Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 10 of 10
Found at i:1462473 original size:13 final size:13
Alignment explanation
Indices: 1462455--1462479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1462445 CATGGCACAT
1462455 TGTATCGATACAA
1 TGTATCGATACAA
1462468 TGTATCGATACA
1 TGTATCGATACA
1462480 TGATGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1463823 original size:21 final size:21
Alignment explanation
Indices: 1463797--1463840 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1463787 ATTTTTAGGG
1463797 AAAAAT-ATTATAA-ATTTTGAA
1 AAAAATCATT-TAATATTTT-AA
1463818 AAAAATCATTTAATATTTTAA
1 AAAAATCATTTAATATTTTAA
1463839 AA
1 AA
1463841 TAATTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAATCATTTAATATTTTAA
Found at i:1465427 original size:34 final size:35
Alignment explanation
Indices: 1465389--1465455 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1465379 CCTTACAACA
1465389 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1465423 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1465456 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1466104 original size:22 final size:22
Alignment explanation
Indices: 1466049--1466104 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
1466039 ACAGTGACCT
1466049 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1466071 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1466092 ATGAACAGTGATG
1 ATGAACAGTGATG
1466105 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1466111 original size:10 final size:10
Alignment explanation
Indices: 1466092--1466122 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1466082 GTATCGATAC
1466092 ATGAACAGTG
1 ATGAACAGTG
*
1466102 ATGAATAGTG
1 ATGAACAGTG
1466112 ATGAACAGTG
1 ATGAACAGTG
1466122 A
1 A
1466123 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1466210 original size:53 final size:53
Alignment explanation
Indices: 1466146--1466282 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1466136 CTACTTCCAA
1466146 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
1466199 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1466252 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1466283 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1466315 original size:20 final size:20
Alignment explanation
Indices: 1466252--1466322 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1466242 GCCAATGTCC
**
1466252 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1466272 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1466292 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1466312 TGTATCGATAC
1 TGTATCGATAC
1466323 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1466388 original size:21 final size:21
Alignment explanation
Indices: 1466362--1466402 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1466352 GTCAACCTTG
1466362 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1466383 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1466403 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1466935 original size:14 final size:14
Alignment explanation
Indices: 1466916--1466942 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1466906 AATTGCTCAC
1466916 ATGTATCGATACAA
1 ATGTATCGATACAA
1466930 ATGTATCGATACA
1 ATGTATCGATACA
1466943 TTGAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGTATCGATACAA
Found at i:1467049 original size:20 final size:20
Alignment explanation
Indices: 1467024--1467157 Score: 85
Period size: 20 Copynumber: 6.7 Consensus size: 20
1467014 AATTGTAAGC
1467024 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTACTT
*
1467044 ATGTATCGATACATTTTCTT
1 ATGTATCGATACATTTACTT
* * ** **
1467064 A-GCA--GTATGCAAGGTGGTT
1 ATGTATCG-ATAC-ATTTACTT
* **
1467083 TTGTATCGATACATTTTAGGT
1 ATGTATCGATACA-TTTACTT
*
1467104 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTTACTT
*
1467124 ATATATCGATACATTTACTAT
1 ATGTATCGATACATTTACT-T
* *
1467145 GTGTATCAATACA
1 ATGTATCGATACA
1467158 AATTGTAGAA
Statistics
Matches: 84, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
17 1 0.01
18 3 0.04
19 6 0.07
20 44 0.52
21 29 0.35
22 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTACTT
Found at i:1467156 original size:21 final size:20
Alignment explanation
Indices: 1467084--1467157 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 20
1467074 AAGGTGGTTT
* **
1467084 TGTATCGATACATTTTAGGTA
1 TGTATCGATACA-TTCACTTA
1467105 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* * *
1467125 TATATCGATACATTTACTATG
1 TGTATCGATACATTCACT-TA
*
1467146 TGTATCAATACA
1 TGTATCGATACA
1467158 AATTGTAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 21 0.48
21 23 0.52
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:1470742 original size:13 final size:13
Alignment explanation
Indices: 1470724--1470749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1470714 CAAGTTTTTG
1470724 TGTATCGATACAT
1 TGTATCGATACAT
1470737 TGTATCGATACAT
1 TGTATCGATACAT
1470750 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1470774 original size:19 final size:18
Alignment explanation
Indices: 1470704--1470774 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
1470694 TACAAGCCAA
*
1470704 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
1470724 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
1470737 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
1470756 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
1470775 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:1473130 original size:21 final size:21
Alignment explanation
Indices: 1473106--1473152 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1473096 TTTGATGCTG
1473106 ATTTTGATG-G-AAAACGAAGT
1 ATTTTGATGTGAAAAAC-AAGT
*
1473126 AATTTGATGTGAAAAACAAGT
1 ATTTTGATGTGAAAAACAAGT
1473147 ATTTTG
1 ATTTTG
1473153 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (21 bp):
ATTTTGATGTGAAAAACAAGT
Found at i:1473291 original size:13 final size:13
Alignment explanation
Indices: 1473273--1473298 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1473263 ATAATCACCC
1473273 TGTATCGATACAA
1 TGTATCGATACAA
1473286 TGTATCGATACAA
1 TGTATCGATACAA
1473299 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1475391 original size:15 final size:15
Alignment explanation
Indices: 1475371--1475400 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1475361 GTTCATCAAT
1475371 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
1475386 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
1475401 CCCAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:1477241 original size:21 final size:21
Alignment explanation
Indices: 1477212--1477256 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1477202 AAGTTTTCAT
*
1477212 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1477232 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1477254 TTT
1 TTT
1477257 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1481295 original size:25 final size:25
Alignment explanation
Indices: 1481259--1481306 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1481249 TGATTTTGAA
*
1481259 TTTTTTTGTCATTTCTCAATTAAAT
1 TTTTTTTATCATTTCTCAATTAAAT
1481284 TTTTTTTATCATTTCTCAATTAA
1 TTTTTTTATCATTTCTCAATTAA
1481307 GTTGGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTTTATCATTTCTCAATTAAAT
Found at i:1481317 original size:25 final size:25
Alignment explanation
Indices: 1481267--1481317 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1481257 AATTTTTTTG
** *
1481267 TCATTTCTCAATTAAATTTTTTTTA
1 TCATTTCTCAATTAAATTGGTATTA
*
1481292 TCATTTCTCAATTAAGTTGGTATTA
1 TCATTTCTCAATTAAATTGGTATTA
1481317 T
1 T
1481318 TAAACTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (25 bp):
TCATTTCTCAATTAAATTGGTATTA
Found at i:1482580 original size:21 final size:22
Alignment explanation
Indices: 1482545--1482586 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
1482535 AAATAATAAT
1482545 TTTATTTTATTAATATTATTTA
1 TTTATTTTATTAATATTATTTA
1482567 TTTATTTT-TTAATATTATTT
1 TTTATTTTATTAATATTATTT
1482587 TAATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTTTATTAATATTATTTA
Found at i:1483869 original size:18 final size:20
Alignment explanation
Indices: 1483846--1483882 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1483836 AAGGGTTCAA
1483846 TGGGGA-GAAG-GACGAAGT
1 TGGGGAGGAAGAGACGAAGT
1483864 TGGGGAGGAAGAGACGAAG
1 TGGGGAGGAAGAGACGAAG
1483883 GAAGGGATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.51, T:0.08
Consensus pattern (20 bp):
TGGGGAGGAAGAGACGAAGT
Found at i:1493724 original size:14 final size:14
Alignment explanation
Indices: 1493705--1493756 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
1493695 TACTATAACT
1493705 TTAAAATATAAAAA
1 TTAAAATATAAAAA
* *
1493719 TTAAAATATTAAAT
1 TTAAAATATAAAAA
1493733 TTAATAATATAAAAA
1 TTAA-AATATAAAAA
1493748 TTAAAATAT
1 TTAAAATAT
1493757 TTCTTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAATATAAAAA
Found at i:1493729 original size:8 final size:8
Alignment explanation
Indices: 1493705--1493757 Score: 55
Period size: 7 Copynumber: 7.2 Consensus size: 8
1493695 TACTATAACT
1493705 TTAAAATA
1 TTAAAATA
1493713 -TAAAA-A
1 TTAAAATA
1493719 TTAAAATA
1 TTAAAATA
1493727 TT-AAAT-
1 TTAAAATA
1493733 TTAATAATA
1 TTAA-AATA
1493742 -TAAAA-A
1 TTAAAATA
1493748 TTAAAATA
1 TTAAAATA
1493756 TT
1 TT
1493758 TCTTTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
6 4 0.11
7 22 0.58
8 12 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAAATA
Found at i:1494869 original size:22 final size:22
Alignment explanation
Indices: 1494818--1494873 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
1494808 TTAGATTAAT
* *
1494818 TAAAATTTTTTTATTTTATAAA
1 TAAAATTTATTTATTTAATAAA
* *
1494840 T-AAATTTATTTATTTAATGAG
1 TAAAATTTATTTATTTAATAAA
1494861 TAAAATTTATTTA
1 TAAAATTTATTTA
1494874 AAAATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
TAAAATTTATTTATTTAATAAA
Found at i:1494967 original size:24 final size:24
Alignment explanation
Indices: 1494921--1494993 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
1494911 TTATATAAAA
* * *
1494921 AATATATAAAATATAAGAT-ATATT
1 AATATATAATATA-AATATAATATG
1494945 AATATATAATATAAATATAATATG
1 AATATATAATATAAATATAATATG
* *
1494969 AAAAAATAAT-TAAAATATAATATG
1 AATATATAATAT-AAATATAATATG
1494993 A
1 A
1494994 CATAAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 37 0.88
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AATATATAATATAAATATAATATG
Found at i:1495056 original size:18 final size:18
Alignment explanation
Indices: 1495026--1495063 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1495016 CATAAACATG
*
1495026 TAAATATTTATATA-AAA
1 TAAATATTAATATATAAA
1495043 TAAATTATTAATATATAAA
1 TAAA-TATTAATATATAAA
1495062 TA
1 TA
1495064 TTTATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATATTAATATATAAA
Found at i:1498187 original size:2 final size:2
Alignment explanation
Indices: 1498182--1498220 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
1498172 TTAAACTCAC
* * *
1498182 TA TA TA AA TA TG TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1498221 TTAATTTGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1498875 original size:25 final size:25
Alignment explanation
Indices: 1498842--1498890 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
1498832 ACATGAATAC
*
1498842 TTTTGTTTTGACTCGTCTCTTGTTT
1 TTTTGTTTTGACTCGTCTCCTGTTT
*
1498867 TTTTTTTTTGACTCGTCTCCTGTT
1 TTTTGTTTTGACTCGTCTCCTGTT
1498891 AGAGCTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.18, G:0.14, T:0.63
Consensus pattern (25 bp):
TTTTGTTTTGACTCGTCTCCTGTTT
Found at i:1500234 original size:53 final size:53
Alignment explanation
Indices: 1500177--1500282 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
1500167 CCAGATTGAA
1500177 AGATTTAAATTCAAGCTAATATTTGTCCTGATTTGTTGAAAGTTTTGGTTTTC
1 AGATTTAAATTCAAGCTAATATTTGTCCTGATTTGTTGAAAGTTTTGGTTTTC
*
1500230 AGATTTAAATTCAAGCTAATATTTTTCCTGATTTGTTGAAAGTTTTGGTTTTC
1 AGATTTAAATTCAAGCTAATATTTGTCCTGATTTGTTGAAAGTTTTGGTTTTC
1500283 TGGCTGGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.48
Consensus pattern (53 bp):
AGATTTAAATTCAAGCTAATATTTGTCCTGATTTGTTGAAAGTTTTGGTTTTC
Found at i:1503203 original size:17 final size:17
Alignment explanation
Indices: 1503181--1503219 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1503171 ATTCTTATTC
* * *
1503181 ATTAAGATTTTTTTCTT
1 ATTAAGAATATTTACTT
1503198 ATTAAGAATATTTACTT
1 ATTAAGAATATTTACTT
1503215 ATTAA
1 ATTAA
1503220 ATAAACTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTAAGAATATTTACTT
Found at i:1504468 original size:19 final size:19
Alignment explanation
Indices: 1504444--1504481 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1504434 AAATTAAAAT
1504444 TTTTAT-ATTAATATTTATA
1 TTTTATAATTAA-ATTTATA
1504463 TTTTATAATTAAATTTATA
1 TTTTATAATTAAATTTATA
1504482 ATAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTATAATTAAATTTATA
Found at i:1506769 original size:11 final size:12
Alignment explanation
Indices: 1506742--1506770 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1506732 AACAAGTTTT
1506742 ATATTTTAAATA
1 ATATTTTAAATA
1506754 ATATTTTAAA-A
1 ATATTTTAAATA
1506765 ATATTT
1 ATATTT
1506771 AATATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTTTAAATA
Found at i:1509579 original size:20 final size:20
Alignment explanation
Indices: 1509556--1509629 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1509546 ACAATTCAAA
1509556 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1509576 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1509597 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1509617 GTATCGATACATG
1 GTATCGATACATG
1509630 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1509600 original size:21 final size:21
Alignment explanation
Indices: 1509574--1509649 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1509564 ACATGTTGCA
1509574 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1509595 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1509615 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1509636 ATGTATCGATACAT
1 ATGTATCGATACAT
1509650 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1509607 original size:41 final size:41
Alignment explanation
Indices: 1509556--1509649 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1509546 ACAATTCAAA
1509556 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1509597 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1509638 GTATCGATACAT
1 GTATCGATACAT
1509650 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1509706 original size:13 final size:13
Alignment explanation
Indices: 1509688--1509713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1509678 TACAGCAAGT
1509688 ATGTATCGATACA
1 ATGTATCGATACA
1509701 ATGTATCGATACA
1 ATGTATCGATACA
1509714 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1510042 original size:23 final size:22
Alignment explanation
Indices: 1510016--1510058 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
1510006 TTTGTTTATA
1510016 TTGTCATTATT-TTTCTAAGCTCT
1 TTGT-ATTATTATTTC-AAGCTCT
*
1510039 TTGTATTCTTATTTCAAGCT
1 TTGTATTATTATTTCAAGCT
1510059 TAAATTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.56
Consensus pattern (22 bp):
TTGTATTATTATTTCAAGCTCT
Found at i:1511960 original size:21 final size:21
Alignment explanation
Indices: 1511927--1511971 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1511917 TTGCAAGTTG
*
1511927 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1511949 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1511969 AAA
1 AAA
1511972 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1515406 original size:13 final size:13
Alignment explanation
Indices: 1515388--1515413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1515378 AATTTTTTTG
1515388 TGTATCGATACAT
1 TGTATCGATACAT
1515401 TGTATCGATACAT
1 TGTATCGATACAT
1515414 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1515478 original size:21 final size:21
Alignment explanation
Indices: 1515452--1515527 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
1515442 CTGCCAAGAA
1515452 ATGTATCGATACATCATTTTT
1 ATGTATCGATACATCATTTTT
**
1515473 ATGTATCGATACATTGCA---AC
1 ATGTATCGATACA-T-CATTTTT
1515493 ATGTATCGATACATC-TTTTT
1 ATGTATCGATACATCATTTTT
1515513 CATGTATCGATACAT
1 -ATGTATCGATACAT
1515528 TGCAACATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 13 0.29
21 27 0.60
22 1 0.02
23 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCATTTTT
Found at i:1515498 original size:20 final size:20
Alignment explanation
Indices: 1515473--1515545 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1515463 CATCATTTTT
1515473 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1515493 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1515514 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1515534 ATGTATCGATAC
1 ATGTATCGATAC
1515546 TTCAAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1515518 original size:41 final size:41
Alignment explanation
Indices: 1515452--1515545 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
1515442 CTGCCAAGAA
1515452 ATGTATCGATACATCATTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTTATGTATCGATACATTGCAAC
1515493 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCATTTTT-ATGTATCGATACATTGCAAC
1515534 ATGTATCGATAC
1 ATGTATCGATAC
1515546 TTCAAATTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 5 0.10
41 47 0.90
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCATTTTTATGTATCGATACATTGCAAC
Found at i:1517979 original size:13 final size:13
Alignment explanation
Indices: 1517961--1517999 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1517951 ATAATCACCC
*
1517961 TGTATCGATACAG
1 TGTATCGATACAA
1517974 TGTATCGATACAA
1 TGTATCGATACAA
1517987 TGTATCGATACAA
1 TGTATCGATACAA
1518000 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1518010 original size:20 final size:20
Alignment explanation
Indices: 1517985--1518063 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1517975 GTATCGATAC
1517985 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1518005 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1518030 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1518050 CATGTATCGATACA
1 AATGTATCGATACA
1518064 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1521894 original size:21 final size:21
Alignment explanation
Indices: 1521865--1521909 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1521855 AAGTTTTCAT
*
1521865 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1521885 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1521907 TTT
1 TTT
1521910 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1523356 original size:13 final size:13
Alignment explanation
Indices: 1523338--1523363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1523328 AATTTTTTTG
1523338 TGTATCGATACAT
1 TGTATCGATACAT
1523351 TGTATCGATACAT
1 TGTATCGATACAT
1523364 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1523428 original size:21 final size:21
Alignment explanation
Indices: 1523402--1523477 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
1523392 CTGCCAAGAA
* *
1523402 ATGTATCAATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1523423 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1523443 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1523464 ATGTATCGATACAT
1 ATGTATCGATACAT
1523478 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1523448 original size:20 final size:20
Alignment explanation
Indices: 1523423--1523495 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1523413 CATCTTTTTT
1523423 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1523443 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1523464 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1523484 ATGTATCGATAC
1 ATGTATCGATAC
1523496 TTCAAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1523459 original size:41 final size:41
Alignment explanation
Indices: 1523402--1523495 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1523392 CTGCCAAGAA
* *
1523402 ATGTATCAATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1523443 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1523484 ATGTATCGATAC
1 ATGTATCGATAC
1523496 TTCAAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1525034 original size:13 final size:13
Alignment explanation
Indices: 1525016--1525040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1525006 GGAAATTCTA
1525016 TGTATCGATACAC
1 TGTATCGATACAC
1525029 TGTATCGATACA
1 TGTATCGATACA
1525041 GGGTGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1527514 original size:20 final size:20
Alignment explanation
Indices: 1527491--1527564 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1527481 ACAATTCAAA
1527491 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1527511 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1527532 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1527552 GTATCGATACATG
1 GTATCGATACATG
1527565 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1527535 original size:21 final size:21
Alignment explanation
Indices: 1527509--1527584 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1527499 ACATGTTGCA
1527509 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1527530 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1527550 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1527571 ATGTATCGATACAT
1 ATGTATCGATACAT
1527585 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1527542 original size:41 final size:41
Alignment explanation
Indices: 1527491--1527584 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1527481 ACAATTCAAA
1527491 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1527532 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1527573 GTATCGATACAT
1 GTATCGATACAT
1527585 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:1527641 original size:13 final size:13
Alignment explanation
Indices: 1527623--1527648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1527613 TACAGCAAGT
1527623 ATGTATCGATACA
1 ATGTATCGATACA
1527636 ATGTATCGATACA
1 ATGTATCGATACA
1527649 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1531413 original size:20 final size:20
Alignment explanation
Indices: 1531384--1531422 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1531374 TAAGTAAAAC
1531384 TACTGAATGTATCAATACAA
1 TACTGAATGTATCAATACAA
* *
1531404 TACTGTATGTATCGATACA
1 TACTGAATGTATCAATACA
1531423 TGTGGTTGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TACTGAATGTATCAATACAA
Found at i:1531504 original size:21 final size:21
Alignment explanation
Indices: 1531478--1531536 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
1531468 GATACAAGTT
1531478 TAAATGTATCGATACATTATG
1 TAAATGTATCGATACATTATG
* *
1531499 TAAATGTATGGATACATCATG
1 TAAATGTATCGATACATTATG
*
1531520 T-ATTGTATCGATACATT
1 TAAATGTATCGATACATT
1531537 TTGTTGGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
TAAATGTATCGATACATTATG
Found at i:1535545 original size:37 final size:37
Alignment explanation
Indices: 1535495--1535567 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
1535485 ACTTAATTTC
1535495 TTACAAACACCTACCTATTAGAGGCTTGAAAAGTTTG
1 TTACAAACACCTACCTATTAGAGGCTTGAAAAGTTTG
1535532 TTACAAACACCTACCTATTAGAGGCTTGAAAAGTTT
1 TTACAAACACCTACCTATTAGAGGCTTGAAAAGTTT
1535568 TTAAACACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (37 bp):
TTACAAACACCTACCTATTAGAGGCTTGAAAAGTTTG
Found at i:1536664 original size:6 final size:6
Alignment explanation
Indices: 1536619--1536685 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
1536609 CCATTAAACT
* **
1536619 AATTAA AAATAA AA-TAA AA-TAA AATTTAA GTTTCAA AATTAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AA-TTAA AATT-AA AATTAA AATTAA
*
1536667 AATCAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA A
1536686 TTTATTAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 10 0.20
6 34 0.67
7 7 0.14
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (6 bp):
AATTAA
Found at i:1538553 original size:41 final size:40
Alignment explanation
Indices: 1538451--1538556 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 40
1538441 AAAAGGGTTA
* * *
1538451 ATCGGGATGAAACCAATAAGTTAACTAAAAGTAAAGATTG
1 ATCGGGATAAAACTAATAAGTCAACTAAAAGTAAAGATTG
* * * * *
1538491 ACCAGGACAAAACCT-ACAAGTCAACTAAGAGTGAAA-AGTTG
1 ATCGGGATAAAA-CTAATAAGTCAACTAAAAGT-AAAGA-TTG
1538532 ATCGGGATAAAACTAATAAGTCAAC
1 ATCGGGATAAAACTAATAAGTCAAC
1538557 AAATGAAAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
40 25 0.50
41 25 0.50
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGGGATAAAACTAATAAGTCAACTAAAAGTAAAGATTG
Found at i:1539225 original size:62 final size:62
Alignment explanation
Indices: 1539039--1539286 Score: 284
Period size: 62 Copynumber: 4.0 Consensus size: 62
1539029 GCTGAAGTAG
** * * ** * * *
1539039 AAGATCATGATGAAGAATATGTGG-TTCTATAATTTTCCATCAACAATCGAAACAAATTGAG
1 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGCCAAAACAAACTGAT
* * *
1539100 AAGATCATGATGGGGAA-ATGTGGTTTCTAAAATTTTCCATCAACAACCAAAACAAACTCAT
1 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGCCAAAACAAACTGAT
* * * * * * * *
1539161 AAGATTATGATGGGGAATATTTGGTTCCTGAAATTTCCCGTCAATAGCCGAAACAAGCTGAT
1 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGCCAAAACAAACTGAT
* *
1539223 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGTCAAAACAAATTGAT
1 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGCCAAAACAAACTGAT
1539285 AA
1 AA
1539287 CAAGCTGGAG
Statistics
Matches: 156, Mismatches: 29, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
60 6 0.04
61 62 0.40
62 88 0.56
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (62 bp):
AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGCCAAAACAAACTGAT
Found at i:1539335 original size:77 final size:76
Alignment explanation
Indices: 1539223--1539436 Score: 286
Period size: 77 Copynumber: 2.8 Consensus size: 76
1539213 ACAAGCTGAT
1539223 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGTCAAAACAAATTGATAAC
1 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGTCAAAACAAATTGATAAC
*
1539288 AAGCTGGAGTAG
66 AAGCTGGAG-AA
* * * * *
1539300 AAGATCATGATGGGGAATATGTAGTTTTTAAAATTTCCCATCAATAG-CTGAAACAAATTGATAT
1 AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGTC-AAAACAAATTGATAA
*
1539364 CAAGGTGGAGAA
65 CAAGCTGGAGAA
** * * *
1539376 AATGAAAATGATGGGGAATATATGGTTTCAAAAATTTTCCATCAATAATCAAAACAAATTG
1 AA-GATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGTCAAAACAAATTG
1539437 GTAGCGAGTT
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
76 4 0.03
77 113 0.96
78 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (76 bp):
AAGATCATGATGGGGAATATGTGGTTTCTAAAATTTTCCATCAATAGTCAAAACAAATTGATAAC
AAGCTGGAGAA
Found at i:1542794 original size:13 final size:13
Alignment explanation
Indices: 1542776--1542801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1542766 TACAATGAAC
1542776 ATGTATCGATACA
1 ATGTATCGATACA
1542789 ATGTATCGATACA
1 ATGTATCGATACA
1542802 TCTGGAGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1550919 original size:13 final size:13
Alignment explanation
Indices: 1550901--1550926 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1550891 TACACCAAGT
1550901 ATGTATCGATACA
1 ATGTATCGATACA
1550914 ATGTATCGATACA
1 ATGTATCGATACA
1550927 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1550924 original size:32 final size:33
Alignment explanation
Indices: 1550883--1550946 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1550873 TAGCCAAACT
* **
1550883 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1550915 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1550947 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1559416 original size:264 final size:264
Alignment explanation
Indices: 1558940--1559463 Score: 1021
Period size: 264 Copynumber: 2.0 Consensus size: 264
1558930 TACCTTATTA
1558940 AGGGGGAGATTTTTTAATAAAAGGGGAGAATGCGTAAATTTGCTAAAATTACCTTATTAAGGGGG
1 AGGGGGAGATTTTTTAATAAAAGGGGAGAATGCGTAAATTTGCTAAAATTACCTTATTAAGGGGG
1559005 AGAATGTACGAACTTGTTAAAATTATTTTGTTTAAGGGAGAAAGAAAAGAAAAATGTAAAATTTT
66 AGAATGTACGAACTTGTTAAAATTATTTTGTTTAAGGGAGAAAGAAAAGAAAAATGTAAAATTTT
*
1559070 GATTTTTGAAATCTACTAATGTGTTTCTTGAAGAAATGGAAGTCAGATTACAGGTTGATACAAGG
131 GATTTTTAAAATCTACTAATGTGTTTCTTGAAGAAATGGAAGTCAGATTACAGGTTGATACAAGG
*
1559135 AGAATGATTGTAACACGAGCTTGAACATAATGGTAAGATCATTGAATAATACCCGAAAATACACA
196 AGAATGATTGCAACACGAGCTTGAACATAATGGTAAGATCATTGAATAATACCCGAAAATACACA
1559200 CTTG
261 CTTG
1559204 AGGGGGAGATTTTTTAATAAAAGGGGAGAATGCGTAAATTTGCTAAAATTACCTTATTAAGGGGG
1 AGGGGGAGATTTTTTAATAAAAGGGGAGAATGCGTAAATTTGCTAAAATTACCTTATTAAGGGGG
1559269 AGAATGTACGAACTTGTTAAAATTATTTTGTTTAAGGGAGAAAGAAAAGAAAAATGTAAAATTTT
66 AGAATGTACGAACTTGTTAAAATTATTTTGTTTAAGGGAGAAAGAAAAGAAAAATGTAAAATTTT
1559334 GATTTTTAAAATCTACTAATGTGTTTCTTGAAGAAATGGAAGTCAGATTACAGGTTGATACAAGG
131 GATTTTTAAAATCTACTAATGTGTTTCTTGAAGAAATGGAAGTCAGATTACAGGTTGATACAAGG
*
1559399 AGAATGATTGCAACACGAGCTTGAACATAATGGTAAGATCATTGAATGATACCCGAAAATACACA
196 AGAATGATTGCAACACGAGCTTGAACATAATGGTAAGATCATTGAATAATACCCGAAAATACACA
1559464 TTTAAAAATT
Statistics
Matches: 257, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
264 257 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (264 bp):
AGGGGGAGATTTTTTAATAAAAGGGGAGAATGCGTAAATTTGCTAAAATTACCTTATTAAGGGGG
AGAATGTACGAACTTGTTAAAATTATTTTGTTTAAGGGAGAAAGAAAAGAAAAATGTAAAATTTT
GATTTTTAAAATCTACTAATGTGTTTCTTGAAGAAATGGAAGTCAGATTACAGGTTGATACAAGG
AGAATGATTGCAACACGAGCTTGAACATAATGGTAAGATCATTGAATAATACCCGAAAATACACA
CTTG
Found at i:1559956 original size:13 final size:13
Alignment explanation
Indices: 1559938--1559963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1559928 TACACCAAGT
1559938 ATGTATCGATACA
1 ATGTATCGATACA
1559951 ATGTATCGATACA
1 ATGTATCGATACA
1559964 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1559961 original size:32 final size:33
Alignment explanation
Indices: 1559920--1559983 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1559910 TAGCCAAACT
* **
1559920 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1559952 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1559984 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1561767 original size:436 final size:435
Alignment explanation
Indices: 1560922--1561781 Score: 1459
Period size: 436 Copynumber: 2.0 Consensus size: 435
1560912 TAAGCTCAAG
*
1560922 GATGGATGAACCAAAAGGGGGGTGAATTGGTTCTTTTCAAAATTTAAAGGTTTCATATGAATTGT
1 GATGGATGAACCAAAAGGGGGGTGAATTGGTTCTTTTCAAAATTCAAAGGTTTCATATGAATTGT
* *
1560987 TTTGAAAACAACTTGAAAATAAAAAGAGTAGAGAAAAGAGAAAGCTCGACATAAGTGTTTATAGA
66 TTCGAAAACAACTTGAAAATAAAAAGAGTAGAGAAAAGAGAAAGCTCGACACAAGTGTTTATAGA
* * *
1561052 GGTTCGGTTTAAACACAATACCTATGTCCTCTCTCATCGACACTTTCTTGTCGAGTGTTACCATA
131 GGTTCGGTCTAAACACAACACCTATGTCCTCTCTCATCGACACTTTCTTGTCGAGTGTTACCACA
*
1561117 ATTCACTACACGAATTGATTACCTTTCAGGCAAAGGTATAACCTTACAACACTTTATATTTCCTA
196 ATTCACTACACGAATTGATTACCTTTCAAGCAAAGGTATAACCTTACAACACTTTATATTTCCTA
* * * *
1561182 GGCTAAGATAAAAAACCTCACAATTTTTCGAAGAATTATACCCTAAATCCTTGAGAAATTGTAAC
261 GGCTAAGATAAAAAACCTCACAATCTCTCCAAGAATTATACCCCAAATCCTTGAGAAATTGTAAC
* * *
1561247 CCAAGGTTGAATGCAACCTTACACAATTCAAGGAAATTGTACAAACGAAAATTGCCTCTGAATAG
326 CCAAGGTTGAATGCAACCTTACACAATTCAAGAAAATTGTACAAACAAAAATTGCCTCTAAATAG
* *
1561312 GCTGATGTTTGTGAAAGAATAAACACAAATCAAAATTTAAAGGCT
391 GCTGATGCTTGAGAAAGAATAAACACAAATCAAAATTTAAAGGCT
* * * **
1561357 GATGGATGAACCAAGAGGGGGGTGAATTGTTTTTTTTTCAAAATTCAAAGGTTTTGTATGAATTG
1 GATGGATGAACCAAAAGGGGGGTGAATTG-GTTCTTTTCAAAATTCAAAGGTTTCATATGAATTG
* *
1561422 TTTCGAAAACAACTTGAAAATAAAAAGAGTAGGGAAAAGAGAAAGCTTGACACAAGTGTTTATAG
65 TTTCGAAAACAACTTGAAAATAAAAAGAGTAGAGAAAAGAGAAAGCTCGACACAAGTGTTTATAG
* *
1561487 AGGTTCGGTCTAAACACAACACCTATGTCCTTTCTCCTCGACACTTTCTTGTCGAGTGTTACCAC
130 AGGTTCGGTCTAAACACAACACCTATGTCCTCTCTCATCGACACTTTCTTGTCGAGTGTTACCAC
* *
1561552 ATTTCACTACACGAATTGATTACCTTTCAAGCAAAGGTATAACCTTACAACACTTTATATTTTCT
195 AATTCACTACACGAATTGATTACCTTTCAAGCAAAGGTATAACCTTACAACACTTTATATTTCCT
*
1561617 AGGCTAAGATAAAAAACCTCACAATCTCTCCAAGAATTATACCCCAAATTCTTGAGAAATTGTAA
260 AGGCTAAGATAAAAAACCTCACAATCTCTCCAAGAATTATACCCCAAATCCTTGAGAAATTGTAA
1561682 CCCAAGGTTGAATGCAACCTTACACAATTCAAGAAAATTGTACAAACAAAAATTGCCTCTAAATA
325 CCCAAGGTTGAATGCAACCTTACACAATTCAAGAAAATTGTACAAACAAAAATTGCCTCTAAATA
1561747 GGCTGATGCTTGAGAAAGAATAAACACAAATCAAA
390 GGCTGATGCTTGAGAAAGAATAAACACAAATCAAA
1561782 TATAAAGAGC
Statistics
Matches: 396, Mismatches: 28, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
435 28 0.07
436 368 0.93
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (435 bp):
GATGGATGAACCAAAAGGGGGGTGAATTGGTTCTTTTCAAAATTCAAAGGTTTCATATGAATTGT
TTCGAAAACAACTTGAAAATAAAAAGAGTAGAGAAAAGAGAAAGCTCGACACAAGTGTTTATAGA
GGTTCGGTCTAAACACAACACCTATGTCCTCTCTCATCGACACTTTCTTGTCGAGTGTTACCACA
ATTCACTACACGAATTGATTACCTTTCAAGCAAAGGTATAACCTTACAACACTTTATATTTCCTA
GGCTAAGATAAAAAACCTCACAATCTCTCCAAGAATTATACCCCAAATCCTTGAGAAATTGTAAC
CCAAGGTTGAATGCAACCTTACACAATTCAAGAAAATTGTACAAACAAAAATTGCCTCTAAATAG
GCTGATGCTTGAGAAAGAATAAACACAAATCAAAATTTAAAGGCT
Found at i:1562101 original size:13 final size:13
Alignment explanation
Indices: 1562083--1562109 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1562073 CGTTCGGCAT
1562083 AATGTATCGATAC
1 AATGTATCGATAC
1562096 AATGTATCGATAC
1 AATGTATCGATAC
1562109 A
1 A
1562110 TTGTCCCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1565452 original size:52 final size:52
Alignment explanation
Indices: 1565367--1565488 Score: 199
Period size: 52 Copynumber: 2.3 Consensus size: 52
1565357 ATATGAAAAG
* * *
1565367 TTGCTTGCATGTATTGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1565419 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
1565471 TTGCCTACATGTATCGAT
1 TTGCCTGCATGTATCGAT
1565489 TCAAAGATCA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:1565502 original size:52 final size:52
Alignment explanation
Indices: 1565374--1565509 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 52
1565364 AAGTTGCTTG
* * * *
1565374 CATGTATTGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
***
1565426 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
*
1565478 CATGTATCGATTCA-AAGATCAATGTATCGATA
1 CATGTATCGATACATAAGAT-AATGTATCGATA
1565510 TAATGTATCG
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 4 0.05
52 70 0.95
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:1565516 original size:13 final size:13
Alignment explanation
Indices: 1565498--1565522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1565488 TTCAAAGATC
1565498 AATGTATCGATAT
1 AATGTATCGATAT
1565511 AATGTATCGATA
1 AATGTATCGATA
1565523 CATTTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1565602 original size:33 final size:33
Alignment explanation
Indices: 1565565--1565631 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1565555 AGTAGCTTAA
1565565 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1565598 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1565631 A
1 A
1565632 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1565605 original size:13 final size:13
Alignment explanation
Indices: 1565587--1565611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1565577 CAAAAAAATA
1565587 TGTATCGATACAT
1 TGTATCGATACAT
1565600 TGTATCGATACA
1 TGTATCGATACA
1565612 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1566866 original size:78 final size:79
Alignment explanation
Indices: 1566758--1566976 Score: 207
Period size: 78 Copynumber: 2.7 Consensus size: 79
1566748 ATCTCTTTGA
1566758 AGGGATACTCCAA--CCTTGCTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGGACTT-AA
1 AGGGATACTCCAACCCCTT--TTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGGACTTCAA
1566820 CAC-ATCTTTCCAAAA-
64 C-CGATCTTTCCAAAAC
* *** * * * **
1566835 AGGGAATACTTCAA-TTTTGTTTTTCTTACAAAAAATCTTAAATTTAAATTTTTGGGGATACTTC
1 AGGG-ATACTCCAACCCCT-TTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGG--ACTTC
1566899 AACCTGATCTTTCCAAAAC
62 AACC-GATCTTTCCAAAAC
* *
1566918 ATGGATAGTCCAACCCCTTTTTTCTTACGAAAAAAATCTTGAATTTACATTCTCAGGGA
1 AGGGATACTCCAACCCCTTTTTTCTTAC--AAAAAATCTTGAATTTACATTCTCAGGGA
1566977 TACTCCAACC
Statistics
Matches: 111, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
77 4 0.04
78 40 0.36
79 1 0.01
80 6 0.05
81 3 0.03
82 30 0.27
83 4 0.04
84 23 0.21
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (79 bp):
AGGGATACTCCAACCCCTTTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGGACTTCAACC
GATCTTTCCAAAAC
Found at i:1566986 original size:84 final size:79
Alignment explanation
Indices: 1566757--1567032 Score: 224
Period size: 82 Copynumber: 3.4 Consensus size: 79
1566747 CATCTCTTTG
* * *
1566757 AAGGG-ATACTCCAACCTTGCTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGG--ACTTA
1 AAGGGAATACTCCAACCCTGTTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGGATACTCA
1566819 ACACATCTTTCCAAA
66 AC-CATCTTTCCAAA
* *** * * * **
1566834 AAGGGAATACTTCAATTTTGTTTTTCTTACAAAAAATCTTAAATTTAAATTTTTGGGGATACTTC
1 AAGGGAATACTCCAACCCTGTTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGGATAC-TC
1566899 AACCTGATCTTTCCAAA
65 AACC--ATCTTTCCAAA
* *
1566916 ACATGG-ATAGTCCAACCCCT-TTTTTCTTACGAAAAAAATCTTGAATTTACATTCTCAGGGATA
1 A-AGGGAATACTCCAA-CCCTGTTTTTCTTAC--AAAAAATCTTGAATTTACATTCTCAGGGATA
1566979 CTCCAACCCAT-TTCTCCAAA
62 CT-CAA-CCATCTT-TCCAAA
* ** * * *
1566999 GAGGG-ATACTTTAACTCTATTTTTCATACAAAAA
1 AAGGGAATACTCCAACCCTGTTTTTCTTACAAAAA
1567033 GACTTGATTT
Statistics
Matches: 157, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
77 5 0.03
78 43 0.27
80 8 0.05
81 7 0.04
82 49 0.31
83 13 0.08
84 30 0.19
85 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (79 bp):
AAGGGAATACTCCAACCCTGTTTTTCTTACAAAAAATCTTGAATTTACATTCTCAGGGATACTCA
ACCATCTTTCCAAA
Found at i:1571408 original size:19 final size:19
Alignment explanation
Indices: 1571384--1571424 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
1571374 CTTTTTGAAT
1571384 ATAATCGGGTGTAATTAGG
1 ATAATCGGGTGTAATTAGG
*
1571403 ATAATCGGGTGTAATTGGG
1 ATAATCGGGTGTAATTAGG
1571422 ATA
1 ATA
1571425 TTTTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (19 bp):
ATAATCGGGTGTAATTAGG
Found at i:1576992 original size:13 final size:13
Alignment explanation
Indices: 1576952--1577004 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
1576942 CCGTTACAAG
1576952 CAATGTATCGATA
1 CAATGTATCGATA
1576965 CAA--T-TC-AT-
1 CAATGTATCGATA
1576973 C-ATGTATCGATA
1 CAATGTATCGATA
1576985 CAATGTATCGATA
1 CAATGTATCGATA
1576998 CAATGTA
1 CAATGTA
1577005 CCATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1576992 original size:33 final size:33
Alignment explanation
Indices: 1576952--1577020 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
1576942 CCGTTACAAG
*
1576952 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
1576985 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
1577018 CAA
1 CAA
1577021 ACAGTGACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:1577088 original size:13 final size:13
Alignment explanation
Indices: 1577070--1577096 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1577060 ACAATTGTCC
1577070 ATGTATCGATACA
1 ATGTATCGATACA
1577083 ATGTATCGATACA
1 ATGTATCGATACA
1577096 A
1 A
1577097 AGCATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1583837 original size:13 final size:13
Alignment explanation
Indices: 1583819--1583845 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1583809 ACATCTTGCT
1583819 TTGTATCGATACA
1 TTGTATCGATACA
1583832 TTGTATCGATACA
1 TTGTATCGATACA
1583845 T
1 T
1583846 GCTCACTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1583931 original size:33 final size:33
Alignment explanation
Indices: 1583894--1583960 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1583884 TTATCATTAT
*
1583894 TTGTATCGATACATGGT-ACAATGTATCAATACA
1 TTGTATCGATACATGATGA-AATGTATCAATACA
*
1583927 TTGTATCGATACATGATGAAATGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCAATACA
1583960 T
1 T
1583961 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCAATACA
Found at i:1590130 original size:13 final size:13
Alignment explanation
Indices: 1590112--1590137 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1590102 ACAACATTCC
1590112 TTGTATCGATACA
1 TTGTATCGATACA
1590125 TTGTATCGATACA
1 TTGTATCGATACA
1590138 GTGGGTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1592037 original size:18 final size:17
Alignment explanation
Indices: 1592009--1592046 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
1591999 TTAATATAGG
1592009 GGGAAATAACCGTTTAA
1 GGGAAATAACCGTTTAA
1592026 GGGAAGATAACCGTTTAA
1 GGGAA-ATAACCGTTTAA
1592044 GGG
1 GGG
1592047 GGAGAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.21
Consensus pattern (17 bp):
GGGAAATAACCGTTTAA
Found at i:1597338 original size:13 final size:13
Alignment explanation
Indices: 1597320--1597344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1597310 ATAGTAACCA
1597320 ATGTATCGATACG
1 ATGTATCGATACG
1597333 ATGTATCGATAC
1 ATGTATCGATAC
1597345 AAGGAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACG
Found at i:1597359 original size:20 final size:20
Alignment explanation
Indices: 1597334--1597385 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1597324 ATCGATACGA
1597334 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
1597354 TGTATCGATACAAGGAATAT
1 TGTATCGATACAAGGAATAT
1597374 TGTATCGATACA
1 TGTATCGATACA
1597386 TCTGGGTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAGGAATAT
Found at i:1603541 original size:20 final size:20
Alignment explanation
Indices: 1603499--1603542 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1603489 GTTACAAGCA
* *
1603499 ATGTATTGATACAATTCATC
1 ATGTATCGATACAATTCACC
1603519 ATGTATCGATACAATGT-ACC
1 ATGTATCGATACAAT-TCACC
1603539 ATGT
1 ATGT
1603543 GTCGTAACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:1606831 original size:20 final size:21
Alignment explanation
Indices: 1606806--1606860 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
1606796 TGTTAAAAGC
*
1606806 CATGTATCAATACAAT-TCAT
1 CATGTATCGATACAATGTCAT
*
1606826 CATGTATCGATACAATGTCCT
1 CATGTATCGATACAATGTCAT
1606847 -ATGTATCGATACAA
1 CATGTATCGATACAA
1606861 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.91
21 3 0.09
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (21 bp):
CATGTATCGATACAATGTCAT
Found at i:1606912 original size:20 final size:20
Alignment explanation
Indices: 1606887--1606924 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1606877 TACTGTCAGT
1606887 TTCATGTATCGATACAATTG
1 TTCATGTATCGATACAATTG
1606907 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
1606925 GCATCGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:1606960 original size:13 final size:13
Alignment explanation
Indices: 1606910--1607033 Score: 72
Period size: 13 Copynumber: 11.1 Consensus size: 13
1606900 ACAATTGTTC
1606910 ATGTATCGATACA
1 ATGTATCGATACA
*
1606923 ATGCATCGATAC-
1 ATGTATCGATACA
1606935 A---AT-GA-AC-
1 ATGTATCGATACA
1606942 ATGTATCGATACA
1 ATGTATCGATACA
*
1606955 ATGTATCAATACA
1 ATGTATCGATACA
*
1606968 A--T-T-G-TTC-
1 ATGTATCGATACA
1606975 ATGTATCGATACA
1 ATGTATCGATACA
1606988 ATGTATCGATAC-
1 ATGTATCGATACA
1607000 A---AT-GA-AC-
1 ATGTATCGATACA
1607007 ATGTATCGATACA
1 ATGTATCGATACA
*
1607020 ATGTATCAATACA
1 ATGTATCGATACA
1607033 A
1 A
1607034 AGCATAATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 36
0.67 0.05 0.28
Matches are distributed among these distances:
7 7 0.08
8 6 0.07
9 5 0.06
10 6 0.07
11 6 0.07
12 8 0.09
13 49 0.56
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1606969 original size:65 final size:65
Alignment explanation
Indices: 1606890--1607033 Score: 270
Period size: 65 Copynumber: 2.2 Consensus size: 65
1606880 TGTCAGTTTC
*
1606890 ATGTATCGATACAATTGTTCATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAATTGTTCATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
*
1606955 ATGTATCAATACAATTGTTCATGTATCGATACAATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAATTGTTCATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
1607020 ATGTATCAATACAA
1 ATGTATCAATACAA
1607034 AGCATAATGT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (65 bp):
ATGTATCAATACAATTGTTCATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
Found at i:1607044 original size:65 final size:65
Alignment explanation
Indices: 1606890--1607052 Score: 238
Period size: 65 Copynumber: 2.5 Consensus size: 65
1606880 TGTCAGTTTC
* * * *
1606890 ATGTATCGATACAATTGTTCATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAATAGATAATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
* * * *
1606955 ATGTATCAATACAATTGTTCATGTATCGATACAATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCAATACAATAGATAATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
1607020 ATGTATCAATACAA-AGCATAATGTATCGATACA
1 ATGTATCAATACAATAG-ATAATGTATCGATACA
1607053 TCTGGGTGTG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
64 1 0.01
65 91 0.99
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (65 bp):
ATGTATCAATACAATAGATAATGTATCGATACAATGCATCGATACAATGAACATGTATCGATACA
Found at i:1607495 original size:208 final size:208
Alignment explanation
Indices: 1607137--1607545 Score: 689
Period size: 208 Copynumber: 2.0 Consensus size: 208
1607127 ACCTATGTAT
** *
1607137 CGATACTTTGACGTATTTTTTACTTAAAAACGTTTAAATTAAGGTTCAAAAACATTTGTTTATAA
1 CGATACTTTGAAATATTTTTTACTTAAAAACATTTAAATTAAGGTTCAAAAACATTTGTTTATAA
*
1607202 CTATAAAAACTTCCATTGATAGAAAATTACTTAGAGCATGTTTTTAGAGTGTTTTTGAGTGAATA
66 CTATAAAAACTTCCATTGATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGTGAATA
*
1607267 AAACTTGTTTACGATTTTTCAAACATTTTTCGGTTTTATTCAATCTTT-CTATATCAAAACCAAG
131 AAACTTGTTTACGATTTTTCAAACATTTTTCGATTTTATTCAATCTTTGCTATATCAAAACCAAG
1607331 ATCCTAACAGTAC
196 ATCCTAACAGTAC
*
1607344 CGATACTTTGAAATATTTTTTACTTAAAAACATTTGAATTAAGGTTCAAAAACATTTGTTTATAA
1 CGATACTTTGAAATATTTTTTACTTAAAAACATTTAAATTAAGGTTCAAAAACATTTGTTTATAA
*
1607409 CTCT-AAAACTTCCATTGATATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGTGAA
66 CTATAAAAACTTCCATTG--ATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGTGAA
* *
1607473 TAAAACTTGTTTAC-AGTTTTTCAAACATTTTTCGATTTTATTCAATCTTTGTTATATCAAAACT
129 TAAAACTTGTTTACGA-TTTTTCAAACATTTTTCGATTTTATTCAATCTTTGCTATATCAAAACC
1607537 AAGATCCTA
193 AAGATCCTA
1607546 GCAGACTCAT
Statistics
Matches: 189, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
206 13 0.07
207 65 0.34
208 91 0.48
209 20 0.11
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (208 bp):
CGATACTTTGAAATATTTTTTACTTAAAAACATTTAAATTAAGGTTCAAAAACATTTGTTTATAA
CTATAAAAACTTCCATTGATAGAAAATTACTTAGAACATGTTTTTAGAGTGTTTTTGAGTGAATA
AAACTTGTTTACGATTTTTCAAACATTTTTCGATTTTATTCAATCTTTGCTATATCAAAACCAAG
ATCCTAACAGTAC
Found at i:1614682 original size:28 final size:28
Alignment explanation
Indices: 1614644--1614697 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
1614634 CCTTTTTCCC
1614644 TTTTTTAGTCCTCAAAAAGCAGGACATT
1 TTTTTTAGTCCTCAAAAAGCAGGACATT
*
1614672 TTTTTTAGTCCTCAAAAAGTAGGACA
1 TTTTTTAGTCCTCAAAAAGCAGGACA
1614698 CCTTCTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (28 bp):
TTTTTTAGTCCTCAAAAAGCAGGACATT
Found at i:1614712 original size:35 final size:35
Alignment explanation
Indices: 1614673--1614765 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
1614663 CAGGACATTT
1614673 TTTTTAGTCCTCAAAAAGTAGGACACCT-TCTTTCC
1 TTTTTAGTCCTCAAAAAGTAGGACACCTCT-TTTCC
** * * * * *
1614708 TTTTTAGTATTTAAAGAGTATGATACCTCTTTTTC
1 TTTTTAGTCCTCAAAAAGTAGGACACCTCTTTTCC
1614743 TTTTTAGTCCTCAAAAAGTAGGA
1 TTTTTAGTCCTCAAAAAGTAGGA
1614766 TGTTTTCCTG
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
35 44 0.98
36 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (35 bp):
TTTTTAGTCCTCAAAAAGTAGGACACCTCTTTTCC
Found at i:1614868 original size:32 final size:33
Alignment explanation
Indices: 1614832--1614900 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 33
1614822 AGCACGGCAT
* *
1614832 TTACCCTCCTT-AATCCTTAAAAAATAAGATGC
1 TTACCCTACTTCAATCCTCAAAAAATAAGATGC
* * *
1614864 TTA-CCTACTTCAATCCTCAAAGAGTAGGATGC
1 TTACCCTACTTCAATCCTCAAAAAATAAGATGC
1614896 TTACC
1 TTACC
1614901 AACCTAAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
31 6 0.20
32 23 0.77
33 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.30
Consensus pattern (33 bp):
TTACCCTACTTCAATCCTCAAAAAATAAGATGC
Found at i:1614918 original size:32 final size:32
Alignment explanation
Indices: 1614845--1615015 Score: 98
Period size: 32 Copynumber: 5.3 Consensus size: 32
1614835 CCCTCCTTAA
* * * * *
1614845 TCCTTAAAAAATAAGATGCTTACCTACTTCAA-
1 TCCTTAAAGAGTAGGATGCTTACCAACCT-AAG
*
1614877 TCCTCAAAGAGTAGGATGCTTACCAACCTAAG
1 TCCTTAAAGAGTAGGATGCTTACCAACCTAAG
* *
1614909 TCCTTAAAGAGTAAGGCA--CTTACTAACCTCAG
1 TCCTTAAAGAGT-AGG-ATGCTTACCAACCTAAG
* * * *
1614941 TCTTTAAAGAATAGGGTGCTTACTAACCTCAA-
1 TCCTTAAAGAGTAGGATGCTTACCAACCT-AAG
* * * * * * *
1614973 TCCTAAAAGAGAAAGATGCCTATCTACCTTAG
1 TCCTTAAAGAGTAGGATGCTTACCAACCTAAG
*
1615005 TCCTCAAAGAG
1 TCCTTAAAGAG
1615016 CAAGGCACTT
Statistics
Matches: 107, Mismatches: 25, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
31 6 0.06
32 96 0.90
33 4 0.04
34 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (32 bp):
TCCTTAAAGAGTAGGATGCTTACCAACCTAAG
Found at i:1614948 original size:96 final size:96
Alignment explanation
Indices: 1614848--1615055 Score: 247
Period size: 96 Copynumber: 2.2 Consensus size: 96
1614838 TCCTTAATCC
* * * * * *
1614848 TTAAAAAATAAGATGCTTACCT-ACTTCAATCCTCAAAGAGTAGGATGCTTACCAACCTAAGTCC
1 TTAAAAAATAGGATGCTTA-CTAACCTCAATCCTAAAAGAGAAAGATGCCTACCAACCTAAGTCC
* * * * *
1614912 TTAAAGAGTAAGGCACTTACTAACCTCAGTCT
65 TCAAAGAGCAAGGCACTTACCAACCTCACTCA
* * * * *
1614944 TTAAAGAATAGGGTGCTTACTAACCTCAATCCTAAAAGAGAAAGATGCCTATCTACCTTAGTCCT
1 TTAAAAAATAGGATGCTTACTAACCTCAATCCTAAAAGAGAAAGATGCCTACCAACCTAAGTCCT
1615009 CAAAGAGCAAGGCACTTACCAACCTCACTCA
66 CAAAGAGCAAGGCACTTACCAACCTCACTCA
*
1615040 TCAAAAAATAGGATGC
1 TTAAAAAATAGGATGC
1615056 CAACCTACCT
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
95 2 0.02
96 90 0.98
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (96 bp):
TTAAAAAATAGGATGCTTACTAACCTCAATCCTAAAAGAGAAAGATGCCTACCAACCTAAGTCCT
CAAAGAGCAAGGCACTTACCAACCTCACTCA
Found at i:1615717 original size:33 final size:33
Alignment explanation
Indices: 1615677--1615756 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
1615667 TAACATTTTC
* *
1615677 TTCAAAATCGACCTCATTCAAGCAAACATCTTA
1 TTCAAAATCGACCTCATTCAAGCAAACAACTCA
* *
1615710 TTTAAAATCGACCTCGTTCAAGCAAACAACTCA
1 TTCAAAATCGACCTCATTCAAGCAAACAACTCA
*
1615743 TTCAAAATCAACCT
1 TTCAAAATCGACCT
1615757 TTGAATCATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.40, C:0.28, G:0.06, T:0.26
Consensus pattern (33 bp):
TTCAAAATCGACCTCATTCAAGCAAACAACTCA
Found at i:1622546 original size:18 final size:20
Alignment explanation
Indices: 1622509--1622547 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
1622499 AAAAGATTGT
1622509 ATAAAATAAATATTAATAAA
1 ATAAAATAAATATTAATAAA
*
1622529 ATAAAA-AAA-ATTACTAAA
1 ATAAAATAAATATTAATAAA
1622547 A
1 A
1622548 AAGGGAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAATAAATATTAATAAA
Found at i:1627700 original size:52 final size:51
Alignment explanation
Indices: 1627622--1627770 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
1627612 CGAAATATGA
1627622 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
1627674 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
1627726 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1627771 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1627777 original size:13 final size:13
Alignment explanation
Indices: 1627759--1627783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1627749 CAAAGATCAG
1627759 TGTATCGATACAA
1 TGTATCGATACAA
1627772 TGTATCGATACA
1 TGTATCGATACA
1627784 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1627861 original size:33 final size:33
Alignment explanation
Indices: 1627824--1627890 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1627814 AGTAGCTTAA
1627824 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1627857 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1627890 A
1 A
1627891 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1627864 original size:13 final size:13
Alignment explanation
Indices: 1627846--1627870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1627836 CAAAAAAATA
1627846 TGTATCGATACAT
1 TGTATCGATACAT
1627859 TGTATCGATACA
1 TGTATCGATACA
1627871 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1628616 original size:22 final size:23
Alignment explanation
Indices: 1628577--1628629 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
1628567 GATTAAAACA
*
1628577 CAAAATTAAGCACCAAAT-ATAT
1 CAAAATTAAGCACAAAATCATAT
1628599 CAAAATTAAG-ACTAAAATCATAT
1 CAAAATTAAGCAC-AAAATCATAT
1628622 CAATAATT
1 CAA-AATT
1628630 CACAAACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 14 0.52
23 7 0.26
24 4 0.15
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (23 bp):
CAAAATTAAGCACAAAATCATAT
Found at i:1628685 original size:21 final size:20
Alignment explanation
Indices: 1628661--1628704 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1628651 TTTTTTTGGT
* *
1628661 TTTAGAAAAAAATTTCTCATA
1 TTTACAAAAAAATTGC-CATA
*
1628682 TTTACACAAAAATTGCCATA
1 TTTACAAAAAAATTGCCATA
1628702 TTT
1 TTT
1628705 TCTTATGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTACAAAAAAATTGCCATA
Found at i:1630078 original size:18 final size:19
Alignment explanation
Indices: 1630035--1630089 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
1630025 CTGCCAGTAT
**
1630035 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
1630055 CATGTATCGATACAAT-AA
1 CATGTATCGATACAATGAA
1630073 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1630090 TATCGATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 16 0.50
19 1 0.03
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1630092 original size:13 final size:13
Alignment explanation
Indices: 1630074--1630100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1630064 ATACAATAAC
1630074 ATGTATCGATACA
1 ATGTATCGATACA
1630087 ATGTATCGATACA
1 ATGTATCGATACA
1630100 A
1 A
1630101 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1636994 original size:15 final size:15
Alignment explanation
Indices: 1636976--1637010 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1636966 CAAGTCAACT
1636976 TCATCATTATCATCA
1 TCATCATTATCATCA
*
1636991 TCATCATTATCTTCA
1 TCATCATTATCATCA
1637006 TCATC
1 TCATC
1637011 TTTTATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:1638623 original size:20 final size:20
Alignment explanation
Indices: 1638598--1638651 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1638588 GTTTGGGACA
*
1638598 ATGTATCCATACAAT-TCCTC
1 ATGTATCGATACAATGTCC-C
*
1638618 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTCCC
1638638 ATGTATCGATACAA
1 ATGTATCGATACAA
1638652 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:1639278 original size:13 final size:13
Alignment explanation
Indices: 1639262--1639286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1639252 TTCTTTTTCT
1639262 TTTTATTTTTTTG
1 TTTTATTTTTTTG
1639275 TTTTATTTTTTT
1 TTTTATTTTTTT
1639287 CATGATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:1647532 original size:147 final size:148
Alignment explanation
Indices: 1647253--1647540 Score: 364
Period size: 147 Copynumber: 2.0 Consensus size: 148
1647243 TTTTAAAAAA
* * * * *
1647253 TTACAAAAATGCCCCTATGAGTATACCTTCGACATAAAAGTATCCCAGTAACCCTAAAGGATTTA
1 TTACAAAAATACCACTATGAGTATACCTTCAACATAAAAGTATCCCAGTAACCCTAAAAGACTTA
* * * * * *
1647318 AAAGGGATCATAAATGGGATGAATCTCTCCTAAATATCTACCTTTGACGTAAAAGCATCCAAGTG
66 AAAAGGATCATAAATGAGATGAATCTATCCTAAATACCCACCTTTGACATAAAAGCATCCAAGTG
*
1647383 ACAACCTAGGACTCAATT
131 ACAAACTAGGACTCAATT
* * * *
1647401 TTAC-AAAATACCACTATGGGTATACCTTCAACATGAAAGTATCTCGGTAACCCTAAAAGACTTA
1 TTACAAAAATACCACTATGAGTATACCTTCAACATAAAAGTATCCCAGTAACCCTAAAAGACTTA
* * * * *
1647465 AAAATGATTATAAATGAGATGAA-CTTATCCTAAATACCCATCTTTGACATAAAAGCATCCCATT
66 AAAAGGATCATAAATGAGATGAATC-TATCCTAAATACCCACCTTTGACATAAAAGCATCCAAGT
1647529 GACAAACTAGGA
130 GACAAACTAGGA
1647541 TTTGGCTCTA
Statistics
Matches: 118, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
146 1 0.01
147 113 0.96
148 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.26
Consensus pattern (148 bp):
TTACAAAAATACCACTATGAGTATACCTTCAACATAAAAGTATCCCAGTAACCCTAAAAGACTTA
AAAAGGATCATAAATGAGATGAATCTATCCTAAATACCCACCTTTGACATAAAAGCATCCAAGTG
ACAAACTAGGACTCAATT
Found at i:1647667 original size:58 final size:58
Alignment explanation
Indices: 1647562--1647672 Score: 186
Period size: 58 Copynumber: 1.9 Consensus size: 58
1647552 GAAAATTACG
*
1647562 AAAATGCCTTTATGGGTATACCTTTGACATGAAAGTATCTTGATAACCCTAAATTATA
1 AAAATGCCTTTATGGGTATACCTTTGACATGAAAGTATCTCGATAACCCTAAATTATA
* * *
1647620 AAAATGCCTTTATGGGTATACTTTTGACATGAAAGTATCTCGGTAACCTTAAA
1 AAAATGCCTTTATGGGTATACCTTTGACATGAAAGTATCTCGATAACCCTAAA
1647673 AGACAGAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (58 bp):
AAAATGCCTTTATGGGTATACCTTTGACATGAAAGTATCTCGATAACCCTAAATTATA
Found at i:1649812 original size:146 final size:147
Alignment explanation
Indices: 1649537--1649923 Score: 431
Period size: 146 Copynumber: 2.6 Consensus size: 147
1649527 AATCTAACTA
* * *
1649537 AAAAATTTACAGAGTAAAAAACTCTATACTTTAGA-AACATAAAAAATTATAAAACTCATAAAAT
1 AAAAATTTATAGAGTAGAAAACTCTATA-TTTAGATAATA-AAAAAATTATAAAACTCATAAAAT
* ** *
1649601 AAATTG-AATTTTTAAAACCGATTTAATATAAATCAAACAATAATATCTGAAGAATTTTAAAAAT
64 AAATTGAAATTTTCAAAATTGATTTAATATAAATCAAACAATAATATCTGAAGAATTATAAAAAT
* *
1649665 TATAAGCTTAG-CTATC-G
129 TATAAACTTAGACTACCAG
* * *
1649682 AAAAATTTATAGAGTAGAAAACTCCATATTTAGATAATAGAAAAAACTCTAAAACTCATAAAATA
1 AAAAATTTATAGAGTAGAAAACTCTATATTTAGATAATA-AAAAAATTATAAAACTCATAAAATA
* * * ** *
1649747 AATTGAAATTTTCAAAATTGATTTAATATGAATTAAACAATAATATTTTTAGAATTATGAAAATT
65 AATTGAAATTTTCAAAATTGATTTAATATAAATCAAACAATAATATCTGAAGAATTATAAAAATT
1649812 ATAAACTTAGAAAAATCCTACCAG
130 ATAAACTTAG----A--CTACCAG
* * * * * *
1649836 AGAAATTTATGGAGTAGAAAACTCTATATCTCGATAATAAAAAAATTTTAAAGCTCATAAAATAA
1 AAAAATTTATAGAGTAGAAAACTCTATATTTAGATAATAAAAAAATTATAAAACTCATAAAATAA
* *
1649901 ATTGAATTTTTCAAAATTTATTT
66 ATTGAAATTTTCAAAATTGATTT
1649924 TATGGTATTT
Statistics
Matches: 203, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
144 6 0.03
145 56 0.28
146 58 0.29
153 48 0.24
154 35 0.17
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (147 bp):
AAAAATTTATAGAGTAGAAAACTCTATATTTAGATAATAAAAAAATTATAAAACTCATAAAATAA
ATTGAAATTTTCAAAATTGATTTAATATAAATCAAACAATAATATCTGAAGAATTATAAAAATTA
TAAACTTAGACTACCAG
Found at i:1650968 original size:66 final size:65
Alignment explanation
Indices: 1650895--1651171 Score: 224
Period size: 66 Copynumber: 4.2 Consensus size: 65
1650885 GACTAGGGCA
* *
1650895 AAACCATCACATCAACTAAAAGGAGACTAAGGTGAAACCTTAGTTGAAAAGAAATTGACCAGGAT
1 AAACCATCACGTCAACTAAAAGGAGACTAAGGTGAAACCTTAG-TCAAAAGAAATTGACCAGGAT
1650960 G
65 G
* * * * * *
1650961 AAACCATCATGTCAAC-AAACGGGAGACGAGGGTGAAACCTAAGTCAAAAGAGATTGACCATGGC
1 AAACCATCACGTCAACTAAA-AGGAGACTAAGGTGAAACCTTAGTCAAAAGAAATTGACCA-GG-
1651025 A--
63 ATG
* * * * * ** **
1651026 AAACCATCATGTCAACT-AAATGTGACTAGGGTGAAACCTTAGTCAGAAAGAAGTTGAATAGGGC
1 AAACCATCACGTCAACTAAAAGGAGACTAAGGTGAAACCTTAGTCA-AAAGAAATTGACCAGGAT
*
1651090 A
65 G
* * ** *
1651091 AAATCATCACGTCAACTAAAAGGTA-ACCAAGGCAAAACC-TAGGTCAAAAAGAAGTTGACCAGG
1 AAACCATCACGTCAACTAAAAGG-AGACTAAGGTGAAACCTTA-GTC-AAAAGAAATTGACCAGG
*
1651154 GTG
63 ATG
1651157 AAACCATCACGTCAA
1 AAACCATCACGTCAA
1651172 GAAAGGGGTG
Statistics
Matches: 169, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
64 23 0.14
65 63 0.37
66 81 0.48
67 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (65 bp):
AAACCATCACGTCAACTAAAAGGAGACTAAGGTGAAACCTTAGTCAAAAGAAATTGACCAGGATG
Found at i:1651035 original size:65 final size:63
Alignment explanation
Indices: 1650866--1651110 Score: 217
Period size: 65 Copynumber: 3.7 Consensus size: 63
1650856 AGGACAAAAC
* * ** *
1650866 CCTAAGTCTAAAAGAGGTTGACTAGGGCAAAACCATCACATCAACTAAAAGGAGACTAAGGTGAA
1 CCTAAGTC-AAAAGAGATTGACCA-GGCAAAACCATCATGTCAACT-AAAGGAGACTAGGGTGAA
1650931 A
63 A
* * * *
1650932 CCTTAGTTGAAAAGAAATTGACCAGG-ATGAAACCATCATGTCAAC-AAACGGGAGACGAGGGTG
1 CCTAAG-TCAAAAGAGATTGACCAGGCA--AAACCATCATGTCAACTAAA--GGAGACTAGGGTG
1650995 AAA
61 AAA
* *
1650998 CCTAAGTCAAAAGAGATTGACCATGGCAAAACCATCATGTCAACTAAATGTGACTAGGGTGAAA
1 CCTAAGTCAAAAGAGATTGACCA-GGCAAAACCATCATGTCAACTAAAGGAGACTAGGGTGAAA
* ** * *
1651062 CCTTAGTCAGAAAGA-AGTTGAATAGGGCAAAATCATCACGTCAACTAAA
1 CCTAAGTCA-AAAGAGA-TTGACCA-GGCAAAACCATCATGTCAACTAAA
1651111 AGGTAACCAA
Statistics
Matches: 148, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
64 26 0.18
65 65 0.44
66 55 0.37
67 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (63 bp):
CCTAAGTCAAAAGAGATTGACCAGGCAAAACCATCATGTCAACTAAAGGAGACTAGGGTGAAA
Found at i:1651190 original size:66 final size:65
Alignment explanation
Indices: 1650829--1651215 Score: 162
Period size: 66 Copynumber: 5.9 Consensus size: 65
1650819 TCCAAGGTGG
* * * * *
1650829 AACCATAACGTCAACTAACAGGTGAA-C-AGGACAAAACCCTAAGTCTAAAAGAGGTTG-ACTAG
1 AACCATCACGTCAACGAAAAGGT-AACCAAGG-CAAAA-CCT-AGTCAAAAAGAAGTTGAAC-AG
1650891 GGCAA
61 GGCAA
* * * ** ** * * **
1650896 AACCATCACATCAACTAAAAGG-AGACTAAGGTGAAACCTTAGTTGAAAAGAAATTGACCAGGAT
1 AACCATCACGTCAACGAAAAGGTA-ACCAAGGCAAAACC-TAGTCAAAAAGAAGTTGAACAGGGC
*
1650960 GA
64 AA
* * * * * ** * *
1650962 AACCATCATGTCAAC-AAACGGGAGACGAGGGTGAAACCTAAGTC-AAAAG-AGATTGACCATGG
1 AACCATCACGTCAACGAAAAGGTA-ACCAAGGCAAAACCT-AGTCAAAAAGAAG-TTGAACAGGG
1651024 CAA
63 CAA
* * * * * * ** * *
1651027 AACCATCATGTCAAC-TAAATGTGACTAGGGTGAAACCTTAGTCAGAAAGAAGTTGAATAGGGCA
1 AACCATCACGTCAACGAAAAGGTAACCAAGGCAAAACC-TAGTCAAAAAGAAGTTGAACAGGGCA
1651091 A
65 A
* * * **
1651092 AATCATCACGTCAACTAAAAGGTAACCAAGGCAAAACCTAGGTCAAAAAGAAGTTGACCAGGGTG
1 AACCATCACGTCAACGAAAAGGTAACCAAGGCAAAACCTA-GTCAAAAAGAAGTTGAACAGGGCA
1651157 A
65 A
* * * * * *
1651158 AACCATCACGTCAA-GAAAGGGGTGACCTAGGCAAAACTTAAGTCGAAAAGAGGTTGAA
1 AACCATCACGTCAACGAAA-AGGTAACCAAGGCAAAACCT-AGTCAAAAAGAAGTTGAA
1651216 TAACATTTGA
Statistics
Matches: 247, Mismatches: 58, Indels: 31
0.74 0.17 0.09
Matches are distributed among these distances:
64 18 0.07
65 72 0.29
66 129 0.52
67 25 0.10
68 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (65 bp):
AACCATCACGTCAACGAAAAGGTAACCAAGGCAAAACCTAGTCAAAAAGAAGTTGAACAGGGCAA
Found at i:1651738 original size:78 final size:77
Alignment explanation
Indices: 1651658--1651817 Score: 180
Period size: 77 Copynumber: 2.1 Consensus size: 77
1651648 GTTTCCTCAT
* * *
1651658 TTTTCCATTAACAGTCAAAAAAATATTGATGATAAGTTAGAAAAG-AA-GAACATAATAGGGAAT
1 TTTTCCACTAACAGTCAAAAAAA-ATTGATAATAAGCTA-AAAAGAAAGGAACATAATAGGGAAT
1651721 ATATAGTTTCTAAA
64 ATATAGTTTCTAAA
* * * * * * *
1651735 TTTTCTACTAACAGTTAAAACAAATTGGTAATACGCTAAAAAGAAAGGAACCTGATAGGGAATAT
1 TTTTCCACTAACAGTCAAAAAAAATTGATAATAAGCTAAAAAGAAAGGAACATAATAGGGAATAT
*
1651800 GTAGTTTCTAAAA
66 ATAGTTTCT-AAA
1651813 TTTTC
1 TTTTC
1651818 ACCAATGCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
75 5 0.07
76 13 0.19
77 43 0.62
78 8 0.12
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (77 bp):
TTTTCCACTAACAGTCAAAAAAAATTGATAATAAGCTAAAAAGAAAGGAACATAATAGGGAATAT
ATAGTTTCTAAA
Found at i:1652238 original size:21 final size:21
Alignment explanation
Indices: 1652214--1652253 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1652204 AACAAAAGAC
*
1652214 ACAAAGGTATGAATGAAAATG
1 ACAAAGGTATAAATGAAAATG
*
1652235 ACAAAGTTATAAATGAAAA
1 ACAAAGGTATAAATGAAAA
1652254 AGTGGCGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (21 bp):
ACAAAGGTATAAATGAAAATG
Found at i:1652594 original size:17 final size:17
Alignment explanation
Indices: 1652572--1652604 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
1652562 TTTTTAACAC
1652572 TTTTTTTT--ATTTTTT
1 TTTTTTTTCAATTTTTT
1652587 TTTTTTTTCAATTTTTT
1 TTTTTTTTCAATTTTTT
1652604 T
1 T
1652605 AGACATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTTCAATTTTTT
Done.