Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 68 of 202
Found at i:19993148 original size:31 final size:31
Alignment explanation
Indices: 19993106--19993179 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
19993096 CTTAACAACC
*
19993106 TAGTGATTTAAATAAAAAAATTTAAATAGTT
1 TAGTGACTTAAATAAAAAAATTTAAATAGTT
* ** *
19993137 TAGTGACTTAAATGAAAAGTTTTGAATAGTT
1 TAGTGACTTAAATAAAAAAATTTAAATAGTT
*
19993168 TAATGAC-TAAAT
1 TAGTGACTTAAAT
19993180 TTTAACTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 5 0.14
31 32 0.86
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.38
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAAAATTTAAATAGTT
Found at i:20006541 original size:26 final size:26
Alignment explanation
Indices: 20006496--20006557 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
20006486 AATTAAATTA
20006496 AATTAAATT-AAATACTATATAATGT
1 AATTAAATTAAAATACTATATAATGT
* **
20006521 GATTAAATTAAAATGTTATATAATGT
1 AATTAAATTAAAATACTATATAATGT
20006547 AATTAAATTAA
1 AATTAAATTAA
20006558 GTTAATAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (26 bp):
AATTAAATTAAAATACTATATAATGT
Found at i:20009652 original size:21 final size:22
Alignment explanation
Indices: 20009612--20009653 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20009602 CTTTTTTTAA
* *
20009612 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAAGAAGAAAAAAAAT
20009634 AATCG-AAAGAAGAAAAAAAA
1 AATCGTAAAGAAGAAAAAAAA
20009654 AAGTAAGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AATCGTAAAGAAGAAAAAAAAT
Found at i:20009861 original size:19 final size:19
Alignment explanation
Indices: 20009823--20009955 Score: 167
Period size: 19 Copynumber: 6.8 Consensus size: 19
20009813 AAATTAAATC
*
20009823 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
*
20009843 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
20009862 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
20009881 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
20009902 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
20009921 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
20009940 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
20009956 CTCAAAAATT
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
19 74 0.73
20 10 0.10
21 17 0.17
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:20009906 original size:40 final size:40
Alignment explanation
Indices: 20009823--20009955 Score: 202
Period size: 38 Copynumber: 3.4 Consensus size: 40
20009813 AAATTAAATC
* *
20009823 TCTAAGATTACAAAATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGC-ATATCATATCTAAGATTGCATATATCATA
20009862 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
*
20009902 TCTAAGATTGCATATCATATCTAGGATTGC--ATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
20009940 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
20009956 CTCAAAAATT
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
38 40 0.45
39 10 0.11
40 39 0.44
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:20009906 original size:59 final size:59
Alignment explanation
Indices: 20009823--20009954 Score: 212
Period size: 59 Copynumber: 2.3 Consensus size: 59
20009813 AAATTAAATC
* * *
20009823 TCTAAGATTACA-AAATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
20009881 TCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
20009940 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
20009955 CCTCAAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 11 0.16
59 57 0.84
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (59 bp):
TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:20012520 original size:172 final size:172
Alignment explanation
Indices: 20012214--20012560 Score: 622
Period size: 172 Copynumber: 2.0 Consensus size: 172
20012204 AATGCAGAGT
* * *
20012214 ACAAATATCTACAATCTCTCATCAGTCATTCCAAATTGTTTCACAAGTAGATAATACAGCTCAAT
1 ACAAATATCCACAATATCTAATCAGTCATTCCAAATTGTTTCACAAGTAGATAATACAGCTCAAT
* * *
20012279 ATCAGAATAAGTATCATAGTATGCATACAATTATGTTATTCATACGTCCATCACAGAGTATCGGA
66 ATAAGAATAAGTATCATAGTACGCATACAATTATGTTATTCATACGTCCATCACAGAGTATCAGA
20012344 GAGTTCTCGTATAATCAAATTCAAATCATTCATGTATTGGGG
131 GAGTTCTCGTATAATCAAATTCAAATCATTCATGTATTGGGG
*
20012386 ACAAATGTCCACAATATCTAATCAGTCATTCCAAATTGTTTCACAAGTAGATAATACAGCTCAAT
1 ACAAATATCCACAATATCTAATCAGTCATTCCAAATTGTTTCACAAGTAGATAATACAGCTCAAT
*
20012451 ATAAGAATAAGTATCATAGTACGTATACAATTATGTTATTCATACGTCCATCACAGAGTATCAGA
66 ATAAGAATAAGTATCATAGTACGCATACAATTATGTTATTCATACGTCCATCACAGAGTATCAGA
20012516 GAGTTCTCGTATAATCAAATTCAAATCATTCATGTATTGGGG
131 GAGTTCTCGTATAATCAAATTCAAATCATTCATGTATTGGGG
20012558 ACA
1 ACA
20012561 TCAATATCAG
Statistics
Matches: 167, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
172 167 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.31
Consensus pattern (172 bp):
ACAAATATCCACAATATCTAATCAGTCATTCCAAATTGTTTCACAAGTAGATAATACAGCTCAAT
ATAAGAATAAGTATCATAGTACGCATACAATTATGTTATTCATACGTCCATCACAGAGTATCAGA
GAGTTCTCGTATAATCAAATTCAAATCATTCATGTATTGGGG
Found at i:20019588 original size:25 final size:26
Alignment explanation
Indices: 20019539--20019588 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
20019529 AATTCTCATC
* *
20019539 CTTTTCATTTCATATATGCATATTAAT
1 CTTTTCATTTCA-ATATGAACATTAAT
20019566 CTTTTCATTTC-ATATGAACATTA
1 CTTTTCATTTCAATATGAACATTA
20019589 GTAACATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
27 11 0.52
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.50
Consensus pattern (26 bp):
CTTTTCATTTCAATATGAACATTAAT
Found at i:20029719 original size:60 final size:60
Alignment explanation
Indices: 20029621--20029739 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
20029611 CGACACTATA
* *
20029621 TGGTATGTAGGGATGGGTGGATTTTTTTAAACCCACATGGTGTGATGGGATGGACGGAGT
1 TGGTATGTAGGGATGGGTGGATGTTTTTAAACCCACATGGTATGATGGGATGGACGGAGT
* * *
20029681 TGGTGTGTAGGGATGGGTGGGTGTTTTTAACCCCACATGGTATGATGGGATGGACGGAG
1 TGGTATGTAGGGATGGGTGGATGTTTTTAAACCCACATGGTATGATGGGATGGACGGAG
20029740 ATGGATGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.20, C:0.09, G:0.40, T:0.30
Consensus pattern (60 bp):
TGGTATGTAGGGATGGGTGGATGTTTTTAAACCCACATGGTATGATGGGATGGACGGAGT
Found at i:20040013 original size:30 final size:30
Alignment explanation
Indices: 20039923--20040014 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 30
20039913 AATGTAATGT
* * * *
20039923 TCACACAAGCTGACAGTATTTTAGGGTTGC
1 TCACACAAGCTGACATTATATTAAGGTTTC
* * * *
20039953 TCACACAAGTTGACATTGTAAT-CGGATTTC
1 TCACACAAGCTGACATTATATTAAGG-TTTC
*
20039983 TCACACAAGCTAACATTATATTAAGGTTTC
1 TCACACAAGCTGACATTATATTAAGGTTTC
20040013 TC
1 TC
20040015 GCACGGGCTA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
29 2 0.04
30 44 0.92
31 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (30 bp):
TCACACAAGCTGACATTATATTAAGGTTTC
Found at i:20041665 original size:18 final size:18
Alignment explanation
Indices: 20041642--20041677 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20041632 AAATAACTCT
20041642 AATTAATCTAAACAAGAA
1 AATTAATCTAAACAAGAA
20041660 AATTAATCTAAACAAGAA
1 AATTAATCTAAACAAGAA
20041678 GTAGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (18 bp):
AATTAATCTAAACAAGAA
Found at i:20043800 original size:2 final size:2
Alignment explanation
Indices: 20043793--20043834 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
20043783 AAATTATTAA
* *
20043793 AT AT AT AT AA AT AT AT AT AT AT AT AT AT GT A- AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
20043835 TTACAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:20043805 original size:10 final size:10
Alignment explanation
Indices: 20043769--20043820 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
20043759 ATGTATGTCC
*
20043769 ATATACATAT
1 ATATAAATAT
20043779 -TATAAA-AT
1 ATATAAATAT
20043787 -TATTAAATAT
1 ATA-TAAATAT
20043797 ATATAAATAT
1 ATATAAATAT
*
20043807 ATATATATAT
1 ATATAAATAT
20043817 ATAT
1 ATAT
20043821 GTAAGTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 4 0.11
9 9 0.24
10 22 0.59
11 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATAAATAT
Found at i:20043979 original size:3 final size:3
Alignment explanation
Indices: 20043965--20044080 Score: 153
Period size: 3 Copynumber: 37.7 Consensus size: 3
20043955 TAAATGGGTA
* *
20043965 AAT AAA AAT AAT AAT AAGGT AAGT AAT AAT AAT AACT -AC AAT AAT AAT
1 AAT AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AA-T AAT AAT AAT AAT
* *
20044013 GAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20044061 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
20044081 ACAACTAATT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
3 93 0.92
4 5 0.05
5 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:20046073 original size:6 final size:6
Alignment explanation
Indices: 20046051--20046092 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
20046041 AAATTTAGAA
20046051 TTAATCT TTATATT TTAATT TTATATT TTAATT TTAATT TTA
1 TTAAT-T TTA-ATT TTAATT TTA-ATT TTAATT TTAATT TTA
20046093 GAATTAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 18 0.55
7 13 0.39
8 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:20046073 original size:13 final size:13
Alignment explanation
Indices: 20046051--20046092 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
20046041 AAATTTAGAA
20046051 TTAATCTTTATATT
1 TTAAT-TTTATATT
20046065 TTAATTTTATATT
1 TTAATTTTATATT
20046078 TTAATTTTA-ATT
1 TTAATTTTATATT
20046090 TTA
1 TTA
20046093 GAATTAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.21
13 17 0.61
14 5 0.18
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
TTAATTTTATATT
Found at i:20050121 original size:24 final size:24
Alignment explanation
Indices: 20050092--20050137 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
20050082 CACAAACTCA
20050092 AACACAGGACCTCCAACACACTTG
1 AACACAGGACCTCCAACACACTTG
20050116 AACACAGGACCTCCAACACACT
1 AACACAGGACCTCCAACACACT
20050138 GACTCTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.39, G:0.11, T:0.11
Consensus pattern (24 bp):
AACACAGGACCTCCAACACACTTG
Found at i:20056352 original size:22 final size:22
Alignment explanation
Indices: 20056326--20056370 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20056316 ATTATGTGTA
20056326 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
20056348 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
20056370 T
1 T
20056371 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:20061910 original size:18 final size:18
Alignment explanation
Indices: 20061887--20061921 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20061877 GAATTTTGAT
20061887 CCCACATGCCCGTGTGGA
1 CCCACATGCCCGTGTGGA
*
20061905 CCCACATGTCCGTGTGG
1 CCCACATGCCCGTGTGG
20061922 CTCACACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.37, G:0.29, T:0.20
Consensus pattern (18 bp):
CCCACATGCCCGTGTGGA
Found at i:20068220 original size:2 final size:2
Alignment explanation
Indices: 20068213--20068247 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20068203 TTTGAAAGGT
20068213 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20068248 CCAAATGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20068422 original size:7 final size:7
Alignment explanation
Indices: 20068407--20068448 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
20068397 TCTTCTAGAC
*
20068407 TTTCCTT
1 TTTCTTT
20068414 TTTCTTT
1 TTTCTTT
20068421 TTTCTTT
1 TTTCTTT
20068428 TTTCTTT
1 TTTCTTT
20068435 TTT-TTT
1 TTTCTTT
20068441 TTT-TTT
1 TTTCTTT
20068447 TT
1 TT
20068449 GTATAGGACT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 11 0.32
7 23 0.68
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTCTTT
Found at i:20074936 original size:18 final size:17
Alignment explanation
Indices: 20074893--20074933 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
20074883 AATTTTATAT
20074893 ATTTTTTATTTATTGAA
1 ATTTTTTATTTATTGAA
20074910 ATTTTTTATTTATTGAA
1 ATTTTTTATTTATTGAA
20074927 ATTTTTT
1 ATTTTTT
20074934 TATATAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTTTATTTATTGAA
Found at i:20075369 original size:60 final size:61
Alignment explanation
Indices: 20075293--20075408 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 61
20075283 ATTTGGTATC
* *
20075293 TGAACTTGACATTTTCTTCTAATTTGGTACCTAAACTTTTTTTT-GGTCCAATTTGATACT
1 TGAACTTGACACTTTCTCCTAATTTGGTACCTAAACTTTTTTTTAGGTCCAATTTGATACT
* * *
20075353 TGAACTTGGCACTTTCTCCTAATTTGGTACCTAAGCTTTTTTTTAGGTTCAATTTG
1 TGAACTTGACACTTTCTCCTAATTTGGTACCTAAACTTTTTTTTAGGTCCAATTTG
20075409 GTACCTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 40 0.80
61 10 0.20
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (61 bp):
TGAACTTGACACTTTCTCCTAATTTGGTACCTAAACTTTTTTTTAGGTCCAATTTGATACT
Found at i:20075890 original size:30 final size:31
Alignment explanation
Indices: 20075854--20075916 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
20075844 GGCCCTCAAA
*
20075854 AAGTTTAAGTACCAACTT-AGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
*
20075884 AAGTTTATGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
20075915 AA
1 AA
20075917 CTTCAGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAAGAAAAAGTGTC
Found at i:20075931 original size:31 final size:31
Alignment explanation
Indices: 20075862--20075931 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
20075852 AAAAGTTTAA
* * * *
20075862 GTACCAACTT-AGAAAAAGTGTCAAGTTTAT
1 GTACCAAATTAAGAAAAAGTGTCAACTTCAG
20075892 GTACCAAATTAAGAAAAAGTGTCAACTTCAG
1 GTACCAAATTAAGAAAAAGTGTCAACTTCAG
*
20075923 GTATCAAAT
1 GTACCAAAT
20075932 GTTATATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (31 bp):
GTACCAAATTAAGAAAAAGTGTCAACTTCAG
Found at i:20082454 original size:2 final size:2
Alignment explanation
Indices: 20082449--20082483 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
20082439 TATCTTTAAG
20082449 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20082484 AGTAAGGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20085697 original size:20 final size:20
Alignment explanation
Indices: 20085651--20085697 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
20085641 AAATCATTGC
*
20085651 AATATATGTAAAAATAATTT
1 AATATATATAAAAATAATTT
20085671 AA-A-ATATAAAAA-AATATT
1 AATATATATAAAAATAAT-TT
20085689 AATATATAT
1 AATATATAT
20085698 TAATATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 2 0.09
20 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATATATATAAAAATAATTT
Found at i:20085848 original size:34 final size:35
Alignment explanation
Indices: 20085790--20085856 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
20085780 CAAACACCAG
20085790 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
20085825 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
20085857 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:20090193 original size:6 final size:6
Alignment explanation
Indices: 20090182--20090229 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
20090172 TAAGCTGAGT
20090182 CTATTA CTATTA CTATTA CTATTA CTATTA CTATTA CTATTA CTATTA
1 CTATTA CTATTA CTATTA CTATTA CTATTA CTATTA CTATTA CTATTA
20090230 TTTTGGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
CTATTA
Found at i:20104702 original size:3 final size:3
Alignment explanation
Indices: 20104683--20104763 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
20104673 TATATATAAA
* * * **
20104683 TAT TAT ATAT ATAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T TA-
1 TAT TAT -TAT -TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
20104729 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20104764 AATAAAGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
2 4 0.06
3 53 0.82
4 8 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:20105225 original size:10 final size:10
Alignment explanation
Indices: 20105207--20105248 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
20105197 AACATAAAGT
*
20105207 AAATAAAATA
1 AAATGAAATA
20105217 AAATGAAATA
1 AAATGAAATA
**
20105227 AAA-GAAAGC
1 AAATGAAATA
20105236 AAATGAAATA
1 AAATGAAATA
20105246 AAA
1 AAA
20105249 AGAAGAAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (10 bp):
AAATGAAATA
Found at i:20105340 original size:17 final size:18
Alignment explanation
Indices: 20105308--20105342 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20105298 GAGAAAGAAA
20105308 GAAAGAAAAAGAAAAAGT
1 GAAAGAAAAAGAAAAAGT
*
20105326 GAAAG-AAAGGAAAAAGT
1 GAAAGAAAAAGAAAAAGT
20105343 AGGGTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.06
Consensus pattern (18 bp):
GAAAGAAAAAGAAAAAGT
Found at i:20105537 original size:3 final size:3
Alignment explanation
Indices: 20105529--20105585 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
20105519 GTGAGGTAAG
*
20105529 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
20105577 TTT TAT TAT
1 TAT TAT TAT
20105586 GAGTGGGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:20110423 original size:26 final size:26
Alignment explanation
Indices: 20110393--20110446 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
20110383 TATTCAAGAA
**
20110393 ATGAAAAAGGCTTGATTGAAA-ACTTG
1 ATGAAAAACACTTGA-TGAAAGACTTG
20110419 ATGAAAAACACTTGATGAAAGACTTG
1 ATGAAAAACACTTGATGAAAGACTTG
20110445 AT
1 AT
20110447 TAATGAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.26
Consensus pattern (26 bp):
ATGAAAAACACTTGATGAAAGACTTG
Found at i:20112468 original size:27 final size:27
Alignment explanation
Indices: 20112424--20112480 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
20112414 TTTCCTCCGT
*
20112424 ATTTTTAACTCCAGAAGC-GAGATTAAG
1 ATTTTTAACTCCACAAGCGGA-ATTAAG
*
20112451 ATTTTTAACTCTACAAGCGGAATTAAG
1 ATTTTTAACTCCACAAGCGGAATTAAG
20112478 ATT
1 ATT
20112481 ATTTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (27 bp):
ATTTTTAACTCCACAAGCGGAATTAAG
Found at i:20112785 original size:19 final size:20
Alignment explanation
Indices: 20112761--20112803 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
20112751 ATTGCAGTTT
20112761 GCATACATTACAAGTC-TTA
1 GCATACATTACAAGTCTTTA
20112780 GCATACATTACAAGTCTTTA
1 GCATACATTACAAGTCTTTA
20112800 GCAT
1 GCAT
20112804 CATCCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
GCATACATTACAAGTCTTTA
Found at i:20123905 original size:8 final size:8
Alignment explanation
Indices: 20123892--20123924 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
20123882 TTTAAATGAC
20123892 ATTTTATT
1 ATTTTATT
20123900 ATTTTATT
1 ATTTTATT
20123908 ATTATTATT
1 ATT-TTATT
20123917 ATTTTATT
1 ATTTTATT
20123925 TAGTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:20128327 original size:68 final size:69
Alignment explanation
Indices: 20128251--20128381 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 69
20128241 TTTTAATAGT
* * * *
20128251 TTAATATTAAATTAAATTTAATACTTATTTTAAT-AGTGTTTTATTAATTTAATATTAAAGTGAC
1 TTAATATTAAATTAAATTTAATACTTATCTTAATAAGTATTATATTAATTTAAAATTAAAGTGAC
20128315 TATC
66 TATC
* ** *
20128319 TTAATATTAAATTTAATTTAATGTTTATCTTGATAAGTATTATATTAATTTAAAATTAAAGTG
1 TTAATATTAAATTAAATTTAATACTTATCTTAATAAGTATTATATTAATTTAAAATTAAAGTG
20128382 GTTAAGTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
68 29 0.54
69 25 0.46
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTAAATTTAATACTTATCTTAATAAGTATTATATTAATTTAAAATTAAAGTGAC
TATC
Found at i:20128530 original size:23 final size:25
Alignment explanation
Indices: 20128482--20128529 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
20128472 AGTTGTAGAA
20128482 AGAAAATTCTTTGAAGAGATTATTTT
1 AGAAAATTCTTT-AAGAGATTATTTT
20128508 AGAAAATT-TTT-AGAGA-TATTTT
1 AGAAAATTCTTTAAGAGATTATTTT
20128530 TCTGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 3 0.14
26 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (25 bp):
AGAAAATTCTTTAAGAGATTATTTT
Found at i:20129906 original size:27 final size:28
Alignment explanation
Indices: 20129873--20129942 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
20129863 GACAAAATCC
*
20129873 AAACTTTTCAATGGA-T-TGAATTGAGT
1 AAACTTTTCAATGAATTGTGAATTGAGT
**
20129899 AAATCTTTTTTATGAATTGTGAATTGAGT
1 AAA-CTTTTCAATGAATTGTGAATTGAGT
20129928 AAACTTTTCAATGAA
1 AAACTTTTCAATGAA
20129943 GTAAGGTGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.08
27 9 0.25
28 11 0.31
29 13 0.36
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (28 bp):
AAACTTTTCAATGAATTGTGAATTGAGT
Found at i:20130394 original size:9 final size:9
Alignment explanation
Indices: 20130380--20130410 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20130370 GTTAAACGAA
20130380 TCGAGTTAT
1 TCGAGTTAT
*
20130389 TCGAGTTAA
1 TCGAGTTAT
20130398 TCGAGTTAT
1 TCGAGTTAT
20130407 TCGA
1 TCGA
20130411 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:20132643 original size:22 final size:22
Alignment explanation
Indices: 20132615--20132660 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
20132605 TGGTTTTTGG
20132615 TTTTGGGTGAATGGTTTAGGGT
1 TTTTGGGTGAATGGTTTAGGGT
20132637 TTTTGGGTGAATGGTTTAGGGT
1 TTTTGGGTGAATGGTTTAGGGT
20132659 TT
1 TT
20132661 AGGGTTAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (22 bp):
TTTTGGGTGAATGGTTTAGGGT
Found at i:20133175 original size:126 final size:126
Alignment explanation
Indices: 20132950--20133493 Score: 849
Period size: 126 Copynumber: 4.3 Consensus size: 126
20132940 TTGTTAATTT
* * * *
20132950 AAAGAAGCTCCCACGTGGACGTGTTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
20133015 GTTTCTGAGCAAATAGTGTCAAAAACGCTTT-AGTTAGGATGCTTTGTTAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAG-CAGGATGCTTTGTTAGCAAAAGTACTG
* * *
20133076 AAAGAAGCTCCCACGTGGACGCGCTTTTCCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
20133141 GTTTCTGAGCAAATAGTGTAAAAAACGCTTT-AGTTAGGATGCATTGTTAGCAAAAGTATTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAG-CAGGATGCTTTGTTAGCAAAAGTACTG
* * * *
20133202 AAATAAGCTCCCATGTGGATGAGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * * *
20133267 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAAAAGCATTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTG
20133328 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
20133393 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAATACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTG
* *
20133454 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGCT
1 AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCT
20133494 TCTGTTAGGC
Statistics
Matches: 386, Mismatches: 31, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
126 384 0.99
127 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGAGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTG
Found at i:20136571 original size:33 final size:32
Alignment explanation
Indices: 20136532--20136630 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 32
20136522 TATAATCTAT
* *
20136532 TAAAAATATTAAAGTAAATTACAATTGGTACA
1 TAAAAATGTAAAAGTAAATTACAATTGGTACA
* * * *
20136564 TAGAAAATGTAAAAG--AATTTCTATT-ATA-T
1 TA-AAAATGTAAAAGTAAATTACAATTGGTACA
20136593 TAAAAATGTAAAAGTAAATTACAATTGGTACA
1 TAAAAATGTAAAAGTAAATTACAATTGGTACA
20136625 TAAAAA
1 TAAAAA
20136631 ATCTAATCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 12 0.23
29 2 0.04
30 10 0.19
31 10 0.19
32 8 0.15
33 10 0.19
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (32 bp):
TAAAAATGTAAAAGTAAATTACAATTGGTACA
Found at i:20136571 original size:49 final size:50
Alignment explanation
Indices: 20136516--20136651 Score: 121
Period size: 61 Copynumber: 2.5 Consensus size: 50
20136506 CTTATTTAAA
20136516 AGAAAATATAATCTATTAAAAATATT-AAAGTAAATTACAATTGGTACAT
1 AGAAAATATAATCTATTAAAAATATTAAAAGTAAATTACAATTGGTACAT
* *
20136565 AGAAAATGTAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGGTACAT
1 AGAAAA--T---ATAA--TCTATTA-A--AAATAT-TAAAAGTAAATTACAATTGGTACAT
* * *
20136626 AAAAAATCTAATCTATTAAACATATT
1 AGAAAATATAATCTATTAAAAATATT
20136652 GCCTTATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
49 6 0.09
50 1 0.01
51 5 0.07
53 1 0.01
54 10 0.15
56 9 0.13
57 1 0.01
59 6 0.09
60 1 0.01
61 28 0.41
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (50 bp):
AGAAAATATAATCTATTAAAAATATTAAAAGTAAATTACAATTGGTACAT
Found at i:20136577 original size:61 final size:61
Alignment explanation
Indices: 20136512--20136632 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
20136502 TTGACTTATT
* * *
20136512 TAAAAGAAAATATAATCTATTAAAAATATTAAAGTAAATTACAATTGGTACATAGAAAATG
1 TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAATG
** * * *
20136573 TAAAAGAATTTCTATTATATTAAAAATGTAAAAGTAAATTACAATTGGTACATAAAAAAT
1 TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAAT
20136633 CTAATCTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (61 bp):
TAAAAGAAAATATAATATATTAAAAATATAAAAGTAAATTACAATTGGTACATAAAAAATG
Found at i:20136632 original size:33 final size:33
Alignment explanation
Indices: 20136533--20136632 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
20136523 ATAATCTATT
* *
20136533 AAAAATATTAAAGTAAATTACAATTGGTACATA
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
* * * * *
20136566 GAAAATGTAAAAG--AATTTCTA-T--TATATT
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
20136594 AAAAATGTAAAAGTAAATTACAATTGGTACATA
1 AAAAATGTAAAAGTAAATTACAATTGGTACATA
20136627 AAAAAT
1 AAAAAT
20136633 CTAATCTATT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 16 0.32
30 7 0.14
31 7 0.14
33 20 0.40
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (33 bp):
AAAAATGTAAAAGTAAATTACAATTGGTACATA
Found at i:20137210 original size:18 final size:18
Alignment explanation
Indices: 20137184--20137226 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20137174 ACTAGAAAAA
* *
20137184 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
20137202 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
20137220 AGGATAC
1 AGGATAC
20137227 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:20137344 original size:29 final size:31
Alignment explanation
Indices: 20137312--20137376 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
20137302 GCTGTTGCTA
20137312 GGCCTA-GTGATTGTATGGTG-CT-GATGATG
1 GGCCTAGGTGATTGTATGG-GCCTCGATGATG
* *
20137341 GGCC-AGGTGATTGTCTGGGCCTCGTTGATG
1 GGCCTAGGTGATTGTATGGGCCTCGATGATG
20137371 GGCCTA
1 GGCCTA
20137377 CGCCGTCGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
28 2 0.07
29 17 0.57
30 10 0.33
31 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.38, T:0.31
Consensus pattern (31 bp):
GGCCTAGGTGATTGTATGGGCCTCGATGATG
Found at i:20137881 original size:7 final size:7
Alignment explanation
Indices: 20137869--20137907 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
20137859 TTAGTTATAT
20137869 ATACTAA
1 ATACTAA
20137876 ATACTAA
1 ATACTAA
20137883 ATACTAA
1 ATACTAA
20137890 ATACTAA
1 ATACTAA
20137897 ATACTAA
1 ATACTAA
20137904 ATAC
1 ATAC
20137908 CAATCGACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACTAA
Found at i:20139442 original size:43 final size:43
Alignment explanation
Indices: 20139394--20139634 Score: 266
Period size: 42 Copynumber: 5.7 Consensus size: 43
20139384 CTTTGAATGT
20139394 AAGG-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* *
20139436 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTAT-
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * *
20139477 AAGGTGGTTGTTAAGTGCTGATTCTACCGTATCCTTGATTGTG
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * * *
20139520 AA-ATGGGTTGCTATGTGCTGATTCC-CCATATCATTGATTAT-
1 AAGGT-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
* * *
20139561 AAGGTGGTTGCTAAGTGCTGATTCTACCGGGATCCTTTGAACT-TG
1 AAGGTGGTTGCTAAGTGCTGATTCCACC-GTATCC-TTG-ATTATG
20139606 -AGGTGGTTGCTAAGTGCTGATTCCACCGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGT
20139635 GTAATGGTTA
Statistics
Matches: 165, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
40 4 0.02
41 37 0.22
42 46 0.28
43 46 0.28
44 30 0.18
45 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (43 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG
Found at i:20139539 original size:84 final size:84
Alignment explanation
Indices: 20139393--20139589 Score: 342
Period size: 84 Copynumber: 2.4 Consensus size: 84
20139383 TCTTTGAATG
*
20139393 TAAGG-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCTACCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGA
*
20139457 TTCCCCGTATCATTGATTA
66 TTCCCCATATCATTGATTA
* * *
20139476 TAAGGTGGTTGTTAAGTGCTGATTCTACCGTATCCTTGATTGTGAAATGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCTACCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGA
20139541 TTCCCCATATCATTGATTA
66 TTCCCCATATCATTGATTA
20139560 TAAGGTGGTTGCTAAGTGCTGATTCTACCG
1 TAAGGTGGTTGCTAAGTGCTGATTCTACCG
20139590 GGATCCTTTG
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 5 0.05
84 102 0.95
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCTACCGTATCCTTGATTATGAAAGGGGTTGCTATGTGCTGA
TTCCCCATATCATTGATTA
Found at i:20142119 original size:29 final size:29
Alignment explanation
Indices: 20142082--20142138 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
20142072 TCAAAAAAAT
*
20142082 AAAATTTAAAACTTTTTTAAAAATAATTA
1 AAAAATTAAAACTTTTTTAAAAATAATTA
*
20142111 AAAAATTAAACCTTTTTTAAAAATAATT
1 AAAAATTAAAACTTTTTTAAAAATAATT
20142139 TGAGAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
AAAAATTAAAACTTTTTTAAAAATAATTA
Found at i:20142176 original size:10 final size:10
Alignment explanation
Indices: 20142135--20142179 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
20142125 TTTTAAAAAT
20142135 AATTTGAGAGG
1 AATTTGAGA-G
*
20142146 AAATTGAGAG
1 AATTTGAGAG
20142156 AATATTAGAGAG
1 AAT-TT-GAGAG
20142168 AATTTGAGAG
1 AATTTGAGAG
20142178 AA
1 AA
20142180 AGGATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 10 0.33
11 12 0.40
12 8 0.27
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (10 bp):
AATTTGAGAG
Found at i:20143902 original size:15 final size:15
Alignment explanation
Indices: 20143884--20143915 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20143874 AAATGTCGCG
20143884 ATAACAAATACAACA
1 ATAACAAATACAACA
*
20143899 ATAATAAATACAACA
1 ATAACAAATACAACA
20143914 AT
1 AT
20143916 GGCATAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAACAAATACAACA
Found at i:20143941 original size:13 final size:14
Alignment explanation
Indices: 20143923--20143977 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 14
20143913 AATGGCATAG
20143923 AAATAATATAAAC-
1 AAATAATATAAACA
20143936 AAATAA-ATAAACGA
1 AAATAATATAAAC-A
* *
20143950 AAATAATATACATA
1 AAATAATATAAACA
*
20143964 AAA-AAAATAAACA
1 AAATAATATAAACA
20143977 A
1 A
20143978 TGACAATGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 6 0.18
13 14 0.41
14 10 0.29
15 4 0.12
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (14 bp):
AAATAATATAAACA
Found at i:20144556 original size:3 final size:3
Alignment explanation
Indices: 20144550--20144574 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
20144540 ATAAAAAAAT
20144550 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
20144575 GATACAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:20145938 original size:27 final size:26
Alignment explanation
Indices: 20145894--20145944 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
20145884 AATACTCATA
*
20145894 TTTATATAATTGAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
20145919 TTTATACTAGATTAAAATATGTCATA
1 TTTATA-TA-ATTAAAATATGTCATA
20145945 AGTCATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:20150440 original size:108 final size:108
Alignment explanation
Indices: 20150245--20150446 Score: 246
Period size: 108 Copynumber: 1.9 Consensus size: 108
20150235 TCATATGGAA
* * * * *
20150245 ATCCCATGTTTGTTGCAGTTCCATTCACATGGAAATTCTGTTGCTGCTGAAATTGAGTAGTCCAA
1 ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAATTCTGCTGCTGCTGAAATTGAGGAGTCAAA
* *
20150310 GGATCGGTTTGTCCAGTCAAACCATGTGTGTCATATCCAGGTG
66 GGATCGGTTTGACCAGCCAAACCATGTGTGTCATATCCAGGTG
* * * * *
20150353 ATCCCACGTTTGCTGCATTTCCATTCGCGT-GAAAGTTCTGCTGGTGCTGAATTTGAGGAGTCAA
1 ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAA-TTCTGCTGCTGCTGAAATTGAGGAGTCAA
* *
20150417 AGGATTGGTTTGACCA-CCAAAACCTTGTGT
65 AGGATCGGTTTGACCAGCC-AAACCATGTGT
20150447 TCTTGAAGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 5 0.06
108 73 0.94
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (108 bp):
ATCCCACGTTTGCTGCAGTTCCATTCACATGGAAATTCTGCTGCTGCTGAAATTGAGGAGTCAAA
GGATCGGTTTGACCAGCCAAACCATGTGTGTCATATCCAGGTG
Found at i:20157826 original size:3 final size:3
Alignment explanation
Indices: 20157818--20157868 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
20157808 GTTATTTTTG
20157818 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20157866 TAT
1 TAT
20157869 CAACATGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:20158101 original size:2 final size:2
Alignment explanation
Indices: 20158094--20158118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20158084 TACATAATTT
20158094 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20158119 TTTTCACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20161924 original size:100 final size:100
Alignment explanation
Indices: 20161751--20161952 Score: 404
Period size: 100 Copynumber: 2.0 Consensus size: 100
20161741 ATACATGAGT
20161751 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
1 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
20161816 TTCTTGATCTGAAAAACAATATTATATTTTACGAA
66 TTCTTGATCTGAAAAACAATATTATATTTTACGAA
20161851 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
1 ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
20161916 TTCTTGATCTGAAAAACAATATTATATTTTACGAA
66 TTCTTGATCTGAAAAACAATATTATATTTTACGAA
20161951 AT
1 AT
20161953 TTTGCATCAC
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 102 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (100 bp):
ATCTCATATTATTTATATATATGGTTTTAATGTAAAACACATGAAAGTTTTATTCAACATATATC
TTCTTGATCTGAAAAACAATATTATATTTTACGAA
Found at i:20163278 original size:16 final size:16
Alignment explanation
Indices: 20163221--20163294 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 16
20163211 ATTTTTCGGA
20163221 TTAAATTATTTT-AA-
1 TTAAATTATTTTGAAT
*
20163235 TTGAATTATTTTGAAT
1 TTAAATTATTTTGAAT
* * **
20163251 TTAGATTTTTTTGGGT
1 TTAAATTATTTTGAAT
* *
20163267 TTAAATTATTTTAAAC
1 TTAAATTATTTTGAAT
*
20163283 TCAAATTATTTT
1 TTAAATTATTTT
20163295 TAAATTTGAA
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
14 11 0.24
15 2 0.04
16 32 0.71
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (16 bp):
TTAAATTATTTTGAAT
Found at i:20163653 original size:16 final size:16
Alignment explanation
Indices: 20163632--20163674 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
20163622 CAAATGACTC
20163632 AAACCCAAAACAATTA
1 AAACCCAAAACAATTA
* * *
20163648 AAACCCGAAATAATTT
1 AAACCCAAAACAATTA
*
20163664 AAACTCAAAAC
1 AAACCCAAAAC
20163675 CACCTTAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.16
Consensus pattern (16 bp):
AAACCCAAAACAATTA
Found at i:20163846 original size:11 final size:11
Alignment explanation
Indices: 20163830--20163861 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
20163820 TCTATCTTCC
20163830 AAAAAATAAAA
1 AAAAAATAAAA
20163841 AAAAAAT-AAA
1 AAAAAATAAAA
20163851 AAAAAATAAAA
1 AAAAAATAAAA
20163862 CACAGGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:20185170 original size:17 final size:18
Alignment explanation
Indices: 20185140--20185194 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
20185130 TTTTTTAATT
20185140 TTTATGAACTTTTTTATAA
1 TTTATGAA-TTTTTTATAA
*
20185159 TTTATGAATTTTTT-TTA
1 TTTATGAATTTTTTATAA
*
20185176 TTTTTGAATGTTTTTATAA
1 TTTATGAAT-TTTTTATAA
20185195 ATTTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 10 0.32
18 11 0.35
19 10 0.32
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTATGAATTTTTTATAA
Found at i:20185198 original size:20 final size:18
Alignment explanation
Indices: 20185127--20185209 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 18
20185117 AAGAGTATTC
*
20185127 ATTTTTTTTAATTTTTATGA
1 ATTTTTTATAA-TTTT-TGA
*
20185147 ACTTTTTTATAATTTATGA
1 A-TTTTTTATAATTTTTGA
*
20185166 ATTTTTT-TTATTTTTGA
1 ATTTTTTATAATTTTTGA
* *
20185183 ATGTTTTTATAAATTTTAA
1 AT-TTTTTATAATTTTTGA
20185202 ATTATTTT
1 ATT-TTTT
20185210 GACACTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 10 0.19
18 12 0.23
19 17 0.33
20 4 0.08
21 9 0.17
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (18 bp):
ATTTTTTATAATTTTTGA
Found at i:20193882 original size:24 final size:24
Alignment explanation
Indices: 20193837--20193882 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20193827 TCATTTGTTT
* *
20193837 ATTTTGAAAATAAACTCACTAAGG
1 ATTTTAAAAATAAAATCACTAAGG
20193861 ATTTTAAAAATATAAATC-CTAA
1 ATTTTAAAAATA-AAATCACTAA
20193883 CCCATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (24 bp):
ATTTTAAAAATAAAATCACTAAGG
Found at i:20194698 original size:27 final size:27
Alignment explanation
Indices: 20194667--20194720 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20194657 CGAATCTAGT
20194667 TTTTCCTTGATTATAACAAAAAAATTA
1 TTTTCCTTGATTATAACAAAAAAATTA
20194694 TTTTCCTTGATTATAACAAAAAAATTA
1 TTTTCCTTGATTATAACAAAAAAATTA
20194721 ACTCATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (27 bp):
TTTTCCTTGATTATAACAAAAAAATTA
Found at i:20197779 original size:24 final size:24
Alignment explanation
Indices: 20197752--20197798 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
20197742 TCATATTCAG
*
20197752 AACATGTCTCGATA-TCAGAATCAA
1 AACATATCTC-ATAGTCAGAATCAA
*
20197776 AACATATGTCATAGTCAGAATCA
1 AACATATCTCATAGTCAGAATCA
20197799 GAATTAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (24 bp):
AACATATCTCATAGTCAGAATCAA
Found at i:20201252 original size:84 final size:82
Alignment explanation
Indices: 20201032--20201267 Score: 346
Period size: 83 Copynumber: 2.8 Consensus size: 82
20201022 TCTTTGAATG
*
20201032 TAAGGTGGTTGCTAAGTGCTGATTCCATCGTATCCTTGATTGTGAAGGGGTTGCTATGTGCTGAT
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAGGGGTTGCTATGTGCTGAT
*
20201097 TCCCCGTATCATTGATTA
66 T-CCCATATCATTGATTA
*
20201115 TAAGGTGGTTGATAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTG-AAGGGGTTGCTATGTGCTGA
*
20201180 TTCCTATATCATTGATTA
65 TTCCCATATCATTGATTA
* *** * *
20201198 TAAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAAGTGGTTGCTAAGTGCTG
1 TAAGGTGGTTGCTAAGTGCTGATTCCACC-GTATCC-TTGATTGTGAAGGGGTTGCTATGTGCTG
20201263 ATTCC
64 ATTCC
20201268 ACCGTGTAAC
Statistics
Matches: 139, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
83 84 0.60
84 49 0.35
85 6 0.04
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.36
Consensus pattern (82 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAGGGGTTGCTATGTGCTGAT
TCCCATATCATTGATTA
Found at i:20201271 original size:127 final size:127
Alignment explanation
Indices: 20201033--20201272 Score: 310
Period size: 127 Copynumber: 1.9 Consensus size: 127
20201023 CTTTGAATGT
* * * *
20201033 AAGGTGGTTGCTAAGTGCTGATTCCATCGTATCCTTGATTGTGAAGGGGTTGCTATGTGCTGATT
1 AAGGTGGTTGCTAAGTGCTGATTCCATCATATCATTGATTATGAAGGGGTTGCTAAGTGCTGATT
* **
20201098 CCCCGTATCATTGATTATAAGGTGGTTGATAAGTGCTGATTCCACCGTATCCTTGATTGTGA
66 CCCCGGATCATTGAACATAAGGTGGTTGATAAGTGCTGATTCCACCGTATCCTTGATTGTGA
*
20201160 AAGG-GGTTGCTATGTGCTGATTCC-T-ATATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGAT
1 AAGGTGGTTGCTAAGTGCTGATTCCATCATATCATTGATTATGAAGG-GGTTGCTAAGTGCTGAT
* *
20201221 TCCACCGGGATCCTTTGAACATGAA-GTGGTTGCTAAGTGCTGATTCCACCGT
65 TCC-CC-GGAT-CATTGAACAT-AAGGTGGTTGATAAGTGCTGATTCCACCGT
20201273 GTAACGGTTA
Statistics
Matches: 98, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
123 4 0.04
124 30 0.31
125 3 0.03
126 22 0.22
127 37 0.38
128 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (127 bp):
AAGGTGGTTGCTAAGTGCTGATTCCATCATATCATTGATTATGAAGGGGTTGCTAAGTGCTGATT
CCCCGGATCATTGAACATAAGGTGGTTGATAAGTGCTGATTCCACCGTATCCTTGATTGTGA
Found at i:20208527 original size:2 final size:2
Alignment explanation
Indices: 20208472--20208507 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
20208462 GGAGTTGGTA
*
20208472 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20208508 GAGTGGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20208579 original size:28 final size:28
Alignment explanation
Indices: 20208548--20208605 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
20208538 ATGTGGGTGA
*
20208548 TTATGCATATATAATA-ATATGCATGGAT
1 TTAT-CATATATAATATATATGAATGGAT
** *
20208576 TTATTTTATATAATATATATTAATGGAT
1 TTATCATATATAATATATATGAATGGAT
20208604 TT
1 TT
20208606 TGATGTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (28 bp):
TTATCATATATAATATATATGAATGGAT
Found at i:20208618 original size:32 final size:29
Alignment explanation
Indices: 20208554--20208655 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 29
20208544 GTGATTATGC
*
20208554 ATATATAATA-ATATGCATGGATTTATTT
1 ATATATAATATATATGAATGGATTTATTT
*
20208582 -TATATAATATATATTAATGGATTTTGATGTT
1 ATATATAATATATATGAATGGA-TTT-AT-TT
*
20208613 ATATAT-ATAATATATGCATGG-TTCTA-TT
1 ATATATAAT-ATATATGAATGGATT-TATTT
* *
20208641 GTATACAATATATAT
1 ATATATAATATATAT
20208656 AATTATGGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
27 9 0.15
28 21 0.35
29 5 0.08
30 5 0.08
31 5 0.08
32 15 0.25
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (29 bp):
ATATATAATATATATGAATGGATTTATTT
Found at i:20212069 original size:26 final size:26
Alignment explanation
Indices: 20212039--20212091 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20212029 CATTCGGCAA
20212039 TATCTATCTTTTCATCTTGTTTTTCT
1 TATCTATCTTTTCATCTTGTTTTTCT
20212065 TATCTATCTTTTCATCTTGTTTTTCT
1 TATCTATCTTTTCATCTTGTTTTTCT
20212091 T
1 T
20212092 TTCTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.19, G:0.04, T:0.66
Consensus pattern (26 bp):
TATCTATCTTTTCATCTTGTTTTTCT
Found at i:20217067 original size:12 final size:13
Alignment explanation
Indices: 20217044--20217073 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
20217034 ACTTAGTTAT
20217044 TTTTAGGGTTTTA
1 TTTTAGGGTTTTA
20217057 TTTTA-GGTTTTA
1 TTTTAGGGTTTTA
20217069 TTTTA
1 TTTTA
20217074 TTTCAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (13 bp):
TTTTAGGGTTTTA
Found at i:20221114 original size:19 final size:19
Alignment explanation
Indices: 20221090--20221134 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
20221080 TGTTTCCTTA
*
20221090 AAGTATTTGTAC-TTCGCTT
1 AAGTATCTGTACATT-GCTT
20221109 AAGTATCTGTACATTGCTT
1 AAGTATCTGTACATTGCTT
20221128 AAGTATC
1 AAGTATC
20221135 GATACTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
AAGTATCTGTACATTGCTT
Found at i:20221975 original size:15 final size:17
Alignment explanation
Indices: 20221945--20221992 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
20221935 GTAATTTAGA
20221945 ATTTTATCTCATTCACT
1 ATTTTATCTCATTCACT
20221962 -TTTTATCTCA-TCACT
1 ATTTTATCTCATTCACT
*
20221977 ATTTCATCTCACTTCA
1 ATTTTATCTCA-TTCA
20221993 TTTATATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 19 0.70
18 3 0.11
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTATCTCATTCACT
Found at i:20233206 original size:16 final size:16
Alignment explanation
Indices: 20233184--20233220 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20233174 TTGGTTCACT
20233184 ATAATGGAATAGAGGC
1 ATAATGGAATAGAGGC
*
20233200 GTAATGGAATAGAGGC
1 ATAATGGAATAGAGGC
20233216 ATAAT
1 ATAAT
20233221 AGCAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.30, T:0.22
Consensus pattern (16 bp):
ATAATGGAATAGAGGC
Found at i:20233578 original size:26 final size:26
Alignment explanation
Indices: 20233535--20233691 Score: 98
Period size: 26 Copynumber: 6.1 Consensus size: 26
20233525 AAATCATAAT
* *
20233535 ATATAA-TACTATAAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
*
20233560 ACATAATTATTATTAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
* * *
20233586 ATAAAATTCTTAATATTAAA-A-AATTCTT
1 ATATAA---TTATTATTAAATATAATT-TA
*
20233614 ATATGAA-T-TTACTAAAATCATAA--T-
1 ATAT-AATTATTA-TTAAAT-ATAATTTA
* *
20233638 ATATAA-TACTATAAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
*
20233663 ACATAATTATTATTAAATATAATTTA
1 ATATAATTATTATTAAATATAATTTA
20233689 ATA
1 ATA
20233692 AAAAATATAA
Statistics
Matches: 102, Mismatches: 15, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
22 4 0.04
23 9 0.09
24 9 0.09
25 16 0.16
26 40 0.39
27 5 0.05
28 7 0.07
29 12 0.12
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (26 bp):
ATATAATTATTATTAAATATAATTTA
Found at i:20233600 original size:22 final size:21
Alignment explanation
Indices: 20233576--20233631 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 21
20233566 TTATTATTAA
20233576 ATATAATTTAATAAAATTCTT
1 ATATAATTTAATAAAATTCTT
20233597 A-AT-A-TTAA-AAAATTCTT
1 ATATAATTTAATAAAATTCTT
*
20233614 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
20233632 CATAATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
17 10 0.34
18 6 0.21
19 1 0.03
20 3 0.10
21 4 0.14
22 5 0.17
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATAATTTAATAAAATTCTT
Found at i:20233640 original size:103 final size:102
Alignment explanation
Indices: 20233474--20233694 Score: 406
Period size: 103 Copynumber: 2.2 Consensus size: 102
20233464 TAATAAAAAT
* *
20233474 ATATAATTTATTAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAAAATTATTATATGAATTTACTAAAATCATAATATAT
20233539 AATACTATAAAATATAATTTAACATAATTATTATTAA
66 AATACTATAAAATATAATTTAACATAATTATTATTAA
*
20233576 ATATAATTTAATAAAATTCTTAATATTAAAAAATTCTTATATGAATTTACTAAAATCATAATATA
1 ATATAATTTAATAAAATTCTTAATATT-AAAAATTATTATATGAATTTACTAAAATCATAATATA
20233641 TAATACTATAAAATATAATTTAACATAATTATTATTAA
65 TAATACTATAAAATATAATTTAACATAATTATTATTAA
20233679 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
20233695 AATATAATTT
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
102 26 0.23
103 89 0.77
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAAAATTATTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAACATAATTATTATTAA
Found at i:20233699 original size:17 final size:17
Alignment explanation
Indices: 20233677--20233711 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20233667 AATTATTATT
20233677 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20233694 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
20233711 A
1 A
20233712 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:20233782 original size:93 final size:93
Alignment explanation
Indices: 20233677--20233865 Score: 342
Period size: 93 Copynumber: 2.0 Consensus size: 93
20233667 AATTATTATT
20233677 AAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATT
1 AAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATT
20233742 TACTAAAATCATAATATATAATGCTATA
66 TACTAAAATCATAATATATAATGCTATA
* * * *
20233770 AAATATAATTTAATAAAATATATAATTTAATGAAATTCTTAATATTAAATATTCTTATATGAATT
1 AAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATT
20233835 TACTAAAATCATAATATATAATGCTATA
66 TACTAAAATCATAATATATAATGCTATA
20233863 AAA
1 AAA
20233866 ATATTGTATA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (93 bp):
AAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTGATATAAATT
TACTAAAATCATAATATATAATGCTATA
Found at i:20233792 original size:17 final size:17
Alignment explanation
Indices: 20233772--20233805 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20233762 ATGCTATAAA
20233772 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
20233789 ATATAATTTAATGAAAT
1 ATATAATTTAATAAAAT
20233806 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:20235098 original size:14 final size:14
Alignment explanation
Indices: 20235079--20235105 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20235069 GTGGATTCTG
20235079 AGCTTCAATATTAT
1 AGCTTCAATATTAT
20235093 AGCTTCAATATTA
1 AGCTTCAATATTA
20235106 GTTGTACAAA
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:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (14 bp):
AGCTTCAATATTAT
Found at i:20240454 original size:21 final size:23
Alignment explanation
Indices: 20240429--20240470 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
20240419 AAAATAAAAA
20240429 AAATCGAATT-TT-GAGTTAAAC
1 AAATCGAATTATTCGAGTTAAAC
*
20240450 AAATCGAGTTATTCGAGTTAA
1 AAATCGAATTATTCGAGTTAA
20240471 TCGAGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (23 bp):
AAATCGAATTATTCGAGTTAAAC
Found at i:20240467 original size:9 final size:9
Alignment explanation
Indices: 20240453--20240483 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
20240443 GTTAAACAAA
20240453 TCGAGTTAT
1 TCGAGTTAT
*
20240462 TCGAGTTAA
1 TCGAGTTAT
20240471 TCGAGTTAT
1 TCGAGTTAT
20240480 TCGA
1 TCGA
20240484 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:20240810 original size:30 final size:31
Alignment explanation
Indices: 20240776--20240835 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
20240766 AAACCTTTTA
20240776 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
* *
20240806 TTTTCCCCTAAAATTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAATTTTTACTCCCTTCCCA
20240836 TTCCACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAATTTTTACTCCCTTCCCAC
Found at i:20252241 original size:44 final size:44
Alignment explanation
Indices: 20252176--20252530 Score: 129
Period size: 44 Copynumber: 7.6 Consensus size: 44
20252166 TTGTCCTAAC
* * *
20252176 CCACTGAAACTTTAGGGAGATAAGACTGGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCT
* * * *
20252220 CCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGAAGATAAGA-----C-----TGGTGGCTTCAATCTGCT
* ** * ** * *
20252274 CCTCTGCAACGCCAGAGAA-ATAAGACCTGCTATCTTCAGTCTGAT
1 CCACTGCAACTTCAG-GAAGATAAGA-CTGGTGGCTTCAATCTGCT
* * * ** * *
20252319 CCACTGCAATTTCAGGGATATAAGGTTAGTGGTTTCAATCTGCT
1 CCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCT
* * * *
20252363 CCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGAAGATAAG----A-C-----TGGTGGCTTCAATCTGCT
** * * * *
20252417 CCACTGCAACGCCAGAGAA-ATAAGATTCGTTGTCTTCAGTCTGCT
1 CCACTGCAACTTCAG-GAAGATAAGACT-GGTGGCTTCAATCTGCT
** * * * *
20252462 CTGCTGCAACTTCAGGGATATAAGGCTGGTGGCTTCAACCTGCT
1 CCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCT
*
20252506 CCACTGTAACTTCAGGAAGATAAGA
1 CCACTGCAACTTCAGGAAGATAAGA
20252531 TCTGCCATAA
Statistics
Matches: 219, Mismatches: 67, Indels: 50
0.65 0.20 0.15
Matches are distributed among these distances:
44 91 0.42
45 55 0.25
49 1 0.00
50 3 0.01
54 63 0.29
55 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
CCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCT
Found at i:20252434 original size:143 final size:143
Alignment explanation
Indices: 20252189--20252683 Score: 690
Period size: 143 Copynumber: 3.5 Consensus size: 143
20252179 CTGAAACTTT
* *
20252189 AGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATA
1 AGGGATATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATA
* * * * *
20252254 ATTTGTAGCTTTAATCTGTTCCTCTGCAACGCCAGAGAAATAAG-ACCTGCTATCTTCAGTCTGA
66 ATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGAATC-GTTGTCTTCAGTCTGC
*
20252318 TCCACTGCAATTTC
130 TCCGCTGCAATTTC
* * * *
20252332 AGGGATATAAGGTTAGTGGTTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATA
1 AGGGATATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATA
*
20252397 ATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATTCGTTGTCTTCAGTCTGCT
66 ATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGAATCGTTGTCTTCAGTCTGCT
* *
20252462 CTGCTGCAACTTC
131 CCGCTGCAATTTC
* * *
20252475 AGGGATATAAGGCTGGTGGCTTCAACCTGCTCCACTGTAACTTCAGGAAGATAAGATCTGCCATA
1 AGGGATATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATA
* * ** * *
20252540 ATTTGTAGCTTTAATCTGTTGCACTACAACGTTAGGGAAATAAGAATCGTTGTCCTCAGTCTGCT
66 ATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGAATCGTTGTCTTCAGTCTGCT
*
20252605 CCGCTACAACTTT-
131 CCGCTGCAA-TTTC
* * * *
20252618 A-GGAGATAAGGCTGGCGGCTTCAATCTGCTCCACTACAACTTCAGGAAAATAAGATCCGCCATA
1 AGGGATATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATA
20252682 AT
66 AT
20252684 GACTTCAATC
Statistics
Matches: 311, Mismatches: 39, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
142 58 0.19
143 250 0.80
144 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (143 bp):
AGGGATATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATA
ATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGAATCGTTGTCTTCAGTCTGCT
CCGCTGCAATTTC
Found at i:20263293 original size:4 final size:4
Alignment explanation
Indices: 20263284--20263716 Score: 570
Period size: 4 Copynumber: 108.8 Consensus size: 4
20263274 TACGTTATCT
20263284 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
20263332 CATG TATG TATG TATG CATG CATG -ATTG TATAG -ATG CATG GATG TATA
1 TATG TATG TATG TATG TATG TATG TA-TG TAT-G TATG TATG TATG TATG
* * * * * * * *
20263380 TATG GATG TATG GATG CATG GATG TATG CATG GATG TATG GATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
20263428 CATG CATG TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
20263474 TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
20263522 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
20263570 TATG TATG TATG TATG TATG TATG TATA TATG CATG CATG CATG TATAG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-G
* * *
20263619 -ATG CATG GATG TATG TATG GATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
20263666 TATG TATG TATG TATG TATG TATG TATG TATG TGTG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
20263714 TAT
1 TAT
20263717 AGATGCATGG
Statistics
Matches: 388, Mismatches: 33, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.01
3 3 0.01
4 380 0.98
5 3 0.01
ACGTcount: A:0.26, C:0.03, G:0.27, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:20265576 original size:25 final size:25
Alignment explanation
Indices: 20265541--20265755 Score: 134
Period size: 25 Copynumber: 8.6 Consensus size: 25
20265531 CCTAGCATTG
*
20265541 GTGGCGGGTTATCTATAAAGCCTTT
1 GTGGCGAGTTATCTATAAAGCCTTT
*
20265566 GTGGCGAGTTATCTGTAAAGCCTTT
1 GTGGCGAGTTATCTATAAAGCCTTT
* * *
20265591 ATGGCGAGTTAAT-TGTAAAGTCTTT
1 GTGGCGAGTT-ATCTATAAAGCCTTT
* * *
20265616 GTGGTGAGTTAAT-TGTAAGGCCTTT
1 GTGGCGAGTT-ATCTATAAAGCCTTT
* **
20265641 GTGGCGAGTTATCTGTAAAGAATTT
1 GTGGCGAGTTATCTATAAAGCCTTT
* ** **
20265666 TTGGAAAACTATCTATAAAG-CTCTT
1 GTGGCGAGTTATCTATAAAGCCT-TT
* * * * *
20265691 ATGGTGAATTATCTAAAAAGCCTAT
1 GTGGCGAGTTATCTATAAAGCCTTT
* *
20265716 GTGACGTA-TTAT-TCATAAAGCCTTA
1 GTGGCG-AGTTATCT-ATAAAGCCTTT
20265741 GTGGCGAAGTTATCT
1 GTGGCG-AGTTATCT
20265756 GGGAAGCCCT
Statistics
Matches: 149, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
24 4 0.03
25 135 0.91
26 9 0.06
27 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (25 bp):
GTGGCGAGTTATCTATAAAGCCTTT
Found at i:20265610 original size:50 final size:50
Alignment explanation
Indices: 20265542--20265660 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
20265532 CTAGCATTGG
* *
20265542 TGGCGGGTTATCTATAAAGCCTTTGTGGCGAGTT-ATCTGTAAAGCCTTTA
1 TGGCGAGTTATCTGTAAAGCCTTTGTGGCGAGTTAAT-TGTAAAGCCTTTA
* * * *
20265592 TGGCGAGTTAAT-TGTAAAGTCTTTGTGGTGAGTTAATTGTAAGGCCTTTG
1 TGGCGAGTT-ATCTGTAAAGCCTTTGTGGCGAGTTAATTGTAAAGCCTTTA
20265642 TGGCGAGTTATCTGTAAAG
1 TGGCGAGTTATCTGTAAAG
20265661 AATTTTTGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 54 0.90
51 4 0.07
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.37
Consensus pattern (50 bp):
TGGCGAGTTATCTGTAAAGCCTTTGTGGCGAGTTAATTGTAAAGCCTTTA
Found at i:20267274 original size:32 final size:32
Alignment explanation
Indices: 20267229--20267306 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
20267219 TAATAATTTT
* * *
20267229 TAAAGGTTGATTAATACAAATGCC-TGAAGAAA
1 TAAAGATTGATTAATACAAA-CCCTTAAAGAAA
* *
20267261 TTAGGATTGATTAATACAAACCCTTAAAGAAA
1 TAAAGATTGATTAATACAAACCCTTAAAGAAA
20267293 TAAAGATTGATTAA
1 TAAAGATTGATTAA
20267307 AAAATTACCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 2 0.05
32 36 0.95
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TAAAGATTGATTAATACAAACCCTTAAAGAAA
Found at i:20270512 original size:2 final size:2
Alignment explanation
Indices: 20270505--20270551 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
20270495 TAGAATCCTT
* * * *
20270505 TA TA TA TA TA TA CA TA CA TA TA TA TA TA AA TA -A TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20270546 TA TA TA
1 TA TA TA
20270552 CTTACAATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (2 bp):
TA
Found at i:20279996 original size:11 final size:11
Alignment explanation
Indices: 20279980--20280012 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
20279970 AGCTGTTACA
20279980 TTATCTCCTCC
1 TTATCTCCTCC
20279991 TTATCTCCTCC
1 TTATCTCCTCC
20280002 TTATCTCCTCC
1 TTATCTCCTCC
20280013 ATTGTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (11 bp):
TTATCTCCTCC
Found at i:20281522 original size:1 final size:1
Alignment explanation
Indices: 20281516--20281540 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
20281506 GAAAATCTAC
20281516 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
20281541 CTTTTAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:20286563 original size:35 final size:35
Alignment explanation
Indices: 20286512--20286581 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
20286502 AGCATCCTCC
20286512 AAATTCTTCTGCGCAAGAATTGCCTGAATCTTTAT
1 AAATTCTTCTGCGCAAGAATTGCCTGAATCTTTAT
*
20286547 AAATTCTTCTGTGCAAGAATTGCCTGAATCTTTAT
1 AAATTCTTCTGCGCAAGAATTGCCTGAATCTTTAT
20286582 TTGCCACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (35 bp):
AAATTCTTCTGCGCAAGAATTGCCTGAATCTTTAT
Found at i:20298847 original size:20 final size:20
Alignment explanation
Indices: 20298822--20298860 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20298812 AGAGCTAAGC
20298822 AATCGAGCATG-AATGTGTTT
1 AATCGA-CATGAAATGTGTTT
*
20298842 AATCGACTTGAAATGTGTT
1 AATCGACATGAAATGTGTT
20298861 CAGCAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (20 bp):
AATCGACATGAAATGTGTTT
Found at i:20302801 original size:9 final size:9
Alignment explanation
Indices: 20302787--20302830 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
20302777 ATTAGGTTAG
20302787 ATAATTAAA
1 ATAATTAAA
*
20302796 ATAATTAGGA
1 ATAATTA-AA
*
20302806 ATAAATAAA
1 ATAATTAAA
*
20302815 AAAATTAAA
1 ATAATTAAA
20302824 ATAATTA
1 ATAATTA
20302831 GCATTAACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (9 bp):
ATAATTAAA
Found at i:20315226 original size:22 final size:22
Alignment explanation
Indices: 20315198--20315350 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
20315188 TTTATTGTTC
*
20315198 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
20315220 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
20315242 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
20315264 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
20315286 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
20315308 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
20315330 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
20315351 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:20316945 original size:17 final size:17
Alignment explanation
Indices: 20316919--20316952 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20316909 ACACGGGTAG
20316919 AGACACGGTCGTGTGTC
1 AGACACGGTCGTGTGTC
*
20316936 AGACATGGTCGTGTGTC
1 AGACACGGTCGTGTGTC
20316953 CCCTGTAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.35, T:0.26
Consensus pattern (17 bp):
AGACACGGTCGTGTGTC
Found at i:20320878 original size:28 final size:28
Alignment explanation
Indices: 20320847--20320903 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
20320837 GTTAAAAGAA
**
20320847 TATTTTTTATAAGCAGACATTTAAGTTT
1 TATTTTTTATAAGCAGACAGGTAAGTTT
20320875 TATTTTTTATAAGCAGACAGGTAAGTTT
1 TATTTTTTATAAGCAGACAGGTAAGTTT
20320903 T
1 T
20320904 GGTACACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (28 bp):
TATTTTTTATAAGCAGACAGGTAAGTTT
Found at i:20321806 original size:12 final size:12
Alignment explanation
Indices: 20321789--20321816 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20321779 ATGTCATCAT
20321789 ATTAATTTTTGA
1 ATTAATTTTTGA
20321801 ATTAATTTTTGA
1 ATTAATTTTTGA
20321813 ATTA
1 ATTA
20321817 CACTATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
ATTAATTTTTGA
Found at i:20332109 original size:7 final size:7
Alignment explanation
Indices: 20332099--20332131 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
20332089 GTACATTATA
20332099 TATTAAT
1 TATTAAT
20332106 TATTAAT
1 TATTAAT
20332113 TATTAAT
1 TATTAAT
20332120 TATTATAT
1 TATTA-AT
20332128 TATT
1 TATT
20332132 TGAAATATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATTAAT
Found at i:20332116 original size:14 final size:15
Alignment explanation
Indices: 20332093--20332131 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
20332083 ATAGAAGTAC
20332093 ATTATA-TATTAATT
1 ATTATATTATTAATT
20332107 ATTA-ATTATTAATT
1 ATTATATTATTAATT
20332121 ATTATATTATT
1 ATTATATTATT
20332132 TGAAATATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.04
14 16 0.70
15 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATATTATTAATT
Found at i:20332277 original size:16 final size:17
Alignment explanation
Indices: 20332256--20332288 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20332246 TATACTATAG
20332256 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
20332272 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
20332289 TACATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:20355950 original size:26 final size:26
Alignment explanation
Indices: 20355914--20355974 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
20355904 ACACTCAAAT
20355914 TTCTCAAAAACACTTCTCAAAAGCAC
1 TTCTCAAAAACACTTCTCAAAAGCAC
* *
20355940 TTCTCAAAAACACTTTTGAAAAGCAC
1 TTCTCAAAAACACTTCTCAAAAGCAC
20355966 TTCTCAAAA
1 TTCTCAAAA
20355975 GCAATAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.05, T:0.26
Consensus pattern (26 bp):
TTCTCAAAAACACTTCTCAAAAGCAC
Found at i:20355975 original size:13 final size:13
Alignment explanation
Indices: 20355914--20355977 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
20355904 ACACTCAAAT
*
20355914 TTCTCAAAAACAC
1 TTCTCAAAAGCAC
20355927 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
20355940 TTCTCAAAAACAC
1 TTCTCAAAAGCAC
* *
20355953 TTTTGAAAAGCAC
1 TTCTCAAAAGCAC
20355966 TTCTCAAAAGCA
1 TTCTCAAAAGCA
20355978 ATAAAGAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:20365617 original size:3 final size:3
Alignment explanation
Indices: 20365605--20365665 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
20365595 GAAAATTACT
20365605 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
20365652 ATA GTA ATA TTA AT
1 ATA ATA ATA ATA AT
20365666 GAAGTTCACG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20366975 original size:31 final size:30
Alignment explanation
Indices: 20366940--20367001 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
20366930 AACCATTAAC
* *
20366940 TTTTATTT-TTATTTTGTTGTTTGTTTTTCTT
1 TTTTATTTATTAGTTTG-TGTTTG-GTTTCTT
20366971 TTTTATTTATTAGTTTGTGTTTGGTTTCTT
1 TTTTATTTATTAGTTTGTGTTTGGTTTCTT
20367001 T
1 T
20367002 AGCGGGCCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 7 0.25
31 14 0.50
32 7 0.25
ACGTcount: A:0.08, C:0.03, G:0.13, T:0.76
Consensus pattern (30 bp):
TTTTATTTATTAGTTTGTGTTTGGTTTCTT
Found at i:20367256 original size:44 final size:44
Alignment explanation
Indices: 20367149--20367720 Score: 491
Period size: 44 Copynumber: 13.2 Consensus size: 44
20367139 TTCAAGTAGC
* * * * *
20367149 TTCATTCTACTCCACTGCAACTTCAGGAAGATAAGA-CTAG--A
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
* * * * *
20367190 TGCGATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTGTGCTT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-GTTT
* *
20367235 TT-AATCTGCTCCACTGCAACTTCAGGGACATAGGAT-TGGTTT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
20367277 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTTT
1 -TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
** * * *
20367321 CTTCTGTCTGCTCTATTGCAACTTCAGGGAGATAAGA-CTAGATTT
1 -TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GGTTT
* * *
20367366 TTCAATCTGCTCCATTGCAACTTCAAGGAGATAAGA-CTGGATTC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGG-TTT
* * *
20367410 TTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGA-CTGGATTC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGG-TTT
***
20367454 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGACG
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
* * * * *
20367497 TGC--TTTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-GTTT
* * * * *
20367540 TT-AATCCGCTCCGA-TGAAACTTTAGGGAGATAGGAT-TAGTTTT
1 TTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATCT-GGTTT
** *
20367583 TTCAATCTGCTTTACTGCAACTTCAGGGAGATAAGAT-TGG--A
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
* * * * * *
20367624 TGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-GTTT
*
20367669 TT-AATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
20367711 CTTCAATCTG
1 -TTCAATCTG
20367721 TTCTCTAAGG
Statistics
Matches: 433, Mismatches: 74, Indels: 45
0.78 0.13 0.08
Matches are distributed among these distances:
41 90 0.21
42 12 0.03
43 22 0.05
44 302 0.70
45 7 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTTT
Found at i:20367587 original size:129 final size:129
Alignment explanation
Indices: 20367194--20367720 Score: 519
Period size: 129 Copynumber: 4.0 Consensus size: 129
20367184 ACTAGATGCG
* * *** *
20367194 ATCTGCTCAACTGCAACTTCAGAGAGATAAGATCTGTG-CTTTTAATCTGCTCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG-GAC--GCGATCTGCTCTACTGCAACTTC
* * * * * *
20367258 AGGGACATAGGAT-TG-GTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTT
62 AGAGAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTGAAACTTCAGGGAGATAGGATTGGTTT
*
20367321 CTTCT
125 CTTCA
* * * * * ** * * *
20367326 GTCTGCTCTATTGCAACTTCAGGGAGATAAGACTAGATTTTTCAATCTGCTCCATTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGA---CGCGATCTGCTCTACTGCAACTTCA
* * * * * *
20367391 -AGGAGATAAGA-CTG-GATTCTTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGACTGGATT
63 GA-GAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTGAAACTTCAGGGAGATAGGATTGGTTT
20367453 CTTCA
125 CTTCA
* * *
20367458 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGACGTGCTTTGCTCTACTGCAACTTCAGAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGACGCGATCTGCTCTACTGCAACTTCAGAG
* * * *
20367523 AGATAAGATCTGTGGTTTTAATCCGCTCCGA-TGAAACTTTAGGGAGATAGGATTAGTTTTTTCA
66 AGATAAGATCTGTGGTTTTAATCTGCTCC-ACTGAAACTTCAGGGAGATAGGATTGGTTTCTTCA
** * *
20367587 ATCTGCTTTACTGCAACTTCAGGGAGATAAGATTGGATGCGATCTGCTCTATTGCAACTTCAGAG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGACGCGATCTGCTCTACTGCAACTTCAGAG
*
20367652 AGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCA
66 AGATAAGATCTGTGGTTTTAATCTGCTCCACTGAAACTTCAGGGAGATAGGATTGGTTTCTTCA
20367716 ATCTG
1 ATCTG
20367721 TTCTCTAAGG
Statistics
Matches: 332, Mismatches: 52, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.00
129 181 0.55
130 8 0.02
131 4 0.01
132 138 0.42
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (129 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGACGCGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCTGCTCCACTGAAACTTCAGGGAGATAGGATTGGTTTCTTCA
Found at i:20368611 original size:26 final size:26
Alignment explanation
Indices: 20368552--20368605 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
20368542 AGTATCTTGA
20368552 AAAGAATAAAGTATTCCAAGAACAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
* * *
20368578 AAAGAATAAAGTCTTCTAAGAATAAC
1 AAAGAATAAAGTATTCCAAGAACAAC
20368604 AA
1 AA
20368606 GTAATATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.11, T:0.19
Consensus pattern (26 bp):
AAAGAATAAAGTATTCCAAGAACAAC
Found at i:20381200 original size:30 final size:30
Alignment explanation
Indices: 20381166--20381226 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
20381156 AACCATTAAC
* **
20381166 TTTTATTT-TTGTTTTGTTGTTTTTTTTCTT
1 TTTTATTTATTATTTTG-TGTTTGGTTTCTT
20381196 TTTTATTTATTATTTTGTGTTTGGTTTCTT
1 TTTTATTTATTATTTTGTGTTTGGTTTCTT
20381226 T
1 T
20381227 AGCGGGCTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.07, C:0.03, G:0.11, T:0.79
Consensus pattern (30 bp):
TTTTATTTATTATTTTGTGTTTGGTTTCTT
Found at i:20387044 original size:19 final size:19
Alignment explanation
Indices: 20387020--20387105 Score: 154
Period size: 19 Copynumber: 4.5 Consensus size: 19
20387010 AATCTTCAAG
20387020 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20387039 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20387058 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
20387077 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20387096 GATATGCAAT
1 GATATGCAAT
20387106 ATTAAAAGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20387064 original size:38 final size:38
Alignment explanation
Indices: 20387020--20387134 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
20387010 AATCTTCAAG
20387020 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
20387058 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
* *
20387096 GATATGCAATATTAAAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
20387135 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 50 0.70
41 8 0.11
42 13 0.18
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
Found at i:20387361 original size:23 final size:23
Alignment explanation
Indices: 20387317--20387361 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20387307 TCTTATTTTG
* *
20387317 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20387340 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20387362 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Done.