Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 351 of 352
Found at i:112481778 original size:25 final size:25
Alignment explanation
Indices: 112481750--112481820 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
112481740 CAGCTTACAA
112481750 GGAGAAGCAGCAGAGGGCTGCCGAC
1 GGAGAAGCAGCAGAGGGCTGCCGAC
* * *
112481775 GGAGATGCAGCAGTGGGCTGCCAAC
1 GGAGAAGCAGCAGAGGGCTGCCGAC
*
112481800 GGAG-A--TGCAGAGGGCTGCCGA
1 GGAGAAGCAGCAGAGGGCTGCCGA
112481821 TTTGGGGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 13 0.33
25 26 0.67
ACGTcount: A:0.25, C:0.23, G:0.44, T:0.08
Consensus pattern (25 bp):
GGAGAAGCAGCAGAGGGCTGCCGAC
Found at i:112482028 original size:112 final size:115
Alignment explanation
Indices: 112481818--112482145 Score: 560
Period size: 112 Copynumber: 2.9 Consensus size: 115
112481808 AGAGGGCTGC
*
112481818 CGATTTGGGGAGATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
1 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
*
112481883 AAAGGGGGGACAGATTTTGGGAAAAAGAA-GGGGAAAAAAAGACTGAAAA
66 AAAGGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAAAGACTGAAAA
* *
112481932 CGATTTGGGGAAACT-GGGGAAAAA-AAAGGGAATCGGGGTAGGGAGAAACGGTTTGGGAAAAAG
1 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
* *
112481995 -AATGGGGGACCGATTTTGGGAAAAAGAAGGGGG--AAAAAGACTTAAAA
66 AAAGGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAAAGACTGAAAA
112482042 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
1 CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
112482107 AAAGGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAA
66 AAAGGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAA
112482146 GACTTGAAAA
Statistics
Matches: 199, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
110 27 0.14
111 35 0.18
112 80 0.40
113 41 0.21
114 13 0.07
115 3 0.02
ACGTcount: A:0.41, C:0.05, G:0.40, T:0.15
Consensus pattern (115 bp):
CGATTTGGGGAAATTGGGGGAAAAATAAAGGGAATCGGGGTAGGGAGAAATGGTTTGGGAAAAAG
AAAGGGGGGACCGATTTTGGGAAAAAGAAGGGGGAAAAAAAGACTGAAAA
Found at i:112484774 original size:96 final size:96
Alignment explanation
Indices: 112484608--112484797 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
112484598 GTGTCCGAGG
* * * * *
112484608 AAGTCTGTTATCCATGGGAACGATGGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
112484673 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
112484704 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAATGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
112484769 TAAAGCCGAAGCCAAGAGGGCTAAGAGGA
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGA
112484798 ACAAAAAGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.35, C:0.18, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:112488327 original size:19 final size:18
Alignment explanation
Indices: 112488305--112488392 Score: 61
Period size: 19 Copynumber: 4.6 Consensus size: 18
112488295 TATTTTTAAC
112488305 AAAAATTATTATAATTTTT
1 AAAAATT-TTATAATTTTT
* *
112488324 AAAAAATTTTAAAATTCTT
1 -AAAAATTTTATAATTTTT
*
112488343 ATAAAATTTCAATAATTTTT
1 A-AAAATTT-TATAATTTTT
* *
112488363 -ACAATTTCTAATCATTATTT
1 AAAAATTT-T-ATAATT-TTT
112488383 AAAAATTTTA
1 AAAAATTTTA
112488393 ATGATATTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
18 8 0.15
19 22 0.41
20 18 0.33
21 6 0.11
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAATTTTATAATTTTT
Found at i:112491900 original size:9 final size:9
Alignment explanation
Indices: 112491886--112491929 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
112491876 ACATTGTAAC
112491886 AATTTTTAT
1 AATTTTTAT
112491895 AATTTTTA-
1 AATTTTTAT
112491903 ATATTTTTAT
1 A-ATTTTTAT
*
112491913 AATTTTTAC
1 AATTTTTAT
112491922 AATTTTTA
1 AATTTTTA
112491930 AATAATCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 1 0.03
9 30 0.94
10 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:112491910 original size:18 final size:18
Alignment explanation
Indices: 112491884--112491929 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
112491874 TAACATTGTA
112491884 ACAATTTTTATAATTTTT
1 ACAATTTTTATAATTTTT
112491902 A-ATATTTTTATAATTTTT
1 ACA-ATTTTTATAATTTTT
112491920 ACAATTTTTA
1 ACAATTTTTA
112491930 AATAATCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
ACAATTTTTATAATTTTT
Found at i:112492241 original size:14 final size:14
Alignment explanation
Indices: 112492222--112492253 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
112492212 AATTTTCAAA
112492222 AAATATTCATATTT
1 AAATATTCATATTT
112492236 AAATATTCATATTT
1 AAATATTCATATTT
112492250 AAAT
1 AAAT
112492254 GGTTCATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATATTCATATTT
Found at i:112493068 original size:23 final size:22
Alignment explanation
Indices: 112492999--112493075 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 22
112492989 ATTTTTAGAT
* *
112492999 TTTAATTATATAAATATATATAA
1 TTTAATTATAT-AATATTTATTA
*
112493022 TTTAATTAT-TAATTACTTTTTTA
1 TTTAATTATATAA-TA-TTTATTA
*
112493045 TTTAAGTATATAGATATTTATTA
1 TTTAATTATATA-ATATTTATTA
112493068 TTT-ATTAT
1 TTTAATTAT
112493076 TATTCTATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.05
22 7 0.16
23 30 0.68
24 4 0.09
25 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (22 bp):
TTTAATTATATAATATTTATTA
Found at i:112493104 original size:20 final size:20
Alignment explanation
Indices: 112493071--112493127 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
112493061 TTTATTATTT
*
112493071 ATTATTATTCTATTGAATTATA
1 ATTATTA-T-TATTAAATTATA
*
112493093 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
112493113 ATTATTATTATTAAA
1 ATTATTATTATTAAA
112493128 AATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 23 0.74
21 3 0.10
22 5 0.16
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:112505821 original size:42 final size:43
Alignment explanation
Indices: 112505718--112505835 Score: 132
Period size: 42 Copynumber: 2.7 Consensus size: 43
112505708 AAAAAGAAGG
*
112505718 ATATAAATTCATTTGTGGTCCTTAATTTTAAACTTAAAAAAAACC
1 ATATAAATTTATTTGTGGTCCTTAATTTT--ACTTAAAAAAAACC
**** *
112505763 ATATAAATTTGA-TTGTGGTCCTTAATTTTA-TTTTTTAAAATC
1 ATATAAATTT-ATTTGTGGTCCTTAATTTTACTTAAAAAAAACC
*
112505805 ATATAAATTTATTTGTGGTCCTTAAATTTAC
1 ATATAAATTTATTTGTGGTCCTTAATTTTAC
112505836 CAATAAATAC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.02
42 34 0.54
43 1 0.02
45 26 0.41
46 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (43 bp):
ATATAAATTTATTTGTGGTCCTTAATTTTACTTAAAAAAAACC
Found at i:112508029 original size:23 final size:23
Alignment explanation
Indices: 112507986--112508029 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
112507976 AAAATTAAAT
* *
112507986 TGTAATTTTTACAATAGTAAAAA
1 TGTAATTTTTAAAAGAGTAAAAA
*
112508009 TGTAATTTTTAAAAGATTAAA
1 TGTAATTTTTAAAAGAGTAAA
112508030 TCAAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (23 bp):
TGTAATTTTTAAAAGAGTAAAAA
Found at i:112510718 original size:18 final size:18
Alignment explanation
Indices: 112510697--112510754 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 18
112510687 AGGATATGAA
112510697 AACATAATCATATATACT
1 AACATAATCATATATACT
*
112510715 AACATAATCATATATGA-A
1 AACATAATCATATAT-ACT
112510733 AACATAATCATATATACT
1 AACATAATCATATATACT
112510751 AACA
1 AACA
112510755 CTCGAACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (18 bp):
AACATAATCATATATACT
Found at i:112516655 original size:74 final size:72
Alignment explanation
Indices: 112516569--112516719 Score: 257
Period size: 74 Copynumber: 2.1 Consensus size: 72
112516559 TCTTTAAATT
112516569 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAATAAAAG
1 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAAT--AAG
112516634 CATAAAACA
64 CATAAAACA
* *
112516643 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCATGGTATATAATAAGCA
1 AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAATAAGCA
*
112516708 TAAAATA
66 TAAAACA
112516715 AAAAA
1 AAAAA
112516720 CAACATAACC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
72 16 0.22
74 58 0.78
ACGTcount: A:0.52, C:0.13, G:0.11, T:0.25
Consensus pattern (72 bp):
AAAAAAAATCCATAAAATTACTTGATAACTTGAATTCAACATGAGGTCACGGTACATAATAAGCA
TAAAACA
Found at i:112520163 original size:18 final size:18
Alignment explanation
Indices: 112520142--112520185 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
112520132 ATTCTGGTGA
112520142 TTCTAATAAAAGCAACAG
1 TTCTAATAAAAGCAACAG
**
112520160 TTCTGAAT-TGAGCAACAG
1 TTCT-AATAAAAGCAACAG
112520178 TTCTAATA
1 TTCTAATA
112520186 GAATCCCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (18 bp):
TTCTAATAAAAGCAACAG
Found at i:112522389 original size:292 final size:292
Alignment explanation
Indices: 112521865--112522413 Score: 1062
Period size: 292 Copynumber: 1.9 Consensus size: 292
112521855 CAGTCTGCTG
112521865 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
*
112521930 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGTTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGCTTGATTCTGTTGTTGCAATTGC
*
112521995 GGCGCATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
112522060 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGTAGA
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGTAGA
112522125 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
261 CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
*
112522157 CAAAATGAAATGTTGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
1 CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
112522222 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGCTTGATTCTGTTGTTGCAATTGC
66 AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGCTTGATTCTGTTGTTGCAATTGC
112522287 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
131 GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
*
112522352 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTATGTACTCATATTCGTATAGT
196 GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGT
112522414 TCGAACCGCT
Statistics
Matches: 253, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
292 253 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (292 bp):
CAAAATGAAATGTCGGAGCAATGTAGACCCGAAAACATATAAAAAGGAGAGGAAAAAGAATGAAA
AAACAACCTGTTGGTTACTTTGATCTTTTGAGGAAGTCACTGCTTGATTCTGTTGTTGCAATTGC
GGCACATATGTAACGGAATGAGAACCTCCAAAAGTGTTGCCGTTCATCTGACCACGGTTTGGCCT
GGTTTGTCTTGGAGCAGTAGGGAACTATCACATGGTATAGTAAGTACTCATATTCGTATAGTAGA
CCCGAAAATGTCGGAGCAATGTAGGAGCTATC
Found at i:112526350 original size:29 final size:29
Alignment explanation
Indices: 112526277--112526350 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
112526267 AAAATTTTGT
*
112526277 AATA-ATTTAATAATT-TTTTATTTAATT
1 AATATATTTAATAATTATTTTATTTAATC
**
112526304 TTTATATTATAATAATTATTTTATTTTAATC
1 AATATATT-TAATAATTATTTTA-TTTAATC
112526335 AATATATTTAA-AATTA
1 AATATATTTAATAATTA
112526351 AAATTAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 3 0.08
29 13 0.34
30 8 0.21
31 12 0.32
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
AATATATTTAATAATTATTTTATTTAATC
Found at i:112526829 original size:21 final size:22
Alignment explanation
Indices: 112526785--112526829 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
112526775 ATGCTTTAAT
***
112526785 TAATATTTGAAAATTTTTATTA
1 TAATATTTGAAAATTAAAATTA
112526807 TAATATTTGAAAA-TAAAATTA
1 TAATATTTGAAAATTAAAATTA
112526828 TA
1 TA
112526830 CATAATGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAATATTTGAAAATTAAAATTA
Found at i:112535108 original size:17 final size:18
Alignment explanation
Indices: 112535076--112535109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
112535066 ACATTTATGA
*
112535076 TGTATTTGAGATATTATT
1 TGTATTTGACATATTATT
112535094 TGTATTTG-CATATTAT
1 TGTATTTGACATATTAT
112535110 GTAAGGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (18 bp):
TGTATTTGACATATTATT
Found at i:112536312 original size:31 final size:31
Alignment explanation
Indices: 112536272--112536337 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
112536262 AAAACTTAAC
* *
112536272 AGTTTAGTGAC-TTAAGTAAAAGCTTTTGAAT
1 AGTTCAGTGACTTTAA-TAAAAACTTTTGAAT
*
112536303 AGTTCAGTGACTTTAATAAAAATTTTTGAAT
1 AGTTCAGTGACTTTAATAAAAACTTTTGAAT
112536334 AGTT
1 AGTT
112536338 TAATAACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.41
Consensus pattern (31 bp):
AGTTCAGTGACTTTAATAAAAACTTTTGAAT
Found at i:112537439 original size:24 final size:24
Alignment explanation
Indices: 112537400--112537455 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
112537390 ATTATTTAAA
112537400 AAAATACTCATATTTATA-TA-ATT
1 AAAATA-TCATATTTATACTAGATT
*
112537423 AAAATATCATATTTTTATACTAGGTT
1 AAAATATCATA--TTTATACTAGATT
112537449 AAAATAT
1 AAAATAT
112537456 GTCATAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.18
23 6 0.21
24 6 0.21
25 2 0.07
26 9 0.32
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATATCATATTTATACTAGATT
Found at i:112537861 original size:14 final size:14
Alignment explanation
Indices: 112537844--112537909 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
112537834 TAATAAATAT
112537844 TTATTATTAAAAAA
1 TTATTATTAAAAAA
* *
112537858 TTATTATTGAATAA
1 TTATTATTAAAAAA
* *
112537872 TT-TTCAATAAAGAA
1 TTATT-ATTAAAAAA
*
112537886 -TATTATT-TAAAA
1 TTATTATTAAAAAA
112537898 TTATTATTAAAA
1 TTATTATTAAAA
112537910 TAAAATTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
12 3 0.08
13 12 0.31
14 24 0.62
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (14 bp):
TTATTATTAAAAAA
Found at i:112539233 original size:14 final size:14
Alignment explanation
Indices: 112539216--112539248 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
112539206 ATATCAAAAC
112539216 AATAACAATAAT-AT
1 AATAACAA-AATGAT
112539230 AATAACAAAATGAT
1 AATAACAAAATGAT
112539244 AATAA
1 AATAA
112539249 AACAACTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (14 bp):
AATAACAAAATGAT
Found at i:112541536 original size:14 final size:15
Alignment explanation
Indices: 112541514--112541590 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
112541504 CAATCAAACA
112541514 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
112541528 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
112541543 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
112541563 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
112541577 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
112541591 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:112541555 original size:20 final size:20
Alignment explanation
Indices: 112541530--112541569 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
112541520 AATATTTTCC
*
112541530 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
112541550 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
112541570 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:112541575 original size:34 final size:35
Alignment explanation
Indices: 112541518--112541584 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
112541508 CAAACACCAG
*
112541518 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
112541553 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
112541585 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:112543778 original size:14 final size:14
Alignment explanation
Indices: 112543759--112543790 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
112543749 CTAGTTACAT
112543759 CTCACGAACTCGGA
1 CTCACGAACTCGGA
112543773 CTCACGAACTCGGA
1 CTCACGAACTCGGA
112543787 CTCA
1 CTCA
112543791 ACTCAATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (14 bp):
CTCACGAACTCGGA
Found at i:112544276 original size:30 final size:30
Alignment explanation
Indices: 112544231--112544290 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
112544221 ATTTAATACG
* *
112544231 AACTTTGGCAAAATTACATTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
112544261 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
112544291 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:112548102 original size:73 final size:73
Alignment explanation
Indices: 112548016--112548165 Score: 291
Period size: 73 Copynumber: 2.1 Consensus size: 73
112548006 CATTCATTTT
112548016 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
1 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
112548081 TATTATTC
66 TATTATTC
*
112548089 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTGGGTTATTCTATTCAGTCA
1 TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
112548154 TATTATTC
66 TATTATTC
112548162 TATT
1 TATT
112548166 CACTCATATC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (73 bp):
TATTGGTAAAAATCGTTTCATGTAGGTCAATACACATGTCATTGTTAGGTTATTCTATTCAGTCA
TATTATTC
Found at i:112548161 original size:18 final size:18
Alignment explanation
Indices: 112548138--112548174 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
112548128 CATTGTTGGG
*
112548138 TTATTCTATTCAGTCATA
1 TTATTCTATTCACTCATA
112548156 TTATTCTATTCACTCATA
1 TTATTCTATTCACTCATA
112548174 T
1 T
112548175 CAGTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATTCTATTCACTCATA
Found at i:112554322 original size:200 final size:198
Alignment explanation
Indices: 112553974--112554499 Score: 694
Period size: 200 Copynumber: 2.6 Consensus size: 198
112553964 GAGTCTTCAC
* * * * *
112553974 TTTTAATGAAATACATTTGTCCGAAACATATTTGAACACGGGTATCTAACGCTTAGACCCAAGTC
1 TTTTAATGAAATACATTTGTCCTATACATA-TTAAACAC-GGTATCTAACACTTAGACCCAAATC
* *
112554039 CGAGCAACATAGATATCAAGCACTAGATTCATAGCAACTAGGCAAAGCAATCAACCTAGAAGGGA
64 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
* * * * *
112554104 TTTCACTCCTTTTCCTTAGTAATCACTACTCAACCTATTGTTAATATCAAAGATTGCTCCGACTC
129 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTCCAACTC
*
112554169 TTTGA
194 TTCGA
* * *
112554174 TTTTCATGAAATACATTTGTCCTATACAAATTCAAACACAGGTATCTAAAACTTAGACCCAAATC
1 TTTTAATGAAATACATTTGTCCTATACATATT-AAACAC-GGTATCTAACACTTAGACCCAAATC
* * *
112554239 CGAGCAATATAGATATCAAGCACAAGATTCATGGCAACTAGGCCAAGCAATCAACCTAGAATGGA
64 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
* * * *
112554304 TTTCATTCCTTTTCCTTAGTAATCACAACTCACCCTATAGTTAACATCATAGATAGCTCCAATTC
129 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTCCAACTC
*
112554369 TTCGG
194 TTCGA
* * * * *
112554374 TTTTTATGAAATACACTTGTCCTTTACATATTAGAGCACGAGTATCTAACACTTAGACCCAAATA
1 TTTTAATGAAATACATTTGTCCTATACATATTA-AACACG-GTATCTAACACTTAGACCCAAATC
* * *
112554439 CAAGCAATATAGATATCAAACACTAGATTCGA-AACAACTAGGCCAAGCAATCAACCTAGAA
64 CGAGCAATATAGATATCAAGCACTAGATTC-ATAGCAACTAGGCCAAGCAATCAACCTAGAA
112554500 ATCCTATAAT
Statistics
Matches: 285, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
199 4 0.01
200 280 0.98
201 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (198 bp):
TTTTAATGAAATACATTTGTCCTATACATATTAAACACGGTATCTAACACTTAGACCCAAATCCG
AGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGATT
TCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTCCAACTCTT
CGA
Found at i:112573840 original size:20 final size:19
Alignment explanation
Indices: 112573798--112573878 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 19
112573788 CATGTACTTC
*
112573798 ATTTTTTTTAATTTTTATGAA
1 ATTTTTTATAATTTTTA--AA
112573819 ATTTTTTATATATTTTTAAA
1 ATTTTTTATA-ATTTTTAAA
*
112573839 ATTAAACTTTAT--TTTTTAAA
1 ATT---TTTTATAATTTTTAAA
112573859 ATATTTTTATAATTTTTAAA
1 AT-TTTTTATAATTTTTAAA
112573879 TTATTATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
18 5 0.10
20 23 0.46
21 10 0.20
22 7 0.14
23 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
ATTTTTTATAATTTTTAAA
Found at i:112592915 original size:14 final size:14
Alignment explanation
Indices: 112592896--112592925 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
112592886 ATCATTAGTT
112592896 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
112592910 TTACTAAGTGGTAC
1 TTACTAAGTGGTAC
112592924 TT
1 TT
112592926 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (14 bp):
TTACTAAGTGGTAC
Found at i:112600699 original size:23 final size:23
Alignment explanation
Indices: 112600655--112600699 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
112600645 ACCAATTCAA
*
112600655 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
112600678 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
112600700 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:112605414 original size:21 final size:21
Alignment explanation
Indices: 112605375--112605423 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
112605365 GTGAAATGAC
*
112605375 AGAAACTAGTGGAAAAACAAT
1 AGAAAATAGTGGAAAAACAAT
112605396 AGCAAAATAGTGG-AAAACAAT
1 AG-AAAATAGTGGAAAAACAAT
112605417 AGAAAAT
1 AGAAAAT
112605424 TAACAGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 5 0.19
21 12 0.46
22 9 0.35
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.14
Consensus pattern (21 bp):
AGAAAATAGTGGAAAAACAAT
Found at i:112609967 original size:29 final size:26
Alignment explanation
Indices: 112609903--112609964 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
112609893 AATGCCCTGT
*
112609903 AATTAATTACCATATTAAAAAATTAAA
1 AATT-ATTACCATATTAAAAAAATAAA
112609930 AATTATTACCAATATATCAAAAAAAT-AA
1 AATTATTACC-ATAT-T-AAAAAAATAAA
112609958 AATTATT
1 AATTATT
112609965 TACTTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 6 0.19
27 8 0.26
28 10 0.32
29 7 0.23
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (26 bp):
AATTATTACCATATTAAAAAAATAAA
Found at i:112614277 original size:12 final size:12
Alignment explanation
Indices: 112614262--112614291 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
112614252 TTAAGTATAC
112614262 ATTTATTTTTTA
1 ATTTATTTTTTA
112614274 ATTTA-TTTTTA
1 ATTTATTTTTTA
112614285 ATTTATT
1 ATTTATT
112614292 GAGAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTATTTTTTA
Found at i:112616948 original size:167 final size:166
Alignment explanation
Indices: 112616620--112617052 Score: 598
Period size: 167 Copynumber: 2.6 Consensus size: 166
112616610 AATGGACCAA
*
112616620 AGTTAATTAGAACGAGGAATAAGACCATGAAACAAAGCAAACACAATATACAAACATGACACAAG
1 AGTTAATTAGAACGAGG-ATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * * *
112616685 TTTATTTTGAT-AAATCAAATGCAACAGCCAATGTTTTTAAGAAGTCTTCAATGATTCTAACAGC
65 TTTGTTTTGCTAAAACCAAATGCAACAGCCAATGTTTTCAAGAAGTCTTCAAGGATTCTAACAGC
112616749 AGCTATTGTGAACTTACAAAATTTCACCATAAACACT
130 AGCTATTGTGAACTTACAAAATTTCACCATAAACACT
* *
112616786 AGTTAATTAGAACGAGGACTAAGACCATGAAACAAAGCAAACACAACATGCAAACATGATACAAG
1 AGTTAATTAGAACGAGGA-TAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * * * *
112616851 TTTGTTTTGCTAAAACCGAGTGCAACAGCCAATGTTTTCGAGATGTCTTCAAGGGTTTTAACAGC
65 TTTGTTTTGCTAAAACCAAATGCAACAGCCAATGTTTTCAAGAAGTCTTCAAGGATTCTAACAGC
*
112616916 AGCTATTGTGAACTTACAAAATTTCTCCATAAACACT
130 AGCTATTGTGAACTTACAAAATTTCACCATAAACACT
* * *
112616953 AGATAATTAGAATGAGGAAAAGGACCATGAAACAAAGGTTGCAAACACAACATACAAACATGACA
1 AGTTAATTAGAACGAGGATAA-GACCATGAAACAAA----GCAAACACAACATACAAACATGACA
* * * *
112617018 CAAGTTTGTTTCGCTAAAATCATATGTAACAGCCA
61 CAAGTTTGTTTTGCTAAAACCAAATGCAACAGCCA
112617053 TCGTTTCCGA
Statistics
Matches: 234, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
165 1 0.00
166 71 0.30
167 110 0.47
171 52 0.22
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (166 bp):
AGTTAATTAGAACGAGGATAAGACCATGAAACAAAGCAAACACAACATACAAACATGACACAAGT
TTGTTTTGCTAAAACCAAATGCAACAGCCAATGTTTTCAAGAAGTCTTCAAGGATTCTAACAGCA
GCTATTGTGAACTTACAAAATTTCACCATAAACACT
Found at i:112618401 original size:5 final size:6
Alignment explanation
Indices: 112618376--112618400 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
112618366 TCTTTTCAGT
112618376 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
112618401 TTTGCCACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:112620901 original size:24 final size:26
Alignment explanation
Indices: 112620854--112620902 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
112620844 ATATTAAAAG
*
112620854 ATATATATATATAAAATGTATACATA
1 ATATATATATATAAAATATATACATA
*
112620880 ATATA-ATAT-TAAAATATTTACAT
1 ATATATATATATAAAATATATACAT
112620903 GGTATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATATATATATAAAATATATACATA
Found at i:112621448 original size:39 final size:39
Alignment explanation
Indices: 112621405--112621483 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
112621395 AAAAAAGCTG
*
112621405 ATCCCACTCCTCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCTCCATGCCACTTTGTTTTATTATTAATTA
112621444 ATCCCACTCCTCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCTCCATGCCACTTTGTTTTATTATTAATTA
112621483 A
1 A
112621484 AACCATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (39 bp):
ATCCCACTCCTCCATGCCACTTTGTTTTATTATTAATTA
Found at i:112624357 original size:53 final size:52
Alignment explanation
Indices: 112624207--112624366 Score: 187
Period size: 52 Copynumber: 3.1 Consensus size: 52
112624197 TGACGGAAAA
* * * *
112624207 GATGTGATACATGATTCCATATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * * * *
112624259 CATGTGATTCGT-ATCCCTGTATAAGACCATAGCTGGGCTAGGGCATCGGTGT
1 GATGTGATTCGTGATTCC-GTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * *
112624311 GATGTGATTATGTGATTCCGTATAAGACCATATCCGGGATATGGCATCGGTAT
1 GATGTGATT-CGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
112624364 GAT
1 GAT
112624367 ATGTGGTCCG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
51 4 0.05
52 46 0.52
53 34 0.39
54 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (52 bp):
GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
Found at i:112624417 original size:46 final size:46
Alignment explanation
Indices: 112624277--112624407 Score: 109
Period size: 46 Copynumber: 2.7 Consensus size: 46
112624267 TCGTATCCCT
* * * *
112624277 GTATAAGACCATAGCTGGGCTAGGGCATCGGTGTGATGTGATTATGTGATTCC
1 GTATAAGACCATAGCAGGGATATGGCATC-G-GT-A--TGA-TATGTG-GTCC
* *
112624330 GTATAAGACCATATCCGGGATATGGCATCGGTATGATATGTGGTCC
1 GTATAAGACCATAGCAGGGATATGGCATCGGTATGATATGTGGTCC
* * * *
112624376 GTGTAAGACCATGGCAGGGTTATGGCTTCGGT
1 GTATAAGACCATAGCAGGGATATGGCATCGGT
112624408 GTATGATGTG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 29 0.43
47 6 0.09
48 3 0.04
50 1 0.01
51 2 0.03
52 1 0.01
53 25 0.37
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (46 bp):
GTATAAGACCATAGCAGGGATATGGCATCGGTATGATATGTGGTCC
Found at i:112630129 original size:52 final size:53
Alignment explanation
Indices: 112630005--112630153 Score: 167
Period size: 52 Copynumber: 2.8 Consensus size: 53
112629995 CGGACCACAT
* *
112630005 ATCATACCGATGCCATATCCCGGATATGGTCTTATACGGAATCACATAATCAC
1 ATCATACCGATGCCATAGCCCGGATATGGTCTTATACGGAATCACAGAATCAC
* * * * * *
112630058 ATCACACCAATGCCGTAGCCCAGTTATGGTCTTATACAGGGAT-AC-GAATCAC
1 ATCATACCGATGCCATAGCCCGGATATGGTCTTATAC-GGAATCACAGAATCAC
** * *
112630110 ATGGTACCGATGCCATAGCCCGGCTATGGTCTTATATGGAATCA
1 ATCATACCGATGCCATAGCCCGGATATGGTCTTATACGGAATCA
112630154 TGTATCACAT
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
51 4 0.05
52 36 0.47
53 33 0.43
54 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (53 bp):
ATCATACCGATGCCATAGCCCGGATATGGTCTTATACGGAATCACAGAATCAC
Found at i:112632945 original size:39 final size:39
Alignment explanation
Indices: 112632892--112632966 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
112632882 AAATATAGTT
*
112632892 TTAATTAATAATAAAACAAAGTGGCATGGAGGAGTGAGA
1 TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTGAGA
112632931 TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTG
1 TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTG
112632967 GGATCAACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGAGGAGTGAGA
Found at i:112633500 original size:24 final size:24
Alignment explanation
Indices: 112633454--112633519 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
112633444 TTTGTTTTTT
* **
112633454 ACATTATTATGTATATACCATGTAA
1 ACATT-TTATATATATATTATGTAA
* *
112633479 ATATTTTA-ATATTATATTATGTAT
1 ACATTTTATATA-TATATTATGTAA
112633503 ACATTTTATATATATAT
1 ACATTTTATATATATAT
112633520 CTTTTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.06
24 24 0.73
25 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (24 bp):
ACATTTTATATATATATTATGTAA
Found at i:112635690 original size:44 final size:44
Alignment explanation
Indices: 112635589--112636058 Score: 642
Period size: 44 Copynumber: 10.8 Consensus size: 44
112635579 GAAAAAACAA
* *
112635589 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATC----ATATTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
112635629 GACCTGCTCTTCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
112635673 GATCTGCTCTCCACCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * * * * * *
112635717 GATATACTTTTCGTCGTTACAGAGATGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
112635761 GATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * * *
112635805 GATCTGCTCTCCGCTGCTATAGAGACGCTAAATCTGTTATCTGC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * * *
112635849 GATATGCTCTCCGCTGCTATAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
112635893 GATATGCTCTCCGCTGCTACAGAGACGCTAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* *
112635937 GATATCCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
* * *
112635981 GATCTGCTCTTCGCCGCTACAGAGACGCTAAATCTGTTATCTTT
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
*
112636025 GATCTGCTCTCTGCCGCTACAGAGACGCCAAATC
1 GATCTGCTCTCCGCCGCTACAGAGACGCCAAATC
112636059 ATCTTGGATT
Statistics
Matches: 386, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
40 31 0.08
44 355 0.92
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (44 bp):
GATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTC
Found at i:112640918 original size:18 final size:20
Alignment explanation
Indices: 112640881--112640919 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
112640871 AGTTAAATAC
*
112640881 ATAATACATACATGTTAAAA
1 ATAATACATACATATTAAAA
112640901 ATAAT-CATA-ATATTAAAA
1 ATAATACATACATATTAAAA
112640919 A
1 A
112640920 CAACTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAATACATACATATTAAAA
Found at i:112641126 original size:24 final size:26
Alignment explanation
Indices: 112641079--112641127 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
112641069 TTAAAGATAT
*
112641079 ATATATATATATAAAATGTATACATA
1 ATATATATATATAAAATATATACATA
*
112641105 ATATA-ATAT-TAAAATATTTACAT
1 ATATATATATATAAAATATATACAT
112641128 GGTATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATATATATATAAAATATATACATA
Found at i:112641670 original size:39 final size:39
Alignment explanation
Indices: 112641627--112641708 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
112641617 AGCAAAAAAG
*
112641627 TTAATCCCACTCCCCCATGCTACTTTGTTTTATTATTAA
1 TTAATCCCACTCCCCCATGCCACTTTGTTTTATTATTAA
**
112641666 TTAATCTGACTCCCCCATGCCACTTTGTTTTATTATTAA
1 TTAATCCCACTCCCCCATGCCACTTTGTTTTATTATTAA
112641705 TTAA
1 TTAA
112641709 AACCATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (39 bp):
TTAATCCCACTCCCCCATGCCACTTTGTTTTATTATTAA
Found at i:112654200 original size:17 final size:17
Alignment explanation
Indices: 112654175--112654213 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
112654165 GACTAAAAAT
**
112654175 AATAATTTATATTTAAA
1 AATAATTTATAACTAAA
*
112654192 AATATTTTATAACTAAA
1 AATAATTTATAACTAAA
112654209 AATAA
1 AATAA
112654214 ATAAATATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTTATAACTAAA
Found at i:112655579 original size:67 final size:68
Alignment explanation
Indices: 112655471--112655611 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 68
112655461 ATGAAAACAA
112655471 ATTACAATGTACATATATGTGTGTACGTATTTATGAACACGC-GTATGTATGCATCCAAAGTATC
1 ATTACAATGTACATATATGTGTGTACGTATTTATGAACACGCTGTATGTATGCATCCAAAGTATC
112655535 TTT
66 TTT
*
112655538 ATTACAATGTACGTATATGTGTGTACGTATTTATGAACACGCGTATGTATGTATGCATCCAAAGT
1 ATTACAATGTACATATATGTGTGTACGTATTTATGAACACGC---TGTATGTATGCATCCAAAGT
112655603 ATCTTT
63 ATCTTT
112655609 ATT
1 ATT
112655612 CCTCGTCGAG
Statistics
Matches: 69, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
67 41 0.59
71 28 0.41
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (68 bp):
ATTACAATGTACATATATGTGTGTACGTATTTATGAACACGCTGTATGTATGCATCCAAAGTATC
TTT
Found at i:112658103 original size:39 final size:39
Alignment explanation
Indices: 112658049--112658125 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
112658039 AGAGCTGGAT
*
112658049 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
112658088 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
112658126 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:112664312 original size:25 final size:24
Alignment explanation
Indices: 112664289--112664335 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
112664279 TTGGTTTTTA
* *
112664289 TTTT-CATTTTGGTACCTAAGTTT
1 TTTTCCATCTTGGTACCCAAGTTT
*
112664312 TTTTCCCTCTTGGTACCCAAGTTT
1 TTTTCCATCTTGGTACCCAAGTTT
112664336 GGCTTTAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.15, C:0.21, G:0.13, T:0.51
Consensus pattern (24 bp):
TTTTCCATCTTGGTACCCAAGTTT
Found at i:112668115 original size:191 final size:190
Alignment explanation
Indices: 112667478--112668168 Score: 773
Period size: 191 Copynumber: 3.6 Consensus size: 190
112667468 TATACCAACA
* * * **
112667478 TAACACTCTCTAGAAAAGAATGTTTAGAACCTAGACACTGATGTCTTTACGAGTAGC-AGTGTGA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTA-TGTGA
* ** * * * * *
112667542 ATTCATGACTTGTATGCTTTTATAATGACATGTTTCCAATGTCTAGAGCATCCTTTTGATCGAAA
65 ATTCGTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCACCCTTTTGATTGAAG
* * *
112667607 CCATATTCATGTTCAGCTGCATATTATGAACTTGAATGAATGAAGCATGTTGCTATACAGACG
130 CCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG-TATAC-GACG
* * **
112667670 TAACACCCTCTAGAAAAGAATGTTTAGAACC-GAGAAATCAATGTCTTTACGAGCAGAGA-GTGA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTG-GAAACCAATGTCTTTACGAGTAGCTATGTGA
* * * * *
112667733 A-TCTGCGACTTACATGCATTTATAATGAAATGTTTTCGATGTCTAGAGCACCCCTTTTGATTGA
65 ATTC-GTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCA-CCCTTTTGATTGA
* * *
112667797 AGCCATATTCATGTTCTGCTGCATATTATGAATTTGAATGAATGAAACACATTGTATAACGGCG
128 AGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTGTAT-ACGACG
* * *** *
112667861 TAACACCCTATATAAAAGAATGTTTAGAACCTGGAAAATGATGTCTTTACGAGTAGGTATGTGAA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTATGTGAA
* * * ** * *
112667926 TACGTGACGCATATGCTTTTATAATGAAATGTTTTCAGTGTCTAGTTCACCCTTTTGATTGCAGT
66 TTCGTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCACCCTTTTGATTGAAGC
* * * *
112667991 CATATTCAAGTTTTGCTGCATATTATGAACTTGAATGAATGAAAAACGTTGTATGCTGACG
131 CATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTGTATAC-GACG
* * * **
112668052 TAACACCGTCTAGAAAAGAATGTTTAGAACCTGGAACCCAATTTCTTTTTGAGTAGCTATGTGAA
1 TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTATGTGAA
* * * *
112668117 TTTGTGACTC--ATGCTTTTTTACTGAAATGTTTTTCAATGTCTAAAGCACCCT
66 TTCGTGACTCATATGCTTTTATAATGAAATG-TTTTCAATGTCTAGAGCACCCT
112668169 GCTTTATATT
Statistics
Matches: 417, Mismatches: 72, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
189 17 0.04
190 21 0.05
191 225 0.54
192 152 0.36
193 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (190 bp):
TAACACCCTCTAGAAAAGAATGTTTAGAACCTGGAAACCAATGTCTTTACGAGTAGCTATGTGAA
TTCGTGACTCATATGCTTTTATAATGAAATGTTTTCAATGTCTAGAGCACCCTTTTGATTGAAGC
CATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTGTATACGACG
Found at i:112668282 original size:165 final size:165
Alignment explanation
Indices: 112668010--112668317 Score: 372
Period size: 165 Copynumber: 1.9 Consensus size: 165
112668000 GTTTTGCTGC
* ** *
112668010 ATATTATGAACTTGAATGAATGAAAAACGTTGTATGCTGACGTAACACCGTCTAGAAAAGAATGT
1 ATATTATGAACTTGAATGAATGAAAAACGTTGTATACCAACGTAACACCCTCTAGAAAAGAATGT
* * *** ** * *
112668075 TTAGAACCTGGAACCCAATTTCTTTTTGAGTAGCTATGTGAATTTGTGAC-TCATGCTTTTTTAC
66 TTAGAACCTGGAAACCAATATCTTTACAAGTAGCTATGTGAATTCATGACTTCATGCTTTTATAA
112668139 TGAAATGTTTTTCAATGTCTAAAGCACCCTGCTTT
131 TGAAATGTTTTTCAATGTCTAAAGCACCCTGCTTT
* * *
112668174 ATATTATGAACTTGAATGAATGAAGCACATCGTT-TA-ACCAACGTAACACCCTGTAGAAAGGAA
1 ATATTATGAACTTGAATGAATGAA--A-AACGTTGTATACCAACGTAACACCCTCTAGAAAAGAA
* * *
112668237 TGTTTAGAA-TTCGGAAACCAATATCTTTACAAGTAGCTGTGTGAATTCATGACTTTTATGCTTT
63 TGTTTAGAACCT-GGAAACCAATATCTTTACAAGTAGCTATGTGAATTCATGAC-TTCATGCTTT
112668301 TATAATGAAATGTTTTT
126 TATAATGAAATGTTTTT
112668318 TATGTATGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
164 25 0.21
165 63 0.53
166 3 0.03
167 28 0.24
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (165 bp):
ATATTATGAACTTGAATGAATGAAAAACGTTGTATACCAACGTAACACCCTCTAGAAAAGAATGT
TTAGAACCTGGAAACCAATATCTTTACAAGTAGCTATGTGAATTCATGACTTCATGCTTTTATAA
TGAAATGTTTTTCAATGTCTAAAGCACCCTGCTTT
Found at i:112670984 original size:22 final size:23
Alignment explanation
Indices: 112670958--112671006 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
112670948 TACAAGCACT
*
112670958 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
112670980 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
112671004 TAT
1 TAT
112671007 GAATAGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATATTGAAAATACATAAGTATA
Found at i:112671051 original size:3 final size:3
Alignment explanation
Indices: 112671040--112671095 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
112671030 CAATAATACC
* * *
112671040 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
112671085 AAT AAT AAT AA
1 AAT AAT AAT AA
112671096 AGTTAACAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:112672614 original size:87 final size:85
Alignment explanation
Indices: 112672503--112672961 Score: 370
Period size: 87 Copynumber: 5.3 Consensus size: 85
112672493 GACCTACTCT
* *
112672503 GCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAA-CTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAG
112672568 GATAGTGTCTTCGATCTGCTCC
65 GATA-TGTCTTCGATCTGCTCC
* * ** ** * * *
112672590 GCTGTAATCTCGGGGGGATAAGAT-CTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGA
1 GCTGTAA-CTCAGGGAGATAAGATCCT-TTATT-TT-AATCCACTCCACTGTAACTTCAGGGAGA
* ** * * * *
112672654 TAAGACCTG-ATGCGATCTACTCT
62 TAGGATATGTCTTCGATCTGCTCC
* * *
112672677 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAG
*
112672742 GATTATATCTTCGATCTGCTCC
65 GA-TATGTCTTCGATCTGCTCC
* ** ** * * *
112672764 GCTGTAACCTCAGGGAGACAAGAT-CTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGA
1 GCTGTAA-CTCAGGGAGATAAGATCCT-TTATT-TT-AATCCACTCCACTGTAACTTCAGGGAGA
* ** * * * *
112672828 TAAGACCTG-ATGCGATCTACTCT
62 TAGGATATGTCTTCGATCTGCTCC
* * *
112672851 ACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAAC-TCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAG
*
112672915 GATTATATCTTCGATCTGCTCC
65 GA-TATGTCTTCGATCTGCTCC
*
112672937 GCTGTAACCTCAGGGAGACAAGATC
1 GCTGTAA-CTCAGGGAGATAAGATC
112672962 TGCAATTCTT
Statistics
Matches: 276, Mismatches: 80, Indels: 33
0.71 0.21 0.08
Matches are distributed among these distances:
84 26 0.09
85 29 0.11
86 40 0.14
87 117 0.42
88 12 0.04
89 52 0.19
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (85 bp):
GCTGTAACTCAGGGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGG
ATATGTCTTCGATCTGCTCC
Found at i:112672690 original size:41 final size:42
Alignment explanation
Indices: 112672504--112673043 Score: 236
Period size: 43 Copynumber: 12.5 Consensus size: 42
112672494 ACCTACTCTG
* ** * *
112672504 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCA
1 CTGTAACCTCAGAGAGATAAGA-CC-TGATTTCGATCTACTCCA
* * * ** * *
112672548 CTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTGCTCCG
1 CTGTAACCTCAGAGAGATAAGA-CCTGAT-TTCGATCTACTCCA
* * * * * *
112672591 CTGTAATCTCGGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
1 CTGTAACCTCAGAGAGATAAGACCTG--A-T-TTCGATCTACTCCA
* *
112672637 CTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTACTCTA
1 CTGTAACCTCAGAGAGATAAGACCTGATTTCGATCTACTCCA
* * ** **
112672678 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGAGAGATAAGA-CC-TGATTTCGATCTACTCCA
* * * * * * *
112672722 CTGTAACTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCG
1 CTGTAACCTCAGAGAGATAAGACCT-GAT-TTCGATCTACTCCA
* * * *
112672765 CTGTAACCTCAGGGAGACAAGATCTGCAATTCTTCGGTCTACTCCA
1 CTGTAACCTCAGAGAGATAAGACCTG--A-T-TTCGATCTACTCCA
* *
112672811 CTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTACTCTA
1 CTGTAACCTCAGAGAGATAAGACCTGATTTCGATCTACTCCA
* * * **
112672852 CTGTAACTTCAGAGAGATAAGATCCTTTATTT-AATCCGCTCCA
1 CTGTAACCTCAGAGAGATAAGA-CC-TGATTTCGATCTACTCCA
* * * * * * *
112672895 CTGTAACTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCG
1 CTGTAACCTCAGAGAGATAAGACCT-GAT-TTCGATCTACTCCA
* * * **
112672938 CTGTAACCTCAGGGAGACAAGATCTGCAATTCTTCG-TCTGTTCCA
1 CTGTAACCTCAGAGAGATAAGACCTG--A-T-TTCGATCTACTCCA
* * * * *
112672983 CTGTAATCTCAGGGAGAT-AGA-CTGATGT-GATCTTCTCTA
1 CTGTAACCTCAGAGAGATAAGACCTGATTTCGATCTACTCCA
*
112673022 CTGTAACTTCAGAGAGATAAGA
1 CTGTAACCTCAGAGAGATAAGA
112673044 TCCTTTAATC
Statistics
Matches: 382, Mismatches: 88, Indels: 56
0.73 0.17 0.11
Matches are distributed among these distances:
38 1 0.00
39 22 0.06
40 5 0.01
41 69 0.18
42 12 0.03
43 116 0.30
44 56 0.15
45 25 0.07
46 76 0.20
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
CTGTAACCTCAGAGAGATAAGACCTGATTTCGATCTACTCCA
Found at i:112672755 original size:174 final size:174
Alignment explanation
Indices: 112672479--112673108 Score: 958
Period size: 174 Copynumber: 3.7 Consensus size: 174
112672469 CTTCAGGGAA
* * * * * *
112672479 ATAAGACTTGATGCGACCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCAC
1 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAATCCGC
* * * * *
112672544 TCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAATCTCGGGGGGA
65 TCCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
*
112672608 TAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAG
130 CAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAG
112672653 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGC
1 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA-TTTAATCCGC
112672718 TCCACTGTAACTTCAGGGAGATAGGATTA-TATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
65 TCCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGA
112672782 CAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAG
130 CAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAG
112672827 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTAATCCGCT
1 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTAATCCGCT
112672892 CCACTGTAACTTCAGGGAGATAGGATTA-TATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAC
66 CCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAC
** * *
112672956 AAGATCTGCAATTCTTC-GTCTGTTCCACTGTAATCTCAGGGAG
131 AAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAG
* *
112672999 AT-AGA-CTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC----TTTAATCCGCT
1 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTAATCCGCT
* * * *
112673058 CCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTTCGCTGT
66 CCACTGTAACT-TCAGGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGT
112673109 TAATGCAGGA
Statistics
Matches: 432, Mismatches: 21, Indels: 13
0.93 0.05 0.03
Matches are distributed among these distances:
165 1 0.00
166 35 0.08
167 20 0.05
170 41 0.09
171 3 0.01
172 24 0.06
173 92 0.21
174 214 0.50
175 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (174 bp):
ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTAATCCGCT
CCACTGTAACTTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGGAGAC
AAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAG
Found at i:112672777 original size:43 final size:44
Alignment explanation
Indices: 112672543--112673001 Score: 295
Period size: 43 Copynumber: 10.5 Consensus size: 44
112672533 TTTTAACCCA
* * *
112672543 CTCCACTGTAACTTCAGGGAGATAGGA--TAGTGTCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTA-TATCTTCGATCTG
* * * * * *
112672586 CTCCGCTGTAATCTCGGGGGGATAAGATCTGCA-ATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT--ATA-TCTTCGATCTG
* * * * *
112672632 CTCCACTGTAACCTCAGAGAGATAAGACCT-GA--TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTATATCTTCGATCTG
* * * * ** *
112672673 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT-TTTAATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTATATCTTCGATCTG
* *
112672717 CTCCACTGTAACTTCAGGGAGATAGGAT-TATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTATATCTTCGATCTG
* * * *
112672760 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCA-ATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT--ATA-TCTTCGATCTG
* * * * *
112672806 CTCCACTGTAACCTCAGAGAGATAAGACCT-GA--TGCGATCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTATATCTTCGATCTG
* * * * * *
112672847 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTAT-TT-AATCCG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-CTATATCTTCGATCTG
* *
112672890 CTCCACTGTAACTTCAGGGAGATAGGAT-TATATCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTATATCTTCGATCTG
* *
112672933 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCA-ATTCTTCG-TCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCT--ATA-TCTTCGATCTG
* *
112672978 TTCCACTGTAATCTCAGGGAGATA
1 CTCCACTGTAACCTCAGGGAGATA
112673002 GACTGATGTG
Statistics
Matches: 325, Mismatches: 67, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
41 68 0.21
42 10 0.03
43 109 0.34
44 34 0.10
45 27 0.08
46 76 0.23
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTATATCTTCGATCTG
Found at i:112674466 original size:1 final size:1
Alignment explanation
Indices: 112674460--112674489 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
112674450 CTCTCCAAAG
112674460 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
112674490 AGGAAGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:112684192 original size:22 final size:23
Alignment explanation
Indices: 112684166--112684214 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
112684156 TACAAGCACT
*
112684166 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
112684188 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
112684212 TAT
1 TAT
112684215 GAATAGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATATTGAAAATACATAAGTATA
Found at i:112684259 original size:3 final size:3
Alignment explanation
Indices: 112684248--112684300 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
112684238 CAATAATACC
* *
112684248 AAT ACT AAT AAT AGT AA- AGAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
112684293 AAT AAT AA
1 AAT AAT AA
112684301 AGTTAACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.95
4 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:112696872 original size:21 final size:22
Alignment explanation
Indices: 112696825--112696873 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
112696815 TTAACTTTTT
* *
112696825 CATAAAAAAATTTTGAACAAAA
1 CATAAAAAAATATAGAACAAAA
*
112696847 -TTAAAAAAA-ATAGAACAAAA
1 CATAAAAAAATATAGAACAAAA
112696867 CATAAAA
1 CATAAAA
112696874 TACGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.18
Consensus pattern (22 bp):
CATAAAAAAATATAGAACAAAA
Found at i:112699483 original size:30 final size:30
Alignment explanation
Indices: 112699381--112699483 Score: 111
Period size: 29 Copynumber: 3.4 Consensus size: 30
112699371 AATTTGTGAA
* *
112699381 TTTTAAAAATTTTAAGAGAGTTTAATTAAAA-
1 TTTTAAAAAATTT-AGAG-GTATAATTAAAAT
* * * *
112699412 TTTTAAAAAATTAAAAGATATAATGAAAAT
1 TTTTAAAAAATTTAGAGGTATAATTAAAAT
*
112699442 TTTT-AAAAATTTAGAGGTCTAATTAAAAT
1 TTTTAAAAAATTTAGAGGTATAATTAAAAT
112699471 TTTTAAAAAATTT
1 TTTTAAAAAATTT
112699484 CAAGGAAGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
29 33 0.56
30 15 0.25
31 11 0.19
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (30 bp):
TTTTAAAAAATTTAGAGGTATAATTAAAAT
Found at i:112711689 original size:23 final size:23
Alignment explanation
Indices: 112711662--112711741 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 23
112711652 TTTTCAATCC
112711662 TCAAAATTTTATAATTTTATAAT
1 TCAAAATTTTATAATTTTATAAT
* *
112711685 TC-AAATTATGATAAAATTATTTTTCAAT
1 TCAAAATT-T--TATAA-T-TTTAT-AAT
112711713 CCTCAAAATTTTATAATTTTATAAT
1 --TCAAAATTTTATAATTTTATAAT
112711738 TCAA
1 TCAA
112711742 TTTCAGCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
22 5 0.11
23 7 0.16
25 7 0.16
26 5 0.11
27 5 0.11
28 7 0.16
30 3 0.07
31 5 0.11
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.47
Consensus pattern (23 bp):
TCAAAATTTTATAATTTTATAAT
Found at i:112711697 original size:53 final size:53
Alignment explanation
Indices: 112711635--112711741 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
112711625 ATACTGTATT
112711635 AATTATGATAAAATTATTTTTCAATCCTCAAAATTTTATAATTTTATAATTCA
1 AATTATGATAAAATTATTTTTCAATCCTCAAAATTTTATAATTTTATAATTCA
112711688 AATTATGATAAAATTATTTTTCAATCCTCAAAATTTTATAATTTTATAATTCA
1 AATTATGATAAAATTATTTTTCAATCCTCAAAATTTTATAATTTTATAATTCA
112711741 A
1 A
112711742 TTTCAGCACT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (53 bp):
AATTATGATAAAATTATTTTTCAATCCTCAAAATTTTATAATTTTATAATTCA
Found at i:112711788 original size:24 final size:24
Alignment explanation
Indices: 112711760--112711809 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
112711750 CTTAAAAAAA
*
112711760 TTAATCTGACCGTATTAAACGTTG
1 TTAATCTGACCATATTAAACGTTG
* * *
112711784 TTAATTTGACCATGTTAACCGTTG
1 TTAATCTGACCATATTAAACGTTG
112711808 TT
1 TT
112711810 CACCCCTTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (24 bp):
TTAATCTGACCATATTAAACGTTG
Found at i:112716420 original size:20 final size:20
Alignment explanation
Indices: 112716363--112716422 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
112716353 TGGAGAAGAG
* *
112716363 AGAAAAAGAAAGGGAGAAAA
1 AGAAAAAAAAAGGGAAAAAA
**
112716383 AGAAAAAAAAAGTTAAAAAA
1 AGAAAAAAAAAGGGAAAAAA
* *
112716403 AGAACATAAAAGGGAAAAAA
1 AGAAAAAAAAAGGGAAAAAA
112716423 TTAAATTCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (20 bp):
AGAAAAAAAAAGGGAAAAAA
Found at i:112731824 original size:29 final size:31
Alignment explanation
Indices: 112731775--112731834 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
112731765 TTATTTGACA
* **
112731775 AAAAAAAATATAAATTTAATGGTTAAAAAAG
1 AAAAAAAATATAAATTGAATGGCCAAAAAAG
112731806 AAAAAAAATA-AAA-TGAATGGCCAAAAAAG
1 AAAAAAAATATAAATTGAATGGCCAAAAAAG
112731835 TTATTATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.50
30 3 0.12
31 10 0.38
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (31 bp):
AAAAAAAATATAAATTGAATGGCCAAAAAAG
Found at i:112732326 original size:29 final size:29
Alignment explanation
Indices: 112732289--112732351 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
112732279 TTTTTTGAAA
* *
112732289 AATTAAA-CCTCCAAAATTTTAGATATTTT
1 AATTAAACCCT-CAAAATTTTAAAAATTTT
*
112732318 AATTAAACCCTCAAATTTTTAAAAATTTT
1 AATTAAACCCTCAAAATTTTAAAAATTTT
112732347 AATTA
1 AATTA
112732352 GACTTCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (29 bp):
AATTAAACCCTCAAAATTTTAAAAATTTT
Found at i:112733274 original size:17 final size:17
Alignment explanation
Indices: 112733252--112733284 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
112733242 TGACCGTGCA
112733252 GTGAAGCAATGAAGAAT
1 GTGAAGCAATGAAGAAT
*
112733269 GTGAAGCAGTGAAGAA
1 GTGAAGCAATGAAGAA
112733285 AGAAAGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.33, T:0.15
Consensus pattern (17 bp):
GTGAAGCAATGAAGAAT
Found at i:112734228 original size:14 final size:14
Alignment explanation
Indices: 112734211--112734245 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
112734201 GTTTGTTAGG
*
112734211 TTTTGAATGAAAAA
1 TTTTGAATCAAAAA
*
112734225 TTTTGCATCAAAAA
1 TTTTGAATCAAAAA
112734239 TTTTGAA
1 TTTTGAA
112734246 AATTGTAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (14 bp):
TTTTGAATCAAAAA
Found at i:112737262 original size:4 final size:4
Alignment explanation
Indices: 112737253--112737343 Score: 83
Period size: 4 Copynumber: 22.2 Consensus size: 4
112737243 GTAAGTTAAA
* *** * * *
112737253 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAATT
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G
**
112737303 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
112737344 GAAAAGGGAA
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
4 66 0.96
5 3 0.04
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (4 bp):
AAAG
Found at i:112738168 original size:47 final size:46
Alignment explanation
Indices: 112738112--112738214 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 46
112738102 GTCGATGAGA
* *
112738112 CACTATGTGTTGAC-TACTGTTAAAGTTCCGGATTTGTTCCGATGAAG
1 CACTATGTG-T-ACATAATGTTAAAGTTCCGGATTTGTTCAGATGAAG
* *
112738159 TACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTCAGATGAAG
1 CACTATGTGTAC-ATAATGTTAAAGTTCCGGATTTGTTCAGATGAAG
112738206 CACTATGTG
1 CACTATGTG
112738215 CTTATCCCGG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 2 0.04
46 1 0.02
47 45 0.94
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (46 bp):
CACTATGTGTACATAATGTTAAAGTTCCGGATTTGTTCAGATGAAG
Found at i:112744809 original size:4 final size:4
Alignment explanation
Indices: 112744800--112744830 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
112744790 GTAAGTTAAA
112744800 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
112744831 TAGAAAAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:112745657 original size:47 final size:47
Alignment explanation
Indices: 112745593--112745703 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
112745583 GACATTGAGT
* *
112745593 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCAGATTTGTTC
* * * *
112745640 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCTAGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
112745687 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
112745704 CTTATCCCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 50 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCAGATTTGTTC
Found at i:112749534 original size:17 final size:16
Alignment explanation
Indices: 112749512--112749558 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
112749502 AAAAATTTAT
112749512 CAAATAATTCTAAATTA
1 CAAATAATT-TAAATTA
*
112749529 CAAATAATTTAATTTTA
1 CAAATAATTTAA-ATTA
112749546 -AAATAATTATAAA
1 CAAATAATT-TAAA
112749559 AATTACTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
CAAATAATTTAAATTA
Found at i:112749862 original size:12 final size:11
Alignment explanation
Indices: 112749839--112749894 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
112749829 CGATTTTTTT
112749839 TAAAAT-ATAA
1 TAAAATAATAA
112749849 TAATAATAATAA
1 TAA-AATAATAA
*
112749861 TAAAATATTAAA
1 TAAAATAAT-AA
* *
112749873 AAAAATTATTAA
1 TAAAA-TAATAA
112749885 TAAAATAATA
1 TAAAATAATA
112749895 TGTCGCGCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 3 0.08
11 12 0.32
12 19 0.50
13 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:112752596 original size:2 final size:2
Alignment explanation
Indices: 112752589--112752614 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112752579 ATATTAACCC
112752589 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
112752615 GAAAATCTTC
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:112754982 original size:29 final size:29
Alignment explanation
Indices: 112754922--112754981 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
112754912 TTTGTGCATA
*
112754922 TTTAATCCCTTTATTATAATTTAATTATT
1 TTTAATCCCTTTATTATAATTTAATCATT
* **
112754951 TTTAGTCCCTTTATT-TAATTTGGTCATT
1 TTTAATCCCTTTATTATAATTTAATCATT
112754979 TTT
1 TTT
112754982 TCGCTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTAATCCCTTTATTATAATTTAATCATT
Found at i:112757316 original size:219 final size:219
Alignment explanation
Indices: 112756904--112757391 Score: 827
Period size: 219 Copynumber: 2.2 Consensus size: 219
112756894 ATATATCGTA
* *
112756904 TATGGTACTTTCGTTTCTCTAGC-TTGTGTGAAAGAAAAGACTCAATTAGTCCTTAGAATCGATT
1 TATGGTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCCTTAGAATCGATT
* *
112756968 TTATGCATCAAGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCAGGTTATTTTTG
66 TTATGCATCAAGTTCCGAGAGTCAAATGCTGCTTCCATCCGTTGTCAATATGCAGGTTATTTTTG
112757033 TGTGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAA
131 TGTGAATC-T-TTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAA
112757098 ACCGAACCTTCATCGTACTTATTGTG
194 ACCGAACCTTCATCGTACTTATTGTG
* * *
112757124 TATGGTACTTTCGTTTCTCTAGCGTCGTGTGAAAGCAAAGACTCGTTTAGTCCTTAGAATTGATT
1 TATGGTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCCTTAGAATCGATT
* * *
112757189 TTATGCATTGAGGTTCCGAGAGTCAAATGCTGCTTCCATCCGTTGTCAATATGCCGGTTATTTTT
66 TTATGCA-TCAAGTTCCGAGAGTCAAATGCTGCTTCCATCCGTTGTCAATATGCAGGTTATTTTT
*
112757254 GTGTGAATC-TTGTGTCTGATATTAGTTCTTAACAAGATGTCTTGTTTGCTCCCTCATCGTTAAA
130 GTGTGAATCTTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAAA
112757318 CCGAACCTTCATCGTACTTATTGTG
195 CCGAACCTTCATCGTACTTATTGTG
*
112757343 TATAGTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTA
1 TATGGTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTA
112757392 ATCCATTTGT
Statistics
Matches: 252, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
219 125 0.50
220 23 0.09
221 43 0.17
222 61 0.24
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (219 bp):
TATGGTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCCTTAGAATCGATT
TTATGCATCAAGTTCCGAGAGTCAAATGCTGCTTCCATCCGTTGTCAATATGCAGGTTATTTTTG
TGTGAATCTTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAAAC
CGAACCTTCATCGTACTTATTGTG
Found at i:112757491 original size:219 final size:216
Alignment explanation
Indices: 112756908--112757522 Score: 812
Period size: 219 Copynumber: 2.8 Consensus size: 216
112756898 ATCGTATATG
* *
112756908 GTACTTTCGTTTCTCTAGC-TTGTGTGAAAGAAAAGACTCAATTAGTCC-TTAGAATCGATTTTA
1 GTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCCATT----T-GATTTTA
*
112756971 TGCATCAA-GTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCAGGTTATTTTTGTG
61 TGCATCAAGGTTC-GAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCGGTTATTTTTGTG
112757035 TGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAAAC
125 TGAATCTTGTT-TGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAAAC
*
112757100 CGAACCTTCATCGTACTTATTGTGTATG
189 CGAACCTTCATCGTACTTATTGTGTATA
* * *
112757128 GTACTTTCGTTTCTCTAGCGTCGTGTGAAAGCAAAGACTCGTTTAGTCCTTAGAATTGATTTTAT
1 GTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCC----ATTTGATTTTAT
** *
112757193 GCATTGAGGTTCCGAGAGTCAAATGCTGCTTCCATCCGTTGTCAATATGCCGGTTATTTTTGTGT
62 GCATCAAGGTT-CGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCGGTTATTTTTGTGT
*
112757258 GAATCTTG--TGTCTGATATTAGTTCTTAACAAGATGTCTTGTTTGCTCCCTCATCGTTAAACCG
126 GAATCTTGTTTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAAACCG
112757321 AACCTTCATCGTACTTATTGTGTATA
191 AACCTTCATCGTACTTATTGTGTATA
* * *
112757347 GTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAATCCATTTGTTTTTATGCGT
1 GTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCCATTTGATTTTATGCAT
* * * * * *
112757412 CAAGGTTC-AGGGTCAAATGTTGC-TCCTATCCATTGTTGATATTCCGGTGTCTTTTTGTGTGTG
66 CAAGGTTCGAGAGTCAAATGCTGCTTCC-ATCCGTTGTCGATATGCCGGT-T-ATTTT-TGTGTG
* * * *
112757475 AATATTGTTATGTCTGATATTAGTTCTTAACAATATATTGTGTTTGCT
127 AATCTTGTT-TGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCT
112757523 GTTCCGGAAA
Statistics
Matches: 349, Mismatches: 31, Indels: 31
0.85 0.08 0.08
Matches are distributed among these distances:
212 3 0.01
213 30 0.09
214 2 0.01
215 22 0.06
216 12 0.03
219 159 0.46
220 19 0.05
221 38 0.11
222 62 0.18
223 1 0.00
226 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (216 bp):
GTACTTTCGTTTCTCTAGCGTCGTGTGAAAGAAAAGACTCATTTAGTCCATTTGATTTTATGCAT
CAAGGTTCGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCGGTTATTTTTGTGTGAATC
TTGTTTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGCTCCCTCATCGTTAAACCGAACCT
TCATCGTACTTATTGTGTATA
Found at i:112764033 original size:48 final size:48
Alignment explanation
Indices: 112763977--112764073 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
112763967 CTGAATTGAA
112763977 ACTGGGTTTAGTTCATATTTTTATTTTGGTTCTATGCATGGAAGTCTT
1 ACTGGGTTTAGTTCATATTTTTATTTTGGTTCTATGCATGGAAGTCTT
112764025 ACTGGGTTTAGTTCATATTTTTATTTTGGTTCTATGCATGGAAGTCTT
1 ACTGGGTTTAGTTCATATTTTTATTTTGGTTCTATGCATGGAAGTCTT
112764073 A
1 A
112764074 GTTATCTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.20, C:0.10, G:0.21, T:0.49
Consensus pattern (48 bp):
ACTGGGTTTAGTTCATATTTTTATTTTGGTTCTATGCATGGAAGTCTT
Found at i:112769219 original size:18 final size:20
Alignment explanation
Indices: 112769196--112769237 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
112769186 TAGTTTTGAT
112769196 ATTTATCCCTT-T-TCTTAA
1 ATTTATCCCTTATATCTTAA
*
112769214 ATTTATCCTTTATATCTTAA
1 ATTTATCCCTTATATCTTAA
112769234 ATTT
1 ATTT
112769238 GGTTTCTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTATCCCTTATATCTTAA
Found at i:112774991 original size:22 final size:22
Alignment explanation
Indices: 112774963--112775008 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
112774953 TAATTAGTAA
*
112774963 AAAAAAC-CTAAGTATCAAATTG
1 AAAAAACTC-AAGTACCAAATTG
*
112774985 AAAAAACTCAATTACCAAATTG
1 AAAAAACTCAAGTACCAAATTG
112775007 AA
1 AA
112775009 TTTGAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAAACTCAAGTACCAAATTG
Found at i:112775046 original size:78 final size:81
Alignment explanation
Indices: 112774964--112775118 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 81
112774954 AATTAGTAAA
* * *
112774964 AAAAAC-CTAAGTATCAAATT-GAAAAAA-CTCAATTACCAAATTGAAT-TTGAAGCCAAACTCA
1 AAAAACTC-AAGTATCAAATTAAAAAAAACCTCAATTACCAAATTGAATATTGAAACCAAACCCA
*
112775025 AATACTTAATTGTGCAC
65 AATACTGAATTGTGCAC
* * * *
112775042 AAAAACTCGAGTATCAAATTAAAAAAAAACCTCAGTTATCAATTTGAATATTGAAACCAAACCCA
1 AAAAACTCAAGTATCAAATT-AAAAAAAACCTCAATTACCAAATTGAATATTGAAACCAAACCCA
*
112775107 AGTACTGAATTG
65 AATACTGAATTG
112775119 GGACAACAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
78 17 0.27
79 1 0.02
80 6 0.10
81 16 0.25
82 23 0.37
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (81 bp):
AAAAACTCAAGTATCAAATTAAAAAAAACCTCAATTACCAAATTGAATATTGAAACCAAACCCAA
ATACTGAATTGTGCAC
Found at i:112775662 original size:4 final size:4
Alignment explanation
Indices: 112775653--112775713 Score: 77
Period size: 4 Copynumber: 15.2 Consensus size: 4
112775643 TCAATTACTT
* * * * *
112775653 TACA TACA TACA TACG CACA TGCA TGCA TGCA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
112775701 TACA TACA TACA T
1 TACA TACA TACA T
112775714 TTATTAGCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:112777278 original size:29 final size:29
Alignment explanation
Indices: 112777236--112777300 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
112777226 GATGGATGAG
112777236 TGTTTTGTCTCGTTTTATTGTTAACAGCT
1 TGTTTTGTCTCGTTTTATTGTTAACAGCT
112777265 TGTTTTGTCTCGTTTTATTGTTAACAGCT
1 TGTTTTGTCTCGTTTTATTGTTAACAGCT
*
112777294 TCTTTTG
1 TGTTTTG
112777301 ATGTGATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.12, C:0.14, G:0.17, T:0.57
Consensus pattern (29 bp):
TGTTTTGTCTCGTTTTATTGTTAACAGCT
Found at i:112777964 original size:232 final size:232
Alignment explanation
Indices: 112777551--112778236 Score: 1066
Period size: 232 Copynumber: 2.9 Consensus size: 232
112777541 TTTATTTTTG
*
112777551 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCATGTTCGAGTAAGCG
1 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
*
112777616 CTCGGACTATTGCTTCTCGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
66 CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
* *
112777681 AGTGTGTCCTGGTAATCTTTCCTGCATTTATCGAATGATTTTGTAATAGATGTATACTACTACTT
131 AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATGTATACTACTACTT
112777746 GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
196 GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
112777783 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
1 GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
112777848 CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
66 CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
*
112777913 AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTGATAGATGTATACTACTACTT
131 AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATGTATACTACTACTT
* * **
112777978 GTATGAGATGTATACTACTGCTTCAGTGTTTATTTTG
196 GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
* *
112778015 GGTTTCTTGAAGCATTTAGTACCTTTGTTGTAGTAGTAGTTCTAGTAGGTATCTTGTTCGAGTAA
1 GGTTTCTCGAAGCATTTAGTACCTTTG-T-T-GTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAA
* * * *
112778080 GCACTCGGAGTATTGCTTTTTGGTCCGATTTGAGGCACAATAAGTGACATACTAGGGTAAGAATC
63 GCGCTCGGACTATTGCTTCTTGGTCCGATTT---------T-AG-G-CATAATAGGGTAAGAATC
* * * *
112778145 CATACTCCGAGTTCGAGTGTGGCCGGGTAATCTTGCCTGCATGTATCAAACGATTTTGTAATAGA
116 CATACTCCGAGTTCGAGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGA
112778210 TGTATACTACTACTTGTATGAGATGTA
181 TGTATACTACTACTTGTATGAGATGTA
112778237 ACAATTTTAA
Statistics
Matches: 419, Mismatches: 20, Indels: 15
0.92 0.04 0.03
Matches are distributed among these distances:
232 249 0.59
233 1 0.00
234 1 0.00
235 60 0.14
244 1 0.00
245 2 0.00
246 1 0.00
247 104 0.25
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (232 bp):
GGTTTCTCGAAGCATTTAGTACCTTTGTTGTAGTAGTTCTAGCAGGTATCTTGTTCGAGTAAGCG
CTCGGACTATTGCTTCTTGGTCCGATTTTAGGCATAATAGGGTAAGAATCCATACTCCGAGTTCG
AGTGTGTCCGGGTAATCTTTCCTGCATTTATCGAACGATTTTGTAATAGATGTATACTACTACTT
GTATGAGATGTATACCACTACTTCAGTGTTTATTTCA
Found at i:112781286 original size:16 final size:16
Alignment explanation
Indices: 112781265--112781297 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
112781255 TTTTGCAGGT
112781265 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
*
112781281 AAAAAGATAAAGAAAA
1 AAAAAGAAAAAGAAAA
112781297 A
1 A
112781298 CCCCTAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAA
Found at i:112784983 original size:31 final size:31
Alignment explanation
Indices: 112784906--112784985 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
112784896 AATAACTAAG
112784906 TACTAATTTGGACCAAAAAGCCAAATTCAGC
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
* * * * * *
112784937 TACGAATTTGAACCAAGAAGCCAAGTTTAGG
1 TACTAATTTGGACCAAAAAGCCAAATTCAGC
112784968 TATCTAA-TTGGACCAAAA
1 TA-CTAATTTGGACCAAAA
112784986 TAAACTTTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (31 bp):
TACTAATTTGGACCAAAAAGCCAAATTCAGC
Found at i:112795825 original size:27 final size:27
Alignment explanation
Indices: 112795787--112795841 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
112795777 ACTTTTAGAA
112795787 AATTTATCCATGTTAGCAATGAAATAT
1 AATTTATCCATGTTAGCAATGAAATAT
112795814 AATTTATCCATGTTAGCAATGAAATAT
1 AATTTATCCATGTTAGCAATGAAATAT
112795841 A
1 A
112795842 CGTGAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (27 bp):
AATTTATCCATGTTAGCAATGAAATAT
Found at i:112796303 original size:19 final size:19
Alignment explanation
Indices: 112796242--112796306 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 19
112796232 ATTTTCTTAT
*
112796242 ATTTTTTAAAATTTAAAATA
1 ATTTTTAAAAATTT-AAATA
* * *
112796262 TTTTTTAAAAATATT--TTT
1 ATTTTTAAAAAT-TTAAATA
112796280 A-TTTTAAAAATTTAAATA
1 ATTTTTAAAAATTTAAATA
112796298 ATTTTTAAA
1 ATTTTTAAA
112796307 TTTTTGCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 9
0.68 0.14 0.18
Matches are distributed among these distances:
16 2 0.06
17 10 0.29
18 3 0.09
19 7 0.21
20 10 0.29
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTAAAAATTTAAATA
Found at i:112802832 original size:243 final size:231
Alignment explanation
Indices: 112802243--112802872 Score: 685
Period size: 233 Copynumber: 2.7 Consensus size: 231
112802233 TTCTATAATA
* * * * * *
112802243 ATTATCCATTTTGTGTCCTCTATTGGA-TTGATGAAACATAATTAAACACTACTGCTTGCTTCGA
1 ATTACCCATTTCGTGTCATCTACTGGATTTGATGAAACAT-ATTAAACACTACAGCTTGCTTTGA
* * *
112802307 TAACCTTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAAGTAGTCAGCATCA
65 TAACC-TTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGTATCA
* * *
112802372 AACCGGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACGATATTTGTGTGTTTTGGTGTATCAT
129 AACCAGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACGACATTTGTGTGTTTCGGTGTATCAT
* *
112802437 TTCAGATTTATTAATATTTTAAAAATATTTTCATATAT
194 TTCAGATATATCAATATTTTAAAAATATTTTCATATAT
* * * * *
112802475 GTTACCCATTTCATGTCATCTACTGGATTTAATGTAAACATCATTAGAA-ACTATAGCATGC-TT
1 ATTACCCATTTCGTGTCATCTACTGGATTTGATG-AAACAT-ATTA-AACACTACAGCTTGCTTT
* * ** * *
112802538 GATAACCTCTTTAATCATGTTCTGTTCTGTTGGTTCTATCCTATCGAGTTTAAGGTAGTTTGTAT
63 GATAACCT-TTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGTAT
* * * * * *
112802603 CGAACAAGTGGATAATATTGTTTTTGTTCTGGTATTGTTACGTACCAGTATT-TGTGTTTCGGTG
127 CAAACCAGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACG-A-CA-T-TTGTGTGTTTCGGTG
** * *
112802667 TATTGTTT-TGAGTATATCAATATCTTTCTAAAAGTATTTTCATATAT
188 TATCATTTCAGA-TATATCAATA--TTT-TAAAAATATTTTCATATAT
* *
112802714 ATATCACCCATTTCGTGTCGTCTACTGGATTTGACGAAAACATAGTTAAACACTACAGCTGTGCT
1 AT-T-ACCCATTTCGTGTCATCTACTGGATTTGATG-AAACATA-TTAAACACTACAGCT-TGCT
* * *
112802779 TTGATAACCATTTTAATCATGTTCTGTTTTGTTGCTTATATTGTATGGAGTTTAAGGTGGTTGGT
61 TTGATAACC-TTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGT
112802844 ATCAAACCAGTAGATAGTATCGTTTTTGT
125 ATCAAACCAGTAGATAGTATCGTTTTTGT
112802873 GATGATATTA
Statistics
Matches: 322, Mismatches: 57, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
232 22 0.07
233 95 0.30
234 20 0.06
235 5 0.02
236 26 0.08
237 2 0.01
238 3 0.01
239 19 0.06
240 4 0.01
241 43 0.13
242 3 0.01
243 79 0.25
244 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (231 bp):
ATTACCCATTTCGTGTCATCTACTGGATTTGATGAAACATATTAAACACTACAGCTTGCTTTGAT
AACCTTTTAATCATGTTCTGTTTTGTTGGTTATATTGTATGGAGTTTAAGGTAGTTAGTATCAAA
CCAGTAGATAGTATCGTTTTTGTTCTAGTATTGTTACGACATTTGTGTGTTTCGGTGTATCATTT
CAGATATATCAATATTTTAAAAATATTTTCATATAT
Found at i:112806737 original size:19 final size:19
Alignment explanation
Indices: 112806713--112806750 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
112806703 GTTAAACCGG
*
112806713 TTTAAATTTTTTTTTATTT
1 TTTAAATTTTTATTTATTT
112806732 TTTAAATTTTTATTTATTT
1 TTTAAATTTTTATTTATTT
112806751 ATTGCTAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTAAATTTTTATTTATTT
Found at i:112823732 original size:2 final size:2
Alignment explanation
Indices: 112823727--112823773 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
112823717 AATAGTCCTA
112823727 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
112823769 AT AT A
1 AT AT A
112823774 AACCTAAGAG
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:112828074 original size:22 final size:20
Alignment explanation
Indices: 112828049--112828094 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
112828039 TTAGTGATTT
*
112828049 ATTATAAATTTAAATATATATA
1 ATTAT-AATTT-AACATATATA
*
112828071 ATTATTATTTAACATATATA
1 ATTATAATTTAACATATATA
112828091 ATTA
1 ATTA
112828095 ATATAATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 4 0.18
22 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATAATTTAACATATATA
Found at i:112829187 original size:19 final size:20
Alignment explanation
Indices: 112829150--112829187 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
112829140 GTATCAAATG
* *
112829150 ATATATTAAATCTAGTAAAA
1 ATATATAAAATCTACTAAAA
112829170 ATATATAAAAT-TACTAAA
1 ATATATAAAATCTACTAAA
112829188 TTTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATATAAAATCTACTAAAA
Found at i:112838287 original size:23 final size:22
Alignment explanation
Indices: 112838261--112838316 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
112838251 ATTTTTTTAT
*
112838261 ATTTTAAATTTTTATTTTATGAA
1 ATTTTAAATTTTTATTTT-TCAA
*
112838284 A-TTTAAATAATTTATTTTTCAA
1 ATTTTAAAT-TTTTATTTTTCAA
112838306 ATTTTGAAATT
1 ATTTT-AAATT
112838317 CAGTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 11 0.41
23 12 0.44
24 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
ATTTTAAATTTTTATTTTTCAA
Found at i:112838288 original size:22 final size:22
Alignment explanation
Indices: 112838263--112838309 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
112838253 TTTTTTATAT
* *
112838263 TTTAAAT-TTTTATTTTATGAAA
1 TTTAAATAATTTATTTT-TCAAA
112838285 TTTAAATAATTTATTTTTCAAA
1 TTTAAATAATTTATTTTTCAAA
112838307 TTT
1 TTT
112838310 TGAAATTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTAAATAATTTATTTTTCAAA
Found at i:112838506 original size:31 final size:31
Alignment explanation
Indices: 112838460--112838528 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
112838450 TTTAAATTTT
* *
112838460 AAAAATAGAAGGATTATATTTCAAACATATG
1 AAAAGTAGAAAGATTATATTTCAAACATATG
*
112838491 AAAAGTAGAAAGATTATATTTCAAATATATG
1 AAAAGTAGAAAGATTATATTTCAAACATATG
112838522 AAAAGTA
1 AAAAGTA
112838529 TAAGGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (31 bp):
AAAAGTAGAAAGATTATATTTCAAACATATG
Found at i:112841065 original size:183 final size:182
Alignment explanation
Indices: 112840770--112841252 Score: 718
Period size: 183 Copynumber: 2.6 Consensus size: 182
112840760 TACATTTGAG
* ** *
112840770 TTAAGCTCCAATGGGCAGATGATCATGCCATGTAACTTGGTCTGTCAACTTTATGAGTTGAGCTT
1 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGC--
* ** *
112840835 AATTAAATGA-TGTAGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGC
64 AAATAAAACATTGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGC
* * *
112840899 ATGTAATCAGTGAATAGAGTATGAATCAAGTCAGGTCAAATGTAACTACTCGAA
129 ATATAATCAGTGAATAGAGTATGAATCAAGTCAGATCAAATGTAACAACTCGAA
* *
112840953 TTAAGCTACAATGACCAGATCATCATGCCATATAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
1 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
* * * *
112841018 ACAAAACATTGTGGCATTTAGTTTAAAATATAATGTAACGCGTCATATTTACTTGAATTGTTGCA
66 ATAAAACATTGTGGCA-TTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGCA
* * *
112841083 TATAATCAGTGAATGGAGTATGAATCAGGTCAGATCAAATGTAACAACTCGAG
130 TATAATCAGTGAATAGAGTATGAATCAAGTCAGATCAAATGTAACAACTCGAA
112841136 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
1 TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
* *
112841201 ATAAAACAATT-CGGCATTCGTTTAAAATATAATGTAACGTGTCATATTCACT
66 ATAAAAC-ATTGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACT
112841253 CGACCCACTA
Statistics
Matches: 270, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
181 6 0.02
182 39 0.14
183 222 0.82
184 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (182 bp):
TTAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGAGCAA
ATAAAACATTGTGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTTGAATAGTTGCAT
ATAATCAGTGAATAGAGTATGAATCAAGTCAGATCAAATGTAACAACTCGAA
Found at i:112841480 original size:207 final size:204
Alignment explanation
Indices: 112841068--112841598 Score: 678
Period size: 207 Copynumber: 2.6 Consensus size: 204
112841058 CGTCATATTT
* * * * * *
112841068 ACTTGAATTGTTGCATATAATCAGTGAATGGAGTATGAATCAGGTCAGATCAAATGTAACAACTC
1 ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGAATCTGGTCAGATTAAATGTAACAATTC
** *
112841133 GAGT-TAAGCTACAATGACCAGATGATCATGCCATGTAACTTGGTTTGTCAACTTTATGAGTTGA
66 GAGTATAAGCTACAATGGTCAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGTTGA
* *
112841197 GCAAATAAAACAATTCGGCATTCGTTTAAAATATAATGTAACGTGTCATATTCACTCGACCCACT
131 GCAAATAAAACAATTCGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTCGACACACT
112841262 AGAGTTTTA
196 AGAGTTTTA
*
112841271 ACTTGAATAGTTGCATGTAACCGGTGAATGGAGTATGAGATCTGGTCAGATTAAATGTAACAATT
1 ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGA-ATCTGGTCAGATTAAATGTAACAATT
*
112841336 CGAGTTAATAAGCTACAATGGTCAGATGATCATACCATGTAACTTGGTTTGTTAACTTTATGAGT
65 CGAG-T-ATAAGCTACAATGGTCAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGT
* ** ** *
112841401 TGAGCTTAATTTAATGATGT-GGCATTATTTTAAAATATAATGTAACGTGTCATATTCA-TCAGA
128 TGAGC-AAATAAAACAAT-TCGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTC-GA
*
112841464 CACACTGGAG-TTTA
190 CACACTAGAGTTTTA
* * * * *
112841478 ACTTGAATAGTTGCATATAACCGATGAGTGGGGTATGATAT-TGGGTCGGATTAAATGTAACGAT
1 ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGA-ATCT-GGTCAGATTAAATGTAACAAT
* * * *
112841542 TC-AGGATAAGCTAGAATGGTGAGATGATCATGTCATGTAAACTTGGTTTGTTAACTT
64 TCGAGTATAAGCTACAATGGTCAGATGATCATGCCATGT-AACTTGGTTTGTTAACTT
112841599 GTTTCCCCTT
Statistics
Matches: 287, Mismatches: 32, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
203 34 0.12
204 56 0.20
205 19 0.07
206 3 0.01
207 121 0.42
208 53 0.18
209 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (204 bp):
ACTTGAATAGTTGCATATAACCGGTGAATGGAGTATGAATCTGGTCAGATTAAATGTAACAATTC
GAGTATAAGCTACAATGGTCAGATGATCATGCCATGTAACTTGGTTTGTTAACTTTATGAGTTGA
GCAAATAAAACAATTCGGCATTAGTTTAAAATATAATGTAACGTGTCATATTCACTCGACACACT
AGAGTTTTA
Found at i:112842996 original size:20 final size:21
Alignment explanation
Indices: 112842971--112843014 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
112842961 CACACGACAT
112842971 AAATTAAATAATATA-AAAAA
1 AAATTAAATAATATATAAAAA
112842991 AAATTAAATAATATATAAAAA
1 AAATTAAATAATATATAAAAA
112843012 AAA
1 AAA
112843015 CATTACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATTAAATAATATATAAAAA
Found at i:112845529 original size:86 final size:86
Alignment explanation
Indices: 112845407--112845744 Score: 400
Period size: 86 Copynumber: 4.0 Consensus size: 86
112845397 TCTTGCTTTA
* * * * * *
112845407 AAAAAGTTGAAAATTTGGTCCGGTTTTTGTTGAATACATGCACTTGAACCGTTGATTTGTGCTAA
1 AAAAA-TTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAA
112845472 TTTGTTGCACATAAATTGTTAT
65 TTTGTTGCACATAAATTGTTAT
*
112845494 AAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATAC----A--TGAACCGTTGATTTTTGCTAAT
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAAT
*
112845553 TTGTTGCATATAAATTGTTAT
66 TTGTTGCACATAAATTGTTAT
* * * * *
112845574 AAAAATTGAAAATTTTGTCTGATTTTTGGTAAATACATGAACTTGAACCATTGATTTTTGCTAAT
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAAT
* **
112845639 TTGTTGCATATAAATCATTAT
66 TTGTTGCACATAAATTGTTAT
* * * * **
112845660 AGAAATTGAAAATTTAGCCCGGTTGTCGGTAAATATATGAACTTTGAATTGTTGATTTTTGCTAA
1 AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAAC-TTGAACCGTTGATTTTTGCTAA
* *
112845725 TTTGTTTCACATAAACTGTT
65 TTTGTTGCACATAAATTGTT
112845745 GTAAGATTGA
Statistics
Matches: 215, Mismatches: 29, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
80 74 0.34
82 1 0.00
84 1 0.00
86 100 0.47
87 39 0.18
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (86 bp):
AAAAATTGAAAATTTAGTCCGGTTGTTGGTAAATACATGAACTTGAACCGTTGATTTTTGCTAAT
TTGTTGCACATAAATTGTTAT
Found at i:112845550 original size:80 final size:80
Alignment explanation
Indices: 112845451--112845701 Score: 331
Period size: 80 Copynumber: 3.1 Consensus size: 80
112845441 TACATGCACT
* *
112845451 TGAACCGTTGATTTGTGCTAATTTGTTGCACATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
1 TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
112845516 TTGTTGGTAAATACA
66 TTGTTGGTAAATACA
* *
112845531 TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTTGTCTGA
1 TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
*
112845596 TTTTTGGTAAATACATGAA
66 TTGTTGGTAAATAC----A
* ** * * *
112845615 CTTGAACCATTGATTTTTGCTAATTTGTTGCATATAAATCATTATAGAAATTGAAAATTTAGCCC
1 --TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCT
* *
112845680 GGTTGTCGGTAAATATA
64 GGTTGTTGGTAAATACA
112845697 TGAAC
1 TGAAC
112845702 TTTGAATTGT
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
80 79 0.53
82 1 0.01
84 1 0.01
86 68 0.46
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.41
Consensus pattern (80 bp):
TGAACCGTTGATTTTTGCTAATTTGTTGCATATAAATTGTTATAAAAATTGAAAATTTAGTCTGG
TTGTTGGTAAATACA
Found at i:112845795 original size:40 final size:39
Alignment explanation
Indices: 112845703--112845835 Score: 108
Period size: 40 Copynumber: 3.3 Consensus size: 39
112845693 TATATGAACT
* * * * * *
112845703 TTGAATTGTTGATTTTTGCTAATTTGTTTCACATAAACTG
1 TTGAAATGTTGATTTTTGTTAATTTCTTACATATAAA-TA
* *
112845743 TTGTAA-GATTGATTTTTGTTAATTTCTTGCATATAAATTA
1 TTGAAATG-TTGATTTTTGTTAATTTCTTACATATAAA-TA
*
112845783 TTGAAATGTTGATTTTT-TATAATTCCTTACATATTAAATA
1 TTGAAATGTTGATTTTTGT-TAATTTCTTACATA-TAAATA
* *
112845823 TTGTAGTGTTGAT
1 TTGAAATGTTGAT
112845836 ATTCAAGCTA
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
39 2 0.03
40 69 0.91
41 5 0.07
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.51
Consensus pattern (39 bp):
TTGAAATGTTGATTTTTGTTAATTTCTTACATATAAATA
Found at i:112849632 original size:30 final size:29
Alignment explanation
Indices: 112849570--112849632 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
112849560 CGTCGGGAGT
* *
112849570 AAATTACAAGTATAATATTCATATAATAA
1 AAATTACAAATACAATATTCATATAATAA
*
112849599 AAATTACAAATAACAATATCTCAT-TAATTA
1 AAATTACAAAT-ACAATAT-TCATATAATAA
112849629 AAAT
1 AAAT
112849633 CAGAATCAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 15 0.52
31 4 0.14
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATTACAAATACAATATTCATATAATAA
Found at i:112849677 original size:17 final size:17
Alignment explanation
Indices: 112849647--112849697 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
112849637 ATCAATTCAG
* *
112849647 TAAAAAATATAATAAAT
1 TAAAAATTAAAATAAAT
*
112849664 TAAAAATTAAAATATAT
1 TAAAAATTAAAATAAAT
* *
112849681 T-TAAATTTAAATAAAT
1 TAAAAATTAAAATAAAT
112849697 T
1 T
112849698 TAGGTGAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATTAAAATAAAT
Found at i:112849686 original size:16 final size:16
Alignment explanation
Indices: 112849657--112849699 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
112849647 TAAAAAATAT
*
112849657 AATAAATTAAAAATTAA
1 AATAAATT-TAAATTAA
* *
112849674 AATATATTTAAATTTA
1 AATAAATTTAAATTAA
112849690 AATAAATTTA
1 AATAAATTTA
112849700 GGTGAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAAATTTAAATTAA
Found at i:112859542 original size:31 final size:31
Alignment explanation
Indices: 112859500--112859565 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
112859490 AGTTAAGTTC
* *
112859500 TGAACTTGGCAATTGTTCTCACAATGAGA-CT
1 TGAACTAGGCAACTGTTCTCA-AATGAGAGCT
*
112859531 TGAACTAGGCAACTGTTCTCAAATTAGAGCT
1 TGAACTAGGCAACTGTTCTCAAATGAGAGCT
112859562 TGAA
1 TGAA
112859566 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (31 bp):
TGAACTAGGCAACTGTTCTCAAATGAGAGCT
Found at i:112869251 original size:24 final size:24
Alignment explanation
Indices: 112869207--112869252 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
112869197 TTTTATTTTA
* *
112869207 TTTAATTTTTGAACAAAAATATTT
1 TTTAATTTGTGAAAAAAAATATTT
112869231 TTTAATTTGT-AAAAAAGAATAT
1 TTTAATTTGTGAAAAAA-AATAT
112869253 CGAGTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (24 bp):
TTTAATTTGTGAAAAAAAATATTT
Found at i:112870123 original size:14 final size:13
Alignment explanation
Indices: 112870101--112870153 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
112870091 CTTTGAATCA
*
112870101 CTTCTTTTTATTTT
1 CTTC-TTTTCTTTT
*
112870115 CTTCATTTTCTTTC
1 CTTC-TTTTCTTTT
112870129 CTTCTTTTCTTTT
1 CTTCTTTTCTTTT
112870142 CTT-TTTTCTTTT
1 CTTCTTTTCTTTT
112870154 ATTTTCTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 9 0.26
13 11 0.31
14 15 0.43
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (13 bp):
CTTCTTTTCTTTT
Found at i:112870150 original size:17 final size:18
Alignment explanation
Indices: 112870119--112870163 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
112870109 TATTTTCTTC
112870119 ATTTTCTTTCCTTCTTTT
1 ATTTTCTTTCCTTCTTTT
* *
112870137 CTTTTCTTT-TTTCTTTT
1 ATTTTCTTTCCTTCTTTT
112870154 ATTTTCTTTC
1 ATTTTCTTTC
112870164 TAACCAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTCTTTCCTTCTTTT
Found at i:112872178 original size:30 final size:31
Alignment explanation
Indices: 112872144--112872208 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
112872134 AGAAATTCTT
* *
112872144 ATTAAGCCCTTCAAA-TTTTTAAAAAATTTA
1 ATTAAACCCTTAAAAGTTTTTAAAAAATTTA
* * *
112872174 ATTAAACGCTTAAAAGTTTTTGAAAATTTTA
1 ATTAAACCCTTAAAAGTTTTTAAAAAATTTA
112872205 ATTA
1 ATTA
112872209 GATCCCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (31 bp):
ATTAAACCCTTAAAAGTTTTTAAAAAATTTA
Found at i:112891468 original size:3 final size:3
Alignment explanation
Indices: 112891460--112891487 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
112891450 GCAAAGAAAG
112891460 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
112891488 TGACATACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:112896813 original size:19 final size:21
Alignment explanation
Indices: 112896769--112896815 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
112896759 ATTGAGTGGT
112896769 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
112896790 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
112896808 GTAATTAG
1 -TAATTAG
112896816 TGGAAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:112897148 original size:5 final size:5
Alignment explanation
Indices: 112897124--112897184 Score: 77
Period size: 5 Copynumber: 11.6 Consensus size: 5
112897114 AAGAAATTGT
* *
112897124 TATTA TATGA TATTA TTATTA TATTA TAGTA TATTA TATTA TATTATA
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TA-T-TA
112897172 TATTA TATTA TAT
1 TATTA TATTA TAT
112897185 AAATAAGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
5 38 0.78
6 7 0.14
7 4 0.08
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (5 bp):
TATTA
Done.