Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 299 of 311
Found at i:97375773 original size:3 final size:3
Alignment explanation
Indices: 97375725--97375754 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
97375715 AAAATAGTTA
97375725 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
97375755 GACGATGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:97375918 original size:29 final size:29
Alignment explanation
Indices: 97375869--97375927 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
97375859 AAAATAATGA
* *
97375869 AAATAATATTAATATATAAATAGAAATAG
1 AAATAATAATAATATAGAAATAGAAATAG
*
97375898 AAAT-ATAATAATAGTAGAAATATAAATAG
1 AAATAATAATAATA-TAGAAATAGAAATAG
97375927 A
1 A
97375928 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (29 bp):
AAATAATAATAATATAGAAATAGAAATAG
Found at i:97375942 original size:15 final size:14
Alignment explanation
Indices: 97375879--97375949 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
97375869 AAATAATATT
* *
97375879 AATATATAAATAGA
1 AATAGATAAATAAA
*
97375893 AATAGA-AATATAAT
1 AATAGATAA-ATAAA
* *
97375907 AATAGTAGAAATATA
1 AATAG-ATAAATAAA
97375922 AATAGATAAATAAA
1 AATAGATAAATAAA
*
97375936 AATTAGATGAATAA
1 AA-TAGATAAATAA
97375950 TAGTATTAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
13 2 0.04
14 22 0.49
15 19 0.42
16 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AATAGATAAATAAA
Found at i:97376004 original size:15 final size:15
Alignment explanation
Indices: 97375986--97376018 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
97375976 ATAGAATAGC
97375986 AATAATATATTAGTT
1 AATAATATATTAGTT
97376001 AATAATATATTAGTT
1 AATAATATATTAGTT
97376016 AAT
1 AAT
97376019 TTAATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
AATAATATATTAGTT
Found at i:97377282 original size:15 final size:15
Alignment explanation
Indices: 97377264--97377302 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
97377254 TTTTATTATT
97377264 TTGGTTTATTTGTTG
1 TTGGTTTATTTGTTG
* * *
97377279 TTGGTTTTTTTTTTT
1 TTGGTTTATTTGTTG
97377294 TTGGTTTAT
1 TTGGTTTAT
97377303 GATGGGCCGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.00, G:0.21, T:0.74
Consensus pattern (15 bp):
TTGGTTTATTTGTTG
Found at i:97377621 original size:14 final size:14
Alignment explanation
Indices: 97377604--97377635 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
97377594 ATATGTAAAT
97377604 ATTAAAAATTGAAA
1 ATTAAAAATTGAAA
97377618 ATTAAAAATTGAAA
1 ATTAAAAATTGAAA
97377632 ATTA
1 ATTA
97377636 TGTTACTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (14 bp):
ATTAAAAATTGAAA
Found at i:97383113 original size:131 final size:130
Alignment explanation
Indices: 97382864--97383194 Score: 382
Period size: 131 Copynumber: 2.5 Consensus size: 130
97382854 TTATTCATTA
* * *
97382864 AAAAATTCTTTAAAATAAAGGCAACGTTCGATGTTTGGCAATTCAGGGAATCGTGCTCTATCGTG
1 AAAAATTCTTTAAAA-CAAGGCAACGTTCGATGTTTAGCAATTCGGGGAATCGTGCTCTATCGTG
* * * *
97382929 CTAGGTTGCAATTTCATGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCATGTCTT
65 CTAGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATATCTT
97382994 T
130 T
* *
97382995 AAAAATTCTTTAAAACGAAGGAAACGTTCGATGCTTAGCAATTCGGGGAATCGTGCTCTATCGTG
1 AAAAATTCTTTAAAAC-AAGGCAACGTTCGATGTTTAGCAATTCGGGGAATCGTGCTCTATCGTG
* * * * * *
97383060 CTGGGTTGTAATTTTC-CGTTTGTTCAAAATAATCGAA-CGTCCTTTTTGGATTTCACTCATATT
65 CTAGGTTGCAA-TTTCACGTTTGTTCAAAATAATCGAATAGTCC-TTTAGAATTTCACTCATATC
97383123 TTT
128 TTT
** * * * * * * *
97383126 TTAAATTC--TAAAACAAGGCAATGTCCAATGTTTAGAAATTCGAGGAATCGTGCCCTATTGTGC
1 AAAAATTCTTTAAAACAAGGCAACGTTCGATGTTTAGCAATTCGGGGAATCGTGCTCTATCGTGC
97383189 TAGGTT
66 TAGGTT
97383195 TTGTTTTTTT
Statistics
Matches: 170, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
128 45 0.26
129 6 0.04
130 3 0.02
131 112 0.66
132 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (130 bp):
AAAAATTCTTTAAAACAAGGCAACGTTCGATGTTTAGCAATTCGGGGAATCGTGCTCTATCGTGC
TAGGTTGCAATTTCACGTTTGTTCAAAATAATCGAATAGTCCTTTAGAATTTCACTCATATCTTT
Found at i:97385903 original size:22 final size:23
Alignment explanation
Indices: 97385878--97385923 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
97385868 CAACCAAATC
97385878 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
97385900 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
97385923 A
1 A
97385924 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:97385929 original size:23 final size:23
Alignment explanation
Indices: 97385885--97385929 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
97385875 ATCAATTCAA
*
97385885 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
97385908 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
97385930 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:97389767 original size:11 final size:12
Alignment explanation
Indices: 97389750--97389782 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
97389740 TCATCAAATT
97389750 CAAAAGAAAAAA
1 CAAAAGAAAAAA
97389762 -AAAAGAAAAAA
1 CAAAAGAAAAAA
*
97389773 CAAAATAAAA
1 CAAAAGAAAA
97389783 CGAAACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.85, C:0.06, G:0.06, T:0.03
Consensus pattern (12 bp):
CAAAAGAAAAAA
Found at i:97391708 original size:64 final size:64
Alignment explanation
Indices: 97391634--97391884 Score: 378
Period size: 64 Copynumber: 3.9 Consensus size: 64
97391624 CATTCATAAT
* * *
97391634 ACATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCTTC
1 ACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
* * *
97391698 ACATCTAGTTAGGAGCATTTAATTCATTTCAATCATAACATTCTAATTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
*
97391762 ACATCTAGTTAGGAGTATTTAATTCATTTCGATCAT-GACATCCTAATTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAG-CATCCTAATTATTTGACATAAGCATC
* * * * *
97391826 ACATCTAGTTAGGAGCATTTAATTCATTTTGATCATAGTATCCTAGTCATTTGGCATAA
1 ACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTGACATAA
97391885 ACATGGGCAT
Statistics
Matches: 169, Mismatches: 16, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
64 168 0.99
65 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:97392193 original size:87 final size:87
Alignment explanation
Indices: 97391951--97392394 Score: 624
Period size: 87 Copynumber: 5.1 Consensus size: 87
97391941 ACAGATCTTA
* * *
97391951 TCCCTAAACAGTAGTGGAGC-AGATCGAAGAAGCAAGCCTTAAACCCCTAAGTAGTAGGGTAATA
1 TCCCTAAACAGTAGTGGAGCAAG-TCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACA
*
97392015 GGCTGAAGATTGCAGATCTTGTC
65 GGCTGAAGATTGTAGATCTTGTC
* * * * * * *
97392038 TCCCT-GA-AGTTACAGTGGAACAAATCAAAGACAGTAAGTCTTAACCCCCTAAGTGGTAGAGTA
1 TCCCTAAACAG-T--AGTGGAGCAAGTCGAAGA-AGCAAGCCTTAACCCCCTAAGTGGTAGGGTA
97392101 ACAGGCTGAAGATTGTAGATCTTGTC
62 ACAGGCTGAAGATTGTAGATCTTGTC
*
97392127 TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAG
1 TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAG
*
97392192 GCTAAAGATTGTAGATCTTGTC
66 GCTGAAGATTGTAGATCTTGTC
** *
97392214 TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAACTTCCTAAGTGGTAGAGTAACAG
1 TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAG
97392279 GCTGAAGATTGTAGATCTTGTC
66 GCTGAAGATTGTAGATCTTGTC
* *
97392301 TCCCTAAATAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCCCTAAGTGGTAGGGTAAC
1 TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAA--CCCCCTAAGTGGTAGGGTAAC
* *
97392366 AGGCTAAAGATTGCAGATCTTGTC
64 AGGCTGAAGATTGTAGATCTTGTC
97392390 TCCCT
1 TCCCT
97392395 GAAATTACAA
Statistics
Matches: 318, Mismatches: 30, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
85 2 0.01
86 2 0.01
87 181 0.57
88 28 0.09
89 101 0.32
90 2 0.01
91 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (87 bp):
TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAG
GCTGAAGATTGTAGATCTTGTC
Found at i:97392373 original size:176 final size:175
Alignment explanation
Indices: 97391951--97392411 Score: 669
Period size: 176 Copynumber: 2.6 Consensus size: 175
97391941 ACAGATCTTA
* * * *
97391951 TCCCTAAACAGTAGTGGAGCAGATCGAAGAAGCAAGCCTTAAACCCCTAAGTAGTAGGGTAATAG
1 TCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAG
* * * *
97392016 GCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTACAGTGGAACAAATCAAAGACAGTAAGTCTTA
66 GCTAAAGATTGCAGATCTTGTCTCCCTAAAGTTA-AGTGGAACAAATCAAAGACAGCAAGCCTTA
97392081 ACCCCCTAAGTGGTAGAGTAACAGGCTGAAGATTGTAGATCTTGTC
130 ACCCCCTAAGTGGTAGAGTAACAGGCTGAAGATTGTAGATCTTGTC
* *
97392127 TCCCTAAACAGTAGTGGAGCAAGTCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAG
1 TCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAG
* * * *
97392192 GCTAAAGATTGTAGATCTTGTCTCCCTAAACAG-T-AGTGGAGCAAGTCGAAGA-AGCAAGCCTT
66 GCTAAAGATTGCAGATCTTGTCTCCCT-AA-AGTTAAGTGGAACAAATCAAAGACAGCAAGCCTT
**
97392254 AACTTCCTAAGTGGTAGAGTAACAGGCTGAAGATTGTAGATCTTGTC
129 AACCCCCTAAGTGGTAGAGTAACAGGCTGAAGATTGTAGATCTTGTC
*
97392301 TCCCTAAATAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCCCTAAGTGGTAGGGTAAC
1 TCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAA--CCCCCTAAGTGGTAGGGTAAC
*
97392366 AGGCTAAAGATTGCAGATCTTGTCTCCCTGAAA-TTACAATGGAACA
64 AGGCTAAAGATTGCAGATCTTGTCTCCCT-AAAGTTA-AGTGGAACA
97392412 GATTGAAGCT
Statistics
Matches: 255, Mismatches: 23, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
174 93 0.36
175 17 0.07
176 134 0.53
177 9 0.04
178 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (175 bp):
TCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTGGTAGGGTAACAG
GCTAAAGATTGCAGATCTTGTCTCCCTAAAGTTAAGTGGAACAAATCAAAGACAGCAAGCCTTAA
CCCCCTAAGTGGTAGAGTAACAGGCTGAAGATTGTAGATCTTGTC
Found at i:97393192 original size:18 final size:17
Alignment explanation
Indices: 97393153--97393193 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
97393143 ACTCTGGATG
*
97393153 CTTTTGGTTTTTTTCTG
1 CTTTTGGTTTTTTTCTC
*
97393170 ATTTTGGTTTTTTTCTTC
1 CTTTTGGTTTTTTTC-TC
97393188 CTTTTG
1 CTTTTG
97393194 ATCTTTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (17 bp):
CTTTTGGTTTTTTTCTC
Found at i:97395090 original size:131 final size:132
Alignment explanation
Indices: 97394843--97395104 Score: 377
Period size: 131 Copynumber: 2.0 Consensus size: 132
97394833 TTATGATTAT
* * * * **
97394843 TCATTAAAAAATTCTTTAAAATAAAGGCAACGTTCGATGTTTGGCAATTCAGGGAATCGTGCTTT
1 TCATTAAAAAATTCTTTAAAACAAAGGAAACGTTCGATGCTTAGCAATTCAGGGAATCGTGCCCT
* *
97394908 ATCGTGCTGGATTGCAATTTCACGTTTGTTCAAAATAATCAAATATTCC-TTTGGAATTTCACTC
66 ATCGTGCTGGATTGCAATTTCACGTTTGTTCAAAATAATCAAACATCCCTTTTGG-ATTTCACTC
97394972 ATG
130 ATG
* *
97394975 TCATT-AAAAATTCTTTAAAACGAAGGAAACGTTCGATGCTTAGCAATTCGGGGAATCGTGCCCT
1 TCATTAAAAAATTCTTTAAAACAAAGGAAACGTTCGATGCTTAGCAATTCAGGGAATCGTGCCCT
* *
97395039 ATCGTGCTGGGTTGCAATTTTC-CGTTTGTTCAAAATAATCAAACGTCCCTTTTGGATTTCACTC
66 ATCGTGCTGGATTGCAA-TTTCACGTTTGTTCAAAATAATCAAACATCCCTTTTGGATTTCACTC
97395103 AT
130 AT
97395105 ATTTTTTAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
131 102 0.88
132 14 0.12
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (132 bp):
TCATTAAAAAATTCTTTAAAACAAAGGAAACGTTCGATGCTTAGCAATTCAGGGAATCGTGCCCT
ATCGTGCTGGATTGCAATTTCACGTTTGTTCAAAATAATCAAACATCCCTTTTGGATTTCACTCA
TG
Found at i:97408496 original size:19 final size:19
Alignment explanation
Indices: 97408472--97408510 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
97408462 ATATAAAAAA
*
97408472 AATTTAACATAAATAATAT
1 AATTTAAAATAAATAATAT
*
97408491 AATTTAAAATAAGTAATAT
1 AATTTAAAATAAATAATAT
97408510 A
1 A
97408511 TACAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AATTTAAAATAAATAATAT
Found at i:97408676 original size:28 final size:26
Alignment explanation
Indices: 97408621--97408691 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 26
97408611 ACATATATAG
* *
97408621 ATTTAAAATAGATAATATATGTACAAAA
1 ATTT-AAATAAATAATATATATA-AAAA
*
97408649 GTTTACAATAAATAATATATATAAAAA
1 ATTTA-AATAAATAATATATATAAAAA
*
97408676 AATT-AATAAATAATAT
1 ATTTAAATAAATAATAT
97408692 GTGAAAAAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 12 0.32
27 7 0.19
28 18 0.49
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
ATTTAAATAAATAATATATATAAAAA
Found at i:97408840 original size:22 final size:21
Alignment explanation
Indices: 97408791--97408840 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
97408781 TTTAAAAAAG
*
97408791 ATAATATATAAAATAACTTAAG
1 ATAA-ATATAAAATAACTTAAA
*
97408813 AT-AATATATAATAAGCTTAAA
1 ATAAATATAAAATAA-CTTAAA
97408834 ATAAATA
1 ATAAATA
97408841 ATGCGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAAATATAAAATAACTTAAA
Found at i:97409322 original size:26 final size:24
Alignment explanation
Indices: 97409292--97409341 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
97409282 TAAATAAAAA
*
97409292 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
97409318 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
97409342 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:97409361 original size:21 final size:21
Alignment explanation
Indices: 97409312--97409370 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
97409302 ATAATAAATC
*
97409312 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
97409332 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
97409354 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
97409371 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:97409447 original size:15 final size:16
Alignment explanation
Indices: 97409417--97409449 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
97409407 AAATGGTTAT
97409417 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
97409434 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
97409449 A
1 A
97409450 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:97418307 original size:39 final size:39
Alignment explanation
Indices: 97418264--97418386 Score: 110
Period size: 39 Copynumber: 3.2 Consensus size: 39
97418254 TTTTTTCTAA
*
97418264 TATTTTTTCTAGATTTTTAATGGTTGGTTTCAGTTTTTC
1 TATTTTTTCTAGATTTTTAATGGTTTGTTTCAGTTTTTC
** * * *
97418303 TA--TTTTC-ATTTTTTGCTTATGATTTTTTTTCAGCTTTTT-
1 TATTTTTTCTAGATTTT--TAATG-GTTTGTTTCAG-TTTTTC
* *
97418342 TAATTTTTCTAGATTTTTAGTGGTTTGTTTCAGTTTTTC
1 TATTTTTTCTAGATTTTTAATGGTTTGTTTCAGTTTTTC
97418381 TATTTT
1 TATTTT
97418387 CTATTTAAGT
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
36 5 0.08
37 5 0.08
38 9 0.14
39 26 0.41
40 8 0.13
41 5 0.08
42 5 0.08
ACGTcount: A:0.15, C:0.08, G:0.12, T:0.65
Consensus pattern (39 bp):
TATTTTTTCTAGATTTTTAATGGTTTGTTTCAGTTTTTC
Found at i:97421737 original size:31 final size:31
Alignment explanation
Indices: 97421699--97421761 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
97421689 ACTTATTTTT
97421699 TTTAGAAAACAAATAGCATTGGACGAGTACA
1 TTTAGAAAACAAATAGCATTGGACGAGTACA
97421730 TTTAGAAAACAAATAGCATTGGACGAGTACA
1 TTTAGAAAACAAATAGCATTGGACGAGTACA
97421761 T
1 T
97421762 CAAAACGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (31 bp):
TTTAGAAAACAAATAGCATTGGACGAGTACA
Found at i:97422798 original size:78 final size:77
Alignment explanation
Indices: 97422653--97422797 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 77
97422643 TGACTTATTT
* * * *
97422653 TCATTGTTATCTTTGTAGTTGCCTCGGACCAACGGCGAACTTTTCGTCTTTTTTTTTTCAAGTTT
1 TCATTGTTATCTTTCTAGTTGCCTCGGACCAACAGCAAACTTTTCGTC-TTCTTTTTTCAAGTTT
97422718 TTTAGAGGTTTTC
65 TTTAGAGGTTTTC
* *
97422731 TCATTGTTATCTTTCTAGTTGCCTTGGATCAACAGCAAACTTTTCGTC-TCTTTTTTCAAGGTTT
1 TCATTGTTATCTTTCTAGTTGCCTCGGACCAACAGCAAACTTTTCGTCTTCTTTTTTCAA-GTTT
97422795 TTT
65 TTT
97422798 TTTTTTTAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
76 10 0.17
77 7 0.12
78 43 0.72
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.49
Consensus pattern (77 bp):
TCATTGTTATCTTTCTAGTTGCCTCGGACCAACAGCAAACTTTTCGTCTTCTTTTTTCAAGTTTT
TTAGAGGTTTTC
Found at i:97425523 original size:36 final size:36
Alignment explanation
Indices: 97425458--97425531 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
97425448 ATTATTTTGC
* *
97425458 TATTATTTGACTATTATATTACTACTATTTTGTTAT
1 TATTATTTGACTATTATATAACTACTATTTTATTAT
*
97425494 TATTATTTGGA-TATTGTATAACT-CTTATTTTATTAT
1 TATTATTT-GACTATTATATAACTAC-TATTTTATTAT
97425530 TA
1 TA
97425532 ATTTTACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.03
36 30 0.91
37 2 0.06
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (36 bp):
TATTATTTGACTATTATATAACTACTATTTTATTAT
Found at i:97429045 original size:32 final size:32
Alignment explanation
Indices: 97429004--97429067 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
97428994 TTTGTAGTAA
*
97429004 GAAAAAAATTGTTTTCTTTATTTGATGCCATT
1 GAAAAAAATTGTTTTCTTTATTTGAGGCCATT
97429036 GAAAAAAATTGTTTTCTTTATTTGAGGCCATT
1 GAAAAAAATTGTTTTCTTTATTTGAGGCCATT
97429068 TGTGACTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (32 bp):
GAAAAAAATTGTTTTCTTTATTTGAGGCCATT
Found at i:97441764 original size:28 final size:28
Alignment explanation
Indices: 97441732--97441802 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
97441722 TACAAGTCAA
* *
97441732 GTACCAACTAGGTACAAAAAAAGTTTAG
1 GTACCAACTAAGTACAAAAAAAGTTCAG
* *
97441760 GTACCAACTAAGTAAAAAAAAAGTTCAT
1 GTACCAACTAAGTACAAAAAAAGTTCAG
*
97441788 ATACCAACTAAGTAC
1 GTACCAACTAAGTAC
97441803 TTTTAGACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (28 bp):
GTACCAACTAAGTACAAAAAAAGTTCAG
Found at i:97445938 original size:14 final size:14
Alignment explanation
Indices: 97445919--97445945 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97445909 TATGACTAGT
97445919 AAATGAATTTAACA
1 AAATGAATTTAACA
97445933 AAATGAATTTAAC
1 AAATGAATTTAAC
97445946 TATTATTGTT
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:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (14 bp):
AAATGAATTTAACA
Found at i:97452116 original size:20 final size:20
Alignment explanation
Indices: 97452074--97452116 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
97452064 GTTTAATTGG
*
97452074 ATATAAAATATGTATTTAGA
1 ATATAAAATATGTATTTAAA
*
97452094 ATAT-AAATGTGTATTTGAAA
1 ATATAAAATATGTATTT-AAA
97452114 ATA
1 ATA
97452117 ATATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
ATATAAAATATGTATTTAAA
Found at i:97457828 original size:3 final size:3
Alignment explanation
Indices: 97457813--97457847 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
97457803 TTGTATTTCT
97457813 AGA AGA A-A A-A AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
97457848 AAGCATAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:97464207 original size:47 final size:47
Alignment explanation
Indices: 97464098--97464208 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
97464088 CCAGGATAAG
* *
97464098 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACAGTATAGTA
* * *
97464145 CACAAAGTACTTCATCGGAATAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACAGTA-TAGTA
97464192 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
97464209 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACAGTATAGTA
Found at i:97466508 original size:42 final size:42
Alignment explanation
Indices: 97466445--97466571 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
97466435 CTTCGTTTTC
** * *
97466445 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
97466488 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* * *
97466529 TCGATGCTAGAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
97466570 TC
1 TC
97466572 TCACTGATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 10 0.14
42 61 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:97466713 original size:31 final size:31
Alignment explanation
Indices: 97466678--97466795 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
97466668 CTTGTCACTT
* * *
97466678 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATTAG
*
97466709 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGGAGCTACCACTTTTCACTGATTAG
* *
97466740 GTAGCCGGAGCTACTAATTTTCACTGATTAG
1 GTAGCCGGAGCTACCACTTTTCACTGATTAG
97466771 GTAGCCGGAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
97466796 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATTAG
Found at i:97466879 original size:50 final size:49
Alignment explanation
Indices: 97466771--97466947 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 49
97466761 CACTGATTAG
* * * *
97466771 GTAGCCGGAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTTTC-TTGATCAGATAAGT
97466822 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTTCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTTTCTTGATCAGATAAGT
* *
97466872 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTT-TTCTTGATCAGATAAGT
*
97466922 GTAGTCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
97466948 GTTGCCATGG
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 3 0.03
50 85 0.73
51 28 0.24
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (49 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTTTCTTGATCAGATAAGT
Found at i:97473183 original size:15 final size:15
Alignment explanation
Indices: 97473163--97473192 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97473153 AAAACCATGG
*
97473163 CTCCTTCTTCTTCTT
1 CTCCTTCATCTTCTT
97473178 CTCCTTCATCTTCTT
1 CTCCTTCATCTTCTT
97473193 GTTCTGCTTC
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:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (15 bp):
CTCCTTCATCTTCTT
Found at i:97476110 original size:26 final size:27
Alignment explanation
Indices: 97476059--97476116 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
97476049 AAAATCTATC
* *
97476059 AAAATTATTAAAAATCATAAAGTTTTA
1 AAAAATATAAAAAATCATAAAGTTTTA
97476086 AAAAATATAAAAAAT-ATTAAA-TTTTA
1 AAAAATATAAAAAATCA-TAAAGTTTTA
*
97476112 TAAAA
1 AAAAA
97476117 CATTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAAATATAAAAAATCATAAAGTTTTA
Found at i:97476162 original size:18 final size:17
Alignment explanation
Indices: 97476139--97476200 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
97476129 GTTATGAAAT
97476139 AATGATAAAAAAATTAGA
1 AATGATAAAAAAATTA-A
*
97476157 AATGAT-AGAAAATT--
1 AATGATAAAAAAATTAA
97476171 -AT-ATAAAAATAATTAA
1 AATGATAAAAA-AATTAA
97476187 AATGATAAAAAAAT
1 AATGATAAAAAAAT
97476201 CTATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 4 0.11
17 12 0.33
18 13 0.36
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (17 bp):
AATGATAAAAAAATTAA
Found at i:97476218 original size:30 final size:30
Alignment explanation
Indices: 97476143--97476210 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
97476133 TGAAATAATG
* *
97476143 ATAAAAA-AATTAGAAATGATAGAAAATTAT
1 ATAAAAATAATTA-AAATGATAAAAAAATAT
*
97476173 ATAAAAATAATTAAAATGATAAAAAAATCT
1 ATAAAAATAATTAAAATGATAAAAAAATAT
97476203 ATAAAAAT
1 ATAAAAAT
97476211 TTATAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.26
Consensus pattern (30 bp):
ATAAAAATAATTAAAATGATAAAAAAATAT
Found at i:97476219 original size:10 final size:10
Alignment explanation
Indices: 97476195--97476274 Score: 58
Period size: 10 Copynumber: 8.2 Consensus size: 10
97476185 AAAATGATAA
*
97476195 AAAAATCTAT
1 AAAAATTTAT
97476205 AAAAATTTAT
1 AAAAATTTAT
*
97476215 AAAAAGTTAT
1 AAAAATTTAT
97476225 AAAAACTTT-T
1 AAAAA-TTTAT
** *
97476235 TGAAA-GTAT
1 AAAAATTTAT
* *
97476244 AAAAAGTTGT
1 AAAAATTTAT
97476254 AAAAATTT-T
1 AAAAATTTAT
*
97476263 AAAAATATAT
1 AAAAATTTAT
97476273 AA
1 AA
97476275 GGAAATTATA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
8 1 0.02
9 12 0.22
10 39 0.72
11 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:97476580 original size:18 final size:19
Alignment explanation
Indices: 97476546--97476582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
97476536 TAAAATACAA
97476546 GTTATAAAAAATTATTAAAT
1 GTTATAAAAAA-TATTAAAT
97476566 GTTATAAAAAA-ATTAAA
1 GTTATAAAAAATATTAAA
97476583 ATTATTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
GTTATAAAAAATATTAAAT
Found at i:97477542 original size:41 final size:41
Alignment explanation
Indices: 97477480--97477563 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
97477470 CTAATATTGG
* * * *
97477480 ATATTAGCCACCAATGGTGGAATTCCCATGGTCATGTCTAC
1 ATATCAGCCACCAATGGTGGAACTCCCATGCTCATGTCCAC
97477521 ATATCAGCCACCAATGGTGGAACTCCCATGCTCATGTCCAC
1 ATATCAGCCACCAATGGTGGAACTCCCATGCTCATGTCCAC
97477562 AT
1 AT
97477564 TATTAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (41 bp):
ATATCAGCCACCAATGGTGGAACTCCCATGCTCATGTCCAC
Found at i:97491316 original size:47 final size:47
Alignment explanation
Indices: 97491262--97491687 Score: 554
Period size: 47 Copynumber: 9.1 Consensus size: 47
97491252 TTAGGATTTT
* *
97491262 ATGTGATGAATGTG-A-ATGTATATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGA--TAAGGCCGAATGGCCA
* * *
97491309 ATGTGATGAATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
97491356 ATGTGATGAAGGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
97491403 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
97491450 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
97491497 ATGTGATGAACGTGGAA-GTGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGT-GAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
97491544 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
97491591 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * ** *
97491638 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAACCGAATGGCTA
1 ATGTGATGAATGT-GAACATGTATATATGTGATAAGGCCGAATGGCCA
97491685 ATG
1 ATG
97491688 CGAAACGCGT
Statistics
Matches: 336, Mismatches: 38, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
46 3 0.01
47 316 0.94
48 7 0.02
49 10 0.03
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:97491384 original size:25 final size:24
Alignment explanation
Indices: 97491356--97491626 Score: 89
Period size: 24 Copynumber: 11.5 Consensus size: 24
97491346 CGAATGGCCA
97491356 ATGTGATGAAGGTGAACATGCACAT
1 ATGTGAT-AAGGTGAACATGCACAT
*
97491381 ATGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATAAGG-TGAACAT-GCACAT
* *
97491403 ATGTGATGAATGTGAACATGTACAT
1 ATGTGAT-AAGGTGAACATGCACAT
*
97491428 ATGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATAAGG-TGAACAT-GCACAT
* *
97491450 ATGTGATAAATGTGAACATGCATAT
1 ATGTGAT-AAGGTGAACATGCACAT
*
97491475 ATGTGATAAGG-CAGA-ATGGC-CA-
1 ATGTGATAAGGTGA-ACAT-GCACAT
* * * *
97491497 ATGTGATGAACGTGGAA-GTGTATAT
1 ATGTGAT-AAGGT-GAACATGCACAT
* *
97491522 GTGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATAAGG-TGAACAT-GCACAT
*
97491544 ATGTGATGAATGTGAACATGCACAT
1 ATGTGAT-AAGGTGAACATGCACAT
*
97491569 ATGTGATAAGGCCG-A-ATGGC-CA-
1 ATGTGATAAGG-TGAACAT-GCACAT
* *
97491591 ATGTGATAAATGTGAACATGCATAT
1 ATGTGAT-AAGGTGAACATGCACAT
97491616 ATGTGATAAGG
1 ATGTGATAAGG
97491627 CAGAATGGCC
Statistics
Matches: 178, Mismatches: 33, Indels: 71
0.63 0.12 0.25
Matches are distributed among these distances:
22 38 0.21
23 46 0.26
24 49 0.28
25 45 0.25
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (24 bp):
ATGTGATAAGGTGAACATGCACAT
Found at i:97491438 original size:141 final size:141
Alignment explanation
Indices: 97491262--97491687 Score: 624
Period size: 141 Copynumber: 3.0 Consensus size: 141
97491252 TTAGGATTTT
* * * *
97491262 ATGTGATGAATGTG-A-ATGTATATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAACATGTACATATGTGA--TAAGGCCGAATGGCCAATGTGATAAATGTGAA
* * * *
97491325 CGTGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAGGT-GAACATGCACATATGTGATA
64 CATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-ATGCACATATGTGATA
97491389 AGGCCGAATGGCCA
128 AGGCCGAATGGCCA
97491403 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
* * * *
97491468 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAAGTGTATATGTGTGATAAGG
66 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAAATGCACATATGTGATAAGG
97491533 CCGAATGGCCA
131 CCGAATGGCCA
*
97491544 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
* * * * **
97491609 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAAGTGTATATATGTGGTAAAA
66 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAAATGCACATATGTGATAAGG
*
97491674 CCGAATGGCTA
131 CCGAATGGCCA
97491685 ATG
1 ATG
97491688 CGAAACGCGT
Statistics
Matches: 264, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
141 248 0.94
142 4 0.02
143 12 0.05
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
TGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAAATGCACATATGTGATAAGG
CCGAATGGCCA
Found at i:97491758 original size:141 final size:139
Alignment explanation
Indices: 97491301--97491743 Score: 480
Period size: 141 Copynumber: 3.2 Consensus size: 139
97491291 GCTAAGGCCG
* * * *
97491301 AATGGCAAATGTGATG-AATGTGAACGTGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 AATGGCCAATGTGA-GAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGA
* * * * ** * * *
97491365 AGGT-GAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTACATA
65 ACGTGGAA-GTGTATATATGTGATAAAACCGAATGGCCAATGCGA-GAACGCGAACATG-ACATA
* *
97491429 TGTGATAAGGCCG
127 TGTGATAAAGCCA
*
97491442 AATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
1 AATGGCCAATGTGAGAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
* ** * * *
97491507 CGTGGAAGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATATG
66 CGTGGAAGTGTATATATGTGATAAAACCGAATGGCCAATGCGA-GAACGCGAACATG-ACATATG
* *
97491572 TGATAAGGCCG
129 TGATAAAGCCA
*
97491583 AATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
1 AATGGCCAATGTGAGAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
* * ** *
97491648 CGTGGAAGTGTATATATGTGGTAAAACCGAATGGCTAATGCGA-AACGCGTATGGGATG-GATAT
66 CGTGGAAGTGTATATATGTGATAAAACCGAATGGCCAATGCGAGAACGCG-A--ACATGACATAT
*
97491711 GTGGTAAAGCCA
128 GTGATAAAGCCA
* *
97491723 AATGGCTAATGTGAGATATGT
1 AATGGCCAATGTGAGAAATGT
97491744 ATAAGATGTG
Statistics
Matches: 269, Mismatches: 28, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
139 4 0.01
140 32 0.12
141 227 0.84
142 6 0.02
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (139 bp):
AATGGCCAATGTGAGAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
CGTGGAAGTGTATATATGTGATAAAACCGAATGGCCAATGCGAGAACGCGAACATGACATATGTG
ATAAAGCCA
Found at i:97493258 original size:13 final size:13
Alignment explanation
Indices: 97493240--97493275 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
97493230 CATCATACTT
97493240 TCTTTATTAAACC
1 TCTTTATTAAACC
97493253 TCTTTATTAAACC
1 TCTTTATTAAACC
*
97493266 TCTTTCTTAA
1 TCTTTATTAA
97493276 CTCTTGAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTTTATTAAACC
Found at i:97493419 original size:49 final size:47
Alignment explanation
Indices: 97493354--97493700 Score: 214
Period size: 47 Copynumber: 7.4 Consensus size: 47
97493344 TGTTGCCATA
* *
97493354 TCCCAAACATGGTCTTACGCTGGCTATCTCCATCAAGGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTATCT-CATCAAGGCCGATG-CATG
* * * *
97493403 TCCCAGACATGGTCTTACACTAGCTCTCGTGTAT-ATGTGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTATC-T-CATCAAG-GCCGATGCATG
* * ** * * *
97493452 TCCCAGACAT-GTCTCACACTAGC-AT-GAAACTTA-GCCGATGTATG
1 TCCCAGACATGGTCTTACACTGGCTATCTCATC-AAGGCCGATGCATG
* * *
97493496 TCCCAGATA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTATC-TCATCAAGGCCGATGCATG
* * *
97493543 TCCTAGACAT-GTCTTACACTGGC-A-CTCATCTCTACGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTATCTCA--TCAAGGCCGATG-CATG
* ** *
97493590 TCCCAGACATGGTCTTACACTGGCTATCTTAAT-GTGGCTGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTATC-TCATCAAGGCCGATGCATG
* * * ** * *
97493637 CCCCAAACAT-GTCTTACACTAGCCCTCGTC-TTAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTATC-TCATCAAGGCCGATG-CATG
*
97493684 TCCCAAACATGGTCTTA
1 TCCCAGACATGGTCTTA
97493701 TATTGGCTCT
Statistics
Matches: 233, Mismatches: 45, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
44 33 0.14
45 4 0.02
46 33 0.14
47 71 0.30
48 37 0.16
49 42 0.18
50 11 0.05
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGGCTATCTCATCAAGGCCGATGCATG
Found at i:97493557 original size:47 final size:47
Alignment explanation
Indices: 97493354--97493656 Score: 221
Period size: 47 Copynumber: 6.4 Consensus size: 47
97493344 TGTTGCCATA
* * *
97493354 TCCCAAACATGGTCTTACGCTGGCTATC-TCCATCAAGGCCGATGCCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CATCGAGGCCGATG-CATG
* * * *
97493403 TCCCAGACATGGTCTTACACTAGCTCTCGTGTAT--ATGTGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CATCGA-G-GCCGATGCATG
* * * * * *
97493452 TCCCAGACATGTCTCACACTAGC-ATGA--AACTTA-GCCGATGTATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATC-GAGGCCGATGCATG
* *
97493496 TCCCAGATACGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
* * *
97493543 TCCTAGACATGTCTTACACTGGC-ACTCATC-TCTACGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGGCCGATG-CATG
* * * *
97493590 TCCCAGACATGGTCTTACACTGGCTATCTTAAT-GTGGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
* *
97493637 CCCCAAACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
97493657 AGCCCTCGTC
Statistics
Matches: 205, Mismatches: 34, Indels: 33
0.75 0.12 0.12
Matches are distributed among these distances:
44 30 0.15
45 3 0.01
46 22 0.11
47 64 0.31
48 35 0.17
49 41 0.20
50 10 0.05
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCATG
Found at i:97493636 original size:94 final size:92
Alignment explanation
Indices: 97493391--97493700 Score: 340
Period size: 94 Copynumber: 3.3 Consensus size: 92
97493381 CTCCATCAAG
* *
97493391 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATATGT-GCCGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-T-TA-ATGTGGCCGATGCATGTCC
* * *
97493455 CAGACATGTCTCACACTAGCA-TGAAACTTA
63 CAGACATGTCTTACACTAGCACT-CATCTTA
* * * * * * *
97493485 GCCGATG-TATGTCCCAGATA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAAT-GTGGCCGATGCATGTCCCA
*
97493548 GACATGTCTTACACTGGCACTCATCTCTA
65 GACATGTCTTACACTAGCACTCATCT-TA
* *
97493577 CGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCTGATGCATGCCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCCGATGCATGTCCCA
* * *
97493642 AACATGTCTTACACTAGCCCTCGTCTTAA
65 GACATGTCTTACACTAGCACTCATCTT-A
*
97493671 TGCCGATGCCATGTCCCAAACATGGTCTTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTA
97493701 TATTGGCTCT
Statistics
Matches: 180, Mismatches: 28, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
89 2 0.01
90 2 0.01
91 35 0.19
92 18 0.10
93 19 0.11
94 84 0.47
95 20 0.11
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCATCTTA
Found at i:97493651 original size:141 final size:140
Alignment explanation
Indices: 97493355--97493700 Score: 328
Period size: 141 Copynumber: 2.5 Consensus size: 140
97493345 GTTGCCATAT
*
97493355 CCCAAACATGGTCTTACGCTGGCTATCTCCATCAAGGCCGATGCCATGTCCCAGACATGGTCTTA
1 CCCAAACAT-GTCTTACACTGGCTATCTCCATCAAGGCCGATGCCATGTCCCAGACATGGTCTTA
* * * *
97493420 CACTAGCTCTCGTGTATATGTGCCGATGCATGTCCCAGACATGTCTCACACTAGCATGAAACTTA
65 CACTAGCACTCATCTATA-GCGCCGATGCATGTCCCAGACATGTCTCACACTAGCATGAAACTTA
* *
97493485 GCCGATGTATGT
129 GCCGATGCATGC
* * * * *
97493497 CCCAGATACGTCTTACACTGGCTATCAT-CATCGAGGCCGATG-CATGTCCTAGACAT-GTCTTA
1 CCCAAACATGTCTTACACTGGCTATC-TCCATCAAGGCCGATGCCATGTCCCAGACATGGTCTTA
* * * * **
97493559 CACTGGCACTCATCTCTA-CGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAA-
65 CACTAGCACTCATCTATAGCGCCGATG-CATGTCCCAGACAT-GTCTCACACTAGC-AT-GAAAC
* *
97493622 TGTGGCTGATGCATGC
126 T-TAGCCGATGCATGC
* ** * * *
97493638 CCCAAACATGTCTTACACTAGCCCTCGT-C-TTAATGCCGATGCCATGTCCCAAACATGGTCTTA
1 CCCAAACATGTCTTACACTGGCTATC-TCCATCAAGGCCGATGCCATGTCCCAGACATGGTCTTA
97493701 TATTGGCTCT
Statistics
Matches: 164, Mismatches: 32, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
137 7 0.04
138 14 0.09
139 30 0.18
140 25 0.15
141 75 0.46
142 13 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (140 bp):
CCCAAACATGTCTTACACTGGCTATCTCCATCAAGGCCGATGCCATGTCCCAGACATGGTCTTAC
ACTAGCACTCATCTATAGCGCCGATGCATGTCCCAGACATGTCTCACACTAGCATGAAACTTAGC
CGATGCATGC
Found at i:97495551 original size:19 final size:20
Alignment explanation
Indices: 97495514--97495563 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
97495504 AGTAGGGAAC
97495514 ATACATATATAAAACATATA
1 ATACATATATAAAACATATA
97495534 ATAC-TATATTAAAA-ATAT-
1 ATACATATA-TAAAACATATA
97495552 ATACAATATATA
1 ATAC-ATATATA
97495564 TTGAAAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 4 0.15
19 10 0.37
20 13 0.48
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
ATACATATATAAAACATATA
Found at i:97495730 original size:25 final size:23
Alignment explanation
Indices: 97495702--97495816 Score: 83
Period size: 25 Copynumber: 4.8 Consensus size: 23
97495692 TATGGCGTTA
97495702 AAAATACATATATAATATAGTTATT
1 AAAATA-ATATATAATATAG-TATT
* *
97495727 AAAATATATATATAAGATAATATGT
1 AAAATA-ATATATAATATAGTAT-T
97495752 AAAA-AA-ATATAATATAGTATT
1 AAAATAATATATAATATAGTATT
* * *
97495773 CAAAATATATACATGATATA-TATA
1 -AAAATA-ATATATAATATAGTATT
*
97495797 AAATATAATATTAAAATATA
1 AAA-ATAATA-TATAATATA
97495817 TATATATACG
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
21 1 0.01
22 16 0.22
23 8 0.11
24 17 0.24
25 30 0.42
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (23 bp):
AAAATAATATATAATATAGTATT
Found at i:97496018 original size:23 final size:23
Alignment explanation
Indices: 97495956--97496033 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
97495946 ATATACCAAT
*
97495956 AATA-ATAACAAGGATAACATAAAA
1 AATATATAACAA--ATAATATAAAA
** *
97495980 ATATATATATGAAATAGTATAAAA
1 A-ATATATAACAAATAATATAAAA
*
97496004 AATATATAACTAATAATATTAAAA
1 AATATATAACAAATAATA-TAAAA
97496028 AATATA
1 AATATA
97496034 CATGATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 13 0.30
24 22 0.51
25 3 0.07
26 5 0.12
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (23 bp):
AATATATAACAAATAATATAAAA
Found at i:97496045 original size:23 final size:22
Alignment explanation
Indices: 97495974--97496058 Score: 64
Period size: 24 Copynumber: 3.6 Consensus size: 22
97495964 CAAGGATAAC
* *
97495974 ATAAAAATATATATATGAAATAGT
1 ATAAAAA-ATATAAATGATATA-T
*
97495998 ATAAAAAATATATAACTAATA-AT
1 ATAAAAAATATA-AA-TGATATAT
*
97496021 ATTAAAAAATATACATGATATAT
1 A-TAAAAAATATAAATGATATAT
*
97496044 ATAAAAGCATATAAA
1 ATAAAA-AATATAAA
97496059 ATACACATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
22 9 0.18
23 17 0.35
24 20 0.41
25 3 0.06
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAAAAAATATAAATGATATAT
Found at i:97496147 original size:25 final size:23
Alignment explanation
Indices: 97496105--97496163 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
97496095 AAATAATTAT
* *
97496105 TAATAATATT--ACATAAATATA
1 TAATAATATTAAAGATAAATACA
97496126 TACATATATATTAAAGATAAATACA
1 TA-ATA-ATATTAAAGATAAATACA
97496151 TAATAATATTAAA
1 TAATAATATTAAA
97496164 AGTATGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.06
22 3 0.09
23 13 0.41
24 3 0.09
25 11 0.34
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATAATATTAAAGATAAATACA
Found at i:97496188 original size:13 final size:13
Alignment explanation
Indices: 97496105--97496215 Score: 56
Period size: 13 Copynumber: 9.5 Consensus size: 13
97496095 AAATAATTAT
97496105 TAATA-ATATTACA
1 TAATATATA-TACA
97496118 TAA-ATATATACA
1 TAATATATATACA
97496130 T-ATATAT-TA-A
1 TAATATATATACA
97496140 -AGATA-A-ATACA
1 TA-ATATATATACA
97496151 TAATA-ATATTA-A
1 TAATATATA-TACA
* *
97496163 -AA-GTATGTACA
1 TAATATATATACA
97496174 TAATATATATACA
1 TAATATATATACA
97496187 TAATATAT-T--A
1 TAATATATATACA
*
97496197 -AAGATATATACA
1 TAATATATATACA
97496209 TAATATA
1 TAATATA
97496216 ATAAAACATA
Statistics
Matches: 75, Mismatches: 6, Indels: 34
0.65 0.05 0.30
Matches are distributed among these distances:
9 6 0.08
10 8 0.11
11 16 0.21
12 17 0.23
13 28 0.37
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (13 bp):
TAATATATATACA
Found at i:97496202 original size:58 final size:54
Alignment explanation
Indices: 97496096--97496221 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 54
97496086 AATGTTAAAA
97496096 AATAATTATTAATAATATTACATAAATATATACATATATATTAAAGATAAATACAT
1 AATAA-TATTAA-AATATTACATAAATATATACATATATATTAAAGATAAATACAT
*
97496152 AATAATATTAAAAGTATGTACATAATATATATACATAATATATTAAAGATATATACAT
1 AATAATATTAAAA-TAT-TACATAA-ATATATACAT-ATATATTAAAGATAAATACAT
*
97496210 AAT-ATAATAAAA
1 AATAATATTAAAA
97496222 CATATGAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
54 2 0.03
55 9 0.14
56 12 0.19
57 18 0.28
58 23 0.36
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (54 bp):
AATAATATTAAAATATTACATAAATATATACATATATATTAAAGATAAATACAT
Found at i:97496209 original size:35 final size:36
Alignment explanation
Indices: 97496146--97496215 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
97496136 TTAAAGATAA
*
97496146 ATACATAATAATATTAAAAGTATGTACATAATATAT
1 ATACATAATAATATTAAAAGTATATACATAATATAT
97496182 ATACATAAT-ATATT-AAAGATATATACATAATATA
1 ATACATAATAATATTAAAAG-TATATACATAATATA
97496216 ATAAAACATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 4 0.12
35 19 0.59
36 9 0.28
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (36 bp):
ATACATAATAATATTAAAAGTATATACATAATATAT
Found at i:97496232 original size:21 final size:21
Alignment explanation
Indices: 97496180--97496299 Score: 113
Period size: 21 Copynumber: 5.7 Consensus size: 21
97496170 TACATAATAT
* *
97496180 ATATACATAATATATTAAAGAT
1 ATATACATAATATAATAAA-AA
*
97496202 ATATACATAATATAATAAAAC
1 ATATACATAATATAATAAAAA
**
97496223 ATATGA-ATAATAGGATAAAAA
1 ATAT-ACATAATATAATAAAAA
97496244 ATATACATAATAT-ATAAAAAA
1 ATATACATAATATAAT-AAAAA
* *
97496265 ATATA-AT-ATTTAAAAAAATA
1 ATATACATAATATAATAAAA-A
97496285 ATATACATAATATAA
1 ATATACATAATATAA
97496300 GAGTATTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.09
20 12 0.15
21 39 0.48
22 24 0.29
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (21 bp):
ATATACATAATATAATAAAAA
Found at i:97496272 original size:17 final size:17
Alignment explanation
Indices: 97496250--97496284 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
97496240 AAAAATATAC
97496250 ATAATATATAAAAAAAT
1 ATAATATATAAAAAAAT
*
97496267 ATAATATTTAAAAAAAT
1 ATAATATATAAAAAAAT
97496284 A
1 A
97496285 ATATACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATATATAAAAAAAT
Found at i:97496328 original size:29 final size:27
Alignment explanation
Indices: 97496250--97496328 Score: 68
Period size: 32 Copynumber: 2.7 Consensus size: 27
97496240 AAAAATATAC
*
97496250 ATAATATATAAAAAAATATAATATTTAAA
1 ATAATAAAT-AAAAAATA-AATATTTAAA
* *
97496279 AAAATAATATACATAATATAAGAGTATTTAAA
1 ATAATAA-ATA-A-AAAATAA-A-TATTTAAA
97496311 ATAATAAATAAAAAATAA
1 ATAATAAATAAAAAATAA
97496329 TGAAGAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
29 12 0.30
30 5 0.12
31 9 0.22
32 14 0.35
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATAAATAAAAAATAAATATTTAAA
Found at i:97496368 original size:26 final size:22
Alignment explanation
Indices: 97496307--97496369 Score: 54
Period size: 26 Copynumber: 2.5 Consensus size: 22
97496297 TAAGAGTATT
97496307 TAAAATAATAAATAAAAAATAA
1 TAAAATAATAAATAAAAAATAA
97496329 TGAAGAAATGAATAAATGAATAAAAATAA
1 T--A-AAAT-AATAAAT--A-AAAAATAA
97496358 TAAACATAATAA
1 TAAA-ATAATAA
97496370 TATAGTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
22 1 0.03
24 1 0.03
25 4 0.12
26 14 0.42
27 3 0.09
28 1 0.03
29 9 0.27
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (22 bp):
TAAAATAATAAATAAAAAATAA
Found at i:97496477 original size:12 final size:12
Alignment explanation
Indices: 97496462--97496588 Score: 63
Period size: 12 Copynumber: 10.7 Consensus size: 12
97496452 TAATAGTGAA
97496462 AATAATAAATAT
1 AATAATAAATAT
97496474 AATAATAAATAT
1 AATAATAAATAT
*
97496486 AATAATAGAA-AC
1 AATAATA-AATAT
* **
97496498 GATAAT-TCTAT
1 AATAATAAATAT
97496509 -ATAA-AAAGTAT
1 AATAATAAA-TAT
*
97496520 -ATATATACATAT
1 AATA-ATAAATAT
97496532 -ATAATAAA-AT
1 AATAATAAATAT
*
97496542 ATATACT-AATATT
1 A-ATAATAAATA-T
*
97496555 AATAATGAATAT
1 AATAATAAATAT
*
97496567 AATATTATAATACT
1 AATAATA-AATA-T
97496581 AATAATAA
1 AATAATAA
97496589 CAATATGAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
10 6 0.07
11 13 0.15
12 47 0.53
13 15 0.17
14 7 0.08
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:97496487 original size:21 final size:21
Alignment explanation
Indices: 97496429--97496490 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
97496419 TGTATATACG
* * *
97496429 TATAATAAT-GATAAAAAAAA
1 TATAATAATAAATATAATAAA
*
97496449 TAATAATAGTGAAA-ATAATAAA
1 T-ATAATAAT-AAATATAATAAA
97496471 TATAATAATAAATATAATAA
1 TATAATAATAAATATAATAA
97496491 TAGAAACGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.12
21 21 0.64
22 7 0.21
23 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
TATAATAATAAATATAATAAA
Found at i:97496546 original size:26 final size:25
Alignment explanation
Indices: 97496509--97496594 Score: 65
Period size: 28 Copynumber: 3.4 Consensus size: 25
97496499 ATAATTCTAT
97496509 ATAAAA-AGTATATATATACATATATA
1 ATAAAATA-TATATATATACATA-ATA
97496535 ATAAAATATATACTAATATTA-ATAATGA
1 ATAAAATATATA-T-ATA-TACATAAT-A
*
97496563 ATATAATAT-TATA-ATAC-TAATA
1 ATAAAATATATATATATACATAATA
97496585 ATAACAATAT
1 ATAA-AATAT
97496595 GAAATTAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
22 4 0.08
23 11 0.22
24 1 0.02
25 1 0.02
26 11 0.22
27 6 0.12
28 15 0.29
29 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAAAATATATATATATACATAATA
Found at i:97496553 original size:20 final size:21
Alignment explanation
Indices: 97496520--97496559 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
97496510 TAAAAAGTAT
97496520 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
97496540 ATATATAC-TAATATTAATAA
1 ATATATACAT-ATATTAATAA
97496560 TGAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:97496699 original size:9 final size:9
Alignment explanation
Indices: 97496680--97496736 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
97496670 TATATAAAAA
*
97496680 AATAATAAT
1 AATATTAAT
*
97496689 AATATTGAT
1 AATATTAAT
97496698 AATATTAAT
1 AATATTAAT
97496707 AATATTAGA-
1 AATATTA-AT
*
97496716 AATAATAAT
1 AATATTAAT
97496725 AATATTTAAT
1 AATA-TTAAT
97496735 AA
1 AA
97496737 AGAAACAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 1 0.03
9 32 0.80
10 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (9 bp):
AATATTAAT
Found at i:97496701 original size:18 final size:18
Alignment explanation
Indices: 97496679--97496730 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
97496669 ATATATAAAA
97496679 AAATAATAATAATATT-G
1 AAATAATAATAATATTAG
*
97496696 ATAATATTAATAATATTAG
1 A-AATAATAATAATATTAG
97496715 AAATAATAATAATATT
1 AAATAATAATAATATT
97496731 TAATAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 1 0.03
18 28 0.90
19 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AAATAATAATAATATTAG
Found at i:97497279 original size:14 final size:13
Alignment explanation
Indices: 97497251--97497290 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
97497241 GAAAAGGTAA
97497251 ATTTTTTTATT-T
1 ATTTTTTTATTAT
*
97497263 -TTTTTGTATTAT
1 ATTTTTTTATTAT
97497275 ATTTTTTTA-TAT
1 ATTTTTTTATTAT
97497287 ATTT
1 ATTT
97497291 ACAATGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:97512868 original size:20 final size:21
Alignment explanation
Indices: 97512838--97512876 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
97512828 TATTAGTCAA
97512838 ATTTATTTTAAGTAATTTATG
1 ATTTATTTTAAGTAATTTATG
*
97512859 ATTT-TTTTAATTAATTTA
1 ATTTATTTTAAGTAATTTA
97512877 GGATGTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTATTTTAAGTAATTTATG
Found at i:97522721 original size:15 final size:15
Alignment explanation
Indices: 97522671--97522726 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
97522661 ACTTAAGATT
*
97522671 AAAAATGTAAAATTCG
1 AAAAATATAAAATT-G
*
97522687 AAAAAACATAAAAATT-
1 -AAAAATAT-AAAATTG
97522703 AAAAATATAAAATTG
1 AAAAATATAAAATTG
*
97522718 AAAAGTATA
1 AAAAATATA
97522727 GACTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.18
15 15 0.45
17 6 0.18
18 6 0.18
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.23
Consensus pattern (15 bp):
AAAAATATAAAATTG
Found at i:97531792 original size:25 final size:25
Alignment explanation
Indices: 97531767--97531816 Score: 66
Period size: 28 Copynumber: 1.9 Consensus size: 25
97531757 TTACATTTTA
97531767 AAATTC-AATAATAATAAAAAAGTT
1 AAATTCTAATAATAATAAAAAAGTT
97531791 AAATTCGTTAAATAATAATAAAAAAG
1 AAATTC--T-AATAATAATAAAAAAG
97531817 AGTTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
28 16 0.73
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATTCTAATAATAATAAAAAAGTT
Found at i:97538152 original size:31 final size:31
Alignment explanation
Indices: 97538114--97538225 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
97538104 AATGTTACAC
97538114 TTTAGTCACTTATGTTAACGTGTTGTAACAT
1 TTTAGTCACTTATGTTAACGTGTTGTAACAT
* * * * *
97538145 TTTAGTCACTGATTAGTTACTTATGTTTGAAATGTTACAC
1 TTTAGTCACTTA-T-GTTA---ACG--TG--TTGTAACAT
*
97538185 TTTAGTCACTTACGTTAACGTGTTGTAACAT
1 TTTAGTCACTTATGTTAACGTGTTGTAACAT
97538216 TTTAGTCACT
1 TTTAGTCACT
97538226 GAGCTGTTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
31 27 0.44
32 1 0.02
33 6 0.10
35 2 0.03
36 2 0.03
38 6 0.10
40 17 0.28
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (31 bp):
TTTAGTCACTTATGTTAACGTGTTGTAACAT
Found at i:97538202 original size:71 final size:71
Alignment explanation
Indices: 97538086--97538227 Score: 275
Period size: 71 Copynumber: 2.0 Consensus size: 71
97538076 ATGTTATATT
*
97538086 TTAGTTACTTATGTTTGAAATGTTACACTTTAGTCACTTATGTTAACGTGTTGTAACATTTTAGT
1 TTAGTTACTTATGTTTGAAATGTTACACTTTAGTCACTTACGTTAACGTGTTGTAACATTTTAGT
97538151 CACTGA
66 CACTGA
97538157 TTAGTTACTTATGTTTGAAATGTTACACTTTAGTCACTTACGTTAACGTGTTGTAACATTTTAGT
1 TTAGTTACTTATGTTTGAAATGTTACACTTTAGTCACTTACGTTAACGTGTTGTAACATTTTAGT
97538222 CACTGA
66 CACTGA
97538228 GCTGTTAATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (71 bp):
TTAGTTACTTATGTTTGAAATGTTACACTTTAGTCACTTACGTTAACGTGTTGTAACATTTTAGT
CACTGA
Found at i:97554270 original size:16 final size:16
Alignment explanation
Indices: 97554249--97554281 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
97554239 TACCATCCCA
97554249 TCCTTAAATTTAGAGG
1 TCCTTAAATTTAGAGG
97554265 TCCTTAAATTTAGAGG
1 TCCTTAAATTTAGAGG
97554281 T
1 T
97554282 ATATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (16 bp):
TCCTTAAATTTAGAGG
Found at i:97560484 original size:32 final size:33
Alignment explanation
Indices: 97560434--97560498 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
97560424 TTTTCTTGGT
*
97560434 CTAATTTGGTATCCAAACTTG-ACTTTTTTTTC
1 CTAATTTGATATCCAAACTTGAACTTTTTTTTC
97560466 CTAATTTGATA-CCTAAACTTGACACTTTTTTTT
1 CTAATTTGATATCC-AAACTTGA-ACTTTTTTTT
97560499 AAGTTGGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 17 0.59
34 10 0.34
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (33 bp):
CTAATTTGATATCCAAACTTGAACTTTTTTTTC
Found at i:97561082 original size:58 final size:58
Alignment explanation
Indices: 97560973--97561086 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 58
97560963 ATCAAGTTTA
* ** * * *
97560973 GGCCCAAAAAATTTAGGTACCAAATTAGAAAAAAATGTCAAGTTTACATACCAAATTG
1 GGCCAAAAAAATTTAAATACCAAATTAGAAAAAAATATCAAATTTAAATACCAAATTG
*
97561031 GGCCAAAAAAATTTAAATACCAAATTTA-AAAAATATATCAAATTTAAATACCAAAT
1 GGCCAAAAAAATTTAAATACCAAA-TTAGAAAAAAATATCAAATTTAAATACCAAAT
97561087 ATTATAATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 45 0.94
59 3 0.06
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (58 bp):
GGCCAAAAAAATTTAAATACCAAATTAGAAAAAAATATCAAATTTAAATACCAAATTG
Found at i:97562020 original size:26 final size:25
Alignment explanation
Indices: 97561958--97562019 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
97561948 AAAAAACAAA
97561958 AAAAATT-AAATTTAATATATTTAT
1 AAAAATTAAAATTTAATATATTTAT
*
97561982 AAAAATTCCAAAATTT-ATATTTTTAAT
1 AAAAATT--AAAATTTAATATATTT-AT
97562009 AAAAATTAAAA
1 AAAAATTAAAA
97562020 AATTAAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 7 0.21
25 4 0.12
26 7 0.21
27 15 0.45
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAAATTAAAATTTAATATATTTAT
Found at i:97562021 original size:27 final size:27
Alignment explanation
Indices: 97561965--97562023 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
97561955 AAAAAAAATT
**
97561965 AAATTTAATATATTTATAAAAATTCCA
1 AAATTTAATATATTTATAAAAATTAAA
*
97561992 AAATTT-ATATTTTTAATAAAAATTAAA
1 AAATTTAATATATTT-ATAAAAATTAAA
97562019 AAATT
1 AAATT
97562024 AAAAACTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATTTAATATATTTATAAAAATTAAA
Found at i:97567447 original size:30 final size:28
Alignment explanation
Indices: 97567407--97567471 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
97567397 TCGTTACAAG
*
97567407 TTAATTTATTTTTCTATTATTTTATAAGCGT
1 TTAA-TTATTTTTCTATTATTTT-TAA-AGT
*
97567438 TTAATTATTTTTTTATTATTTTTAAAGT
1 TTAATTATTTTTCTATTATTTTTAAAGT
97567466 TTAATT
1 TTAATT
97567472 GATTGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 8 0.25
29 3 0.09
30 17 0.53
31 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (28 bp):
TTAATTATTTTTCTATTATTTTTAAAGT
Found at i:97568560 original size:7 final size:7
Alignment explanation
Indices: 97568548--97568581 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
97568538 AATTTTCTTT
97568548 GAATTTG
1 GAATTTG
*
97568555 GAATTTA
1 GAATTTG
*
97568562 GATTTTG
1 GAATTTG
97568569 GAATTTG
1 GAATTTG
97568576 GAATTT
1 GAATTT
97568582 TGTGAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (7 bp):
GAATTTG
Found at i:97568570 original size:14 final size:15
Alignment explanation
Indices: 97568551--97568588 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
97568541 TTTCTTTGAA
97568551 TTTGGAATTTAG-AT
1 TTTGGAATTTAGAAT
*
97568565 TTTGGAATTTGGAAT
1 TTTGGAATTTAGAAT
97568580 TTTGTGAAT
1 TTTG-GAAT
97568589 ATTTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 6 0.29
16 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (15 bp):
TTTGGAATTTAGAAT
Found at i:97568672 original size:13 final size:13
Alignment explanation
Indices: 97568644--97568685 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
97568634 TAATATTTGT
97568644 TTTTATTTTGTTAA
1 TTTTATTTT-TTAA
97568658 TTTTATTTTTTAA
1 TTTTATTTTTTAA
*
97568671 --TTAATTTTTAA
1 TTTTATTTTTTAA
97568682 TTTT
1 TTTT
97568686 TAAAAAGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 10 0.40
13 6 0.24
14 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:97568676 original size:17 final size:18
Alignment explanation
Indices: 97568654--97568688 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
97568644 TTTTATTTTG
*
97568654 TTAA-TTTTATTTTTTAA
1 TTAATTTTTAATTTTTAA
97568671 TTAATTTTTAATTTTTAA
1 TTAATTTTTAATTTTTAA
97568689 AAAGGGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAATTTTTAATTTTTAA
Found at i:97568859 original size:20 final size:19
Alignment explanation
Indices: 97568828--97568870 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
97568818 ACTTTTATGA
*
97568828 ATTTTTTTATTTTTAAA-T
1 ATTTTTTTATTTGTAAATT
97568846 ATTTTTTATAATTTGTAAATT
1 ATTTTTT-T-ATTTGTAAATT
97568867 ATTT
1 ATTT
97568871 GTTAATGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 8 0.38
21 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTTATTTGTAAATT
Found at i:97570057 original size:12 final size:12
Alignment explanation
Indices: 97570040--97570073 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
97570030 GAGCAGGGAA
97570040 AGAAAGAAAAAG
1 AGAAAGAAAAAG
97570052 AGAAAGAAAAAG
1 AGAAAGAAAAAG
*
97570064 A-AAGGAAAAA
1 AGAAAGAAAAA
97570074 TAGGATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:97570693 original size:39 final size:40
Alignment explanation
Indices: 97570650--97570742 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
97570640 AAAAATTATA
* *
97570650 TTTAATAAAATAAAACATTTGTTATATTTAT-TTGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTATATAGTGTTT
* *
97570689 TTTAATATAACAAAACATTTATTATATTTATGATAGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTAT-ATAGTGTTT
97570730 TTTAATATAAATA
1 TTTAATA-AAATA
97570743 CTTTTTAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 28 0.62
41 14 0.31
42 3 0.07
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATATTTATATAGTGTTT
Found at i:97571846 original size:17 final size:17
Alignment explanation
Indices: 97571809--97571847 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
97571799 AAATATAAAA
* * *
97571809 AAAAATTTAAAATTTTT
1 AAAAATATAAAATGTTC
97571826 AAAAATATAAAATGTTC
1 AAAAATATAAAATGTTC
97571843 AAAAA
1 AAAAA
97571848 AATATTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAAATATAAAATGTTC
Found at i:97571847 original size:38 final size:37
Alignment explanation
Indices: 97571789--97571865 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
97571779 TCATTTTATA
*
97571789 AAAAATATAAAAATATAAAAAAAAATTTAAAATTTTT
1 AAAAATATAAAAATATAAAAAAAAATTTAAAAATTTT
* *
97571826 AAAAATAT-AAAATGTTCAAAAAAATATTTAAAAATTTT
1 AAAAATATAAAAAT-AT-AAAAAAAAATTTAAAAATTTT
97571864 AA
1 AA
97571866 TTTTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 5 0.14
37 9 0.26
38 21 0.60
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (37 bp):
AAAAATATAAAAATATAAAAAAAAATTTAAAAATTTT
Found at i:97571901 original size:10 final size:10
Alignment explanation
Indices: 97571888--97571914 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
97571878 AAAAAAATAG
97571888 AAAATGTCAA
1 AAAATGTCAA
97571898 AAAATGTCAA
1 AAAATGTCAA
97571908 AAAATGT
1 AAAATGT
97571915 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.22
Consensus pattern (10 bp):
AAAATGTCAA
Found at i:97572254 original size:10 final size:9
Alignment explanation
Indices: 97572234--97572292 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
97572224 CATTGTTAAG
97572234 TTAA-ATTT
1 TTAATATTT
97572242 TTAATATTTT
1 TTAATA-TTT
97572252 TTAATATTT
1 TTAATATTT
*
97572261 AT-ATATTT
1 TTAATATTT
97572269 TTAATATTTT
1 TTAATA-TTT
*
97572279 TTGA-ATTT
1 TTAATATTT
97572287 TTAATA
1 TTAATA
97572293 AATTTAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 17 0.40
9 10 0.24
10 15 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTAATATTT
Found at i:97572269 original size:17 final size:16
Alignment explanation
Indices: 97572245--97572277 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
97572235 TAAATTTTTA
97572245 ATATTTTTTAATATTT
1 ATATTTTTTAATATTT
97572261 ATATATTTTTAATATTT
1 ATAT-TTTTTAATATTT
97572278 TTTGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATATTTTTTAATATTT
Found at i:97572298 original size:27 final size:27
Alignment explanation
Indices: 97572241--97572300 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
97572231 AAGTTAAATT
**
97572241 TTTAATATTTTTTAATATTTATATATT
1 TTTAATATTTTTTAATATTTATATAAA
*
97572268 TTTAATATTTTTTGAATTTTTA-ATAAA
1 TTTAATATTTTTT-AATATTTATATAAA
97572295 TTTAAT
1 TTTAAT
97572301 TCAAATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTAATATTTTTTAATATTTATATAAA
Found at i:97581942 original size:21 final size:20
Alignment explanation
Indices: 97581901--97581942 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
97581891 CTTATTATTT
*
97581901 AATTCTTTTTATTTTTATAA
1 AATTCTTTTTATTCTTATAA
97581921 AATTGCTTTTTAATTCTT-TAA
1 AATT-CTTTTT-ATTCTTATAA
97581942 A
1 A
97581943 GTTTTTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTCTTTTTATTCTTATAA
Found at i:97583548 original size:18 final size:20
Alignment explanation
Indices: 97583521--97583569 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
97583511 TAATTAATAA
* *
97583521 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
97583542 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
97583562 T-AAATAAT
1 TAAAATAAT
97583570 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:97583558 original size:20 final size:21
Alignment explanation
Indices: 97583521--97583580 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
97583511 TAATTAATAA
*
97583521 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
97583542 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
97583562 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
97583581 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:97597276 original size:14 final size:16
Alignment explanation
Indices: 97597242--97597274 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
97597232 ATTATATTTT
97597242 AAATATAAAATATAAA
1 AAATATAAAATATAAA
*
97597258 AAATA-AAAATTTAAA
1 AAATATAAAATATAAA
97597273 AA
1 AA
97597275 TATTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATATAAAATATAAA
Found at i:97599046 original size:13 final size:14
Alignment explanation
Indices: 97599028--97599056 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
97599018 AAATCTATTT
97599028 TTAATTTAAT-CAA
1 TTAATTTAATCCAA
97599041 TTAATTTAATCCAA
1 TTAATTTAATCCAA
97599055 TT
1 TT
97599057 CAGATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATTTAATCCAA
Found at i:97602608 original size:20 final size:20
Alignment explanation
Indices: 97602567--97602608 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
97602557 ATGATATAAC
* *
97602567 ATGTGTAATAGTTGATATAT
1 ATGTGTAATAGCTGATAGAT
97602587 ATGTGTAATAGCT-ATAAGAT
1 ATGTGTAATAGCTGAT-AGAT
97602607 AT
1 AT
97602609 TTTATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTGTAATAGCTGATAGAT
Found at i:97610826 original size:47 final size:47
Alignment explanation
Indices: 97610762--97610872 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
97610752 GACATTGAGT
* *
97610762 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
97610809 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
97610856 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
97610873 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:97612720 original size:21 final size:21
Alignment explanation
Indices: 97612679--97612720 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
97612669 CACTACAATA
*
97612679 TTTCCTATCACTCCCATTTAT
1 TTTCCTATCACTACCATTTAT
*
97612700 TTTCCT-TCACTATCATATTAT
1 TTTCCTATCACTACCAT-TTAT
97612721 GAACATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTCCTATCACTACCATTTAT
Found at i:97613801 original size:8 final size:8
Alignment explanation
Indices: 97613788--97613818 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
97613778 ATTTAAGTAA
97613788 ATATTATT
1 ATATTATT
97613796 ATATTATT
1 ATATTATT
97613804 ATATTATT
1 ATATTATT
97613812 ATATTAT
1 ATATTAT
97613819 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:97613835 original size:49 final size:48
Alignment explanation
Indices: 97613747--97613839 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 48
97613737 ATAATATACA
* *
97613747 TATATTAGTAATTATTATATATTTACTTATAATTTAAGTAAATATTAT
1 TATATTAGTAATTATTATATATTTAATTATAATTAAAGTAAATATTAT
*
97613795 TATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAAATA
1 TATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAAATA
97613840 AAATAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
48 9 0.23
49 19 0.49
50 5 0.13
51 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (48 bp):
TATATTAGTAATTATTATATATTTAATTATAATTAAAGTAAATATTAT
Found at i:97614072 original size:22 final size:24
Alignment explanation
Indices: 97614033--97614077 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
97614023 TAGAAACGAA
97614033 GAAACAAGGGAGAAAGAAAGAAAG
1 GAAACAAGGGAGAAAGAAAGAAAG
97614057 GAAA-AAGGG-GAAAGAAAGAAA
1 GAAACAAGGGAGAAAGAAAGAAA
97614078 AGGGAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
23 5 0.24
24 4 0.19
ACGTcount: A:0.64, C:0.02, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAACAAGGGAGAAAGAAAGAAAG
Found at i:97614086 original size:26 final size:25
Alignment explanation
Indices: 97613998--97614077 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 25
97613988 TAAATAAACA
*
97613998 AAAGAAA-A-AAA-AAGGAAGAACAG
1 AAAGAAAGAGAAACAAGGGAGAA-AG
97614021 AATAGAAACGAAGAAACAAGGGAGAAAG
1 AA-AGAAA-G-AGAAACAAGGGAGAAAG
97614049 AAAGAAAG-GAAA-AAGGG-GAAAG
1 AAAGAAAGAGAAACAAGGGAGAAAG
97614071 AAAGAAA
1 AAAGAAA
97614078 AGGGAGAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
22 12 0.24
23 7 0.14
24 9 0.18
26 1 0.02
27 6 0.12
28 7 0.14
29 8 0.16
ACGTcount: A:0.68, C:0.04, G:0.28, T:0.01
Consensus pattern (25 bp):
AAAGAAAGAGAAACAAGGGAGAAAG
Found at i:97614533 original size:40 final size:40
Alignment explanation
Indices: 97614469--97614584 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
97614459 CCTTCTCGAG
* *
97614469 AATAAAAAGTGAATAGGATCTATTCCTGATTCACTAAAAGA
1 AATATAAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
*
97614510 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTAGAAA
1 AATATAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * * *
97614549 TATATAAAGTGGATAGGATTTTTTCTTAATTCACTA
1 AATATAAAGTGAATAGGATTTATTCCTGATTCACTA
97614585 TGGTAACTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.05
40 60 0.91
41 3 0.05
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (40 bp):
AATATAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:97617323 original size:42 final size:42
Alignment explanation
Indices: 97617258--97617413 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
97617248 AAATCGTACA
*
97617258 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
97617300 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
97617342 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
97617386 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
97617414 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:97628981 original size:35 final size:35
Alignment explanation
Indices: 97628935--97629005 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
97628925 TACAGATGAG
97628935 ATATTTGGCAAAAGAGAAAACACTTCTATGGGGGA
1 ATATTTGGCAAAAGAGAAAACACTTCTATGGGGGA
97628970 ATATTTGGCAAAAGAGAAAACACTTCTATGGGGGA
1 ATATTTGGCAAAAGAGAAAACACTTCTATGGGGGA
97629005 A
1 A
97629006 ATAATCACTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (35 bp):
ATATTTGGCAAAAGAGAAAACACTTCTATGGGGGA
Found at i:97629075 original size:29 final size:29
Alignment explanation
Indices: 97629042--97629100 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
97629032 GAGCACAAGG
97629042 TACGTTGGGACCATTAACACAATAATCTC
1 TACGTTGGGACCATTAACACAATAATCTC
97629071 TACGTTGGGACCATTAACACAATAATCTC
1 TACGTTGGGACCATTAACACAATAATCTC
97629100 T
1 T
97629101 CTTTCGTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (29 bp):
TACGTTGGGACCATTAACACAATAATCTC
Found at i:97630669 original size:14 final size:15
Alignment explanation
Indices: 97630647--97630723 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
97630637 GAATCAAACA
97630647 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
97630661 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
97630676 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
97630696 CCA-AAAATCATTTT
1 CCAGAAAATCATTTT
* *
97630710 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
97630724 ACTCTCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.40
15 16 0.32
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:97630707 original size:34 final size:35
Alignment explanation
Indices: 97630651--97630717 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
97630641 CAAACACCAG
* *
97630651 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
97630686 AAAACATTTTCCA-AAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
97630718 TATTTTACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:97632431 original size:12 final size:12
Alignment explanation
Indices: 97632414--97632456 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
97632404 AGATAGTAAG
97632414 TAATAATAAAAA
1 TAATAATAAAAA
* *
97632426 TAATAATAACAG
1 TAATAATAAAAA
97632438 TAATAA-AAAAA
1 TAATAATAAAAA
*
97632449 TGATAATA
1 TAATAATA
97632457 GTGATATTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (12 bp):
TAATAATAAAAA
Found at i:97632705 original size:16 final size:17
Alignment explanation
Indices: 97632684--97632726 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
97632674 ATGTTAGTAA
*
97632684 TAATAAAT-TAATGAAT
1 TAATAAATAAAATGAAT
97632700 TAAT-AATAAAATGAAT
1 TAATAAATAAAATGAAT
*
97632716 AAATAAATAAA
1 TAATAAATAAA
97632727 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 14 0.61
17 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAATGAAT
Found at i:97632963 original size:3 final size:3
Alignment explanation
Indices: 97632565--97632950 Score: 206
Period size: 3 Copynumber: 126.7 Consensus size: 3
97632555 GTAAATATAG
* *
97632565 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA -ATA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * *
97632610 TAA TAG TAA TAA -AA -AA TAGA GCAA CAAA TAA TAA TAA TAA TACA GTAA
1 TAA TAA TAA TAA TAA TAA TA-A -TAA -TAA TAA TAA TAA TAA TA-A -TAA
* * ** * *
97632658 TAA AAA TAA TAA CAA T-A TGT TAG TAA TAA TAA -AT TAA TGAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA
* * *
97632703 TAA TAA -AA TGAA TAAA TAAA TAA -ACA CAA AAA TAA -AA T-A TAA TTA
1 TAA TAA TAA T-AA T-AA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
97632748 TAA TAG TAA TAT TAA CAA AAA AAA GAA TCA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
97632796 TAA TGA TAA CAA TAA TAA TAA TAA TAA TAT TGA TAA TAA GTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* * * * * *
97632842 TAA -AA GGAA TAA AAA TAA TAG TAA TAA TAA GAA TATT TAA TAA TAG
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
*
97632888 TAA TAA TAA CAA TAA T-A TAAA TAA TAA TATA TACA TGAA -AA -AA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A T-AA TAA TAA TAA
97632934 TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
97632951 GCAAAAATAA
Statistics
Matches: 298, Mismatches: 57, Indels: 56
0.73 0.14 0.14
Matches are distributed among these distances:
2 25 0.08
3 229 0.77
4 39 0.13
5 5 0.02
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:97637184 original size:14 final size:14
Alignment explanation
Indices: 97637161--97637190 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
97637151 AAAATGTTGG
*
97637161 TTAAATTTCTTATA
1 TTAAACTTCTTATA
97637175 TTAAACTTCTTATA
1 TTAAACTTCTTATA
97637189 TT
1 TT
97637191 GATTGCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAACTTCTTATA
Found at i:97647165 original size:21 final size:21
Alignment explanation
Indices: 97647139--97647221 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
97647129 TGATCAGTAT
*
97647139 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
97647160 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
97647181 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
* *
97647203 TACGACACATATAGTGCCT
1 -ACGACACACAAAGTGCCT
97647222 GATCGATAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 34 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:97647189 original size:23 final size:22
Alignment explanation
Indices: 97647137--97647211 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
97647127 CCTGATCAGT
** *
97647137 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
97647158 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
97647179 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
97647202 ATACGACACA
1 ATACGACACA
97647212 TATAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:97647666 original size:15 final size:16
Alignment explanation
Indices: 97647643--97647672 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
97647633 ATTCTCCCTT
97647643 TTTCTTTTCTTTCTTC
1 TTTCTTTTCTTTCTTC
97647659 TTTC-TTTCTTTCTT
1 TTTCTTTTCTTTCTT
97647673 TCCGTCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTTCTTC
Found at i:97648790 original size:3 final size:3
Alignment explanation
Indices: 97648782--97648907 Score: 66
Period size: 3 Copynumber: 42.0 Consensus size: 3
97648772 TAGTGCCATT
* * * * * * *
97648782 ATA ATA ATA AAA ATA ATA ATA ACA AAA ATA ACA AT- ATG TTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
97648829 ATAA ATAA ATA ATG GTA ATA A-A TATA TATA A-A ATA ATA GTA A-A AGTA
1 AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA A-TA
97648876 ATA A-A ATAA ATA A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
97648908 CTCTCCCCCT
Statistics
Matches: 96, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
2 11 0.11
3 68 0.71
4 17 0.18
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:97648864 original size:35 final size:31
Alignment explanation
Indices: 97648825--97648903 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 31
97648815 ATATGTTACT
*
97648825 AATAATAAATAAATAATGGTAATAAATATATATAA
1 AATAAT-AAT-AATAAT-GTAATAAA-ATAAATAA
*
97648860 AATAATAGTAA-AA-GTAATAAAATAAATAA
1 AATAATAATAATAATGTAATAAAATAAATAA
97648889 AATAATAATAATAAT
1 AATAATAATAATAAT
97648904 AATACTCTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 17 0.44
30 10 0.26
32 2 0.05
33 2 0.05
34 2 0.05
35 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
AATAATAATAATAATGTAATAAAATAAATAA
Done.