Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 8 of 352
Found at i:2555758 original size:107 final size:104
Alignment explanation
Indices: 2555520--2555835 Score: 503
Period size: 107 Copynumber: 3.0 Consensus size: 104
2555510 CACGTGAGCC
* *
2555520 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
2555584 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
* *
2555625 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
2555690 CACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AA
2555732 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
2555797 CATCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
2555835 A
1 A
2555836 CTGAAAAGTA
Statistics
Matches: 197, Mismatches: 8, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
103 21 0.11
104 29 0.15
105 39 0.20
106 10 0.05
107 80 0.41
108 18 0.09
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (104 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
Found at i:2555951 original size:13 final size:14
Alignment explanation
Indices: 2555923--2555955 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
2555913 TTTTTGAAAC
2555923 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
2555937 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
2555950 ACAGAA
1 ACAGAA
2555956 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:2555963 original size:14 final size:14
Alignment explanation
Indices: 2555916--2555963 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
2555906 TTTTTTTTTT
*
2555916 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
2555930 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
2555944 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
2555957 TTGAAAA
1 TTGAAAA
2555964 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:2556094 original size:85 final size:87
Alignment explanation
Indices: 2555951--2556115 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
2555941 AAATTAAAAA
* *
2555951 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGTT-GA
1 CAGAAATTGAAAAGACCTCAGCG-GTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGA
*
2556015 TTTGAAAAGTAGAATTAGTAAAG
65 TTTGAAAAGCAGAATTAGTAAAG
* * *
2556038 CAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAG
1 CAGAAATTGAAAAGACCTCAGCGGTGGCC-TGAGACTCAACTCACCTCTCGCAATATGAGTT-AG
*
2556101 TTTTGAAAAGCAGAA
64 ATTTGAAAAGCAGAA
2556116 ATTGAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 3 0.04
85 31 0.46
87 34 0.50
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (87 bp):
CAGAAATTGAAAAGACCTCAGCGGTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGAT
TTGAAAAGCAGAATTAGTAAAG
Found at i:2556153 original size:73 final size:73
Alignment explanation
Indices: 2556034--2556410 Score: 606
Period size: 73 Copynumber: 5.2 Consensus size: 73
2556024 TAGAATTAGT
* * *
2556034 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
2556098 AAGTTTTGA
66 AA-TTTTGA
*
2556107 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
2556172 AATTTTGA
66 AATTTTGA
*
2556180 AAA-CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGCAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
2556243 GAATTTTGA
65 GAATTTTGA
*
2556252 GAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
2556317 AATTTTG-
66 AATTTTGA
*
2556324 AAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
2556388 -ATTTTGA
66 AATTTTGA
* *
2556395 AAAACAAAAATT-AAAA
1 AAAGCAGAAATTGAAAA
2556411 GGCTTAACTC
Statistics
Matches: 286, Mismatches: 12, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
70 6 0.02
71 68 0.24
72 75 0.26
73 133 0.47
74 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGA
Found at i:2556289 original size:145 final size:144
Alignment explanation
Indices: 2556038--2556410 Score: 619
Period size: 145 Copynumber: 2.6 Consensus size: 144
2556028 ATTAGTAAAG
* * * *
2556038 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
2556102 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
2556167 AGTTGAATTTTGAAAA
130 AGTTGAATTTTG-AAA
2556183 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
2556247 TTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
2556312 AGTTGAATTTTGAAA
130 AGTTGAATTTTGAAA
2556327 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
2556391 TTGAAAAACAAAAATT-AAAA
66 TTGAAAAGCAGAAATTGAAAA
2556411 GGCTTAACTC
Statistics
Matches: 216, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
142 4 0.02
143 16 0.07
144 63 0.29
145 131 0.61
146 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAA
Found at i:2556505 original size:122 final size:124
Alignment explanation
Indices: 2556286--2556528 Score: 348
Period size: 122 Copynumber: 2.0 Consensus size: 124
2556276 ACGTGTCTTG
** * * * * * *
2556286 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACAGAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATAAGAGTTCAATTTTAAAACAGAAACTAAAAATACCTCAACGT
2556351 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
2556410 AGGCTTAACTCACCTCTCGCAATAAGAG-TCAA-TTTAAAACATAAACTAAAAATACCTCAATGT
1 AGGCTCAACTCACCTCTCGCAATAAGAGTTCAATTTTAAAACAGAAACTAAAAATACCTCAACGT
*
2556473 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
2556529 GAAATTACCT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
122 73 0.69
123 9 0.08
124 24 0.23
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATAAGAGTTCAATTTTAAAACAGAAACTAAAAATACCTCAACGT
GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:2556549 original size:72 final size:72
Alignment explanation
Indices: 2556410--2557034 Score: 1044
Period size: 72 Copynumber: 8.7 Consensus size: 72
2556400 AAAAATTAAA
* ** * * * * * * *
2556410 AGGCTTAACTCACCTCTCGCAATAAGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2556472 TGTCTTG
66 TGTCTTG
2556479 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2556544 TGTCTTG
66 TGTCTTG
* *
2556551 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
2556616 GTGTCTTG
65 GTGTCTTG
2556624 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2556689 TGTCTTG
66 TGTCTTG
2556696 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2556761 TGTCTTG
66 TGTCTTG
2556768 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
2556832 GTGTCTTG
65 GTGTCTTG
* *
2556840 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
2556905 GTGTCTTG
65 GTGTCTTG
2556913 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2556978 TGTCTTG
66 TGTCTTG
*
2556985 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2557035 AAAAGGCTTA
Statistics
Matches: 529, Mismatches: 19, Indels: 13
0.94 0.03 0.02
Matches are distributed among these distances:
69 24 0.05
70 3 0.01
71 11 0.02
72 352 0.67
73 137 0.26
74 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:2556889 original size:217 final size:215
Alignment explanation
Indices: 2556410--2557031 Score: 1063
Period size: 217 Copynumber: 2.9 Consensus size: 215
2556400 AAAAATTAAA
* ** * * * * *
2556410 AGGCTTAACTCACCTCTCGCAATAAGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAATG
2556472 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
*
2556537 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATT
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACA-AAATT
2556602 GAAAATACCTCAACGTGTCTTG
194 GAAAATACCTCAACGTGTCTTG
* *
2556624 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAATG
2556689 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
2556754 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAGATTG
131 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAA-ATTG
*
2556819 AAATTACCTCAACGTGTCTTG
195 AAAATACCTCAACGTGTCTTG
2556840 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAT
2556905 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2556970 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAA
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAA
2557032 ATTAAAAGGC
Statistics
Matches: 388, Mismatches: 14, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
214 24 0.06
215 5 0.01
216 80 0.21
217 279 0.72
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (215 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAATG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGA
AAATACCTCAACGTGTCTTG
Found at i:2557133 original size:122 final size:125
Alignment explanation
Indices: 2556913--2557156 Score: 361
Period size: 122 Copynumber: 2.0 Consensus size: 125
2556903 ATGTGTCTTG
** * * * *
2556913 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
2556978 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
2557038 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
2557100 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
2557157 GAAATTACCT
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 71 0.66
123 9 0.08
124 3 0.03
125 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:2557180 original size:72 final size:72
Alignment explanation
Indices: 2557038--2557591 Score: 927
Period size: 72 Copynumber: 7.7 Consensus size: 72
2557028 AAAAATTAAA
* ** * * * * * *
2557038 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557100 TGTCTTG
66 TGTCTTG
2557107 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557172 TGTCTTG
66 TGTCTTG
* *
2557179 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
2557244 GTGTCTTG
65 GTGTCTTG
2557252 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557317 TGTCTTG
66 TGTCTTG
2557324 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557389 TGTCTTG
66 TGTCTTG
2557396 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
2557460 GTGTCTTG
65 GTGTCTTG
*
2557468 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
2557533 GTGTCTTG
65 GTGTCTTG
*
2557541 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2557592 AAAAGGCTTA
Statistics
Matches: 462, Mismatches: 15, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 5 0.01
72 282 0.61
73 141 0.31
74 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:2557234 original size:628 final size:629
Alignment explanation
Indices: 2556038--2558222 Score: 3558
Period size: 628 Copynumber: 3.5 Consensus size: 629
2556028 ATTAGTAAAG
* * * *
2556038 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
2556102 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
2556167 AGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
130 AGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
*
2556232 CAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
195 CAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
2556297 ATTTCTCGCAATATGAGTTGAATTTTG-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGC
260 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGC
2556361 TCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
325 TCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
*
2556426 TCGCAATAAGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCA
390 TCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCA
2556491 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
455 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
2556556 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTC
520 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTC
2556621 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
585 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
2556666 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
2556731 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
2556795 GTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 GTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
2556860 AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCA
196 AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
2556925 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
261 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
2556990 CAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCT
326 CAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCT
2557055 CGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCAT
391 CGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCAT
2557120 TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
456 TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
2557185 AACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCT
521 AACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCT
2557250 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
586 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
2557294 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
2557359 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
2557423 GTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 GTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
2557488 AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
196 AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
* * *
2557553 TTTCTCGCAATATGAGTTGAATTTTGAAAA-A-CAA---AAATTA----AAAG-G-CTT-A-ACT
261 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
** ** * *
2557605 C-AC-C---TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGA
326 CAACTCATTTCTCGCAATATGAGTTGATTT-TGA-A-AAAC-AAAAAT---TAAAAG-G-CTT-A
* * * * * * *
2557665 GGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGT
381 -ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATGT
* *
2557730 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAATTAC
437 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTAC
*
2557795 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATT
501 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATT
*
2557860 GAAAATACCTCAACTTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
566 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
2557924 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
2557989 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* *
2558054 GTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
131 GTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
* * * *
2558118 CAATATGAGTTGATTTTTTTAACAA-CAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAA
195 CAATATGAGTTGA-ATTTTGAA-AAGCAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAA
** * * *
2558181 CTCACCTCTAGCAATATGAATTG-ATTTTGAAAAACATAAATT
257 CTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2558223 AAAAGGCTTA
Statistics
Matches: 1480, Mismatches: 45, Indels: 56
0.94 0.03 0.04
Matches are distributed among these distances:
610 19 0.01
611 1 0.00
612 1 0.00
613 5 0.00
614 8 0.01
615 3 0.00
616 1 0.00
617 7 0.00
618 2 0.00
619 6 0.00
620 1 0.00
621 3 0.00
622 2 0.00
623 7 0.00
626 16 0.01
627 213 0.14
628 697 0.47
629 69 0.05
630 217 0.15
631 135 0.09
632 62 0.04
633 3 0.00
634 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (629 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
CAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCT
CGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
AACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCT
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
Found at i:2557297 original size:145 final size:144
Alignment explanation
Indices: 2557038--2557591 Score: 936
Period size: 145 Copynumber: 3.8 Consensus size: 144
2557028 AAAAATTAAA
* ** * * * * * *
2557038 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACCTCAACG
2557100 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
2557165 CTCAACGTGTCTTG
131 CTCAACGTGTCTTG
2557179 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAGCAGAAATTGAAAATACCTCAAC
2557244 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2557309 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
* *
2557324 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACCTCAACG
2557389 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTA
2557453 CCTCAACGTGTCTTG
130 CCTCAACGTGTCTTG
2557468 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAGCAGAAATTGAAAATACCTCAAC
*
2557533 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2557592 AAAAGGCTTA
Statistics
Matches: 392, Mismatches: 13, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
141 25 0.06
142 3 0.01
143 5 0.01
144 139 0.35
145 209 0.53
146 9 0.02
147 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (144 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAGCAGAAATTGAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTG
Found at i:2557691 original size:123 final size:126
Alignment explanation
Indices: 2557468--2557713 Score: 374
Period size: 123 Copynumber: 2.0 Consensus size: 126
2557458 ACGTGTCTTG
** * * *
2557468 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
2557533 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAA
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
2557595 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAA-CATAAACTAAAAATACCTCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
*
2557656 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
2557714 GAAATTACCT
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
122 11 0.10
123 64 0.58
124 4 0.04
125 3 0.03
126 3 0.03
127 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAAGCAGAAACTAAAAATACCTCAAC
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:2557737 original size:72 final size:72
Alignment explanation
Indices: 2557595--2558222 Score: 913
Period size: 72 Copynumber: 8.7 Consensus size: 72
2557585 AAAAATTAAA
* ** * * * * * *
2557595 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557657 TGTCTTG
66 TGTCTTG
2557664 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557729 TGTCTTG
66 TGTCTTG
* *
2557736 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAAC
2557801 GTGTCTTG
65 GTGTCTTG
*
2557809 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
*
2557874 TTGTCTTG
65 GTGTCTTG
2557882 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
2557947 TGTCTTG
66 TGTCTTG
* *
2557954 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
*
2558019 GTGTCCTG
65 GTGTCTTG
* *
2558027 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
2558092 TGTCCTG
66 TGTCTTG
* * * *
2558099 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATTACCTCAG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCAA
*
2558164 CGTGTCCTG
64 CGTGTCTTG
** * * *
2558173 AGGCTCAACTCACCTCTAGCAATATGAATTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
2558223 AAAAGGCTTA
Statistics
Matches: 517, Mismatches: 33, Indels: 15
0.92 0.06 0.03
Matches are distributed among these distances:
69 25 0.05
70 3 0.01
71 3 0.01
72 214 0.41
73 214 0.41
74 58 0.11
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:2557924 original size:145 final size:144
Alignment explanation
Indices: 2557595--2558226 Score: 923
Period size: 145 Copynumber: 4.4 Consensus size: 144
2557585 AAAAATTAAA
* ** * * * * *
2557595 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACG
*
2557657 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATAC
*
2557722 CTCAACGTGTCTTG
131 CTCAACGTGTCCTG
*
2557736 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTAAAATTACCTCAAC
2557801 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAAT
65 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAAT
* *
2557866 ACCTCAACTTGTCTTG
129 ACCTCAACGTGTCCTG
*
2557882 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACG
2557947 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATA
*
2558012 CCTCAGCGTGTCCTG
130 CCTCAACGTGTCCTG
* * *
2558027 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACG
* * *
2558092 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATT-AAAAT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAAA-
*
2558156 TACCTCAGCGTGTCCTG
128 TACCTCAACGTGTCCTG
** * * *
2558173 AGGCTCAACTCACCTCTAGCAATATGAATTG-ATTTTGAAAAACATAAATTAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTAAAA
2558227 GGCTTAACTC
Statistics
Matches: 455, Mismatches: 27, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
141 25 0.05
142 3 0.01
143 3 0.01
145 285 0.63
146 137 0.30
147 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (144 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTCCTG
Found at i:2558031 original size:218 final size:217
Alignment explanation
Indices: 2557595--2558226 Score: 943
Period size: 218 Copynumber: 2.9 Consensus size: 217
2557585 AAAAATTAAA
* ** * * * *
2557595 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAA-T
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACT
2557656 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
66 -TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
2557721 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAAT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAAT
*
2557786 TAAAATTACCTCAACGTGTCTTG
195 TAAAATTACCTCAACGTGTCCTG
2557809 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAAC
2557874 TTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
65 TTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
* *
2557939 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAAT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAAT
*
2558004 TGAAAA-TACCTCAGCGTGTCCTG
195 T-AAAATTACCTCAACGTGTCCTG
* * * *
2558027 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACT
* * * *
2558092 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTAAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAA-AACAGAAATTGAAATT
* * ** * * *
2558157 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATTTTGAAAAACATAAA
129 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAA
2558221 TTAAAA
194 TTAAAA
2558227 GGCTTAACTC
Statistics
Matches: 383, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
214 25 0.07
215 3 0.01
216 3 0.01
217 66 0.17
218 225 0.59
219 61 0.16
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (217 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACT
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATT
AAAATTACCTCAACGTGTCCTG
Found at i:2558916 original size:28 final size:28
Alignment explanation
Indices: 2558861--2558921 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
2558851 AACTGAAAAA
* *
2558861 AAAAAGAGAAGAAACAGAAAGATGAAAGG
1 AAAAAGAGAAGAAAAAGAAAAATGAAA-G
2558890 AAAAAGAG-AGAAAAAGATAAAAT-AAAG
1 AAAAAGAGAAGAAAAAGA-AAAATGAAAG
2558917 AAAAA
1 AAAAA
2558922 TAAAACCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 11 0.38
29 12 0.41
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (28 bp):
AAAAAGAGAAGAAAAAGAAAAATGAAAG
Found at i:2559663 original size:16 final size:16
Alignment explanation
Indices: 2559615--2559663 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
2559605 TTTCTTTCTA
*
2559615 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
2559631 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
2559648 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
2559664 GTATTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:2559710 original size:10 final size:9
Alignment explanation
Indices: 2559691--2559733 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
2559681 CTTGTGTTTC
2559691 AAAAAAA-A
1 AAAAAAATA
*
2559699 ATAAAAATA
1 AAAAAAATA
2559708 AATAAAAAT-
1 AA-AAAAATA
2559717 AAAAAAATA
1 AAAAAAATA
2559726 AAAAAAAT
1 AAAAAAAT
2559734 TCTCGTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 12 0.40
9 12 0.40
10 6 0.20
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAAATA
Found at i:2559818 original size:18 final size:18
Alignment explanation
Indices: 2559797--2560099 Score: 202
Period size: 18 Copynumber: 17.0 Consensus size: 18
2559787 AAATTTTGTG
2559797 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
2559815 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
2559833 TCTTT-GTGTTTTCAGAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
2559851 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
2559868 TTTTCGTGTTTAAAAAAAAA
1 TTTTCGTGTTT--TCAAAAA
*
2559888 TTTTACGTGTTTTCACAAA
1 TTTT-CGTGTTTTCAAAAA
*
2559907 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
2559924 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
2559942 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
2559958 TTTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
2559975 TTCCCGTG-TTTCAAAAAAAA
1 TTTTCGTGTTTTC---AAAAA
* *
2559995 ATGTCGTGTTTT-AAGGAAA
1 TTTTCGTGTTTTCAA--AAA
*
2560014 -TTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
2560032 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
2560049 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
2560065 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
2560083 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
2560100 AAACTTTCGT
Statistics
Matches: 228, Mismatches: 34, Indels: 47
0.74 0.11 0.15
Matches are distributed among these distances:
16 18 0.08
17 76 0.33
18 83 0.36
19 20 0.09
20 21 0.09
21 10 0.04
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:2559878 original size:17 final size:17
Alignment explanation
Indices: 2559797--2560099 Score: 175
Period size: 17 Copynumber: 17.0 Consensus size: 17
2559787 AAATTTTGTG
2559797 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
2559815 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
*
2559833 TCTTT-GTGTTTTCAGAAA
1 T-TTTCGTG-TTTCAAAAA
* * *
2559851 TTCTGGCGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
*
2559868 TTTTCGTGTTTAAAAAAAAA
1 TTTTCGTGTTT---CAAAAA
*
2559888 TTTTACGTGTTTTCACAAA
1 TTTT-CGTG-TTTCAAAAA
*
2559907 TTTTCGTGTTTCACAAA
1 TTTTCGTGTTTCAAAAA
*
2559924 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
2559942 -CTCCAGTGTTTC-AAAG
1 TTTTC-GTGTTTCAAAAA
* * *
2559958 TTTCCCTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
**
2559975 TTCCCGTGTTTCAAAAAAAA
1 TTTTCGTGTTTC---AAAAA
* * *
2559995 ATGTCGTGTTTTAAGGAAA
1 TTTTCGTGTTTCAA--AAA
*
2560014 -TTTCGTTTTTTCTAAAAA
1 TTTTCG-TGTTTC-AAAAA
*
2560032 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
*
2560049 TTTTCGTGTTT-ACAAA
1 TTTTCGTGTTTCAAAAA
*
2560065 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* *
2560083 TTCTCGTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
2560100 AAACTTTCGT
Statistics
Matches: 227, Mismatches: 37, Indels: 43
0.74 0.12 0.14
Matches are distributed among these distances:
16 18 0.08
17 82 0.36
18 73 0.32
19 23 0.10
20 24 0.11
21 4 0.02
22 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (17 bp):
TTTTCGTGTTTCAAAAA
Found at i:2559951 original size:74 final size:73
Alignment explanation
Indices: 2559810--2559952 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 73
2559800 TCGTGTTTTC
* * * *
2559810 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAGAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCACAAATTCTCGCGTTTCAAAAATCTCCGT
2559875 GTTTAAAA
66 GTTTAAAA
* *
2559883 AAAAATTTTACGTGTTTTCACAAAT-TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTC
1 AAAAATTTT-CGTGTTTTCAAAAATCTTT-GTGTTTTCACAAATTCTCGCG-TTTCAAAAATCTC
2559945 CAGTGTTT
63 C-GTGTTT
2559953 CAAAGTTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
73 28 0.47
74 32 0.53
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (73 bp):
AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCACAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAAA
Found at i:2560824 original size:16 final size:15
Alignment explanation
Indices: 2560797--2560849 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
2560787 TCCATTTTTG
*
2560797 TAAATTAGATTAATA
1 TAAATTAAATTAATA
2560812 TACAATTAAATTAAATA
1 TA-AATTAAATT-AATA
*
2560829 TAAATTAGAGTTAATA
1 TAAATTA-AATTAATA
2560845 TAAAT
1 TAAAT
2560850 GTTATTGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 22 0.67
17 9 0.27
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAATTAAATTAATA
Found at i:2564229 original size:16 final size:15
Alignment explanation
Indices: 2564177--2564231 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
2564167 CATCCATTTT
2564177 TATAAATTAGATTAA
1 TATAAATTAGATTAA
*
2564192 TATATAATTAAATTAAA
1 TATA-AATTAGATT-AA
2564209 TATAAATTAGAGTTAA
1 TATAAATTAGA-TTAA
2564225 TATAAAT
1 TATAAAT
2564232 GTTATTGTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 4 0.11
16 23 0.66
17 8 0.23
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (15 bp):
TATAAATTAGATTAA
Found at i:2566544 original size:19 final size:19
Alignment explanation
Indices: 2566517--2566559 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2566507 GCCCATTTCT
*
2566517 ACATGTATGCACAATGCCA
1 ACATTTATGCACAATGCCA
*
2566536 ACATTTATGCACAATTCCA
1 ACATTTATGCACAATGCCA
2566555 ACATT
1 ACATT
2566560 ATGAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (19 bp):
ACATTTATGCACAATGCCA
Found at i:2568620 original size:26 final size:25
Alignment explanation
Indices: 2568580--2568675 Score: 140
Period size: 26 Copynumber: 3.8 Consensus size: 25
2568570 ATGCCCATCT
* *
2568580 AACA-TTACTTAACCATTATCATGA
1 AACATTTACCTAACCATTATCATGG
2568604 AACATTTCACCTAACCATTATCATGG
1 AACATTT-ACCTAACCATTATCATGG
*
2568630 AATATTTACCTAATCCATTATCATGG
1 AACATTTACCTAA-CCATTATCATGG
2568656 AACATTTACCTAACCATTAT
1 AACATTTACCTAACCATTAT
2568676 AATTTATACC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
24 4 0.06
25 15 0.23
26 46 0.71
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (25 bp):
AACATTTACCTAACCATTATCATGG
Found at i:2573226 original size:18 final size:19
Alignment explanation
Indices: 2573195--2573231 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
2573185 AACACTCGTC
2573195 AAAATTTTCAAAAACACGA
1 AAAATTTTCAAAAACACGA
*
2573214 AAAATTTT-TAAAACACGA
1 AAAATTTTCAAAAACACGA
2573232 CATTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAATTTTCAAAAACACGA
Found at i:2573275 original size:17 final size:17
Alignment explanation
Indices: 2573255--2573298 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2573245 ACACATAGAA
2573255 TTTTTAAAAAACAACAT
1 TTTTTAAAAAACAACAT
* **
2573272 TTTTTACAAAAACGATTT
1 TTTTTA-AAAAACAACAT
2573290 TTTTTAAAA
1 TTTTTAAAA
2573299 TCACTTGGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTTTAAAAAACAACAT
Found at i:2574251 original size:12 final size:11
Alignment explanation
Indices: 2574236--2574278 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
2574226 TTAATTACTT
2574236 TTTTTCCTTTTC
1 TTTTT-CTTTTC
2574248 TTTTTCTTTCTC
1 TTTTTCTTT-TC
2574260 TTTTT-TTCTTC
1 TTTTTCTT-TTC
2574271 TTTTTCTT
1 TTTTTCTT
2574279 CTTTCTTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:2574262 original size:26 final size:29
Alignment explanation
Indices: 2574233--2574288 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 29
2574223 TTTTTAATTA
2574233 CTTTTTTTC-C-TTTTCTT-TTTCTTTCT
1 CTTTTTTTCTCTTTTTCTTCTTTCTTTCT
2574259 CTTTTTTTCTTCTTTTTCTTCTTTCTTTCT
1 CTTTTTTTC-TCTTTTTCTTCTTTCTTTCT
2574289 TCTCTGTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 9 0.35
28 1 0.04
29 7 0.27
30 9 0.35
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (29 bp):
CTTTTTTTCTCTTTTTCTTCTTTCTTTCT
Found at i:2574266 original size:20 final size:20
Alignment explanation
Indices: 2574243--2574291 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2574233 CTTTTTTTCC
*
2574243 TTTTCTTTTTCTTTC-TCTTT
1 TTTTCTTCTT-TTTCTTCTTT
2574263 TTTTCTTCTTTTTCTTCTTT
1 TTTTCTTCTTTTTCTTCTTT
*
2574283 CTTTCTTCT
1 TTTTCTTCT
2574292 CTGTCTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTCTTTTTCTTCTTT
Found at i:2574289 original size:17 final size:16
Alignment explanation
Indices: 2574234--2574289 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 16
2574224 TTTTAATTAC
*
2574234 TTTT-TTTCCTTTTCT
1 TTTTCTTTCTTTTTCT
*
2574249 TTTTCTTTC-TCTT-T
1 TTTTCTTTCTTTTTCT
2574263 TTTTC-TTCTTTTTCT
1 TTTTCTTTCTTTTTCT
2574278 TCTTTCTTTCTT
1 T-TTTCTTTCTT
2574290 CTCTGTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 9 0.26
16 8 0.24
17 5 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTTTCTTTTTCT
Found at i:2574984 original size:31 final size:30
Alignment explanation
Indices: 2574902--2575005 Score: 120
Period size: 31 Copynumber: 3.4 Consensus size: 30
2574892 ATTTAGGATT
*
2574902 AAATGAAAATTTAATG-AAAGTTTAAGGGTCT
1 AAATG-AAATTTAA-GAAAAGTTTAAGGGTCA
* *
2574933 AAGTGAAATTTAAGAGAAGTTTAAGGGTCA
1 AAATGAAATTTAAGAAAAGTTTAAGGGTCA
* *
2574963 AAATGACAATTTAGGAAAAGTTTAGGGGTCA
1 AAATGA-AATTTAAGAAAAGTTTAAGGGTCA
2574994 AAATGCAAATTT
1 AAATG-AAATTT
2575006 TAGTGTTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
29 1 0.02
30 26 0.41
31 35 0.56
32 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
AAATGAAATTTAAGAAAAGTTTAAGGGTCA
Found at i:2576232 original size:72 final size:70
Alignment explanation
Indices: 2576096--2576386 Score: 353
Period size: 72 Copynumber: 4.0 Consensus size: 70
2576086 AGCATTAAAC
*
2576096 ATTGAAAATTACCTCAATGTGTCTTGAGGCTCAACTGCAATTTCTCGCAATATGAGTTGAATTTT
1 ATTG-AAATTACCTCAACGTGTCTTGAGGCTCAACT-C-ATTTCTCGCAATATGAGTTGAA-TTT
2576161 TGAAAACAA
62 TGAAAACAA
2576170 ATTGAAATTACCTCAACGTGTCTTGA-GCTCAACTCATTTCTCGCAATAGTGAGTTTGAATTTTG
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA-TGAG-TTGAATTTT-
2576234 AGAAGCAGACAA
63 -GAA--A-ACAA
* *
2576246 GTTGAAAATA-CTC-ACGTGTCTTGAGGCTCAACTCATTTCTCGGCAATAATGAGTTGAATTTTG
1 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC-GCAAT-ATGAGTTGAATTTTG
2576309 -AAACAGA
64 AAAACA-A
2576316 ATTG-AATTACCTCAACGTGTCCTTGAGGCTCAACTCATTTCTCGCAAATATGAGTTTG-A-TTT
1 ATTGAAATTACCTCAACGTGT-CTTGAGGCTCAACTCATTTCTCGC-AATATGAG-TTGAATTTT
2576378 GAAAACAA
63 GAAAACAA
2576386 A
1 A
2576387 AATTAAAAGC
Statistics
Matches: 195, Mismatches: 5, Indels: 38
0.82 0.02 0.16
Matches are distributed among these distances:
69 7 0.04
70 27 0.14
71 28 0.14
72 42 0.22
73 25 0.13
74 15 0.08
75 29 0.15
76 21 0.11
77 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (70 bp):
ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
AACAA
Found at i:2576576 original size:72 final size:71
Alignment explanation
Indices: 2576446--2576986 Score: 712
Period size: 72 Copynumber: 7.7 Consensus size: 71
2576436 AAATACCTAT
*
2576446 GTGTCTTGAGGCTCAACTCATTTTCCCGCAATATGAAGTTGAAATTTTG-AAACAGAAATTGAAA
1 GTGTCTTGAGGCTCAACTCA-TTTCTCGCAATATG-AGTTG-AA-TTTGAAAACAGAAATTGAAA
2576510 TTACCTCAAC
62 TTACCTCAAC
* *
2576520 GTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAAT
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGA-AAACAGAAATTGAAATT
2576584 ACCTCAAC
64 ACCTCAAC
2576592 GTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAA-TGAAATTAC
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAATTGAAATTAC
2576655 CTCAAC
66 CTCAAC
2576661 GTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTG-ATTTGAAAACAG-AATTG-AATTA
1 GTGTCTTGAGGCTCAACTCATTTCT-CGCAATATGAGTTGAATTTGAAAACAGAAATTGAAATTA
2576723 -CTCAA-
65 CCTCAAC
2576728 GATG-C-TGAGGCTCAACTCA--TCTCGGCAATATGAAGTTGAATTTGAAAACTA-AAGA-TGAA
1 G-TGTCTTGAGGCTCAACTCATTTCTC-GCAATATG-AGTTGAATTTGAAAAC-AGAA-ATTGAA
2576787 ATTACCTCAAC
61 ATTACCTCAAC
2576798 GTGTCTTGAGGCCTCAACTCATTTCTCGC-ATATGAGTTGAATTTGAAAAGCAG-AATTGAAAAT
1 GTGTCTTGAGG-CTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAA-CAGAAATTG-AAAT
* *
2576861 AACCTCAAT
63 TACCTCAAC
*
2576870 GTGTCTTGAGGCTCAACTCA-TTCTCGCAA-ATTGAGTTGAATTTTAAAAACAGAAATTGAAATT
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATA-TGAGTTGAA-TTTGAAAACAGAAATTGAAATT
*
2576933 AACTCAAC
64 ACCTCAAC
2576941 GTGTC-TGAGGCTCAACTCATTTCTCGC-ATATGAGTTG-ATTTGAAAA
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAA
2576987 ACAAAAAAAT
Statistics
Matches: 424, Mismatches: 12, Indels: 68
0.84 0.02 0.13
Matches are distributed among these distances:
63 1 0.00
64 11 0.03
65 5 0.01
66 24 0.06
67 6 0.01
68 20 0.05
69 34 0.08
70 81 0.19
71 107 0.25
72 109 0.26
73 2 0.00
74 24 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (71 bp):
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAATTGAAATTAC
CTCAAC
Found at i:2576841 original size:71 final size:70
Alignment explanation
Indices: 2576446--2576986 Score: 695
Period size: 71 Copynumber: 7.7 Consensus size: 70
2576436 AAATACCTAT
*
2576446 GTGTCTTGAGGCTCAACTCATTTTCCCGCAATATGAAGTTGAAATTTTG-AAACAGAAATTGAAA
1 GTGTCTTGAGGCTCAACTCA-TTTCTCGCAATATG-AGTTG-AA-TTTGAAAACAGAAA-TGAAA
2576510 TTACCTCAAC
61 TTACCTCAAC
* *
2576520 GTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAAT
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGA-AAACAGAAA-TGAAATT
2576584 ACCTCAAC
63 ACCTCAAC
2576592 GTGTC-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAATGAAATTACC
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAATGAAATTACC
2576656 TCAAC
66 TCAAC
*
2576661 GTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTG-ATTTGAAAACAGAATTG-AATTA-
1 GTGTCTTGAGGCTCAACTCATTTCT-CGCAATATGAGTTGAATTTGAAAACAGAAATGAAATTAC
2576723 CTCAA-
65 CTCAAC
2576728 GATG-C-TGAGGCTCAACTCA--TCTCGGCAATATGAAGTTGAATTTGAAAACTA-AAGATGAAA
1 G-TGTCTTGAGGCTCAACTCATTTCTC-GCAATATG-AGTTGAATTTGAAAAC-AGAA-ATGAAA
2576788 TTACCTCAAC
61 TTACCTCAAC
* *
2576798 GTGTCTTGAGGCCTCAACTCATTTCTCGC-ATATGAGTTGAATTTGAAAAGCAGAATTGAAAATA
1 GTGTCTTGAGG-CTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAA-CAGAAATG-AAATT
*
2576862 ACCTCAAT
63 ACCTCAAC
*
2576870 GTGTCTTGAGGCTCAACTCA-TTCTCGCAA-ATTGAGTTGAATTTTAAAAACAGAAATTGAAATT
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATA-TGAGTTGAA-TTTGAAAACAGAAA-TGAAATT
*
2576933 AACTCAAC
63 ACCTCAAC
2576941 GTGTC-TGAGGCTCAACTCATTTCTCGC-ATATGAGTTG-ATTTGAAAA
1 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAA
2576987 ACAAAAAAAT
Statistics
Matches: 423, Mismatches: 16, Indels: 62
0.84 0.03 0.12
Matches are distributed among these distances:
63 1 0.00
64 11 0.03
65 5 0.01
66 26 0.06
67 5 0.01
68 19 0.04
69 32 0.08
70 82 0.19
71 108 0.26
72 108 0.26
73 2 0.00
74 24 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (70 bp):
GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAGAAATGAAATTACC
TCAAC
Found at i:2577148 original size:74 final size:73
Alignment explanation
Indices: 2577038--2577560 Score: 675
Period size: 75 Copynumber: 7.2 Consensus size: 73
2577028 GTCATATTTA
* * * * * *
2577038 AAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGGAATATGAG-T
1 AAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
2577102 GTAATTTTG
66 G-AATTTTG
*
2577111 AAAAACAGAAATTGAAATTACCTCAACGGTGTCTTGAGGCTCAAATCATTTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAATTACCTCAAC-GTGTCTTGAGGCTCAACTCA-TTTCTCGCAATATGAG
2577176 TTGAATTTTG
64 TTGAATTTTG
* * *
2577186 AGAAGCAGAAATTGAAAATACCT-AACGT-TCTTGAGGCT--ACTCATTTCTTCGCAATATGAGT
1 AAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC-TCGCAATATGAGT
2577247 TGAATTTTG
65 TGAATTTTG
2577256 --AAACAGAAA-TGAAATTACCTCAACGTGTCTTGA-GCTCAAC-CA-TTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
2577315 G-ATTTTG
66 GAATTTTG
2577322 -AAAACAGAAATTGAAAATTACCTCAACGTGTTCTTGAGGCTC-ACTCATTTCTCCGCAATATGA
1 AAAAACAGAAATTG-AAATTACCTCAACGTG-TCTTGAGGCTCAACTCATTTCT-CGCAATATGA
2577385 GTTGAATTTTG
63 GTTGAATTTTG
2577396 -AAAACA-AAGATTGAAAATTACCTCATCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 AAAAACAGAA-ATTG-AAATTA-C-C-TCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
2577459 GAGTTGAATTTTTG
61 GAGTTGAA-TTTTG
*
2577473 AAAAAGCAGAAAATT-AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGA
1 AAAAA-CAG-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT-CGCAATATGA
2577537 GTTGAATTTTG
63 GTTGAATTTTG
*
2577548 AAAAACAAAAATT
1 AAAAACAGAAATT
2577561 AAAAGGCTTA
Statistics
Matches: 407, Mismatches: 15, Indels: 56
0.85 0.03 0.12
Matches are distributed among these distances:
66 6 0.01
67 34 0.08
68 21 0.05
69 28 0.07
70 36 0.09
71 6 0.01
72 14 0.03
73 45 0.11
74 47 0.12
75 83 0.20
76 47 0.12
77 24 0.06
78 9 0.02
79 2 0.00
80 3 0.01
81 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (73 bp):
AAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GAATTTTG
Found at i:2577682 original size:122 final size:131
Alignment explanation
Indices: 2577434--2577687 Score: 366
Period size: 121 Copynumber: 2.0 Consensus size: 131
2577424 ACGTGTCTTG
** *
2577434 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAAATTAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAAACTAAAATACCTCA
*
2577499 ACGTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAAACAAAAATT-AA
66 ACGTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAAAAAAAAATTGAA
2577563 A
131 A
* *
2577564 AGGCTTAACTCACCTCTCGCAATATGAG-T-AA-TTTTG-AAAA-CA-TAAACT-AAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAAACTAAAATACCTCA
*
2577622 A-GTGTCTTGAGGCTCAACTCA-TTCTCGGCAATATGAGTTGAATTTTGAAAAAAAAGAAATTGA
66 ACGTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAAAAAA-AAATTGA
2577685 AA
130 AA
2577687 A
1 A
2577688 TTACCTCAAC
Statistics
Matches: 115, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
121 32 0.28
122 25 0.22
123 15 0.13
124 4 0.03
125 2 0.02
126 4 0.03
127 5 0.04
128 2 0.02
129 1 0.01
130 25 0.22
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (131 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAAACTAAAATACCTCA
ACGTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAAAAAAAAATTGAA
A
Found at i:2577815 original size:72 final size:73
Alignment explanation
Indices: 2577564--2578191 Score: 868
Period size: 72 Copynumber: 8.7 Consensus size: 73
2577554 AAAAATTAAA
* ** * *
2577564 AGGCTTAACTCACCTCTCGCAATATGAG-T-AATTTTG-AAAACATAAACT-AAA-TACCTCAA-
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAAC
*
2577623 GTGTCTTG
66 GTGTCCTG
*
2577631 AGGCTCAACTCA-TTCTCGGCAATATGAGTTGAATTTTGAAAAAAAAGAAATTGAAAATTACCTC
1 AGGCTCAACTCATTTCTC-GCAATATGAGTTGAATTTTG-AAAAACAGAAATTG-AAATTACCTC
2577695 AACGTGTCCTG
63 AACGTGTCCTG
2577706 AGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAAAAACAGAAAATT-AAATTACCTCAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAG-AAATTGAAATTACCTCAA
*
2577769 CGTGTCTTG
65 CGTGTCCTG
* *
2577778 AGGCTCAA-TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAAC
* *
2577842 TTGTCTTG
66 GTGTCCTG
2577850 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAAC
*
2577914 GTGTCTTG
66 GTGTCCTG
* * *
2577922 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAAC
2577987 GTGTCCTG
66 GTGTCCTG
* *
2577995 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAAC
2578059 GTGTCCTG
66 GTGTCCTG
* * * *
2578067 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTAAAATTACCTCA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAAACAGAAATTGAAATTACCTCA
*
2578132 GCGTGTCCTG
64 ACGTGTCCTG
** * *
2578142 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATT
2578192 AAAAGGCTTA
Statistics
Matches: 510, Mismatches: 33, Indels: 31
0.89 0.06 0.05
Matches are distributed among these distances:
66 4 0.01
67 21 0.04
68 1 0.00
69 7 0.01
71 38 0.07
72 213 0.42
73 106 0.21
74 21 0.04
75 94 0.18
76 5 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAGAAATTGAAATTACCTCAAC
GTGTCCTG
Found at i:2577895 original size:633 final size:625
Alignment explanation
Indices: 2576062--2578318 Score: 2447
Period size: 633 Copynumber: 3.6 Consensus size: 625
2576052 GCTATACTCA
* * *
2576062 TCTCGCAATA-GAG-TCATTTTGAAAAGCATTAAACATTGAAAATTACCTCAATGTGTCTTGAGG
1 TCTCGCAATATGAGTTGATTTTGAAAA-CA--GAA-ATTGAAAATTACCTCAACGTGTC-TGAGG
2576125 CTCAACTGCAATTTCT-CGCAATATGAGTTGAATTTTTGAAAAC-AA-ATTGAAATTACCTCAAC
61 CTCAACT-C-ATTTCTCCGCAATATGAGTTGAA-TTTTGAAAACAAAGATTGAAATTACCTCAAC
*
2576187 GTGTCTTGA-GCTCAACTCATTTCTCGCAATAGTGAGTTTGAA-TTTTG-AGAAGCAGACAAGTT
123 GTGTCTTGAGGCTCAACTCATTTCTCGCAATA-TGAG-TTGAATTTTTGAAAAAGCAGA-AA-TT
2576249 GAAAATA-CTC-ACGTGTCTTGAGGCTCAACTCATTTCTCGGCAATAATGAGTTGAATTTTGAAA
184 -AAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTC-GCAAT-ATGAGTTGAATTTTGAAA
* * * * * *
2576312 CAGAATTGAATTACCTCAACGTGTCCTTGAGGCTCAACTCATTTCTCGCAAATATGAGTTTGATT
245 AACAA--AAATTA----AAAG-G--CTT-A-ACTC-AC-C---TCTCGC-AATATGAG--TAATT
* * * *
2576377 TGAAAAC---AA--AAAT---TAAA-AGCTTA-ACTC-AC-C--TCTCGC-ATAAGAG-TCAA--
291 TGAAAACATAAACTAAATACCTAAAGTGCTTAGGCTCAACTCATTCTCGCAATATGAGTTGAATT
* * *
2576424 TT-----AACATAAA--AAAAATACCT--ATGTGTCTTGAGGCTCAACTCATTTTCCCGCAATAT
356 TTGAAAAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTTCTCGCAATAT
2576480 GAAGTTGAAATTTTG--AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TT
420 G-AGTTGAAATTTTGAAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA-TCATTT
2576542 CTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTC-TGAGGCTCA
483 CTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCA
2576606 ACTCATTTCTCGCAATATGAGTTGAA-TTTGAAAACAGAAATGAAATTACCTCAACGTGTCTTGA
548 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATGAAATTACCTCAACGTGTCTTGA
2576670 GGCTCAACTCATT
613 GGCTCAACTCATT
2576683 TCTCCGCAATATGAGTTGA-TTTGAAAACAG-AATTG--AATTA-CTCAA-GATG-CTGAGGCTC
1 TCT-CGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATTACCTCAACG-TGTCTGAGGCTC
*
2576741 AACTCA--TCTCGGCAATATGAAGTTGAA-TTTGAAAACTAAAGA-TGAAATTACCTCAACGTGT
64 AACTCATTTCTCCGCAATATG-AGTTGAATTTTGAAAAC-AAAGATTGAAATTACCTCAACGTGT
2576802 CTTGAGGCCTCAACTCATTTCTCGC-ATATGAGTTGAA--TTTG-AAAAGCAG-AATTGAAAATA
127 CTTGAGG-CTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAATT-AAAAT-
*
2576862 ACCTCAATGTGTCTTGAGGCTCAACTCATTCTCGCAA-ATTGAGTTGAATTTT-AAAAACAGAAA
189 ACCTCAACGTGTCTTGAGGCTCAACTCATTCTCGCAATA-TGAGTTGAATTTTGAAAAAC---AA
** *
2576925 TTGAAATTAACTCAACGTGTCTGAGGCTCAACTCATTTCTCGC-ATATGAGTTGATTTGAAAAAC
250 ---AAATTAA---AA-G-G-CT-----T-AACTCACCTCTCGCAATATGAG-TAATTTG-AAAAC
* * *
2576989 A-AAA--AAAT--TTAAAAG-GCTTA-ACTC-AC-C--TCTCGC-ATATGAG-T-CATATTT-AA
298 ATAAACTAAATACCT-AAAGTGCTTAGGCTCAACTCATTCTCGCAATATGAGTTGAAT-TTTGAA
* * * *
2577039 AAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGGAATATGAG-TG
361 AAAACAGAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
2577103 TAATTTTGAAAAACAGAAATTGAAATTACCTCAACGGTGTCTTGAGGCTCAAATCATTTTCTCGC
426 AAATTTTGAAAAACAGAAATTGAAATTACCTCAAC-GTGTCTTGAGGCTC-AATCA-TTTCTCGC
2577168 AATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCT-AACGT-TCTTGAGGCT--ACTCA
488 AATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
2577229 TTTCTTCGCAATATGAGTTGAATTTTG-AAACAGAAATGAAATTACCTCAACGTGTCTTGA-GCT
553 TTTC-TCGCAATATGAGTTGAATTTTGAAAACAGAAATGAAATTACCTCAACGTGTCTTGAGGCT
2577292 CAAC-CA-T
617 CAACTCATT
2577299 TCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATTACCTCAACGTGTTCTTGAGGCTC
1 TCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATTACCTCAACGTG-TC-TGAGGCTC
2577364 -ACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAAATTACCTCATCAACGT
64 AACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAACAAAGATTG-AAATTA-C-C-TCAACGT
2577428 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAAATTAAAAT
125 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAG-AAATTAAAAT
2577493 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAAACAAAA
189 ACCTCAACGTGTCTTGAGGCTCAACTCA-TTCT-CGCAATATGAGTTGAATTTTGAAAAACAAAA
*
2577558 ATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTAATTTTGAAAACATAAACTAAATACCTCAA
252 ATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTAA-TTTGAAAACATAAACTAAATACCTAAA
*
2577623 GTGTCTTGAGGCTCAACTCATTCTCGGCAATATGAGTTGAATTTTGAAAAAAAAGAAATTGAAAA
316 GTG-CTT-AGGCTCAACTCATTCTC-GCAATATGAGTTGAATTTTGAAAAAACAGAAATT-AAAA
* *
2577688 TTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-AA-TTTGAAAAACAG
377 ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAAACAG
2577751 AAAATT-AAATTACCTCAACGTGTCTTGAGGCTCAATCATTTCTCGCAATATGAGTTGAATTTTG
442 -AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAATCATTTCTCGCAATATGAGTTGAATTTTG
* *
2577815 AAAAGCAGAAATTGAAAATACCTCAACTTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
506 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
2577880 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
571 GAATTTTGAAAACAGAAA-TGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
*
2577936 TCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCT
1 TCTCGCAATATGAGTTG-ATTTTGAAAA-CAGAAATTGAAAATTACCTCAACGTGT-CTGAGGCT
* *
2578000 CAACTCATTTCT-CGCAATATAAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAGCGTGT
63 CAACTCATTTCTCCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGT
* * * *
2578063 CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAA-CAGAAATTAAAATTA
127 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTTGAAAAAGCAGAAATTAAAA-TA
* * * * *
2578127 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAAT
190 CCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAAT
**
2578191 TAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT-AAAACATAAACTAAAAATACCTTGG
254 TAAAAGGCTTAACTCACCTCTCGCAATATGAGT-AATTTGAAAACATAAACT--AAATACC-TAA
* * *
2578255 CGTGCCCCTAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTAAAA
315 AGTG--CTTAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATTAAAA
2578319 GGCTCAACTC
Statistics
Matches: 1452, Mismatches: 58, Indels: 242
0.83 0.03 0.14
Matches are distributed among these distances:
604 8 0.01
605 18 0.01
606 21 0.01
607 19 0.01
608 15 0.01
609 81 0.06
610 13 0.01
611 41 0.03
612 9 0.01
613 31 0.02
614 2 0.00
615 30 0.02
616 49 0.03
617 34 0.02
618 57 0.04
619 101 0.07
620 28 0.02
621 54 0.04
622 20 0.01
623 33 0.02
624 29 0.02
625 10 0.01
626 2 0.00
627 18 0.01
628 39 0.03
629 50 0.03
630 32 0.02
631 122 0.08
632 112 0.08
633 204 0.14
634 50 0.03
635 8 0.01
636 8 0.01
637 57 0.04
638 34 0.02
639 13 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (625 bp):
TCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATTACCTCAACGTGTCTGAGGCTCAA
CTCATTTCTCCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACGTGTCTTG
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAAAGCAGAAATTAAAATACCTCAA
CGTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTAAAAGG
CTTAACTCACCTCTCGCAATATGAGTAATTTGAAAACATAAACTAAATACCTAAAGTGCTTAGGC
TCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAAAACAGAAATTAAAAATACCTCAACGTGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAATTTTGAAAAACAGAAATTGAAATTACC
TCAACGTGTCTTGAGGCTCAATCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGA
AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
AAATGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
Found at i:2577970 original size:145 final size:145
Alignment explanation
Indices: 2577564--2578194 Score: 908
Period size: 145 Copynumber: 4.4 Consensus size: 145
2577554 AAAAATTAAA
* ** * *
2577564 AGGCTTAACTCACCTCTCGCAATATGAG-T-AATTTTGAAAACATAAACTAAA-TACCTCAA-GT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAATTACCTCAACGT
**
2577625 GTCTTGAGGCTCAACTCA-TTCTCGGCAATATGAGTTGAATTTTGAAAAAAAAGAAATTGAAAAT
66 GTCTTGAGGCTCAACTCATTTCTC-GCAATATGAGTTGAATTTTG-AAAAGCAGAAATTGAAAAT
2577689 TACCTCAACGTGTCCTG
129 TACCTCAACGTGTCCTG
2577706 AGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTGAAAAACAGAAAATTAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAG-AAATTAAATTACCTCAAC
2577770 GTGTCTTGAGGCTCAA-TCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA-
64 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAAT
* *
2577833 TACCTCAACTTGTCTTG
129 TACCTCAACGTGTCCTG
2577850 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT-AAATTACCTCAACG
2577915 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA-T
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATT
*
2577979 ACCTCAGCGTGTCCTG
130 ACCTCAACGTGTCCTG
* *
2577995 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT-AAATTACCTCAACG
* * *
2578060 TGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAA-CAGAAATT-AAA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AAGCAGAAATTGAAA
*
2578123 ATTACCTCAGCGTGTCCTG
127 ATTACCTCAACGTGTCCTG
** * *
2578142 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATTAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTAAA
2578195 AGGCTTAACT
Statistics
Matches: 452, Mismatches: 22, Indels: 26
0.90 0.04 0.05
Matches are distributed among these distances:
142 25 0.06
143 10 0.02
144 92 0.20
145 189 0.42
146 44 0.10
147 90 0.20
148 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (145 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAATTACCTCAACGT
GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATTA
CCTCAACGTGTCCTG
Found at i:2578886 original size:28 final size:29
Alignment explanation
Indices: 2578830--2578892 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
2578820 ACTGAAAAAA
* *
2578830 AAAAAAGAGAAGAAACAGAAAGATGAAAG
1 AAAAAAGAGAAGAAAAAGAAAAATGAAAG
*
2578859 GAAAAAGAG-AGAAAAAGATAAAAT-AAAG
1 AAAAAAGAGAAGAAAAAGA-AAAATGAAAG
2578887 AAAAAA
1 AAAAAA
2578893 TAAAACCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.05
Consensus pattern (29 bp):
AAAAAAGAGAAGAAAAAGAAAAATGAAAG
Found at i:2578892 original size:29 final size:30
Alignment explanation
Indices: 2578829--2578892 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
2578819 AACTGAAAAA
* *
2578829 AAAAAAAGAGAAGAAACAGAAAGATGAAAG
1 AAAAAAAGAGAAGAAAAAGAAAAATGAAAG
*
2578859 -GAAAAAGAG-AGAAAAAGATAAAAT-AAAG
1 AAAAAAAGAGAAGAAAAAGA-AAAATGAAAG
2578887 AAAAAA
1 AAAAAA
2578893 TAAAACCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (30 bp):
AAAAAAAGAGAAGAAAAAGAAAAATGAAAG
Found at i:2579634 original size:16 final size:16
Alignment explanation
Indices: 2579586--2579634 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
2579576 TTTCTTTCTA
*
2579586 AAAAAATCGTGTTTTC
1 AAAAATTCGTGTTTTC
2579602 AAAAATTTCCGTG-TTTC
1 AAAAA-TT-CGTGTTTTC
2579619 AAAAATTCGTGTTTTC
1 AAAAATTCGTGTTTTC
2579635 GTATTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 10 0.34
18 4 0.14
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (16 bp):
AAAAATTCGTGTTTTC
Found at i:2579680 original size:10 final size:9
Alignment explanation
Indices: 2579662--2579703 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
2579652 CTTGTGTTTC
2579662 AAAAAA-AA
1 AAAAAATAA
*
2579670 TAAAAATAA
1 AAAAAATAA
2579679 ATAAAAAT-A
1 A-AAAAATAA
2579688 AAAAAATAA
1 AAAAAATAA
2579697 AAAAAAT
1 AAAAAAT
2579704 TCTCGTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 11 0.38
9 12 0.41
10 6 0.21
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAATAA
Found at i:2579788 original size:18 final size:18
Alignment explanation
Indices: 2579767--2580070 Score: 202
Period size: 18 Copynumber: 17.0 Consensus size: 18
2579757 AAATTTTGTG
2579767 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
2579785 TTTTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
2579803 TCTTT-GTGTTTTCAGAAA
1 T-TTTCGTGTTTTCAAAAA
* * *
2579821 TTCTGGCG-TTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
**
2579838 TTTTCGTGTTTAAAAAAAAA
1 TTTTCGTGTTT--TCAAAAA
*
2579858 TTTTACGTGTTTTCACAAA
1 TTTT-CGTGTTTTCAAAAA
*
2579877 TTTTCGTG-TTTCACAAA
1 TTTTCGTGTTTTCAAAAA
*
2579894 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
* * *
2579912 -CTCCAGTG-TTTC-AAAG
1 TTTTC-GTGTTTTCAAAAA
* *
2579928 TTTCCCTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
**
2579945 TTCCCGTG-TTTCAAAAAAAAA
1 TTTTCGTGTTTTC----AAAAA
* *
2579966 ATGTCGTGTTTT-AAGAAA
1 TTTTCGTGTTTTCAA-AAA
* *
2579984 ATTTCGTTTTTTCTAAAAA
1 TTTTCGTGTTTTC-AAAAA
*
2580003 TTTTCGTG-TTTCTAAAA
1 TTTTCGTGTTTTCAAAAA
*
2580020 TTTTCGTG-TTT-ACAAA
1 TTTTCGTGTTTTCAAAAA
*
2580036 TTCTCGTGTTTTCAAAAA
1 TTTTCGTGTTTTCAAAAA
*
2580054 TTCTCGTGTTTT-AAAAA
1 TTTTCGTGTTTTCAAAAA
2580071 AAACTTTCGT
Statistics
Matches: 229, Mismatches: 35, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
16 18 0.08
17 76 0.33
18 84 0.37
19 20 0.09
20 11 0.05
21 17 0.07
22 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTTCGTGTTTTCAAAAA
Found at i:2579848 original size:17 final size:17
Alignment explanation
Indices: 2579767--2580070 Score: 175
Period size: 17 Copynumber: 17.0 Consensus size: 17
2579757 AAATTTTGTG
2579767 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
2579785 TTTTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
*
2579803 TCTTT-GTGTTTTCAGAAA
1 T-TTTCGTG-TTTCAAAAA
* * *
2579821 TTCTGGCGTTTCAAAAA
1 TTTTCGTGTTTCAAAAA
*
2579838 TTTTCGTGTTTAAAAAAAAA
1 TTTTCGTGTTT---CAAAAA
*
2579858 TTTTACGTGTTTTCACAAA
1 TTTT-CGTG-TTTCAAAAA
*
2579877 TTTTCGTGTTTCACAAA
1 TTTTCGTGTTTCAAAAA
*
2579894 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* * *
2579912 -CTCCAGTGTTTC-AAAG
1 TTTTC-GTGTTTCAAAAA
* * *
2579928 TTTCCCTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
**
2579945 TTCCCGTGTTTCAAAAAAAAA
1 TTTTCGTGTTTC----AAAAA
* * *
2579966 ATGTCGTGTTTTAAGAAA
1 TTTTCGTGTTTCAA-AAA
* *
2579984 ATTTCGTTTTTTCTAAAAA
1 TTTTCG-TGTTTC-AAAAA
*
2580003 TTTTCGTGTTTCTAAAA
1 TTTTCGTGTTTCAAAAA
*
2580020 TTTTCGTGTTT-ACAAA
1 TTTTCGTGTTTCAAAAA
*
2580036 TTCTCGTGTTTTCAAAAA
1 TTTTCGTG-TTTCAAAAA
* *
2580054 TTCTCGTGTTTTAAAAA
1 TTTTCGTGTTTCAAAAA
2580071 AAACTTTCGT
Statistics
Matches: 228, Mismatches: 38, Indels: 41
0.74 0.12 0.13
Matches are distributed among these distances:
16 18 0.08
17 82 0.36
18 74 0.32
19 23 0.10
20 11 0.05
21 17 0.07
22 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTTCGTGTTTCAAAAA
Found at i:2579901 original size:109 final size:106
Alignment explanation
Indices: 2579767--2580073 Score: 300
Period size: 109 Copynumber: 2.8 Consensus size: 106
2579757 AAATTTTGTG
*
2579767 TTTTCGTGTTTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAGAAATTCTGGCGTTT
1 TTTTCGTG-TTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTG-TTTCA-AAATTCTCGCGTTT
* * * *
2579832 CAAAAATTTTCGTGTTTAAAAAAAAATTTTACGTGTTTTCACAAA
63 CAAAAATTCTCGTGTTTAAAAAAAAAATGT-CGTGTTTTAACAAA
* * ** * * *
2579877 TTTTCGTGTTTCACAAATTCTCGTGTTTTCAAAAA-CTCCAGTGTTTCAAAGTT-TCCCTGTTTT
1 TTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATCT-TTGTGTTTCAAAATTCTCGC-GTTTC
* *
2579940 AAAAATTCCCGTGTTTCAAAAAAAAAATGTCGTGTTTTAAGAAA
64 AAAAATTCTCGTGTTT-AAAAAAAAAATGTCGTGTTTTAACAAA
* * * *
2579984 ATTTCGTTTTTTCTAAAAATTTTCGTG-TTTCTAAAAT-TTTCGTGTTT-ACAAATTCTCGTGTT
1 TTTTCG-TGTTTC-AAAAATTTTCGTGTTTTCAAAAATCTTT-GTGTTTCA-AAATTCTCGCG-T
*
2580046 TTCAAAAATTCTCGTGTTTTAAAAAAAA
61 TTCAAAAATTCTCGTGTTTAAAAAAAAA
2580074 CTTTCGTTTT
Statistics
Matches: 160, Mismatches: 27, Indels: 22
0.77 0.13 0.11
Matches are distributed among these distances:
106 2 0.01
107 40 0.25
108 51 0.32
109 59 0.37
110 8 0.05
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (106 bp):
TTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTCAAAATTCTCGCGTTTCAA
AAATTCTCGTGTTTAAAAAAAAAATGTCGTGTTTTAACAAA
Found at i:2579921 original size:74 final size:73
Alignment explanation
Indices: 2579780--2579922 Score: 175
Period size: 74 Copynumber: 1.9 Consensus size: 73
2579770 TCGTGTTTTC
* * * *
2579780 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAGAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCACAAATTCTCGCGTTTCAAAAATCTCCGT
2579845 GTTTAAAA
66 GTTTAAAA
* *
2579853 AAAAATTTTACGTGTTTTCACAAAT-TTTCGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTC
1 AAAAATTTT-CGTGTTTTCAAAAATCTTT-GTGTTTTCACAAATTCTCGCG-TTTCAAAAATCTC
2579915 CAGTGTTT
63 C-GTGTTT
2579923 CAAAGTTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
73 28 0.47
74 32 0.53
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (73 bp):
AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCACAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAAA
Found at i:2580795 original size:16 final size:15
Alignment explanation
Indices: 2580768--2580820 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
2580758 TCCATTTTTG
*
2580768 TAAATTAGATTAATA
1 TAAATTAAATTAATA
2580783 TACAATTAAATTAAATA
1 TA-AATTAAATT-AATA
*
2580800 TAAATTAGAGTTAATA
1 TAAATTA-AATTAATA
2580816 TAAAT
1 TAAAT
2580821 GTTATTGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 2 0.06
16 22 0.67
17 9 0.27
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (15 bp):
TAAATTAAATTAATA
Found at i:2584203 original size:16 final size:15
Alignment explanation
Indices: 2584151--2584205 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
2584141 CATCCATTTT
2584151 TATAAATTAGATTAA
1 TATAAATTAGATTAA
*
2584166 TATATAATTAAATTAAA
1 TATA-AATTAGATT-AA
2584183 TATAAATTAGAGTTAA
1 TATAAATTAGA-TTAA
2584199 TATAAAT
1 TATAAAT
2584206 GTTATTGTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 4 0.11
16 23 0.66
17 8 0.23
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (15 bp):
TATAAATTAGATTAA
Found at i:2586520 original size:19 final size:19
Alignment explanation
Indices: 2586493--2586535 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2586483 GCCCATTTCT
*
2586493 ACATGTATGCACAATGCCA
1 ACATTTATGCACAATGCCA
*
2586512 ACATTTATGCACAATTCCA
1 ACATTTATGCACAATGCCA
2586531 ACATT
1 ACATT
2586536 ATGAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (19 bp):
ACATTTATGCACAATGCCA
Found at i:2601561 original size:24 final size:24
Alignment explanation
Indices: 2601533--2601578 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2601523 AATTTTAACC
*
2601533 TATTTAAATTTATTATTTATTTAA
1 TATTTAAATTTATTATATATTTAA
* *
2601557 TATTTAATTTTTTTATATATTT
1 TATTTAAATTTATTATATATTT
2601579 GTTGAGCATT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAAATTTATTATATATTTAA
Found at i:2607181 original size:21 final size:19
Alignment explanation
Indices: 2607143--2607181 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
2607133 TATCGAAAAC
2607143 AAATTTTATTTCATTTATG
1 AAATTTTATTTCATTTATG
*
2607162 AAATTTGTTTTTCAATTTAT
1 AAATTT-TATTTC-ATTTAT
2607182 AAAAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
AAATTTTATTTCATTTATG
Found at i:2617250 original size:14 final size:14
Alignment explanation
Indices: 2617231--2617262 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2617221 TCTTCACAAA
2617231 TTTATATTTATATT
1 TTTATATTTATATT
*
2617245 TTTATATTTTTATT
1 TTTATATTTATATT
2617259 TTTA
1 TTTA
2617263 GGAAGAATTC
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATATTTATATT
Found at i:2622171 original size:6 final size:7
Alignment explanation
Indices: 2622155--2622179 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2622145 ATTGGACATG
2622155 TTTTAAT
1 TTTTAAT
2622162 TTTTAAT
1 TTTTAAT
2622169 TTTTAAT
1 TTTTAAT
2622176 TTTT
1 TTTT
2622180 TGTGTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:2624297 original size:7 final size:7
Alignment explanation
Indices: 2624285--2624309 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2624275 GTGTCACTAC
2624285 ATATATT
1 ATATATT
2624292 ATATATT
1 ATATATT
2624299 ATATATT
1 ATATATT
2624306 ATAT
1 ATAT
2624310 TAAAGAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:2627992 original size:27 final size:27
Alignment explanation
Indices: 2627948--2628021 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
2627938 AAGTAGGGCG
* *
2627948 GTGGTGGTGATGATGATGATGGTGG-A
1 GTGGTGGTGGTGGTGATGATGGTGGCA
* * *
2627974 GTGGTTGTTGGTGGTGATGGTGGTGGCT
1 GTGG-TGGTGGTGGTGATGATGGTGGCA
2628002 GTGGTGGTGGTGGTGATGAT
1 GTGGTGGTGGTGGTGATGAT
2628022 CATCACTGCC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.10
27 31 0.79
28 4 0.10
ACGTcount: A:0.11, C:0.01, G:0.53, T:0.35
Consensus pattern (27 bp):
GTGGTGGTGGTGGTGATGATGGTGGCA
Found at i:2627996 original size:9 final size:9
Alignment explanation
Indices: 2627949--2628019 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
2627939 AGTAGGGCGG
2627949 TGGTGGTGA
1 TGGTGGTGA
* *
2627958 TGATGATGA
1 TGGTGGTGA
*
2627967 TGGTGGAG-
1 TGGTGGTGA
*
2627975 TGGT--TGT
1 TGGTGGTGA
2627982 TGGTGGTGA
1 TGGTGGTGA
*
2627991 TGGTGGTGGC
1 TGGTGGT-GA
*
2628001 T-GTGGTGG
1 TGGTGGTGA
2628009 TGGTGGTGA
1 TGGTGGTGA
2628018 TG
1 TG
2628020 ATCATCACTG
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
8 6 0.13
9 34 0.72
10 2 0.04
ACGTcount: A:0.10, C:0.01, G:0.54, T:0.35
Consensus pattern (9 bp):
TGGTGGTGA
Found at i:2635426 original size:19 final size:18
Alignment explanation
Indices: 2635392--2635430 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
2635382 AACTTAGGAT
2635392 TAATAATATATATTAAGAA
1 TAATAATATATATTAA-AA
2635411 TAATAATATA-ATTTAAAA
1 TAATAATATATA-TTAAAA
2635429 TA
1 TA
2635431 TAAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATAATATATATTAAAA
Found at i:2638353 original size:15 final size:15
Alignment explanation
Indices: 2638333--2638384 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
2638323 ACTACAAAAC
2638333 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
2638348 ATTTATAATTATAATAAAT
1 ATTTATTA-T-TAAT--AT
*
2638367 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
2638382 ATT
1 ATT
2638385 AGTATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:2638370 original size:19 final size:19
Alignment explanation
Indices: 2638346--2638382 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2638336 TATTATTAAT
*
2638346 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
2638365 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
2638383 TTAGTATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:2646362 original size:44 final size:44
Alignment explanation
Indices: 2646298--2646542 Score: 241
Period size: 44 Copynumber: 5.6 Consensus size: 44
2646288 TGAAAACCCG
*
2646298 CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTA
1 CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTA
* * ** * * **
2646342 CA-GATCTTATCTCATTAAGCAATACCGGG--GC-AGATCGAA-AACA
1 CAGGCT-TTAACTCCCTAAGCAATA--GGGTAACAAGCT-GAAGATTA
* *
2646385 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAACTGAAGATTG
1 -CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTA
* *
2646430 CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAACTGAAGATTG
1 CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTA
*
2646474 CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGTTGAAGATTA
1 CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTA
* * *
2646518 CA-GATCTTATCTCCCTGAGCAATAG
1 CAGGCT-TTAACTCCCTAAGCAATAG
2646543 TGGAGCAGAT
Statistics
Matches: 166, Mismatches: 24, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
42 3 0.02
43 9 0.05
44 146 0.88
45 5 0.03
46 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (44 bp):
CAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTA
Found at i:2646559 original size:88 final size:88
Alignment explanation
Indices: 2646297--2646592 Score: 318
Period size: 88 Copynumber: 3.4 Consensus size: 88
2646287 GTGAAAACCC
* **
2646297 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCATTAAGC
1 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGC
*
2646362 AATACCGGG-GCAGATCGAAA-ACA
66 AATA--GGGAGCAGATCGAAAGATA
* * * *
2646385 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAACTGAAGATTGCAG-GCTTTAACTCCCTAAG
1 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATC-TTATCTCCCTAAG
* * *
2646449 CAATAGGGTAACA-AACTG-AAGATT
65 CAATAGGG-AGCAGATC-GAAAGATA
* *
2646473 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGTTGAAGATTACAGATCTTATCTCCCTGAGC
1 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGC
2646538 AATAGTGGAGCAGATC-AAAGATA
66 AATAG-GGAGCAGATCGAAAGATA
** ** * *
2646561 -CTCGCCGTAACCCCCTAAGCAGTAGGGTAACA
1 GCAGGCTTTAACTCCCTAAGCAATAGGGTAACA
2646593 GGCTAAAATT
Statistics
Matches: 173, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
86 3 0.02
87 31 0.18
88 134 0.77
89 5 0.03
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (88 bp):
GCAGGCTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGC
AATAGGGAGCAGATCGAAAGATA
Found at i:2646610 original size:87 final size:84
Alignment explanation
Indices: 2646481--2646698 Score: 240
Period size: 87 Copynumber: 2.5 Consensus size: 84
2646471 TTGCAGGCTT
* * * * * *
2646481 TAACTCCCTAAGCAATAGGGTAACAAGTTGAAGATTACAGATCTTATCTC-CCTGAGCAATAGTG
1 TAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCTCC-GAACAATAGTG
2646545 GAGCAGATCAAAGATACTCGCCG
64 GAGCAGATCAAAGA-ACT-GCCG
* * ** * *
2646568 TAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTATAGATCCTGGCTCTCCGAACAGTGGTGG
1 TAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTATCTCTCCGAACAATAGTGG
* * *
2646633 AGCAGGTCAAAGACCTGCCT
65 AGCAGATCAAAGAACTGCCG
*
2646653 TAACCCCCTAAACAGTAGGGTAACAGGCTAAAATTACAGATCTTAT
1 TAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTAT
2646699 ATTCGTTGAG
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
84 9 0.08
85 35 0.32
86 5 0.05
87 58 0.53
88 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (84 bp):
TAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCTCCGAACAATAGTGGA
GCAGATCAAAGAACTGCCG
Found at i:2651131 original size:46 final size:45
Alignment explanation
Indices: 2651078--2651249 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
2651068 TGGGCATCCA
2651078 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
2651124 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *
2651171 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* *
2651217 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2651250 GCGAGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:2651229 original size:93 final size:93
Alignment explanation
Indices: 2651070--2651242 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
2651060 AGGATATTTG
* *
2651070 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
2651135 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
2651163 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
2651228 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
2651243 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:2660467 original size:73 final size:73
Alignment explanation
Indices: 2660348--2660494 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
2660338 TGCTATGTAG
2660348 ACTTTTGTTTACCTAGGATTTGAATCCATCTTTTTTCATACCTTTACCTAATTCACTGGTGTTAT
1 ACTTTTGTTTACCTAGGATTTGAATCCATCTTTTTTCATACCTTTACCTAATTCACTGGTGTTAT
2660413 ATATATAT
66 ATATATAT
2660421 ACTTTTGTTTACCTAGGATTTGAATCCATCTTTTTTCATACCTTTACCTAATTCACTGGTGTTAT
1 ACTTTTGTTTACCTAGGATTTGAATCCATCTTTTTTCATACCTTTACCTAATTCACTGGTGTTAT
2660486 ATATATAT
66 ATATATAT
2660494 A
1 A
2660495 AGTAAACTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.48
Consensus pattern (73 bp):
ACTTTTGTTTACCTAGGATTTGAATCCATCTTTTTTCATACCTTTACCTAATTCACTGGTGTTAT
ATATATAT
Found at i:2663598 original size:16 final size:16
Alignment explanation
Indices: 2663565--2663613 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2663555 AATATTTTTT
*
2663565 TTAATATT-AATATCAA
1 TTAATATTAAAAAT-AA
2663581 TTAATATTAAAAATAA
1 TTAATATTAAAAATAA
*
2663597 TTAA-ATAAAAAATAA
1 TTAATATTAAAAATAA
2663612 TT
1 TT
2663614 TTAGTTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 12 0.40
16 14 0.47
17 4 0.13
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAATATTAAAAATAA
Found at i:2663609 original size:15 final size:16
Alignment explanation
Indices: 2663579--2663613 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2663569 TATTAATATC
*
2663579 AATTAATATTAAAAAT
1 AATTAATATAAAAAAT
2663595 AATTAA-ATAAAAAAT
1 AATTAATATAAAAAAT
2663610 AATT
1 AATT
2663614 TTAGTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAATATAAAAAAT
Found at i:2667744 original size:155 final size:156
Alignment explanation
Indices: 2667462--2667756 Score: 359
Period size: 154 Copynumber: 1.9 Consensus size: 156
2667452 TCTAACAAAC
* * * * *
2667462 AAAAATAATATTTATTTTTTATTATATTATTAAATTCACATTTAAAAATAATTATAATTTAATAA
1 AAAAATAACATTTATTTTTCATCATATTATTAAATTCACATTTAAAAATAACTATAAATTAATAA
*
2667527 AAACCATGCTAATTACAAATTTATAAATAACTGAAACATAAACTACAATTATTAATTAAAAATTT
66 AAACCATGATAATTACAAATTTATAAATAACTGAAACATAAACTACAATTATTAATTAAAAATTT
2667592 GTGCTAATTTAAACTTTTGAACTATA
131 GTGCTAATTTAAACTTTTGAACTATA
*
2667618 AAAAATAACATTTATTTTTCATCATGTTATTAAAATT-ACATTT-AAAATAACTATAAATTAATA
1 AAAAATAACATTTATTTTTCATCATATTATT-AAATTCACATTTAAAAATAACTATAAATTAATA
*** * ** * *
2667681 AATTTC-TGATAATTA-AGAATTTA-AGAATAA-TTATAATTTAAATTACAATTATTGATTAAAA
65 AAAACCATGATAATTACA-AATTTATA-AATAACTGA-AACATAAACTACAATTATTAATT-AAA
*
2667742 AATTTGTGTTAATTT
126 AATTTGTGCTAATTT
2667757 TAAAATAAAG
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
153 4 0.03
154 38 0.32
155 38 0.32
156 33 0.28
157 5 0.04
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (156 bp):
AAAAATAACATTTATTTTTCATCATATTATTAAATTCACATTTAAAAATAACTATAAATTAATAA
AAACCATGATAATTACAAATTTATAAATAACTGAAACATAAACTACAATTATTAATTAAAAATTT
GTGCTAATTTAAACTTTTGAACTATA
Found at i:2669571 original size:4 final size:4
Alignment explanation
Indices: 2669562--2669589 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2669552 TATCTTTTTG
2669562 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
2669590 CATACTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:2670067 original size:23 final size:23
Alignment explanation
Indices: 2670041--2670104 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 23
2670031 TAAGTATAAC
2670041 CAATTTAAAATTTTTAATATATT
1 CAATTTAAAATTTTTAATATATT
* * *
2670064 CAA--TATATTTTTTAAAATA-T
1 CAATTTAAAATTTTTAATATATT
*
2670084 -ATTTTAAAA-TTTTAATATATT
1 CAATTTAAAATTTTTAATATATT
2670105 TTTAATAGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 8
0.67 0.15 0.17
Matches are distributed among these distances:
19 1 0.03
20 10 0.32
21 17 0.55
23 3 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
CAATTTAAAATTTTTAATATATT
Found at i:2670582 original size:17 final size:17
Alignment explanation
Indices: 2670542--2670582 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2670532 TGTTTGACCT
2670542 AAATTTTTATATAATTA
1 AAATTTTTATATAATTA
** *
2670559 ATTTTTTTATGTAATTA
1 AAATTTTTATATAATTA
2670576 AAATTTT
1 AAATTTT
2670583 AAATATATAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
AAATTTTTATATAATTA
Found at i:2670638 original size:18 final size:17
Alignment explanation
Indices: 2670592--2670630 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2670582 TAAATATATA
* *
2670592 TTAAGTATATTAAAGTT
1 TTAAATATATTAAAATT
2670609 TTAAATATATTAAAATT
1 TTAAATATATTAAAATT
2670626 TTAAA
1 TTAAA
2670631 ATTAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TTAAATATATTAAAATT
Found at i:2673407 original size:15 final size:16
Alignment explanation
Indices: 2673389--2673418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2673379 ATGGAAACTA
2673389 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
2673404 TGATATAATGAAATA
1 TGATATAATGAAATA
2673419 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:2674398 original size:17 final size:18
Alignment explanation
Indices: 2674375--2674418 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
2674365 ATCTTTATTG
2674375 TTCAGTAATAATCAGTCA
1 TTCAGTAATAATCAGTCA
*
2674393 -TCAGTAATAATCAGTTA
1 TTCAGTAATAATCAGTCA
2674410 TTCAGTAAT
1 TTCAGTAAT
2674419 GGTCGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TTCAGTAATAATCAGTCA
Found at i:2674464 original size:18 final size:17
Alignment explanation
Indices: 2674403--2674467 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
2674393 TCAGTAATAA
* *
2674403 TCAGTTATTCAGTAATGG
1 TCAGTTATTCAAT-ATAG
2674421 TC-GTTTATTCAATATCAG
1 TCAG-TTATTCAATAT-AG
* *
2674439 GCAATTATTCAATAGTAG
1 TCAGTTATTCAATA-TAG
2674457 TCAGTTATTCA
1 TCAGTTATTCA
2674468 GTGACAGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
17 3 0.08
18 33 0.89
19 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (17 bp):
TCAGTTATTCAATATAG
Found at i:2674476 original size:18 final size:18
Alignment explanation
Indices: 2674463--2674509 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
2674453 GTAGTCAGTT
*
2674463 ATTCAGTGACAGTCATTG
1 ATTCAGTAACAGTCATTG
*
2674481 ATTCAGTAACAGTCGAAT-
1 ATTCAGTAACAGTC-ATTG
2674499 ATTCAGTAACA
1 ATTCAGTAACA
2674510 ATCAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (18 bp):
ATTCAGTAACAGTCATTG
Found at i:2680984 original size:16 final size:16
Alignment explanation
Indices: 2680958--2680995 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2680948 GAACTTTTTA
2680958 ATTTTTCTTTAAAAGT
1 ATTTTTCTTTAAAAGT
* *
2680974 GTTTTTTTTTAAAAGT
1 ATTTTTCTTTAAAAGT
2680990 ATTTTT
1 ATTTTT
2680996 GAGAAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (16 bp):
ATTTTTCTTTAAAAGT
Found at i:2686727 original size:14 final size:14
Alignment explanation
Indices: 2686680--2686728 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
2686670 ATGTGGGTGA
2686680 AAAAAAAATTATGT
1 AAAAAAAATTATGT
*
2686694 AACAATAATATT-TAGT
1 AA-AA-AAAATTAT-GT
2686710 AAAAAAAATTATGT
1 AAAAAAAATTATGT
2686724 AAAAA
1 AAAAA
2686729 TCAAATGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 14 0.48
15 6 0.21
16 9 0.31
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAAAAAATTATGT
Found at i:2687496 original size:8 final size:8
Alignment explanation
Indices: 2687478--2687507 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
2687468 TAATTGGATC
2687478 ATTTTTA-
1 ATTTTTAT
2687485 ATTTTTAT
1 ATTTTTAT
2687493 ATTTTTAT
1 ATTTTTAT
2687501 ATTTTTA
1 ATTTTTA
2687508 AAATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:2687504 original size:16 final size:15
Alignment explanation
Indices: 2687478--2687517 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
2687468 TAATTGGATC
2687478 ATTTTTAATTTTTAT
1 ATTTTTAATTTTTAT
*
2687493 ATTTTTATATTTTTAAA
1 ATTTTTA-ATTTTT-AT
2687510 ATTTTTAA
1 ATTTTTAA
2687518 ATCCATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 7 0.32
17 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTAATTTTTAT
Found at i:2687513 original size:9 final size:8
Alignment explanation
Indices: 2687478--2687519 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
2687468 TAATTGGATC
2687478 ATTTTT-A
1 ATTTTTAA
*
2687485 ATTTTTAT
1 ATTTTTAA
*
2687493 ATTTTTAT
1 ATTTTTAA
2687501 ATTTTTAAA
1 ATTTTT-AA
2687510 ATTTTTAA
1 ATTTTTAA
2687518 AT
1 AT
2687520 CCATTCATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 6 0.19
8 18 0.58
9 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
ATTTTTAA
Found at i:2698081 original size:19 final size:20
Alignment explanation
Indices: 2698059--2698106 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
2698049 TCTTAGTTCG
*
2698059 ATAATTAAAT-TTAAAATTA
1 ATAATTAAATATTAAAAATA
*
2698078 ATAA-TACATATTAAAAATA
1 ATAATTAAATATTAAAAATA
2698097 ATAATATAAA
1 ATAAT-TAAA
2698107 AAATTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 16 0.70
21 3 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTAAATATTAAAAATA
Found at i:2698108 original size:15 final size:15
Alignment explanation
Indices: 2698077--2698119 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
2698067 ATTTAAAATT
*
2698077 AATAATACATATTAAA
1 AATAATA-ATATAAAA
2698093 AATAATAATATAAAA
1 AATAATAATATAAAA
*
2698108 AATTATAATATA
1 AATAATAATATA
2698120 TATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATATAAAA
Found at i:2698123 original size:34 final size:34
Alignment explanation
Indices: 2698071--2698143 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
2698061 AATTAAATTT
*
2698071 AAAATTAATAATACATATTAAAA-ATAATAATATAA
1 AAAATTAATAATACATATTAAAATA-AAAAAT-TAA
*
2698106 AAAATT-ATAATATATATTAAAATAAAAAATTAA
1 AAAATTAATAATACATATTAAAATAAAAAATTAA
2698139 AAAAT
1 AAAAT
2698144 ATTTGAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 8 0.23
34 20 0.57
35 7 0.20
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (34 bp):
AAAATTAATAATACATATTAAAATAAAAAATTAA
Found at i:2698127 original size:19 final size:18
Alignment explanation
Indices: 2698071--2698127 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
2698061 AATTAAATTT
2698071 AAAATTAATAATACATATT-
1 AAAATT-ATAATA-ATATTA
*
2698090 AAAA--ATAATAATATAA
1 AAAATTATAATAATATTA
2698106 AAAATTATAATATATATTA
1 AAAATTATAATA-ATATTA
2698125 AAA
1 AAA
2698128 TAAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 10 0.31
18 6 0.19
19 12 0.38
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTATAATAATATTA
Found at i:2698145 original size:25 final size:25
Alignment explanation
Indices: 2698090--2698153 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
2698080 AATACATATT
*
2698090 AAAAATA-A-TAATATAAAAAATTA
1 AAAAATATATTAAAATAAAAAATTA
* *
2698113 TAATATATATTAAAATAAAAAATTA
1 AAAAATATATTAAAATAAAAAATTA
2698138 AAAAATAT-TTGAAAAT
1 AAAAATATATT-AAAAT
2698154 CGTTTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 5 0.15
24 3 0.09
25 25 0.76
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAATATATTAAAATAAAAAATTA
Found at i:2707482 original size:63 final size:62
Alignment explanation
Indices: 2707375--2707674 Score: 299
Period size: 63 Copynumber: 4.9 Consensus size: 62
2707365 TGAATTGCTG
* *
2707375 GCTCCTGTTGAGCAGTCGCGGAAGGTCCCGGTGCTGTTATACTGTAATGTATGGTAAGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCC-GTGCTGCTATACTGTAATGTATGGTAAGAGGTT
* * * * ***
2707438 GGTCCTGTTGAGGAGTCGCGGAAGGTCCTGATGCTGCTACACTGTAATGCATGGCCTGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCG-TGCTGCTATACTGTAATGTATGGTAAGAGGTT
* * * *
2707501 GTTCCTGTTGAGGAGTTGCCGAAGGTCCCGGTGCTGCTATACTGTAATGTATGGTCAGAGGTT
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCC-GTGCTGCTATACTGTAATGTATGGTAAGAGGTT
* * ** *
2707564 GCT-CTGGTTGAGGAG-CTGTGGAAGGTCCCG-G-AGCTACGCTGTAATGTATGG-ACTGAGGTT
1 GCTCCT-GTTGAGGAGTC-GCGGAAGGTCCCGTGCTGCTATACTGTAATGTATGGTA-AGAGGTT
* * * *
2707624 GCTCTTGTTGATGAGTCACTGAAGGT-CC-TGCTGCTATACTGTAATGTATGG
1 GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGTGCTGCTATACTGTAATGTATGG
2707675 CCTGAGATTG
Statistics
Matches: 194, Mismatches: 34, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
59 3 0.02
60 57 0.29
61 3 0.02
62 4 0.02
63 126 0.65
64 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (62 bp):
GCTCCTGTTGAGGAGTCGCGGAAGGTCCCGTGCTGCTATACTGTAATGTATGGTAAGAGGTT
Found at i:2713594 original size:60 final size:60
Alignment explanation
Indices: 2713501--2713749 Score: 190
Period size: 60 Copynumber: 4.1 Consensus size: 60
2713491 GTCCCGGTGC
* * * *
2713501 TGCTATACTGTAATGTATGGTAAGAGGCTGCTCCTGTTGAGGAGTCGCAGAAGGTCCTGG
1 TGCTACACTGTAATGTATGGCAAGAGGTTGCTCCTGTTGAGGAGTAGCAGAAGGTCCTGG
**
2713561 TGCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCA-AAGGTGCTGGTGCT
1 TGCTACACTGTAATGTATGGCAAGAGGTTGCTCCTGTTGAGGAGTAG-CAGAAGGT-C-----CT
2713625 GGTG
59 -G-G
* * * * * *
2713629 CTGCTATACTGT-ATGTATGGTAAGAGGTTGCT-CTGGTTGAGTCA-T-G--GAAAGTCCCGA
1 -TGCTACACTGTAATGTATGGCAAGAGGTTGCTCCT-GTTGAG-GAGTAGCAGAAGGTCCTGG
** *
2713686 TGCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCA-AAGGTGCTGG
1 TGCTACACTGTAATGTATGGCAAGAGGTTGCTCCTGTTGAGGAGTAG-CAGAAGGTCCTGG
2713746 TGCT
1 TGCT
2713750 GCTATACTGT
Statistics
Matches: 146, Mismatches: 23, Indels: 40
0.70 0.11 0.19
Matches are distributed among these distances:
56 11 0.08
57 24 0.16
58 4 0.03
59 1 0.01
60 56 0.38
61 3 0.02
64 1 0.01
65 4 0.03
66 2 0.01
67 4 0.03
68 25 0.17
69 11 0.08
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (60 bp):
TGCTACACTGTAATGTATGGCAAGAGGTTGCTCCTGTTGAGGAGTAGCAGAAGGTCCTGG
Found at i:2713706 original size:125 final size:128
Alignment explanation
Indices: 2713496--2713750 Score: 403
Period size: 125 Copynumber: 2.0 Consensus size: 128
2713486 GGAAGGTCCC
* * * *
2713496 GGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCTGTTGAGGAGTCGCAGAAGGTCCTGG
1 GGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCTGTTGAGCAGTCG-AGAAAGTCCCGA
2713561 TGCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCAAAGGTGCTGGTGCT
65 TGCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCAAAGGTGCTGGTGCT
*
2713625 GGTGCTGCTATACTGT-ATGTATGGTAAGAGGTTGCT-CTGGTTGAGTCA-T-G-GAAAGTCCCG
1 GGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCT-GTTGAG-CAGTCGAGAAAGTCCCG
2713685 ATGCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCAAAGGTGCTGGTGCT
64 ATGCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCAAAGGTGCTGGTGCT
2713750 G
1 G
2713751 CTATACTGTA
Statistics
Matches: 119, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
125 73 0.61
127 3 0.03
128 26 0.22
129 17 0.14
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (128 bp):
GGTGCTGCTATACTGTAATGTATGGTAAGAGGCTGCTCCTGTTGAGCAGTCGAGAAAGTCCCGAT
GCTACACTGTAATGTATGGCCTGAGGTTGCTCCTGTTGAGGAGTAGCCAAAGGTGCTGGTGCT
Found at i:2722594 original size:39 final size:39
Alignment explanation
Indices: 2722503--2722594 Score: 89
Period size: 39 Copynumber: 2.3 Consensus size: 39
2722493 TTTACTTAAT
* * *
2722503 TTTTTAAAATTTAAAAATATTTTTATACTCTTTTTAATGA
1 TTTTT-AAATTTTAAAATAGTTTTATAATCTTTTTAATGA
** *
2722543 TTTTTATTTTTTAAAATAGTTTTATAAT-TTTCTT-TTGAA
1 TTTTTAAATTTTAAAATAGTTTTATAATCTTT-TTAATG-A
2722582 TTTTTAAATTTTA
1 TTTTTAAATTTTA
2722595 GAAAAATAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
38 5 0.12
39 32 0.76
40 5 0.12
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (39 bp):
TTTTTAAATTTTAAAATAGTTTTATAATCTTTTTAATGA
Found at i:2723175 original size:17 final size:18
Alignment explanation
Indices: 2723148--2723183 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2723138 TCACATCAAT
*
2723148 AAATAATTTAAAATTAAA
1 AAATAATTTAAAAATAAA
2723166 AAAT-ATTTAAAAATAAA
1 AAATAATTTAAAAATAAA
2723183 A
1 A
2723184 TTCAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAATTTAAAAATAAA
Found at i:2723387 original size:30 final size:30
Alignment explanation
Indices: 2723330--2723390 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2723320 TTAAACTCTT
** *
2723330 ATTTTTTTGAAAAATTAATGGTCAATTTTA
1 ATTTTTTTGAAAAATTAACAGTAAATTTTA
* *
2723360 ATTTTTTTTAAAAATTGACAGTAAATTTTA
1 ATTTTTTTGAAAAATTAACAGTAAATTTTA
2723390 A
1 A
2723391 CTAAAAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.49
Consensus pattern (30 bp):
ATTTTTTTGAAAAATTAACAGTAAATTTTA
Found at i:2728270 original size:17 final size:18
Alignment explanation
Indices: 2728231--2728276 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
2728221 TGTCTTACAG
*
2728231 AAATATAATAAAATATTTA
1 AAATAAAAT-AAATATTTA
2728250 AAATAAAATAAATATTT-
1 AAATAAAATAAATATTTA
2728267 AAATAAAATA
1 AAATAAAATA
2728277 TGTGATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 10 0.38
18 8 0.31
19 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAAATAAATATTTA
Found at i:2729409 original size:53 final size:53
Alignment explanation
Indices: 2729329--2729435 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
2729319 TTTCTTAATC
2729329 CAAAAGTTAAAATATTATCCTCTAACCAATGAAGAAAAGCTTCATATATCTTT
1 CAAAAGTTAAAATATTATCCTCTAACCAATGAAGAAAAGCTTCATATATCTTT
2729382 CAAAAGTTAAAATATTATCCTCTAACCAATGAAGAAAAGCTTCATATATCTTT
1 CAAAAGTTAAAATATTATCCTCTAACCAATGAAGAAAAGCTTCATATATCTTT
2729435 C
1 C
2729436 TTTTGAAAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (53 bp):
CAAAAGTTAAAATATTATCCTCTAACCAATGAAGAAAAGCTTCATATATCTTT
Found at i:2735160 original size:14 final size:14
Alignment explanation
Indices: 2735106--2735160 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2735096 TCTGTGGTCC
* *
2735106 AAAGTTCAAGGTCT
1 AAAGTTCAAGATTT
**
2735120 AAAGTTCGTGATTT
1 AAAGTTCAAGATTT
* *
2735134 AAAGTTTAGGATTT
1 AAAGTTCAAGATTT
2735148 AAAGTTCAAGATT
1 AAAGTTCAAGATT
2735161 CATATTTAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (14 bp):
AAAGTTCAAGATTT
Found at i:2738703 original size:152 final size:152
Alignment explanation
Indices: 2738505--2738790 Score: 410
Period size: 152 Copynumber: 1.9 Consensus size: 152
2738495 GTGTTGCCTA
* * * * **
2738505 CACCAAAAAATACAAATATGAATAAGAGAATAATTGAACATGAGACTTAGAAACAAAAACTTTAA
1 CACCAAAAAAGACAAATATGAATAAAAGAAGAATCGAACATGAGACTTAGAAACAAAAACTCAAA
*
2738570 CATTTAACCATCTAACCAAATAAACTAACTTATTAAATTTTCAACTAAAAAAATATTAAAAATAT
66 CATTTAACCATCTAACCAAATAAACTAACTTATTAAATTTTCAACTAAAAAAATACTAAAAATAT
2738635 TACTGATGTTGCCTAGTGGCTG
131 TACTGATGTTGCCTAGTGGCTG
* * * * * *
2738657 CACCAAAAAAGGCAAATATGAGTAAAAGAGGAATCGGACATGAGACTTAGAGATAAAAACTCAAA
1 CACCAAAAAAGACAAATATGAATAAAAGAAGAATCGAACATGAGACTTAGAAACAAAAACTCAAA
* * * * *
2738722 CATTTAACTATCTAACCAACTAAACTAACTTGTTAAATTTTCAACTAAAATAATACTAAAATTAT
66 CATTTAACCATCTAACCAAATAAACTAACTTATTAAATTTTCAACTAAAAAAATACTAAAAATAT
2738787 TACT
131 TACT
2738791 AGTACCGTCT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
152 116 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (152 bp):
CACCAAAAAAGACAAATATGAATAAAAGAAGAATCGAACATGAGACTTAGAAACAAAAACTCAAA
CATTTAACCATCTAACCAAATAAACTAACTTATTAAATTTTCAACTAAAAAAATACTAAAAATAT
TACTGATGTTGCCTAGTGGCTG
Found at i:2742167 original size:23 final size:23
Alignment explanation
Indices: 2742137--2742182 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2742127 ATGGGATGAA
2742137 ATTAATTGTAATCTTTATACATT
1 ATTAATTGTAATCTTTATACATT
*
2742160 ATTAATTGTAATTTTTATACATT
1 ATTAATTGTAATCTTTATACATT
2742183 CTGTGCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (23 bp):
ATTAATTGTAATCTTTATACATT
Found at i:2743903 original size:20 final size:19
Alignment explanation
Indices: 2743878--2743921 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
2743868 TCCGCTTTAA
*
2743878 TTTAAT-TTTTATAATTTATT
1 TTTAATATTTT-TAATAT-TT
2743898 TTTAATATTTTTAATATTT
1 TTTAATATTTTTAATATTT
2743917 TTTAA
1 TTTAA
2743922 GTTAAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTAATATTTTTAATATTT
Found at i:2743906 original size:9 final size:9
Alignment explanation
Indices: 2743894--2743918 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2743884 TTTTATAATT
2743894 TATTTTTAA
1 TATTTTTAA
2743903 TATTTTTAA
1 TATTTTTAA
2743912 TATTTTT
1 TATTTTT
2743919 TAAGTTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTAA
Found at i:2746695 original size:231 final size:231
Alignment explanation
Indices: 2746292--2746758 Score: 891
Period size: 231 Copynumber: 2.0 Consensus size: 231
2746282 TTGATAACTT
* *
2746292 TTGCTAGTCCTCTTTCCTTACGTAAAGGAAGCTGATTTTCTTTATGACTACGTTTTCTTTTCTTG
1 TTGCTAGTCCTCTTTCCTTACGCAAAGGAAGCTGATTTTCTTTATGACTACGTTTTCCTTTCTTG
2746357 TGACTTTTTTCTTGTATTATCGTCGGTGCTGGACCTGCTGGTTGTGTAGTCCTTGCATTTAGTGG
66 TGACTTTTTTCTTGTATTATCGTCGGTGCTGGACCTGCTGGTTGTGTAGTCCTTGCATTTAGTGG
2746422 ATAGCAGTATAAGTGAACTACTTTTATATCTGTGTACCGCCATTTCCTTTAATCTTGATGTAGAT
131 ATAGCAGTATAAGTGAACTACTTTTATATCTGTGTACCGCCATTTCCTTTAATCTTGATGTAGAT
2746487 TAATTGTGTCCGTTTAATATGGCAAATGTACTATAA
196 TAATTGTGTCCGTTTAATATGGCAAATGTACTATAA
*
2746523 TTGCTAGTCCTCTTTCCTTTCGCAAAGGAAGCTGATTTTCTTTATGACTACGTTTTCCTTTCTTG
1 TTGCTAGTCCTCTTTCCTTACGCAAAGGAAGCTGATTTTCTTTATGACTACGTTTTCCTTTCTTG
2746588 TGACTTTTTTCTTGTATTATCGTCGGTGCTGGACCTGCTGGTTGTGTAGTCCTTGCATTTAGTGG
66 TGACTTTTTTCTTGTATTATCGTCGGTGCTGGACCTGCTGGTTGTGTAGTCCTTGCATTTAGTGG
2746653 ATAGCAGTATAAGTTG-ACTACTTTTATATCTGTGTACCGCCATTTCCTTTAATCTTGATGTAGA
131 ATAGCAGTATAAG-TGAACTACTTTTATATCTGTGTACCGCCATTTCCTTTAATCTTGATGTAGA
2746717 TTAATTGTGTCCGTTTAATATGGCAAATGTACTATAA
195 TTAATTGTGTCCGTTTAATATGGCAAATGTACTATAA
2746754 TTGCT
1 TTGCT
2746759 CTATGGATAT
Statistics
Matches: 232, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
231 230 0.99
232 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (231 bp):
TTGCTAGTCCTCTTTCCTTACGCAAAGGAAGCTGATTTTCTTTATGACTACGTTTTCCTTTCTTG
TGACTTTTTTCTTGTATTATCGTCGGTGCTGGACCTGCTGGTTGTGTAGTCCTTGCATTTAGTGG
ATAGCAGTATAAGTGAACTACTTTTATATCTGTGTACCGCCATTTCCTTTAATCTTGATGTAGAT
TAATTGTGTCCGTTTAATATGGCAAATGTACTATAA
Found at i:2752588 original size:31 final size:31
Alignment explanation
Indices: 2752552--2752618 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
2752542 TAATAATAAT
2752552 AATAATAACTCACTTTGATGACAATTAGTTC
1 AATAATAACTCACTTTGATGACAATTAGTTC
2752583 AATAATAACTCACTTTGATGACAATTAGTTC
1 AATAATAACTCACTTTGATGACAATTAGTTC
*
2752614 CATAA
1 AATAA
2752619 AACGAGAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.34
Consensus pattern (31 bp):
AATAATAACTCACTTTGATGACAATTAGTTC
Found at i:2755622 original size:3 final size:3
Alignment explanation
Indices: 2755614--2755657 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2755604 AGTTGAAGGT
2755614 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 TT
2755658 TCAACTTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2756705 original size:20 final size:20
Alignment explanation
Indices: 2756670--2756707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2756660 GCTGACAAAA
**
2756670 CAATCACTCAGGTTTCAATT
1 CAATCACTCAACTTTCAATT
2756690 CAATCACTCAACTTTCAA
1 CAATCACTCAACTTTCAA
2756708 AAAATAACAA
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:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (20 bp):
CAATCACTCAACTTTCAATT
Found at i:2762571 original size:18 final size:19
Alignment explanation
Indices: 2762525--2762571 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
2762515 GTAGGGATTT
*
2762525 TTATTTTATTTAATATTAA
1 TTATTATATTTAATATTAA
* *
2762544 -TATAAAATTTAA-ATTAA
1 TTATTATATTTAATATTAA
2762561 TTATTATATTT
1 TTATTATATTT
2762572 TTGAATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATATTTAATATTAA
Found at i:2762585 original size:21 final size:22
Alignment explanation
Indices: 2762561--2762605 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2762551 TTTAAATTAA
2762561 TTAT-TATATTTT-TGAATTTTT
1 TTATGTAT-TTTTATGAATTTTT
*
2762582 TTATGTATTTTTATGTATTTTT
1 TTATGTATTTTTATGAATTTTT
2762604 TT
1 TT
2762606 TTGAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (22 bp):
TTATGTATTTTTATGAATTTTT
Found at i:2762592 original size:10 final size:10
Alignment explanation
Indices: 2762579--2762603 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2762569 TTTTTGAATT
2762579 TTTTTATGTA
1 TTTTTATGTA
2762589 TTTTTATGTA
1 TTTTTATGTA
2762599 TTTTT
1 TTTTT
2762604 TTTTGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTATGTA
Found at i:2765193 original size:18 final size:18
Alignment explanation
Indices: 2765152--2765195 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2765142 CGCAACCGTG
* *
2765152 ATAGGGAACGTGATCGAG
1 ATAGGGAACGGGATCGAC
* *
2765170 ACAGGGATCGGGATCGAC
1 ATAGGGAACGGGATCGAC
2765188 ATAGGGAA
1 ATAGGGAA
2765196 GACAAAGACA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.39, T:0.14
Consensus pattern (18 bp):
ATAGGGAACGGGATCGAC
Found at i:2774468 original size:16 final size:16
Alignment explanation
Indices: 2774443--2774484 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
2774433 TGGCTTTGGC
*
2774443 AAAAA-AAAAAAAAAG
1 AAAAAGAAAAGAAAAG
2774458 AGAAAAGAAAAGAAAAG
1 A-AAAAGAAAAGAAAAG
2774475 AAAAAGAAAA
1 AAAAAGAAAA
2774485 TGCAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
17 10 0.42
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:2778638 original size:33 final size:33
Alignment explanation
Indices: 2778601--2778754 Score: 218
Period size: 33 Copynumber: 4.7 Consensus size: 33
2778591 AGGGCCAGGA
2778601 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
*
2778634 GCTCCTCCACCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
2778667 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* * * * *
2778700 GCTCCTCCCCCTGGAGGTAGTGGTGGCGGTGGT
1 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
* ** *
2778733 GGTCCAACTCCAAGAGGTGGTG
1 GCTCCTCCTCCAGGAGGTGGTG
2778755 CTGGAAGTGG
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 107 1.00
ACGTcount: A:0.11, C:0.25, G:0.44, T:0.21
Consensus pattern (33 bp):
GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
Found at i:2779204 original size:16 final size:16
Alignment explanation
Indices: 2779179--2779211 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2779169 GGTGGGGTGT
*
2779179 TAGATGTTGATGGGGG
1 TAGATATTGATGGGGG
2779195 TAGATATTGATGGGGG
1 TAGATATTGATGGGGG
2779211 T
1 T
2779212 GGTGGAGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.33
Consensus pattern (16 bp):
TAGATATTGATGGGGG
Found at i:2779352 original size:38 final size:39
Alignment explanation
Indices: 2779306--2779422 Score: 109
Period size: 39 Copynumber: 3.0 Consensus size: 39
2779296 ATAGATGAGG
2779306 GAGAAGGTGGGGTGCTAGATATTGATGGGGGGTGAGAGA
1 GAGAAGGTGGGGTGCTAGATATTGATGGGGGGTGAGAGA
* * **
2779345 G-GAAGGTGGGGGTACTAG-TCATCGAAGTGGTTGGTGA-AG-
1 GAGAAGGT-GGGGTGCTAGAT-ATTG-A-TGGGGGGTGAGAGA
*
2779384 GAGAAGGTGGGGTGCTAGATATTGACGGGGTGGTG-GAGA
1 GAGAAGGTGGGGTGCTAGATATTGATGGGG-GGTGAGAGA
2779423 TGGAGGAGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
37 2 0.03
38 14 0.23
39 26 0.43
40 10 0.17
41 8 0.13
ACGTcount: A:0.24, C:0.05, G:0.50, T:0.21
Consensus pattern (39 bp):
GAGAAGGTGGGGTGCTAGATATTGATGGGGGGTGAGAGA
Found at i:2779395 original size:78 final size:79
Alignment explanation
Indices: 2779305--2779468 Score: 217
Period size: 78 Copynumber: 2.1 Consensus size: 79
2779295 CATAGATGAG
* * *
2779305 GGAGAAGGTGGGGTGCTAGATATTGATGGGG-GGTGAGAGA-GGA-AGGTGGGGGTACTAGTCAT
1 GGAGAAGGTGGGGTGCTAGATATTGACGGGGTGGTG-GAGATGGAGAGGT-AGGGCACTAGTCAT
*
2779367 CGAAGTGGTTGGTGAA
64 CAAAGTGGTTGGTGAA
**
2779383 GGAGAAGGTGGGGTGCTAGATATTGACGGGGTGGTGGAGATGGAGGAGGTAGGGCACTAGTTGTC
1 GGAGAAGGTGGGGTGCTAGATATTGACGGGGTGGTGGAGATGGA-GAGGTAGGGCACTAGTCATC
2779448 AAAGTGGTTGGTGAA
65 AAAGTGGTTGGTGAA
*
2779463 GAAGAA
1 GGAGAA
2779469 CAAGGAATTA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 34 0.45
79 7 0.09
80 30 0.40
81 4 0.05
ACGTcount: A:0.26, C:0.05, G:0.48, T:0.21
Consensus pattern (79 bp):
GGAGAAGGTGGGGTGCTAGATATTGACGGGGTGGTGGAGATGGAGAGGTAGGGCACTAGTCATCA
AAGTGGTTGGTGAA
Found at i:2780058 original size:83 final size:87
Alignment explanation
Indices: 2779952--2780125 Score: 293
Period size: 83 Copynumber: 2.0 Consensus size: 87
2779942 AATATTAGTC
**
2779952 AAAGAGGTGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGT-A-G-AGATGGAG
1 AAAGAGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGATGAAGATGGAG
2780014 GAGACAAGGCAATAGTAGTTGA
66 GAGACAAGGCAATAGTAGTTGA
2780036 AAAG-GGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGATTGAAGATGGA
1 AAAGAGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGA-TGAAGATGGA
2780100 GGAGACAAGGCAATAGTAGTTGA
65 GGAGACAAGGCAATAGTAGTTGA
2780123 AAA
1 AAA
2780126 ATGGTGAGGA
Statistics
Matches: 84, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
83 45 0.54
84 5 0.06
86 1 0.01
87 33 0.39
ACGTcount: A:0.34, C:0.06, G:0.41, T:0.20
Consensus pattern (87 bp):
AAAGAGGTGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGATGAAGATGGAG
GAGACAAGGCAATAGTAGTTGA
Found at i:2780171 original size:87 final size:86
Alignment explanation
Indices: 2779959--2780175 Score: 246
Period size: 83 Copynumber: 2.5 Consensus size: 86
2779949 GTCAAAGAGG
** **
2779959 TGGTGAAGGTGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGT-A--G-AGATGGAGGAGACA
1 TGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGGGGTGGTGATTGAAGATGGAGGAGACA
*
2780020 AGGCAATAGTAGTTGAAAAGGG
66 AGGCAATAGTAGTTGAAAA-GA
**
2780042 TGGTGAAAATGGAGGAAGTGGAGTACTACACATTGGTGGGGTGGTGATTGAAGATGGAGGAGACA
1 TGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGGGGTGGTGATTGAAGATGGAGGAGACA
2780107 AGGCAATAGTAGTTGAAAA-A
66 AGGCAATAGTAGTTGAAAAGA
* * * * ** *
2780127 TGGTGAGGATTGGAGGAAGTGGGGTAGTAGTCGTTGAAGAGGGTGGTGA
1 TGGTGA-AAATGGAGGAAGTGGAGTACTACACATTGAAG-GGGTGGTGA
2780176 AGGTGGAGGA
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
83 43 0.37
84 1 0.01
85 6 0.05
86 24 0.21
87 42 0.36
ACGTcount: A:0.31, C:0.05, G:0.43, T:0.21
Consensus pattern (86 bp):
TGGTGAAAATGGAGGAAGTGGAGTACTACACATTGAAGGGGTGGTGATTGAAGATGGAGGAGACA
AGGCAATAGTAGTTGAAAAGA
Found at i:2780201 original size:45 final size:45
Alignment explanation
Indices: 2780138--2780409 Score: 157
Period size: 45 Copynumber: 6.1 Consensus size: 45
2780128 GGTGAGGATT
* *
2780138 GGAGGAAGTGGGGTAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGA
1 GGAGGAAGTTGGGCAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGA
* * *
2780183 GGAGGATGTTGGGCAGTAGTTGCTGAAGAGGGTGGTGAAGGTGGA
1 GGAGGAAGTTGGGCAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGA
* * * **
2780228 GGAGGAAG-TGGGACACTAG-CTGTTGAAGAGGATGGTAAAGACGGA
1 GGAGGAAGTTGGG-CAGTAGTC-GTTGAAGAGGGTGGTGAAGGTGGA
* * * * * *
2780273 GAAGGAA-TTAGGGCACTAGAT-G-TCAA-TGGG-GGAGATAGATGGA
1 GGAGGAAGTT-GGGCAGTAG-TCGTTGAAGAGGGTGGTGA-AGGTGGA
* * * * * * *
2780316 GGTGGAGGAG-TGGACACTAGTCATTGAAAAGGATGGTGAAGGTAGA
1 GGAGGA--AGTTGGGCAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGA
** * **
2780362 AAAGGAAG-TGGGCAATAGTCGTCAAAGAGAGGTGGTGAAGGTGGA
1 GGAGGAAGTTGGGCAGTAGTCGTTGAAGAG-GGTGGTGAAGGTGGA
2780407 GGA
1 GGA
2780410 AGTAGGGCAT
Statistics
Matches: 169, Mismatches: 43, Indels: 30
0.70 0.18 0.12
Matches are distributed among these distances:
42 3 0.02
43 13 0.08
44 32 0.19
45 104 0.62
46 13 0.08
47 4 0.02
ACGTcount: A:0.31, C:0.06, G:0.45, T:0.18
Consensus pattern (45 bp):
GGAGGAAGTTGGGCAGTAGTCGTTGAAGAGGGTGGTGAAGGTGGA
Found at i:2784411 original size:32 final size:32
Alignment explanation
Indices: 2784361--2784510 Score: 194
Period size: 32 Copynumber: 4.7 Consensus size: 32
2784351 AGGGCCAGGA
2784361 GCTCCTCCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCT-CTCCAGGAGGTGGTGGCGGAGGTGGT
*
2784394 GCTCCTCACCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCTCCAGGAGGTGGTGGCGGAGGTGGT
2784426 GCTCCTCTCCAGGAGGTGGTGGCGGAGGTGGT
1 GCTCCTCTCCAGGAGGTGGTGGCGGAGGTGGT
* * * * *
2784458 GCTCCTCCCCTGGAGGTAGTGG-TGCGGTGGT
1 GCTCCTCTCCAGGAGGTGGTGGCGGAGGTGGT
* * *
2784489 GGTCCAACTCCAAGAGGTGGTG
1 GCTCC-TCTCCAGGAGGTGGTG
2784511 CTGGAAGTGG
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
31 11 0.11
32 86 0.83
33 6 0.06
ACGTcount: A:0.11, C:0.23, G:0.44, T:0.21
Consensus pattern (32 bp):
GCTCCTCTCCAGGAGGTGGTGGCGGAGGTGGT
Done.