Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 274 of 290
Found at i:87931193 original size:22 final size:23
Alignment explanation
Indices: 87931153--87931198 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
87931143 CACTTTTTAG
* *
87931153 AATAGTGCAGTCAAGCTGCTAGA
1 AATAATGCAGTCAAGCTGCCAGA
*
87931176 AATAATGCAGT-AATCTGCCAGA
1 AATAATGCAGTCAAGCTGCCAGA
87931198 A
1 A
87931199 CCAGATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
AATAATGCAGTCAAGCTGCCAGA
Found at i:87935212 original size:20 final size:20
Alignment explanation
Indices: 87935187--87935225 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
87935177 TGGAGCAGGA
*
87935187 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
87935207 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
87935226 AGGATTGATA
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:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:87937928 original size:27 final size:27
Alignment explanation
Indices: 87937878--87937933 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
87937868 GAAGTAACGA
* *
87937878 TATTCTGAATTATTATTAAATTATGAT
1 TATTCTGAATTATGATTAAATTATAAT
*
87937905 TATTCTGAATTCTGA-TAAATTTATAAT
1 TATTCTGAATTATGATTAAA-TTATAAT
87937932 TA
1 TA
87937934 AGTATTTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (27 bp):
TATTCTGAATTATGATTAAATTATAAT
Found at i:87938296 original size:44 final size:44
Alignment explanation
Indices: 87938233--87938320 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
87938223 GGCATGGAGC
87938233 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
1 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
*
87938277 TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
1 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
87938321 ATAGGATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (44 bp):
TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
Found at i:87940973 original size:16 final size:17
Alignment explanation
Indices: 87940952--87940985 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
87940942 TCATATTATA
87940952 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
87940968 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
87940985 T
1 T
87940986 TAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:87962977 original size:119 final size:119
Alignment explanation
Indices: 87962766--87963238 Score: 777
Period size: 119 Copynumber: 4.0 Consensus size: 119
87962756 AATTGAAGAC
* * *
87962766 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* *
87962830 TACAAGAAACGAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
65 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
87962885 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * *
87962950 ATAAGGAACAAATCGAGGACATAGCAGATTTGACTTTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
*
87963004 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCTAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
87963069 ACAAGAAACAAATCGAGGACATAGTAGATTTGACTCTCAAACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
* *
87963123 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTC
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * *
87963188 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
87963239 CAGACTCAAG
Statistics
Matches: 332, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
118 1 0.00
119 331 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
Found at i:87963403 original size:84 final size:83
Alignment explanation
Indices: 87963179--87963431 Score: 391
Period size: 83 Copynumber: 3.0 Consensus size: 83
87963169 ATTTGGTATT
87963179 CTTGTG-TTCACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGA
1 CTTGTGCTT-ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGA
* *
87963243 CTCAAGACGGTTTGGCATC
65 CTCAAGATGGTTTGACATC
* *
87963262 CTTGTGCTTACAAGGAAAAAATCAAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
1 CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
*
87963327 TCAAGATGGTTTAAACATC
66 TCAAGATGGTTT-GACATC
* * * *
87963346 CTTGTGCTTACAAGGAACAAGTCGAGGACCTTGTAGATATGACTCTCAAATGATCTCAAACAGAC
1 CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
*
87963411 TCAAGATGATTTGACATC
66 TCAAGATGGTTTGACATC
87963429 CTT
1 CTT
87963432 ACAAATCGAA
Statistics
Matches: 155, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
83 79 0.51
84 76 0.49
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (83 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
TCAAGATGGTTTGACATC
Found at i:87964973 original size:16 final size:17
Alignment explanation
Indices: 87964952--87964985 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
87964942 TCATATTATA
87964952 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
87964968 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
87964985 T
1 T
87964986 TAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:87965166 original size:46 final size:41
Alignment explanation
Indices: 87965115--87965209 Score: 100
Period size: 46 Copynumber: 2.2 Consensus size: 41
87965105 ATGTGTTACT
* *
87965115 TTATATTATATCTATTATTTTTCTTATATGTTTATATTACATTTTA
1 TTATATAATATCTATTATGTTTC--AT-T-TTTATATTAC-TTTTA
* * *
87965161 TTATATAATCTTTATTATGTTTCATTTTTATATTACTTTTT
1 TTATATAATATCTATTATGTTTCATTTTTATATTACTTTTA
87965202 TTATATAA
1 TTATATAA
87965210 ATGTTATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 12 0.27
42 10 0.23
43 1 0.02
44 2 0.05
46 19 0.43
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.63
Consensus pattern (41 bp):
TTATATAATATCTATTATGTTTCATTTTTATATTACTTTTA
Found at i:87967707 original size:47 final size:47
Alignment explanation
Indices: 87967638--87967759 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 47
87967628 GTGTCGATGC
**
87967638 CATGTCCTAGGCATGGTCTTACACTGGCTCAT-ATCTC-AAGTCGGTGG
1 CATGTCCTAGGCATGGTCTTACACTGGCT-ATCATCTCGAAGTCAAT-G
* * * *
87967685 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGTCAATG
1 CATGTCCTAGGCATGGTCTTACACTGGCTATCATCTCGAAGTCAATG
87967732 CATGTCCTAGGCAT-GTCTTACACTGGCT
1 CATGTCCTAGGCATGGTCTTACACTGGCT
87967760 TACGTCTCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 15 0.23
47 44 0.69
48 5 0.08
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (47 bp):
CATGTCCTAGGCATGGTCTTACACTGGCTATCATCTCGAAGTCAATG
Found at i:87967779 original size:46 final size:46
Alignment explanation
Indices: 87967632--87967853 Score: 148
Period size: 46 Copynumber: 4.7 Consensus size: 46
87967622 GGTAAGGTGT
* * * * *
87967632 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATG-CATGTCCTAGACATGGTCTTACACTGGCTTACATCTCGAGC
* * * *
87967679 CGGTGGCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGT
1 CGAT-GCATGTCCTAGACATGGTCTTACACTGGCTTA-CATCTCG-AGC
* * *
87967727 CAATGCATGTCCTAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCTAGACATGGTCTTACACTGGCTTACATCTCGA-GC
* * * * *
87967773 CGATGCATGTTCC-AGAC-TTGTCTTACAGTAGCTCT-CGTCTCAATGC
1 CGATGCATG-TCCTAGACATGGTCTTACACTGGCT-TACATCTCGA-GC
* * *
87967819 CGATGCCATGTCCCAGAAATGGTGTTACACTGGCT
1 CGATG-CATGTCCTAGACATGGTCTTACACTGGCT
87967854 CTCATAATGT
Statistics
Matches: 139, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.01
46 60 0.43
47 59 0.42
48 18 0.13
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGGTCTTACACTGGCTTACATCTCGAGC
Found at i:87967829 original size:93 final size:95
Alignment explanation
Indices: 87967632--87967854 Score: 215
Period size: 93 Copynumber: 2.4 Consensus size: 95
87967622 GGTAAGGTGT
* * *
87967632 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCATATCTCAAGTCGGTGGCATGTCCCAGAC
1 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCACATCTCAAGCCGATGGCATGTCCCAGAC
* *
87967697 ATGGTCTTACACTGACTATCATCTCGTAGT
66 ATGGTCTTACACTGACTATCATCTCATAGC
* * * * *
87967727 CAATG-CATGTCCTAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGCCGAT-GCATGTTCCAGA
1 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCACATCTC-AAGCCGATGGCATGTCCCAGA
* * * *
87967789 C-TTGTCTTACAGT-AGCTCTCGTCTCA-ATGC
65 CATGGTCTTACACTGA-CTATCATCTCATA-GC
* ** *
87967819 CGATGCCATGTCCCAGAAATGGTGTTACACTGGCTC
1 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTC
87967855 TCATAATGTG
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
91 2 0.02
92 23 0.22
93 42 0.41
94 32 0.31
95 4 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCACATCTCAAGCCGATGGCATGTCCCAGAC
ATGGTCTTACACTGACTATCATCTCATAGC
Found at i:87970215 original size:22 final size:23
Alignment explanation
Indices: 87970183--87970227 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
87970173 CTCAAAATTT
* *
87970183 AATAATAATTTTTTTAAAAAATA
1 AATAATAATTTATATAAAAAATA
87970206 AATAAT-ATTTATATAAAAAATA
1 AATAATAATTTATATAAAAAATA
87970228 TTAAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AATAATAATTTATATAAAAAATA
Found at i:87970620 original size:2 final size:2
Alignment explanation
Indices: 87970613--87970641 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87970603 ATATGTTTTA
87970613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87970642 AAATTCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87970867 original size:24 final size:24
Alignment explanation
Indices: 87970823--87970868 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
87970813 TTAATCTTAA
*
87970823 AATTTAATAAAATAATAAAAATAT
1 AATTTAATAAAAAAATAAAAATAT
*
87970847 AATTT-ATAGAAAAAATTAAAAT
1 AATTTAATA-AAAAAATAAAAAT
87970869 GTGAACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTAATAAAAAAATAAAAATAT
Found at i:87971480 original size:12 final size:13
Alignment explanation
Indices: 87971456--87971484 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
87971446 CTTTGCGCCT
87971456 AAAAATCAGTAGA
1 AAAAATCAGTAGA
87971469 AAAAATCA-TAGA
1 AAAAATCAGTAGA
87971481 AAAA
1 AAAA
87971485 TAGAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (13 bp):
AAAAATCAGTAGA
Found at i:87972308 original size:11 final size:11
Alignment explanation
Indices: 87972292--87972331 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
87972282 TATTTACCAG
87972292 AAAAATAAGAT
1 AAAAATAAGAT
*
87972303 AAAAATAACA-
1 AAAAATAAGAT
*
87972313 AAAGATAAGAT
1 AAAAATAAGAT
87972324 AAAAATAA
1 AAAAATAA
87972332 CCAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAATAAGAT
Found at i:87972349 original size:22 final size:21
Alignment explanation
Indices: 87972292--87972342 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
87972282 TATTTACCAG
87972292 AAAA-ATAAGATAAAAATAAC
1 AAAAGATAAGATAAAAATAAC
87972312 AAAAGATAAGATAAAAATAACC
1 AAAAGATAAGATAAAAATAA-C
*
87972334 AAAATATAA
1 AAAAGATAA
87972343 CTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAAGATAAGATAAAAATAAC
Found at i:87972565 original size:25 final size:25
Alignment explanation
Indices: 87972537--87972587 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
87972527 TCATATGTTA
*
87972537 AATAGATATTTATTCAAAATTGAAT
1 AATAGATATTTATTCAAAAATGAAT
* * *
87972562 AATAGATTTTTTTTTAAAAATGAAT
1 AATAGATATTTATTCAAAAATGAAT
87972587 A
1 A
87972588 GTGTTTATAT
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:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
AATAGATATTTATTCAAAAATGAAT
Found at i:87977203 original size:18 final size:18
Alignment explanation
Indices: 87977180--87977222 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
87977170 CTCTACTATG
**
87977180 AATTAATATAATTTTAAT
1 AATTAATATAATAATAAT
*
87977198 AATTAATTTAATAATAAT
1 AATTAATATAATAATAAT
87977216 AA-TAATA
1 AATTAATA
87977223 ATAAATGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAATATAATAATAAT
Found at i:87981196 original size:35 final size:38
Alignment explanation
Indices: 87981154--87981227 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 38
87981144 TGAATCAAAG
87981154 TTAATTGGT-TCATGTAA-C-AAAA-AAAAAAGAGTTAA
1 TTAATTGGTCT-ATGTAACCAAAAAGAAAAAAGAGTTAA
87981189 TTAATTGGTCTATGTAACCAAAAAGAAAAAAGAGTTAA
1 TTAATTGGTCTATGTAACCAAAAAGAAAAAAGAGTTAA
87981227 T
1 T
87981228 GGTTTCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
35 15 0.43
36 2 0.06
37 4 0.11
38 14 0.40
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (38 bp):
TTAATTGGTCTATGTAACCAAAAAGAAAAAAGAGTTAA
Found at i:87983575 original size:17 final size:17
Alignment explanation
Indices: 87983549--87983594 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
87983539 CTCATATTTG
87983549 ATTTTTTAAAATTAT-T
1 ATTTTTTAAAATTATAT
* *
87983565 TTTTATTTAAAAATATAT
1 ATTT-TTTAAAATTATAT
87983583 ATTTTTTAAAAT
1 ATTTTTTAAAAT
87983595 ATAATACACT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 3 0.12
17 17 0.71
18 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTAAAATTATAT
Found at i:87983730 original size:39 final size:41
Alignment explanation
Indices: 87983639--87983730 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 41
87983629 TCACACATTA
*
87983639 AAAATATCTATATTAAAAAAAAAATTACCATAAATATGATAAAT
1 AAAATAT-TATATTAAAAAAAAAA-TA-CATAAATATAATAAAT
** *
87983683 AATTTATTATATTAAAAAACAAA-A-ATAAATATAATAAAT
1 AAAATATTATATTAAAAAAAAAATACATAAATATAATAAAT
87983722 AAAATATTA
1 AAAATATTA
87983731 AAAAAATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
39 21 0.50
41 1 0.02
43 15 0.36
44 5 0.12
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (41 bp):
AAAATATTATATTAAAAAAAAAATACATAAATATAATAAAT
Found at i:87984551 original size:12 final size:11
Alignment explanation
Indices: 87984529--87984567 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
87984519 AAAATTATTT
87984529 AATTT-TTTTG
1 AATTTATTTTG
87984539 AAATTTATTTTG
1 -AATTTATTTTG
87984551 AATTTATTTTG
1 AATTTATTTTG
87984562 TAATTT
1 -AATTT
87984568 TTGATGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
AATTTATTTTG
Found at i:87984733 original size:14 final size:14
Alignment explanation
Indices: 87984714--87984741 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87984704 CTGACTTGAA
87984714 TAATTCGATTAACT
1 TAATTCGATTAACT
87984728 TAATTCGATTAACT
1 TAATTCGATTAACT
87984742 CAAAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATTCGATTAACT
Found at i:87989860 original size:24 final size:24
Alignment explanation
Indices: 87989833--87989884 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87989823 TTAGTAAGTC
*
87989833 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
87989857 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
87989881 AAAT
1 AAAT
87989885 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:87991822 original size:24 final size:24
Alignment explanation
Indices: 87991795--87991846 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87991785 TTAGTAAGTC
*
87991795 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
87991819 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
87991843 AAAT
1 AAAT
87991847 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:87993093 original size:16 final size:18
Alignment explanation
Indices: 87993059--87993095 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
87993049 CGATTTAATT
87993059 TAAAATATAAAATTATTA
1 TAAAATATAAAATTATTA
*
87993077 TAAAATA-ATAATT-TTA
1 TAAAATATAAAATTATTA
87993093 TAA
1 TAA
87993096 TATTAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATATAAAATTATTA
Found at i:87994353 original size:17 final size:16
Alignment explanation
Indices: 87994317--87994355 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
87994307 ATAGACTCTT
87994317 TTACAACATTAAAAAA
1 TTACAACATTAAAAAA
87994333 -TACACACATTAAAAAA
1 TTACA-ACATTAAAAAA
87994349 TTACAAC
1 TTACAAC
87994356 TCATAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 4 0.19
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (16 bp):
TTACAACATTAAAAAA
Found at i:88000675 original size:3 final size:3
Alignment explanation
Indices: 88000661--88000698 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
88000651 TTTCTGACTT
*
88000661 TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
88000699 TCTCTCCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:88003634 original size:24 final size:24
Alignment explanation
Indices: 88003606--88003653 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88003596 TAAAAGATTG
* *
88003606 AGTATTTATTAGTATAATATATTT
1 AGTATTCATTAGCATAATATATTT
*
88003630 AGTATTCATTAGCATAATTTATTT
1 AGTATTCATTAGCATAATATATTT
88003654 GACCTACGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
AGTATTCATTAGCATAATATATTT
Found at i:88012460 original size:20 final size:22
Alignment explanation
Indices: 88012431--88012472 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
88012421 GAGCAGCCCA
88012431 CCGGAGAAG-CCCATTGACCAC
1 CCGGAGAAGCCCCATTGACCAC
*
88012452 CCGGA-AAGCCCCTTTGACCAC
1 CCGGAGAAGCCCCATTGACCAC
88012473 TACTTTAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.26, C:0.40, G:0.21, T:0.12
Consensus pattern (22 bp):
CCGGAGAAGCCCCATTGACCAC
Found at i:88017049 original size:19 final size:19
Alignment explanation
Indices: 88017022--88017065 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
88017012 TTTCTCGTTG
*
88017022 TTAGCGAGAAAAGGATTTA
1 TTAGTGAGAAAAGGATTTA
88017041 TTAGTGAGAAAAGGATTTA
1 TTAGTGAGAAAAGGATTTA
88017060 TTAGTG
1 TTAGTG
88017066 GTGTATTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (19 bp):
TTAGTGAGAAAAGGATTTA
Found at i:88020178 original size:6 final size:6
Alignment explanation
Indices: 88020139--88020177 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
88020129 TTTTACATCA
*
88020139 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATATAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATA
88020178 TTTTTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATAAAT
Found at i:88025755 original size:3 final size:3
Alignment explanation
Indices: 88025747--88025778 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
88025737 TCTAAGAATT
88025747 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
88025779 CAGCAGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:88027075 original size:10 final size:10
Alignment explanation
Indices: 88027059--88027091 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
88027049 AGGGAAGAAG
88027059 AAAAGAAAAA
1 AAAAGAAAAA
*
88027069 TAAAGAAAAA
1 AAAAGAAAAA
88027079 AAAAGAAAAA
1 AAAAGAAAAA
88027089 AAA
1 AAA
88027092 TAAATTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:88030025 original size:12 final size:12
Alignment explanation
Indices: 88030008--88030032 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88029998 GGATACTCGA
88030008 TTTTTTATTAAT
1 TTTTTTATTAAT
88030020 TTTTTTATTAAT
1 TTTTTTATTAAT
88030032 T
1 T
88030033 GAATTGGTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTATTAAT
Found at i:88030195 original size:23 final size:23
Alignment explanation
Indices: 88030169--88030217 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
88030159 ATTATATGTG
* *
88030169 TATAATAATATATAAAAAAACAA
1 TATAATAAGAAATAAAAAAACAA
* *
88030192 TATATTAAGAAATAAAAAAATAA
1 TATAATAAGAAATAAAAAAACAA
88030215 TAT
1 TAT
88030218 CCTTGTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
TATAATAAGAAATAAAAAAACAA
Found at i:88030681 original size:9 final size:9
Alignment explanation
Indices: 88030667--88030780 Score: 56
Period size: 10 Copynumber: 12.3 Consensus size: 9
88030657 ACATGTGACA
88030667 AAAAATTAT
1 AAAAATTAT
88030676 -AAAA--AT
1 AAAAATTAT
*
88030682 AAAAATAAAT
1 AAAAAT-TAT
88030692 AAAAATTAT
1 AAAAATTAT
* *
88030701 TAAATTTCAAT
1 AAAAATT--AT
88030712 AAAAA-TAT
1 AAAAATTAT
*
88030720 AAAAATATTT
1 AAAAAT-TAT
*
88030730 AAAATTTACT
1 AAAAATTA-T
* *
88030740 AAAAAATAG
1 AAAAATTAT
*
88030749 AAAAAATAT
1 AAAAATTAT
*
88030758 AAAAATCAT
1 AAAAATTAT
88030767 AAAATAATTAT
1 -AAA-AATTAT
88030778 AAA
1 AAA
88030781 TTTGTCAAAT
Statistics
Matches: 79, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
6 2 0.03
7 4 0.05
8 11 0.14
9 23 0.29
10 29 0.37
11 10 0.13
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:88030742 original size:28 final size:29
Alignment explanation
Indices: 88030679--88030761 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
88030669 AAATTATAAA
88030679 AATAAAAATAAATAAAAAT-TATT-AAATTTC
1 AATAAAAAT--ATAAAAATAT-TTAAAATTTC
88030709 AATAAAAATATAAAAATATTTAAAATTT-
1 AATAAAAATATAAAAATATTTAAAATTTC
* * *
88030737 ACTAAAAA-ATAGAAAAAATATAAAA
1 AATAAAAATATA-AAAATATTTAAAA
88030762 ATCATAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.06
28 28 0.60
29 7 0.15
30 9 0.19
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (29 bp):
AATAAAAATATAAAAATATTTAAAATTTC
Found at i:88034536 original size:22 final size:22
Alignment explanation
Indices: 88034511--88034556 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
88034501 ACAAATTGAT
*
88034511 ATTAGTGAGTCAAAAGTAAAAA
1 ATTAGTGAGTCAAAAATAAAAA
*
88034533 ATTAGTGATTCAAAAATAAAAA
1 ATTAGTGAGTCAAAAATAAAAA
88034555 AT
1 AT
88034557 CAGTAACCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (22 bp):
ATTAGTGAGTCAAAAATAAAAA
Found at i:88034953 original size:7 final size:7
Alignment explanation
Indices: 88034942--88034975 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
88034932 CTTAAAACAT
88034942 AAAAATA
1 AAAAATA
*
88034949 GAAAATA
1 AAAAATA
*
88034956 GAAAATA
1 AAAAATA
88034963 AAAAATA
1 AAAAATA
88034970 AAAAAT
1 AAAAAT
88034976 CTGAGTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:88035149 original size:19 final size:20
Alignment explanation
Indices: 88035117--88035160 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
88035107 CGGAAAATGA
*
88035117 TTTCTAGAAAATGATTTATT
1 TTTCTAGAAAATGATTTACT
88035137 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATGATTTACT
88035156 TTTCT
1 TTTCT
88035161 GGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:88035226 original size:17 final size:17
Alignment explanation
Indices: 88035204--88035237 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88035194 ATTGTTTGGC
88035204 AGATTTCCTGAAAATAT
1 AGATTTCCTGAAAATAT
88035221 AGATTTCCTGAAAATAT
1 AGATTTCCTGAAAATAT
88035238 TTTCCGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
AGATTTCCTGAAAATAT
Found at i:88035297 original size:33 final size:34
Alignment explanation
Indices: 88035251--88035314 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
88035241 CCGGAAAAGC
*
88035251 TGTTTTTATATATATT--AATAAATTTATTTAAAT
1 TGTTTTTACATATATTACAAT-AATTTATTTAAAT
88035284 TGTTTTTACATATATTACAATAATTTATTTA
1 TGTTTTTACATATATTACAATAATTTATTTA
88035315 TAAATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 15 0.54
34 10 0.36
35 3 0.11
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (34 bp):
TGTTTTTACATATATTACAATAATTTATTTAAAT
Found at i:88035530 original size:30 final size:30
Alignment explanation
Indices: 88035494--88035553 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
88035484 ATTTTTGGAC
*
88035494 TAAAGTTCATACCAGACAATAATATACAAA
1 TAAAGTTCAGACCAGACAATAATATACAAA
88035524 TAAAGTTCAGACCAGACAATAATATACAAA
1 TAAAGTTCAGACCAGACAATAATATACAAA
88035554 GAATGAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.22
Consensus pattern (30 bp):
TAAAGTTCAGACCAGACAATAATATACAAA
Found at i:88041436 original size:30 final size:30
Alignment explanation
Indices: 88041355--88041440 Score: 100
Period size: 36 Copynumber: 2.7 Consensus size: 30
88041345 TAAAATATCA
88041355 ATAATATCGATAGGTTGATATTTATGGTTG
1 ATAATATCGATAGGTTGATATTTATGGTTG
* *
88041385 ATAAAAAAATGAACTATAGGTTGATATTTATGGTTG
1 AT-----AAT-ATCGATAGGTTGATATTTATGGTTG
88041421 ATAATATCGATAGGTTGATA
1 ATAATATCGATAGGTTGATA
88041441 AAATGAACGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
30 15 0.33
31 3 0.07
35 3 0.07
36 25 0.54
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
ATAATATCGATAGGTTGATATTTATGGTTG
Found at i:88046015 original size:23 final size:23
Alignment explanation
Indices: 88045988--88046046 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
88045978 ACTTAATAAT
*
88045988 AATCATATAACCAGAATGACACA
1 AATCATATAACCAGAACGACACA
* *
88046011 GATCACATAACCAGAACGACACA
1 AATCATATAACCAGAACGACACA
*
88046034 AATCGTATAACCA
1 AATCATATAACCA
88046047 AAAGAGAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.49, C:0.25, G:0.10, T:0.15
Consensus pattern (23 bp):
AATCATATAACCAGAACGACACA
Found at i:88048018 original size:12 final size:12
Alignment explanation
Indices: 88047995--88048029 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
88047985 ACAGACCTAT
88047995 AAAAAAGAAAAAG
1 AAAAAAG-AAAAG
88048008 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
88048020 AAAAAGGAAA
1 AAAAAAGAAA
88048030 GAGGAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:88049092 original size:6 final size:6
Alignment explanation
Indices: 88049077--88049113 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
88049067 TTTAAAATTC
88049077 AATA-A AATATA AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AATATA AATATA AA
88049114 CAAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AATATA
Found at i:88049104 original size:18 final size:17
Alignment explanation
Indices: 88049077--88049118 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
88049067 TTTAAAATTC
88049077 AATAAAATATAAATATA
1 AATAAAATATAAATATA
88049094 AATATAAATATAAATATA
1 AATA-AAATATAAATATA
*
88049112 AACAAAA
1 AATAAAA
88049119 AAATTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
AATAAAATATAAATATA
Found at i:88050574 original size:10 final size:10
Alignment explanation
Indices: 88050545--88050576 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
88050535 TAATTTATGG
*
88050545 TACAAATTGG
1 TACAAATTGA
88050555 TACAAATTGA
1 TACAAATTGA
88050565 TACAAATTGA
1 TACAAATTGA
88050575 TA
1 TA
88050577 ATAGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (10 bp):
TACAAATTGA
Found at i:88050610 original size:26 final size:26
Alignment explanation
Indices: 88050572--88050655 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
88050562 TGATACAAAT
* *
88050572 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
88050598 TCATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88050624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88050650 TGATAA
1 TGATAA
88050656 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:88052172 original size:26 final size:26
Alignment explanation
Indices: 88052143--88052195 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
88052133 TTTACAGTTT
88052143 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
88052169 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
88052195 T
1 T
88052196 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:88054187 original size:7 final size:7
Alignment explanation
Indices: 88054175--88054199 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88054165 TTGGACAAAT
88054175 TTTTATA
1 TTTTATA
88054182 TTTTATA
1 TTTTATA
88054189 TTTTATA
1 TTTTATA
88054196 TTTT
1 TTTT
88054200 TTAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:88059196 original size:26 final size:27
Alignment explanation
Indices: 88059148--88059202 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
88059138 CTTAATATTT
* *
88059148 AAGTAAATATATATAATATAATAA-TA
1 AAGTAAATATATATAAAAAAATAAGTA
88059174 AAGTAAATATA-ATAAAACAAATAAGTA
1 AAGTAAATATATATAAAA-AAATAAGTA
88059201 AA
1 AA
88059203 TGAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAGTAAATATATATAAAAAAATAAGTA
Found at i:88059199 original size:22 final size:23
Alignment explanation
Indices: 88059147--88059211 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 23
88059137 ACTTAATATT
88059147 TAAGTAAATATATATAATATAATAA
1 TAAGTAAATATA-ATAA-ATAATAA
88059172 TAAAGTAAATATAATAAA-ACA-AA
1 T-AAGTAAATATAATAAATA-ATAA
88059195 TAAGTAAATGA-AATAAA
1 TAAGTAAAT-ATAATAAA
88059212 GAAAGACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 14 0.38
23 5 0.14
24 2 0.05
25 5 0.14
26 11 0.30
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (23 bp):
TAAGTAAATATAATAAATAATAA
Found at i:88059949 original size:5 final size:5
Alignment explanation
Indices: 88059921--88059967 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
88059911 CACTTTGATT
* *
88059921 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA ATTGA AT
88059968 ATATGTGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 31 0.86
6 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (5 bp):
ATTGA
Found at i:88063827 original size:18 final size:18
Alignment explanation
Indices: 88063794--88063828 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
88063784 AAAAATGGAT
88063794 TTTTATTTTTTCTTTTCC
1 TTTTATTTTTTCTTTTCC
88063812 TTTT-TTTTTTCATTTTC
1 TTTTATTTTTTC-TTTTC
88063829 GGATATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTATTTTTTCTTTTCC
Found at i:88077590 original size:44 final size:44
Alignment explanation
Indices: 88077542--88077905 Score: 493
Period size: 44 Copynumber: 8.2 Consensus size: 44
88077532 CTCAGGAACA
* * * *
88077542 CCAAATTTGCTATCTGCGATTTGCTCTCCGCCAATACATAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88077586 CCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88077630 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAAAAACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88077674 CCAAAT-TACTA-CTTTCGATCTGCTCT-CGCCAATACAGAGACG
1 CCAAATCTGCTATC-TTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88077716 CCAAATCTGCTATCTTCGATCTGCTCTTCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88077760 CCAAATCTGCTACCTTCGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88077804 CCGAATCTGCCT-TACTTTCGATCTGCTCTTCCGCCAATACAGAGACG
1 CCAAATCTG-CTAT-C-TTCGATCTGCTC-TCCGCCAATACAGAGACG
* * * *
88077851 CCAAATCTGTTATCTTTTGATCTGCTCTCCACCAATACAGAGATG
1 CCAAATCTGCTATC-TTCGATCTGCTCTCCGCCAATACAGAGACG
88077896 CCAAATCTGC
1 CCAAATCTGC
88077906 AAATTTACCA
Statistics
Matches: 285, Mismatches: 26, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
42 21 0.07
43 34 0.12
44 150 0.53
45 28 0.10
46 26 0.09
47 26 0.09
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
Found at i:88077718 original size:130 final size:134
Alignment explanation
Indices: 88077558--88077905 Score: 524
Period size: 130 Copynumber: 2.6 Consensus size: 134
88077548 TTGCTATCTG
* *
88077558 CGATTTGCTCTCCGCCAATACATAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATAC
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATAC
*
88077623 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAAAAACGCCAAAT-T-AC-TA
66 AGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCCGCCAATACAAAAACGCCAAATCTGACTTA
88077685 CTTT
131 CTTT
* * *
88077689 CGATCTGCTCT-CGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTTCGCCACTAC
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATAC
* * * * *
88077753 AGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTGCCAATACAGAGACGCCGAATCTGCCTTA
66 AGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCCGCCAATACAAAAACGCCAAATCTGACTTA
88077818 CTTT
131 CTTT
* *
88077822 CGATCTGCTCTTCCGCCAATACAGAGACGCCAAATCTGTTATCTTTTGATCTGCTCTCCACCAAT
1 CGATCTGCTC-TCCGCCAATACAGAGACGCCAAATCTGCTATC-TTTGATCTGCTCTCCGCCAAT
*
88077887 ACAGAGATGCCAAATCTGC
64 ACAGAGACGCCAAATCTGC
88077906 AAATTTACCA
Statistics
Matches: 194, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
130 101 0.52
131 11 0.06
132 1 0.01
133 16 0.08
134 1 0.01
135 29 0.15
136 35 0.18
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (134 bp):
CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATAC
AGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCCGCCAATACAAAAACGCCAAATCTGACTTA
CTTT
Found at i:88087687 original size:36 final size:36
Alignment explanation
Indices: 88087647--88087726 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
88087637 ATACATATAA
* *
88087647 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATACGT
* *
88087683 ATATAGATATATATAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAGAAAAATGAGTATACGT
88087719 ATATATAT
1 ATATATAT
88087727 TAAACAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.36
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATACGT
Found at i:88087799 original size:22 final size:23
Alignment explanation
Indices: 88087773--88087821 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
88087763 TACAAGCACT
*
88087773 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
88087795 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
88087819 TAT
1 TAT
88087822 GAATAGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATATTGAAAATACATAAGTATA
Found at i:88087866 original size:3 final size:3
Alignment explanation
Indices: 88087855--88087907 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
88087845 CAATAATACC
* * *
88087855 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
88087900 AAT AAT AA
1 AAT AAT AA
88087908 AGTTAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:88099796 original size:72 final size:72
Alignment explanation
Indices: 88099679--88099826 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
88099669 AAAACAAAAG
88099679 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
88099744 AACATGA
66 AACATGA
*
88099751 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATATATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
*
88099816 AATATGA
66 AACATGA
88099823 AAAT
1 AAAT
88099827 ATATAGCCTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (72 bp):
AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
AACATGA
Found at i:88102705 original size:21 final size:20
Alignment explanation
Indices: 88102645--88102705 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 20
88102635 TTTTATAAAG
*
88102645 TTGTAAAA-AATATAAAAAAA
1 TTGTAAAAGAATAT-AAAAAT
*
88102665 TTG-CAAAGAA-ATATAAAAT
1 TTGTAAAAGAATATA-AAAAT
88102684 TTGTAAAAGAATTATAAAAAT
1 TTGTAAAAGAA-TATAAAAAT
88102705 T
1 T
88102706 ATCATATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 11 0.33
21 6 0.18
22 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (20 bp):
TTGTAAAAGAATATAAAAAT
Found at i:88102931 original size:9 final size:9
Alignment explanation
Indices: 88102909--88102989 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
88102899 TATTTATAAT
*
88102909 TTTTTTACA
1 TTTTTTATA
88102918 TTTTTTTATA
1 -TTTTTTATA
88102928 TTTTTGTATGA
1 TTTTT-TAT-A
88102939 -TTTTTATA
1 TTTTTTATA
88102947 TTTTTCTA-A
1 TTTTT-TATA
*
88102956 TTTTTAGTAAA
1 TTTTT--TATA
**
88102967 TTTTAAATA
1 TTTTTTATA
88102976 TTTTTTATA
1 TTTTTTATA
88102985 TTTTT
1 TTTTT
88102990 ATTGAAGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 32 0.55
10 19 0.33
11 6 0.10
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTTTTATA
Found at i:88102941 original size:11 final size:10
Alignment explanation
Indices: 88102907--88102989 Score: 50
Period size: 10 Copynumber: 8.6 Consensus size: 10
88102897 AATATTTATA
* *
88102907 ATTTTTTTAC
1 ATTTTTGTAT
*
88102917 ATTTTTTTAT
1 ATTTTTGTAT
88102927 ATTTTTGTAT
1 ATTTTTGTAT
88102937 GA-TTTT-TAT
1 -ATTTTTGTAT
*
88102946 ATTTTTCTA-
1 ATTTTTGTAT
88102955 ATTTTTAGTA-
1 ATTTTT-GTAT
* **
88102965 AATTTTAAAT
1 ATTTTTGTAT
88102975 ATTTTT-TAT
1 ATTTTTGTAT
88102984 ATTTTT
1 ATTTTT
88102990 ATTGAAGTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.02
9 22 0.37
10 36 0.60
11 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (10 bp):
ATTTTTGTAT
Found at i:88102943 original size:29 final size:28
Alignment explanation
Indices: 88102910--88102990 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
88102900 ATTTATAATT
*
88102910 TTTTTACATTTTTTTATATTTTT-GTATGA
1 TTTTTAAATTTTTTTATATTTTTAGTA--A
* *
88102939 TTTTTATATTTTTCTA-ATTTTTAGTAA
1 TTTTTAAATTTTTTTATATTTTTAGTAA
*
88102966 ATTTTAAATATTTTTTATATTTTTA
1 TTTTTAAAT-TTTTTTATATTTTTA
88102991 TTGAAGTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.18
28 12 0.27
29 24 0.55
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTTTAAATTTTTTTATATTTTTAGTAA
Found at i:88103003 original size:28 final size:28
Alignment explanation
Indices: 88102911--88103016 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 28
88102901 TTTATAATTT
*
88102911 TTTTACAT-TTTTTTATATTTTTGTATG-A
1 TTTTA-ATATTTTTTATATTTTTAT-TGAA
* * *
88102939 TTTTTATATTTTTCTA-ATTTTTAGTAAA
1 TTTTAATATTTTT-TATATTTTTATTGAA
88102967 TTTTAAATATTTTTTATATTTTTATTGAA
1 TTTT-AATATTTTTTATATTTTTATTGAA
* * *
88102996 GTTTAATATTTTATAAATTTT
1 TTTTAATATTTTTTATATTTT
88103017 ATTTTTTTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
27 3 0.05
28 37 0.59
29 23 0.37
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTAATATTTTTTATATTTTTATTGAA
Found at i:88106571 original size:49 final size:52
Alignment explanation
Indices: 88106495--88106633 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 52
88106485 ACACACCGCA
* * ** *
88106495 GCTCT-TATGAGCGTCCCGAT-ATATGGCTCTCTGGAGCTTTC-CG-TTTATG
1 GCTCTCTATGAGCTTCCCAATAAT-TGGCTCTCTGGAGCTTTCTCGATAAAAG
* *
88106544 GCT-TGTATGAGCTTCCCAATAATTGGCTCTCTAGAGC-TTCTCGATAAAAG
1 GCTCTCTATGAGCTTCCCAATAATTGGCTCTCTGGAGCTTTCTCGATAAAAG
88106594 GCTCTCTCATGAGCTTCCCAATTAA-TGGCTCTCTGGAGCT
1 GCTCTCT-ATGAGCTTCCCAA-TAATTGGCTCTCTGGAGCT
88106634 ACCCAATATT
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
48 4 0.05
49 31 0.42
50 8 0.11
51 2 0.03
52 26 0.35
53 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (52 bp):
GCTCTCTATGAGCTTCCCAATAATTGGCTCTCTGGAGCTTTCTCGATAAAAG
Found at i:88106580 original size:25 final size:25
Alignment explanation
Indices: 88106552--88106648 Score: 99
Period size: 25 Copynumber: 3.8 Consensus size: 25
88106542 TGGCTTGTAT
88106552 GAGCTTCCCAATAATTGGCTCTCTA
1 GAGCTTCCCAATAATTGGCTCTCTA
* * **
88106577 GAGCTTCTCGATAAAAGGCTCTCTCA
1 GAGCTTCCCAATAATTGGCTCTCT-A
*
88106603 TGAGCTTCCCAATTAA-TGGCTCTCTG
1 -GAGCTTCCCAA-TAATTGGCTCTCTA
*
88106629 GAGCTACCCAAT-ATTGGCTC
1 GAGCTTCCCAATAATTGGCTC
88106649 ACATGAGCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 7 0.12
25 30 0.51
26 1 0.02
27 17 0.29
28 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCAATAATTGGCTCTCTA
Found at i:88106656 original size:24 final size:25
Alignment explanation
Indices: 88106601--88106657 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
88106591 AAGGCTCTCT
* *
88106601 CATGAGCTTCCCAATTAATGGCTCT
1 CATGAGCTACCCAATTAATGGCTCA
*
88106626 C-TGGAGCTACCCAA-TATTGGCTCA
1 CAT-GAGCTACCCAATTAATGGCTCA
88106650 CATGAGCT
1 CATGAGCT
88106658 TCTTGTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (25 bp):
CATGAGCTACCCAATTAATGGCTCA
Found at i:88106672 original size:25 final size:25
Alignment explanation
Indices: 88106643--88106698 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
88106633 TACCCAATAT
*
88106643 TGGCTCACATGAGCTTCTTGTCATA
1 TGGCTCACATGAGCTTCTTATCATA
*
88106668 TGGCTCACATGAGCTTCTTATTATA
1 TGGCTCACATGAGCTTCTTATCATA
88106693 TGGCTC
1 TGGCTC
88106699 GAAAGGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCTTATCATA
Found at i:88116007 original size:76 final size:77
Alignment explanation
Indices: 88115915--88116101 Score: 216
Period size: 76 Copynumber: 2.4 Consensus size: 77
88115905 ACAAGTAACT
* ** * *
88115915 CGAGAATCTACAACAAGGCTAGATCTCATTATATTACCTGAGAATTTGCAATA-AGGCTAGACCT
1 CGAGAATCTAAAACAAGGCTAGATCTCATTATATTACAGGAGAATCTACAATATAGGCTAGACCT
*
88115979 CGTTATATTACC
66 CGTTACATTACC
* * * * *
88115991 CGAGAATCTAAAACAAGGCTAGACCTTATTATATTATAGGAGAATCTACAATATATGCTAGATCT
1 CGAGAATCTAAAACAAGGCTAGATCTCATTATATTACAGGAGAATCTACAATATAGGCTAGACCT
88116056 CGTTACATTACC
66 CGTTACATTACC
* * *
88116068 CAAGAATCTACAATA-AATGCTAGATCTCGTTATA
1 CGAGAATCTA-AA-ACAAGGCTAGATCTCATTATA
88116102 ATCTATACAA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
76 45 0.49
77 29 0.32
78 17 0.18
79 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (77 bp):
CGAGAATCTAAAACAAGGCTAGATCTCATTATATTACAGGAGAATCTACAATATAGGCTAGACCT
CGTTACATTACC
Found at i:88116074 original size:39 final size:38
Alignment explanation
Indices: 88115915--88116101 Score: 194
Period size: 38 Copynumber: 4.9 Consensus size: 38
88115905 ACAAGTAACT
* *
88115915 CGAGAATCTACAACAAGGCTAGATCTCATTATATTACC
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * * *
88115953 TGAGAATTTGCAATAAGGCTAGACCTCGTTATATTACC
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * * ** **
88115991 CGAGAATCTAAAACAAGGCTAGACCTTATTATATTATA
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * *
88116029 GGAGAATCTACAATATATGCTAGATCTCGTTACATTACC
1 CGAGAATCTACAATA-AGGCTAGATCTCGTTATATTACC
* *
88116068 CAAGAATCTACAATAAATGCTAGATCTCGTTATA
1 CGAGAATCTACAAT-AAGGCTAGATCTCGTTATA
88116102 ATCTATACAA
Statistics
Matches: 119, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
38 73 0.61
39 45 0.38
40 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (38 bp):
CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
Found at i:88126047 original size:17 final size:19
Alignment explanation
Indices: 88125999--88126047 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
88125989 TTAATTAAAT
88125999 AAATTATTAAAAATCACAAA
1 AAATTATTAAAAA-CACAAA
**
88126019 AAATTAAGAAAAA-ACAAA
1 AAATTATTAAAAACACAAA
88126037 AAA-TATTAAAA
1 AAATTATTAAAA
88126048 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 8 0.32
20 11 0.44
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATTATTAAAAACACAAA
Found at i:88129648 original size:15 final size:15
Alignment explanation
Indices: 88129628--88129663 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
88129618 AAATTTAAGA
88129628 AAAAATGAATGTTGT
1 AAAAATGAATGTTGT
* *
88129643 AAAAATGGATGTTTT
1 AAAAATGAATGTTGT
88129658 AAAAAT
1 AAAAAT
88129664 ATTAGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
AAAAATGAATGTTGT
Found at i:88130131 original size:4 final size:4
Alignment explanation
Indices: 88130124--88130169 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
88130114 ACTACTATAT
88130124 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT-G ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
88130170 TACTAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:88132450 original size:14 final size:16
Alignment explanation
Indices: 88132422--88132459 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
88132412 TTTTGGGTTA
88132422 ATATAATTACATAAAT
1 ATATAATTACATAAAT
88132438 ATATAATT-C-TAAAT
1 ATATAATTACATAAAT
*
88132452 AAATAATT
1 ATATAATT
88132460 TTGTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATTACATAAAT
Found at i:88136012 original size:49 final size:49
Alignment explanation
Indices: 88135952--88136046 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
88135942 GTGATAGGCA
* *
88135952 GAATTATGTGAATAATTGTGAGATCAATTCACTCCGCAAAAGAAAAGCG
1 GAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAAGCG
* *
88136001 GAATTACGTGAATGATTGTGAGGTCAATTCACTCCACAAAAGAAAA
1 GAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAA
88136047 AGAAAATTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (49 bp):
GAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAAGCG
Found at i:88136387 original size:93 final size:91
Alignment explanation
Indices: 88136193--88136431 Score: 306
Period size: 93 Copynumber: 2.6 Consensus size: 91
88136183 TTGTATTAAT
* * * * *
88136193 TTGGGTATTTGAACTTTTAAAATATATCAAAAA-AGCCCTCAAAC--CTTAAAAAAAAACAATTA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAGA-CCCTCAAACATTTTCAAAAAAAACAATTA
*
88136255 AGCCCCTACTTTTTTTTTTGCACTCAA
65 AGCCCCTACTTTTTTTTTGGCACTCAA
* * *
88136282 TTGGGTAATTGAATTTTTAAAATGCATGAAAAAGACTCTCAAA-ATTTTTCAAAAAAAACAATTA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAGACCCTCAAACA-TTTTCAAAAAAAACAATTA
* *
88136346 AGCTCCTGCTTACTTTTTTTGGCACTCAA
65 AGCCCCTACTT--TTTTTTTGGCACTCAA
*
88136375 TTGGGTACTTGAATTTTTAAAATACATCAAAAAGACCCTCAAACATTTTCAAAAAAA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAGACCCTCAAACATTTTCAAAAAAA
88136432 GTAATAAAGC
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
89 35 0.27
90 1 0.01
91 25 0.20
93 66 0.52
94 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (91 bp):
TTGGGTAATTGAATTTTTAAAATACATCAAAAAGACCCTCAAACATTTTCAAAAAAAACAATTAA
GCCCCTACTTTTTTTTTGGCACTCAA
Found at i:88136559 original size:39 final size:39
Alignment explanation
Indices: 88136516--88136678 Score: 97
Period size: 39 Copynumber: 4.2 Consensus size: 39
88136506 TAATAAAAAT
88136516 TAAAATAT-TAAAAATTATAAAAATCGTAAAAGAAATATA
1 TAAAATATGTAAAAATTATAAAAATCGTAAAAGAAAT-TA
* * * *
88136555 TAAAAAATTGTCAATAATTAT-AAAAT-AT-ATAGAAA-TA
1 TAAAATA-TGT-AAAAATTATAAAAATCGTAAAAGAAATTA
* * * *
88136592 TAAAAAATTTATAAAATTTTATAAAATCGTAAGA-AAATTA
1 TAAAATATGTA-AAAATTATA-AAAATCGTAAAAGAAATTA
* ** *
88136632 TACAAA-ATGTAAAGAAATATAAATTTCGTAAAAAAAATTA
1 TA-AAATATGTAAA-AATTATAAAAATCGTAAAAGAAATTA
88136672 TGAAAAT
1 T-AAAAT
88136679 TATATTACCA
Statistics
Matches: 95, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
35 1 0.01
36 8 0.08
37 9 0.09
38 5 0.05
39 27 0.28
40 27 0.28
41 10 0.11
42 8 0.08
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (39 bp):
TAAAATATGTAAAAATTATAAAAATCGTAAAAGAAATTA
Found at i:88136617 original size:19 final size:19
Alignment explanation
Indices: 88136572--88136618 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
88136562 TTGTCAATAA
88136572 TTATAAAATATATAGAAAT
1 TTATAAAATATATAGAAAT
* * *
88136591 ATAAAAAATTTATA-AAATT
1 TTATAAAATATATAGAAA-T
88136610 TTATAAAAT
1 TTATAAAAT
88136619 CGTAAGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTATAAAATATATAGAAAT
Found at i:88136628 original size:21 final size:21
Alignment explanation
Indices: 88136604--88136648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88136594 AAAAATTTAT
* *
88136604 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
88136625 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
88136646 AAA
1 AAA
88136649 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:88136850 original size:19 final size:20
Alignment explanation
Indices: 88136818--88136856 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
88136808 GTAATTAATT
*
88136818 TTTTATGATATTTA-AAAAA
1 TTTTACGATATTTATAAAAA
*
88136837 TTTTACGATTTTTATAAAAA
1 TTTTACGATATTTATAAAAA
88136857 AATTCTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTTACGATATTTATAAAAA
Found at i:88137773 original size:18 final size:19
Alignment explanation
Indices: 88137735--88137777 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
88137725 TTTTATAAAA
*
88137735 TTATAACAAAAATTGACTT
1 TTATAAAAAAAATTGACTT
*
88137754 TTATAAAAAAAATT-AGTT
1 TTATAAAAAAAATTGACTT
88137772 TTATAA
1 TTATAA
88137778 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
TTATAAAAAAAATTGACTT
Found at i:88137914 original size:6 final size:6
Alignment explanation
Indices: 88137903--88137943 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
88137893 TTAATATATA
*
88137903 TTTTAT TTTTAT TTATAAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTT
88137944 TATGATAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:88137918 original size:25 final size:25
Alignment explanation
Indices: 88137894--88137941 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
88137884 TTTGAATTAT
88137894 TAATATATA-TTTTATTTTTATTTA
1 TAATATATATTTTTATTTTTATTTA
* *
88137918 TAATTTTTATTTTTATTTTTATTT
1 TAATATATATTTTTATTTTTATTT
88137942 TTTATGATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TAATATATATTTTTATTTTTATTTA
Found at i:88137925 original size:19 final size:19
Alignment explanation
Indices: 88137903--88137946 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
88137893 TTAATATATA
88137903 TTTTATTTTTATTTATAAT
1 TTTTATTTTTATTTATAAT
* *
88137922 TTTTATTTTTATTTTTATT
1 TTTTATTTTTATTTATAAT
88137941 TTTTAT
1 TTTTAT
88137947 GATAGCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTATTTATAAT
Found at i:88137943 original size:13 final size:13
Alignment explanation
Indices: 88137903--88137946 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
88137893 TTAATATATA
88137903 TTTTATTTTTATT
1 TTTTATTTTTATT
* *
88137916 TATAATTTTTA-T
1 TTTTATTTTTATT
88137928 TTTTATTTTTATT
1 TTTTATTTTTATT
88137941 TTTTAT
1 TTTTAT
88137947 GATAGCATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:88137960 original size:14 final size:14
Alignment explanation
Indices: 88137943--88137972 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88137933 TTTTTATTTT
88137943 TTATGATAGCATCA
1 TTATGATAGCATCA
*
88137957 TTATGATATCATCA
1 TTATGATAGCATCA
88137971 TT
1 TT
88137973 GTCACGTGTC
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:0.13, G:0.10, T:0.43
Consensus pattern (14 bp):
TTATGATAGCATCA
Found at i:88140174 original size:21 final size:21
Alignment explanation
Indices: 88140150--88140196 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
88140140 AAATTAGACT
*
88140150 TAAAATTTTAAATCTAAAAA-A
1 TAAAATTTTAAA-ATAAAAATA
88140171 TAAAATTTTAAAATAAAAATA
1 TAAAATTTTAAAATAAAAATA
88140192 TAAAA
1 TAAAA
88140197 ACTAAATTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATTTTAAAATAAAAATA
Found at i:88140933 original size:16 final size:15
Alignment explanation
Indices: 88140904--88140937 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
88140894 TTACATGTTA
88140904 AAACATATAAATTTG
1 AAACATATAAATTTG
*
88140919 AAACTATATATATTTG
1 AAAC-ATATAAATTTG
88140935 AAA
1 AAA
88140938 ACATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
AAACATATAAATTTG
Found at i:88141102 original size:19 final size:20
Alignment explanation
Indices: 88141061--88141104 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
88141051 AAAAATATAA
*
88141061 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
88141081 ATTTTG-AA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
88141100 ATTTT
1 ATTTT
88141105 ATATTTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:88141223 original size:23 final size:23
Alignment explanation
Indices: 88141196--88141249 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
88141186 TTGAACTCAA
* *
88141196 AACTCAAATTACT-TATTTGAGTT
1 AACTCAAATAACTCGATTTGA-TT
* *
88141219 GACTCGAATAACTCGATTTGATT
1 AACTCAAATAACTCGATTTGATT
88141242 AACTCAAA
1 AACTCAAA
88141250 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (23 bp):
AACTCAAATAACTCGATTTGATT
Found at i:88143140 original size:30 final size:31
Alignment explanation
Indices: 88143104--88143163 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
88143094 ATTTTTTTTT
*
88143104 TCAAGTT-AGGCCATAAACTTGACAA-TGTTC
1 TCAAGTTAAGG-CATAAACTAGACAACTGTTC
*
88143134 TCAAGTTAAGGCTTAAACTAGACAACTGTT
1 TCAAGTTAAGGCATAAACTAGACAACTGTT
88143164 TCCATATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (31 bp):
TCAAGTTAAGGCATAAACTAGACAACTGTTC
Found at i:88144500 original size:21 final size:19
Alignment explanation
Indices: 88144467--88144537 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
88144457 ATTATAAGAA
*
88144467 TATTAAAAATATAAAAAAT
1 TATTAAAATTATAAAAAAT
*
88144486 TATTCAAGAATTATAAGAAAT
1 TATT-AA-AATTATAAAAAAT
88144507 TATTAAAATTA-ATAAAAAT
1 TATTAAAATTATA-AAAAAT
88144526 TATTTAAAATTA
1 TA-TTAAAATTA
88144538 CAATAAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 13 0.29
21 15 0.33
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
TATTAAAATTATAAAAAAT
Found at i:88144532 original size:20 final size:20
Alignment explanation
Indices: 88144480--88144537 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
88144470 TAAAAATATA
*
88144480 AAAAATTATTCAAGAATT-AT
1 AAAAATTATTTAA-AATTAAT
88144500 AAGAAATTA-TTAAAATTAAT
1 AA-AAATTATTTAAAATTAAT
88144520 AAAAATTATTTAAAATTA
1 AAAAATTATTTAAAATTA
88144538 CAATAAGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.29
20 18 0.53
21 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAATTATTTAAAATTAAT
Found at i:88144961 original size:18 final size:18
Alignment explanation
Indices: 88144934--88144968 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88144924 GTTTTAAATA
*
88144934 ATTTTAATAATTTTTTAT
1 ATTTTAATAATTATTTAT
*
88144952 ATTTTTATAATTATTTA
1 ATTTTAATAATTATTTA
88144969 AAAAAATCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTAATAATTATTTAT
Found at i:88145117 original size:91 final size:91
Alignment explanation
Indices: 88145006--88145249 Score: 291
Period size: 91 Copynumber: 2.7 Consensus size: 91
88144996 CTTAACGGTG
*
88145006 TAAAAA-GCCCTCAAACTTTTTTAATAAAAGCAATTAAGCTCTTGCTTTTTTTTTTGCACTCAAT
1 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCTCTTGCTTTTTTTTTTGCACTCAAT
** * *
88145070 TG-GATACTTAAACTTTCAATATGCAT
66 TGAG-TACTTAAACTGCCAAAATGCAA
* * *
88145096 TAAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAGGCTAC-TGCTTTTTTTTTGGCACTCAA
1 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCT-CTTGCTTTTTTTTTTGCACTCAA
*
88145160 TTGAGTACTTGAACTGCCAAAATGCAA
65 TTGAGTACTTAAACTGCCAAAATGCAA
* *
88145187 CAAAAAGGCCCTCAAACTTTATTTTTAAAAAAAAGCAATTAAG-TCTCTG-TTCTTTTTTTGCAC
1 TAAAAAGGCCCTCAAAC--T-TTTTT-AAAAAAAGCAATTAAGCTCT-TGCTTTTTTTTTTGCAC
88145250 AAATTATGTA
Statistics
Matches: 131, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
90 6 0.05
91 87 0.66
92 2 0.02
93 2 0.02
94 17 0.13
95 17 0.13
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (91 bp):
TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCTCTTGCTTTTTTTTTTGCACTCAAT
TGAGTACTTAAACTGCCAAAATGCAA
Found at i:88145285 original size:93 final size:91
Alignment explanation
Indices: 88145007--88145285 Score: 243
Period size: 91 Copynumber: 3.1 Consensus size: 91
88144997 TTAACGGTGT
* * * * *
88145007 AAAAA-GCCCTCAAACTTTTTTAATAAAAGCAATTAAGCT-CTTGCTTTTTTTTTTGCACTCAAT
1 AAAAAGGCCCTCAAACTTTTTAAAAAAAAGCAATTAGGCTAC-TGCTTTTTTTTTGGCACTAAAT
* ** * * **
88145070 TG-GATACTTAAACTTTCAATATGCATT
65 TGAG-TACTTGAACTGCCAAAATACAAC
* *
88145097 AAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAGGCTACTGCTTTTTTTTTGGCACTCAATT
1 AAAAAGGCCCTCAAACTTTTTAAAAAAAAGCAATTAGGCTACTGCTTTTTTTTTGGCACTAAATT
*
88145162 GAGTACTTGAACTGCCAAAATGCAAC
66 GAGTACTTGAACTGCCAAAATACAAC
*
88145188 AAAAAGGCCCTCAAACTTTATTTTTAAAAAAAAGCAATTAAGTCT-CTG-TTCTTTTTTT-GCAC
1 AAAAAGGCCCTCAAAC----TTTTTAAAAAAAAGCAATT-AGGCTACTGCTT-TTTTTTTGGCAC
* *
88145250 -AAATT-ATGTACTTGAACAT-CCGAAATACATC
60 TAAATTGA-GTACTTGAAC-TGCCAAAATACAAC
88145281 AAAAA
1 AAAAA
88145286 AATTCTGGGA
Statistics
Matches: 162, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
90 5 0.03
91 87 0.54
92 3 0.02
93 28 0.17
94 7 0.04
95 28 0.17
96 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.34
Consensus pattern (91 bp):
AAAAAGGCCCTCAAACTTTTTAAAAAAAAGCAATTAGGCTACTGCTTTTTTTTTGGCACTAAATT
GAGTACTTGAACTGCCAAAATACAAC
Found at i:88150720 original size:5 final size:5
Alignment explanation
Indices: 88150710--88150757 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
88150700 ACGTCGAATT
88150710 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAA
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAA
88150758 AAAACGAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:88151863 original size:20 final size:22
Alignment explanation
Indices: 88151838--88151879 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
88151828 ATTCATTGGA
88151838 AAATG-AGAAAA-AAAATTATC
1 AAATGAAGAAAATAAAATTATC
*
88151858 AAATGAAGAAAATAATATTATC
1 AAATGAAGAAAATAAAATTATC
88151880 CTAAATCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (22 bp):
AAATGAAGAAAATAAAATTATC
Found at i:88152107 original size:3 final size:3
Alignment explanation
Indices: 88152101--88152148 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
88152091 AGGAGAGATC
*
88152101 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
88152149 CGCCAGAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:88153144 original size:18 final size:20
Alignment explanation
Indices: 88153116--88153163 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
88153106 TTAGAAAAAA
*
88153116 TATAAAAAAATTTA-AATTT
1 TATATAAAAATTTAGAATTT
88153135 TAT-TAAAAA-TTAGAATTT
1 TATATAAAAATTTAGAATTT
*
88153153 TTTATAAAAAT
1 TATATAAAAAT
88153164 CATAAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATATAAAAATTTAGAATTT
Found at i:88153207 original size:19 final size:19
Alignment explanation
Indices: 88153129--88153208 Score: 52
Period size: 19 Copynumber: 4.2 Consensus size: 19
88153119 AAAAAAATTT
* *
88153129 AAATTTTATTAAAAATTAGA
1 AAATTTTA-TAAAAATCATA
**
88153149 ATTTTTTATAAAAATCATA
1 AAATTTTATAAAAATCATA
*** * **
88153168 AAAAGATAAAAAAATTGTA
1 AAATTTTATAAAAATCATA
*
88153187 AACTTTTATAAAAATCATA
1 AAATTTTATAAAAATCATA
88153206 AAA
1 AAA
88153209 AAAAATTAAC
Statistics
Matches: 40, Mismatches: 20, Indels: 1
0.66 0.33 0.02
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (19 bp):
AAATTTTATAAAAATCATA
Found at i:88153407 original size:28 final size:29
Alignment explanation
Indices: 88153376--88153441 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
88153366 TTACATTTTG
88153376 TATAATTTTCTTATGACT-TTAT-AAAATT
1 TATAATTTT-TTATGACTATTATAAAAATT
*
88153404 TAT-ATTTTTTATGATTATTATAAAAATT
1 TATAATTTTTTATGACTATTATAAAAATT
*
88153432 TACAATTTTT
1 TATAATTTTT
88153442 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.21
27 9 0.27
28 11 0.33
29 6 0.18
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (29 bp):
TATAATTTTTTATGACTATTATAAAAATT
Found at i:88153460 original size:19 final size:20
Alignment explanation
Indices: 88153430--88153469 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
88153420 ATTATAAAAA
88153430 TTTACAATTTTTATATTTTT
1 TTTACAATTTTTATATTTTT
88153450 TTTACAA-TTTTATATTTTT
1 TTTACAATTTTTATATTTTT
88153469 T
1 T
88153470 CTAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTACAATTTTTATATTTTT
Found at i:88153468 original size:28 final size:28
Alignment explanation
Indices: 88153380--88153469 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
88153370 ATTTTGTATA
*
88153380 ATTTTCTTATGACT-TTAT-AAAATTTAT
1 ATTTT-TTATGATTATTATAAAAATTTAT
*
88153407 ATTTTTTATGATTATTATAAAAATTTAC
1 ATTTTTTATGATTATTATAAAAATTTAT
* * * * *
88153435 AATTTTTAT-ATTTTTTTTACAATTTTAT
1 ATTTTTTATGA-TTATTATAAAAATTTAT
88153463 ATTTTTT
1 ATTTTTT
88153470 CTAATTTTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 7 0.14
27 10 0.20
28 34 0.67
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTTTTATGATTATTATAAAAATTTAT
Found at i:88153469 original size:17 final size:17
Alignment explanation
Indices: 88153430--88153484 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 17
88153420 ATTATAAAAA
88153430 TTTACAATTTTTATATTTTT
1 TTTACAA-TTTTATA--TTT
88153450 TTTACAATTTTATATTT
1 TTTACAATTTTATATTT
88153467 TTT-CTAATTTTAATATTT
1 TTTAC-AATTTT-ATATTT
88153485 GAATTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.03
17 12 0.36
18 6 0.18
19 7 0.21
20 7 0.21
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTACAATTTTATATTT
Found at i:88154449 original size:17 final size:16
Alignment explanation
Indices: 88154428--88154476 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
88154418 CCTCAATTTA
88154428 ATTTTTTTTATCTTTT
1 ATTTTTTTTATCTTTT
* *
88154444 ATTTTTTCTATCTTTA
1 ATTTTTTTTATCTTTT
88154460 ATTTTTTTTAATCTTTT
1 ATTTTTTTT-ATCTTTT
88154477 TAAAATCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 22 0.79
17 6 0.21
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTTATCTTTT
Found at i:88154700 original size:5 final size:5
Alignment explanation
Indices: 88154692--88154722 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
88154682 ATGAAAATTT
*
88154692 CATCC CATCC CATCC CATCC CATCT CATCC C
1 CATCC CATCC CATCC CATCC CATCC CATCC C
88154723 GCCCACACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.58, G:0.00, T:0.23
Consensus pattern (5 bp):
CATCC
Found at i:88155234 original size:23 final size:24
Alignment explanation
Indices: 88155195--88155241 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
88155185 CAGATATAAT
*
88155195 AAAAATCTATAATTAAATTATTAA
1 AAAAATATATAATTAAATTATTAA
88155219 AAAAATATATAA-TAAATTATTAA
1 AAAAATATATAATTAAATTATTAA
88155242 TTTAGTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAAATATATAATTAAATTATTAA
Found at i:88161786 original size:36 final size:37
Alignment explanation
Indices: 88161740--88161816 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
88161730 TATGTTTGAC
88161740 TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
1 TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
88161777 TTTA-GTTTGAATGTGAATCGATGTAAATTAATATCT
1 TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
88161813 TTTA
1 TTTA
88161817 ATTTACTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (37 bp):
TTTATGTTTGAATGTGAATCGATGTAAATTAATATCT
Found at i:88162663 original size:141 final size:141
Alignment explanation
Indices: 88162405--88162682 Score: 414
Period size: 141 Copynumber: 2.0 Consensus size: 141
88162395 GTGACTTGTA
*
88162405 TACTTTGATGTAAGTAAAAGCCTGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
1 TACTTTGATGTAAGTAAAAACCTGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
* * * * *
88162470 TACGACTTCTGTAGTATGTAGTGTCATTCACAATAATGGAATTTATAGCCCGAGACATGATTAAA
66 TACGACTTCTGCAGTATGTAGCGTCATTCACAACAATGGAATTTATAACCCGAGACATGAGTAAA
88162535 TGATATCATTT
131 TGATATCATTT
* * * *
88162546 TACTTTGATGTAAGTAAAAACCTGAGTTCAAATAGATAAGGAATCGAAAGTTGGTGCGTTGGGTA
1 TACTTTGATGTAAGTAAAAACCTGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
* * * *
88162611 TATGACTTTTGCAGTATGTAGCG-CAATTCACAACAGTGGAATTTATAACCCGAGACATGCGTAA
66 TACGACTTCTGCAGTATGTAGCGTC-ATTCACAACAATGGAATTTATAACCCGAGACATGAGTAA
88162675 ATGATATC
130 ATGATATC
88162683 CTTTCATTAG
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
140 1 0.01
141 121 0.99
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.31
Consensus pattern (141 bp):
TACTTTGATGTAAGTAAAAACCTGAGTTCAAATAGATAAGCAACCGAAAGTTGATGCGTTAGGTA
TACGACTTCTGCAGTATGTAGCGTCATTCACAACAATGGAATTTATAACCCGAGACATGAGTAAA
TGATATCATTT
Found at i:88164574 original size:18 final size:18
Alignment explanation
Indices: 88164551--88164599 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
88164541 AATTAATGAT
*
88164551 TTGAAATAGAAAATGGTA
1 TTGAAATAGAAAATGCTA
* *
88164569 TTGAAAT-GACAATGCTT
1 TTGAAATAGAAAATGCTA
*
88164586 TTGAAATAGCAAAT
1 TTGAAATAGAAAAT
88164600 AAGATGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (18 bp):
TTGAAATAGAAAATGCTA
Found at i:88171637 original size:28 final size:28
Alignment explanation
Indices: 88171606--88171685 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
88171596 GCTTATTGGT
* *
88171606 TAGTTCCTGCGGACTCTTGCTTGAAAGA
1 TAGTTCCTGCAGACTCTTACTTGAAAGA
*
88171634 TAG-TCCATGTAGACTCTTACTTGAAAGA
1 TAGTTCC-TGCAGACTCTTACTTGAAAGA
* *
88171662 TAGTTCATACAGACTCTTACTTGA
1 TAGTTCCTGCAGACTCTTACTTGA
88171686 TAACAGTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.07
28 39 0.89
29 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (28 bp):
TAGTTCCTGCAGACTCTTACTTGAAAGA
Found at i:88172870 original size:11 final size:11
Alignment explanation
Indices: 88172854--88172882 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
88172844 ATCCATAGAA
88172854 CGTTCATGAAT
1 CGTTCATGAAT
88172865 CGTTCATGAAT
1 CGTTCATGAAT
88172876 CGTTCAT
1 CGTTCAT
88172883 TTATTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (11 bp):
CGTTCATGAAT
Found at i:88173621 original size:16 final size:16
Alignment explanation
Indices: 88173589--88173628 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
88173579 TTTTGAAATA
*
88173589 TAAATTAAAAATTATTT
1 TAAATT-AAAATAATTT
88173606 TAAATTAAAATAATTT
1 TAAATTAAAATAATTT
*
88173622 AAAATTA
1 TAAATTA
88173629 TTATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTAAAATAATTT
Done.