Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 335 of 345
Found at i:100056114 original size:30 final size:31
Alignment explanation
Indices: 100056059--100056145 Score: 140
Period size: 30 Copynumber: 2.8 Consensus size: 31
100056049 TGAAACATAG
100056059 GAGTGATCAAATTATAAATTTATTAATAATT
1 GAGTGATCAAATTATAAATTTATTAATAATT
* *
100056090 GAGTGATTAAATTATAAA-TTATTAATTATT
1 GAGTGATCAAATTATAAATTTATTAATAATT
*
100056120 GAGGGATCAAATTATAAATTTATTAA
1 GAGTGATCAAATTATAAATTTATTAA
100056146 CCCATCTAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 27 0.53
31 24 0.47
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (31 bp):
GAGTGATCAAATTATAAATTTATTAATAATT
Found at i:100056214 original size:30 final size:30
Alignment explanation
Indices: 100056174--100056231 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
100056164 CGCTTATGAC
* * * *
100056174 TTCAATTAATTTAATAATCAATTTATAACT
1 TTCAAATAATTCAATAACCAATATATAACT
100056204 TTCAAATAATTCAATAACCAATATATAA
1 TTCAAATAATTCAATAACCAATATATAA
100056232 TTTTTTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (30 bp):
TTCAAATAATTCAATAACCAATATATAACT
Found at i:100060398 original size:14 final size:14
Alignment explanation
Indices: 100060376--100060407 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
100060366 GGTTAGTTAC
100060376 ATAATATAT-TAA-
1 ATAATATATATAAT
100060388 ATAATATATATAAT
1 ATAATATATATAAT
100060402 ATAATA
1 ATAATA
100060408 AAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATATATAAT
Found at i:100061402 original size:56 final size:56
Alignment explanation
Indices: 100061316--100061451 Score: 236
Period size: 56 Copynumber: 2.4 Consensus size: 56
100061306 ACCATGGCAT
100061316 CGATATATGTGTGCGAGTAAGACCACGTTTAATAAGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATAAGTTGGCATCGATATGTGATTC
** * *
100061372 CGATATATGTGTATGAGTAAGACCACGTTTAATACGTTGGCATCTATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATAAGTTGGCATCGATATGTGATTC
100061428 CGATATATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
100061452 TTGTCTGGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATAAGTTGGCATCGATATGTGATTC
Found at i:100061691 original size:16 final size:16
Alignment explanation
Indices: 100061667--100061697 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100061657 TGGTTATTTA
*
100061667 ATATTTGATGCAAATT
1 ATATATGATGCAAATT
100061683 ATATATGATGCAAAT
1 ATATATGATGCAAAT
100061698 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:100061707 original size:19 final size:19
Alignment explanation
Indices: 100061683--100061726 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
100061673 GATGCAAATT
100061683 ATATATGATGCAAATG-AAA
1 ATATATG-TGCAAATGAAAA
* *
100061702 ATATATGTGTATATGAAAA
1 ATATATGTGCAAATGAAAA
100061721 ATATAT
1 ATATAT
100061727 TCGGCCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
ATATATGTGCAAATGAAAA
Found at i:100065165 original size:11 final size:11
Alignment explanation
Indices: 100065149--100065179 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
100065139 GTAATGTTAA
100065149 AATATATACAT
1 AATATATACAT
100065160 AATATATACAT
1 AATATATACAT
100065171 ATATATATA
1 A-ATATATA
100065180 AAATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATATACAT
Found at i:100065641 original size:17 final size:18
Alignment explanation
Indices: 100065609--100065642 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
100065599 GGAACTTATT
100065609 AATACGCTACATAGATAC
1 AATACGCTACATAGATAC
*
100065627 AATACG-TATATAGATA
1 AATACGCTACATAGATA
100065643 TAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (18 bp):
AATACGCTACATAGATAC
Found at i:100065700 original size:11 final size:11
Alignment explanation
Indices: 100065686--100065753 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
100065676 TAATATTTGA
100065686 AATATATACAT
1 AATATATACAT
* *
100065697 AATATAAAAAT
1 AATATATACAT
*
100065708 -ATATATATAT
1 AATATATACAT
* **
100065718 AATGTAGTTTTAT
1 AATATA--TACAT
100065731 AATATATACAT
1 AATATATACAT
100065742 AATATATACAT
1 AATATATACAT
100065753 A
1 A
100065754 TTAAAAATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 8 0.18
11 28 0.62
13 9 0.20
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (11 bp):
AATATATACAT
Found at i:100065774 original size:18 final size:20
Alignment explanation
Indices: 100065740--100065778 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
100065730 TAATATATAC
100065740 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
100065760 ATAATA-ATA-ATATTAAAA
1 ATAATATATACATATTAAAA
100065778 A
1 A
100065779 AAACAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:100065995 original size:2 final size:2
Alignment explanation
Indices: 100065990--100066019 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
100065980 TATAACAAGC
100065990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100066020 GGGTATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100068054 original size:75 final size:72
Alignment explanation
Indices: 100067873--100068090 Score: 267
Period size: 75 Copynumber: 3.0 Consensus size: 72
100067863 CTCTTTAAAA
* * * *
100067873 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-ATTCTTGAAAAGCAGAAA
1 CTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA-CAGAAA
100067937 TTGAAAATAC
64 TT-AAAATAC
* *
100067947 CTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAA
1 CTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA--AACAGAAA
100068012 TTAAAATTAC
64 TTAAAA-TAC
* ** * * *
100068022 CTTAGTGTGACTTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTCTTTGAAACATAAATT
1 CTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAATT
100068087 AAAA
66 AAAA
100068091 AACAAAAATT
Statistics
Matches: 127, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
73 13 0.10
74 48 0.38
75 64 0.50
76 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (72 bp):
CTCAACGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAATT
AAAATAC
Found at i:100068207 original size:73 final size:72
Alignment explanation
Indices: 100068085--100068244 Score: 232
Period size: 73 Copynumber: 2.2 Consensus size: 72
100068075 GAAACATAAA
* * *
100068085 TTAAAAAACAAAAATTGAACATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCT-AGCAATATG
1 TTAAAAAACAGAAATTGAAAATACCTCAGTATGCCCCGAGGCTCAACTCACCTCTCA-CAATATG
100068149 AGTCGATTT
65 AGTCGA-TT
* * *
100068158 TTGAAAAACAGAAATTGAAAATACCTCAGTATGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTAAAAAACAGAAATTGAAAATACCTCAGTATGCCCCGAGGCTCAACTCACCTCTCACAATATGA
*
100068223 GTTGATT
66 GTCGATT
100068230 TTAAAAAACAGAAAT
1 TTAAAAAACAGAAAT
100068245 AAAAATATCA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
72 16 0.21
73 61 0.78
74 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (72 bp):
TTAAAAAACAGAAATTGAAAATACCTCAGTATGCCCCGAGGCTCAACTCACCTCTCACAATATGA
GTCGATT
Found at i:100080600 original size:19 final size:19
Alignment explanation
Indices: 100080567--100080620 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
100080557 TGTTTCGTCC
* *
100080567 TTCTTTTTTTCCTTTTTCTT
1 TTCTTTATTT-CTTTTTATT
100080587 TAT-TTTATTTCTTTTTATT
1 T-TCTTTATTTCTTTTTATT
*
100080606 TTCTTTATTTGTTTT
1 TTCTTTATTTCTTTT
100080621 AACTATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 20 0.69
20 7 0.24
21 1 0.03
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (19 bp):
TTCTTTATTTCTTTTTATT
Found at i:100089481 original size:25 final size:27
Alignment explanation
Indices: 100089444--100089496 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
100089434 TCAAACATGC
100089444 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
100089470 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
100089496 A
1 A
100089497 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:100091004 original size:26 final size:26
Alignment explanation
Indices: 100090968--100091077 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
100090958 CATGAAATTC
100090968 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100090994 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100091020 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
100091046 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100091072 TTATCA
1 TTATCA
100091078 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100095206 original size:25 final size:27
Alignment explanation
Indices: 100095169--100095221 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
100095159 TCAAACATGC
100095169 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
100095195 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
100095221 A
1 A
100095222 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:100096724 original size:26 final size:26
Alignment explanation
Indices: 100096695--100096804 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
100096685 CATGAAATTC
*
100096695 TTATCATGAAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
100096721 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100096747 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
100096773 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100096799 TTATCA
1 TTATCA
100096805 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100098161 original size:47 final size:45
Alignment explanation
Indices: 100098041--100098261 Score: 180
Period size: 47 Copynumber: 4.8 Consensus size: 45
100098031 GATTTCTTGT
* * * *
100098041 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GACCACATTATAA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTAGA-GATGA
* * * *
100098087 GTGTCAGTATAATACCATGTCTAGGACATGACATCAGCGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCAGC-TAGAGATGA
* * *
100098135 GTGCCAGTGTAAGACGTGTCTGGGACATGCATCTGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTAGA-GATGA
* * *
100098182 -TAGCCAGTGTAAGACATGTCTGGGACTTGCATCGGCTA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAGAGATG-A
* * *
100098226 GTGCTAGTGTAAGACATGTCCGGAACATGCATCAGC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
100098262 ACGTATATAC
Statistics
Matches: 141, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.22
45 2 0.01
46 22 0.16
47 63 0.45
48 19 0.13
49 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAGAGATGA
Found at i:100098202 original size:94 final size:90
Alignment explanation
Indices: 100098041--100098357 Score: 218
Period size: 94 Copynumber: 3.4 Consensus size: 90
100098031 GATTTCTTGT
* * *
100098041 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATAAGTGTCAGTATAATACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATAAG-GCCAGTATAAGACCATG
100098106 TCTAGGACATGACATCAGCGT-AGAGATGA
65 TCTAGGACATG-CATCAGC-TAAGAG-T-A
* * *
100098135 GTGCCAGTGTAAGACGTGTCTGGGACATGCATCTGCCTCGACGATGAT-A-GCCAGTGTAAGA-C
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-GAC-C-AC-ATGATAAGGCCAGTATAAGACC
* * * *
100098197 ATGTCTGGGACTTGCATCGGCTAAGAGTT
62 ATGTCTAGGACATGCATCAGCTAAGAGTA
* * * * *
100098226 GTGCTAGTGTAAGACATGTCCGGAACATGCATC-AGCACGTAT-ATACGAGAGCTAGTATAAGAC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCAC--ATGATA--AG-GCCAGTATAAGAC
* * * *
100098289 CATGTCTGGGACATGGCATCGACCTCTATGAGGA
61 CATGTCTAGGACAT-GCATC-A--GCTAAGAGTA
100098323 -TAGCCAGTGTAAGACCATGTCT-GGACATGGCATCG
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
100098358 GCAACTTATC
Statistics
Matches: 175, Mismatches: 28, Indels: 35
0.74 0.12 0.15
Matches are distributed among these distances:
87 4 0.02
88 3 0.02
90 1 0.01
91 29 0.17
92 12 0.07
93 23 0.13
94 50 0.29
95 11 0.06
96 2 0.01
97 25 0.14
98 15 0.09
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (90 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATAAGGCCAGTATAAGACCATGT
CTAGGACATGCATCAGCTAAGAGTA
Found at i:100098336 original size:49 final size:46
Alignment explanation
Indices: 100098043--100098357 Score: 166
Period size: 47 Copynumber: 6.7 Consensus size: 46
100098033 TTTCTTGTGT
* *
100098043 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTAT-AAG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-CCTC--TATGAGGATA
* * * * * ** *
100098089 GTCAGTATAATACCATGTCTAGGACATGACATCAGCGTAGA-GATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACATG-CATC-GCCTCTATGAGGA-TA
* * * *
100098137 GCCAGTGTAAGACGTGTCTGGGACATGCATCTGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCTCTATGAGGATA
* * *
100098184 GCCAGTGTAAGACATGTCTGGGACTTGCATCG--GCTAAGAGTTG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGCCTCTATGAG--GATA
* * * * * *
100098228 GCTAGTGTAAGACATGTCCGGAACATGCATCAGCACGTATAT-ACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GC-C-TCTATGAGGATA
* *
100098276 GCTAGTATAAGACCATGTCTGGGACATGGCATCGACCTCTATGAGGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG-CCTCTATGAGGATA
100098325 GCCAGTGTAAGACCATGTCT-GGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
100098358 GCAACTTATC
Statistics
Matches: 208, Mismatches: 40, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
44 31 0.15
45 2 0.01
46 25 0.12
47 61 0.29
48 44 0.21
49 39 0.19
50 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGCCTCTATGAGGATA
Found at i:100100331 original size:27 final size:27
Alignment explanation
Indices: 100100252--100100332 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
100100242 CACACCCGGA
* *
100100252 ATAATATAAATCCTCCATAACACACCAGT
1 ATAATAT--ATCCTCCCTAACACACTAGT
* *
100100281 ATAATATAGCCTCCCAAACACACTAGT
1 ATAATATATCCTCCCTAACACACTAGT
100100308 A-AATTATATCCTCCCTAACACACTA
1 ATAA-TATATCCTCCCTAACACACTA
100100333 ATAAGGCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 36 0.80
29 7 0.16
ACGTcount: A:0.42, C:0.30, G:0.04, T:0.25
Consensus pattern (27 bp):
ATAATATATCCTCCCTAACACACTAGT
Found at i:100101290 original size:17 final size:17
Alignment explanation
Indices: 100101268--100101300 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
100101258 GTTTTCGTTT
100101268 TGTTC-TCTGTTCTTTTC
1 TGTTCTTCT-TTCTTTTC
100101285 TGTTCTTCTTTCTTTT
1 TGTTCTTCTTTCTTTT
100101301 ATTTTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.00, C:0.21, G:0.09, T:0.70
Consensus pattern (17 bp):
TGTTCTTCTTTCTTTTC
Found at i:100101611 original size:2 final size:2
Alignment explanation
Indices: 100101604--100101629 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
100101594 AAATATACAA
100101604 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
100101630 TACATCTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100101740 original size:3 final size:3
Alignment explanation
Indices: 100101732--100101779 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
100101722 TTTTAAATCA
100101732 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
100101778 AA
1 AA
100101780 AATCTAAGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:100107721 original size:13 final size:13
Alignment explanation
Indices: 100107682--100107752 Score: 79
Period size: 13 Copynumber: 5.5 Consensus size: 13
100107672 AGTTCTTCAT
*
100107682 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
* ** *
100107695 TGCTGTAAAAAAG
1 TGCTTTTGAGAAG
100107708 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
100107721 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
*
100107734 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
100107747 TGCTTT
1 TGCTTT
100107753 GGAAAAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:100122610 original size:18 final size:17
Alignment explanation
Indices: 100122587--100122621 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
100122577 CCCTTCAAGG
100122587 GTTTTGGATTTTCTTTAT
1 GTTTTGGATTTT-TTTAT
*
100122605 GTTTTGTATTTTTTTAT
1 GTTTTGGATTTTTTTAT
100122622 TCTTCTGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.11, C:0.03, G:0.14, T:0.71
Consensus pattern (17 bp):
GTTTTGGATTTTTTTAT
Found at i:100126294 original size:162 final size:166
Alignment explanation
Indices: 100125894--100126306 Score: 512
Period size: 169 Copynumber: 2.5 Consensus size: 166
100125884 GTTACACTTG
* * * * * *
100125894 TATTGCGGTTAATTACCCCTGAAATTAGTTATATGACACATCTTAATCTCCGTAC-ATTGCTTCA
1 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
* * * * *
100125958 TGGTCATTTCTTTAGCCCACCATGCTTTTTTGCACTACACCCTGTACTAGAACCTGACTTACATG
66 TGGTCATTTGTTTAGCCCACCATGCCTTTTTGCACGACACCCTATACTAGAACCAGACTTACATG
* *
100126023 TCAACAATTAGGACCAGTACAGGAATAATGGGCATGTCTT
131 TCAACAATTAGGAACAATACAGG----ATGGGCATGTCTT
* * * * * * * *
100126063 TATTACAGTTGATCACCCTTGAAGTTAGTTGTATGACACATCTCAGTCTCTATACAACTACTCCA
1 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
* * **
100126128 TGGTCATTTGTTTAGCCCA-CATTCCTTTTTGCGCGACATTCTATACTAGAACCAGACTTACATG
66 TGGTCATTTGTTTAGCCCACCATGCCTTTTTGCACGACACCCTATACTAGAACCAGACTTACATG
* *
100126192 TCGATAATTA-GAACAATACA-G-TGGGCATGTCTT
131 TCAACAATTAGGAACAATACAGGATGGGCATGTCTT
100126225 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
1 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
100126290 TGGTCATTTGTTTAGCC
66 TGGTCATTTGTTTAGCC
100126307 TGCAATGCTT
Statistics
Matches: 208, Mismatches: 35, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
162 86 0.41
167 1 0.00
168 8 0.04
169 89 0.43
170 24 0.12
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (166 bp):
TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
TGGTCATTTGTTTAGCCCACCATGCCTTTTTGCACGACACCCTATACTAGAACCAGACTTACATG
TCAACAATTAGGAACAATACAGGATGGGCATGTCTT
Found at i:100126351 original size:162 final size:164
Alignment explanation
Indices: 100125894--100126375 Score: 521
Period size: 162 Copynumber: 2.9 Consensus size: 164
100125884 GTTACACTTG
* * * * * *
100125894 TATTGCGGTTAATTACCCCTGAAATTAGTTATATGACACATCTTAATCTCCGTAC-ATTGCTTCA
1 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
* * *
100125958 TGGTCATTTCTTTAGCCCACCATGCTTTTTTGCACTACACC-CTGTACTAGAACCTG-ACTTACA
66 TGGTCATTTGTTTAGCCCACAATGC-TTTTTGCACGACACCTCTGTACTAGAA-CTGAACTTACA
* * *
100126021 TGTCAACAATTAGGACCAGTACAGGAATAATGGGCATGTCTT
129 TGTCGACAATTA-GAACAATACA-G----ATGGGCATGTCTT
* * * * * * * *
100126063 TATTACAGTTGATCACCCTTGAAGTTAGTTGTATGACACATCTCAGTCTCTATACAACTACTCCA
1 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
* * * * * *
100126128 TGGTCATTTGTTTAGCCCACATTCCTTTTTGCGCGACA-TTCTATACTAGAAC-CAGACTTACAT
66 TGGTCATTTGTTTAGCCCACAATGCTTTTTGCACGACACCTCTGTACTAGAACTGA-ACTTACAT
*
100126191 GTCGATAATTAGAACAATACAG-TGGGCATGTCTT
130 GTCGACAATTAGAACAATACAGATGGGCATGTCTT
100126225 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
1 TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
** **
100126290 TGGTCATTTGTTTAGCCTGCAATGCTTTTCTATACGACACCTC-GTAC-AGAACTGAACTTACAT
66 TGGTCATTTGTTTAGCCCACAATGCTTTT-TGCACGACACCTCTGTACTAGAACTGAACTTACAT
*
100126353 GTCGACAATTAGGACTAATACAG
130 GTCGACAATTAGAAC-AATACAG
100126376 GAATAGTGGG
Statistics
Matches: 258, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
162 120 0.47
163 17 0.07
164 2 0.01
167 1 0.00
168 9 0.03
169 82 0.32
170 27 0.10
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (164 bp):
TATTGCAGTTAATTACCCCTGAAGTTAGTTGTATGACACATCTTAGTCTCCATACAATTACTTCA
TGGTCATTTGTTTAGCCCACAATGCTTTTTGCACGACACCTCTGTACTAGAACTGAACTTACATG
TCGACAATTAGAACAATACAGATGGGCATGTCTT
Found at i:100130279 original size:75 final size:75
Alignment explanation
Indices: 100130189--100130338 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 75
100130179 TCTGAGAAGC
**
100130189 GCTTATTTATAGTCTAAGCTCGACTTACCTTTTTATTAAATGGTTATGGTGGTTCGAGGAGATTA
1 GCTTATTTATAGTCTAAGCTCGACTTACCTTTCCATTAAATGGTTATGGTGGTTCGAGGAGATTA
100130254 TACTCCTCAT
66 TACTCCTCAT
*
100130264 GCTTATTTATAGTCTAAGCTCGACTTACCTTTCCATTGAATGGTTATGGTGGTTCGAGGAGATTA
1 GCTTATTTATAGTCTAAGCTCGACTTACCTTTCCATTAAATGGTTATGGTGGTTCGAGGAGATTA
100130329 TACTCCTCAT
66 TACTCCTCAT
100130339 TCCTGCTGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (75 bp):
GCTTATTTATAGTCTAAGCTCGACTTACCTTTCCATTAAATGGTTATGGTGGTTCGAGGAGATTA
TACTCCTCAT
Found at i:100144243 original size:50 final size:51
Alignment explanation
Indices: 100144166--100144294 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
100144156 GACCATGGCA
* *
100144166 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGATAAGCG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAACG
* * *
100144217 A-AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAACG
* *
100144267 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
100144295 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAACG
Found at i:100144308 original size:31 final size:31
Alignment explanation
Indices: 100144270--100144387 Score: 209
Period size: 31 Copynumber: 3.8 Consensus size: 31
100144260 ACAAATGACA
100144270 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100144301 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100144332 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100144363 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
100144388 AAGTGACAAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:100144560 original size:49 final size:48
Alignment explanation
Indices: 100144409--100144585 Score: 182
Period size: 49 Copynumber: 3.7 Consensus size: 48
100144399 GATTTCCGTA
* * ** * *
100144409 TAAGACCATATCTGGGATATGGCATCG-GTGTGATATAAG-CTACTGTA
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTAC-GTG
* * * *
100144456 TAATACCATATCTGGGATATGGCATC-AGTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
*
100144502 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGATATGTGATTACGTG
* *
100144551 TAAGACCATAGCTGGGCTATGGCATCAATATGTGA
1 TAAGACCATAGCTGGGATATGGCATCGA-ATGTGA
100144586 AGATGTGTAA
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 25 0.22
47 36 0.32
48 14 0.12
49 38 0.34
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGATATGGCATCGAATGTGATATGTGATTACGTG
Found at i:100146096 original size:21 final size:21
Alignment explanation
Indices: 100146070--100146109 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100146060 TTCTGAAATT
* *
100146070 TATATTTTTTAGAAAATTATA
1 TATATTTTTAAAAAAATTATA
100146091 TATATTTTTAAAAAAATTA
1 TATATTTTTAAAAAAATTA
100146110 AAGTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
TATATTTTTAAAAAAATTATA
Found at i:100146104 original size:19 final size:18
Alignment explanation
Indices: 100146065--100146104 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
100146055 AAAAATTCTG
100146065 AAATTTATATTTTTTAGA
1 AAATTTATATTTTTTAGA
100146083 AAATTATATATATTTTTA-A
1 AAATT-TATAT-TTTTTAGA
100146102 AAA
1 AAA
100146105 AATTAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AAATTTATATTTTTTAGA
Found at i:100146116 original size:20 final size:21
Alignment explanation
Indices: 100146080--100146132 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
100146070 TATATTTTTT
*
100146080 AGAAAATTATATA-TATTTTTAA
1 AGAAAATTA-A-AGTATTTATAA
100146102 A-AAAATTAAAGTATTTATAA
1 AGAAAATTAAAGTATTTATAA
*
100146122 AGAAAGTTAAA
1 AGAAAATTAAA
100146133 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 10 0.37
21 15 0.56
22 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
AGAAAATTAAAGTATTTATAA
Found at i:100147555 original size:16 final size:18
Alignment explanation
Indices: 100147536--100147568 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100147526 TAAATTCTAA
100147536 AAAAT-TAA-AAATATAT
1 AAAATCTAATAAATATAT
100147552 AAAATCTAATAAATATA
1 AAAATCTAATAAATATA
100147569 ATATTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATCTAATAAATATAT
Found at i:100149632 original size:13 final size:14
Alignment explanation
Indices: 100149605--100149638 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
100149595 AACTATCGAA
100149605 GTTTAAAAGCATTT
1 GTTTAAAAGCATTT
100149619 GTTTAAAA-CATTT
1 GTTTAAAAGCATTT
100149632 GCTTTAA
1 G-TTTAA
100149639 CTTTGGGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (14 bp):
GTTTAAAAGCATTT
Found at i:100156175 original size:39 final size:39
Alignment explanation
Indices: 100156116--100156255 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
100156106 ATCGTGATCT
** *
100156116 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
100156155 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
100156194 GAAGCCCGGAGGCTAACTGAAGCATATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
100156233 AAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
100156256 TCATTAGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:100159391 original size:12 final size:12
Alignment explanation
Indices: 100159368--100159399 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
100159358 GAGTGCATTA
100159368 AAAGTG-TTGAG
1 AAAGTGATTGAG
100159379 AAAGTGATTGAG
1 AAAGTGATTGAG
100159391 AAAGT-ATTG
1 AAAGTGATTG
100159400 TTAACAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (12 bp):
AAAGTGATTGAG
Found at i:100160907 original size:25 final size:25
Alignment explanation
Indices: 100160873--100160922 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
100160863 ATCACGGACT
100160873 CAATTGAGTGAAATAAAACTCTAAA
1 CAATTGAGTGAAATAAAACTCTAAA
100160898 CAATTGAGTGAAATAAAACTCTAAA
1 CAATTGAGTGAAATAAAACTCTAAA
100160923 AATAGTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (25 bp):
CAATTGAGTGAAATAAAACTCTAAA
Found at i:100172788 original size:2 final size:2
Alignment explanation
Indices: 100172781--100172817 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
100172771 GTTTGTTATC
100172781 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100172818 CAATATTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:100173640 original size:19 final size:19
Alignment explanation
Indices: 100173616--100173713 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
100173606 AATCTTTAAG
100173616 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100173635 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100173654 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100173671 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100173690 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
100173711 GAT
1 GAT
100173714 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:100173646 original size:36 final size:35
Alignment explanation
Indices: 100173606--100173713 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
100173596 ATGGAAATAT
100173606 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
100173642 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
100173678 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
100173714 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:100175124 original size:22 final size:22
Alignment explanation
Indices: 100175084--100175125 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
100175074 CTTCCGTTTT
* **
100175084 CATTTTCCTTAAAGTCGATTCC
1 CATTTTCCTAAAACCCGATTCC
100175106 CATTTTCCTAAAACCCGATT
1 CATTTTCCTAAAACCCGATT
100175126 TAAAAATGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.07, T:0.38
Consensus pattern (22 bp):
CATTTTCCTAAAACCCGATTCC
Found at i:100179360 original size:17 final size:17
Alignment explanation
Indices: 100179333--100179387 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
100179323 CTTCCATTTC
*
100179333 AAAACAAAAAAG-GAAA
1 AAAAAAAAAAAGAGAAA
100179349 AAAAGAAAAAAAGAGAAAAA
1 AAAA-AAAAAAAGAG--AAA
100179369 AAAAAAAAAAAGAGAAA
1 AAAAAAAAAAAGAGAAA
100179386 AA
1 AA
100179388 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 4 0.12
17 12 0.35
18 1 0.03
19 10 0.29
20 7 0.21
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAGAAA
Found at i:100179368 original size:19 final size:19
Alignment explanation
Indices: 100179333--100179387 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
100179323 CTTCCATTTC
*
100179333 AAAACAAAAAAG-G-AAAA
1 AAAAAAAAAAAGAGAAAAA
*
100179350 AAAGAAAAAAAGAGAAAAA
1 AAAAAAAAAAAGAGAAAAA
100179369 AAAAAAAAAAAGAGAAAAA
1 AAAAAAAAAAAGAGAAAAA
100179388 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 10 0.30
18 1 0.03
19 22 0.67
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAGAGAAAAA
Found at i:100180419 original size:44 final size:44
Alignment explanation
Indices: 100180220--100180713 Score: 400
Period size: 44 Copynumber: 11.2 Consensus size: 44
100180210 CAAAGAAACA
* *
100180220 AGATTTGGCATCTCTGTATTTATAGGGAACAAGTCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
100180264 AGATCTGACA-CTCTTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* **
100180309 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
100180352 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
100180395 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
100180439 AGATCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
100180484 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
100180527 AGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * ***
100180571 AGATCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* *
100180616 AGGA--TGGCATCCATGTGTTTATAGGGAACAAGTTGAAGATAGC
1 A-GATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *
100180659 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGC
*
100180705 TGATTTGGC
1 AGATTTGGC
100180714 TTTCACGGTT
Statistics
Matches: 360, Mismatches: 68, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
42 4 0.01
43 75 0.21
44 229 0.64
45 35 0.10
46 17 0.05
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:100180509 original size:132 final size:132
Alignment explanation
Indices: 100180225--100180698 Score: 661
Period size: 132 Copynumber: 3.6 Consensus size: 132
100180215 AAACAAGATT
* * * * *
100180225 TGGCATCTCTGTATTTATAGGGAACAAGTCGAAGATAGCAGATCTGACA-CTCTTGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC-CTTGTGCTTACAG
* * ** * * * * * *
100180289 CGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAA-CA-AGTTGAAGATT
65 GGAA-CAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGCGAAGCAGA-TCGAAGATT
100180350 TCAGCA
127 TCAGCA
* * *
100180356 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAGG
100180421 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
100180486 CA
131 CA
* *
100180488 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAGG
*
100180553 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTTAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
*
100180618 GA
131 CA
* *
100180620 TGGCATCCATGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAGG
100180685 GAACAAATCGAAGA
66 GAACAAATCGAAGA
100180699 CATAGCTGAT
Statistics
Matches: 313, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
130 14 0.04
131 76 0.24
132 222 0.71
133 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAGG
GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG
CA
Found at i:100180511 original size:175 final size:175
Alignment explanation
Indices: 100180220--100180612 Score: 599
Period size: 175 Copynumber: 2.2 Consensus size: 175
100180210 CAAAGAAACA
* * * *
100180220 AGATTTGGCATCTCTGTATTTATAGGGAACAAGTCGAAGATAGCAGATCTGACACTCTTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
100180285 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* * *
100180350 TCAGCA-TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
131 GCAG-ATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
*
100180395 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
100180460 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
100180525 GCAGATTTGGCATCCTTGTGTTTATAGGGAACAAATCGAAGATAGC
131 GCAGA-TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * * *
100180571 AGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGAT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGAT
100180613 TTTAGGATGG
Statistics
Matches: 198, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
174 1 0.01
175 127 0.64
176 59 0.30
177 11 0.06
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (175 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
Found at i:100181255 original size:206 final size:206
Alignment explanation
Indices: 100180660--100181598 Score: 1513
Period size: 206 Copynumber: 4.6 Consensus size: 206
100180650 GAAGATAGCA
* *
100180660 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCAC-GGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
* *
100180724 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
100180789 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGTTTATACTAAAGT
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGC
*
100180854 AGATCCAAGGT
196 AGATCCAAGAT
* *
100180865 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACA-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
* *
100180929 TACGCTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * *
100180994 CGTCTCCATATTCGACGGAGAGCAGACACATAGTAGATTTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGC
*
100181059 AGATCCAAGGT
196 AGATCCAAGAT
100181070 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
*
100181135 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
100181200 CGTCTCCATATTCGACGGAGAGCAAACACATAACAGATCTAACCTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGC
100181265 AGATCCAAGAT
196 AGATCCAAGAT
* * * *
100181276 GATTTGGCATTCTTGTGCTTACAAGGAACAAATAGAAGACATAGTTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
100181341 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * *
100181406 CGTCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTATCCTTCAGATGGTTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGC
100181471 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * * *
100181482 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAAACATAGTTGATTTGGTTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
*
100181547 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
100181599 GATCAAAGAT
Statistics
Matches: 692, Mismatches: 40, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
205 257 0.37
206 435 0.63
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAGCCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:100182016 original size:19 final size:19
Alignment explanation
Indices: 100181992--100182089 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
100181982 AATCTTTAAG
100181992 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100182011 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100182030 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100182047 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
100182066 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
100182087 GAT
1 GAT
100182090 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:100182022 original size:36 final size:35
Alignment explanation
Indices: 100181982--100182089 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
100181972 ATGGAAATAT
100181982 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
100182018 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
100182054 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
100182090 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:100186802 original size:16 final size:15
Alignment explanation
Indices: 100186779--100186824 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
100186769 TAAATTTTTT
*
100186779 TTATTATTATAATAT
1 TTATTATTATAATAG
* *
100186794 TTAATTATTAAAACAG
1 TT-ATTATTATAATAG
100186810 TTATTATTATAATAG
1 TTATTATTATAATAG
100186825 GAAAGAAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
TTATTATTATAATAG
Found at i:100189389 original size:5 final size:5
Alignment explanation
Indices: 100189374--100189407 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
100189364 ATATTCTAAC
100189374 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
100189408 GTGTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:100190764 original size:14 final size:14
Alignment explanation
Indices: 100190730--100190767 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
100190720 TTTTAATTTT
*
100190730 TGTTTAATTTTAAA
1 TGTTTATTTTTAAA
*
100190744 T-TTTATTTTTCAA
1 TGTTTATTTTTAAA
100190757 TGTTTATTTTT
1 TGTTTATTTTT
100190768 TTGTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (14 bp):
TGTTTATTTTTAAA
Found at i:100193270 original size:41 final size:41
Alignment explanation
Indices: 100193220--100193313 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
100193210 CTATGTGAGT
* * * *
100193220 AGGCTGTGTGTGACACACGGCCGTATGACAACCCATGTCTC
1 AGGCCGTGTGTAACACACAGCCGTATGACAACCCATGTCCC
* * *
100193261 AGGCCGTGTGTAACACACAGCTGTGTGACAACCCATTTCCC
1 AGGCCGTGTGTAACACACAGCCGTATGACAACCCATGTCCC
*
100193302 AGGCCATGTGTA
1 AGGCCGTGTGTA
100193314 CCTTAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (41 bp):
AGGCCGTGTGTAACACACAGCCGTATGACAACCCATGTCCC
Found at i:100196124 original size:18 final size:20
Alignment explanation
Indices: 100196101--100196137 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
100196091 TTTATACATA
100196101 TGAA-TTTTAAAT-ATTTTT
1 TGAATTTTTAAATAATTTTT
100196119 TGAATTTTTAAATAATTTT
1 TGAATTTTTAAATAATTTT
100196138 CTATAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TGAATTTTTAAATAATTTTT
Found at i:100197224 original size:20 final size:20
Alignment explanation
Indices: 100197201--100197250 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
100197191 AAATCCAAAT
100197201 TAAAATACTAAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
* *
100197221 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAAGA
100197241 TAAGAATACT
1 TAA-AATACT
100197251 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:100201429 original size:2 final size:2
Alignment explanation
Indices: 100201422--100201468 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
100201412 ACGTTTTCAA
100201422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100201464 AT AT A
1 AT AT A
100201469 GTGTTTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:100210452 original size:27 final size:26
Alignment explanation
Indices: 100210415--100210529 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
100210405 AGCATGGCTG
* *
100210415 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
100210441 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
100210469 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
100210496 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
100210523 CCAGAAC
1 CCAGAAC
100210530 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:100210474 original size:54 final size:54
Alignment explanation
Indices: 100210415--100210529 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
100210405 AGCATGGCTG
*
100210415 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
100210469 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
100210523 CCAGAAC
1 CCAGAAC
100210530 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:100212177 original size:26 final size:26
Alignment explanation
Indices: 100212139--100212248 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
100212129 CATGAAATTC
*
100212139 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
100212165 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
100212191 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
100212217 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
100212243 TTATCA
1 TTATCA
100212249 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:100216960 original size:17 final size:18
Alignment explanation
Indices: 100216919--100216960 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
100216909 ATGTAAATTA
*
100216919 TTATATATTATTATATTAT
1 TTAT-TATTATTATACTAT
100216938 TT-TTATTATTA-ACTAT
1 TTATTATTATTATACTAT
100216954 TTATTAT
1 TTATTAT
100216961 GTATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.29
17 12 0.57
18 1 0.05
19 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTATTATACTAT
Found at i:100220682 original size:40 final size:40
Alignment explanation
Indices: 100220638--100220730 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
100220628 TCTTTCAATA
100220638 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
1 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
100220678 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
1 AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
*
100220718 AAATCATCATATA
1 AAATCAGCATATA
100220731 CTTCCAGCAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (40 bp):
AAATCAGCATATAAACAATTTAAAGCTCTAATTCCATGCC
Found at i:100222955 original size:19 final size:20
Alignment explanation
Indices: 100222931--100222968 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
100222921 GAAACTACAT
100222931 TATTTT-CTAAACTAGAAGC
1 TATTTTACTAAACTAGAAGC
100222950 TATTTTACTAAACTAGAAG
1 TATTTTACTAAACTAGAAG
100222969 AGAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
TATTTTACTAAACTAGAAGC
Found at i:100226018 original size:17 final size:17
Alignment explanation
Indices: 100225959--100226018 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
100225949 TAATAAATTT
100225959 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
100225978 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
100225992 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
100226010 AAAATATAA
1 AAAATATAA
100226019 AATATAATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:100226555 original size:17 final size:18
Alignment explanation
Indices: 100226502--100226662 Score: 229
Period size: 17 Copynumber: 8.9 Consensus size: 18
100226492 AATCATATCT
*
100226502 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
100226521 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
100226539 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
100226556 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
100226574 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
100226591 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
100226609 TCTAACATTG-TATCATA
1 TCTAAGATTGCTATCATA
100226626 TCTAAGATTGCATATCATA
1 TCTAAGATTGC-TATCATA
100226645 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
100226663 TGAAGATTAT
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
17 47 0.36
18 47 0.36
19 35 0.27
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:100226560 original size:35 final size:35
Alignment explanation
Indices: 100226502--100226654 Score: 270
Period size: 35 Copynumber: 4.3 Consensus size: 35
100226492 AATCATATCT
100226502 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
100226539 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
100226574 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
100226609 TCTAACATTGTATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
100226645 TCTAAGATTG
1 TCTAAGATTG
100226655 CATATCATTG
Statistics
Matches: 113, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
35 88 0.78
36 15 0.13
37 10 0.09
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:100227545 original size:83 final size:83
Alignment explanation
Indices: 100227432--100228067 Score: 1031
Period size: 83 Copynumber: 7.7 Consensus size: 83
100227422 GTGAAAGCCA
* *
100227432 AATCAGCTATGT-CTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
100227496 GAGAACATCTGAGAGTCA
66 GAGAACATCTGAGAGTCT
* * * * * *
100227514 AATCTGCTATGTCTTTGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
100227579 GAGAACATCTGAGAGTCA
66 GAGAACATCTGAGAGTCT
100227597 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
100227662 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* *
100227680 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTCAGTCTATTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
100227745 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* *
100227763 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAAGCCAAACCATCTTGAGTTTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
100227828 GAGAACATCTGAGAGTCT
66 GAGAACATCTGAGAGTCT
* *
100227846 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCAGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
100227911 GAGAACATCCGAGAGTCT
66 GAGAACATCTGAGAGTCT
* * * * *
100227929 AATCTACTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGACGACAAACCATTTTGAGTCTGTTT
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
*
100227994 GAGAACATCCGAGAGTCT
66 GAGAACATCTGAGAGTCT
* * *
100228012 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAAGATGCCAAATCATCTTG
1 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
100228068 GATCTGCTTC
Statistics
Matches: 517, Mismatches: 36, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
82 11 0.02
83 506 0.98
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (83 bp):
AATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTT
GAGAACATCTGAGAGTCT
Found at i:100228148 original size:44 final size:44
Alignment explanation
Indices: 100228100--100228279 Score: 213
Period size: 44 Copynumber: 4.1 Consensus size: 44
100228090 TGAAGGTTAG
100228100 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* *
100228144 ATCTGCTATCTTC-AACTTGTTCCCTATTAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
100228186 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
100228232 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
100228276 ATCT
1 ATCT
100228280 TGTTTCTTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 79 0.72
45 14 0.13
46 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:100229897 original size:136 final size:137
Alignment explanation
Indices: 100229653--100229938 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
100229643 CATTGGGCCT
** * *
100229653 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
100229718 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
100229782 CATATGC
131 CATATGC
100229789 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
100229854 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
100229919 CATATGC
131 CATATGC
100229926 AAGCCCATTTGGG
1 AAGCCCATTTGGG
100229939 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:100231759 original size:26 final size:26
Alignment explanation
Indices: 100231723--100231858 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
100231713 CATGATATTC
100231723 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
100231749 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100231775 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100231801 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
100231827 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
100231853 TTATCA
1 TTATCA
100231859 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:100232466 original size:1 final size:1
Alignment explanation
Indices: 100232462--100232535 Score: 85
Period size: 1 Copynumber: 74.0 Consensus size: 1
100232452 TTCTTTTTCA
** * * * * *
100232462 TTTTTTTTCCTTTTTTTTTTTTTTTCTTTTTCTTTTTTTTCTTTTTTCTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
100232527 TTTTTTTTT
1 TTTTTTTTT
100232536 GAAATAGAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:100232475 original size:7 final size:6
Alignment explanation
Indices: 100232449--100232535 Score: 75
Period size: 5 Copynumber: 15.8 Consensus size: 6
100232439 GGCCTCTCTA
* *
100232449 TTTTTC TTTTTC ATTTT- TTTTCC TTTTT- TTTTT- TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
100232494 TTTTT- TTTCT- TTTTTC TTTTT- TTCTTT- TTTTT- TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTT
100232536 GAAATAGAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
5 36 0.51
6 35 0.49
ACGTcount: A:0.01, C:0.10, G:0.00, T:0.89
Consensus pattern (6 bp):
TTTTTC
Found at i:100232475 original size:8 final size:8
Alignment explanation
Indices: 100232449--100232535 Score: 94
Period size: 8 Copynumber: 11.2 Consensus size: 8
100232439 GGCCTCTCTA
100232449 TTTTTCTT
1 TTTTTCTT
100232457 TTTCATT-TT
1 TTT--TTCTT
*
100232466 TTTTCCTT
1 TTTTTCTT
*
100232474 TTTTTTTT
1 TTTTTCTT
100232482 TTTTTCTT
1 TTTTTCTT
*
100232490 TTTCT-TT
1 TTTTTCTT
100232497 TTTTTC-T
1 TTTTTCTT
100232504 TTTTTCTT
1 TTTTTCTT
100232512 TTTTTCTT
1 TTTTTCTT
100232520 TTTTT-TT
1 TTTTTCTT
100232527 TTTTT-TT
1 TTTTTCTT
100232534 TT
1 TT
100232536 GAAATAGAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
7 25 0.37
8 36 0.53
9 5 0.07
10 2 0.03
ACGTcount: A:0.01, C:0.10, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:100232480 original size:15 final size:14
Alignment explanation
Indices: 100232449--100232535 Score: 106
Period size: 15 Copynumber: 6.2 Consensus size: 14
100232439 GGCCTCTCTA
* *
100232449 TTTTTCTTTTTCAT
1 TTTTTTTTTTTCTT
**
100232463 TTTTTTTCCTT-TT
1 TTTTTTTTTTTCTT
100232476 TTTTTTTTTTTCTT
1 TTTTTTTTTTTCTT
100232490 TTTCTTTTTTTTCTT
1 TTT-TTTTTTTTCTT
100232505 TTTTCTTTTTTTCTT
1 TTTT-TTTTTTTCTT
100232520 TTTTTTTTTTT-TT
1 TTTTTTTTTTTCTT
100232533 TTT
1 TTT
100232536 GAAATAGAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
13 15 0.23
14 21 0.33
15 28 0.44
ACGTcount: A:0.01, C:0.10, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTCTT
Found at i:100239052 original size:18 final size:18
Alignment explanation
Indices: 100239016--100239175 Score: 220
Period size: 18 Copynumber: 8.9 Consensus size: 18
100239006 AATCATATCT
*
100239016 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
*
100239035 TTTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
100239053 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
100239070 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
100239088 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
100239106 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
100239123 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
100239141 TCT-AGCATTG-TATCATA
1 TCTAAG-ATTGCAATCATA
100239158 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
100239176 TGAAGATTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
17 47 0.37
18 64 0.51
19 15 0.12
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:100239076 original size:35 final size:35
Alignment explanation
Indices: 100239016--100239175 Score: 216
Period size: 35 Copynumber: 4.5 Consensus size: 35
100239006 AATCATATCT
* *
100239016 TCTAAGATTGTATATCATATTTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-AATCATA
*
100239053 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATATCTAAGATTG-AATCATA
*
100239088 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGAATCATA
*
100239123 TCTAAGATTGCAATCATATCT-AGCATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAG-ATTGAATCATA
100239158 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
100239176 TGAAGATTAT
Statistics
Matches: 116, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.02
35 83 0.72
36 21 0.18
37 10 0.09
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGAATCATA
Found at i:100239094 original size:53 final size:53
Alignment explanation
Indices: 100239016--100239167 Score: 245
Period size: 53 Copynumber: 2.9 Consensus size: 53
100239006 AATCATATCT
* *
100239016 TCTAAGATTGTATATCATATTTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
100239070 TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
100239123 TCTAAGATTGCAATCATATCT-AGCATTG-TATCATATCTAAGATTG
1 TCTAAGATTGCAATCATATCTAAG-ATTGCAATCATATCTAAGATTG
100239168 CATATCATTG
Statistics
Matches: 94, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
52 18 0.19
53 65 0.69
54 11 0.12
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (53 bp):
TCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:100243546 original size:3 final size:3
Alignment explanation
Indices: 100243489--100243531 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
100243479 TGTTTTAAAA
100243489 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
100243532 TTGAACGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:100243605 original size:17 final size:16
Alignment explanation
Indices: 100243583--100243621 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
100243573 TATTAAACGG
100243583 TTTTATATATATATGTA
1 TTTTATATATAT-TGTA
* *
100243600 TTTTATATGTATTTTA
1 TTTTATATATATTGTA
100243616 TTTTAT
1 TTTTAT
100243622 TTTTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTATATATATTGTA
Found at i:100243608 original size:11 final size:11
Alignment explanation
Indices: 100243592--100243616 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
100243582 GTTTTATATA
100243592 TATATGTATTT
1 TATATGTATTT
100243603 TATATGTATTT
1 TATATGTATTT
100243614 TAT
1 TAT
100243617 TTTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATATGTATTT
Found at i:100243638 original size:22 final size:22
Alignment explanation
Indices: 100243600--100243642 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
100243590 TATATATGTA
*
100243600 TTTTATATGTATTTTATTTTAT
1 TTTTATATATATTTTATTTTAT
100243622 TTTTA-ATATATTATTATTTTA
1 TTTTATATATATT-TTATTTTA
100243643 AACTCTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATATATATTTTATTTTAT
Found at i:100243689 original size:26 final size:26
Alignment explanation
Indices: 100243660--100243709 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
100243650 TATCTGTTAA
*
100243660 TTTAAATTGTTTTATAAATTATTTAT
1 TTTAAATTATTTTATAAATTATTTAT
* *
100243686 TTTAAGTTATTTTATACATTATTT
1 TTTAAATTATTTTATAAATTATTT
100243710 TATTGCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTAAATTATTTTATAAATTATTTAT
Found at i:100243798 original size:2 final size:2
Alignment explanation
Indices: 100243791--100243823 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
100243781 TTTAAACCTT
100243791 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100243824 TATTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100245713 original size:19 final size:19
Alignment explanation
Indices: 100245689--100245728 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
100245679 AGCTCCCATG
*
100245689 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAACTCAT
* *
100245708 TAGCTCGAGACCAACTCAT
1 TAGCTCCACACCAACTCAT
100245727 TA
1 TA
100245729 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAACTCAT
Found at i:100247361 original size:11 final size:11
Alignment explanation
Indices: 100247345--100247385 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
100247335 TATACAAGTT
100247345 AAAAAAATCGA
1 AAAAAAATCGA
*
100247356 AAAAAAATTCAA
1 AAAAAAA-TCGA
100247368 AAAAAAATCGA
1 AAAAAAATCGA
100247379 AAAAAAA
1 AAAAAAA
100247386 GTGATTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAATCGA
Found at i:100247362 original size:12 final size:12
Alignment explanation
Indices: 100247345--100247385 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
100247335 TATACAAGTT
100247345 AAAAAAATCGAA
1 AAAAAAATCGAA
*
100247357 AAAAAATTC-AA
1 AAAAAAATCGAA
100247368 AAAAAAATCGAA
1 AAAAAAATCGAA
100247380 AAAAAA
1 AAAAAA
100247386 GTGATTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (12 bp):
AAAAAAATCGAA
Found at i:100263397 original size:70 final size:71
Alignment explanation
Indices: 100263117--100263467 Score: 357
Period size: 74 Copynumber: 4.9 Consensus size: 71
100263107 TTTGGGTACT
* * * ** *
100263117 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAATTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
100263182 GGTCACACG
65 GG--ACACG
* ** *
100263191 CTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTTAATTTATGTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
*
100263256 GGTCACG
65 GGACACG
* * *
100263263 CTGAGGTGTTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATT--T-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
*
100263328 CAAGACACG
63 CAGGACACG
* * * * * *
100263337 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
* *
100263401 GGCACA
66 GACACG
* ** * *
100263407 CTGAGGTA-TTTTAGTTTATGTTT-AGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
100263468 TTTAATTTCT
Statistics
Matches: 230, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
69 10 0.04
70 82 0.36
71 2 0.01
72 20 0.09
73 4 0.02
74 106 0.46
75 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAG
GACACG
Found at i:100263413 original size:144 final size:145
Alignment explanation
Indices: 100263117--100263418 Score: 367
Period size: 144 Copynumber: 2.1 Consensus size: 145
100263107 TTTGGGTACT
* * *
100263117 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAATTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCA
* * * * **
100263182 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGT
66 AG-CACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
* *
100263247 CAAGCCTCAGGTCACG
130 CAAGCCTCAGGGCACA
* * * **
100263263 CTGAGGTGTTTTTAATTCCTGTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCT
* *
100263328 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTC-CAAAATCAACTCATATTGCGAGAGGTGAG
64 CAAGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAG
** *
100263390 TTGAGCCTCGGGGCACA
129 TCAAGCCTCAGGGCACA
100263407 CTGAGGTATTTT
1 CTGAGGTATTTT
100263419 AGTTTATGTT
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
144 49 0.37
145 3 0.02
146 40 0.30
147 1 0.01
148 39 0.30
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (145 bp):
CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCA
AGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTC
AAGCCTCAGGGCACA
Found at i:100263666 original size:88 final size:88
Alignment explanation
Indices: 100263481--100263809 Score: 287
Period size: 88 Copynumber: 3.7 Consensus size: 88
100263471 AATTTCTGTT
* * * *
100263481 TTTCA-AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTT-ACGTGCTGAGCTATTT
1 TTTCATAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGG-TTCACATGCTGAGGTATTT
*
100263544 TCAATTTCTGTTCTTCAA--ATTCC
65 TCAATTTCTGTT-TTCAATTATTAC
* * *
100263567 GTTCGTCAAAATCAACTCATATTGCAATAGATGAGTTGAGCCTCGGTTCACATG-TCGAGGTATT
1 TTTCAT-AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGTTCACATGCT-GAGGTATT
* * *
100263631 TTCAAATTCTGTTTTTAATTTTTAC
64 TTCAATTTCTGTTTTCAATTATTAC
* * * ** **
100263656 TTTCCTAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCTCGGGGCAC--GCTGAGGTATTTT
1 TTTCATAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTT
* **
100263719 CAATTTTTGCTTTTCAATTCCTAC
66 CAATTTCTG-TTTTCAATTATTAC
* * * * * *
100263743 TTTTCAAAAAAATCAAATTATATTGCGAAAAG-TGAGTTGAGCCTCAGTTCACATGCTGAGATAT
1 -TTTC-ATAAAATCAACTCATATTGC-AAGAGATGAGTTGAGCCTCGGTTCACATGCTGAGGTAT
100263807 TTT
63 TTT
100263810 TAGTTTTTGT
Statistics
Matches: 193, Mismatches: 37, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
86 21 0.11
87 19 0.10
88 100 0.52
89 38 0.20
90 3 0.02
91 12 0.06
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (88 bp):
TTTCATAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTT
CAATTTCTGTTTTCAATTATTAC
Found at i:100264818 original size:12 final size:12
Alignment explanation
Indices: 100264801--100264825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100264791 TTTTTTTTTG
100264801 AAAAAAACAAAA
1 AAAAAAACAAAA
100264813 AAAAAAACAAAA
1 AAAAAAACAAAA
100264825 A
1 A
100264826 GGGGAAATAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:100265904 original size:2 final size:2
Alignment explanation
Indices: 100265899--100265929 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
100265889 AGTGAGTATT
*
100265899 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100265930 TTCCATACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:100268137 original size:20 final size:20
Alignment explanation
Indices: 100268114--100268175 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
100268104 CAAAACTATT
100268114 AAAAAAATTTAAAAATTAT-
1 AAAAAAATTTAAAAATTATA
* * *
100268133 AAAAATATATTAATAATTCTA
1 AAAAAAAT-TTAAAAATTATA
* *
100268154 AAAATAGATATAAAAATTATA
1 AAAA-AAATTTAAAAATTATA
100268175 A
1 A
100268176 GAACTATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 7 0.21
20 9 0.27
21 14 0.42
22 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAAATTTAAAAATTATA
Found at i:100268138 original size:9 final size:9
Alignment explanation
Indices: 100268111--100268185 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
100268101 GTGCAAAACT
*
100268111 ATTAAAAAA
1 ATTATAAAA
100268120 ATT-TAAAA
1 ATTATAAAA
100268128 ATTATAAAA
1 ATTATAAAA
*
100268137 ATATATTAATA
1 AT-TA-TAAAA
*
100268148 ATTCTAAAA
1 ATTATAAAA
100268157 ATAGATATAAAA
1 AT---TATAAAA
*
100268169 ATTATAAGA
1 ATTATAAAA
*
100268178 ACTATAAA
1 ATTATAAA
100268186 CCCTGTTTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 7 0.13
9 28 0.54
10 3 0.06
11 6 0.12
12 8 0.15
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
ATTATAAAA
Found at i:100271019 original size:27 final size:24
Alignment explanation
Indices: 100270988--100271041 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 24
100270978 TATTCGGGAA
100270988 TGGTGGAGGATATGACGGCGGAGGCGG
1 TGGTGGAGGATAT---GGCGGAGGCGG
*
100271015 TGGTGGCGGATATGGCGGAGGCGG
1 TGGTGGAGGATATGGCGGAGGCGG
100271039 TGG
1 TGG
100271042 AGGATATGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 14 0.54
27 12 0.46
ACGTcount: A:0.15, C:0.11, G:0.57, T:0.17
Consensus pattern (24 bp):
TGGTGGAGGATATGGCGGAGGCGG
Found at i:100271055 original size:24 final size:24
Alignment explanation
Indices: 100270989--100271056 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
100270979 ATTCGGGAAT
100270989 GGTGGAGGATATGACGGCGGAGGCGG
1 GGTGGAGGATATGA-GGCGGAGGC-G
*
100271015 TGGTGGCGGATAT--GGCGGAGGC-
1 -GGTGGAGGATATGAGGCGGAGGCG
100271037 GGTGGAGGATATGGAGGCGG
1 GGTGGAGGATAT-GAGGCGG
100271057 TGGCCGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 11 0.31
24 14 0.39
27 11 0.31
ACGTcount: A:0.18, C:0.10, G:0.57, T:0.15
Consensus pattern (24 bp):
GGTGGAGGATATGAGGCGGAGGCG
Found at i:100271059 original size:39 final size:39
Alignment explanation
Indices: 100271016--100271134 Score: 184
Period size: 39 Copynumber: 3.0 Consensus size: 39
100271006 CGGAGGCGGT
100271016 GGTGGCGGATATGGCGGAGGCGGTGGAGGATATGGAGGC
1 GGTGGCGGATATGGCGGAGGCGGTGGAGGATATGGAGGC
*
100271055 GGTGGCCGATATGGCGGAGGCGGTGGAGGATATGGAGGC
1 GGTGGCGGATATGGCGGAGGCGGTGGAGGATATGGAGGC
* *
100271094 GGTGGCGGATATGGCGGCGGTGGCGGTGGTGGATATGGAGG
1 GGTGGCGGATAT---GGCGGAGGCGGTGGAGGATATGGAGG
100271135 TTGACGCTGA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 49 0.67
42 24 0.33
ACGTcount: A:0.16, C:0.11, G:0.56, T:0.17
Consensus pattern (39 bp):
GGTGGCGGATATGGCGGAGGCGGTGGAGGATATGGAGGC
Found at i:100271100 original size:24 final size:23
Alignment explanation
Indices: 100271067--100271134 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 23
100271057 TGGCCGATAT
*
100271067 GGCGGAGGCGGTGGAGGATATGGA
1 GGCGGTGGCGGTGG-GGATATGGA
*
100271091 GGCGGTGGC-----GGATATGGC
1 GGCGGTGGCGGTGGGGATATGGA
100271109 GGCGGTGGCGGTGGTGGATATGGA
1 GGCGGTGGCGGTGG-GGATATGGA
100271133 GG
1 GG
100271135 TTGACGCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
18 17 0.49
24 18 0.51
ACGTcount: A:0.15, C:0.10, G:0.59, T:0.16
Consensus pattern (23 bp):
GGCGGTGGCGGTGGGGATATGGA
Found at i:100271117 original size:18 final size:18
Alignment explanation
Indices: 100271010--100271119 Score: 112
Period size: 18 Copynumber: 5.8 Consensus size: 18
100271000 TGACGGCGGA
*
100271010 GGCGGTGGTGGCGGATAT
1 GGCGGCGGTGGCGGATAT
*
100271028 GGCGGAGGCGGTGGAGGATAT
1 GGC---GGCGGTGGCGGATAT
* *
100271049 GGAGGCGGTGGCCGATAT
1 GGCGGCGGTGGCGGATAT
*
100271067 GGCGGAGGCGGTGGAGGATAT
1 GGC---GGCGGTGGCGGATAT
*
100271088 GGAGGCGGTGGCGGATAT
1 GGCGGCGGTGGCGGATAT
100271106 GGCGGCGGTGGCGG
1 GGCGGCGGTGGCGG
100271120 TGGTGGATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
18 45 0.60
21 30 0.40
ACGTcount: A:0.15, C:0.13, G:0.57, T:0.15
Consensus pattern (18 bp):
GGCGGCGGTGGCGGATAT
Found at i:100277774 original size:18 final size:18
Alignment explanation
Indices: 100277732--100277776 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
100277722 GAAAAATGAG
100277732 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
100277749 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
100277766 AATTTTTGAAA
1 AATTTTTGAAA
100277777 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:100280776 original size:15 final size:15
Alignment explanation
Indices: 100280749--100280794 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
100280739 TTTTGCCCGG
100280749 GCTAAAAAGCCCAACA
1 GCTAAAAA-CCCAACA
*
100280765 TCTAAAAACCCAACA
1 GCTAAAAACCCAACA
**
100280780 GCCCAAAACCCAACA
1 GCTAAAAACCCAACA
100280795 ACCTCCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.37, G:0.07, T:0.07
Consensus pattern (15 bp):
GCTAAAAACCCAACA
Found at i:100280815 original size:17 final size:17
Alignment explanation
Indices: 100280769--100280809 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
100280759 CCAACATCTA
*
100280769 AAAACCCAAC-AGC-CC
1 AAAACCCAACAACCTCC
100280784 AAAACCCAACAACCTCC
1 AAAACCCAACAACCTCC
*
100280801 AAAGCCCAA
1 AAAACCCAA
100280810 TCACCTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 10 0.45
16 2 0.09
17 10 0.45
ACGTcount: A:0.49, C:0.44, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAACCCAACAACCTCC
Found at i:100280906 original size:13 final size:13
Alignment explanation
Indices: 100280880--100280914 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
100280870 CTTCACTCTT
*
100280880 ACCACCCCACTAA
1 ACCACTCCACTAA
*
100280893 ACCACTCCATTAA
1 ACCACTCCACTAA
100280906 ACCACTCCA
1 ACCACTCCA
100280915 ACCACCCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (13 bp):
ACCACTCCACTAA
Found at i:100285402 original size:35 final size:35
Alignment explanation
Indices: 100285358--100285524 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
100285348 TCCTCATTGA
** *
100285358 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
100285393 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
100285433 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
100285468 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
100285503 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
100285525 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:100285441 original size:75 final size:73
Alignment explanation
Indices: 100285353--100285524 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
100285343 GGTTTTCCTC
** * * **
100285353 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
100285417 TCAGTATGG
65 TCAGTATGG
*
100285426 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
100285491 CTCAGTATGG
64 CTCAGTATGG
100285501 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
100285525 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:100292889 original size:35 final size:35
Alignment explanation
Indices: 100292845--100293010 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
100292835 TCCTCATTGA
** *
100292845 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
100292880 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
100292919 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
100292954 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
100292989 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
100293011 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:100292930 original size:74 final size:73
Alignment explanation
Indices: 100292840--100293010 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
100292830 GGTTTTCCTC
** * * **
100292840 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
100292903 TCAGTATGG
65 TCAGTATGG
*
100292912 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
100292977 CTCAGTATGG
64 CTCAGTATGG
100292987 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
100293011 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:100294404 original size:13 final size:13
Alignment explanation
Indices: 100294380--100294415 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
100294370 TTACACTAAA
100294380 CCACTCAAACCACC
1 CCACT-AAACCACC
*
100294394 CCACTAAACCACT
1 CCACTAAACCACC
100294407 CCACTAAAC
1 CCACTAAAC
100294416 TATCCTAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (13 bp):
CCACTAAACCACC
Found at i:100294843 original size:19 final size:18
Alignment explanation
Indices: 100294806--100294847 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
100294796 GGAGAGAGTG
*
100294806 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
100294824 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
100294843 TTATT
1 TTATT
100294848 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:100297968 original size:55 final size:54
Alignment explanation
Indices: 100297899--100298154 Score: 232
Period size: 55 Copynumber: 4.8 Consensus size: 54
100297889 CATTTGGGTT
*
100297899 CAAGGATACCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGCTAAGACATGGCAATTGGTAA-GTTTCTAAGG
* * * *
100297954 CAAGGAAATCATGTAAGACCATG-TCAAGACATGGC-ATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGCT-AAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * * * *
100298009 CAAAGG-TCCCATGTAAGACCGTGCCAAGGCATGGC-GTTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGCTAAGACATGGCAATTGGTAAGTTTC-TAAGG
100298062 CAAGGATACCATGTAAGACCATG-TCAAGACATGGCAA-TGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGCT-AAGACATGGCAATTGGTAAGTTTCTAAGG
* *
100298112 -AAGGATACCACGTAAGACCATGAC-AAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATG-CTAAGACATGGCAATTGGTAAG
100298155 GTACCCATGT
Statistics
Matches: 166, Mismatches: 23, Indels: 30
0.76 0.11 0.14
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 39 0.23
54 12 0.07
55 65 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCTAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:100298106 original size:108 final size:110
Alignment explanation
Indices: 100297907--100298107 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
100297897 TTCAAGGATA
* *
100297907 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
100297972 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
100298017 CCATGTAAGACCGTGCCAAGGCATGGC-GTTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
100298079 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
100298108 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 6 0.07
110 25 0.30
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:100300967 original size:11 final size:13
Alignment explanation
Indices: 100300942--100300973 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
100300932 TAGTTTATTA
100300942 ATATTTTAAATTG
1 ATATTTTAAATTG
100300955 AT-TTTTAAA-TG
1 ATATTTTAAATTG
100300966 ATATTTTA
1 ATATTTTA
100300974 TTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAAATTG
Found at i:100304369 original size:24 final size:25
Alignment explanation
Indices: 100304342--100304394 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
100304332 TCAAAAAAAT
100304342 AAAAAAAAAAAGAGAAA-AATT-GAA
1 AAAAAAAAAAAGA-AAAGAATTCGAA
* *
100304366 AAAAGAAAAAGGAAAAGAATTCGAA
1 AAAAAAAAAAAGAAAAGAATTCGAA
100304391 AAAA
1 AAAA
100304395 GATTCTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 15 0.60
25 7 0.28
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAAAAAAAAAGAAAAGAATTCGAA
Found at i:100305970 original size:19 final size:20
Alignment explanation
Indices: 100305943--100305982 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
100305933 TATAAAAATT
*
100305943 TTAAAAATTTTAAA-ATATA
1 TTAAAAATTCTAAATATATA
*
100305962 TTAATAATTCTAAATATATA
1 TTAAAAATTCTAAATATATA
100305982 T
1 T
100305983 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAATTCTAAATATATA
Found at i:100306330 original size:86 final size:90
Alignment explanation
Indices: 100306194--100306392 Score: 223
Period size: 91 Copynumber: 2.2 Consensus size: 90
100306184 TAAAATTTTT
* * * *
100306194 AAATAATTA-TTAATATTTTTGTATATATTTTTTTTTATTTTTAATGGTTTTGCACTTGTTTAGA
1 AAAT-ATTATTTAATATTTTTGTATATATTTTTTTTTATTTTTAATAGTTTTACACCTATTTAGA
*
100306258 ATG-G-ATAAATGTGTATCCAGATTC
65 ATGAGAACAAATGTGTATCCAGATTC
100306282 AAATATTATTTAATATTTTT-T-TATATTTTCTATTTT-TTTTT-ATAGTTTTACACCTATTTAG
1 AAATATTATTTAATATTTTTGTATATATTTT-T-TTTTATTTTTAATAGTTTTACACCTATTTAG
* *
100306343 AATGAAATGAACAAATGTGTATCTAGATTT
64 AATG--A-GAACAAATGTGTATCCAGATTC
*
100306373 AAATGTTATTTAATATTTTT
1 AAATATTATTTAATATTTTT
100306393 AGATGTTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
86 28 0.29
87 11 0.12
88 19 0.20
90 1 0.01
91 36 0.38
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.53
Consensus pattern (90 bp):
AAATATTATTTAATATTTTTGTATATATTTTTTTTTATTTTTAATAGTTTTACACCTATTTAGAA
TGAGAACAAATGTGTATCCAGATTC
Found at i:100306926 original size:18 final size:18
Alignment explanation
Indices: 100306903--100306938 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
100306893 ATTCACAATC
100306903 GTAAGTATGGACAAAATT
1 GTAAGTATGGACAAAATT
100306921 GTAAGTATGGACAAAATT
1 GTAAGTATGGACAAAATT
100306939 AAATGTGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (18 bp):
GTAAGTATGGACAAAATT
Found at i:100308900 original size:19 final size:19
Alignment explanation
Indices: 100308868--100308905 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
100308858 TGAGTTCAAA
*
100308868 AAAAAATATTAATTGTTTGG
1 AAAAAATATGAATT-TTTGG
100308888 AAAAAA-ATGAATTTTTGG
1 AAAAAATATGAATTTTTGG
100308906 TAATTTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
AAAAAATATGAATTTTTGG
Found at i:100312187 original size:21 final size:23
Alignment explanation
Indices: 100312158--100312212 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
100312148 GTAAAAATGT
*
100312158 ATAAAATAAT-TAA-ATATTAAA
1 ATAATATAATATAATATATTAAA
*
100312179 ATAATATAATATAATATTTTAAA
1 ATAATATAATATAATATATTAAA
*
100312202 AAAAT-TAATAT
1 ATAATATAATAT
100312213 GGGCGGGCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.31
22 9 0.31
23 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATAATATAATATATTAAA
Done.