Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 228 of 250
Found at i:70350108 original size:9 final size:9
Alignment explanation
Indices: 70350041--70350148 Score: 51
Period size: 9 Copynumber: 11.4 Consensus size: 9
70350031 TAAAATTATT
70350041 ATTTTATAAA
1 ATTTT-TAAA
70350051 A-TTTTAAA
1 ATTTTTAAA
* **
70350059 AATTTTATT
1 ATTTTTAAA
*
70350068 ATTCTTTATAT
1 ATT-TTTA-AA
*
70350079 ATTCTTTAGA
1 ATT-TTTAAA
70350089 ATTTGTTAAA
1 ATTT-TTAAA
70350099 ATTTTTAAA
1 ATTTTTAAA
* * *
70350108 A-ATATATAG
1 ATTTTTA-AA
70350117 A-TTTTAAA
1 ATTTTTAAA
70350125 ATTTTTATAA
1 ATTTTTA-AA
70350135 ATATTTTAAA
1 AT-TTTTAAA
70350145 ATTT
1 ATTT
70350149 AAAATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
8 10 0.13
9 29 0.38
10 24 0.31
11 14 0.18
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:70354929 original size:32 final size:33
Alignment explanation
Indices: 70354863--70354929 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
70354853 AGGCAATACC
* *
70354863 TGTAAAAAATATACATTCAGTGAAACATGTTAA
1 TGTAAAAAATAGACATTCAATGAAACATGTTAA
* * *
70354896 TGTAAAAAGTAGACATTTAATGAAGCATG-TAA
1 TGTAAAAAATAGACATTCAATGAAACATGTTAA
70354928 TG
1 TG
70354930 AAGAACCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (33 bp):
TGTAAAAAATAGACATTCAATGAAACATGTTAA
Found at i:70359162 original size:5 final size:5
Alignment explanation
Indices: 70359152--70359179 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70359142 TTACGTGTGA
70359152 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
70359180 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:70363549 original size:5 final size:5
Alignment explanation
Indices: 70363539--70363566 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
70363529 CAATTTGTGA
70363539 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
70363567 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:70368414 original size:10 final size:10
Alignment explanation
Indices: 70368401--70368427 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70368391 TTTTCCCCTT
70368401 TTTTATTTAA
1 TTTTATTTAA
70368411 TTTTATTTAA
1 TTTTATTTAA
70368421 TTTTATT
1 TTTTATT
70368428 GCAATAATAT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATTTAA
Found at i:70377361 original size:20 final size:21
Alignment explanation
Indices: 70377319--70377361 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
70377309 TTGAGGGTGG
**
70377319 ATATTTTTAATTTAATTTTAA
1 ATATTTTTAATTTAATTAAAA
70377340 ATATTTTT-ATTTAATTAAAA
1 ATATTTTTAATTTAATTAAAA
70377360 AT
1 AT
70377362 GTTACATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTTTAATTTAATTAAAA
Found at i:70378837 original size:58 final size:58
Alignment explanation
Indices: 70378768--70378915 Score: 257
Period size: 58 Copynumber: 2.6 Consensus size: 58
70378758 AAGCACCAGT
**
70378768 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTTTAAGTAC
1 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
70378826 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
1 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
70378884 CAGCTGTTGT-G--TTGTTGACTGACTGCTTAACT
1 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACT
70378916 CTGTTAAATT
Statistics
Matches: 88, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
55 21 0.24
57 1 0.01
58 66 0.75
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (58 bp):
CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
Found at i:70379303 original size:27 final size:28
Alignment explanation
Indices: 70379273--70379327 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
70379263 TAGCAACCAA
70379273 ACGAAG-TATTATTATTTTAGTTCTGGT
1 ACGAAGATATTATTATTTTAGTTCTGGT
*
70379300 ACGAAGTAATATTGTTATTTTAGTTCTG
1 ACGAAG--ATATTATTATTTTAGTTCTG
70379328 CTTTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
30 18 0.75
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.47
Consensus pattern (28 bp):
ACGAAGATATTATTATTTTAGTTCTGGT
Found at i:70381798 original size:30 final size:30
Alignment explanation
Indices: 70381764--70381861 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
70381754 AGCTCACTCC
70381764 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
70381794 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
70381824 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
70381854 TAGCTCAT
1 TAGCTCAT
70381862 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:70387349 original size:25 final size:28
Alignment explanation
Indices: 70387299--70387350 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
70387289 CAATATTTTT
*
70387299 GCATGAAAATTGATATGATAGGAAAATC
1 GCATGAAAATTGATATGATAGAAAAATC
70387327 GCATGAAAA-T-AT-TGATAGAAAAAT
1 GCATGAAAATTGATATGATAGAAAAAT
70387351 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (28 bp):
GCATGAAAATTGATATGATAGAAAAATC
Found at i:70394085 original size:48 final size:48
Alignment explanation
Indices: 70394008--70394282 Score: 299
Period size: 48 Copynumber: 5.8 Consensus size: 48
70393998 ACAGTGCTAA
* *
70394008 ATGTGCCTGTGTAAGACCATGTCCAGGACATGGCATAGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACGATGATAT
* * *
70394056 ATGTGCCTGTATAAGACCATGTTTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACGATGATAT
* * * *
70394104 ATGTTCCTGTGTAAGACCATGTCCAGGACGT-GCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACGATGATAT
* *
70394151 ATGTG-CTAGTGTAAGACCATGTCTAAGACATGGCATCGGCGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCTAGGACATGGCATCGACGATGATAT
* * * * *
70394199 GTGTACCAGTGTAAGACCATGTCTGGGACATGACATCG--G-TGATGAT
1 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACGATGAT-AT
* * * *
70394245 ATGTGCATTCATGTAAGACCATGTCGAAGACATGGCAT
1 ATGTGC-CT-GTGTAAGACCATGTCTAGGACATGGCAT
70394283 TAGTACTTTA
Statistics
Matches: 190, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
45 4 0.02
46 9 0.05
47 39 0.21
48 137 0.72
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACGATGATAT
Found at i:70394181 original size:95 final size:95
Alignment explanation
Indices: 70394008--70394282 Score: 324
Period size: 95 Copynumber: 2.9 Consensus size: 95
70393998 ACAGTGCTAA
* * * *
70394008 ATGTGCCTGTGTAAGACCATGTCCAGGACATGGCATAGACGATGATATATGTGCCT-GTATAAGA
1 ATGTACCTGTGTAAGACCATGTCCAGGACAT-GCATCGGCGATGATATATGTG-CTAGTGTAAGA
* **
70394072 CCATGTTTGGGACATGGCATCGACGATGATAT
64 CCATGTCTAAGACATGGCATCGACGATGATAT
* *
70394104 ATGTTCCTGTGTAAGACCATGTCCAGGACGTGCATCGGCGATGATATATGTGCTAGTGTAAGACC
1 ATGTACCTGTGTAAGACCATGTCCAGGACATGCATCGGCGATGATATATGTGCTAGTGTAAGACC
*
70394169 ATGTCTAAGACATGGCATCGGCGATGATAT
66 ATGTCTAAGACATGGCATCGACGATGATAT
* * ** *
70394199 GTGTACCAGTGTAAGACCATGTCTGGGACATGACATCGGTGATG--ATATGTGCATTCA-TGTAA
1 ATGTACCTGTGTAAGACCATGTCCAGGACATG-CATCGGCGATGATATATGTGC--T-AGTGTAA
*
70394261 GACCATGTCGAAGACATGGCAT
62 GACCATGTCTAAGACATGGCAT
70394283 TAGTACTTTA
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
94 10 0.06
95 80 0.51
96 66 0.42
97 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (95 bp):
ATGTACCTGTGTAAGACCATGTCCAGGACATGCATCGGCGATGATATATGTGCTAGTGTAAGACC
ATGTCTAAGACATGGCATCGACGATGATAT
Found at i:70394266 original size:143 final size:143
Alignment explanation
Indices: 70394008--70394269 Score: 350
Period size: 143 Copynumber: 1.8 Consensus size: 143
70393998 ACAGTGCTAA
* * *
70394008 ATGTGCCTGTGTAAGACCATGTCCAGGACATGGCATAGACGATGATATATGTGCCTGTATAAGAC
1 ATGTGCCTGTGTAAGACCATGTCCAAGACATGGCATAGACGATGATATATGTACCAGTATAAGAC
* * *
70394073 CATGTTTGGGACATGGCATCGACGATGATATATGTTCCTGTGTAAGACCATGTCCAGGACGTGCA
66 CATGTCTGGGACATGACATCGACGATGATATATGTTCCTATGTAAGACCATGTCCAGGACGTGCA
70394138 TCGGCGATGATAT
131 TCGGCGATGATAT
* * * * *
70394151 ATGTG-CTAGTGTAAGACCATGTCTAAGACATGGCATCGGCGATGATATGTGTACCAGTGTAAGA
1 ATGTGCCT-GTGTAAGACCATGTCCAAGACATGGCATAGACGATGATATATGTACCAGTATAAGA
** *
70394215 CCATGTCTGGGACATGACATCGGTGATGATATGTGCATT-C-ATGTAAGACCATGTC
65 CCATGTCTGGGACATGACATCGACGATGATATATG--TTCCTATGTAAGACCATGTC
70394270 GAAGACATGG
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
142 2 0.02
143 97 0.95
144 1 0.01
145 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (143 bp):
ATGTGCCTGTGTAAGACCATGTCCAAGACATGGCATAGACGATGATATATGTACCAGTATAAGAC
CATGTCTGGGACATGACATCGACGATGATATATGTTCCTATGTAAGACCATGTCCAGGACGTGCA
TCGGCGATGATAT
Found at i:70395943 original size:14 final size:14
Alignment explanation
Indices: 70395924--70395952 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
70395914 TGATGCAAAG
70395924 ATTCTTTTTGGTCT
1 ATTCTTTTTGGTCT
70395938 ATTCTTTTTGGTCT
1 ATTCTTTTTGGTCT
70395952 A
1 A
70395953 AACCATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.62
Consensus pattern (14 bp):
ATTCTTTTTGGTCT
Found at i:70397771 original size:15 final size:15
Alignment explanation
Indices: 70397737--70397780 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
70397727 TACTTTTAAG
*
70397737 TTTTATTATATTTATA
1 TTTTATT-TTTTTATA
*
70397753 TTTTATTTTTTTATT
1 TTTTATTTTTTTATA
70397768 TTTTATTTTTTTA
1 TTTTATTTTTTTA
70397781 CCAACGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTTTATA
Found at i:70403272 original size:27 final size:27
Alignment explanation
Indices: 70403240--70403293 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
70403230 CCTATGCTAC
*
70403240 CTGTAAATCAGATCTCTTTCTTGCTTT
1 CTGTAAATCAGACCTCTTTCTTGCTTT
70403267 CTGTAAATCAGACCTCTTTCTTGCTTT
1 CTGTAAATCAGACCTCTTTCTTGCTTT
70403294 GCTTTTCTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.46
Consensus pattern (27 bp):
CTGTAAATCAGACCTCTTTCTTGCTTT
Found at i:70409746 original size:107 final size:104
Alignment explanation
Indices: 70409614--70409815 Score: 298
Period size: 107 Copynumber: 1.9 Consensus size: 104
70409604 TGCCATTGTT
* * * *
70409614 GATTATGAAAAACTAGATTGTAAAGTTTAATTTTTAGTTTTTTACATAAGAACTAAAATGTATAA
1 GATTATGAAAAACTAGATTCTAAAGTTTAATTGTTAATTTTGTACATAAGAACTAAAATGTATAA
*
70409679 ATGATGAAACTT-CGGTGAAATTTTAGTAATCTAAGCTTA
66 ATGATGAAA-TTGAGGTGAAATTTTAGTAATCTAAGCTTA
*
70409718 GATTATGAAAAAGGACTAGATTCTAAAGTTTAATTGTTAATTTTGTACTTAAGAACTAAAATGTA
1 GATTATG-AAAA--ACTAGATTCTAAAGTTTAATTGTTAATTTTGTACATAAGAACTAAAATGTA
*
70409783 TAAATGGTGAAATTGAGGTGAAATTTTAGTAAT
63 TAAATGATGAAATTGAGGTGAAATTTTAGTAAT
70409816 AATAGATAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 7 0.08
105 4 0.05
106 2 0.02
107 74 0.85
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (104 bp):
GATTATGAAAAACTAGATTCTAAAGTTTAATTGTTAATTTTGTACATAAGAACTAAAATGTATAA
ATGATGAAATTGAGGTGAAATTTTAGTAATCTAAGCTTA
Found at i:70416219 original size:32 final size:32
Alignment explanation
Indices: 70416183--70416243 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
70416173 CGTCGCATAC
70416183 CCCTCAGCCTTGGCCACCACGCCCCACGCATG
1 CCCTCAGCCTTGGCCACCACGCCCCACGCATG
* *
70416215 CCCTCAGCCTTGGTCACCACGCTCCACGC
1 CCCTCAGCCTTGGCCACCACGCCCCACGC
70416244 GTCTGACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.15, C:0.52, G:0.18, T:0.15
Consensus pattern (32 bp):
CCCTCAGCCTTGGCCACCACGCCCCACGCATG
Found at i:70416290 original size:19 final size:19
Alignment explanation
Indices: 70416266--70416304 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
70416256 TATACCCTGC
70416266 AAACAGCAGCAACAACAAG
1 AAACAGCAGCAACAACAAG
70416285 AAACAGCAGCAACAACAAG
1 AAACAGCAGCAACAACAAG
70416304 A
1 A
70416305 GAAATGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.26, G:0.15, T:0.00
Consensus pattern (19 bp):
AAACAGCAGCAACAACAAG
Found at i:70438212 original size:33 final size:33
Alignment explanation
Indices: 70438170--70438238 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
70438160 AGATTAACTA
70438170 ATATCACGTATGCTCAATTTATAAGTTTAGGTT
1 ATATCACGTATGCTCAATTTATAAGTTTAGGTT
70438203 ATATCACGTATGCTCAATTTATAAGTTTAGGTT
1 ATATCACGTATGCTCAATTTATAAGTTTAGGTT
70438236 ATA
1 ATA
70438239 GAAAAATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (33 bp):
ATATCACGTATGCTCAATTTATAAGTTTAGGTT
Found at i:70441553 original size:16 final size:17
Alignment explanation
Indices: 70441534--70441566 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
70441524 AATTTTATAT
70441534 TTTAAATA-TATTTTTG
1 TTTAAATATTATTTTTG
*
70441550 TTTATATATTATTTTTG
1 TTTAAATATTATTTTTG
70441567 AATATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTAAATATTATTTTTG
Found at i:70441580 original size:18 final size:18
Alignment explanation
Indices: 70441539--70441601 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
70441529 TATATTTTAA
** *
70441539 ATATATTTTTGTTTATAT
1 ATATATTTTTGAATATTT
70441557 AT-TATTTTTGAATATTT
1 ATATATTTTTGAATATTT
*
70441574 ATATATTTTT-AAAATTTT
1 ATATATTTTTGAATA-TTT
*
70441592 ATGTATTTTT
1 ATATATTTTT
70441602 TATTTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 17 0.45
18 21 0.55
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATATATTTTTGAATATTT
Found at i:70451542 original size:4 final size:4
Alignment explanation
Indices: 70451533--70451586 Score: 56
Period size: 4 Copynumber: 12.8 Consensus size: 4
70451523 GTAACTTATG
*
70451533 ATTA ATTA ATTA ATTA ATTA ATTA ATTTA ATTTG A-TA ACTTA TATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA A-TTA ATTA A-TTA -ATTA
70451580 ATTA ATT
1 ATTA ATT
70451587 GAACTTGTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 2 0.05
4 28 0.64
5 13 0.30
6 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:70455531 original size:2 final size:2
Alignment explanation
Indices: 70455526--70455560 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
70455516 TTTGAAAAAA
*
70455526 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70455561 AAAAGATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:70456337 original size:36 final size:36
Alignment explanation
Indices: 70456297--70456370 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
70456287 AGTTCGGAGT
70456297 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
1 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
70456333 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
1 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
70456369 CA
1 CA
70456371 GAAAGGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (36 bp):
CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
Found at i:70456823 original size:20 final size:21
Alignment explanation
Indices: 70456787--70456825 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70456777 TTTTAAATAT
*
70456787 AAATAACTAAAATATAATTTA
1 AAATAAATAAAATATAATTTA
70456808 AAATAAATAAAA-ATAATT
1 AAATAAATAAAATATAATT
70456826 ATTTTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAATAAAATATAATTTA
Found at i:70458378 original size:1 final size:1
Alignment explanation
Indices: 70458372--70458398 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
70458362 TATCCATACC
70458372 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
70458399 CTAATTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:70469756 original size:39 final size:39
Alignment explanation
Indices: 70469696--70469782 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
70469686 ATTAGCGGTA
*
70469696 TTTTTACAAAAGCGCCGCTATAGATCGACCATTAACGGTG
1 TTTTTA-AAAAGCGCCGCTATAGATCGACCATTAACGGCG
* * *
70469736 CTTTTTAAAAA-CGCTGCTATAGATCGAGCATTAGCGGCG
1 -TTTTTAAAAAGCGCCGCTATAGATCGACCATTAACGGCG
70469775 TTTTTAAA
1 TTTTTAAA
70469783 GAACTAATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 8 0.19
39 24 0.57
40 4 0.10
41 6 0.14
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (39 bp):
TTTTTAAAAAGCGCCGCTATAGATCGACCATTAACGGCG
Found at i:70469955 original size:112 final size:114
Alignment explanation
Indices: 70469826--70470046 Score: 265
Period size: 115 Copynumber: 1.9 Consensus size: 114
70469816 AAAAACGTCA
* * * * *
70469826 CAAAATAATTCATCAACATGCCGTC-TTTTTT-TT-GCCTTAGA-GGCATTTAGCGGCGCTTTTT
1 CAAAATAATTCACCAACATGACATCATTTTTTGTTAGCCTTA-ATGGCA-TTAGCGACACTTTTT
* *
70469887 -AACCAACACCGCTATAGGTCGAGCATTAGCGGTC-CTTTTTTAGAAGTGCTG
64 GAA-AAACACCGCTATAGATCGAGCATTAGCGG-CACTTTTTTAGAAGTGCTG
*
70469938 CAAAATATTTCACCAACATGACATCATTTTTTGTTGAGCCTTAATGGCATTAGCGACACTTTTTG
1 CAAAATAATTCACCAACATGACATCATTTTTTGTT-AGCCTTAATGGCATTAGCGACACTTTTTG
* *
70470003 AAAAACGCCGCTATAGATCGAGCTTTAGCGGCACTTTTTTAGAA
65 AAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTTTAGAA
70470047 AACGCTGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
112 21 0.23
113 6 0.07
114 3 0.03
115 50 0.54
116 12 0.13
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (114 bp):
CAAAATAATTCACCAACATGACATCATTTTTTGTTAGCCTTAATGGCATTAGCGACACTTTTTGA
AAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTTTAGAAGTGCTG
Found at i:70470206 original size:27 final size:27
Alignment explanation
Indices: 70470150--70470207 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
70470140 ATTCTTCAAA
*
70470150 AAAATAATAACACATAGAAAAAATTTT
1 AAAATAATAACACATAGAAAAAATTGT
*
70470177 AAAATAA-AA-ACATATAAAAATATATGT
1 AAAATAATAACACATAGAAAAA-AT-TGT
70470204 AAAA
1 AAAA
70470208 AATGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
26 4 0.15
27 13 0.48
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.24
Consensus pattern (27 bp):
AAAATAATAACACATAGAAAAAATTGT
Found at i:70470460 original size:7 final size:7
Alignment explanation
Indices: 70470405--70470500 Score: 50
Period size: 7 Copynumber: 13.3 Consensus size: 7
70470395 GAGTTAATAT
*
70470405 TTTAAGG
1 TTTATGG
70470412 TTTATGG
1 TTTATGG
*
70470419 ATTATGGG
1 TTTAT-GG
*
70470427 TTTA-GAA
1 TTTATG-G
*
70470434 TTTAAGG
1 TTTATGG
*
70470441 TTTAAGGG
1 TTT-ATGG
70470449 TTTATGG
1 TTTATGG
70470456 TTTATGAG
1 TTTATG-G
* **
70470464 TTAATAT
1 TTTATGG
*
70470471 TTTAAGG
1 TTTATGG
70470478 TTTATGG
1 TTTATGG
*
70470485 ATTATGG
1 TTTATGG
*
70470492 ATTATGG
1 TTTATGG
70470499 TT
1 TT
70470501 CAAAGGTTGA
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
6 1 0.01
7 49 0.73
8 17 0.25
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:70470615 original size:7 final size:8
Alignment explanation
Indices: 70470596--70470624 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
70470586 TTTGGGGATA
70470596 TGGTTTAG
1 TGGTTTAG
70470604 TGGTTT-G
1 TGGTTTAG
70470611 TGGTTTAG
1 TGGTTTAG
70470619 TGGTTT
1 TGGTTT
70470625 TAGGGACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (8 bp):
TGGTTTAG
Found at i:70470615 original size:37 final size:36
Alignment explanation
Indices: 70470560--70470646 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
70470550 AATGGCTAAG
* *
70470560 GGTTTAGGGGTTTATGGTTTAG-GTGTTTTGGGGATAT
1 GGTTTA-GGGTTTATGGTTTAGTG-GTTTTAGGGACAT
*
70470597 GGTTTAGTGGTTTGTGGTTTAGTGGTTTTAGGGACAT
1 GGTTTAG-GGTTTATGGTTTAGTGGTTTTAGGGACAT
*
70470634 GGTTCAGGGTTTA
1 GGTTTAGGGTTTA
70470647 AGGCTTATGA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 6 0.14
37 36 0.84
38 1 0.02
ACGTcount: A:0.14, C:0.02, G:0.39, T:0.45
Consensus pattern (36 bp):
GGTTTAGGGTTTATGGTTTAGTGGTTTTAGGGACAT
Found at i:70470616 original size:15 final size:15
Alignment explanation
Indices: 70470596--70470624 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70470586 TTTGGGGATA
70470596 TGGTTTAGTGGTTTG
1 TGGTTTAGTGGTTTG
70470611 TGGTTTAGTGGTTT
1 TGGTTTAGTGGTTT
70470625 TAGGGACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (15 bp):
TGGTTTAGTGGTTTG
Found at i:70474000 original size:105 final size:105
Alignment explanation
Indices: 70473796--70474261 Score: 733
Period size: 105 Copynumber: 4.4 Consensus size: 105
70473786 ATTTTAAATA
*
70473796 TTTTATTTTACTT-TTAAATTACCTAATTAAATTAAATTTTATTTAAAGTTTTATTTTGAATATG
1 TTTTATTTTA-TTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AA-A--
* * *
70473860 TTATTTTATTTTAATTTAATTTAATCACAAAAAATATTTTGTCTAC
61 -TATTTTATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
*
70473906 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * * *
70473971 CATTTTATTTTAATTTAATCACGAGAAATATTTTATTTAA
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
*
70474011 TTTTATTTTATTGTTGAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AATATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
70474075 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
* *
70474115 TTTTAATTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGCTTTATTTTAAATATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
70474180 TATTTTATTTTAATTTAATCAC--AAAATATTTTGTTTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
*
70474218 TTTTATTTTATTGTTAAATTACCTAATTAAAATAAATTGTATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTT
70474262 TTAAATATTG
Statistics
Matches: 335, Mismatches: 19, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
103 58 0.17
104 97 0.29
105 122 0.36
108 1 0.00
109 4 0.01
110 53 0.16
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (105 bp):
TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
Found at i:70474150 original size:209 final size:210
Alignment explanation
Indices: 70473795--70474261 Score: 744
Period size: 209 Copynumber: 2.2 Consensus size: 210
70473785 TATTTTAAAT
*
70473795 ATTTTATTTTACTT-TTAAATTACCTAATTAAATTAAATTTTATTTAAAGTTTTATTTTGAATAT
1 ATTTTATTTTA-TTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AATA-
* *
70473859 GTTATTTTATTTTAATTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAA
63 -TTATTTTATTTTAATTTAATTTAATCACAAAAAATATTTTGTCTACTTTTAATTTATTGTTAAA
*
70473924 TTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTTATTTTAATTTAA
127 TTACCTAATTAAATTAAATTGTATTTAAAGCTTTATTTTAAATATTTCATTTTATTTTAATTTAA
70473989 TCACGAGAAATATTTTATTTA
192 TCAC-A-AAATATTTTATTTA
*
70474010 ATTTTATTTTATTGTTGAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-A-A-TA
1 ATTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAATATTA
* * *
70474072 TTTTATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTACTTTTAATTTATTGTTAAATTAC
66 TTTTATTTTAATTTAATTTAATCACAAAAAATATTTTGTCTACTTTTAATTTATTGTTAAATTAC
*
70474137 CTAATTAAATTAAATTGTATTTAAAGCTTTATTTTAAATATTTTATTTTATTTTAATTTAATCAC
131 CTAATTAAATTAAATTGTATTTAAAGCTTTATTTTAAATATTTCATTTTATTTTAATTTAATCAC
*
70474202 AAAATATTTTGTTTA
196 AAAATATTTTATTTA
* *
70474217 CTTTTATTTTATTGTTAAATTACCTAATTAAAATAAATTGTATTT
1 ATTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTT
70474262 TTAAATATTG
Statistics
Matches: 238, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
207 55 0.23
208 1 0.00
209 125 0.53
212 1 0.00
213 1 0.00
214 2 0.01
215 53 0.22
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (210 bp):
ATTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAATATTA
TTTTATTTTAATTTAATTTAATCACAAAAAATATTTTGTCTACTTTTAATTTATTGTTAAATTAC
CTAATTAAATTAAATTGTATTTAAAGCTTTATTTTAAATATTTCATTTTATTTTAATTTAATCAC
AAAATATTTTATTTA
Found at i:70474549 original size:9 final size:9
Alignment explanation
Indices: 70474527--70474666 Score: 69
Period size: 9 Copynumber: 16.0 Consensus size: 9
70474517 AAATATATAT
*
70474527 CATATCTTA
1 CATAACTTA
*
70474536 CATAATTTA
1 CATAACTTA
**
70474545 CATAAGATA
1 CATAACTTA
* *
70474554 AACAACTTA
1 CATAACTTA
*
70474563 CATAATTTA
1 CATAACTTA
70474572 CATAACTTA
1 CATAACTTA
70474581 CATAA--TA
1 CATAACTTA
*
70474588 CATAA-ATA
1 CATAACTTA
* *
70474596 TAT-ATTATA
1 CATAACT-TA
70474605 TCATAACTTA
1 -CATAACTTA
70474615 CATAACTTA
1 CATAACTTA
70474624 CATAA--TA
1 CATAACTTA
* *
70474631 TATAA-ATA
1 CATAACTTA
* * *
70474639 TATATCATA
1 CATAACTTA
70474648 TCATAACTTA
1 -CATAACTTA
70474658 CATAACTTA
1 CATAACTTA
70474667 ATTATACTTA
Statistics
Matches: 102, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
7 14 0.14
8 10 0.10
9 66 0.65
10 10 0.10
11 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:70474610 original size:43 final size:43
Alignment explanation
Indices: 70474563--70474666 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
70474553 AAACAACTTA
* *
70474563 CATAATTTACATAACTTACATAATACATAAATATATATTATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
*
70474606 CATAACTTACATAACTTACATAATATATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
70474649 CATAACTTACATAACTTA
1 CATAACTTACATAACTTA
70474667 ATTATACTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (43 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATAT
Found at i:70474613 original size:34 final size:37
Alignment explanation
Indices: 70474572--70474647 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 37
70474562 ACATAATTTA
*
70474572 CATAACTTACATAA-TACATAA-ATATATAT-TATAT
1 CATAACTTACATAACTACATAATATATAAATATATAT
70474606 CATAACTTACATAACTTACATAATATATAAATATATAT
1 CATAACTTACATAAC-TACATAATATATAAATATATAT
70474644 CATA
1 CATA
70474648 TCATAACTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 14 0.38
36 7 0.19
37 7 0.19
38 9 0.24
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (37 bp):
CATAACTTACATAACTACATAATATATAAATATATAT
Found at i:70482681 original size:31 final size:31
Alignment explanation
Indices: 70482646--70482711 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
70482636 TGCATTTTTT
70482646 ATGCTACATTTG-TTGTTTTTGGTTGGATTCA
1 ATGCTACATTTGCTT-TTTTTGGTTGGATTCA
* *
70482677 ATGCTATATTTGCTTTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTTTTTTTGGTTGGATTCA
70482708 ATGC
1 ATGC
70482712 AGAAAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTTTTTTTGGTTGGATTCA
Found at i:70489707 original size:2 final size:2
Alignment explanation
Indices: 70489702--70489730 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
70489692 TTTAAAAAAT
70489702 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70489731 TGGTATTAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70489929 original size:39 final size:40
Alignment explanation
Indices: 70489868--70489943 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
70489858 ATCGAGTTTG
*
70489868 ATGTCCTTATATTAATTGTTT-AATTATT-TTGCATATACA
1 ATGTACTTATATTAATTGTTTAAATTATTATT-CATATACA
*
70489907 ATGTACTTATATTAATTTTTTAAATTATTATTCATAT
1 ATGTACTTATATTAATTGTTTAAATTATTATTCATAT
70489944 TTGGTAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 19 0.58
40 12 0.36
41 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (40 bp):
ATGTACTTATATTAATTGTTTAAATTATTATTCATATACA
Found at i:70496504 original size:23 final size:22
Alignment explanation
Indices: 70496478--70496562 Score: 61
Period size: 23 Copynumber: 3.8 Consensus size: 22
70496468 ATAACATATT
70496478 TTAAAAATACATAAATTTGTTGA
1 TTAAAAATA-ATAAATTTGTTGA
** *
70496501 TTAAATTTACAT--ATTTGTTGG
1 TTAAAAATA-ATAAATTTGTTGA
*
70496522 TTGAAAATTTTAATAAATTTGTTGA
1 TT-AAAA--ATAATAAATTTGTTGA
70496547 TT--AAATAATAAATTTG
1 TTAAAAATAATAAATTTG
70496563 GTTTAATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
20 11 0.22
21 10 0.20
22 5 0.10
23 12 0.24
24 3 0.06
25 10 0.20
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (22 bp):
TTAAAAATAATAAATTTGTTGA
Found at i:70496516 original size:21 final size:21
Alignment explanation
Indices: 70496491--70496552 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
70496481 AAAATACATA
70496491 AATTTGTTGATTAAATTTACAT
1 AATTTGTTGATTAAATTTA-AT
*
70496513 -ATTTGTTGGTTGAAAATTTTAAT
1 AATTTGTTGATT--AAA-TTTAAT
70496536 AAATTTGTTGATTAAAT
1 -AATTTGTTGATTAAAT
70496553 AATAAATTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
21 10 0.30
22 1 0.03
23 8 0.24
24 4 0.12
25 10 0.30
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (21 bp):
AATTTGTTGATTAAATTTAAT
Found at i:70511256 original size:46 final size:45
Alignment explanation
Indices: 70511204--70511377 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
70511194 TGGTTGAGCA
70511204 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
70511250 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
70511295 CATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
70511343 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
70511378 TGGCGGGTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.58
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:70511360 original size:93 final size:93
Alignment explanation
Indices: 70511201--70511371 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
70511191 GGATGGTTGA
* * **
70511201 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70511266 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
70511294 GCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70511359 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70511372 ACTTATTGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70514241 original size:46 final size:46
Alignment explanation
Indices: 70514139--70514306 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
70514129 AGATTTGTGT
* * * * * *
70514139 GCCAGTGTAAGACCATGTATGAGACATGGCATC-GGCATTGAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAGA
*
70514187 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAGA
* * **
70514233 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
*
70514279 GCCAGTGTTAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
70514307 GTCGACTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
45 2 0.02
46 74 0.71
47 17 0.16
48 11 0.11
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
Found at i:70514321 original size:46 final size:44
Alignment explanation
Indices: 70514190--70514350 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 44
70514180 GACGAGGGCT
* *
70514190 AGTGTAAGACATGTCTGGGACATGCATC-AGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTACAG-ATG-TAGCC
*
70514236 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTAC-AGATG-TAGCC
* * *
70514282 AGTGTTAGACATGTCTGGGACATGCGTCGACTACAAGATGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACTAC-AGATGTAGCC
* * *
70514326 AGTGTAAGAAAGGTCTAGGACATGC
1 AGTGTAAGACATGTCTGGGACATGC
70514351 GTTAGCACGG
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 23 0.23
45 4 0.04
46 68 0.69
47 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTACAGATGTAGCC
Found at i:70517827 original size:46 final size:46
Alignment explanation
Indices: 70517775--70517948 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
70517765 TGGTTGAGCA
*
70517775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
70517821 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
70517866 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
70517914 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
70517949 TGGCGGGTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 61 0.57
47 27 0.25
48 4 0.04
50 6 0.06
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:70517931 original size:93 final size:93
Alignment explanation
Indices: 70517772--70517942 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
70517762 GGATGGTTGA
* * ** *
70517772 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
70517837 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
70517865 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
70517930 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
70517943 ACTTATTGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70527176 original size:17 final size:19
Alignment explanation
Indices: 70527135--70527179 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
70527125 TTTTAATTAA
70527135 ATAAATAT-AATTTTATAT
1 ATAAATATGAATTTTATAT
70527153 ATAAATATGAA-TTTAT-T
1 ATAAATATGAATTTTATAT
*
70527170 TTAAATATGA
1 ATAAATATGA
70527180 TAGTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 10 0.40
18 13 0.52
19 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATAAATATGAATTTTATAT
Found at i:70528525 original size:20 final size:22
Alignment explanation
Indices: 70528484--70528525 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
70528474 AATGTGATTT
70528484 TTATTATTATTTGAGATGTTTAG
1 TTATTATTATTT-AGATGTTTAG
70528507 TTATTATTATTT-GAT-TTTA
1 TTATTATTATTTAGATGTTTA
70528526 ATAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
23 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (22 bp):
TTATTATTATTTAGATGTTTAG
Found at i:70532201 original size:22 final size:22
Alignment explanation
Indices: 70532176--70532217 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
70532166 ATTGTTAACA
*
70532176 TATATAATT-ATTTTAAATTTTT
1 TATA-AATTCATTTGAAATTTTT
70532198 TATAAATTCATTTGAAATTT
1 TATAAATTCATTTGAAATTT
70532218 GTTGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATAAATTCATTTGAAATTTTT
Found at i:70532473 original size:21 final size:22
Alignment explanation
Indices: 70532447--70532490 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
70532437 TAATGATATA
*
70532447 TATATAAATATAT-ATTTTTAT
1 TATATAAATATATAATTATTAT
*
70532468 TATATAATTATATAATTATTAT
1 TATATAAATATATAATTATTAT
70532490 T
1 T
70532491 TTATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATAAATATATAATTATTAT
Found at i:70532566 original size:99 final size:98
Alignment explanation
Indices: 70532362--70532568 Score: 235
Period size: 99 Copynumber: 2.1 Consensus size: 98
70532352 TAAATAAAAA
* *
70532362 ATATTT-TTATATAATTATATAATTATTAATTTATTTATATAAATAGAGGAGTTATTAATTAAAA
1 ATATTTATTATATAATTATATAATTATTAATTTATTTATATAAATAAAAGAGTTATTAATTAAAA
* * * *
70532426 AAAATTTAACATAATGATATATATATAAATATAT
66 AAAATTAAAAATAA-GAAAAATATATAAATATAT
* * * *
70532460 ATTTTTATTATATAATTATATAATTATTATTTTATTTATATTAGTAAAAGAGTTATTAATTAAAA
1 ATATTTATTATATAATTATATAATTATTAATTTATTTATATAAATAAAAGAGTTATTAATTAAAA
70532525 AGATGAATTAAAAATAA-AAAAACT-TGA-AAATA-AT
66 A-A--AATTAAAAATAAGAAAAA-TAT-ATAAATATAT
70532559 ATATTTATTA
1 ATATTTATTA
70532569 ATTAAAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
98 5 0.05
99 65 0.71
100 10 0.11
101 2 0.02
102 10 0.11
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (98 bp):
ATATTTATTATATAATTATATAATTATTAATTTATTTATATAAATAAAAGAGTTATTAATTAAAA
AAAATTAAAAATAAGAAAAATATATAAATATAT
Found at i:70533782 original size:21 final size:22
Alignment explanation
Indices: 70533735--70533775 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
70533725 AAATATCGTT
70533735 AAAAATAGTAGTTATCAAATAA
1 AAAAATAGTAGTTATCAAATAA
*
70533757 AAAAATAGTATTTAT-AAAT
1 AAAAATAGTAGTTATCAAAT
70533776 TATAAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAAATAGTAGTTATCAAATAA
Found at i:70533782 original size:22 final size:22
Alignment explanation
Indices: 70533734--70533782 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
70533724 CAAATATCGT
70533734 TAAAAATAGTAGTTATCAAATA
1 TAAAAATAGTAGTTATCAAATA
* *
70533756 AAAAAATAGTATTTAT-AAATTA
1 TAAAAATAGTAGTTATCAAA-TA
70533778 TAAAA
1 TAAAA
70533783 CAGACATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (22 bp):
TAAAAATAGTAGTTATCAAATA
Found at i:70540267 original size:16 final size:16
Alignment explanation
Indices: 70540235--70540269 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
70540225 TGTTATCTTC
**
70540235 AATTTTTTATTTCAAT
1 AATTTTTTATTAAAAT
70540251 AATTTTTTATTAAAAT
1 AATTTTTTATTAAAAT
70540267 AAT
1 AAT
70540270 AAGAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTTTATTAAAAT
Found at i:70545229 original size:14 final size:14
Alignment explanation
Indices: 70545189--70545232 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
70545179 AGAATATAGT
*
70545189 ATGAAAGAAAAATAA
1 ATGAAA-AAAATTAA
*
70545204 AT-AAATAAATTAA
1 ATGAAAAAAATTAA
70545217 ATGAAAAAAATTAA
1 ATGAAAAAAATTAA
70545231 AT
1 AT
70545233 TGTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (14 bp):
ATGAAAAAAATTAA
Found at i:70551055 original size:36 final size:36
Alignment explanation
Indices: 70551015--70551094 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
70551005 ATACATATAA
* *
70551015 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATACGT
* *
70551051 ATATAGATATATATAAAAAGAAATATGAGTATACGT
1 ATATATATATATATAAAAAGAAAAATGAGTATACGT
70551087 ATATATAT
1 ATATATAT
70551095 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:70551167 original size:22 final size:23
Alignment explanation
Indices: 70551141--70551189 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
70551131 TACAAGCACT
*
70551141 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
70551163 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
70551187 TAT
1 TAT
70551190 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:70551234 original size:3 final size:3
Alignment explanation
Indices: 70551223--70551275 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
70551213 CAATAATACC
* * *
70551223 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
70551268 AAT AAT AA
1 AAT AAT AA
70551276 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:70552814 original size:43 final size:44
Alignment explanation
Indices: 70552729--70553502 Score: 340
Period size: 44 Copynumber: 18.1 Consensus size: 44
70552719 TTTTAACCCA
* ** * *
70552729 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
*
70552772 CTCCGCTGTAA-TCTC-GGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTCTGGCTTCAATCTG
* ** *
70552815 CTCCACTGTAACTTCAGGG-GATAAGATCTGCAAT-TCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCT-C--TGGCTTCAATCTG
* * *** * * **
70552860 CTCCACTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAACCCA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTC-TGGCTTCAATCTG
* ** * *
70552904 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* *
70552947 CTCCGCTGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTCTGGCTTCAATCTG
* ** *
70552991 CTCCACTGTAACTTCAGGG-GATAAGATCTGCAAT-TCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCT-C--TGGCTTCAATCTG
* * * * * *
70553036 CTCCACTGTAACCTCAGAGAGATAAGA-C-CT-GATGCGATCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* * *** * *
70553077 CTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTC-TGGCTTCAATCTG
* * ** *
70553121 CTCCACTGTAACTTCAGGGAGATAGGAT-TATATCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* * * **
70553164 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAAT-TCTTCGGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCT-C--TGGCTTCAATCTG
* * * *
70553210 TTCCACTGTAA-TCTCAGGGAGATAAGA-C-CT-GATGT-GATCTT
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTCTGGCT-TCAATCTG
* * *
70553251 CTCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* ** *
70553290 CTCCA-TGTAAC-TCA-GGAGATAGGAT-TACTATCTT-GATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
* * * *
70553330 CTCCGCTGTAA-TCTCAGGGAGATAAGA--TCT-GATGT-GATCTT
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTCTGGCT-TCAATCTG
* * *
70553371 CTCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* * * ** **
70553410 CTCCATTGTAA-TCTCAAGGAGATAGGAT-TACTATCTTTGATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCT-CTGGCTTCAATCTG
*
70553454 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTCTGGCTTCAATCTG
70553498 CTCCA
1 CTCCA
70553503 ATGCAACCGA
Statistics
Matches: 560, Mismatches: 121, Indels: 99
0.72 0.16 0.13
Matches are distributed among these distances:
36 9 0.02
37 5 0.01
38 7 0.01
39 33 0.06
40 15 0.03
41 96 0.17
42 27 0.05
43 130 0.23
44 134 0.24
45 52 0.09
46 51 0.09
47 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCTCTGGCTTCAATCTG
Found at i:70553173 original size:87 final size:84
Alignment explanation
Indices: 70553082--70553358 Score: 250
Period size: 87 Copynumber: 3.3 Consensus size: 84
70553072 ATCTACTCTA
70553082 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 CTGTAACTTCAGAGAGATAAGATCC--TATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
70553147 ATTATATCTTCGATCTGCTCCG
64 ATTATATCTT-GATCTGCTCCG
* * * ** * *
70553169 CTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTAA-TCTCAGGGAGAT
1 CTGTAACTTCAGAGAGATAAGATC--CTATT-TT-AATCCGCTCCACTGTAACT-TCAGGGAGAT
* * * * * **
70553233 AAGACCT-GAT-GTGATCTTCTCTA
61 AGGA-TTATATCTTGATCTGCTCCG
70553256 CTGTAACTTCAGAGAGATAAGATCC---TTTAATCCGCTCCA-TGTAAC-TCA-GGAGATAGGAT
1 CTGTAACTTCAGAGAGATAAGATCCTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT
70553315 TACTATCTTGATCTGCTCCG
66 TA-TATCTTGATCTGCTCCG
*
70553335 CTGTAA-TCTCAGGGAGATAAGATC
1 CTGTAACT-TCAGAGAGATAAGATC
70553359 TGATGTGATC
Statistics
Matches: 151, Mismatches: 28, Indels: 30
0.72 0.13 0.14
Matches are distributed among these distances:
76 1 0.01
77 9 0.06
78 6 0.04
79 35 0.23
80 7 0.05
81 2 0.01
82 1 0.01
85 1 0.01
87 55 0.36
88 4 0.03
89 29 0.19
90 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (84 bp):
CTGTAACTTCAGAGAGATAAGATCCTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT
TATATCTTGATCTGCTCCG
Found at i:70553238 original size:174 final size:170
Alignment explanation
Indices: 70552805--70553360 Score: 658
Period size: 174 Copynumber: 3.2 Consensus size: 170
70552795 AGATCTCTGG
*
70552805 CTTCAATCTGCTCCACTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
* * * * * * * * **
70552870 ACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGT
66 ACCTCAGAGAGATAAGA-CC-TGA-TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
** * * * * * **
70552935 GTCTTCGATCTGCTCCGCTGTAA-TCTCGGGGAGATAAGATCTCTGG
128 -T-TTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGAT-TATAT
*
70552981 CTTCAATCTGCTCCACTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
1 CTTCAATCTGCTCCACTGTAACCTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
*
70553046 ACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
66 ACCTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC--T-
70553111 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
128 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
* * **
70553154 CTTCGATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGT
1 CTTCAATCTGCTCCACTGTAACCTCAGGG-GATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
* * *
70553219 AATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC--T
65 AACCTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTT
70553282 TTAATCCGCTCCA-TGTAAC-TCA-GGAGATAGGATTACTAT
130 TTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTA-TAT
* * *
70553321 CTT-GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 CTTCAATCTGCTCCACTGTAACCTCAGGG-GATAAGATCTG
70553361 ATGTGATCTT
Statistics
Matches: 344, Mismatches: 31, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
166 49 0.14
167 9 0.03
168 6 0.02
169 14 0.04
173 57 0.17
174 122 0.35
175 5 0.01
176 82 0.24
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (170 bp):
CTTCAATCTGCTCCACTGTAACCTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
ACCTCAGAGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTT
TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATAT
Found at i:70553273 original size:41 final size:41
Alignment explanation
Indices: 70552810--70553397 Score: 241
Period size: 41 Copynumber: 13.8 Consensus size: 41
70552800 TCTGGCTTCA
* *
70552810 ATCTGCTCCACTGTAACTTCAG-GGGATAAGATCTGCAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TT-G
* * * * *
70552855 GTCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA-CC-TGA-TTTG
* ** * * **
70552899 ACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTG-TCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA-CCTGAT-TT-G
* * * * **
70552942 ATCTGCTCCGCTGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGA-C-CT-GATTTG
* *
70552986 ATCTGCTCCACTGTAACTTCAG-GGGATAAGATCTGCAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TT-G
* * * **
70553031 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTGATTTG
* * * *
70553072 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA-CC-TGA-TTTG
* * * * *
70553116 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTATATCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCT-GAT-TT-G
* * * *
70553159 ATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTG--A-T-TT-G
* * * *
70553205 GTCTGTTCCACTGTAA-TCTCAGGGAGATAAGACCTGATGTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGACCTGATTTG
* * *
70553246 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC---TTTA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA-CCTGATTTG
* * *
70553285 ATCCGCTCCA-TGTAAC-TCAG-GAGATAGGATTACT-ATCTTG
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA--CCTGAT-TTG
* * * *
70553325 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTGATGTG
1 ATCTGCTCCACTGTAACT-TCAGAGAGATAAGACCTGATTTG
* *
70553366 ATCTTCTCTACTGTAACTTCAGAGAGATAAGA
1 ATCTGCTCCACTGTAACTTCAGAGAGATAAGA
70553398 TCCTTTAATC
Statistics
Matches: 415, Mismatches: 89, Indels: 82
0.71 0.15 0.14
Matches are distributed among these distances:
36 8 0.02
37 6 0.01
38 6 0.01
39 10 0.02
40 11 0.03
41 96 0.23
42 20 0.05
43 75 0.18
44 78 0.19
45 44 0.11
46 59 0.14
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
ATCTGCTCCACTGTAACTTCAGAGAGATAAGACCTGATTTG
Found at i:70553398 original size:41 final size:41
Alignment explanation
Indices: 70552729--70553483 Score: 303
Period size: 43 Copynumber: 17.7 Consensus size: 41
70552719 TTTTAACCCA
* * *
70552729 CTCCACTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTG
1 CTCCACTGTAACTTCAGAGAGATAAGAT-CTGAT-TT-GATCTG
* * * **
70552772 CTCCGCTGTAA-TCTC-GGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGAGAGATAAGA--TCT-GATTTGATCTG
* * *
70552815 CTCCACTGTAACTTCAG-GGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGAGAGATAAGATCTG--A-T-TT-GATCTG
* * * * **
70552860 CTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCA
1 CTCCACTGTAACTTCAGAGAGATAAGAT-C-TGA-TTTGATCTG
* * *
70552904 CTCCACTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTG
1 CTCCACTGTAACTTCAGAGAGATAAGAT-CTGAT-TT-GATCTG
* * * * **
70552947 CTCCGCTGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGAGAGATAAGA--TCT-GATTTGATCTG
* * *
70552991 CTCCACTGTAACTTCAG-GGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGAGAGATAAGATCTG--A-T-TT-GATCTG
* * ** *
70553036 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTA
1 CTCCACTGTAACTTCAGAGAGATAAGATCTGATTTGATCTG
* * * *
70553077 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAACTTCAGAGAGATAAGAT-C-TGA-TTTGATCTG
* * *
70553121 CTCCACTGTAACTTCAGGGAGATAGGAT-TATATCTTCGATCTG
1 CTCCACTGTAACTTCAGAGAGATAAGATCT-GAT-TT-GATCTG
* * * *
70553164 CTCCGCTGTAACCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAACTTCAGAGAGATAAGATCTG--A-T-TT-GATCTG
* * * * *
70553210 TTCCACTGTAA-TCTCAGGGAGATAAGACCTGATGTGATCTT
1 CTCCACTGTAACT-TCAGAGAGATAAGATCTGATTTGATCTG
* * * *
70553251 CTCTACTGTAACTTCAGAGAGATAAGATC--CTTTAATCCG
1 CTCCACTGTAACTTCAGAGAGATAAGATCTGATTTGATCTG
*
70553290 CTCCA-TGTAAC-TCAG-GAGATAGGATTACT-ATCTTGATCTG
1 CTCCACTGTAACTTCAGAGAGATAAGA-T-CTGAT-TTGATCTG
* * * *
70553330 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTGATGTGATCTT
1 CTCCACTGTAACT-TCAGAGAGATAAGATCTGATTTGATCTG
* * * *
70553371 CTCTACTGTAACTTCAGAGAGATAAGATC--CTTTAATCCG
1 CTCCACTGTAACTTCAGAGAGATAAGATCTGATTTGATCTG
* *
70553410 CTCCATTGTAA-TCTCA-AGGAGATAGGATTACT-ATCTTTGATCTG
1 CTCCACTGTAACT-TCAGA-GAGATAAGA-T-CTGA--TTTGATCTG
* *
70553454 CTCCGCTGTAA-TCTCAGGGAGATAAGATCT
1 CTCCACTGTAACT-TCAGAGAGATAAGATCT
70553484 CTGGCTTCAA
Statistics
Matches: 542, Mismatches: 111, Indels: 119
0.70 0.14 0.15
Matches are distributed among these distances:
36 8 0.01
37 5 0.01
38 9 0.02
39 35 0.06
40 13 0.02
41 104 0.19
42 31 0.06
43 115 0.21
44 114 0.21
45 46 0.08
46 60 0.11
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (41 bp):
CTCCACTGTAACTTCAGAGAGATAAGATCTGATTTGATCTG
Found at i:70553627 original size:84 final size:87
Alignment explanation
Indices: 70553443--70553748 Score: 301
Period size: 86 Copynumber: 3.6 Consensus size: 87
70553433 AGGATTACTA
* * * ** * * *
70553443 TCTTT-GATCTGCTCCGCTG-TAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCAAT-
1 TCTTTCGATCTGCTTCGCTGTTAAT-GCAGGAAGGCAAGATCTCTGTCTTCAACCAGCTCC-ATC
*
70553505 GCAACCGATGGAGGCAAGGCTTTG
64 ACAACCGATGGAGGCAAGGCTTTG
* * *
70553529 TCTTT-GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACT-TCTTTAACTAGCTCCAT-G
1 TCTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT-CTGTCTTCAACCAGCTCCATCA
* *
70553591 C-ATCGATGGATGCAAGGCTTTG
65 CAACCGATGGAGGCAAGGCTTTG
* * *
70553613 T-TTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTGTCTTCAACCAGCTCTATCAC
1 TCTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTCTGTCTTCAACCAGCTCCATCAC
**
70553677 AACCGAAAGAGGCAAGG-TTTG
66 AACCGATGGAGGCAAGGCTTTG
* *
70553698 TGTCTTCGATCTGCTTCGCTG-TAATGCA-GAAGGCAAGATCCTTTGTCTTCA
1 TCT-TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGAT-CTCTGTCTTCA
70553749 TTGATCTGTC
Statistics
Matches: 188, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
83 4 0.02
84 69 0.37
85 21 0.11
86 71 0.38
87 23 0.12
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (87 bp):
TCTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTCTGTCTTCAACCAGCTCCATCAC
AACCGATGGAGGCAAGGCTTTG
Found at i:70554994 original size:1 final size:1
Alignment explanation
Indices: 70554988--70555016 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
70554978 CTCTCCAAAG
70554988 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
70555017 AGGAAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:70566512 original size:22 final size:23
Alignment explanation
Indices: 70566486--70566534 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
70566476 TACAAGCACT
*
70566486 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
70566508 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
70566532 TAT
1 TAT
70566535 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:70566578 original size:3 final size:3
Alignment explanation
Indices: 70566567--70566619 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
70566557 ACATAATACC
* * *
70566567 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
70566612 AAT AAT AA
1 AAT AAT AA
70566620 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:70570038 original size:16 final size:16
Alignment explanation
Indices: 70570006--70570040 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
70569996 TATACTATGT
70570006 GAGGATAAGAATCAAG
1 GAGGATAAGAATCAAG
70570022 GAGGACTAAGAAT-AAG
1 GAGGA-TAAGAATCAAG
70570038 GAG
1 GAG
70570041 AATGGAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.49, C:0.06, G:0.34, T:0.11
Consensus pattern (16 bp):
GAGGATAAGAATCAAG
Found at i:70578402 original size:25 final size:25
Alignment explanation
Indices: 70578374--70578428 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
70578364 TTATGAGATA
*
70578374 AATAATTAAATTGTGATATTTTTGT
1 AATAATTAAATTGTGAGATTTTTGT
70578399 AATAATTAAATTGTGAGATTTTTGT
1 AATAATTAAATTGTGAGATTTTTGT
70578424 -ATAAT
1 AATAAT
70578429 AAACAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (25 bp):
AATAATTAAATTGTGAGATTTTTGT
Found at i:70578436 original size:27 final size:25
Alignment explanation
Indices: 70578381--70578437 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
70578371 ATAAATAATT
* **
70578381 AAATTGTGATATTTTTGTAATAATT
1 AAATTGTGAGATTTTTGTAATAAAC
70578406 AAATTGTGAGATTTTTGTATAATAAAC
1 AAATTGTGAGATTTTTG--TAATAAAC
70578433 AAATT
1 AAATT
70578438 AAGTAGTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 16 0.59
27 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (25 bp):
AAATTGTGAGATTTTTGTAATAAAC
Found at i:70579957 original size:20 final size:20
Alignment explanation
Indices: 70579917--70579953 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
70579907 TTACAAATGT
70579917 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
70579937 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
70579954 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:70580294 original size:20 final size:20
Alignment explanation
Indices: 70580275--70580311 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
70580265 CAAATGTGTG
70580275 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
70580294 GTAATAAATATTATACAT
1 GTAATAAATAATATACAT
70580312 ACATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:70580528 original size:18 final size:18
Alignment explanation
Indices: 70580501--70580536 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
70580491 GTTATTGAAT
70580501 AGATAATTATTAAGTAAA
1 AGATAATTATTAAGTAAA
* *
70580519 AGATATTTATTAATTAAA
1 AGATAATTATTAAGTAAA
70580537 CAATTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
AGATAATTATTAAGTAAA
Found at i:70582959 original size:13 final size:14
Alignment explanation
Indices: 70582939--70582976 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
70582929 ATATATTAGT
70582939 TAATAATAATAA-A
1 TAATAATAATAATA
*
70582952 TTATAATAATAATA
1 TAATAATAATAATA
70582966 TAAT-ATAATAA
1 TAATAATAATAA
70582977 CATTTAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:70582960 original size:16 final size:16
Alignment explanation
Indices: 70582939--70582976 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
70582929 ATATATTAGT
70582939 TAATAATAATA-AATTA
1 TAATAATAATATAA-TA
70582955 TAATAATAATATAATA
1 TAATAATAATATAATA
70582971 TAATAA
1 TAATAA
70582977 CATTTAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAATAATATAATA
Found at i:70583279 original size:17 final size:18
Alignment explanation
Indices: 70583250--70583287 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
70583240 AAAAATCTTA
70583250 TAATATAATTATTTAA-T
1 TAATATAATTATTTAACT
70583267 TAATA-AATATATTTAACT
1 TAATATAAT-TATTTAACT
70583285 TAA
1 TAA
70583288 ATTTTAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 12 0.63
18 4 0.21
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATATAATTATTTAACT
Found at i:70583862 original size:70 final size:70
Alignment explanation
Indices: 70583757--70583930 Score: 276
Period size: 70 Copynumber: 2.5 Consensus size: 70
70583747 TGGTTTTTAA
* *
70583757 TTTCATGTTTTATCTATAGTACTTATAAAACCTGCCTCACTTGGATGGTTTAATAGAGAAAAGTT
1 TTTCACGTTTTATCTATAGTACTTATAAAACCTGCCTCACTTGGATGGTTTAACAGAGAAAAGTT
70583822 TTTGG
66 TTTGG
* **
70583827 TTTCCCGTTTTATCTATAGTACTTATAAAACCTGCCTCACTTGGATGGTTTAACAGAGAAGGGTT
1 TTTCACGTTTTATCTATAGTACTTATAAAACCTGCCTCACTTGGATGGTTTAACAGAGAAAAGTT
70583892 TTTGG
66 TTTGG
* * *
70583897 TTTCATGTTTTCTCTATACTACTTATAAAACCTG
1 TTTCACGTTTTATCTATAGTACTTATAAAACCTG
70583931 TCCAATATTA
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 95 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (70 bp):
TTTCACGTTTTATCTATAGTACTTATAAAACCTGCCTCACTTGGATGGTTTAACAGAGAAAAGTT
TTTGG
Found at i:70590052 original size:3 final size:3
Alignment explanation
Indices: 70590044--70590085 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
70590034 TTAACCACCT
70590044 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
70590086 AGAAAACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:70591369 original size:10 final size:10
Alignment explanation
Indices: 70591356--70591381 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
70591346 TAAAATAGGT
70591356 AAAAAAAATA
1 AAAAAAAATA
70591366 AAAAAAAATA
1 AAAAAAAATA
70591376 AAAAAA
1 AAAAAA
70591382 TATATACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:70593770 original size:41 final size:39
Alignment explanation
Indices: 70593704--70593789 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 39
70593694 ATTTCATTAA
*
70593704 ATTTTTAAAATTAAAAAAATCAAAAAATTATAAAAATACT
1 ATTTTTAAAATTAAAAAAATCAAAAAATTATAAAAA-AAT
* * * *
70593744 ATTTTTAAAAATTAGAAATATTAAAAATTTATAAAAAAAT
1 ATTTTT-AAAATTAAAAAAATCAAAAAATTATAAAAAAAT
70593784 ATTTTT
1 ATTTTT
70593790 CCCACAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 14 0.35
41 26 0.65
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (39 bp):
ATTTTTAAAATTAAAAAAATCAAAAAATTATAAAAAAAT
Found at i:70609528 original size:11 final size:11
Alignment explanation
Indices: 70609508--70609542 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
70609498 AATATATTAT
70609508 AAATACATAAAA
1 AAATA-ATAAAA
70609520 AAATAATAAAA
1 AAATAATAAAA
70609531 AAAT-ATAAAA
1 AAATAATAAAA
70609541 AA
1 AA
70609543 TTACCTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
11 10 0.43
12 5 0.22
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAATAATAAAA
Found at i:70610190 original size:3 final size:3
Alignment explanation
Indices: 70610133--70610174 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
70610123 TACTTTTAAC
70610133 ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
70610175 GTATATGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:70610228 original size:21 final size:20
Alignment explanation
Indices: 70610175--70610228 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
70610165 ATTATTATTA
* *
70610175 GTATATGTTTTATTATATAT
1 GTATATATTTAATTATATAT
*
70610195 GCATATATCTTTAATATATATAT
1 G--TATATATTTAAT-TATATAT
70610218 GTATATATTTA
1 GTATATATTTA
70610229 TGTAGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 10 0.36
23 8 0.29
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (20 bp):
GTATATATTTAATTATATAT
Found at i:70610347 original size:23 final size:23
Alignment explanation
Indices: 70610268--70610371 Score: 93
Period size: 24 Copynumber: 4.3 Consensus size: 23
70610258 TTTTAATATG
* *
70610268 TATATATTATGTAAATATTTTAA
1 TATATATTATGTATATATTTTTA
70610291 TACTATATTATGTATATATTTTTA
1 TA-TATATTATGTATATATTTTTA
*
70610315 TATATGTTATGTACATATATTTTTTAA
1 TATATATTATGT--ATATA-TTTTT-A
* *
70610342 TATTATATT-TTTATATATTATTA
1 TA-TATATTATGTATATATTTTTA
*
70610365 TGTATAT
1 TATATAT
70610372 ATTTAATATC
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
22 5 0.07
23 13 0.19
24 25 0.37
25 10 0.15
26 5 0.07
27 5 0.07
28 5 0.07
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
TATATATTATGTATATATTTTTA
Found at i:70610357 original size:13 final size:15
Alignment explanation
Indices: 70610330--70610362 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
70610320 GTTATGTACA
70610330 TATATTTTTTAATAT
1 TATATTTTTTAATAT
70610345 TATA-TTTTTATATAT
1 TATATTTTTTA-ATAT
70610360 TAT
1 TAT
70610363 TATGTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTTTTAATAT
Found at i:70610359 original size:27 final size:26
Alignment explanation
Indices: 70610257--70610360 Score: 72
Period size: 25 Copynumber: 4.0 Consensus size: 26
70610247 CGTTTTTTTA
* * *
70610257 TTTTTAATATGTATATATTATGTAAAT
1 TTTTTAATAT-TATATTTTATATATAT
* * * *
70610284 ATTTTAATACTATATTATGTATATA-
1 TTTTTAATATTATATTTTATATATAT
* *
70610309 TTTTTATATATGT-TA-TGTACATATAT
1 TTTTTA-ATAT-TATATTTTATATATAT
70610335 TTTTTAATATTATATTTT-TATATAT
1 TTTTTAATATTATATTTTATATATAT
70610360 T
1 T
70610361 ATTATGTATA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
24 1 0.02
25 25 0.43
26 23 0.40
27 9 0.16
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (26 bp):
TTTTTAATATTATATTTTATATATAT
Found at i:70610385 original size:21 final size:22
Alignment explanation
Indices: 70610344--70610396 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
70610334 TTTTTTAATA
* *
70610344 TTATATTTTTATATATTATTA-
1 TTATATATTTATATATCATTAG
70610365 TGTATATATTTA-ATATCATTAG
1 T-TATATATTTATATATCATTAG
70610387 TTATATATTT
1 TTATATATTT
70610397 TTTATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATATATTTATATATCATTAG
Found at i:70610417 original size:25 final size:25
Alignment explanation
Indices: 70610345--70610431 Score: 71
Period size: 25 Copynumber: 3.7 Consensus size: 25
70610335 TTTTTAATAT
70610345 TATA-TTTTTATA-TATTATTATGTA
1 TATATTTTTTATACTATT-TTATGTA
**
70610369 TATATTTAATAT-C-A--TTA-GTTA
1 TATATTTTTTATACTATTTTATG-TA
70610390 TATATTTTTTATACTATTTTATGTA
1 TATATTTTTTATACTATTTTATGTA
* *
70610415 TATATTTCTAATACTAT
1 TATATTTTTTATACTAT
70610432 ATATTGTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
20 1 0.02
21 15 0.31
22 1 0.02
23 1 0.02
24 5 0.10
25 25 0.51
26 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATTTTTTATACTATTTTATGTA
Found at i:70610439 original size:25 final size:25
Alignment explanation
Indices: 70610388--70610468 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
70610378 TATCATTAGT
* * *
70610388 TATATATTTTTTATACTAT-TTTATG
1 TATATATTTCTAATACTATATAT-TG
70610413 TATATATTTCTAATACTATATATTG
1 TATATATTTCTAATACTATATATTG
*
70610438 --TATATTTCTAATACCATTATTATT-
1 TATATATTTCTAATACTA-TA-TATTG
70610462 TATATAT
1 TATATAT
70610469 GTATATATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
23 15 0.32
24 2 0.04
25 23 0.49
26 7 0.15
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
TATATATTTCTAATACTATATATTG
Found at i:70610756 original size:27 final size:25
Alignment explanation
Indices: 70610726--70610785 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
70610716 TAATATATAA
* *
70610726 ATTATGTATACATTTTTTAAATACTAT
1 ATTATGTATACA-TATTT-AATACCAT
* *
70610753 ATTATATATATATATTTAATACCAT
1 ATTATGTATACATATTTAATACCAT
70610778 ATTATGTA
1 ATTATGTA
70610786 CATATTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 14 0.50
26 4 0.14
27 10 0.36
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (25 bp):
ATTATGTATACATATTTAATACCAT
Found at i:70610830 original size:12 final size:12
Alignment explanation
Indices: 70610815--70610928 Score: 53
Period size: 12 Copynumber: 9.3 Consensus size: 12
70610805 TTTTTACCCC
70610815 TATTATATTTAT
1 TATTATATTTAT
*
70610827 TATTA-ATATTAG
1 TATTATAT-TTAT
70610839 TA-TATATATT-T
1 TATTATAT-TTAT
*
70610850 TATTATACGTGTA-
1 TATTATA--TTTAT
70610863 TATATATACTTT-T
1 TAT-TATA-TTTAT
70610876 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
70610891 T-TT-TATATAT
1 TATTATATTTAT
*
70610901 CATTATATTTAT
1 TATTATATTTAT
*
70610913 TATTATACTTAT
1 TATTATATTTAT
70610925 TATT
1 TATT
70610929 TTCACTATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
10 3 0.04
11 9 0.11
12 41 0.52
13 16 0.20
14 8 0.10
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:70610887 original size:24 final size:22
Alignment explanation
Indices: 70610818--70610918 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 22
70610808 TTACCCCTAT
70610818 TATAT-TTATTATTAATATTAGTA
1 TATATATT-TTATT-ATATTAGTA
70610841 TATATATTTTATTATACGTGTA-TA
1 TATATATTTTATTATA--T-TAGTA
*
70610865 TATATACTTT-TTATATATAGTA
1 TATATATTTTATTATAT-TAGTA
* *
70610887 T-TAT-TTTTA-TATATCATTA
1 TATATATTTTATTATATTAGTA
*
70610906 TATTTATTATTAT
1 TATATATT-TTAT
70610919 ACTTATTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
19 4 0.06
20 10 0.16
21 8 0.13
22 9 0.15
23 15 0.24
24 14 0.23
25 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (22 bp):
TATATATTTTATTATATTAGTA
Found at i:70610895 original size:18 final size:18
Alignment explanation
Indices: 70610872--70610930 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
70610862 ATATATATAC
*
70610872 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
70610890 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
70610908 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
70610927 TTTT
1 TTTT
70610931 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:70612169 original size:9 final size:9
Alignment explanation
Indices: 70612155--70612186 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
70612145 ATAAGTATAA
70612155 AATTAACCG
1 AATTAACCG
70612164 AATTAACCG
1 AATTAACCG
70612173 AATTAACCG
1 AATTAACCG
70612182 AATTA
1 AATTA
70612187 TTTGTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:70612221 original size:5 final size:6
Alignment explanation
Indices: 70612206--70612246 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
70612196 AATTATATGT
*
70612206 TTTTTA TTTTTA TTTTTA GTTTTAAA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
70612247 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:70612234 original size:20 final size:21
Alignment explanation
Indices: 70612211--70612260 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
70612201 TATGTTTTTT
70612211 ATTTTTATTTTTAGTT-TTAA
1 ATTTTTATTTTTAGTTATTAA
*
70612231 ATTTTTATTTTTATTTATTAA
1 ATTTTTATTTTTAGTTATTAA
70612252 ATTATTTAT
1 ATT-TTTAT
70612261 AATTTTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 15 0.56
21 7 0.26
22 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTTATTTTTAGTTATTAA
Found at i:70612268 original size:21 final size:21
Alignment explanation
Indices: 70612227--70612269 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
70612217 ATTTTTAGTT
**
70612227 TTAAATTTTTATTTTTATTTA
1 TTAAATTTTTATAATTATTTA
70612248 TTAAATTATTTATAATT-TTTA
1 TTAAATT-TTTATAATTATTTA
70612269 T
1 T
70612270 GATTGGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTAAATTTTTATAATTATTTA
Found at i:70614547 original size:17 final size:17
Alignment explanation
Indices: 70614497--70614547 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
70614487 AATCTGAAAA
70614497 ATTAAAAGTAAAA-AAT
1 ATTAAAAGTAAAATAAT
*
70614513 -TAGAAAGAGTACAAATAAT
1 AT-TAAA-AGTA-AAATAAT
70614532 ATTAAAAGTAAAATAA
1 ATTAAAAGTAAAATAA
70614548 AATAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 10 0.36
18 7 0.25
19 6 0.21
20 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.24
Consensus pattern (17 bp):
ATTAAAAGTAAAATAAT
Found at i:70627254 original size:33 final size:33
Alignment explanation
Indices: 70627212--70627309 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
70627202 TTTCTTCTTG
*
70627212 ACATTCCAGCTCCTGTCCAGCAACCAAACATTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
70627245 ACATTCCAGCTCCTGTCTAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
70627278 -CTATTCCAGCTCCTGTCCAGCAACCAAACACT
1 AC-ATTCCAGCTCCTGTCCAGCAACCAAACACT
70627310 TCCACTCAGT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 1 0.02
33 60 0.98
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:70631537 original size:18 final size:18
Alignment explanation
Indices: 70631510--70631562 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
70631500 TTTTAAATCT
*
70631510 TATAAAAATTTAAATAA-
1 TATAAAAATTTAAAAAAC
70631527 TATATAAAATTTAAAAAAC
1 TATA-AAAATTTAAAAAAC
70631546 TATAAAAATTATAAAAA
1 TATAAAAATT-TAAAAA
70631563 TCTAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.12
18 18 0.56
19 10 0.31
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAAAAATTTAAAAAAC
Found at i:70631563 original size:9 final size:9
Alignment explanation
Indices: 70631509--70631575 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
70631499 TTTTTAAATC
70631509 TTATAAAAA
1 TTATAAAAA
70631518 TT-TAAATAA
1 TTATAAA-AA
*
70631527 TATATAAAAT
1 T-TATAAAAA
70631537 TTA-AAAAA
1 TTATAAAAA
*
70631545 CTATAAAAA
1 TTATAAAAA
70631554 TTATAAAAA
1 TTATAAAAA
*
70631563 -TCT-AAAA
1 TTATAAAAA
70631570 TTATAA
1 TTATAA
70631576 GGAAAAATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
7 4 0.09
8 14 0.30
9 21 0.46
10 3 0.07
11 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:70637727 original size:20 final size:20
Alignment explanation
Indices: 70637702--70637740 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
70637692 TAAATATATT
70637702 AAATTA-TTATATATAAATTC
1 AAATTAGTT-TATATAAATTC
*
70637722 AAATTAGTTTATTTAAATT
1 AAATTAGTTTATATAAATT
70637741 ATATAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
AAATTAGTTTATATAAATTC
Found at i:70643046 original size:46 final size:44
Alignment explanation
Indices: 70642942--70643049 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
70642932 TGTCTTTGAC
** * * *
70642942 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
70642986 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
70643032 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
70643050 TTTTTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:70644721 original size:12 final size:12
Alignment explanation
Indices: 70644699--70644727 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
70644689 TAAATGTTTC
70644699 TAAAA-TAATAA
1 TAAAATTAATAA
70644710 TAAAATTAATAA
1 TAAAATTAATAA
70644722 TAAAAT
1 TAAAAT
70644728 AATGATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:70650353 original size:25 final size:25
Alignment explanation
Indices: 70650311--70650359 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
70650301 TAATTTTCTA
70650311 AAATTTTAAAAAAATTATG-TTTTG
1 AAATTTTAAAAAAATTATGATTTTG
* *
70650335 AAATTTTCAAAATATTTATGATTTT
1 AAATTTT-AAAAAAATTATGATTTT
70650360 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (25 bp):
AAATTTTAAAAAAATTATGATTTTG
Found at i:70651858 original size:5 final size:5
Alignment explanation
Indices: 70651848--70651879 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
70651838 TTTACTGTGA
70651848 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
70651880 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:70651868 original size:14 final size:14
Alignment explanation
Indices: 70651849--70651879 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
70651839 TTACTGTGAA
70651849 AAATAAAATAAAAT
1 AAATAAAATAAAAT
70651863 AAATAAAATAAAAT
1 AAATAAAATAAAAT
70651877 AAA
1 AAA
70651880 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:70656313 original size:14 final size:13
Alignment explanation
Indices: 70656289--70656319 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
70656279 TACCAATTTG
70656289 TAAAAAAATAAAA
1 TAAAAAAATAAAA
70656302 TAAAATAAATAAAA
1 TAAAA-AAATAAAA
70656316 TAAA
1 TAAA
70656320 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:70662557 original size:30 final size:31
Alignment explanation
Indices: 70662518--70662579 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
70662508 AGGTCAAACT
70662518 ATAACAATAATCACTTA-ACTTT-GATAAAATA
1 ATAACAATAATCA-TTACACTTTAGA-AAAATA
70662549 ATAA-AATAATCATTACACTTTAGAAAAATA
1 ATAACAATAATCATTACACTTTAGAAAAATA
70662579 A
1 A
70662580 CAAATCAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 3 0.10
30 20 0.69
31 6 0.21
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (31 bp):
ATAACAATAATCATTACACTTTAGAAAAATA
Found at i:70664008 original size:170 final size:171
Alignment explanation
Indices: 70663675--70664015 Score: 452
Period size: 170 Copynumber: 2.0 Consensus size: 171
70663665 AGAGAGTAAC
* *
70663675 AGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAATTGAAACAATTGCTAAGATGATTCTTC
1 AGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGATAAGATGATTCTTC
* * * ** *
70663740 TTCTATTGTCTGTAGCCCAACTAGGGTTCTTAAATTGGGGTTGTTTACACCATGGAATGACATGT
66 TTCTACTGTC-GCAACCCAACTAGGGTTCTTAAATTGGGGTCATTTACACCATGGAATGACAGGT
* * *
70663805 TAGCTTTCCGTTATAGACATAACGAAAAATGGTGAAAAGTTT
130 CAGCTTTCCGTTACAAACATAACGAAAAATGGTGAAAAGTTT
* * * * **
70663847 AGTGGCTGAAAATTTTGAACTTTTGCATGTTTCCAAAACTGAAACAATT-ATTAGTCTTCTTCTT
1 AGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGATAAG-ATGATTCTT
*
70663911 CTTCTACTGTC-CAACCCAACTAGGGTTCTTAAATTGGGGTCATTTACACCATGGGATGACAGGT
65 CTTCTACTGTCGCAACCCAACTAGGGTTCTTAAATTGGGGTCATTTACACCATGGAATGACAGGT
** * *
70663975 CAGCTTTTTGTTACAAACGTAACGAAGAATGGTGAAAAGTT
130 CAGCTTTCCGTTACAAACATAACGAAAAATGGTGAAAAGTT
70664016 CATTGGCTAA
Statistics
Matches: 146, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
170 81 0.55
171 3 0.02
172 62 0.42
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (171 bp):
AGTGGCTGAAAAATTTGAACTTTTGCATGTTCCCAAAACTGAAACAATTGATAAGATGATTCTTC
TTCTACTGTCGCAACCCAACTAGGGTTCTTAAATTGGGGTCATTTACACCATGGAATGACAGGTC
AGCTTTCCGTTACAAACATAACGAAAAATGGTGAAAAGTTT
Found at i:70664780 original size:3 final size:3
Alignment explanation
Indices: 70664772--70664811 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
70664762 AGATATTTAC
70664772 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
70664812 CAATTAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:70675218 original size:29 final size:27
Alignment explanation
Indices: 70675186--70675245 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
70675176 TTAATTGAAT
* *
70675186 TAAATTATTTAATTTTTTATTAAATCAAA
1 TAAATAATTTAATTTTTTA--AAATAAAA
*
70675215 TAAATAATTTTATTTTTTAAAATAAAA
1 TAAATAATTTAATTTTTTAAAATAAAA
70675242 TAAA
1 TAAA
70675246 ATTAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 11 0.39
29 17 0.61
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TAAATAATTTAATTTTTTAAAATAAAA
Found at i:70685225 original size:31 final size:30
Alignment explanation
Indices: 70685190--70685247 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
70685180 AAATTTAAAT
* *
70685190 TTTTATATTTTTATTTTTAAGAATTTAGTTA
1 TTTTATATTTTAAATTTTAA-AATTTAGTTA
70685221 TTTTATATTTTAAATTTTAAAATTTAG
1 TTTTATATTTTAAATTTTAAAATTTAG
70685248 GTTTAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (30 bp):
TTTTATATTTTAAATTTTAAAATTTAGTTA
Found at i:70685289 original size:16 final size:17
Alignment explanation
Indices: 70685268--70685301 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
70685258 TAATGTTATT
70685268 ATTATTTTTT-ATTAAA
1 ATTATTTTTTAATTAAA
70685284 ATTATTTTTTAATTAAA
1 ATTATTTTTTAATTAAA
70685301 A
1 A
70685302 AAATTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTTTTTAATTAAA
Found at i:70699000 original size:127 final size:124
Alignment explanation
Indices: 70698686--70699006 Score: 371
Period size: 124 Copynumber: 2.6 Consensus size: 124
70698676 TTAAAAATTC
* ** *
70698686 TCTAAAACAAAGGTAATGTTTGATATTTGAAAATTTG-GGAATCGTGCCCTACCGTGCTGGGTTT
1 TCTAAAAC-AAGGCAATGTTTGATGCTTGAAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTT
* * *
70698750 CAATTTCCTGTTTATTCAAAATAATCAAACATTCCTTTAGAATTTCACTTTTTTTAAAAT
65 CGATTTCCTGCTTATCCAAAATAATCAAACATTCCTTTAGAATTTCACTTTTTTTAAAAT
* * * * **
70698810 TCTAAAACAATGCAATGTTTGTTGCTTGAAAATTCGGGGAACCGTGCCCTATTGTGCTGGGTTTC
1 TCTAAAACAAGGCAATGTTTGATGCTTGAAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTC
*
70698875 GATTT-CTCGCTTATCCAAAATCATCAAACATTCCTTTAGAATTTCATTCGTATTTTTT-AAAT
66 GATTTCCT-GCTTATCCAAAATAATCAAACATTCCTTTAGAATTTCA--C-T-TTTTTTAAAAT
** * ** *
70698937 TCTAAAACAAGGGGATGTTCT-ATGTTTGGGAATTCGAGGAATCGTGCCCTACCGTGCTAGGTTT
1 TCTAAAACAAGGCAATGTT-TGATGCTTGAAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTT
70699001 CGATTT
65 CGATTT
70699007 TTTGTTGGAC
Statistics
Matches: 165, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
123 24 0.15
124 72 0.44
126 1 0.01
127 61 0.37
128 7 0.04
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (124 bp):
TCTAAAACAAGGCAATGTTTGATGCTTGAAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTC
GATTTCCTGCTTATCCAAAATAATCAAACATTCCTTTAGAATTTCACTTTTTTTAAAAT
Found at i:70700250 original size:25 final size:26
Alignment explanation
Indices: 70700200--70700250 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
70700190 GGAAAGAGGC
*
70700200 AAAAGAAAAGGGAAAAAAAATGAAGA
1 AAAAGAAAAGGGAAAAAAAATAAAGA
*
70700226 AAAAG-AAA-GGAAAAGAAAGTAAAGA
1 AAAAGAAAAGGGAAAA-AAAATAAAGA
70700251 CAAATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 11 0.50
26 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.04
Consensus pattern (26 bp):
AAAAGAAAAGGGAAAAAAAATAAAGA
Done.