAGGAAGCATCGTGAGGGTTCCTATGAA
GAAGTTGAAGCGAAGAAGAAGAGGAAAGAGAGTGAGGACTCCGACCACC
Found at i:128591 original size:51 final size:51
Alignment explanation
Indices: 128532--128630 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 51
128522 TTAGTATTCT
* *
128532 GTGTTATACAAATGTTATCTACTCTCTTTCTTAGGTTACAAGCAACATTTC
1 GTGTTATACAAATGTGATCTACTCTCTTTCTTACGTTACAAGCAACATTTC
128583 GTGTTATACAAATGTGATCTACTCTCTTTCTTACGTTACAAGCAACAT
1 GTGTTATACAAATGTGATCTACTCTCTTTCTTACGTTACAAGCAACAT
128631 CCTCAGCTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (51 bp):
GTGTTATACAAATGTGATCTACTCTCTTTCTTACGTTACAAGCAACATTTC
Found at i:133878 original size:24 final size:24
Alignment explanation
Indices: 133850--133895 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
133840 AATAAAAATT
133850 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* * *
133874 AGCCACCATTTTTTACATACAA
1 AGCCACCAATTTTGACAAACAA
133896 AAATAACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:133921 original size:28 final size:28
Alignment explanation
Indices: 133890--133953 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
133880 CATTTTTTAC
133890 ATACAAA-AATAACCACCATATTTGACAA
1 ATACAAAGAA-AACCACCATATTTGACAA
*
133918 ATACAAAGGAAACCACCATATTTGACAA
1 ATACAAAGAAAACCACCATATTTGACAA
133946 ATACAAAG
1 ATACAAAG
133954 GGTGGCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.19
Consensus pattern (28 bp):
ATACAAAGAAAACCACCATATTTGACAA
Found at i:133954 original size:28 final size:28
Alignment explanation
Indices: 133900--133954 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
133890 ATACAAAAAT
133900 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
133928 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
133955 GTGGCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:135896 original size:21 final size:22
Alignment explanation
Indices: 135858--135903 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
135848 ATCTGTTGAA
* **
135858 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
135879 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
135901 ACT
1 ACT
135904 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:138455 original size:24 final size:24
Alignment explanation
Indices: 138427--138472 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
138417 AATAAAAATT
138427 AGCCACCAATTTTGACATACAACA
1 AGCCACCAATTTTGACATACAACA
* *
138451 AGCCACCATTTTTTACATACAA
1 AGCCACCAATTTTGACATACAA
138473 AAATAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (24 bp):
AGCCACCAATTTTGACATACAACA
Found at i:138508 original size:28 final size:28
Alignment explanation
Indices: 138477--138531 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
138467 ATACAAAAAT
*
138477 AACCACCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
138505 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
138532 GTGGCATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:139293 original size:23 final size:23
Alignment explanation
Indices: 139266--139340 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 23
139256 TAAAATTTTA
139266 AATATTATTTTTATATTAATATT
1 AATATTATTTTTATATTAATATT
139289 AATA-TA-TTTTATAATTAA-ATTT
1 AATATTATTTTTAT-ATTAATA-TT
139311 AAATAATT-TTTTTAATTATTAAATATT
1 -AAT-ATTATTTTT-A-TATT-AATATT
139338 AAT
1 AAT
139341 TAAAATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 17
0.71 0.00 0.29
Matches are distributed among these distances:
21 7 0.17
22 9 0.21
23 7 0.17
24 1 0.02
25 5 0.12
26 7 0.17
27 5 0.12
28 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATATTATTTTTATATTAATATT
Found at i:139298 original size:22 final size:21
Alignment explanation
Indices: 139271--139337 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 21
139261 TTTTAAATAT
139271 TATTTTTATATTAATATT-AA
1 TATTTTTATATTAATATTAAA
139291 TATATTTTATAATTAA-ATTTAAA
1 TAT-TTTTAT-ATTAATA-TTAAA
*
139314 TAATTTT-T-TTAATTATTAAA
1 TATTTTTATATTAA-TATTAAA
139334 TATT
1 TATT
139338 AATTAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
19 4 0.10
20 11 0.28
21 9 0.23
22 11 0.28
23 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTTATATTAATATTAAA
Found at i:139300 original size:21 final size:20
Alignment explanation
Indices: 139274--139337 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 20
139264 TAAATATTAT
139274 TTTTATATTAATATTAATATA
1 TTTTATATTAATATTAA-ATA
139295 TTTTATAATTAA-ATTTAAATAA
1 TTTTAT-ATTAATA-TTAAAT-A
139317 TTTT-T-TTAATTATTAAATA
1 TTTTATATTAA-TATTAAATA
139336 TT
1 TT
139338 AATTAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 7 0.18
20 6 0.16
21 11 0.29
22 14 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTATATTAATATTAAATA
Found at i:141065 original size:291 final size:291
Alignment explanation
Indices: 140292--141142 Score: 1024
Period size: 290 Copynumber: 2.9 Consensus size: 291
140282 GGGGGGGGGG
* *
140292 ACTTTGGAACTGCTGTTAATATTATTTTGTTTTGTCGTTCATTTGTTGAAATAGGGATGCAATTT
1 ACTTTGGAACTGCTGTTAATATTATTTTGTTTTGTTGTTCATTTGTTGAAATAGGGATGCAAATT
* * * *
140357 AGGTATTCAATTGTAGTGTAGCCA-CGATCAAGCCCGGGTTTCGGTTACCTTTTTAATGAATTCA
66 AGGTATTCAATTGTAGTGTGGCCATC-ATCAGGCCCAGGTTTCCGTTACCTTTTTAATGAATTCA
* *
140421 TAAGATTTGCATTGGTACTTGAATGGATAGAGCAAGAATTAGTGATATTTGGTTTCTGTTAGACA
130 TAAGATTTGCATTGGTACTTGAATGGATAGACCAAGAATTAATGATATTTGGTTTCTGTTAGACA
* * *
140486 CTAGGGTTAAGTTCTGGAGTTCGGTTTTCTTGAGAGGGTATGAAGTGAGGGATAAAAACTGTGCT
195 CAAGGGTTAAGTTCTGGAGTTCGGTTTTCTTGAGAGGATATGAAGTGAGGGATAAAAACTGTGTT
** ***
140551 TTCTTAACTAGCATGCGTTTTTTTTTTGAAGAA
260 TTCTTGGCTAGCATGCG-TTTTTAAATGAAGAA
* * *
140584 ACTTTTGAACTGCTGTTAATATTATTTTGTTTTGTTGTTCATTTGTAGAAATA---AT--TAATT
1 ACTTTGGAACTGCTGTTAATATTATTTTGTTTTGTTGTTCATTTGTTGAAATAGGGATGCAAATT
** * *** * * *
140644 TTGTATCCTGGCCA-TG-A-TCGTGGTTGTGATCGGGCCCTGGTTTCCGATTACCTTTTTAATGA
66 AGGTAT--T--CAATTGTAGT-GTGGCCATCATCAGGCCCAGGTTTCCG-TTACCTTTTTAATGA
* * * * *
140706 ATTCATAAGATTTGCATTGGTAGTTGAATGGCTAGACCAAGAATTAATGGTATCTGGTTTCAGTT
125 ATTCATAAGATTTGCATTGGTACTTGAATGGATAGACCAAGAATTAATGATATTTGGTTTCTGTT
* * * *
140771 AGACACAAGGGTTAAGTTCCGGAGTTCGGTTTTCCTGAGAGGATACGAAGTGAGGGGTAAAAACT
190 AGACACAAGGGTTAAGTTCTGGAGTTCGGTTTTCTTGAGAGGATATGAAGTGAGGGATAAAAACT
*
140836 GTGTTTTCTTGGCTAGCATGCAG-TTTTAAAT-AGGAA
255 GTGTTTTCTTGGCTAGCATGC-GTTTTTAAATGAAGAA
* * * *
140872 ACTTTGGAACTGCTGTTAATAGTA-TTTGATTTTATTGTTCATTTGTTGAAATAGGGATGCGACT
1 ACTTTGGAACTGCTGTTAATATTATTTTG-TTTTGTTGTTCATTTGTTGAAATAGGGATGCAAAT
* * * *
140936 TAGGGATTCATTTGTAGTGTGGCCATCATCAGGCCCAGGTTTCCAGTTACCTTCTCAATGAATTC
65 TAGGTATTCAATTGTAGTGTGGCCATCATCAGGCCCAGGTTTCC-GTTACCTTTTTAATGAATTC
* *
141001 ATAAGAATTGCATTGGTACTTGAATGGATAGATCAAGAATTAATGATATTTGGTTTCTGTTAGAC
129 ATAAGATTTGCATTGGTACTTGAATGGATAGACCAAGAATTAATGATATTTGGTTTCTGTTAGAC
* * * * * *
141066 ATAAGGGATAAGTTCTGGAGTCCGGATTTTCTTAAGAGGATATGAAGTAAGGGATAAAACCTGTG
194 ACAAGGGTTAAGTTCTGGAGTTCGG-TTTTCTTGAGAGGATATGAAGTGAGGGATAAAAACTGTG
141131 TTTTCTTGGCTA
258 TTTTCTTGGCTA
141143 CCATACTTTT
Statistics
Matches: 467, Mismatches: 73, Indels: 38
0.81 0.13 0.07
Matches are distributed among these distances:
287 11 0.02
288 49 0.10
289 27 0.06
290 154 0.33
291 123 0.26
292 97 0.21
293 6 0.01
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (291 bp):
ACTTTGGAACTGCTGTTAATATTATTTTGTTTTGTTGTTCATTTGTTGAAATAGGGATGCAAATT
AGGTATTCAATTGTAGTGTGGCCATCATCAGGCCCAGGTTTCCGTTACCTTTTTAATGAATTCAT
AAGATTTGCATTGGTACTTGAATGGATAGACCAAGAATTAATGATATTTGGTTTCTGTTAGACAC
AAGGGTTAAGTTCTGGAGTTCGGTTTTCTTGAGAGGATATGAAGTGAGGGATAAAAACTGTGTTT
TCTTGGCTAGCATGCGTTTTTAAATGAAGAA
Found at i:142057 original size:82 final size:82
Alignment explanation
Indices: 141951--142112 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 82
141941 CTTAAACTTT
* ** *
141951 GTTACTCGGACTCGGGTGGAAGTGT-AGAGATTCGTGTCTGACATTAGTATATTCATATTCCCAA
1 GTTACTCGGACTCAGGTGGAAGTGTCAG-GACCCATGTCTGACATTAGTATATTCATATTCCCAA
142015 TT-CCTCATACCTATATCC
65 TTCCCT-ATACCTATATCC
* *
142033 GTTACTCGGACTCAGGTGGGAGTGTCAGGACCCATGTCTGACATTAGTATGTTCATATTCCCAAT
1 GTTACTCGGACTCAGGTGGAAGTGTCAGGACCCATGTCTGACATTAGTATATTCATATTCCCAAT
142098 TCCCTATACCTATAT
66 TCCCTATACCTATAT
142113 TCGAACATGC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
82 67 0.93
83 5 0.07
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (82 bp):
GTTACTCGGACTCAGGTGGAAGTGTCAGGACCCATGTCTGACATTAGTATATTCATATTCCCAAT
TCCCTATACCTATATCC
Found at i:142510 original size:34 final size:34
Alignment explanation
Indices: 142472--142540 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
142462 TGCCTGGCAG
142472 AAGCAAAGTTAAGTACTTAGTTGTGAATTTTTTT
1 AAGCAAAGTTAAGTACTTAGTTGTGAATTTTTTT
142506 AAGCAAAGTTAAGTACTTAGTTGTGAATTTTTTT
1 AAGCAAAGTTAAGTACTTAGTTGTGAATTTTTTT
142540 A
1 A
142541 CTTTAGGTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (34 bp):
AAGCAAAGTTAAGTACTTAGTTGTGAATTTTTTT
Found at i:144556 original size:18 final size:20
Alignment explanation
Indices: 144529--144571 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
144519 TACTCATATC
*
144529 ATATTTTAA-TAT-TTCAAT
1 ATATTATAATTATATTCAAT
*
144547 ATATTATAATTATATTTAAT
1 ATATTATAATTATATTCAAT
144567 ATATT
1 ATATT
144572 TTATATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTATAATTATATTCAAT
Found at i:144914 original size:30 final size:30
Alignment explanation
Indices: 144829--144915 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
144819 ATTACAACTG
* * *
144829 ATAAGATTTTTAACTTTTT-TATTTATGTTTAT
1 ATAA-ATTTTTAA-TTTTTAT-TTTATATTCAA
* * *
144861 ATAAATTTTTAATCTCTAATTTATATTCAA
1 ATAAATTTTTAATTTTTATTTTATATTCAA
144891 ATAAATTTTTAATTTTTATTTTATA
1 ATAAATTTTTAATTTTTATTTTATA
144916 CATAATATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
30 33 0.73
31 8 0.18
32 4 0.09
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (30 bp):
ATAAATTTTTAATTTTTATTTTATATTCAA
Found at i:146437 original size:79 final size:79
Alignment explanation
Indices: 146313--146467 Score: 247
Period size: 79 Copynumber: 2.0 Consensus size: 79
146303 ACAAGAAATG
* * * *
146313 TGCTGGATGCATTGCAACAAAATGATCCAAAATAGTCAGCCAATCAAAGGAGACTCTTTCCATGT
1 TGCTGAATGCATTGCAACAAAATGATCCAAAATAGTAAGCCAATCAAAAGAGACTATTTCCATGT
146378 TACTCGGATTTAGC
66 TACTCGGATTTAGC
* * *
146392 TGCTGAATGCATTGCAACAAAATGATCCAAATTAGTAAGCTAATCAAAAGAGACTATTTTCATGT
1 TGCTGAATGCATTGCAACAAAATGATCCAAAATAGTAAGCCAATCAAAAGAGACTATTTCCATGT
146457 TACTCGGATTT
66 TACTCGGATTT
146468 GAGTGTGGGT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (79 bp):
TGCTGAATGCATTGCAACAAAATGATCCAAAATAGTAAGCCAATCAAAAGAGACTATTTCCATGT
TACTCGGATTTAGC
Found at i:152911 original size:33 final size:33
Alignment explanation
Indices: 152829--152911 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
152819 AGATTAAATT
*
152829 AAATTAATTTATTAAT-TTATTTTAAATTTTAA
1 AAATTAATTTATTAATAATATTTTAAATTTTAA
152861 AAATATAATTT-TTAATAATATTTTAAAATTTT-A
1 AAAT-TAATTTATTAATAATATTTT-AAATTTTAA
** *
152894 TTATTAATTTATAAATAA
1 AAATTAATTTATTAATAA
152912 AATATTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
32 15 0.35
33 21 0.49
34 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
AAATTAATTTATTAATAATATTTTAAATTTTAA
Found at i:153701 original size:22 final size:21
Alignment explanation
Indices: 153662--153702 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
153652 TCATTTTATT
* *
153662 TATTTTTAAAATATAATTACA
1 TATTTTTAAAAAACAATTACA
153683 TATTTTATAAAAAACAATTA
1 TATTTT-TAAAAAACAATTA
153703 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTTTAAAAAACAATTACA
Found at i:155013 original size:2 final size:2
Alignment explanation
Indices: 155008--155037 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
154998 AAAACCCCAA
155008 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
155038 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:155042 original size:2 final size:2
Alignment explanation
Indices: 155037--155065 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
155027 TCTCTCTCTC
155037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
155066 CTAAGATCCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:157119 original size:2 final size:2
Alignment explanation
Indices: 157112--157152 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
157102 TTGCTCATAC
157112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157153 CTGGTTGCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:165510 original size:2 final size:2
Alignment explanation
Indices: 165503--165527 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
165493 ATCAATTGTG
165503 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
165528 TCTAGGCACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:170650 original size:21 final size:21
Alignment explanation
Indices: 170626--170668 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
170616 AAATATTAAA
170626 ATATTTTTTAT-ATTAATATTT
1 ATATTTTTTATAATTAA-ATTT
170647 ATATTTTTTATAATTAAATTT
1 ATATTTTTTATAATTAAATTT
170668 A
1 A
170669 GATAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTTTTATAATTAAATTT
Found at i:172594 original size:20 final size:22
Alignment explanation
Indices: 172558--172604 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
172548 GGCTCGACTC
172558 AAATAATTGTTTATT-AA-TTA
1 AAATAATTGTTTATTAAATTTA
172578 AAATAATT-TTTATTTAAATTTA
1 AAATAATTGTTTA-TTAAATTTA
172600 AAATA
1 AAATA
172605 TTAATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 2 0.08
22 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATAATTGTTTATTAAATTTA
Found at i:172909 original size:37 final size:37
Alignment explanation
Indices: 172833--172911 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
172823 TACCCGTCAA
* * *
172833 TTTATATAATTTTTTAAAATAAAATTTAAAAATTATT
1 TTTATATAATTATTTAAAATAAAATTAAAAAAATATT
* *
172870 TTTATATTATTATTTATAATAAAATTAAAATAAAT-TT
1 TTTATATAATTATTTAAAATAAAATTAAAA-AAATATT
172907 TTTAT
1 TTTAT
172912 TACATAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 33 0.92
38 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
TTTATATAATTATTTAAAATAAAATTAAAAAAATATT
Found at i:173094 original size:169 final size:169
Alignment explanation
Indices: 172880--173224 Score: 445
Period size: 169 Copynumber: 2.0 Consensus size: 169
172870 TTTATATTAT
172880 TATTTATAATAAAATTAAAATAAATTTTTTATTACATAATAATAATTTGAGTCGGAA-CAAGTTA
1 TATTTATAATAAAATTAAAATAAATTTTTTATTACATAATAATAATTTGAGTC-GAATCAAGTTA
* *
172944 ATATGAATTACT-GAAAAATTAAT-TCATATCTAATCTAATACAAATCGAATCTATTAGACTCA-
65 ATATAAATTACTAAAAAAATT--TCTCATATCTAATCTAATACAAATCGAATCTATTAGACT-AG
* *
173006 ACGAACTTCTCAACCAATGAACATGTTTACTTATG-AAA-ATAAA
127 ACGAACTACTCAACCAATAAACATGTTTA-TT-TGTAAATATAAA
* * *
173049 TATTTATAATAAAATTTAAAT-AATTTTTTATT-CTATAAATAATAATTTGGGTCGAATCGAGTT
1 TATTTATAATAAAATTAAAATAAATTTTTTATTAC-AT-AATAATAATTTGAGTCGAATCAAGTT
* * * *
173112 AATATAAATTATTAAAAAAATTTCTCATATCTAATCTAATGCAGATTGAATCTATTAGACTAGAC
64 AATATAAATTACTAAAAAAATTTCTCATATCTAATCTAATACAAATCGAATCTATTAGACTAGAC
*
173177 GAACTACTCAACCGATAAACATGTTTATTTGTAAATATAAA
129 GAACTACTCAACCAATAAACATGTTTATTTGTAAATATAAA
*
173218 AATTTAT
1 TATTTAT
173225 TTACGAGTAA
Statistics
Matches: 155, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
167 3 0.02
168 23 0.15
169 122 0.79
170 7 0.05
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (169 bp):
TATTTATAATAAAATTAAAATAAATTTTTTATTACATAATAATAATTTGAGTCGAATCAAGTTAA
TATAAATTACTAAAAAAATTTCTCATATCTAATCTAATACAAATCGAATCTATTAGACTAGACGA
ACTACTCAACCAATAAACATGTTTATTTGTAAATATAAA
Found at i:173558 original size:28 final size:28
Alignment explanation
Indices: 173495--173558 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
173485 CGATTCAACT
* *
173495 AATTATAAATTTAATAATTAAAATATTTT
1 AATT-TAAATTTAATAATTAAAATATATA
* *
173524 TATTTAAATTTAATTA-TAAAATATATA
1 AATTTAAATTTAATAATTAAAATATATA
173551 AATATTAA
1 AAT-TTAA
173559 TATAAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 11 0.38
28 15 0.52
29 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTTAAATTTAATAATTAAAATATATA
Found at i:173841 original size:3 final size:3
Alignment explanation
Indices: 173776--173822 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
173766 ATTTAATTTT
173776 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
173823 TAATAAAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:174256 original size:20 final size:19
Alignment explanation
Indices: 174231--174281 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
174221 TATGATAGTC
174231 ATATAAAATAAATATAAATG
1 ATATAAAA-AAATATAAATG
* *
174251 ATATAAAAAATTATAAA-A
1 ATATAAAAAAATATAAATG
*
174269 ATATATAAAAATA
1 ATATAAAAAAATA
174282 ATTTAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.41
19 8 0.30
20 8 0.30
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAAAAAAATATAAATG
Found at i:174280 original size:10 final size:10
Alignment explanation
Indices: 174231--174281 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
174221 TATGATAGTC
174231 ATAT-AAAAT
1 ATATAAAAAT
* *
174240 AAATATAAAT
1 ATATAAAAAT
174250 GATATAAAAA-
1 -ATATAAAAAT
174260 ATTATAAAAAT
1 A-TATAAAAAT
174271 ATATAAAAAT
1 ATATAAAAAT
174281 A
1 A
174282 ATTTAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 4 0.12
10 22 0.65
11 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:174302 original size:27 final size:27
Alignment explanation
Indices: 174268--174326 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
174258 AAATTATAAA
174268 AATA-TATAAAAAT-AATTTAATTTCAC
1 AATATTATAAAAATGAATTT-ATTTCAC
* *
174294 AATATTATATAAATGAATTTTTTTCAC
1 AATATTATAAAAATGAATTTATTTCAC
174321 ACATAT
1 A-ATAT
174327 ATTTAACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 15 0.54
28 9 0.32
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.42
Consensus pattern (27 bp):
AATATTATAAAAATGAATTTATTTCAC
Found at i:175256 original size:26 final size:27
Alignment explanation
Indices: 175216--175266 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
175206 GGTTTTTTAT
*
175216 ATAATAAAAATAAATTATAT-ATAATA
1 ATAATAAAAATAAATAATATGATAATA
175242 ATAA-AAAAATAAAATAATATGATAA
1 ATAATAAAAAT-AAATAATATGATAA
175267 AATTATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 12 0.55
27 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAATAAAAATAAATAATATGATAATA
Found at i:176596 original size:11 final size:11
Alignment explanation
Indices: 176580--176604 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
176570 CGTTATAATC
176580 ATCATTTTTAA
1 ATCATTTTTAA
176591 ATCATTTTTAA
1 ATCATTTTTAA
176602 ATC
1 ATC
176605 TTTAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (11 bp):
ATCATTTTTAA
Found at i:177162 original size:22 final size:23
Alignment explanation
Indices: 177136--177182 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
177126 ATTTTTTATT
177136 TAAAT-TTAATTATAAAAAT-ATA
1 TAAATATTAA-TATAAAAATAATA
177158 TAAATATTAATATAAAAATAATA
1 TAAATATTAATATAAAAATAATA
177181 TA
1 TA
177183 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATTAATATAAAAATAATA
Found at i:177376 original size:15 final size:14
Alignment explanation
Indices: 177334--177373 Score: 57
Period size: 12 Copynumber: 3.0 Consensus size: 14
177324 AAATTTTAAC
177334 ATTTATAATTTTTT
1 ATTTATAATTTTTT
*
177348 AGTT-T-ATTTTTT
1 ATTTATAATTTTTT
177360 ATTTATAATTTTTT
1 ATTTATAATTTTTT
177374 TATACAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.45
13 2 0.09
14 10 0.45
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
ATTTATAATTTTTT
Found at i:180475 original size:24 final size:23
Alignment explanation
Indices: 180439--180530 Score: 78
Period size: 24 Copynumber: 3.8 Consensus size: 23
180429 ATTTATTTGA
*
180439 TTTTAATTAAATTTAAAATTTAT
1 TTTTAATTTAATTTAAAATTTAT
*
180462 TGTTTAATTTAATTTAAATTATTAT
1 T-TTTAATTTAATTTAAAAT-TTAT
** *
180487 TTATTAA-TTAAAATAATATTTTAT
1 TT-TTAATTTAATTTAA-AATTTAT
*
180511 TTTAAATTTAATTATAAAAT
1 TTTTAATTTAATT-TAAAAT
180531 ATATAAATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
23 4 0.07
24 36 0.65
25 15 0.27
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TTTTAATTTAATTTAAAATTTAT
Found at i:180506 original size:19 final size:20
Alignment explanation
Indices: 180470--180507 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
180460 ATTGTTTAAT
* *
180470 TTAATTTAAATTATTATTTA
1 TTAATTTAAAATAATATTTA
180490 TTAA-TTAAAATAATATTT
1 TTAATTTAAAATAATATTT
180508 TATTTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTTAAAATAATATTTA
Found at i:180537 original size:21 final size:21
Alignment explanation
Indices: 180513--180552 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
180503 TATTTTATTT
180513 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
180534 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
180553 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:180796 original size:20 final size:22
Alignment explanation
Indices: 180768--180810 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
180758 GATTAAGAAA
*
180768 AGTTAATAAAAATTAAAT-TAT
1 AGTTAATAAAAATAAAATATAT
*
180789 AGTT-ATAATAATAAAATATAT
1 AGTTAATAAAAATAAAATATAT
180810 A
1 A
180811 AAATAAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
AGTTAATAAAAATAAAATATAT
Found at i:182609 original size:30 final size:30
Alignment explanation
Indices: 182551--182633 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
182541 TATTTTTTTA
* * * *
182551 TTTTTTAAT-TTGTATCATGTTTATATGAT
1 TTTTTTAATATTTTATAATATTTAAATGAT
*
182580 TTTTTTAATATTTTATGATATTTAAATGAT
1 TTTTTTAATATTTTATAATATTTAAATGAT
* *
182610 TTTTCTCATATTTTATAATATTTA
1 TTTTTTAATATTTTATAATATTTA
182634 TCAAGAACAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 9 0.20
30 37 0.80
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (30 bp):
TTTTTTAATATTTTATAATATTTAAATGAT
Found at i:185311 original size:17 final size:17
Alignment explanation
Indices: 185289--185322 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
185279 TTTGTACTTT
*
185289 AAAAATTATAATAAATA
1 AAAAATAATAATAAATA
*
185306 AAAAATAATAATTAATA
1 AAAAATAATAATAAATA
185323 GTGTTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATAATAATAAATA
Found at i:186453 original size:21 final size:20
Alignment explanation
Indices: 186429--186474 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
186419 AAAAGAAAAT
*
186429 AATGAACAATATTTAGAGAAG
1 AATGAA-AATATTCAGAGAAG
*
186450 AATGGAAAATATTCGGAGAAG
1 AAT-GAAAATATTCAGAGAAG
186471 AATG
1 AATG
186475 GAGAGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 18 0.82
22 3 0.14
ACGTcount: A:0.50, C:0.04, G:0.24, T:0.22
Consensus pattern (20 bp):
AATGAAAATATTCAGAGAAG
Found at i:189534 original size:15 final size:15
Alignment explanation
Indices: 189514--189563 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
189504 TTCAGCAAAG
189514 ACACCTTTATAAGTA
1 ACACCTTTATAAGTA
*
189529 ACACC-TTAGT-A-TG
1 ACACCTTTA-TAAGTA
189542 ACACCTTTATAAGTA
1 ACACCTTTATAAGTA
189557 ACACCTT
1 ACACCTT
189564 AGTATGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 14 0.48
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (15 bp):
ACACCTTTATAAGTA
Found at i:189553 original size:28 final size:28
Alignment explanation
Indices: 189513--189569 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
189503 ATTCAGCAAA
189513 GACACCTTTATAAGTAACACCTTAGTAT
1 GACACCTTTATAAGTAACACCTTAGTAT
189541 GACACCTTTATAAGTAACACCTTAGTAT
1 GACACCTTTATAAGTAACACCTTAGTAT
189569 G
1 G
189570 TGTCAGTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (28 bp):
GACACCTTTATAAGTAACACCTTAGTAT
Found at i:191040 original size:24 final size:20
Alignment explanation
Indices: 190997--191042 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
190987 AATATTTAAA
190997 TTTATTATTAAAAAATTATT
1 TTTATTATTAAAAAATTATT
*
191017 TTTATTTATTAAAATAATTATA
1 TTTA-TTATTAAAA-AATTATT
191039 TTTA
1 TTTA
191043 AGTTTCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 9 0.39
22 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTATTAAAAAATTATT
Done.