Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 194 of 325
Found at i:62962154 original size:5 final size:5
Alignment explanation
Indices: 62962144--62962169 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
62962134 ATTTTTTCAA
62962144 TGTTT TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT T
62962170 TCAACCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:62964818 original size:15 final size:14
Alignment explanation
Indices: 62964798--62964897 Score: 71
Period size: 15 Copynumber: 6.6 Consensus size: 14
62964788 ATAGAAATAG
62964798 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
62964813 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
62964828 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
62964842 AAATAGATAAATAA-
1 AAATAGA-AAATAAT
62964856 AAATTAGATAAATAAT
1 AAA-TAGA-AAATAAT
*
62964872 AGAATTAGAAATAAATAT
1 A-AA-TAGAAA-ATA-AT
62964890 AAATAGAA
1 AAATAGAA
62964898 CCATAATAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
14 15 0.20
15 35 0.47
16 10 0.14
17 11 0.15
18 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:62964881 original size:44 final size:42
Alignment explanation
Indices: 62964759--62964884 Score: 114
Period size: 44 Copynumber: 2.8 Consensus size: 42
62964749 AAATACGTAT
*
62964759 ATAAA-AAAAATAATGAAAATAATATTAATATAGAAATAGAAATAG
1 ATAAATAAAAATTA-GAAAATAATA--AAT-TAGAAATAGAAATAG
* *
62964804 A-AATATAATAAA-TAGAAATATAATAATAGTAGAAATATAAATAG
1 ATAA-ATAA-AAATTAGAAA-ATAATAA-ATTAGAAATAGAAATAG
62964848 ATAAATAAAAATTAGATAAATAATAGAATTAGAAATA
1 ATAAATAAAAATTAGA-AAATAATA-AATTAGAAATA
62964885 AATATAAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
43 3 0.04
44 41 0.60
45 12 0.18
46 9 0.13
47 3 0.04
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (42 bp):
ATAAATAAAAATTAGAAAATAATAAATTAGAAATAGAAATAG
Found at i:62969541 original size:18 final size:18
Alignment explanation
Indices: 62969500--62969535 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62969490 CCATCCTCAA
62969500 CAAATCAGGAGATAGGCT
1 CAAATCAGGAGATAGGCT
*
62969518 CAAATCAGGAGCTAGGCT
1 CAAATCAGGAGATAGGCT
62969536 ACAATCTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (18 bp):
CAAATCAGGAGATAGGCT
Found at i:62973780 original size:15 final size:15
Alignment explanation
Indices: 62973731--62973768 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
62973721 TCCCTTCAAA
*
62973731 AATAATAGCAATAAT
1 AATAATAACAATAAT
*
62973746 AATAATAACAACAAT
1 AATAATAACAATAAT
62973761 AATAATAA
1 AATAATAA
62973769 TGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:62973907 original size:21 final size:21
Alignment explanation
Indices: 62973856--62973908 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
62973846 AGCCAATTGT
* *
62973856 AAATAAAT-AAATAATAATAA
1 AAATAAGTAAAATAAAAATAA
*
62973876 TAATAAGTAAAATAAAAATAA
1 AAATAAGTAAAATAAAAATAA
62973897 AAACTAA-TAAAA
1 AAA-TAAGTAAAA
62973909 GTTTAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.22
21 18 0.67
22 3 0.11
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAGTAAAATAAAAATAA
Found at i:62973920 original size:27 final size:27
Alignment explanation
Indices: 62973864--62973928 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
62973854 GTAAATAAAT
*
62973864 AAATAATAATAATAATAAGTAAAATAA
1 AAATAAAAATAATAATAAGTAAAATAA
* *
62973891 AAATAAAAACTAATAA-AAGTTTAATTAA
1 AAATAAAAA-TAATAATAAG-TAAAATAA
*
62973919 AAATTAAAAT
1 AAATAAAAAT
62973929 TAAGCATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.38
28 20 0.62
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (27 bp):
AAATAAAAATAATAATAAGTAAAATAA
Found at i:62973982 original size:3 final size:3
Alignment explanation
Indices: 62973974--62974024 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
62973964 TAAAAAAGTT
* ** * *
62973974 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACG ATG ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62974022 ATA
1 ATA
62974025 CAATAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:62974173 original size:15 final size:15
Alignment explanation
Indices: 62974153--62974198 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
62974143 ATAGAAATAG
62974153 AAATAGAAATATAAT
1 AAATAGAAATATAAT
62974168 AAATAGAAATATAAT
1 AAATAGAAATATAAT
62974183 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
62974199 ATAGATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:62974218 original size:15 final size:14
Alignment explanation
Indices: 62974147--62974225 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
62974137 ATTAATATAG
*
62974147 AAATAGAAATAGA-
1 AAATAAAAATAGAT
62974160 AATATAATAAATAGA-
1 AA-ATAA-AAATAGAT
* *
62974175 AATATAATAATAGTAG
1 AA-ATAAAAATAG-AT
*
62974191 AAATATAAATAGAT
1 AAATAAAAATAGAT
62974205 AAATAAAAATTAGAT
1 AAATAAAAA-TAGAT
62974220 AAATAA
1 AAATAA
62974226 TAGTATTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
13 2 0.04
14 17 0.31
15 34 0.62
16 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (14 bp):
AAATAAAAATAGAT
Found at i:62974236 original size:44 final size:43
Alignment explanation
Indices: 62974114--62974236 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 43
62974104 AAGTACGCAT
* *
62974114 ATAAA-AAAAATAACGAAAATAATATTAATATAGAAATAGAAATAG
1 ATAAATAAAAATTA-GAAAATAATAAT-AT-TAGAAATAGAAATAG
* *
62974159 A-AATATAATAAA-TAGAAATATAATAATAGTAGAAATATAAATAG
1 ATAA-ATAA-AAATTAGAAA-ATAATAATATTAGAAATAGAAATAG
*
62974203 ATAAATAAAAATTAGATAAATAATAGTATTAGAA
1 ATAAATAAAAATTAGA-AAATAATAATATTAGAA
62974237 TAACAAAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
43 3 0.05
44 38 0.58
45 11 0.17
46 10 0.15
47 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (43 bp):
ATAAATAAAAATTAGAAAATAATAATATTAGAAATAGAAATAG
Found at i:62975035 original size:12 final size:12
Alignment explanation
Indices: 62975018--62975049 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
62975008 CTACCAAAAA
62975018 ATATATATGTAT
1 ATATATATGTAT
62975030 ATATATATGTAT
1 ATATATATGTAT
*
62975042 ATGTATAT
1 ATATATAT
62975050 CACTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:62983267 original size:35 final size:34
Alignment explanation
Indices: 62983216--62983315 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
62983206 TCATTGAAAT
62983216 ACCATACCTATGTTTCACAACTCGGTATGGAAAAC
1 ACCATACCTATGTTTCA-AACTCGGTATGGAAAAC
** *
62983251 ACCATACCTACT-TTTCATGCTCGGTATGGAAAAT
1 ACCATACCTA-TGTTTCAAACTCGGTATGGAAAAC
* * *
62983285 ACCATACCTATATTTTATAACTCAGTATGGA
1 ACCATACCTATGTTTCA-AACTCGGTATGGA
62983316 CGATGCCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 1 0.02
34 28 0.51
35 25 0.45
36 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (34 bp):
ACCATACCTATGTTTCAAACTCGGTATGGAAAAC
Found at i:62983325 original size:69 final size:70
Alignment explanation
Indices: 62983212--62983350 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 70
62983202 TTCTTCATTG
* * * * *
62983212 AAATACCATACCTATGTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCAT-GCTCGGT
1 AAATACCATACCTATATTTCACAACTCAGTATGGAAAACACCATACCTACGTATCATAGCTCAGT
62983276 ATGGA
66 ATGGA
* * ** **
62983281 AAATACCATACCTATATTTTATAACTCAGTATGGACGATGCCATACCTACGTATCATAGCTCAGT
1 AAATACCATACCTATATTTCACAACTCAGTATGGAAAACACCATACCTACGTATCATAGCTCAGT
62983346 ATGGA
66 ATGGA
62983351 TGACGACATA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
69 47 0.81
70 11 0.19
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AAATACCATACCTATATTTCACAACTCAGTATGGAAAACACCATACCTACGTATCATAGCTCAGT
ATGGA
Found at i:62983344 original size:35 final size:35
Alignment explanation
Indices: 62983217--62983383 Score: 129
Period size: 35 Copynumber: 4.8 Consensus size: 35
62983207 CATTGAAATA
* * * * * **
62983217 CCATACCTATGTTTCACAACTCGGTATGGAAAACA
1 CCATACCTACGTTTCATAGCTCAGTATGGAAGATG
* * * *
62983252 CCATACCTACTTTTCAT-GCTCGGTATGGAAAATA
1 CCATACCTACGTTTCATAGCTCAGTATGGAAGATG
** * * *
62983286 CCATACCTATATTTTATAACTCAGTATGGACGATG
1 CCATACCTACGTTTCATAGCTCAGTATGGAAGATG
* * *
62983321 CCATACCTACGTATCATAGCTCAGTATGGATGACG
1 CCATACCTACGTTTCATAGCTCAGTATGGAAGATG
* * *
62983356 ACATACTTACGTTTCATAGCTCGGTATG
1 CCATACCTACGTTTCATAGCTCAGTATG
62983384 AAAATACCAT
Statistics
Matches: 107, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
34 29 0.27
35 78 0.73
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (35 bp):
CCATACCTACGTTTCATAGCTCAGTATGGAAGATG
Found at i:62983447 original size:35 final size:35
Alignment explanation
Indices: 62983393--62983670 Score: 412
Period size: 35 Copynumber: 7.9 Consensus size: 35
62983383 GAAAATACCA
*
62983393 TCAGTATAGTTAATACCATACCTACGTTTCACAAC
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
*
62983428 TCGGTATGGTTAATACCATACCTACGTTTCACAAC
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
* * *
62983463 TCGGTATGGATGATACCATACCTACGTTTCACAAC
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
*
62983498 TCAGTATGGTTAATACCATATCTACGTTTCACAAC
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
* * *
62983533 TCAGTATGGCTGATACCATACCTACATTTCACAAC
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
62983568 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
* * * *
62983603 TCGGTATGGATGATACCATACCTACGTTTCACAAT
1 TCAGTATGGTTAATACCATACCTACGTTTCACAAC
* * *
62983638 TCAGTATGGATGATACCATACCTACATTTCACA
1 TCAGTATGGTTAATACCATACCTACGTTTCACA
62983671 CTTTGCCATG
Statistics
Matches: 222, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 222 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (35 bp):
TCAGTATGGTTAATACCATACCTACGTTTCACAAC
Found at i:62987227 original size:36 final size:38
Alignment explanation
Indices: 62987186--62987289 Score: 142
Period size: 36 Copynumber: 2.7 Consensus size: 38
62987176 TCTTCAGAAC
*
62987186 AAAGAACCCAACACATTCAAAAAACAAATAAC-A-AAT
1 AAAGAACCCAAAACATTCAAAAAACAAATAACAACAAT
*
62987222 AAAGAACCCAAAACATTCAAAAAATAAATAACAAACAAT
1 AAAGAACCCAAAACATTCAAAAAACAAATAAC-AACAAT
62987261 AAAGAACCCAAAATC-TTCAAAAAAACAAA
1 AAAGAACCCAAAA-CATTC-AAAAAACAAA
62987290 AAAAGAACCC
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
36 30 0.50
38 1 0.02
39 19 0.32
40 10 0.17
ACGTcount: A:0.65, C:0.20, G:0.03, T:0.12
Consensus pattern (38 bp):
AAAGAACCCAAAACATTCAAAAAACAAATAACAACAAT
Found at i:62995372 original size:6 final size:6
Alignment explanation
Indices: 62995361--62995388 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62995351 AAGCCCTTAG
62995361 TCTCCC TCTCCC TCTCCC TCTCCC TCTC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTC
62995389 TTCTCTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCTCCC
Found at i:62996425 original size:27 final size:26
Alignment explanation
Indices: 62996388--62996502 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
62996378 AGCATGGCTG
* *
62996388 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
62996414 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
62996442 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
62996469 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
62996496 CCAGAAC
1 CCAGAAC
62996503 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:62996447 original size:54 final size:54
Alignment explanation
Indices: 62996388--62996502 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
62996378 AGCATGGCTG
*
62996388 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
62996442 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
62996496 CCAGAAC
1 CCAGAAC
62996503 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:62999871 original size:41 final size:41
Alignment explanation
Indices: 62999819--63000001 Score: 109
Period size: 41 Copynumber: 4.3 Consensus size: 41
62999809 CACTGCATCT
* *
62999819 TCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACC
1 TCAGAGAGATAAGACTTGATGCGATCTACTCCGCTGTAACC
* *** ** * *
62999860 TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT
1 TCAGAGAGATAAGA--CTTGA-TGCGATCTACTCCGCTGTAACC
* * * * * *
62999904 TCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAATC
1 TCAGAGAGATAAGACT--TG-ATGCGATCTACTCCGCTGTAACC
* * * *
62999947 TCAG-GAAGATAAGACCTGATGCGGTCTACTCTGCTGTAACT
1 TCAGAG-AGATAAGACTTGATGCGATCTACTCCGCTGTAACC
62999988 TCAGAGAGATAAGA
1 TCAGAGAGATAAGA
63000002 TCTTTTAATC
Statistics
Matches: 104, Mismatches: 29, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
41 42 0.40
42 4 0.04
43 32 0.31
44 26 0.25
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
TCAGAGAGATAAGACTTGATGCGATCTACTCCGCTGTAACC
Found at i:62999992 original size:128 final size:124
Alignment explanation
Indices: 62999819--63000089 Score: 366
Period size: 128 Copynumber: 2.2 Consensus size: 124
62999809 CACTGCATCT
*
62999819 TCAGGGAGATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGAT-C----TTT
* * *
62999884 TAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAATC
61 TAATCCGCTCCACTGTAATC-TCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAATC
* * *
62999947 TCAGGAAGATAAGACCTGATGCGGTCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTAATC
1 TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCTTTTAATC
* * *
63000012 CGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCTGCTGTAATC
66 CGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAATC
* *
63000071 TTAGGGAGATAAGATCTGA
1 TCAGGGAGATAAGACCTGA
63000090 AATTCTTTGG
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
123 33 0.26
124 42 0.33
127 1 0.01
128 52 0.41
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (124 bp):
TCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGAGAGATAAGATCTTTTAATC
CGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAATC
Found at i:63014714 original size:26 final size:26
Alignment explanation
Indices: 63014678--63014787 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
63014668 CATGAAATTC
63014678 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
63014704 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63014730 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
63014756 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
63014782 TTATCA
1 TTATCA
63014788 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63015796 original size:15 final size:15
Alignment explanation
Indices: 63015773--63015802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63015763 AGGATTTGGT
*
63015773 AAAGGAGAAGAAGAA
1 AAAGAAGAAGAAGAA
63015788 AAAGAAGAAGAAGAA
1 AAAGAAGAAGAAGAA
63015803 GAAGTGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAGAA
Found at i:63016074 original size:13 final size:14
Alignment explanation
Indices: 63016056--63016084 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63016046 AATAAATTTT
63016056 AAATTT-AATTATA
1 AAATTTAAATTATA
63016069 AAATTTAAATTATA
1 AAATTTAAATTATA
63016083 AA
1 AA
63016085 TTAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTTAAATTATA
Found at i:63016085 original size:13 final size:13
Alignment explanation
Indices: 63016048--63016091 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
63016038 AATAAAAAAA
*
63016048 TAAATTTTAAATT
1 TAAATTATAAATT
63016061 T-AATTATAAAATT
1 TAAATTAT-AAATT
63016074 TAAATTATAAATT
1 TAAATTATAAATT
*
63016087 AAAAT
1 TAAAT
63016092 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 16 0.59
14 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTATAAATT
Found at i:63016089 original size:19 final size:19
Alignment explanation
Indices: 63016047--63016091 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
63016037 TAATAAAAAA
* *
63016047 ATAAATTTTAAATTTAATT
1 ATAAAATTTAAATTTAAAT
63016066 ATAAAATTTAAATTATAAAT
1 ATAAAATTTAAATT-TAAAT
63016086 -TAAAAT
1 ATAAAAT
63016092 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAATTTAAATTTAAAT
Found at i:63017126 original size:28 final size:29
Alignment explanation
Indices: 63017073--63017128 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
63017063 CCGAAAAATA
* *
63017073 AAAAAATTATTAGAATAGGTCTATTTTTG
1 AAAAAATTATGAGAATAAGTCTATTTTTG
*
63017102 AAAAATTTATGAGAATAAGTC-ATTTTT
1 AAAAAATTATGAGAATAAGTCTATTTTT
63017129 ACGAAAACGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (29 bp):
AAAAAATTATGAGAATAAGTCTATTTTTG
Found at i:63017302 original size:11 final size:11
Alignment explanation
Indices: 63017286--63017319 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
63017276 TCTGACATAT
63017286 TCTCAAATCTC
1 TCTCAAATCTC
*
63017297 TCTCAAATTTC
1 TCTCAAATCTC
*
63017308 TCTCAATTCTC
1 TCTCAAATCTC
63017319 T
1 T
63017320 GTTAAAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (11 bp):
TCTCAAATCTC
Found at i:63019495 original size:47 final size:47
Alignment explanation
Indices: 63019438--63019541 Score: 190
Period size: 47 Copynumber: 2.2 Consensus size: 47
63019428 TTGTACATCA
63019438 TTATATTTTTAAATAAATATCACTTTTTTCATTAAAGTTGGTTTTTG
1 TTATATTTTTAAATAAATATCACTTTTTTCATTAAAGTTGGTTTTTG
*
63019485 TTATGTTTTTAAATAAATATCACTTTTTTCATTAAAGTTGGTTTTTG
1 TTATATTTTTAAATAAATATCACTTTTTTCATTAAAGTTGGTTTTTG
63019532 TTATCATTTT
1 TTAT-ATTTT
63019542 ATAATATTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (47 bp):
TTATATTTTTAAATAAATATCACTTTTTTCATTAAAGTTGGTTTTTG
Found at i:63020242 original size:20 final size:21
Alignment explanation
Indices: 63020204--63020242 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
63020194 AAAAATTATA
*
63020204 AAAAGTTAAATAATATAAAAT
1 AAAAGTTAAAAAATATAAAAT
*
63020225 AAAA-TTAAAAAATTTAAA
1 AAAAGTTAAAAAATATAAA
63020243 CCAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAGTTAAAAAATATAAAAT
Found at i:63020416 original size:41 final size:41
Alignment explanation
Indices: 63020356--63020454 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
63020346 AAAATAAAAG
* * ** *
63020356 AGAAAGCGCTTCCAACTGGAAGCGTTTTTAGGTGACTTGGT
1 AGAAAGCGCATCCAACTGGAAACGTTTCCAGGTGACTTGGC
* *
63020397 AGAAAGCTCATCCAGCTGGAAACGTTTCCAGGTGACTTGGC
1 AGAAAGCGCATCCAACTGGAAACGTTTCCAGGTGACTTGGC
**
63020438 AGAAAGCGTGTCCAACT
1 AGAAAGCGCATCCAACT
63020455 AGAAGTGTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (41 bp):
AGAAAGCGCATCCAACTGGAAACGTTTCCAGGTGACTTGGC
Found at i:63021048 original size:20 final size:20
Alignment explanation
Indices: 63021006--63021048 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
63020996 TTTTGAGCAA
*
63021006 TTTAATTTTTTTTATATTCT
1 TTTAATTTTTTTTATATTAT
*
63021026 TTTAACTTTTTTTTCT-TTAT
1 TTTAA-TTTTTTTTATATTAT
63021046 TTT
1 TTT
63021049 CTATTCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTAATTTTTTTTATATTAT
Found at i:63021317 original size:16 final size:16
Alignment explanation
Indices: 63021298--63021339 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63021288 AAAGAAAGTT
*
63021298 AAAAGAATATAAAA-G
1 AAAAAAATATAAAATG
63021313 AAAAAAATGA-AAAATG
1 AAAAAAAT-ATAAAATG
63021329 AAAAAAATATA
1 AAAAAAATATA
63021340 GGGACCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (16 bp):
AAAAAAATATAAAATG
Found at i:63022117 original size:10 final size:10
Alignment explanation
Indices: 63022102--63022262 Score: 108
Period size: 9 Copynumber: 16.5 Consensus size: 10
63022092 AACTTTTAAT
63022102 TAAAAAATTA
1 TAAAAAATTA
63022112 TAAAAAATTA
1 TAAAAAATTA
*
63022122 -AAAAGATTA
1 TAAAAAATTA
63022131 TAAAAAATTTA
1 TAAAAAA-TTA
63022142 TTAAAAAA-TA
1 -TAAAAAATTA
63022152 TAAAAAA-TA
1 TAAAAAATTA
* *
63022161 TTAAATATT-
1 TAAAAAATTA
63022170 TAAAAAA-TA
1 TAAAAAATTA
* *
63022179 T-GAAACTTGA
1 TAAAAAATT-A
* *
63022189 TATAAACTTA
1 TAAAAAATTA
63022199 T-AAAAATTA
1 TAAAAAATTA
63022208 T-AAAAA-TA
1 TAAAAAATTA
* *
63022216 TAAAAAAAGTC
1 T-AAAAAATTA
63022227 TAATAAAA-TA
1 TAA-AAAATTA
*
63022237 TAATAAATTA
1 TAAAAAATTA
63022247 TAAAAATATTA
1 TAAAAA-ATTA
63022258 TAAAA
1 TAAAA
63022263 GTAATAAAAC
Statistics
Matches: 122, Mismatches: 15, Indels: 27
0.74 0.09 0.16
Matches are distributed among these distances:
8 7 0.06
9 44 0.36
10 40 0.33
11 24 0.20
12 7 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:63022130 original size:19 final size:18
Alignment explanation
Indices: 63022099--63022262 Score: 98
Period size: 19 Copynumber: 8.5 Consensus size: 18
63022089 AACAACTTTT
63022099 AATTAAAAAATTATAAAA
1 AATTAAAAAATTATAAAA
63022117 AATTAAAAAGATTATAAAA
1 AATTAAAAA-ATTATAAAA
*
63022136 AATTTATTAAAAAATATAAAA
1 AA-TTA--AAAAATTATAAAA
* *
63022157 AATATTAAATATT-TAAAA
1 AAT-TAAAAAATTATAAAA
* * *
63022175 AA-TATGAAACTTGATATAA
1 AATTA-AAAAATT-ATAAAA
*
63022194 ACTTATAAAAATTATAAAA
1 AATTA-AAAAATTATAAAA
* * *
63022213 ATATAAAAAAAGTCTAATAA
1 A-ATTAAAAAATTATAA-AA
*
63022233 AATATAATAAATTATAAAA
1 AAT-TAAAAAATTATAAAA
63022252 ATATTATAAAA
1 A-ATTA-AAAA
63022263 GTAATAAAAC
Statistics
Matches: 110, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.01
17 4 0.04
18 16 0.15
19 43 0.39
20 31 0.28
21 11 0.10
22 4 0.04
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AATTAAAAAATTATAAAA
Found at i:63022136 original size:12 final size:11
Alignment explanation
Indices: 63022103--63022163 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
63022093 ACTTTTAATT
63022103 AAAAAATTAT-
1 AAAAAATTATA
63022113 AAAAAA-T-TA
1 AAAAAATTATA
*
63022122 AAAAGATTATA
1 AAAAAATTATA
* *
63022133 AAAAATTTATT
1 AAAAAATTATA
63022144 AAAAAA-TATA
1 AAAAAATTATA
63022154 AAAAATATTA
1 AAAAA-ATTA
63022164 AATATTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.03
9 6 0.15
10 15 0.38
11 16 0.40
12 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:63022221 original size:8 final size:9
Alignment explanation
Indices: 63022099--63022253 Score: 91
Period size: 10 Copynumber: 16.3 Consensus size: 9
63022089 AACAACTTTT
63022099 AATTA-AAA
1 AATTATAAA
63022107 AATTATAAAA
1 AATTAT-AAA
63022117 AATTA-AAA
1 AATTATAAA
63022125 AGATTATAAAA
1 A-ATTAT-AAA
63022136 AATTTATTAAA
1 AA-TTA-TAAA
*
63022147 AAATATAAA
1 AATTATAAA
*
63022156 AAATATTAAA
1 AATTA-TAAA
*
63022166 TATT-TAAA
1 AATTATAAA
* *
63022174 AAATATGAA
1 AATTATAAA
*
63022183 ACTTGATATAA
1 AATT-ATA-AA
*
63022194 ACTTATAAA
1 AATTATAAA
63022203 AATTATAAA
1 AATTATAAA
*
63022212 AATATAAAAA
1 AAT-TATAAA
* *
63022222 AAGTCTAATA
1 AATTATAA-A
*
63022232 AAATATAATA
1 AATTATAA-A
63022242 AATTATAAA
1 AATTATAAA
63022251 AAT
1 AAT
63022254 ATTATAAAAG
Statistics
Matches: 117, Mismatches: 17, Indels: 25
0.74 0.11 0.16
Matches are distributed among these distances:
8 15 0.13
9 38 0.32
10 45 0.38
11 18 0.15
12 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AATTATAAA
Found at i:63022234 original size:11 final size:10
Alignment explanation
Indices: 63022210--63022285 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
63022200 AAAAATTATA
*
63022210 AAAATATAAA
1 AAAATATAAT
*
63022220 AAAAGTCTAAT
1 AAAA-TATAAT
63022231 AAAATATAAT
1 AAAATATAAT
*
63022241 AAATTAT-A-
1 AAAATATAAT
*
63022249 AAAATATTAT
1 AAAATATAAT
*
63022259 AAAA-GTAAT
1 AAAATATAAT
* *
63022268 AAAACATAGTT
1 AAAATATA-AT
63022279 AAAATAT
1 AAAATAT
63022286 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
8 6 0.12
9 9 0.18
10 21 0.41
11 15 0.29
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAATATAAT
Found at i:63022245 original size:39 final size:36
Alignment explanation
Indices: 63022197--63022271 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 36
63022187 GATATAAACT
63022197 TATAAAAATTATAAAAATATAAAAAAAGTCTAATAAAA
1 TATAAAAATTATAAAAATATAAAAAAAG--TAATAAAA
* *
63022235 TATAATAAATTATAAAAATATTATAAAAGTAATAAAA
1 TATAA-AAATTATAAAAATATAAAAAAAGTAATAAAA
63022272 CATAGTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 8 0.24
38 5 0.15
39 21 0.62
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (36 bp):
TATAAAAATTATAAAAATATAAAAAAAGTAATAAAA
Found at i:63022285 original size:30 final size:29
Alignment explanation
Indices: 63022249--63022330 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
63022239 ATAAATTATA
63022249 AAAATATTATAAAAGTAATAAAACATAGTT
1 AAAATATTATAAAAGTAATAAAACATA-TT
* *
63022279 AAAATATT-TAAAATTTTATTAAAACATATT
1 AAAATATTATAAAA--GTAATAAAACATATT
*
63022309 AAAAT-TCTATAAAAGTCATAAA
1 AAAATAT-TATAAAAGTAATAAA
63022331 CAAATCATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 11 0.26
30 16 0.37
31 16 0.37
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATATTATAAAAGTAATAAAACATATT
Found at i:63022312 original size:21 final size:20
Alignment explanation
Indices: 63022277--63022322 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
63022267 TAAAACATAG
* *
63022277 TTAAAATATTTAAAATTTTA
1 TTAAAACATTTAAAATTCTA
63022297 TTAAAACATATTAAAATTCTA
1 TTAAAACAT-TTAAAATTCTA
63022318 -TAAAA
1 TTAAAA
63022323 GTCATAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAACATTTAAAATTCTA
Found at i:63022876 original size:9 final size:9
Alignment explanation
Indices: 63022841--63022930 Score: 80
Period size: 9 Copynumber: 9.8 Consensus size: 9
63022831 TACGTTTTTT
63022841 TAATTTTAA
1 TAATTTTAA
63022850 GT-ATTTTAAA
1 -TAATTTT-AA
63022860 TAAGTTTTAA
1 TAA-TTTTAA
63022870 TAATTTT-A
1 TAATTTTAA
*
63022878 TAA-TTTAT
1 TAATTTTAA
*
63022886 TATATTTTTA
1 TA-ATTTTAA
63022896 TAATATTT-A
1 TAAT-TTTAA
63022905 TAATTTTTAA
1 TAA-TTTTAA
63022915 TAATTTTAA
1 TAATTTTAA
63022924 TAATTTT
1 TAATTTT
63022931 CTATTTTTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
7 3 0.04
8 6 0.09
9 33 0.49
10 22 0.32
11 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
TAATTTTAA
Found at i:63022884 original size:27 final size:26
Alignment explanation
Indices: 63022852--63022947 Score: 95
Period size: 26 Copynumber: 3.5 Consensus size: 26
63022842 AATTTTAAGT
63022852 ATTTTAAATAAGTTTTAATAATTTTATA
1 ATTTT-AATAA-TTTTAATAATTTTATA
* *
63022880 A-TTTATTATATTTTTATAATATTTATA
1 ATTTTAATA-ATTTTAATAAT-TTTATA
*
63022907 ATTTTTAATAATTTTAATAATTTTCTA
1 A-TTTTAATAATTTTAATAATTTTATA
* *
63022934 TTTTTTATAATTTT
1 ATTTTAATAATTTT
63022948 CTTGATGAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 24 0.42
27 16 0.28
28 11 0.19
29 6 0.11
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (26 bp):
ATTTTAATAATTTTAATAATTTTATA
Found at i:63022917 original size:45 final size:45
Alignment explanation
Indices: 63022859--63022944 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
63022849 AGTATTTTAA
63022859 ATAAGTTTTAATAATTTT-ATAATTTAT-TATATTTTTATAATATTT
1 ATAAGTTTTAATAATTTTAATAATTT-TCTAT-TTTTTATAATATTT
*
63022904 ATAATTTTTAATAATTTTAATAATTTTCTATTTTTTATAAT
1 ATAAGTTTTAATAATTTTAATAATTTTCTATTTTTTATAAT
63022945 TTTCTTGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
45 28 0.74
46 10 0.26
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (45 bp):
ATAAGTTTTAATAATTTTAATAATTTTCTATTTTTTATAATATTT
Found at i:63022947 original size:9 final size:9
Alignment explanation
Indices: 63022859--63022947 Score: 87
Period size: 9 Copynumber: 9.9 Consensus size: 9
63022849 AGTATTTTAA
*
63022859 ATAAGTTTTA
1 ATAA-TTTTT
63022869 ATAA-TTTT
1 ATAATTTTT
63022877 ATAATTTATT
1 ATAATTT-TT
63022887 AT-ATTTTT
1 ATAATTTTT
*
63022895 ATAATATTT
1 ATAATTTTT
63022904 ATAATTTTT
1 ATAATTTTT
*
63022913 AATAATTTTA
1 -ATAATTTTT
63022923 ATAATTTTCT
1 ATAATTTT-T
63022933 AT--TTTTT
1 ATAATTTTT
63022940 ATAATTTT
1 ATAATTTT
63022948 CTTGATGAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.04
8 15 0.22
9 31 0.46
10 18 0.27
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:63031997 original size:17 final size:16
Alignment explanation
Indices: 63031971--63032004 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
63031961 ATATTTTTTT
63031971 ATAATAATTATAATTA
1 ATAATAATTATAATTA
*
63031987 ATAATTAATTATATTTA
1 ATAA-TAATTATAATTA
63032004 A
1 A
63032005 ATAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATAATTATAATTA
Found at i:63032643 original size:14 final size:14
Alignment explanation
Indices: 63032624--63032661 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
63032614 GTTTAGGAGT
63032624 AAAAT-ATTTTTCGA
1 AAAATAATTTTT-GA
63032638 AAAATAATTTTTGA
1 AAAATAATTTTTGA
*
63032652 AAAATGATTT
1 AAAATAATTT
63032662 GTTTTTCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (14 bp):
AAAATAATTTTTGA
Found at i:63039237 original size:34 final size:34
Alignment explanation
Indices: 63039198--63039290 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 34
63039188 CTGATATGTG
* *
63039198 AACTATATTTTTATGCAAATCTATGCTAAGTGCA
1 AACTATATTATTATGCAAACCTATGCTAAGTGCA
* * * ** *
63039232 AACTATGTTATTATGCGAACCTATTCTGTGTGCG
1 AACTATATTATTATGCAAACCTATGCTAAGTGCA
* * *
63039266 AACTATATTGTTATGCGAACTTATG
1 AACTATATTATTATGCAAACCTATG
63039291 TTTTATGTGA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (34 bp):
AACTATATTATTATGCAAACCTATGCTAAGTGCA
Found at i:63039308 original size:16 final size:17
Alignment explanation
Indices: 63039232--63039323 Score: 91
Period size: 17 Copynumber: 5.4 Consensus size: 17
63039222 GCTAAGTGCA
*
63039232 AACTATGTTATTATGCG
1 AACTATGTTGTTATGCG
*
63039249 AACCTAT-TCTG-TGTGCG
1 AA-CTATGT-TGTTATGCG
*
63039266 AACTATATTGTTATGCG
1 AACTATGTTGTTATGCG
*
63039283 AACTTATGTT-TTATGTG
1 AAC-TATGTTGTTATGCG
*
63039300 AACTATGTTGTTATGCA
1 AACTATGTTGTTATGCG
63039317 AACTATG
1 AACTATG
63039324 CTAGGTACAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
16 12 0.19
17 40 0.65
18 10 0.16
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.41
Consensus pattern (17 bp):
AACTATGTTGTTATGCG
Found at i:63045727 original size:6 final size:6
Alignment explanation
Indices: 63045716--63045751 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
63045706 TTAGTAGTTT
*
63045716 AATATA AATATA AATATA AATATA TATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
63045752 TATAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:63045752 original size:12 final size:12
Alignment explanation
Indices: 63045717--63045755 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
63045707 TAGTAGTTTA
*
63045717 ATATAAATATAA
1 ATATAAATATAT
63045729 ATATAAATATAT
1 ATATAAATATAT
63045741 ATATAAATATAT
1 ATATAAATATAT
63045753 ATA
1 ATA
63045756 ATTATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:63045787 original size:29 final size:29
Alignment explanation
Indices: 63045739--63045803 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
63045729 ATATAAATAT
63045739 ATATATAAATATATATAATTATTATT-TAAC
1 ATATATAAATATATATAATT-TT-TTATAAC
*
63045769 ATATATAATTA-ATATAATTTTTTATAAC
1 ATATATAAATATATATAATTTTTTATAAC
63045797 ATGATAT
1 AT-ATAT
63045804 TTCCGTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.06
28 8 0.25
29 12 0.38
30 10 0.31
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATATAAATATATATAATTTTTTATAAC
Found at i:63055460 original size:66 final size:66
Alignment explanation
Indices: 63055354--63055483 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
63055344 TAGGTCGATG
*
63055354 GATAGTGTGAGTAATCTCCACCAATGCTTCCAGTCCAACGAGCTTCCAAATTACTATAGAACAAT
1 GATAGTGTGAGTAATCTCCACCAATGCTTCCAATCCAACGAGCTTCCAAATTACTATAGAACAAT
63055419 A
66 A
* * * **
63055420 GATAGTGTGAGTGATCTCCATCGATGCTTCCAATCCAACGAGCTTCTGAATTACTATAGAACAA
1 GATAGTGTGAGTAATCTCCACCAATGCTTCCAATCCAACGAGCTTCCAAATTACTATAGAACAA
63055484 GGGAAAACAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (66 bp):
GATAGTGTGAGTAATCTCCACCAATGCTTCCAATCCAACGAGCTTCCAAATTACTATAGAACAAT
A
Found at i:63061236 original size:7 final size:7
Alignment explanation
Indices: 63061224--63061249 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
63061214 TAAAATTATA
63061224 AAATTTT
1 AAATTTT
63061231 AAATTTT
1 AAATTTT
63061238 AAATTTT
1 AAATTTT
63061245 AAATT
1 AAATT
63061250 ATAACTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:63062516 original size:12 final size:12
Alignment explanation
Indices: 63062495--63062532 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
63062485 GTGAAAATTA
63062495 AAATTTAATGTG
1 AAATTTAATGTG
*
63062507 AAATTGAATGTG
1 AAATTTAATGTG
63062519 AAATATTAATGTG
1 AAAT-TTAATGTG
63062532 A
1 A
63062533 TTTAATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (12 bp):
AAATTTAATGTG
Found at i:63063220 original size:43 final size:43
Alignment explanation
Indices: 63063172--63063257 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
63063162 TATGTGATTG
*
63063172 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGTTGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
* * *
63063215 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
63063258 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.50, C:0.01, G:0.24, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:63067170 original size:46 final size:46
Alignment explanation
Indices: 63066765--63067171 Score: 555
Period size: 46 Copynumber: 8.8 Consensus size: 46
63066755 TTTGACATGA
* * * * * *
63066765 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
* * * **
63066811 TGTCATGGTATCTTTCAGCCATGGTCTTGTTCATTTCATGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
** * *
63066857 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTTATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
** *
63066903 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
*
63066949 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
*
63066995 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* * *
63067041 TGCCATGGTATCTTTCAACTATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
63067087 CGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
63067133 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
63067172 TTCAGAAAGC
Statistics
Matches: 330, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 326 0.99
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:63069261 original size:30 final size:31
Alignment explanation
Indices: 63069206--63069264 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
63069196 CACCCTTAAA
* * *
63069206 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTT
63069237 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
63069265 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTT
Found at i:63069272 original size:30 final size:31
Alignment explanation
Indices: 63069206--63069274 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
63069196 CACCCTTAAA
* * * *
63069206 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTG
63069237 ATATTTACACT-TTAATCCCTCAAA-TTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTTG
63069266 AGTATTTAC
1 A-TATTTAC
63069275 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTG
Found at i:63079639 original size:15 final size:13
Alignment explanation
Indices: 63079597--63079631 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
63079587 ATCTTGTTCT
63079597 ATTTATATTT-TGA
1 ATTTATATTTAT-A
63079610 ATTTATATTTATA
1 ATTTATATTTATA
63079623 ATTTATATT
1 ATTTATATT
63079632 AATATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
ATTTATATTTATA
Found at i:63081097 original size:2 final size:2
Alignment explanation
Indices: 63081090--63081125 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
63081080 AAGATCTCCA
63081090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63081126 TTAAAGCTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63088497 original size:20 final size:20
Alignment explanation
Indices: 63088468--63088575 Score: 59
Period size: 20 Copynumber: 5.7 Consensus size: 20
63088458 AATAAATTTT
63088468 AAAA-TTTAAAATATTTATA
1 AAAATTTTAAAATATTTATA
63088487 AAAATTTT-AAA-ATTTAT-
1 AAAATTTTAAAATATTTATA
* * *
63088504 --ATTTTTAAAAAATATATA
1 AAAATTTTAAAATATTTATA
* * *
63088522 AAAATTCTAAAAAATATATTA
1 AAAATTTTAAAATATTTA-TA
** * *
63088543 AAAAAGTTAAGATCTTT-TA
1 AAAATTTTAAAATATTTATA
63088562 AAAGATTTTAAAAT
1 AAA-ATTTTAAAAT
63088576 TATAATTTTG
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
15 5 0.07
16 3 0.04
17 5 0.07
18 6 0.09
19 12 0.18
20 24 0.36
21 12 0.18
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (20 bp):
AAAATTTTAAAATATTTATA
Found at i:63088501 original size:18 final size:19
Alignment explanation
Indices: 63088468--63088504 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
63088458 AATAAATTTT
63088468 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
63088487 AAAATTTTAAA-ATTTATA
1 AAAATTTAAAATATTTATA
63088505 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:63088540 original size:35 final size:35
Alignment explanation
Indices: 63088472--63088541 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
63088462 AATTTTAAAA
* * * **
63088472 TTTAAAATATTTATAAAAATTTTAAAATTTATATT
1 TTTAAAAAATATATAAAAATTCTAAAAAATATATT
63088507 TTTAAAAAATATATAAAAATTCTAAAAAATATATT
1 TTTAAAAAATATATAAAAATTCTAAAAAATATATT
63088542 AAAAAAGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (35 bp):
TTTAAAAAATATATAAAAATTCTAAAAAATATATT
Found at i:63100038 original size:20 final size:21
Alignment explanation
Indices: 63100013--63100066 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
63100003 ACAACCCGTG
**
63100013 GTATCGATAATTTTT-CACGA
1 GTATCGATAATTTTTACAAAA
63100033 GTATCGAT-ATTTTTACAAAA
1 GTATCGATAATTTTTACAAAA
*
63100053 GTGTCGATAATTTT
1 GTATCGATAATTTT
63100067 AAATTGGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.21
20 18 0.62
21 5 0.17
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (21 bp):
GTATCGATAATTTTTACAAAA
Found at i:63103067 original size:20 final size:20
Alignment explanation
Indices: 63103004--63103069 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
63102994 TAAAGCTTTG
*
63103004 AAATAATTTTAAAATCAAA-TA
1 AAATGATTTT-AAA-CAAAGTA
* *
63103025 CAAATGATTTTAACCAAATTA
1 -AAATGATTTTAAACAAAGTA
63103046 AAATGATTTTCAAAC-AAGTA
1 AAATGATTTT-AAACAAAGTA
63103066 AAAT
1 AAAT
63103070 TTGCTCCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 22 0.58
21 7 0.18
22 9 0.24
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (20 bp):
AAATGATTTTAAACAAAGTA
Found at i:63103238 original size:22 final size:22
Alignment explanation
Indices: 63103210--63103252 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
63103200 TGTTTTTAGT
*
63103210 ATCGATA-CTTTTTTGAAAAATA
1 ATCGATACCTTTCTT-AAAAATA
63103232 ATCGATACCTTTCTTAAAAAT
1 ATCGATACCTTTCTTAAAAAT
63103253 GATACCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (22 bp):
ATCGATACCTTTCTTAAAAATA
Found at i:63123553 original size:18 final size:18
Alignment explanation
Indices: 63123530--63123565 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
63123520 CTGCATAGAG
63123530 TTGAAATGAGGCTTTGCC
1 TTGAAATGAGGCTTTGCC
63123548 TTGAAATGAGGCTTTGCC
1 TTGAAATGAGGCTTTGCC
63123566 AACAACCCAA
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:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (18 bp):
TTGAAATGAGGCTTTGCC
Found at i:63131504 original size:49 final size:49
Alignment explanation
Indices: 63131338--63131562 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
63131328 TGAGGTCGCA
* * * * * * *
63131338 TGTGTAGTACTAAGTCCAGGCTACTATGCGTACCTGAAAACTGTGATTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
63131389 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
63131439 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
63131488 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * *
63131537 TGTATAGTACCATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
63131563 TGCGTACTAG
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 78 0.51
50 44 0.29
51 32 0.21
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:63131519 original size:99 final size:101
Alignment explanation
Indices: 63131338--63131519 Score: 287
Period size: 99 Copynumber: 1.8 Consensus size: 101
63131328 TGAGGTCGCA
* * *
63131338 TGTGTAGTACTAAGTCCAGGCTACTATGCGTACCTGAAAACTGTGATTACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTCCAGGCTACTACGCGTACCGGAAAACTGTGATCACGTGTGTAGTACTAAG
63131403 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * * *
63131439 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTCCAGGCTACTACGCGTACCGGAAAACTGTGATCACGTGTGTAGTACTAAG
63131502 TGCAGGCTACTACGTGTA
66 TGCAGGCTACTACGTGTA
63131520 CCGGATAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 38 0.51
100 1 0.01
101 35 0.47
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTCCAGGCTACTACGCGTACCGGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:63141983 original size:40 final size:40
Alignment explanation
Indices: 63141930--63142012 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
63141920 ATAAAGAAGA
*
63141930 AAGAAAAGGGTTCATGCCATTTAGGGTTTCAGCACTATAG
1 AAGAAAAGGGTTCATGCCATTTAGGGTTTCAACACTATAG
*
63141970 AAGAAAAGGGTTCATGCCATTTAGGGTTTCAACACTATGG
1 AAGAAAAGGGTTCATGCCATTTAGGGTTTCAACACTATAG
63142010 AAG
1 AAG
63142013 CTTAATTCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (40 bp):
AAGAAAAGGGTTCATGCCATTTAGGGTTTCAACACTATAG
Found at i:63150656 original size:12 final size:13
Alignment explanation
Indices: 63150639--63150672 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
63150629 ATTATTCTAA
63150639 TATTTGATTTA-T
1 TATTTGATTTAGT
63150651 TATTTGATTTAGT
1 TATTTGATTTAGT
63150664 TATTT-ATTT
1 TATTTGATTT
63150673 CAATTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (13 bp):
TATTTGATTTAGT
Found at i:63164899 original size:13 final size:13
Alignment explanation
Indices: 63164883--63164913 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
63164873 TAAACCAAAT
63164883 TTTTTAAAAATAC
1 TTTTTAAAAATAC
63164896 TTTTTAAAAATAC
1 TTTTTAAAAATAC
63164909 TTTTT
1 TTTTT
63164914 CATATCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTTAAAAATAC
Found at i:63173076 original size:46 final size:46
Alignment explanation
Indices: 63173016--63173438 Score: 556
Period size: 46 Copynumber: 9.7 Consensus size: 46
63173006 TTTGACATGA
* * * * **
63173016 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
63173062 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATATCAGGT
63173108 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63173154 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63173192 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63173238 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
63173276 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
63173322 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63173368 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
63173406 TGCCTTGGTATCTTTCAACCATGGTCTTTCACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
63173439 CAGATTGTCA
Statistics
Matches: 346, Mismatches: 10, Indels: 48
0.86 0.02 0.12
Matches are distributed among these distances:
38 98 0.28
39 3 0.01
40 9 0.03
41 3 0.01
43 2 0.01
44 9 0.03
45 5 0.01
46 217 0.63
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:63173200 original size:38 final size:38
Alignment explanation
Indices: 63173149--63173476 Score: 404
Period size: 38 Copynumber: 8.0 Consensus size: 38
63173139 CATTTCATAT
63173149 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
63173187 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
63173232 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
63173271 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
63173309 TTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATA
1 ---C-----AGGTTGCCATGGTATCTTTCAACCATGGTC-T-TACA---C--A
63173362 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
63173401 CAGGTTGCCTTGGTATCTTTCAACCATGGTCTTTCACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* *
63173439 CAGATTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
63173477 TTTCATATCA
Statistics
Matches: 261, Mismatches: 6, Indels: 46
0.83 0.02 0.15
Matches are distributed among these distances:
38 141 0.54
39 2 0.01
40 3 0.01
41 3 0.01
43 1 0.00
44 7 0.03
45 2 0.01
46 93 0.36
47 1 0.00
48 4 0.02
51 3 0.01
53 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:63173244 original size:84 final size:84
Alignment explanation
Indices: 63173103--63173487 Score: 597
Period size: 84 Copynumber: 4.6 Consensus size: 84
63173093 CATCTTATAT
63173103 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
63173168 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
63173187 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
63173252 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
63173271 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
63173336 TCAACCATGGTCTTATACATTTCATA
66 TCAACCATGGTC-T-TACA---C--A
*
63173362 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCTTGGTATCT
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
63173419 TTCAACCATGGTCTTTCACA
65 TTCAACCATGGTCTTACACA
* *
63173439 CAGATTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
63173488 AGAGCACACT
Statistics
Matches: 279, Mismatches: 6, Indels: 32
0.88 0.02 0.10
Matches are distributed among these distances:
76 31 0.11
77 1 0.00
78 3 0.01
79 1 0.00
81 1 0.00
82 3 0.01
83 2 0.01
84 192 0.69
85 2 0.01
86 4 0.01
87 1 0.00
89 1 0.00
90 3 0.01
91 1 0.00
92 33 0.12
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:63173257 original size:130 final size:122
Alignment explanation
Indices: 63173061--63173487 Score: 649
Period size: 130 Copynumber: 3.4 Consensus size: 122
63173051 TTCTATCATA
63173061 TTGCCATGGTATCTTTCAACCATGGTCTTACACATCTT-ATATCAGGTTGCCATGGTATCTTTCA
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATATCAGGTTGCCATGGTATCTTTCA
63173125 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
65 ACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
63173190 G
122 G
63173191 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
63173256 CCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGG
66 CCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA---C-----AGG
*
63173321 TTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
* * *
63173386 CCATGGTCTTACACACAGGTTGCCTTGGTATCTTTCAACCATGGTCTTTCACACAGA
66 CCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
*
63173443 TTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
63173488 AGAGCACACT
Statistics
Matches: 282, Mismatches: 6, Indels: 26
0.90 0.02 0.08
Matches are distributed among these distances:
122 83 0.29
123 1 0.00
125 2 0.01
127 1 0.00
128 3 0.01
129 2 0.01
130 190 0.67
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (122 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
CCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
Found at i:63175681 original size:27 final size:28
Alignment explanation
Indices: 63175616--63175692 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
63175606 CTTTATATAC
*
63175616 TAATAAAATAATAATAAAATATCTTATT
1 TAATTAAATAATAATAAAATATCTTATT
* * *
63175644 AAAGT-ATTAATAA-AATAATAT-TTATT
1 TAATTAAATAATAATAA-AATATCTTATT
*
63175670 TAATTAAATAATTATAAAATATC
1 TAATTAAATAATAATAAAATATC
63175693 AAAATATCTC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
26 10 0.27
27 23 0.62
28 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (28 bp):
TAATTAAATAATAATAAAATATCTTATT
Found at i:63179065 original size:35 final size:35
Alignment explanation
Indices: 63179019--63179126 Score: 153
Period size: 35 Copynumber: 3.1 Consensus size: 35
63179009 CTGTTTGGCA
*
63179019 TGTTTCAGTTGGACTAGCTCTTGTGAGCATTGGTG
1 TGTTTCGGTTGGACTAGCTCTTGTGAGCATTGGTG
* **
63179054 TGTTTCGGTTGGACTAGCTCTTATGAGCATTGGCA
1 TGTTTCGGTTGGACTAGCTCTTGTGAGCATTGGTG
* *
63179089 TGTTTCGGTTGGACTAACTCTTGTGAACATTTGGTG
1 TGTTTCGGTTGGACTAGCTCTTGTGAGCA-TTGGTG
63179125 TG
1 TG
63179127 GCTTGAAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
35 57 0.90
36 6 0.10
ACGTcount: A:0.16, C:0.15, G:0.30, T:0.40
Consensus pattern (35 bp):
TGTTTCGGTTGGACTAGCTCTTGTGAGCATTGGTG
Found at i:63185719 original size:96 final size:96
Alignment explanation
Indices: 63185551--63185734 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 96
63185541 TACTGTTCAA
* * * * **
63185551 ACAAGCTGTCGAGTATTCGCAACTAATGTTGGACCTCAACCATTGATAGGACATTCAAGACCAGT
1 ACAAGCTGTCAAGTATTCGCAACTAATGCTGGAACTCAACCATAGATAGGACATTCAAGACCAAC
*
63185616 ACCCGAAACATGGTAACCTTGATCTGCTCAC
66 ACCCGAAACATGGTAACCCTGATCTGCTCAC
* * *
63185647 ACAAGCTGTCAAGTA-TCTGCAACTAATGCTGGAACTCAGCGATAGGTAGGACATTCAAGACCAA
1 ACAAGCTGTCAAGTATTC-GCAACTAATGCTGGAACTCAACCATAGATAGGACATTCAAGACCAA
*
63185711 CACTCGAAACATGGTAACCCTGAT
65 CACCCGAAACATGGTAACCCTGAT
63185735 GACATGTCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 2 0.03
96 74 0.97
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (96 bp):
ACAAGCTGTCAAGTATTCGCAACTAATGCTGGAACTCAACCATAGATAGGACATTCAAGACCAAC
ACCCGAAACATGGTAACCCTGATCTGCTCAC
Found at i:63187984 original size:20 final size:20
Alignment explanation
Indices: 63187961--63187999 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
63187951 ATAATTTCAA
63187961 AAATAAATATATATTTTTTT
1 AAATAAATATATATTTTTTT
63187981 AAATAAATATATATTTTTT
1 AAATAAATATATATTTTTT
63188000 AATTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATAAATATATATTTTTTT
Found at i:63188102 original size:15 final size:16
Alignment explanation
Indices: 63188067--63188099 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63188057 TGTGGGAAAG
63188067 AAAT-ATATATTTCTA
1 AAATAATATATTTCTA
*
63188082 AAATAATATATTTTTA
1 AAATAATATATTTCTA
63188098 AA
1 AA
63188100 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATAATATATTTCTA
Found at i:63189119 original size:19 final size:19
Alignment explanation
Indices: 63189092--63189149 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
63189082 TTTAAAAATC
*
63189092 TTTAAAAATAAAAAATAAA
1 TTTACAAATAAAAAATAAA
63189111 TTTACAAATAAATATAA-AAA
1 TTTACAAATAAA-A-AATAAA
*
63189131 ATTACAAA-AAAAATATAAA
1 TTTACAAATAAAAA-ATAAA
63189150 AGATTACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 17 0.52
20 11 0.33
21 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TTTACAAATAAAAAATAAA
Found at i:63189180 original size:10 final size:9
Alignment explanation
Indices: 63189138--63189202 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
63189128 AAAATTACAA
*
63189138 AAAAAATAT
1 AAAAATTAT
*
63189147 AAAAGATTAC
1 AAAA-ATTAT
*
63189157 AAAGATTAT
1 AAAAATTAT
63189166 AAAAATTATT
1 AAAAATTA-T
63189176 AAAAA-TA-
1 AAAAATTAT
*
63189183 GAAAATTAT
1 AAAAATTAT
63189192 -AAAATTAT
1 AAAAATTAT
63189200 AAA
1 AAA
63189203 TTACAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.09
8 10 0.22
9 19 0.42
10 12 0.27
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:63189218 original size:26 final size:25
Alignment explanation
Indices: 63189184--63189250 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
63189174 TTAAAAATAG
*
63189184 AAAATTATAAAATTATAAA-TTACAA
1 AAAAATATAAAA-TATAAAGTTACAA
*
63189209 AAACAATATAAAA-ATAAAGTTACTA
1 AAA-AATATAAAATATAAAGTTACAA
*
63189234 AAAAATTTAAAAATATA
1 AAAAATAT-AAAATATA
63189251 TTAAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
24 9 0.26
25 15 0.43
26 11 0.31
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (25 bp):
AAAAATATAAAATATAAAGTTACAA
Found at i:63189225 original size:24 final size:23
Alignment explanation
Indices: 63189095--63189257 Score: 92
Period size: 21 Copynumber: 7.1 Consensus size: 23
63189085 AAAAATCTTT
63189095 AAAAATA-AAAAATAAATTTACAA
1 AAAAATATAAAAATAAA-TTACAA
*
63189118 ATAAATAT--AAA-AAATTACAA
1 AAAAATATAAAAATAAATTACAA
* *
63189138 AAAAA-ATATAAA-AGATTAC-A
1 AAAAATATAAAAATAAATTACAA
* * * *
63189158 AAGATTATAAAAAT-TATTAAAAA
1 AAAAATATAAAAATAAATT-ACAA
63189181 TAGAAAATTATAAAATTATAAATTACAA
1 -A-AAAA-TATAAAA--ATAAATTACAA
*
63189209 AAACAATATAAAAATAAAGTTACTA
1 AAA-AATATAAAAATAAA-TTACAA
* *
63189234 AAAAATTTAAAAATATATTA-AA
1 AAAAATATAAAAATAAATTACAA
63189256 AA
1 AA
63189258 TTTTTAATAT
Statistics
Matches: 109, Mismatches: 16, Indels: 31
0.70 0.10 0.20
Matches are distributed among these distances:
19 2 0.02
20 14 0.13
21 21 0.19
22 7 0.06
23 10 0.09
24 18 0.17
25 10 0.09
26 16 0.15
27 3 0.03
28 5 0.05
29 3 0.03
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAATATAAAAATAAATTACAA
Found at i:63190956 original size:18 final size:18
Alignment explanation
Indices: 63190933--63190968 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
63190923 AATAAGTTAG
63190933 TCCAAAGATTAATTCATT
1 TCCAAAGATTAATTCATT
63190951 TCCAAAGATTAATTCATT
1 TCCAAAGATTAATTCATT
63190969 GTTTGACATA
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:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
TCCAAAGATTAATTCATT
Found at i:63196567 original size:18 final size:19
Alignment explanation
Indices: 63196546--63196589 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
63196536 ATAATTTCTA
63196546 ATAATTTTATAACA-TTTT
1 ATAATTTTATAACATTTTT
*
63196564 ATAA-TTTCTAACATTTTT
1 ATAATTTTATAACATTTTT
63196582 ATAATTTT
1 ATAATTTT
63196590 TTCAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 12 0.52
19 3 0.13
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAATTTTATAACATTTTT
Found at i:63196591 original size:28 final size:28
Alignment explanation
Indices: 63196520--63196591 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
63196510 TTTTTTTACT
* *
63196520 ATTTTTACAATATTTTATAATTTCTAAT
1 ATTTTTATAATATTTTATAATTTCTAAC
* *
63196548 AATTTTATAACATTTTATAATTTCTAAC
1 ATTTTTATAATATTTTATAATTTCTAAC
*
63196576 ATTTTTATAATTTTTT
1 ATTTTTATAATATTTT
63196592 CAATTTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTTATAATATTTTATAATTTCTAAC
Found at i:63196677 original size:21 final size:23
Alignment explanation
Indices: 63196653--63196702 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
63196643 TATAATTTTA
* *
63196653 TTTATAT-ATATATTTT-TAATT
1 TTTATATAATAAATTTTATAAAT
63196674 TTTA-ATAATAAATTTTATAAAT
1 TTTATATAATAAATTTTATAAAT
63196696 TTTATAT
1 TTTATAT
63196703 TCATAAAGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 12 0.50
22 8 0.33
23 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATATAATAAATTTTATAAAT
Found at i:63196982 original size:38 final size:38
Alignment explanation
Indices: 63196931--63197009 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
63196921 TTGATATACT
*
63196931 TCAAGAATTAAAGTGTGAATTAAGCCTTATATTAAACA
1 TCAAGAACTAAAGTGTGAATTAAGCCTTATATTAAACA
63196969 TCAAGAACTAAAGTGTGAATTAAGCCTTATATTAAACA
1 TCAAGAACTAAAGTGTGAATTAAGCCTTATATTAAACA
63197007 TCA
1 TCA
63197010 TCTAAATTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (38 bp):
TCAAGAACTAAAGTGTGAATTAAGCCTTATATTAAACA
Found at i:63197164 original size:27 final size:28
Alignment explanation
Indices: 63197119--63197171 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
63197109 TATAAATCAC
*
63197119 AATTTTTTATAATTTATTTTTCAAACAAA
1 AATTTTTTATAATTCA-TTTTCAAACAAA
63197148 AATTTTTTA-AA-TCATTTTCAAACA
1 AATTTTTTATAATTCATTTTCAAACA
63197172 GTAACAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 2 0.09
28 2 0.09
29 9 0.39
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTTTTTATAATTCATTTTCAAACAAA
Found at i:63197180 original size:29 final size:30
Alignment explanation
Indices: 63197117--63197180 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
63197107 ATTATAAATC
*
63197117 ACAATTTTTTATAATTTATTTTTCAAACAA
1 ACAATTTTTTATAATTCATTTTTCAAACAA
63197147 A-AATTTTTTA-AA-TCA-TTTTCAAACAGTA
1 ACAATTTTTTATAATTCATTTTTCAAACA--A
63197175 ACAATT
1 ACAATT
63197181 ATACTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 10 0.33
27 2 0.07
28 4 0.13
29 13 0.43
30 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (30 bp):
ACAATTTTTTATAATTCATTTTTCAAACAA
Found at i:63202972 original size:11 final size:11
Alignment explanation
Indices: 63202956--63203014 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
63202946 ATATACACTA
63202956 AATAAAATAAT
1 AATAAAATAAT
63202967 AATAAAATAAT
1 AATAAAATAAT
**
63202978 AATAAATATCTT
1 AATAAA-ATAAT
* *
63202990 ATTAAAATATT
1 AATAAAATAAT
63203001 AA-ATAAATAAT
1 AATA-AAATAAT
63203012 AAT
1 AAT
63203015 TATCTAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
10 1 0.03
11 30 0.77
12 8 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:63203306 original size:30 final size:31
Alignment explanation
Indices: 63203238--63203296 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
63203228 CAACCTTAAA
* * *
63203238 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTTC
63203269 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
63203297 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTC
Found at i:63214811 original size:90 final size:89
Alignment explanation
Indices: 63214544--63214833 Score: 309
Period size: 90 Copynumber: 3.2 Consensus size: 89
63214534 CAAAGTGCTC
* ** * * *
63214544 GTATTATTTTCGTATCCGTAAATCAATTTTAGTCCGTATTATTTGTTGGTCGAATTTTGTATCTT
1 GTATTATTTTTGTATATGTAAATCAAATTTAGTCCGTATTATTT-TTGGTCGAATTTTATATTTT
63214609 CGTATATCAATTTTGTAAAATGTTT
65 CGTATATCAATTTTGTAAAATGTTT
* * * * *
63214634 GTATTATCTTTGGATCTGTAAA--AATATTTTAGACCGTATTATTTTTCGATCGAATTTTATATT
1 GTATTATTTTTGTATATGTAAATCAA-A-TTTAGTCCGTATTATTTTT-GGTCGAATTTTATATT
* *
63214697 TTTGTATATCAATTTTCTAAAATGTTT
63 TTCGTATATCAATTTTGTAAAATGTTT
* * *
63214724 GTATTATTTTTGTATATGTAAATCAAATTTAGTCAGTATTATTTATTGGTCAAATTATATATTTT
1 GTATTATTTTTGTATATGTAAATCAAATTTAGTCCGTATTATTT-TTGGTCGAATTTTATATTTT
* ** *
63214789 CGTATA-CTAGTTTTGTCTAATGTTC
65 CGTATATC-AATTTTGTAAAATGTTT
*
63214814 GTATT-TTCTTGTATATGTAA
1 GTATTATTTTTGTATATGTAA
63214834 CTTTTTTTTG
Statistics
Matches: 167, Mismatches: 26, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
88 2 0.01
89 17 0.10
90 143 0.86
91 3 0.02
92 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (89 bp):
GTATTATTTTTGTATATGTAAATCAAATTTAGTCCGTATTATTTTTGGTCGAATTTTATATTTTC
GTATATCAATTTTGTAAAATGTTT
Found at i:63216932 original size:44 final size:44
Alignment explanation
Indices: 63216882--63216971 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
63216872 TGCAATTTTG
63216882 TTTAAAGCTCAATGAGTAAAAAAATTACCATATCGTGAACAAAC
1 TTTAAAGCTCAATGAGTAAAAAAATTACCATATCGTGAACAAAC
63216926 TTTAAAGCTCAATGAGTAAAAAAATTACCATATCGTGAACAAAC
1 TTTAAAGCTCAATGAGTAAAAAAATTACCATATCGTGAACAAAC
63216970 TT
1 TT
63216972 AGCAATATGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (44 bp):
TTTAAAGCTCAATGAGTAAAAAAATTACCATATCGTGAACAAAC
Found at i:63217566 original size:59 final size:53
Alignment explanation
Indices: 63217494--63217613 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
63217484 ATATATAATG
* * *
63217494 TTAAATTTAATTATTATTTGTTAATTACATGCTATTTTAATAAATTTTAAATTTATTACT
1 TTAAA-TTAATTATT-TTT-TCAATTAAATGCTATTTT--TAAA--TTAAATTTATTACA
*
63217554 TTAAATTAATTATTTTTTCAATTAAATGCTATTTTTAAATTAAATTTATTTCA
1 TTAAATTAATTATTTTTTCAATTAAATGCTATTTTTAAATTAAATTTATTACA
63217607 TTAAATT
1 TTAAATT
63217614 GATTTATCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
53 19 0.34
55 4 0.07
57 16 0.29
58 3 0.05
59 9 0.16
60 5 0.09
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (53 bp):
TTAAATTAATTATTTTTTCAATTAAATGCTATTTTTAAATTAAATTTATTACA
Found at i:63217620 original size:71 final size:70
Alignment explanation
Indices: 63217544--63217697 Score: 188
Period size: 70 Copynumber: 2.2 Consensus size: 70
63217534 TAAATTTTAA
* * *
63217544 ATTTATTACTTTAAATTAATTA-TTTTTTCAATTAAATGCTAT-TTTTAAATT-AAATTTATTTC
1 ATTTATCA-TTTAAAATAATTATTTTTTTCAATTAAAT--TATATTTT-AATTAAAATTTATTAC
63217606 ATTAAATTG
62 ATTAAATTG
* *
63217615 ATTTATCATTTAAAATATTTATTTTTTTCAATTAAATTATATTTTAATTAAAATTTATTACTTTA
1 ATTTATCATTTAAAATAATTATTTTTTTCAATTAAATTATATTTTAATTAAAATTTATTACATTA
63217680 AATTG
66 AATTG
* *
63217685 AATAATCATTTAA
1 ATTTATCATTTAA
63217698 TATTTATATC
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
69 7 0.10
70 44 0.60
71 22 0.30
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (70 bp):
ATTTATCATTTAAAATAATTATTTTTTTCAATTAAATTATATTTTAATTAAAATTTATTACATTA
AATTG
Found at i:63217627 original size:36 final size:36
Alignment explanation
Indices: 63217587--63217697 Score: 111
Period size: 36 Copynumber: 3.1 Consensus size: 36
63217577 AAATGCTATT
* *
63217587 TTTAAATTAAATTTATTTCATTAAATTGATTTATCA
1 TTTAAATTAAATTTATTTCTTTAAATTGAATTATCA
* * * *
63217623 TTTAAA--ATATTTATTTTTTTCAATTAAATTAT-A
1 TTTAAATTAAATTTATTTCTTTAAATTGAATTATCA
* * *
63217656 TTTTAATTAAAATTTATTACTTTAAATTGAATAATCA
1 TTTAAATT-AAATTTATTTCTTTAAATTGAATTATCA
63217693 TTTAA
1 TTTAA
63217698 TATTTATATC
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
33 6 0.11
34 20 0.35
36 26 0.46
37 5 0.09
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (36 bp):
TTTAAATTAAATTTATTTCTTTAAATTGAATTATCA
Found at i:63217659 original size:18 final size:18
Alignment explanation
Indices: 63217557--63217659 Score: 58
Period size: 18 Copynumber: 5.9 Consensus size: 18
63217547 TATTACTTTA
63217557 AATT-AATTAT-TTTTTC
1 AATTAAATTATATTTTTC
** *
63217573 AATTAAATGCTATTTTTA
1 AATTAAATTATATTTTTC
63217591 AATTAAATT-TA--TTTC
1 AATTAAATTATATTTTTC
* *
63217606 -ATTAAATT-GATTTATC
1 AATTAAATTATATTTTTC
* *
63217622 ATTTAAAATATTTATTTTTTTC
1 AATT--AA-A-TTATATTTTTC
63217644 AATTAAATTATATTTT
1 AATTAAATTATATTTT
63217660 AATTAAAATT
Statistics
Matches: 64, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.14
15 3 0.05
16 7 0.11
17 8 0.12
18 21 0.33
19 3 0.05
20 3 0.05
21 2 0.03
22 8 0.12
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTAAATTATATTTTTC
Found at i:63217661 original size:34 final size:34
Alignment explanation
Indices: 63217553--63217661 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 34
63217543 AATTTATTAC
* * **
63217553 TTTAAATTAATTA-TTTTTTCAATTAAATGCTAT
1 TTTAAAATATTTATTTTTTTCAATTAAATTATAT
* ** *
63217586 TTTTAAAT-TAAATTTATTTC-ATTAAATTGATTTAT
1 TTTAAAATATTTATTTTTTTCAATTAAATT-A--TAT
63217621 CATTTAAAATATTTATTTTTTTCAATTAAATTATAT
1 --TTTAAAATATTTATTTTTTTCAATTAAATTATAT
63217657 TTTAA
1 TTTAA
63217662 TTAAAATTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 15
0.67 0.14 0.18
Matches are distributed among these distances:
32 8 0.14
33 12 0.21
34 5 0.09
35 3 0.05
36 3 0.05
37 7 0.12
38 10 0.18
39 8 0.14
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (34 bp):
TTTAAAATATTTATTTTTTTCAATTAAATTATAT
Found at i:63217673 original size:16 final size:16
Alignment explanation
Indices: 63217568--63217673 Score: 56
Period size: 17 Copynumber: 6.1 Consensus size: 16
63217558 ATTAATTATT
*
63217568 TTTTCAATTAAATGCTA
1 TTTTCAATTAAAT-TTA
*
63217585 TTTTTAAATTAAATTTA
1 -TTTTCAATTAAATTTA
*
63217602 -TTTC-ATTAAATTGA
1 TTTTCAATTAAATTTA
*
63217616 TTTATCATTTAAAATATTTA
1 TTT-TCAATT--AA-ATTTA
63217636 TTTTTTTCAATTAAATTATA
1 ---TTTTCAATTAAATT-TA
63217656 TTTT-AATTAAAATTTA
1 TTTTCAATT-AAATTTA
63217672 TT
1 TT
63217674 ACTTTAAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
14 9 0.13
15 5 0.07
16 10 0.14
17 13 0.19
18 12 0.17
19 5 0.07
20 8 0.11
22 5 0.07
23 3 0.04
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTTCAATTAAATTTA
Found at i:63220388 original size:40 final size:41
Alignment explanation
Indices: 63220292--63220541 Score: 282
Period size: 40 Copynumber: 6.3 Consensus size: 41
63220282 ACCCAATTAT
* *** *
63220292 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* ** * * *
63220330 CTTCGGGTCTTAATCCGGATA-TGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
63220370 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* *
63220410 CTTCGGGGCTTAGCCC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
*
63220450 CTTCGGGACTTAGCCCAGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * *
63220490 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
63220530 CTTCGGGACTTA
1 CTTCGGGACTTA
63220542 ACCCTGTTAG
Statistics
Matches: 186, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 10 0.05
39 19 0.10
40 155 0.83
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
Found at i:63227497 original size:42 final size:41
Alignment explanation
Indices: 63227451--63227603 Score: 144
Period size: 42 Copynumber: 3.7 Consensus size: 41
63227441 TGAGTTTACG
* *
63227451 TGTAAGACAATATCTGGGATATGACATCGTTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGA-TTCA
* * * * * * * *
63227493 TGTAAGACCATGTTTGGGACATGGCATCAATATAAGAGTCG
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATTCA
* * * * *
63227534 TGTAAGACCATAGCTGGGCTATTGGCAACGATATGAGATCCTA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGATTC-A
63227577 TGTAAGACCATATCTGGGATATGACAT
1 TGTAAGACCATATCTGGGATATGACAT
63227604 TGGTACGATT
Statistics
Matches: 84, Mismatches: 25, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
41 18 0.21
42 47 0.56
43 19 0.23
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATTCA
Found at i:63230460 original size:20 final size:20
Alignment explanation
Indices: 63230435--63230473 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
63230425 ATTTGATTTG
*
63230435 TTAAAATCATTTTAACTTGT
1 TTAAAATAATTTTAACTTGT
63230455 TTAAAATAATTTTAACTTG
1 TTAAAATAATTTTAACTTG
63230474 ATTTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAAATAATTTTAACTTGT
Found at i:63233750 original size:30 final size:30
Alignment explanation
Indices: 63233716--63233791 Score: 152
Period size: 30 Copynumber: 2.5 Consensus size: 30
63233706 ACCTATGGGT
63233716 AAAATGGTCATTTTGCAAAAGTCTAGGGGC
1 AAAATGGTCATTTTGCAAAAGTCTAGGGGC
63233746 AAAATGGTCATTTTGCAAAAGTCTAGGGGC
1 AAAATGGTCATTTTGCAAAAGTCTAGGGGC
63233776 AAAATGGTCATTTTGC
1 AAAATGGTCATTTTGC
63233792 CCAATTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAATGGTCATTTTGCAAAAGTCTAGGGGC
Found at i:63234233 original size:47 final size:45
Alignment explanation
Indices: 63234123--63234247 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 45
63234113 TGTTTTGTGT
*
63234123 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTACGAGA
* * **
63234169 GCCAGTGTAAAACCATGTCTGGGACATGGCATC-G-GTATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATT---ACGAGA
*
63234217 GCTAGTGTAAGACATGTCTAGGACATGCATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATC
63234248 CGCCCTCTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
45 3 0.05
46 15 0.23
47 28 0.42
48 20 0.30
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTACGAGA
Found at i:63235290 original size:38 final size:38
Alignment explanation
Indices: 63235208--63235332 Score: 160
Period size: 38 Copynumber: 3.2 Consensus size: 38
63235198 GAATCCAGTC
* * * * *
63235208 ACCAGCACAAAACCTACGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
63235248 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
63235286 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
63235324 ACCAGCACG
1 ACCAGCACG
63235333 GGATTAACCC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 54 0.71
39 5 0.07
40 17 0.22
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:63235347 original size:28 final size:29
Alignment explanation
Indices: 63235302--63235357 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
63235292 ACGAAGCCTG
*
63235302 CGGGATTTAACCCGGATAT-ATTACCAGCA
1 CGGGATTTAACCCAGATATAATT-CCAGCA
63235331 CGGGA-TTAACCCAGATATAATTCCAGC
1 CGGGATTTAACCCAGATATAATTCCAGC
63235358 GTATAGCCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (29 bp):
CGGGATTTAACCCAGATATAATTCCAGCA
Found at i:63244593 original size:47 final size:47
Alignment explanation
Indices: 63244525--63244788 Score: 187
Period size: 47 Copynumber: 5.7 Consensus size: 47
63244515 TTTGTGCGCT
*
63244525 AGTGTAAGACATGTCTGGGACATGTATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGATGAGAGCC
* *
63244571 AGTGTAAGACCATGTCTGGGACATGGCATC-G--TCATTGA-GACGAGAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTGATGA-GAG--CC
* * *
63244619 AGTGTAAGACATGTCTGGGACATGCACCGGCCTC-TTGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGATG-AGAGCC
* ** * * *
63244665 AGTGTAAGACATGCCTGGGACATGCATTGGCTACA-TGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGATGAGAGCC
* * *
63244709 AGTCTAAGACCATGTCTGGGACATGACATCA---AC-TTAACGTGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCAGCCACATTGA--TGAGAGCC
63244756 AGTGTAAGATCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
63244789 ATTATACCCT
Statistics
Matches: 175, Mismatches: 20, Indels: 43
0.74 0.08 0.18
Matches are distributed among these distances:
43 4 0.02
44 10 0.06
45 21 0.12
46 54 0.31
47 61 0.35
48 21 0.12
49 3 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGATGAGAGCC
Found at i:63244704 original size:46 final size:44
Alignment explanation
Indices: 63244525--63244780 Score: 140
Period size: 46 Copynumber: 5.5 Consensus size: 44
63244515 TTTGTGCGCT
* * * * * *
63244525 AGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCACCGGCCTCATGAT--GTGCC
* * * * * * *
63244571 AGTGTAAGACCATGTCTGGGACATGGCATCGTCATTGA-GACGAGAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCACCGGC-CTCATGATGTG--CC
*
63244619 AGTGTAAGACATGTCTGGGACATGCACCGGCCTCTTGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCACCGGCCTCATGATGT--GCC
* ** *
63244665 AGTGTAAGACATGCCTGGGACATGCATTGG-CTACATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCACCGGCCT-CATGATGTGCC
* * ** * *
63244709 AGTCTAAGACCATGTCTGGGACATGACATCAACTTAACGTGA-GTGCC
1 AGTGTAAGA-CATGTCTGGGACATG-CACCGGCCT--CATGATGTGCC
63244756 AGTGTAAGATCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
63244781 GCATCAGCAT
Statistics
Matches: 165, Mismatches: 32, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 59 0.36
47 56 0.34
48 22 0.13
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCACCGGCCTCATGATGTGCC
Found at i:63246146 original size:33 final size:31
Alignment explanation
Indices: 63246103--63246201 Score: 99
Period size: 33 Copynumber: 3.0 Consensus size: 31
63246093 TACATCGCAT
63246103 TACTGCTTACTGATACTGTGATGGGCTAAGGCCC
1 TACTG-TTACTG-TACTG-GATGGGCTAAGGCCC
* *
63246137 TACTGTTACTGTTACTGAATTGGCTAAGGCCC
1 TACTGTTACTG-TACTGGATGGGCTAAGGCCC
* * *
63246169 TATTATTTACTGTACTGAGATGAGCTAAGGCCC
1 TACT-GTTACTGTACTG-GATGGGCTAAGGCCC
63246202 AAACTGGTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
32 21 0.38
33 29 0.53
34 5 0.09
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (31 bp):
TACTGTTACTGTACTGGATGGGCTAAGGCCC
Found at i:63246167 original size:32 final size:32
Alignment explanation
Indices: 63246103--63246220 Score: 96
Period size: 33 Copynumber: 3.6 Consensus size: 32
63246093 TACATCGCAT
* * *
63246103 TACTGCTTACTGATACTGTGATGGGCTAAGGCCC
1 TACTG-TTACTGTTACTG-AATTGGCTAAGGCCC
63246137 TACTGTTACTGTTACTGAATTGGCTAAGGCCC
1 TACTGTTACTGTTACTGAATTGGCTAAGGCCC
* *
63246169 TATTATTTACTG-TACTGAGA-TGAGCTAAGGCCC
1 TACT-GTTACTGTTACTGA-ATTG-GCTAAGGCCC
* * *
63246202 AAACTGGTACTATTACTGA
1 -TACTGTTACTGTTACTGA
63246221 TATAGAAAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
32 24 0.35
33 32 0.46
34 13 0.19
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (32 bp):
TACTGTTACTGTTACTGAATTGGCTAAGGCCC
Found at i:63250266 original size:24 final size:25
Alignment explanation
Indices: 63250234--63250285 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
63250224 GCCTAGCCTC
63250234 TTTTAAT-AACTGGGGCAAAACCCT
1 TTTTAATAAACTGGGGCAAAACCCT
* *
63250258 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAACCCT
63250283 TTT
1 TTT
63250286 AGCACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAACCCT
Found at i:63250345 original size:10 final size:10
Alignment explanation
Indices: 63250332--63250370 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
63250322 ATATGTGAAT
63250332 ATATCATGGC
1 ATATCATGGC
63250342 ATATCATGTGC
1 ATATCATG-GC
63250353 ATATCATGGC
1 ATATCATGGC
63250363 ATATCATG
1 ATATCATG
63250371 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:63250358 original size:21 final size:21
Alignment explanation
Indices: 63250332--63250371 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
63250322 ATATGTGAAT
63250332 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
63250353 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
63250372 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:63250439 original size:25 final size:25
Alignment explanation
Indices: 63250411--63250461 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
63250401 ATAACATAAC
* * *
63250411 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
*
63250436 CCTAGGGGCAAAAAGGTTATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
63250461 C
1 C
63250462 ATTATAAGGG
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:0.18, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:63258169 original size:24 final size:25
Alignment explanation
Indices: 63258142--63258193 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
63258132 GCTTAGCCTC
*
63258142 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
63258166 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
63258191 TTT
1 TTT
63258194 AGCACTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Done.