Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 191 of 333
Found at i:62575170 original size:48 final size:52
Alignment explanation
Indices: 62575100--62575198 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
62575090 AATAATTATT
62575100 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
62575148 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
62575199 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:62575180 original size:17 final size:17
Alignment explanation
Indices: 62575155--62575188 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62575145 ATAATTTTAA
*
62575155 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
62575172 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
62575189 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:62575205 original size:17 final size:16
Alignment explanation
Indices: 62575160--62575207 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
62575150 TTTAAATTTT
62575160 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
62575177 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
62575191 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
62575208 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:62575262 original size:54 final size:54
Alignment explanation
Indices: 62575204--62575382 Score: 128
Period size: 56 Copynumber: 3.1 Consensus size: 54
62575194 ATAATCATAT
62575204 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
62575258 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
62575321 TA
54 -A
*
62575323 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
62575378 GTTAT
1 ATTAT
62575383 ATATTTTAAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 9 0.10
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:62575265 original size:61 final size:61
Alignment explanation
Indices: 62575200--62575387 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
62575190 AGTTATAATC
62575200 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
62575261 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
* *
62575320 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAGTT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
62575381 ATATATT
1 ATATATT
62575388 TTAATTAAAA
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 37 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:62575279 original size:18 final size:17
Alignment explanation
Indices: 62575248--62575282 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62575238 ATTATTAAGA
62575248 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
62575265 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
62575283 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:62575321 original size:120 final size:120
Alignment explanation
Indices: 62575197--62575419 Score: 410
Period size: 120 Copynumber: 1.9 Consensus size: 120
62575187 ATTAGTTATA
62575197 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
62575262 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
* *
62575317 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAGTTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
62575382 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
62575420 TAAATATGAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:62575527 original size:144 final size:147
Alignment explanation
Indices: 62575356--62575627 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
62575346 ATAAGAATAT
* *
62575356 TAATTATTAAGAATTTTATTAAGTTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
62575421 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
62575483 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
62575500 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
62575565 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
62575628 CAATAATCAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 90 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:62575540 original size:18 final size:17
Alignment explanation
Indices: 62575512--62575546 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62575502 ATTATTAAGA
*
62575512 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62575529 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62575547 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:62575757 original size:44 final size:45
Alignment explanation
Indices: 62575708--62575802 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
62575698 TTACACCTCT
* *
62575708 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
62575752 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
62575797 ATTACA
1 ATTACA
62575803 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:62575802 original size:16 final size:16
Alignment explanation
Indices: 62575781--62575813 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62575771 TTGATTTGCT
*
62575781 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
62575797 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
62575813 A
1 A
62575814 ATCCAATACA
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:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:62575823 original size:21 final size:21
Alignment explanation
Indices: 62575794--62575836 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
62575784 ACACCTCTAT
*
62575794 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
62575815 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
62575836 T
1 T
62575837 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:62576147 original size:28 final size:27
Alignment explanation
Indices: 62576116--62576183 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
62576106 GTAATTAATA
62576116 ATTTTTTTCA-CTCAATTATTAATTTTTT
1 ATTTTTTTCATCT-AATTA-TAATTTTTT
* *
62576144 ATTTTTATCATCTAATTATAGTTTTTT
1 ATTTTTTTCATCTAATTATAATTTTTT
62576171 ATTTTTTGTCATC
1 ATTTTTT-TCATC
62576184 CAACTAATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.40
28 19 0.54
29 2 0.06
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (27 bp):
ATTTTTTTCATCTAATTATAATTTTTT
Found at i:62576168 original size:27 final size:28
Alignment explanation
Indices: 62576116--62576176 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
62576106 GTAATTAATA
*
62576116 ATTTTTTTCACTCAATTATTAATTTTTT
1 ATTTTTATCACTCAATTATTAATTTTTT
*
62576144 ATTTTTATCA-TCTAATTA-TAGTTTTTT
1 ATTTTTATCACTC-AATTATTAATTTTTT
62576171 ATTTTT
1 ATTTTT
62576177 TGTCATCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 16 0.53
28 14 0.47
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (28 bp):
ATTTTTATCACTCAATTATTAATTTTTT
Found at i:62578471 original size:21 final size:19
Alignment explanation
Indices: 62578447--62578490 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
62578437 GAAAACTTTC
62578447 TTTAAAGTATTGTTAAAAGTT
1 TTTAAAGTATTGTT--AAGTT
* *
62578468 TTTAAGGTTTTGTTAAGTT
1 TTTAAAGTATTGTTAAGTT
62578487 TTTA
1 TTTA
62578491 TGAAAAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (19 bp):
TTTAAAGTATTGTTAAGTT
Found at i:62581003 original size:27 final size:28
Alignment explanation
Indices: 62580919--62580988 Score: 79
Period size: 31 Copynumber: 2.4 Consensus size: 28
62580909 GATTGAATCA
* *
62580919 AAATTAAAATTTCATGTATAT-ATTAGAACC
1 AAATCAAAGTTTCATGTATATAATT-G--CC
62580949 ACAATCAAAGTTTCATGTATATAATTGCC
1 A-AATCAAAGTTTCATGTATATAATTGCC
62580978 AAATCAAAGTT
1 AAATCAAAGTT
62580989 CTTGTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 10 0.28
29 3 0.08
30 1 0.03
31 19 0.53
32 3 0.08
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (28 bp):
AAATCAAAGTTTCATGTATATAATTGCC
Found at i:62595945 original size:13 final size:13
Alignment explanation
Indices: 62595927--62595954 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62595917 GAAGCACAAC
62595927 TCACACGGGCGTG
1 TCACACGGGCGTG
62595940 TCACACGGGCGTG
1 TCACACGGGCGTG
62595953 TC
1 TC
62595955 CCTACCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:62597849 original size:55 final size:55
Alignment explanation
Indices: 62597789--62597904 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 55
62597779 CTGCCAAAAC
* * ** *
62597789 AACACGAGCGTGCGACACGCCCGTGCCTGGAAATCGTGGTCTAACCTGTCAAATT
1 AACACGAGCGTACGACACGACCGTGCCAAGAAATCGTGGTCGAACCTGTCAAATT
* * * * *
62597844 AACACGGGCGTACGACATGACCGTGCCAAGTACTCGTGGTCGAACCTGTTAAATT
1 AACACGAGCGTACGACACGACCGTGCCAAGAAATCGTGGTCGAACCTGTCAAATT
62597899 AACACG
1 AACACG
62597905 GGTGTGGGCC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (55 bp):
AACACGAGCGTACGACACGACCGTGCCAAGAAATCGTGGTCGAACCTGTCAAATT
Found at i:62598434 original size:23 final size:23
Alignment explanation
Indices: 62598408--62598454 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
62598398 TATTCTATTG
*
62598408 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
62598431 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
62598454 T
1 T
62598455 AATATCATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:62603407 original size:40 final size:40
Alignment explanation
Indices: 62603309--62603478 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
62603299 TCCTCGTTCA
* * * *
62603309 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
62603348 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
62603388 AATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
62603428 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
62603468 AAGGCCTTCGG
1 AATGCCTTCGG
62603479 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:62603410 original size:79 final size:80
Alignment explanation
Indices: 62603309--62603455 Score: 224
Period size: 79 Copynumber: 1.9 Consensus size: 80
62603299 TCCTCGTTCA
* * * *
62603309 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGAGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
62603373 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
62603388 AATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGAGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
62603453 TTA
66 TTA
62603456 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 33 0.55
80 27 0.45
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGAGACATAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACG
Found at i:62603451 original size:80 final size:78
Alignment explanation
Indices: 62603307--62603531 Score: 243
Period size: 80 Copynumber: 2.8 Consensus size: 78
62603297 GCTCCTCGTT
* * * * *
62603307 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
62603372 TTTAACAACTCGCA
65 TTTAACAACTCGCA
* *
62603386 CGAATGCCTTCGAGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCG-GACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
62603451 ATTTAGTATCTCGCA
64 ATTTAACAACTCGCA
* * * * * * * *
62603466 CAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCGG
62603531 A
64 A
62603532 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 35 0.29
80 81 0.66
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCA
Found at i:62603540 original size:41 final size:41
Alignment explanation
Indices: 62603463--62603540 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
62603453 TTAGTATCTC
* * *
62603463 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
62603504 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
62603541 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:62605417 original size:12 final size:13
Alignment explanation
Indices: 62605381--62605418 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
62605371 AAATATTTGG
62605381 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
62605394 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
62605408 CTTG-TCTTAAT
1 CTTGTTCTTAAT
62605419 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:62606432 original size:27 final size:27
Alignment explanation
Indices: 62606402--62606453 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62606392 CAGTAACAGT
*
62606402 TGGGCCTAGACC-ATTAACAGAATCAGC
1 TGGGCCTAAACCTATT-ACAGAATCAGC
62606429 TGGGCCTAAACCTATTACAGAATCA
1 TGGGCCTAAACCTATTACAGAATCA
62606454 ATATCAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (27 bp):
TGGGCCTAAACCTATTACAGAATCAGC
Found at i:62610062 original size:22 final size:22
Alignment explanation
Indices: 62610023--62610065 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62610013 AATAGAACGA
62610023 CTCAACACCATAGACAGGACGG
1 CTCAACACCATAGACAGGACGG
* * *
62610045 CTCAACGCCGTAGGCAGGACG
1 CTCAACACCATAGACAGGACG
62610066 ACTAAAGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.33, G:0.28, T:0.09
Consensus pattern (22 bp):
CTCAACACCATAGACAGGACGG
Found at i:62610076 original size:22 final size:22
Alignment explanation
Indices: 62610019--62610078 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
62610009 AGTCAATAGA
* * * *
62610019 ACGACTCAACACCATAGACAGG
1 ACGACTAAACGCCGTAGGCAGG
* *
62610041 ACGGCTCAACGCCGTAGGCAGG
1 ACGACTAAACGCCGTAGGCAGG
*
62610063 ACGACTAAAGGCCGTA
1 ACGACTAAACGCCGTA
62610079 AATATCGCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.27, T:0.10
Consensus pattern (22 bp):
ACGACTAAACGCCGTAGGCAGG
Found at i:62619621 original size:48 final size:48
Alignment explanation
Indices: 62619533--62619659 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 48
62619523 TACCACGGTT
* * * * *
62619533 ATACGTGTAACATGGTGCTAAGTGGGTATACCAAGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
62619581 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
62619629 ATTCAT-CAACGTGGTGCTAAGTGGATATACC
1 ATACATGTAACGTGGTGCTAAGTGGATATACC
62619660 GTGGTTAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
47 23 0.33
48 46 0.67
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:62619704 original size:38 final size:38
Alignment explanation
Indices: 62619636--62619711 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
62619626 TTGATTCATC
**
62619636 AACGTGGTGCTAAGTGGATATACCGTGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
* *
62619674 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
62619712 TAATTTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
Found at i:62623440 original size:68 final size:68
Alignment explanation
Indices: 62623348--62623505 Score: 271
Period size: 68 Copynumber: 2.3 Consensus size: 68
62623338 TTCACTTGGA
* *
62623348 ATCACTCATGCGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
62623413 CGC
66 CGC
*
62623416 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
*
62623481 CGT
66 CGC
*
62623484 ATCACACATGTGACCAAGCTAC
1 ATCACACATGTGACCTAGCTAC
62623506 TATATAGTAT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACATAGCTCTCTTGTCTACATGGGATACATCC
CGC
Found at i:62626027 original size:47 final size:45
Alignment explanation
Indices: 62625827--62626190 Score: 243
Period size: 47 Copynumber: 7.8 Consensus size: 45
62625817 TGGGTTATAT
**
62625827 TGCCGATGCCATGTCTCC-GACATGGTCTTACACTGGCTCTCATATACGCG
1 TGCCGATG-CATGTC-CCAGACAT-GTCTTACACTGGCTCTC--AT-CTTG
** * * * *
62625877 TGATGATGCATGTCCCAGACATGTCTTACACTAG--CACAACTTT
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
* * * *
62625920 TAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TGTGTCG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-T-G
* * * *
62625967 AGGCTGATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT-TG
* * *
62626014 TGCCGATGCCATGTCCCAGAGATGGTCTTACACTGGCTGTCATAGTATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CT-TG
* * * * * *
62626063 -GCTGATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTGG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
* * **
62626107 ATGCCAATGCCATGTCCCAGACAATGTCTTACACTGGCTCCCATAATG
1 -TGCCGATG-CATGTCCCAGAC-ATGTCTTACACTGGCTCTCATCTTG
* *
62626155 TGGACGAAGCATGTCCCAGACATGTCTTACACTGGC
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
62626191 GCACAAATCA
Statistics
Matches: 241, Mismatches: 57, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
43 2 0.01
44 30 0.12
45 2 0.01
46 45 0.19
47 82 0.34
48 60 0.25
49 14 0.06
50 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTTG
Found at i:62626084 original size:94 final size:93
Alignment explanation
Indices: 62625827--62626187 Score: 355
Period size: 94 Copynumber: 3.9 Consensus size: 93
62625817 TGGGTTATAT
* *
62625827 TGCCGATGCCATGTCTCC-GACATGGTCTTACACTGGCTCTCATA-TACGCGTGATGATGCATGT
1 TGCCGATGCCATGTC-CCAGACATGGTCTTACACTGGCTCTCATAGTA--TG-GCTGATGCATGT
* *
62625890 CCCAGACATGTCTTACACTAGCA--CAACTTT
62 CCCAGACATGTCTTACACTAGCACTCATCTTG
* * * *
62625920 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-T-GTGTCGAGGCTGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTAT---GGCTGATGCATGT
* *
62625981 CCCAGACATGTCTTACATTGGCACTCATCTCTG
62 CCCAGACATGTCTTACACTAGCACTCATCT-TG
* *
62626014 TGCCGATGCCATGTCCCAGAGATGGTCTTACACTGGCTGTCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
* * * *
62626079 AACATGTCTTACACTAGCCCTCGTCTGG
66 GACATGTCTTACACTAGCACTCATCTTG
* * * * *
62626107 ATGCCAATGCCATGTCCCAGACAAT-GTCTTACACTGGCTCCCATAATGTGGAC-GAAGCATGTC
1 -TGCCGATGCCATGTCCCAGAC-ATGGTCTTACACTGGCTCTCATAGTATGG-CTGATGCATGTC
62626170 CCAGACATGTCTTACACT
63 CCAGACATGTCTTACACT
62626188 GGCGCACAAA
Statistics
Matches: 223, Mismatches: 29, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
91 34 0.15
92 19 0.09
93 22 0.10
94 125 0.56
95 19 0.09
96 1 0.00
97 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAGTATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTTG
Found at i:62631126 original size:43 final size:43
Alignment explanation
Indices: 62631077--62631241 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
62631067 ATTAACAAGA
* *
62631077 TGTGATTACATGTAAGACCATGTCTGTGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
62631120 TGTGATTACATATAAGATCATGCCTGGGACATTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * *
62631162 ATATGATTTCGTGTAAGACCCTGTCTAGGACAATGGCATCG-AT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
62631205 GGTG-TTAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGTGATT-ACATGTAAGACCATGTCTGGGACATTGGCAT
62631242 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
41 8 0.08
42 21 0.22
43 68 0.70
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:62638862 original size:43 final size:44
Alignment explanation
Indices: 62638812--62638982 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 44
62638802 GATTACCGAG
* *
62638812 ATGTGATTACATGTAAGACCGTGTCTGTGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
62638856 -TGTGATTACGTGTAAGACCATGCCTGGGGCATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * * *
62638898 ATATGATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATTG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
62638941 AGGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
62638983 CGAGCTTTAT
Statistics
Matches: 101, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
42 9 0.09
43 92 0.91
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:62645813 original size:40 final size:40
Alignment explanation
Indices: 62645713--62645977 Score: 263
Period size: 40 Copynumber: 6.7 Consensus size: 40
62645703 GCTCCTCGTT
* * * * *
62645713 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
62645753 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
62645792 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
62645832 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
62645872 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
62645912 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
62645953 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62645978 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
39 39 0.20
40 142 0.72
41 15 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:62645986 original size:41 final size:41
Alignment explanation
Indices: 62645909--62645986 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
62645899 TTTGTATCTC
* * *
62645909 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
62645950 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
62645987 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:62653716 original size:39 final size:40
Alignment explanation
Indices: 62653671--62653933 Score: 254
Period size: 40 Copynumber: 6.7 Consensus size: 40
62653661 GCTCCTCGTT
* * * * *
62653671 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
62653711 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
62653750 CGAATGCCTTCGGGACTTAACCCGG-TTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
62653789 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
62653829 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
62653869 C-AATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
62653909 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62653934 CAGCATTCAA
Statistics
Matches: 194, Mismatches: 20, Indels: 18
0.84 0.09 0.08
Matches are distributed among these distances:
38 5 0.03
39 86 0.44
40 95 0.49
41 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:62653774 original size:79 final size:78
Alignment explanation
Indices: 62653671--62653880 Score: 253
Period size: 79 Copynumber: 2.7 Consensus size: 78
62653661 GCTCCTCGTT
* * * *
62653671 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTATCTCGCACAATGCCTTCGGGACATAACCCGGA
62653735 ATTTAACAACTCGCA
65 ATTT-ACAACTCGCA
* * * *
62653750 CGAATGCCTTCGGGACTTAACCCGGTTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTATCTCGCAC-AATGCCTTCGGGACATAACCCGGA
** *
62653815 ATTTGTATCTCGCA
65 ATTTACAACTCGCA
*
62653829 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAATGCCTTCGG
1 CAAATGCCTTCGGGACTTAACCCGG--TTTAGTATCTCGCACAATGCCTTCGG
62653881 ATCTTAGTCC
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 13 0.12
79 82 0.73
80 15 0.13
81 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTATCTCGCACAATGCCTTCGGGACATAACCCGGAA
TTTACAACTCGCA
Found at i:62657697 original size:11 final size:11
Alignment explanation
Indices: 62657681--62657709 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
62657671 TTTAATAGGA
62657681 TTTGTTTAATT
1 TTTGTTTAATT
62657692 TTTGTTTAATT
1 TTTGTTTAATT
62657703 TTTGTTT
1 TTTGTTT
62657710 CAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (11 bp):
TTTGTTTAATT
Found at i:62657831 original size:79 final size:78
Alignment explanation
Indices: 62657700--62657897 Score: 292
Period size: 79 Copynumber: 2.5 Consensus size: 78
62657690 TTTTTGTTTA
* * *
62657700 ATTTTTGTTTCAAACAAAAAATCAATTGAACAATTCTGTTTTAGGATTTTATTCCTGTCAATTTA
1 ATTTTTGTTTCAAATAGAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTC-ATTTA
*
62657765 ACAGGATTTATTGG
65 ACAGGATTTATTCG
*
62657779 ATTTTTGTTTTAAATAGAAAATCAATTGAACAAATT-TGTTTCAGGATTTTATTCCTGTCATTTA
1 ATTTTTGTTTCAAATAGAAAATCAATTGAAC-AATTCTGTTTCAGGATTTTATTCCTGTCATTTA
*
62657843 ACAGGATTTGTTCG
65 ACAGGATTTATTCG
*
62657857 ATTTTTTGTTTCAAATAG-AAATCAATTGAATAATTCTGTTT
1 A-TTTTTGTTTCAAATAGAAAATCAATTGAACAATTCTGTTT
62657898 AAGAATTCTT
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
77 4 0.04
78 35 0.32
79 65 0.60
80 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (78 bp):
ATTTTTGTTTCAAATAGAAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCATTTAA
CAGGATTTATTCG
Found at i:62659781 original size:22 final size:22
Alignment explanation
Indices: 62659752--62659818 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
62659742 GGCACTAATG
62659752 AACAGAGAGCACTAAGGTGCTA
1 AACAGAGAGCACTAAGGTGCTA
* * *
62659774 TACAGAGAGCACAAATGTGCTA
1 AACAGAGAGCACTAAGGTGCTA
** *
62659796 AATGGAAAGCACTAAGGTGCTA
1 AACAGAGAGCACTAAGGTGCTA
62659818 A
1 A
62659819 TATTCAGAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAGGTGCTA
Found at i:62669061 original size:15 final size:16
Alignment explanation
Indices: 62669029--62669061 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
62669019 GATTCAAAAT
62669029 TTTATTTTACATTAATG
1 TTTATTTTACA-TAATG
62669046 TTTATTTTAC-TAATG
1 TTTATTTTACATAATG
62669061 T
1 T
62669062 GGATGCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTATTTTACATAATG
Found at i:62671536 original size:118 final size:118
Alignment explanation
Indices: 62671328--62671576 Score: 320
Period size: 118 Copynumber: 2.1 Consensus size: 118
62671318 GACAGGTGAA
* ** * * * *
62671328 ACCGAGAGGATATCCTGTCGAACGTAACTTGTGCCAAGCGATGAGACAGAGAGGGTATCTGTATG
1 ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTATCTATATG
* * * * **
62671393 CCTAGGAAGAGACCGAAATGGTGGCTTAGGTGGTATTTTTTAGTGAAGATGAG
66 CCTAAGAAGAGACCGAAAGGGTGGCTTACGTGGTAATCCTTAGTGAAGATGAG
62671446 ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTAT-TCATAT
1 ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTATCT-ATAT
* * *
62671510 GCCTAAGAAGAGACCGAGAGGGTGGCTTACTTGGTAATCCTTAGTGAATATGAG
65 GCCTAAGAAGAGACCGAAAGGGTGGCTTACGTGGTAATCCTTAGTGAAGATGAG
* *
62671564 ACCAAGATGGTAT
1 ACCGAGAGGGTAT
62671577 TCTTAGCTAA
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
117 1 0.01
118 111 0.99
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (118 bp):
ACCGAGAGGGTATCCTGTCGAACACAACTTATGCCAAGCGATGAGACAAAAAGGGTATCTATATG
CCTAAGAAGAGACCGAAAGGGTGGCTTACGTGGTAATCCTTAGTGAAGATGAG
Found at i:62676118 original size:21 final size:20
Alignment explanation
Indices: 62676081--62676121 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
62676071 TATAAGGTTG
62676081 AATTGTATATGTGTGTGTTT
1 AATTGTATATGTGTGTGTTT
62676101 AATTGTAGTATGCT-TGTGTTT
1 AATTGTA-TATG-TGTGTGTTT
62676122 GAACGAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 11 0.58
22 1 0.05
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (20 bp):
AATTGTATATGTGTGTGTTT
Found at i:62681403 original size:13 final size:13
Alignment explanation
Indices: 62681385--62681409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62681375 GTATTACAAA
62681385 TTTAAAACCCAAG
1 TTTAAAACCCAAG
62681398 TTTAAAACCCAA
1 TTTAAAACCCAA
62681410 TACACAGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
TTTAAAACCCAAG
Found at i:62682859 original size:16 final size:17
Alignment explanation
Indices: 62682827--62682859 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62682817 TGTCAACAAA
*
62682827 TTCGTTTTTTGATTTTC
1 TTCGTTTCTTGATTTTC
62682844 TTCGTTTCTT-ATTTTC
1 TTCGTTTCTTGATTTTC
62682860 AGTGTTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.15, G:0.09, T:0.70
Consensus pattern (17 bp):
TTCGTTTCTTGATTTTC
Found at i:62684410 original size:29 final size:28
Alignment explanation
Indices: 62684366--62684426 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
62684356 CTATAACTGT
62684366 ATATATATTATATATAATAAAACCCACAC
1 ATATATATTATATATAATAAAA-CCACAC
* * *
62684395 ATATATATTATGTATATTAGAACCACAC
1 ATATATATTATATATAATAAAACCACAC
62684423 ATAT
1 ATAT
62684427 TTATGTACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (28 bp):
ATATATATTATATATAATAAAACCACAC
Found at i:62689783 original size:39 final size:40
Alignment explanation
Indices: 62689666--62689850 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
62689656 GCTACTCGTT
* *
62689666 CAAATGCCTTCGGGACATAGTCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
62689706 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
62689746 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
62689785 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
62689826 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62689851 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:62689785 original size:79 final size:81
Alignment explanation
Indices: 62689668--62689850 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
62689658 TACTCGTTCA
* * *
62689668 AATGCCTTCGGGACATAGTCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
62689731 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
62689748 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
62689811 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
62689827 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62689851 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:62710254 original size:40 final size:40
Alignment explanation
Indices: 62710217--62710401 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
62710207 GCTACTCGTT
*
62710217 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
62710257 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
62710297 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
62710336 CAAATGCCTTC-GGATCTTAGACCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
62710377 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62710402 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:62710361 original size:79 final size:80
Alignment explanation
Indices: 62710219--62710399 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
62710209 TACTCGTTCA
* **
62710219 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
62710284 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
*
62710299 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGA-CCG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCCG
* *
62710360 GATATGGTCACTTAGCAC
63 GATATAGTAACTTAGCAC
*
62710378 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
62710400 GACATCATTC
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 27 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:62713571 original size:24 final size:24
Alignment explanation
Indices: 62713538--62713586 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
62713528 TGGTCCACCG
62713538 TTCAGCACAAGTTTACTAAAGGCT
1 TTCAGCACAAGTTTACTAAAGGCT
*
62713562 TTCAGTACAAGTTTACTAAAGGCT
1 TTCAGCACAAGTTTACTAAAGGCT
62713586 T
1 T
62713587 ACACAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (24 bp):
TTCAGCACAAGTTTACTAAAGGCT
Found at i:62716702 original size:29 final size:29
Alignment explanation
Indices: 62716669--62716887 Score: 221
Period size: 29 Copynumber: 7.6 Consensus size: 29
62716659 CATTACTGGC
* * *
62716669 GATCTCTGTTAAATGGAAGTCTTTATGGT
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* * * *
62716698 TATCTATATTAAATGAAAG-CGTTAGTGGCA
1 GATCTCTATTAAATGGAAGCCTTTA-TGG-A
* * * *
62716728 -ATCTTTGTTAAATGGAAGCCTTTATAGT
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* * *
62716756 GATCTTTATTAAATAGAAGCC-TTGTGGA
1 GATCTCTATTAAATGGAAGCCTTTATGGA
*
62716784 GATCTCTATTAAATGGAAGCCTTCT-TAGA
1 GATCTCTATTAAATGGAAGCCTT-TATGGA
*
62716813 GATCTCTATTAAATGGAAGCCTTTGTGGA
1 GATCTCTATTAAATGGAAGCCTTTATGGA
* *
62716842 GGTCTCTATTAAATGGAAGCCTTTATGGT
1 GATCTCTATTAAATGGAAGCCTTTATGGA
62716871 GATCTCTATTAAATGGA
1 GATCTCTATTAAATGGA
62716888 TGCCCTTGTG
Statistics
Matches: 158, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
28 28 0.18
29 125 0.79
30 5 0.03
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (29 bp):
GATCTCTATTAAATGGAAGCCTTTATGGA
Found at i:62716886 original size:58 final size:58
Alignment explanation
Indices: 62716669--62716898 Score: 268
Period size: 58 Copynumber: 4.0 Consensus size: 58
62716659 CATTACTGGC
* * * * * * * *
62716669 GATCTCTGTTAAATGGAAGTCTTTATGGTTATCTATATTAAATGAAAGCGTTAGTGGCA
1 GATCTCTATTAAATGGAAGCCTTTATAGTGATCTCTATTAAATGGAAGCCTTTGTGG-A
* * * *
62716728 -ATCTTTGTTAAATGGAAGCCTTTATAGTGATCTTTATTAAATAGAAGCC-TTGTGGA
1 GATCTCTATTAAATGGAAGCCTTTATAGTGATCTCTATTAAATGGAAGCCTTTGTGGA
*
62716784 GATCTCTATTAAATGGAAGCCTTCT-TAGAGATCTCTATTAAATGGAAGCCTTTGTGGA
1 GATCTCTATTAAATGGAAGCCTT-TATAGTGATCTCTATTAAATGGAAGCCTTTGTGGA
* * * *
62716842 GGTCTCTATTAAATGGAAGCCTTTATGGTGATCTCTATTAAATGGATGCCCTTGTGG
1 GATCTCTATTAAATGGAAGCCTTTATAGTGATCTCTATTAAATGGAAGCCTTTGTGG
62716899 CTATCTTAAC
Statistics
Matches: 148, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.01
57 48 0.32
58 99 0.67
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (58 bp):
GATCTCTATTAAATGGAAGCCTTTATAGTGATCTCTATTAAATGGAAGCCTTTGTGGA
Found at i:62720691 original size:29 final size:29
Alignment explanation
Indices: 62720634--62720735 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
62720624 TACCTGTATC
* *
62720634 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
62720662 TGGCCCATTAGGCTCTAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-CATA
62720691 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
62720720 TGGCCCATTAGGCCCA
1 TGGCCCATTAGGCCCA
62720736 GTAACATTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 15 0.23
29 47 0.73
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:62725644 original size:40 final size:39
Alignment explanation
Indices: 62725589--62725820 Score: 195
Period size: 40 Copynumber: 5.8 Consensus size: 39
62725579 CGGATGATAA
*
62725589 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGT-GCTAATT
* *
62725629 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGCTAAT-T
** *
62725669 CCGGGCTAAGTCCCGAAGGTGTTTGTGCGA--GCTATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGCTA--AT-T
* ** * *
62725709 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGCTAATT
* * **
62725748 CCGGGCTAAGTCCCGAAGGCATTT-ATGCAAGTTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGA-GCGAG-TGCTAATT
* *
62725788 CCGGGCTAAGTCCTGAAGGCATTTGAGCTAGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTG
62725821 GCTATATCCG
Statistics
Matches: 159, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
37 2 0.01
39 31 0.19
40 121 0.76
41 4 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGCTAATT
Found at i:62725806 original size:119 final size:120
Alignment explanation
Indices: 62725589--62725806 Score: 305
Period size: 119 Copynumber: 1.8 Consensus size: 120
62725579 CGGATGATAA
* * * *
62725589 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTTA
* * *
62725654 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATTATGT
66 TGCAAGCTACTAAAACCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATTATGT
* * *
62725709 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTT
* *
62725772 ATGCAAGTTACTAAAACCGGGCTAAGTCCTGAAGG
65 ATGCAAGCTACTAAAACCGGGCTAAGTCCCGAAGG
62725807 CATTTGAGCT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
119 57 0.67
120 28 0.33
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTTA
TGCAAGCTACTAAAACCGGGCTAAGTCCCGAAGGTGTTTGTGCGAGCTATTATGT
Found at i:62725834 original size:79 final size:79
Alignment explanation
Indices: 62725629--62725835 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 79
62725619 GTGGCTAATT
** *
62725629 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGTGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTA
* * ***
62725694 TGCGAGCTATTATGT
65 TGCAAGCTACTAAAA
*
62725709 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTA
*
62725773 TGCAAGTTACTAAAA
65 TGCAAGCTACTAAAA
* * * *
62725788 CCGGGCTAAGTCCTGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
62725836 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 69 0.63
80 39 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTAT
GCAAGCTACTAAAA
Found at i:62731244 original size:130 final size:131
Alignment explanation
Indices: 62730820--62731399 Score: 477
Period size: 130 Copynumber: 4.5 Consensus size: 131
62730810 AGATCGTAGG
* * * * *
62730820 CTAAGTTTATTCGATTTAATATCATGAACAATTTTCTTTGAGTTAGCTAATTTAATATCACTGCT
1 CTAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTGAGATAGCTAATTTAATATCGCTACT
* * * * * * * * * * *
62730885 CTACA-AACTCGCTGATTTAATATCGCAACTGATATCGTTAAGGCTCGCTGATTTAATATCGCAA
66 CCAAACAACTTGTTGATTTAAGATCGCAACAGATATCATTAAGACTCGTTGATTTAAAATCACAA
62730949 C
131 C
* ** * * * * * *
62730950 CTAAATTCATTTGACTTAATATCATGAACAATTTTCCTTGAGATAGTTGATTCAATATAGCTACT
1 CTAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTGAGATAGCTAATTTAATATCGCTACT
* * * * * * * * * * * * *
62731015 CCAAATAGCTCGCTAATTTAAGATCACAGTA-AAAAAT-GTTAAGGCTCGCTAATTT--AGT---
66 CCAAACAACTTGTTGATTTAAGATCGCA--ACAGATATCATTAAGACTCGTTGATTTAAAATCAC
62731073 ---
129 AAC
* * * * *
62731073 CTAAGTTCATTCGATTTAATATTATGAACAATTTTCTTTGAGATAGCTCATTTAATATTGCTGCT
1 CTAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTGAGATAGCTAATTTAATATCGCTACT
* * * * * * * *
62731138 CCAAACAACTTGTTGATTTAGGATCGTAGA-TGATATCGTTAA-AGTTTGTTGA-TTAAGATCGC
66 CCAAACAACTTGTTGATTTAAGATCGCA-ACAGATATCATTAAGA-CTCGTTGATTTAAAATCAC
*
62731200 AGC
129 AAC
* *
62731203 CTAAGTTCATTCAATTTAATATCATGAGCAGTTTTCTTTGAGATAGCTAATTTAATATCGCTACT
1 CTAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTGAGATAGCTAATTTAATATCGCTACT
*
62731268 CCAAACAACTTGTTGATTTAATATCGCAACAGATATCATTAAGACTCGTTGATTTAAAATCACAA
66 CCAAACAACTTGTTGATTTAAGATCGCAACAGATATCATTAAGACTCGTTGATTTAAAATCACAA
62731333 C
131 C
* * * * * *
62731334 CTAAGTTCATTAAATTTAATATCATGAACAATTTTCTTAGAGTTAGTTGATTCAATATCGCTACT
1 CTAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTGAGATAGCTAATTTAATATCGCTACT
62731399 C
66 C
62731400 TAAATAGCTC
Statistics
Matches: 356, Mismatches: 78, Indels: 31
0.77 0.17 0.07
Matches are distributed among these distances:
122 6 0.02
123 84 0.24
124 1 0.00
129 2 0.01
130 155 0.44
131 104 0.29
132 3 0.01
133 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (131 bp):
CTAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTGAGATAGCTAATTTAATATCGCTACT
CCAAACAACTTGTTGATTTAAGATCGCAACAGATATCATTAAGACTCGTTGATTTAAAATCACAA
C
Found at i:62731531 original size:95 final size:95
Alignment explanation
Indices: 62731326--62731551 Score: 283
Period size: 95 Copynumber: 2.4 Consensus size: 95
62731316 TTGATTTAAA
** * *
62731326 ATCACAACCTAAGTTCATTAAATTTAATATCATGAACAATTTTCTTAGAGTTAGTTGATTCAATA
1 ATCACAATATAAGTTCATTCAATTTAATATCATGAACAATTTTCTTAGAGTTAGCTGATTCAATA
* * * *
62731391 TCGCTACTCTAAATAGCTCAATGATCTAAT
66 TCACTACTCTAAATAGCTCAATAATATAAG
* **
62731421 ATCGCAATATAAGTTCATTCAATTTAATATCATGAACAATTTTCTTTTAGTTAGCTGATTCAATA
1 ATCACAATATAAGTTCATTCAATTTAATATCATGAACAATTTTCTTAGAGTTAGCTGATTCAATA
**
62731486 TCACTACTCTAAATAGCTCGCTAATATAAG
66 TCACTACTCTAAATAGCTCAATAATATAAG
* * * *
62731516 ATCACAGCT-TTAGTTCATTCGATTTAACATCATGAA
1 ATCACA-ATATAAGTTCATTCAATTTAATATCATGAA
62731552 TGATCTCATT
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
95 111 0.99
96 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (95 bp):
ATCACAATATAAGTTCATTCAATTTAATATCATGAACAATTTTCTTAGAGTTAGCTGATTCAATA
TCACTACTCTAAATAGCTCAATAATATAAG
Found at i:62732922 original size:54 final size:54
Alignment explanation
Indices: 62732859--62732966 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
62732849 TCTTCGCTAC
*
62732859 TTAGAATAACATTCTCAGCTCCAGTTGTAGTTTTTTATTTCTTTCTACTGTTTG
1 TTAGAATAACATTCTCAGCTCCAGTTGTAGTTTTTTATTTCTTTCTACTATTTG
*
62732913 TTAGAATAACATTCTCAGCTCCAGTTGTAGTTTTTTGTTTCTTTCTACTATTTG
1 TTAGAATAACATTCTCAGCTCCAGTTGTAGTTTTTTATTTCTTTCTACTATTTG
62732967 CAGTTTTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (54 bp):
TTAGAATAACATTCTCAGCTCCAGTTGTAGTTTTTTATTTCTTTCTACTATTTG
Found at i:62735020 original size:45 final size:45
Alignment explanation
Indices: 62734934--62735020 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
62734924 CCAAAACATG
** *
62734934 TGTCACATATATCATGAAATCAGTCCACAACTCAATAAGTTCGGA
1 TGTCACATATATCATGAAATCAAACCACAACTAAATAAGTTCGGA
* ** *
62734979 TGTCACATATATCATGAACTCAAACCAGTACTAAATGAGTTC
1 TGTCACATATATCATGAAATCAAACCACAACTAAATAAGTTC
62735021 TGATTACATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (45 bp):
TGTCACATATATCATGAAATCAAACCACAACTAAATAAGTTCGGA
Found at i:62740878 original size:16 final size:18
Alignment explanation
Indices: 62740852--62740884 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62740842 AAAACCTTGA
62740852 AAATAAACCA-TTCAAAT
1 AAATAAACCATTTCAAAT
62740869 AAAT-AACCATTTCAAA
1 AAATAAACCATTTCAAA
62740885 ATTTCAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAACCATTTCAAAT
Found at i:62747318 original size:17 final size:17
Alignment explanation
Indices: 62747292--62747324 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62747282 GAGATAAAGG
62747292 GAGGAATAGTGGAGTTT
1 GAGGAATAGTGGAGTTT
*
62747309 GAGGAGTAGTGGAGTT
1 GAGGAATAGTGGAGTT
62747325 GTACCGAAAT
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:0.27, C:0.00, G:0.45, T:0.27
Consensus pattern (17 bp):
GAGGAATAGTGGAGTTT
Found at i:62758016 original size:63 final size:63
Alignment explanation
Indices: 62757937--62758060 Score: 239
Period size: 63 Copynumber: 2.0 Consensus size: 63
62757927 TGTTTCTTGC
62757937 TTCTTACCTTACTGCTAGTTGTTCACCTTTACTTTGCTTTTAGTTTTCTCTATTAAAAATTCA
1 TTCTTACCTTACTGCTAGTTGTTCACCTTTACTTTGCTTTTAGTTTTCTCTATTAAAAATTCA
*
62758000 TTCTTACCTTGCTGCTAGTTGTTCACCTTTACTTTGCTTTTAGTTTTCTCTATTAAAAATT
1 TTCTTACCTTACTGCTAGTTGTTCACCTTTACTTTGCTTTTAGTTTTCTCTATTAAAAATT
62758061 TAATCTTTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.19, C:0.20, G:0.09, T:0.52
Consensus pattern (63 bp):
TTCTTACCTTACTGCTAGTTGTTCACCTTTACTTTGCTTTTAGTTTTCTCTATTAAAAATTCA
Found at i:62760152 original size:22 final size:22
Alignment explanation
Indices: 62760124--62760167 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62760114 ACTCTTCATG
*
62760124 GCATAGTATACGAAGCGCCATA
1 GCATAGTATACGAAGCACCATA
62760146 GCATAGTATACGAAGCACCATA
1 GCATAGTATACGAAGCACCATA
62760168 CTCCTATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (22 bp):
GCATAGTATACGAAGCACCATA
Found at i:62766239 original size:23 final size:23
Alignment explanation
Indices: 62766208--62766276 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
62766198 CCTCAAGGGA
* *
62766208 ATTATAGAATATGCCACAAAGGT
1 ATTACAGAATATGCCACAAAGGC
* *
62766231 TTTACAGAATATGCCACAAATGC
1 ATTACAGAATATGCCACAAAGGC
* *
62766254 ATTACAAAATATGCCTCAAAGGC
1 ATTACAGAATATGCCACAAAGGC
62766277 TTAGAATAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (23 bp):
ATTACAGAATATGCCACAAAGGC
Found at i:62770845 original size:22 final size:23
Alignment explanation
Indices: 62770807--62770860 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
62770797 TACACCACAC
*
62770807 TAGAGAGTACTATAGTGC-AAAA
1 TAGAGAGCACTATAGTGCTAAAA
*
62770829 TAGAGAGCACTGA-AGTGCTAAGA
1 TAGAGAGCACT-ATAGTGCTAAAA
62770852 -AGAGAGCAC
1 TAGAGAGCAC
62770861 CGGAGTGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.43, C:0.13, G:0.28, T:0.17
Consensus pattern (23 bp):
TAGAGAGCACTATAGTGCTAAAA
Found at i:62771850 original size:10 final size:9
Alignment explanation
Indices: 62771837--62771888 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
62771827 TGATATATAT
62771837 ACTTATATTA
1 ACTTA-ATTA
62771847 ACTTTAATTA
1 AC-TTAATTA
*
62771857 ATCTTAGTTA
1 A-CTTAATTA
62771867 ACTTAATTAA
1 ACTTAATT-A
62771877 ACTATAATTA
1 ACT-TAATTA
62771887 AC
1 AC
62771889 ATTTCTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 6 0.17
10 21 0.58
11 9 0.25
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (9 bp):
ACTTAATTA
Found at i:62771887 original size:20 final size:20
Alignment explanation
Indices: 62771837--62771888 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
62771827 TGATATATAT
62771837 ACTTATATTAACTTTAATTAA
1 ACTTA-ATTAACTTTAATTAA
* *
62771858 TCTTAGTTAAC-TTAATTAA
1 ACTTAATTAACTTTAATTAA
62771877 ACTATAATTAAC
1 ACT-TAATTAAC
62771889 ATTTCTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 10 0.38
20 12 0.46
21 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (20 bp):
ACTTAATTAACTTTAATTAA
Found at i:62786379 original size:50 final size:50
Alignment explanation
Indices: 62786245--62786369 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
62786235 TTATAAACTG
* *
62786245 TGATCATGTTAATTATATTTTCAATTTATTATTTTTATAAGCTTTATTCA
1 TGATCATGTTAATAATATTTTCAATTTATTATTTTTATAAGATTTATTCA
* * * *
62786295 TGATCTTGTTAATAATATTTTTAATTTGTTATTTTTATAA-ATTTCATTTA
1 TGATCATGTTAATAATATTTTCAATTTATTATTTTTATAAGATTT-ATTCA
62786345 TGATCATGTTAATAATATTTTCAAT
1 TGATCATGTTAATAATATTTTCAAT
62786370 ACAAAATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
49 3 0.05
50 63 0.95
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (50 bp):
TGATCATGTTAATAATATTTTCAATTTATTATTTTTATAAGATTTATTCA
Found at i:62786659 original size:26 final size:27
Alignment explanation
Indices: 62786629--62786691 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
62786619 TTTAGATACA
**
62786629 TATATTTTTTTCAATTTATA-ATTTTT
1 TATATTTTTTAAAATTTATATATTTTT
**
62786655 TATATTTTAAAAAATTTATATATTTTT
1 TATATTTTTTAAAATTTATATATTTTT
*
62786682 TATATATTTT
1 TATATTTTTT
62786692 CTTTTAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TATATTTTTTAAAATTTATATATTTTT
Found at i:62787210 original size:16 final size:16
Alignment explanation
Indices: 62787191--62787241 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
62787181 GAAGTTGACC
62787191 AAAATAGAAATGATCT
1 AAAATAGAAATGATCT
* * *
62787207 AAAA-CGTAAGTGA-CC
1 AAAATAG-AAATGATCT
62787222 AAAATAGAAATGATCT
1 AAAATAGAAATGATCT
62787238 AAAA
1 AAAA
62787242 CGTTAGTGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.20
Consensus pattern (16 bp):
AAAATAGAAATGATCT
Found at i:62787224 original size:31 final size:31
Alignment explanation
Indices: 62787186--62787249 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
62787176 TTTAGGAAGT
62787186 TGACCAAAATAGAAATGATCTAAAACGTAAG
1 TGACCAAAATAGAAATGATCTAAAACGTAAG
*
62787217 TGACCAAAATAGAAATGATCTAAAACGTTAG
1 TGACCAAAATAGAAATGATCTAAAACGTAAG
62787248 TG
1 TG
62787250 GCAAAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (31 bp):
TGACCAAAATAGAAATGATCTAAAACGTAAG
Found at i:62791488 original size:79 final size:80
Alignment explanation
Indices: 62791390--62791572 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
62791380 TACTCATTCA
* *
62791390 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
62791453 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
62791470 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
62791534 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
62791549 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62791573 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:62791572 original size:40 final size:40
Alignment explanation
Indices: 62791388--62791572 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
62791378 GCTACTCATT
* *
62791388 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62791428 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
62791468 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
62791507 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
62791548 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62791573 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:62795338 original size:61 final size:58
Alignment explanation
Indices: 62795212--62795340 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 58
62795202 TTTTAATATT
* * * *
62795212 AAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTATT
1 AAATTAATATAATACTTATCAACATAAATATTAAATTAAATTTAATATTAAATCAATC
*
62795270 AAATTAATATAATACTTATCTACAACATAAATATTAAATTTAATTTAATATTAAGAT-AATC
1 AAATTAATATAATACTTA--T-CAACATAAATATTAAATTAAATTTAATATTAA-ATCAATC
**
62795331 ACTTTAATAT
1 AAATTAATAT
62795341 TAAATTAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
58 18 0.30
60 1 0.02
61 39 0.65
62 2 0.03
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (58 bp):
AAATTAATATAATACTTATCAACATAAATATTAAATTAAATTTAATATTAAATCAATC
Found at i:62795407 original size:68 final size:71
Alignment explanation
Indices: 62795266--62795408 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 71
62795256 ATATTAAATC
* *
62795266 TATTAAATTAATATAATACTTATCTACAACATAAATATTAAATTTAATTTAATATTAAGATAATC
1 TATTAAATTAATAAAATACTTA-CTACAACATAAATATTAAATTTAATTTAATATTAAAATAATC
***
62795331 ACTTTAA
65 AAAATAA
* * *
62795338 TATTAAATTAATAAAATA-TTA-T-CAAGATAAATATTAATTTTAATTTAATATTAAAACT-ATT
1 TATTAAATTAATAAAATACTTACTACAACATAAATATTAAATTTAATTTAATATTAAAA-TAATC
62795399 AAAATAA
65 AAAATAA
62795406 TAT
1 TAT
62795409 CATTTTTGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
68 40 0.65
69 2 0.03
71 3 0.05
72 17 0.27
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (71 bp):
TATTAAATTAATAAAATACTTACTACAACATAAATATTAAATTTAATTTAATATTAAAATAATCA
AAATAA
Found at i:62798500 original size:34 final size:35
Alignment explanation
Indices: 62798419--62798505 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
62798409 CTCATTAATT
* *
62798419 ATTCGTCGATTTATCCGACTAGCGCAGGACACAAC
1 ATTCGTCGGTTTATCTGACTAGCGCAGGACACAAC
* ** *
62798454 TTTCGTTAGTTTATCTGACTAGTGCTAGG-CAC-AC
1 ATTCGTCGGTTTATCTGACTAGCGC-AGGACACAAC
62798488 ATTCGTCGGTTTATCTGA
1 ATTCGTCGGTTTATCTGA
62798506 TTAATGCTGG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
34 17 0.40
35 22 0.52
36 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (35 bp):
ATTCGTCGGTTTATCTGACTAGCGCAGGACACAAC
Found at i:62798658 original size:143 final size:143
Alignment explanation
Indices: 62798357--62798665 Score: 368
Period size: 143 Copynumber: 2.2 Consensus size: 143
62798347 TCATCGATTC
* * *
62798357 ATTCGACTAGCGTTGGGCGCAAATATAATTGGTTTATCCAACTAGAGCTGGGCTCATTAATTATT
1 ATTCGACTAGCGCTGGGCGCAAATATAATCGGTTTATCCAACTAGAGCTGGGCTCACTAATTATT
* * * * * * *
62798422 CGTCGATTTATCCGACTAGCGCAGGACACAACTTTCGTTAGTTTATCTGACTAGTGCTAGGCACA
66 CGTCGATTTATCCGACTAGCACAGGACACAACCTCCATCAGCTTATCTAACTAGTGCTAGGCACA
*
62798487 CATTCGTCGGTTT
131 CATTCGTCAGTTT
* ** * **
62798500 A-TCTGATTAATGCTGGGTGCAAATATTGTCGGTTTATCCAACTAGAGCTGGGCTCACTAATTAT
1 ATTC-GACTAGCGCTGGGCGCAAATATAATCGGTTTATCCAACTAGAGCTGGGCTCACTAATTAT
* * * * * * *
62798564 TCTTCGGTTTATCCGACTAGCACTGGACGCAACCTCCATCAGCTTATCTAACTAGTGTTGGGCGC
65 TCGTCGATTTATCCGACTAGCACAGGACACAACCTCCATCAGCTTATCTAACTAGTGCTAGGCAC
*
62798629 ACATTTGTCAGTTT
130 ACATTCGTCAGTTT
*
62798643 ATTCGACTAGCGCTGGGCACAAA
1 ATTCGACTAGCGCTGGGCGCAAA
62798666 CTCTTTCGCG
Statistics
Matches: 134, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
142 2 0.01
143 130 0.97
144 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (143 bp):
ATTCGACTAGCGCTGGGCGCAAATATAATCGGTTTATCCAACTAGAGCTGGGCTCACTAATTATT
CGTCGATTTATCCGACTAGCACAGGACACAACCTCCATCAGCTTATCTAACTAGTGCTAGGCACA
CATTCGTCAGTTT
Found at i:62802925 original size:15 final size:16
Alignment explanation
Indices: 62802905--62802939 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
62802895 TCCCACTTTC
62802905 TATTTAATATA-ATTA
1 TATTTAATATATATTA
*
62802920 TATTTATTATATATTA
1 TATTTAATATATATTA
62802936 TATT
1 TATT
62802940 ATATAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTAATATATATTA
Found at i:62813065 original size:16 final size:15
Alignment explanation
Indices: 62813030--62813063 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
62813020 TTAATAAAGG
*
62813030 AAAATTAATATTGTA
1 AAAATGAATATTGTA
*
62813045 AAAATGAATGTTGTA
1 AAAATGAATATTGTA
62813060 AAAA
1 AAAA
62813064 ATCTTGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAAATGAATATTGTA
Found at i:62814601 original size:27 final size:26
Alignment explanation
Indices: 62814541--62814611 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
62814531 ACAATATGAA
*
62814541 GAAAG-AAAATAAAATAAAACAAGCC
1 GAAAGTAAAATAAAATAAAACAAGAC
* *
62814566 GAAAATAAAATGATAAATAATA-AAGAC
1 GAAAGTAAAAT-A-AAATAAAACAAGAC
*
62814593 GAAAGTAAAACAAAATAAA
1 GAAAGTAAAATAAAATAAA
62814612 GAGGTAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 10 0.27
26 6 0.16
27 14 0.38
28 7 0.19
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (26 bp):
GAAAGTAAAATAAAATAAAACAAGAC
Found at i:62814668 original size:17 final size:19
Alignment explanation
Indices: 62814637--62814674 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
62814627 ATATAAAAAG
62814637 AAAAATAATAGGTAAAATA
1 AAAAATAATAGGTAAAATA
62814656 AAAAATAA-A-GTAAAATA
1 AAAAATAATAGGTAAAATA
62814673 AA
1 AA
62814675 GTAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (19 bp):
AAAAATAATAGGTAAAATA
Found at i:62814672 original size:10 final size:10
Alignment explanation
Indices: 62814657--62814684 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62814647 GGTAAAATAA
62814657 AAAATAAAGT
1 AAAATAAAGT
62814667 AAAATAAAGT
1 AAAATAAAGT
62814677 AAAATAAA
1 AAAATAAA
62814685 ATAATAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (10 bp):
AAAATAAAGT
Found at i:62814684 original size:15 final size:15
Alignment explanation
Indices: 62814638--62814688 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
62814628 TATAAAAAGA
62814638 AAAATAATAGGTAAAAT
1 AAAATAA-A-GTAAAAT
*
62814655 -AAA-AAA-TAAAGT
1 AAAATAAAGTAAAAT
62814667 AAAATAAAGTAAAAT
1 AAAATAAAGTAAAAT
62814682 AAAATAA
1 AAAATAA
62814689 TAGAATCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 5 0.17
13 3 0.10
14 4 0.14
15 14 0.48
16 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (15 bp):
AAAATAAAGTAAAAT
Found at i:62814922 original size:3 final size:3
Alignment explanation
Indices: 62814916--62815095 Score: 133
Period size: 3 Copynumber: 62.0 Consensus size: 3
62814906 CTACTACTAC
* *
62814916 TAA TAA TAA TAA TAA T-A CAA TAA TAA TAA -AA TAAA GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * ** * *
62814960 TAA TAG TAA -AGA CAA TAA TAA TAA GCA TGA TAA TAA TAA TAC TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
62815005 TAA TAA TAA TAA TGA TAA TAG TAA TAA TAG TAG CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
62815053 TAG TAA -AA GAA -AA TAA TAA TAA -AA TTA -AA TAA T-T TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62815096 AGTAGTTAAA
Statistics
Matches: 139, Mismatches: 28, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
2 12 0.09
3 124 0.89
4 3 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:62816183 original size:17 final size:16
Alignment explanation
Indices: 62816152--62816201 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
62816142 TTTGGGCTAT
62816152 TTTGGGTTTAGTTTAG
1 TTTGGGTTTAGTTTAG
62816168 -TTGGGTTTGGAGTTTAG
1 TTTGGGTTT--AGTTTAG
62816185 TTTGGG-TT-GTTTAG
1 TTTGGGTTTAGTTTAG
62816199 TTT
1 TTT
62816202 TGAGGTCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.29
15 8 0.26
17 9 0.29
18 5 0.16
ACGTcount: A:0.10, C:0.00, G:0.34, T:0.56
Consensus pattern (16 bp):
TTTGGGTTTAGTTTAG
Found at i:62816605 original size:44 final size:44
Alignment explanation
Indices: 62816557--62816760 Score: 142
Period size: 44 Copynumber: 4.4 Consensus size: 44
62816547 GTTTTAATTC
* * * * *
62816557 GCTCCACTACAACTTCAGGGAGATAGGATTAGTAGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAAATAAGACTAGCAGCTTCAATCT
* * *
62816601 GCTCCTCTGCAACTTCAGGGAAATAAGACTGGCGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAAATAAGACTAGCAGCTTCAATCT
* * * *
62816645 GCTCCATTGCAACTTCA-AGAAGATAAGATTTGTCATAATTTGTAGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAA-ATAAGA-----C-T-A---GCAGCTTCAATCT
* * * *
62816699 GTTCCACTGCAACTTCAGGGAGATAAGGCT-GACGGCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAAATAAGACTAG-CAGCTTCAATCT
62816743 GCTCCACTGCAACTTCAG
1 GCTCCACTGCAACTTCAG
62816761 AAAGATAAGA
Statistics
Matches: 123, Mismatches: 24, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
43 4 0.03
44 83 0.67
48 1 0.01
49 2 0.02
50 1 0.01
54 30 0.24
55 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAAATAAGACTAGCAGCTTCAATCT
Found at i:62816757 original size:98 final size:98
Alignment explanation
Indices: 62816588--62816822 Score: 337
Period size: 98 Copynumber: 2.4 Consensus size: 98
62816578 GATAGGATTA
* * * * *
62816588 GTAGCTTCAATCTGCTCCTCTGCAACTTCAGGGAAATAAGACTGGCGGCTTCAATCTGCTCCATT
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTGACGGCTTCAATCTGCTCCACT
** *
62816653 GCAACTTCA-AGAAGATAAGATTTGTCATAATTT
66 GCAACTTCAGA-AAGATAAGATCCGCCATAATTT
* *
62816686 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACT
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTGACGGCTTCAATCTGCTCCACT
62816751 GCAACTTCAGAAAGATAAGATCCGCCATAATTT
66 GCAACTTCAGAAAGATAAGATCCGCCATAATTT
* * *
62816784 GTAGCTTTAATCTATTCCACTACAACGTCAGGGAAATAA
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAA
62816823 TATTCGCTGT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
98 121 0.99
99 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (98 bp):
GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTGACGGCTTCAATCTGCTCCACT
GCAACTTCAGAAAGATAAGATCCGCCATAATTT
Found at i:62816852 original size:98 final size:97
Alignment explanation
Indices: 62816610--62816867 Score: 320
Period size: 98 Copynumber: 2.6 Consensus size: 97
62816600 TGCTCCTCTG
*
62816610 CAACTTCAGGGAAATAAGACTGGCGGCTTCAATCTGCTCCATTGCAACTTCAAGAAGATAAGATT
1 CAACTTCAGGGAAATAAGACT-GCGGCTTCAATCTGCTCCATTGCAACTTCAAGAAGATAAGATC
* * * *
62816675 TGTCATAATTTGTAGCTTTAATCTGTTCCACTG
65 CGCCATAATTTGTAGCTTTAATCTATTCCACTA
* * *
62816708 CAACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGCAACTTC-AGAAAGATAAGAT
1 CAACTTCAGGGAAATAAGACTG-CGGCTTCAATCTGCTCCATTGCAACTTCAAG-AAGATAAGAT
62816772 CCGCCATAATTTGTAGCTTTAATCTATTCCACTA
64 CCGCCATAATTTGTAGCTTTAATCTATTCCACTA
* * * * * * * * *
62816806 CAACGTCAGGGAAATAATATTCGCTGTTTCAGTCTGTTCCGTTGCAACTTCAAGGAGATAAG
1 CAACTTCAGGGAAATAAGACT-GCGGCTTCAATCTGCTCCATTGCAACTTCAAGAAGATAAG
62816868 GCTAGTGGCT
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
97 3 0.02
98 130 0.96
99 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (97 bp):
CAACTTCAGGGAAATAAGACTGCGGCTTCAATCTGCTCCATTGCAACTTCAAGAAGATAAGATCC
GCCATAATTTGTAGCTTTAATCTATTCCACTA
Found at i:62817055 original size:143 final size:143
Alignment explanation
Indices: 62816696--62817481 Score: 1058
Period size: 143 Copynumber: 5.5 Consensus size: 143
62816686 GTAGCTTTAA
* * ** *
62816696 TCTGTTCCACTGCAACTTCAGGGAGATAAGGCTGACGGCTTCAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAG
* * * *
62816761 AAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTATTCCACTACAACGTCAGGGAAATAATAT
66 AAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGAT
62816826 TCGCTGT-TTCAG
131 TCGCTGTCTTCAG
* * * * *
62816838 TCTGTTCCGTTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAAAT-TGCTCCACTGCAACTTCA
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTT-TAATCTGCTCCACTGCAACTTCA
*
62816902 GGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGA
65 GAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGA
*
62816967 TTCGCTGTTTTCAG
130 TTCGCTGTCTTCAG
* * * *
62816981 TCTGCTCCGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCAATTGCAACTTCAG
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAG
* * *
62817046 GAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTATTCCATTGCAACGTCAGGGAAATAAGAT
66 AAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGAT
* *
62817111 TCGTTGTCTTCAA
131 TCGCTGTCTTCAG
* ** * * *
62817124 CCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTACAACTTCAG
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAG
* * * **
62817189 AAAGATAAAAATT-TCCATAATTTGTAGTTTTAATCTGTTCCACTGCAATATCAGGGAAATAAGA
66 AAAGAT-AAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGA
* *
62817253 TTCGTTGTCTTCAA
130 TTCGCTGTCTTCAG
* * *
62817267 TTTGCTCCGCTACAAATTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAG
*
62817332 AAAGATAAGA-TCGGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTCAGGGAAATAAGA
66 AAAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGA
*
62817396 TTGGCTGTCTTCAG
130 TTCGCTGTCTTCAG
* * * * * * *
62817410 TCTGCCCCACTGCAACTTCAAGGAGATAAGGCCGGTGGCTTTAATCTGCTCTACTACAACTTTAG
1 TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCA-
62817475 GAAAGAT
65 GAAAGAT
62817482 CCGCCATCTT
Statistics
Matches: 565, Mismatches: 72, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
141 1 0.00
142 127 0.22
143 425 0.75
144 12 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
TCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAG
AAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGAT
TCGCTGTCTTCAG
Found at i:62817153 original size:45 final size:44
Alignment explanation
Indices: 62817084--62817188 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
62817074 TTTAATCTAT
* * * * *
62817084 TCCATTGCAACGTCAGGGAAATAAGATTCGTTGTCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGACT-GATGGCTTCAACCTGC
* * * *
62817129 TCTACTGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGACTGATGGCTTCAACCTGC
*
62817173 TCCACTACAACTTCAG
1 TCCACTGCAACTTCAG
62817189 AAAGATAAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 27 0.55
45 22 0.45
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAAATAAGACTGATGGCTTCAACCTGC
Found at i:62817184 original size:44 final size:44
Alignment explanation
Indices: 62817118--62817471 Score: 116
Period size: 44 Copynumber: 7.5 Consensus size: 44
62817108 GATTCGTTGT
* * *
62817118 CTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGATGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTGATGG
** ** *
62817162 CTTCAATCTGCTCCACTACAACTTCAGAAAGATAAAAATTTCCATAATTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGAT---AA--GGC-TGA--TG--G
* * * * * ** * *
62817216 TTTTAATCTGTTCCACTGCAA-TATCAGGGAAATAAGATTCGTTGT
1 CTTCAATCTGCTCCACTACAACT-TCAGGGAGATAAGGCT-GATGG
* * * *
62817261 CTTCAATTTGCTCCGCTACAAATTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTGATGG
* * ** *
62817305 CTTTAATCTGCTCCACTGCAACTTCAGAAAGATAAGATCGGCCATAATTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGAT-A-A--GG-C-TGA--TG--G
* * * * ** * *
62817359 CTTTAATCTGTTCCACTACAACGTCAGGGAAATAAGATTGGCTGT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCT-GATGG
* * * * * *
62817404 CTTCAGTCTGCCCCACTGCAACTTCAAGGAGATAAGGCCGGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTGATGG
* *
62817448 CTTTAATCTGCTCTACTACAACTT
1 CTTCAATCTGCTCCACTACAACTT
62817472 TAGGAAAGAT
Statistics
Matches: 216, Mismatches: 70, Indels: 48
0.65 0.21 0.14
Matches are distributed among these distances:
44 79 0.37
45 57 0.26
46 2 0.01
47 6 0.03
48 4 0.02
49 2 0.01
50 4 0.02
51 2 0.01
52 5 0.02
53 2 0.01
54 53 0.25
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGCTGATGG
Found at i:62817556 original size:44 final size:44
Alignment explanation
Indices: 62817503--62817603 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
62817493 GATCAACTCC
* * *
62817503 ACTGTAACTTCAAAGAGATAA-GATCTACATCTTTAACCTGCTCA
1 ACTGCAACTTCAAAGAGATAAGGCT-TACAGCTTTAACCTGCTCA
** * * *
62817547 ACTGCAACTTCAGGGAGATAAGGCTTATAGCTTTAATCTGCTCT
1 ACTGCAACTTCAAAGAGATAAGGCTTACAGCTTTAACCTGCTCA
*
62817591 ATTGCAACTTCAA
1 ACTGCAACTTCAA
62817604 TCTGCTCCAC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAAAGAGATAAGGCTTACAGCTTTAACCTGCTCA
Found at i:62817607 original size:21 final size:21
Alignment explanation
Indices: 62817581--62817623 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
62817571 TTATAGCTTT
* *
62817581 AATCTGCTCTATTGCAACTTC
1 AATCTGCTCCACTGCAACTTC
62817602 AATCTGCTCCACTGCAACTTC
1 AATCTGCTCCACTGCAACTTC
62817623 A
1 A
62817624 GGGAGATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.33
Consensus pattern (21 bp):
AATCTGCTCCACTGCAACTTC
Found at i:62817656 original size:65 final size:65
Alignment explanation
Indices: 62817540--62817668 Score: 172
Period size: 65 Copynumber: 2.0 Consensus size: 65
62817530 CATCTTTAAC
* * * *
62817540 CTGCTCAACTGCAACTTCAGGGAGATAAGGCTTATAGCTTTAATCTGCTCTATTGCAACTTCAAT
1 CTGCTCAACTGCAACTTCAGGGAGATAAGACTTATAGATTTAATCTACTCTACTGCAACTTCAAT
* *
62817605 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTA-ATTTCAA-CATACTCTACTGCAACTTCA
1 CTGCTCAACTGCAACTTCAGGGAGATAAGACTTATAGATTT-AATC-TACTCTACTGCAACTTCA
62817668 A
64 A
62817669 AGAGATAAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
64 4 0.07
65 52 0.93
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (65 bp):
CTGCTCAACTGCAACTTCAGGGAGATAAGACTTATAGATTTAATCTACTCTACTGCAACTTCAAT
Found at i:62817792 original size:89 final size:89
Alignment explanation
Indices: 62817698--62817903 Score: 211
Period size: 89 Copynumber: 2.3 Consensus size: 89
62817688 GTAATATGCT
* * * *
62817698 CCATTGCAACTTTAGGGAGATAAGATTTGCCAT-TTTCGGTCTGCTCCATTGCAACCTT-AAGGA
1 CCATTGCAACTTCAGGGAGATAAGATTTGCCATCTTT-GATCTACTCCACTGCAA-CTTCAAGGA
**
62817761 GATAAGA-CTTGTAACTTCAACCTGCC
64 GATAAGATC-TACAACTTCAACCTGCC
* * * * ** *
62817787 CCATTGCACCTTCAGGGGGATAAGGTTGGTTATCTTTGATCTACTCCGCTGCAACTTCAAGGAGA
1 CCATTGCAACTTCAGGGAGATAAGATTTGCCATCTTTGATCTACTCCACTGCAACTTCAAGGAGA
* *
62817852 TAAGATCTACAACTTCAATCTGCT
66 TAAGATCTACAACTTCAACCTGCC
* *
62817876 CCACTGCTACTTCAGGGAGATAAGATTT
1 CCATTGCAACTTCAGGGAGATAAGATTT
62817904 ATGGATTCAC
Statistics
Matches: 93, Mismatches: 21, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
88 3 0.03
89 86 0.92
90 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (89 bp):
CCATTGCAACTTCAGGGAGATAAGATTTGCCATCTTTGATCTACTCCACTGCAACTTCAAGGAGA
TAAGATCTACAACTTCAACCTGCC
Found at i:62820543 original size:39 final size:39
Alignment explanation
Indices: 62820499--62820722 Score: 317
Period size: 39 Copynumber: 5.7 Consensus size: 39
62820489 TGTGTGAGAT
62820499 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
62820538 TTATATTC-AGGTTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGA-GCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
62820577 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
62820616 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATA
* * *
62820655 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATG
1 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATA
**
62820694 TTATATCC-AGGCTAAGTTTCGAAGGCATT
1 TTATATCCGA-GCTAAGTCCCGAAGGCATT
62820723 TGGGTTGGAA
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 168 0.99
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (39 bp):
TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:62820632 original size:78 final size:78
Alignment explanation
Indices: 62820499--62820722 Score: 358
Period size: 78 Copynumber: 2.9 Consensus size: 78
62820489 TGTGTGAGAT
* * *
62820499 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATTCAGGTTAAGTCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGC
62820564 ATTCGTGCTGATA
66 ATTCGTGCTGATA
* * *
62820577 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGC
62820642 ATTCGTGCTGATA
66 ATTCGTGCTGATA
* * **
62820655 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGATGTTATATCCAGGCTAAGTTTCGAAGGC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGC
62820720 ATT
66 ATT
62820723 TGGGTTGGAA
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 133 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (78 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGC
ATTCGTGCTGATA
Found at i:62820710 original size:117 final size:117
Alignment explanation
Indices: 62820499--62820722 Score: 358
Period size: 117 Copynumber: 1.9 Consensus size: 117
62820489 TGTGTGAGAT
* * *
62820499 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATTCAGGTTAAGTCCCGAAGGC
1 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCAAAGGC
* *
62820564 ATTCGTGCTGATATTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTA
66 ATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
* *
62820616 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGGCTAAGTCCCAAAGGC
1 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCAAAGGC
* **
62820681 ATTCGTGCTGATGTTATATCCAGGCTAAGTTTCGAAGGCATT
66 ATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGCATT
62820723 TGGGTTGGAA
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 97 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (117 bp):
TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCAGGCTAAGTCCCAAAGGC
ATTCGTGCTGATATTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
Found at i:62829209 original size:19 final size:19
Alignment explanation
Indices: 62829185--62829222 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
62829175 TGATACAAGG
62829185 ATCTTTCTAACTCTGACAC
1 ATCTTTCTAACTCTGACAC
62829204 ATCTTTCTAACTCTGACAC
1 ATCTTTCTAACTCTGACAC
62829223 CCGAGTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
ATCTTTCTAACTCTGACAC
Found at i:62830899 original size:15 final size:15
Alignment explanation
Indices: 62830879--62830912 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
62830869 ACAAGCCGAA
62830879 AATAAA-ATGACAAAT
1 AATAAAGATGA-AAAT
62830894 AATAAAGATGAAAAT
1 AATAAAGATGAAAAT
62830909 AATA
1 AATA
62830913 CAAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (15 bp):
AATAAAGATGAAAAT
Found at i:62830972 original size:22 final size:21
Alignment explanation
Indices: 62830941--62831000 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
62830931 CAAGCTATAT
* * **
62830941 AAAAAGAAAAATAATAGGTAA
1 AAAAATAAAAATAAAAAATAA
62830962 AAAAACTAAAAATAAAAAATAA
1 AAAAA-TAAAAATAAAAAATAA
62830984 AAAAATAAAGAATAAAA
1 AAAAATAAA-AATAAAA
62831001 TAAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAAATAAAAATAAAAAATAA
Found at i:62831020 original size:18 final size:17
Alignment explanation
Indices: 62830970--62831014 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
62830960 AAAAAAACTA
*
62830970 AAAATAAAAAAT-AAA-
1 AAAATAAAGAATAAAAT
62830985 AAAATAAAGAATAAAAT
1 AAAATAAAGAATAAAAT
62831002 AAAATAATAGAAT
1 AAAATAA-AGAAT
62831015 CTAATAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 3 0.12
17 7 0.27
18 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAATAAAGAATAAAAT
Found at i:62831037 original size:4 final size:4
Alignment explanation
Indices: 62831028--62831060 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
62831018 ATAGTATACT
62831028 AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA A
62831061 TATGTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:62831967 original size:48 final size:47
Alignment explanation
Indices: 62831915--62832041 Score: 168
Period size: 46 Copynumber: 2.7 Consensus size: 47
62831905 CAGCCACATT
* *
62831915 ACGAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCGGCATTGAA
1 ACGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAA
* * *
62831963 ACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAG
1 ACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAA
*
62832009 ATGTA-AGCCAGTGTAAGACATGTCTGGGACATG
1 ACG-AGAGCCAGTGTAAGACATGTCTGGGACATG
62832042 TATCGTGGAC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 39 0.56
47 15 0.21
48 16 0.23
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (47 bp):
ACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAA
Found at i:62832053 original size:13 final size:13
Alignment explanation
Indices: 62832035--62832059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62832025 GACATGTCTG
62832035 GGACATGTATCGT
1 GGACATGTATCGT
62832048 GGACATGTATCG
1 GGACATGTATCG
62832060 GCTACAAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (13 bp):
GGACATGTATCGT
Found at i:62832070 original size:59 final size:58
Alignment explanation
Indices: 62831989--62832099 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 58
62831979 GACATGTCTG
* *
62831989 GGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGA-CATGTCTGGGACATGTATCGT
1 GGACATGCATCGGCCTCAAGATGT--GCCAGTGTAAGACCATGTCTAGGACATGTATCGT
* *
62832048 GGACATGTATCGG-CTACAAGATGTGTCAGTGTAAGACCATGTCTAGGACATG
1 GGACATGCATCGGCCT-CAAGATGTGCCAGTGTAAGACCATGTCTAGGACATG
62832100 GAATTGGCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 11 0.24
58 16 0.35
59 19 0.41
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (58 bp):
GGACATGCATCGGCCTCAAGATGTGCCAGTGTAAGACCATGTCTAGGACATGTATCGT
Found at i:62836132 original size:28 final size:28
Alignment explanation
Indices: 62836065--62836144 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
62836055 ATGTACCATA
* * *
62836065 CTCGATACCTTGCACGCTAAGTGCTATT
1 CTCGATACTTTGCACACTAAGTGCTATC
* **
62836093 CTGGATGTTTTGCACACTAAGTG-TCATC
1 CTCGATACTTTGCACACTAAGTGCT-ATC
62836121 CTCGATACTTTGCACACTAAGTGC
1 CTCGATACTTTGCACACTAAGTGC
62836145 CATTTATATA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (28 bp):
CTCGATACTTTGCACACTAAGTGCTATC
Found at i:62846670 original size:46 final size:47
Alignment explanation
Indices: 62846505--62846671 Score: 134
Period size: 47 Copynumber: 3.6 Consensus size: 47
62846495 TGTGTGCTAC
** * * *
62846505 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CATTACGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GGTATCA-AACTAGAGTCAG
* * *
62846551 TGTAAGACCATGCCTGGGACATGGCATCGGTATTGAAACTAGAGTTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTA-TCAAACTAGAGTCAG
* *
62846599 TGTAAGA-CATGTTTGGGACAT-GCATCGGCTA-CAAGA-T-GTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-TATCAA-ACTAGAGTCAG
*
62846643 TGTAAGACCATGTCTAGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
62846672 ACATGGATAT
Statistics
Matches: 98, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.12
45 15 0.15
46 21 0.21
47 29 0.30
48 20 0.20
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTATCAAACTAGAGTCAG
Found at i:62846700 original size:50 final size:46
Alignment explanation
Indices: 62846638--62846767 Score: 143
Period size: 50 Copynumber: 2.7 Consensus size: 46
62846628 TACAAGATGT
*
62846638 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGACATGGATATGTTAAA
1 GTCAGTGTAAGACCATGTCT-GGACATGGCATCGAC-TGGACATG-T-AA
* * * *
62846688 GTCAATGTAAGACCATGTCTGAGACATGGCATTGACTTGACATGTGA
1 GTCAGTGTAAGACCATGTCTG-GACATGGCATCGACTGGACATGTAA
* *
62846735 GCCAGTGTAAAACCATGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCT-GGACATGGCATC
62846768 AGAATTATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
47 28 0.41
48 2 0.03
49 7 0.10
50 32 0.46
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (46 bp):
GTCAGTGTAAGACCATGTCTGGACATGGCATCGACTGGACATGTAA
Found at i:62853723 original size:21 final size:20
Alignment explanation
Indices: 62853679--62853724 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
62853669 TTGGTTAGCC
* * *
62853679 CTACCGATATCTTTAGAGTT
1 CTACCAATATCTTGAGACTT
62853699 CTACCAATATCTTGAGGACTT
1 CTACCAATATCTTGA-GACTT
62853720 CTACC
1 CTACC
62853725 GAAATAAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (20 bp):
CTACCAATATCTTGAGACTT
Found at i:62857188 original size:20 final size:20
Alignment explanation
Indices: 62857163--62857204 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
62857153 TACACCGATC
62857163 ATTCAAACCTGAAGTATGTT
1 ATTCAAACCTGAAGTATGTT
62857183 ATTCAAACCTGAAGTATGTT
1 ATTCAAACCTGAAGTATGTT
62857203 AT
1 AT
62857205 GGAAAAGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
ATTCAAACCTGAAGTATGTT
Found at i:62860180 original size:17 final size:17
Alignment explanation
Indices: 62860158--62860193 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
62860148 GAGGTCCTTA
62860158 TATGGTAATTAGACCAT
1 TATGGTAATTAGACCAT
62860175 TATGGTAATTAGACCAT
1 TATGGTAATTAGACCAT
62860192 TA
1 TA
62860194 AAAATGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (17 bp):
TATGGTAATTAGACCAT
Found at i:62861782 original size:22 final size:23
Alignment explanation
Indices: 62861729--62861784 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
62861719 ATGCTTGAAG
* * *
62861729 TACATGAAAATGATGATATATGA
1 TACATGGAAATTATGATATACGA
*
62861752 TATAT-GAAATTATGATATACGA
1 TACATGGAAATTATGATATACGA
62861774 -ACATGGAAATT
1 TACATGGAAATT
62861785 TGTTTGATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 3 0.11
22 20 0.74
23 4 0.15
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (23 bp):
TACATGGAAATTATGATATACGA
Found at i:62865177 original size:46 final size:46
Alignment explanation
Indices: 62864908--62865181 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
62864898 TTTGACATGA
* * * * *
62864908 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
62864954 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *** *
62865000 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
62865046 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
62865092 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
62865138 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
62865182 AGAGCACACT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 207 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:62866576 original size:175 final size:175
Alignment explanation
Indices: 62866285--62866989 Score: 1338
Period size: 175 Copynumber: 4.0 Consensus size: 175
62866275 ATATTCAAGT
62866285 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
1 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
62866350 CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
66 CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
62866415 TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
131 TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
62866460 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
1 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
62866525 CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
66 CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
62866590 TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
131 TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
62866635 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
1 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
*
62866700 CGCTAATTTTCCCTGAAACTAAACTCATATATATTCTTACCATAAAATTTTCAGAATTTTTGGTT
66 CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
*
62866765 TAGCCAATAAGTATAGTTTATTCTTTAAATTTACCCCTGTTCTGC
131 TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
* *
62866810 TATCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGATATAGAACTCAAAATTAAGATC
1 TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
* * *
62866875 TGCTAATTTTTCCTGAAATTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
66 CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
*
62866940 TAGCCAATAAGTACAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
131 TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
62866985 TGTCT
1 TGTCT
62866990 GACAATTCTA
Statistics
Matches: 519, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 519 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (175 bp):
TGTCTATCTTCATCATAGTCACTAAATTATTTATATCTGGAGCTATAGAACTCAAAATTAAGATC
CGCTAATTTTCCCTGAAACTAAACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTT
TAGCCAATAAGTATAGTTTATTCTTTAAAGTTACCCCTGTTCTGC
Found at i:62869577 original size:96 final size:97
Alignment explanation
Indices: 62869429--62869731 Score: 379
Period size: 96 Copynumber: 3.2 Consensus size: 97
62869419 CATTTTCCAA
* * * *
62869429 ACATGGTCTTACACTAGCTCACAT-GTCGA-GGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 ACATGGTCTTACACTAGCTCTCCTAATC-ATGGTCGATGCCATGTCCCAGACATGGTCTTACACT
* *
62869492 AGCTCTTATCTCAATGCCGATGCCATGTCTCAG
65 AGCTCTCATATCAATGCCGATGCCATGTCTCAG
*
62869525 ACATGGTCTTACACTAGCTCTCCTAATC-TGGTCGATGCCATGTCCCAGACATGGTTTTACACTA
1 ACATGGTCTTACACTAGCTCTCCTAATCATGGTCGATGCCATGTCCCAGACATGGTCTTACACTA
* * * *
62869589 GCGCACGTATCAATACCGATGCCATGTCAT-AG
66 GCTCTCATATCAATGCCGATGCCATGTC-TCAG
*
62869621 ACATGGTCTTACACTAGCAT-TCAC-AA-CATCGTCGATGCCATGTCCCAGACATGGTCTTACAC
1 ACATGGTCTTACACTAGC-TCTC-CTAATCATGGTCGATGCCATGTCCCAGACATGGTCTTACAC
* *
62869683 TAGCTCTCATATC-GTGGCTGATGCCATGTCTCAG
64 TAGCTCTCATATCAAT-GCCGATGCCATGTCTCAG
62869717 ACATGGTCTTACACT
1 ACATGGTCTTACACT
62869732 GGAACACATA
Statistics
Matches: 180, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
95 3 0.02
96 172 0.96
97 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
ACATGGTCTTACACTAGCTCTCCTAATCATGGTCGATGCCATGTCCCAGACATGGTCTTACACTA
GCTCTCATATCAATGCCGATGCCATGTCTCAG
Found at i:62869671 original size:144 final size:144
Alignment explanation
Indices: 62869429--62869731 Score: 391
Period size: 144 Copynumber: 2.1 Consensus size: 144
62869419 CATTTTCCAA
* * * * ** *
62869429 ACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTAGCGCACGTATCAATACCGATGCCATGTCACAGACATGGTCTTACACTAG
* * * *
62869494 CTCTTATCTCAATGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCCTAATC-TGG-T
66 CTCTCATCACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCGTGGCT
62869557 CGATGCCATGTCCCAG
130 -GATGCCATGTCCCAG
* *
62869573 ACATGGTTTTACACTAGCGCACGTATCAATACCGATGCCATGTCATAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTAGCGCACGTATCAATACCGATGCCATGTCACAGACATGGTCTTACACTAG
*
62869638 CAT-TCA-CA-ACATCGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGG
66 C-TCTCATCACA-AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGG
*
62869700 CTGATGCCATGTCTCAG
128 CTGATGCCATGTCCCAG
62869717 ACATGGTCTTACACT
1 ACATGGTCTTACACT
62869732 GGAACACATA
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
142 1 0.01
143 6 0.04
144 129 0.93
145 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
ACATGGTCTTACACTAGCGCACGTATCAATACCGATGCCATGTCACAGACATGGTCTTACACTAG
CTCTCATCACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTGGCTG
ATGCCATGTCCCAG
Done.