Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 119 of 163
Found at i:32966191 original size:24 final size:23
Alignment explanation
Indices: 32966164--32966219 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
32966154 AACTTTATTT
32966164 ATATATTCTTT-AGAATTTTTAAAA
1 ATATATT-TTTCA-AATTTTTAAAA
*
32966188 ATATATAATTTTCAAATTTTTATAA
1 ATATAT--TTTTCAAATTTTTAAAA
32966213 ATATATT
1 ATATATT
32966220 AAATTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.04
24 6 0.21
25 19 0.68
26 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATATTTTTCAAATTTTTAAAA
Found at i:32966223 original size:19 final size:18
Alignment explanation
Indices: 32966195--32966282 Score: 81
Period size: 19 Copynumber: 4.8 Consensus size: 18
32966185 AAAATATATA
32966195 ATTTTCAAATTTTTATAAAT
1 ATTTT-AAATTTTT-TAAAT
* *
32966215 ATATTAAA-TTTTTGAAT
1 ATTTTAAATTTTTTAAAT
* *
32966232 TTTTATAAATATTTTAAAT
1 ATTT-TAAATTTTTTAAAT
*
32966251 -TTTTGAATTTTTATAAAT
1 ATTTTAAATTTTT-TAAAT
32966269 ATTTTAAATTTTTT
1 ATTTTAAATTTTTT
32966283 GTAAGTTTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 13 0.24
18 17 0.31
19 21 0.38
20 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTAAATTTTTTAAAT
Found at i:32966224 original size:27 final size:27
Alignment explanation
Indices: 32966176--32966281 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
32966166 ATATTCTTTA
* *
32966176 GAATTTTTAAAAATATA-T-AATTTTC
1 GAATTTTTATAAATATATTAAATTTTT
*
32966201 AAATTTTTATAAATATATTAAATTTTT
1 GAATTTTTATAAATATATTAAATTTTT
*
32966228 GAATTTTTATAAATATTTTAAATTTTT
1 GAATTTTTATAAATATATTAAATTTTT
*
32966255 GAATTTTTATAAATATTTTAAATTTTT
1 GAATTTTTATAAATATATTAAATTTTT
32966282 TGTAAGTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 15 0.20
26 1 0.01
27 58 0.78
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (27 bp):
GAATTTTTATAAATATATTAAATTTTT
Found at i:32966235 original size:9 final size:9
Alignment explanation
Indices: 32966196--32966282 Score: 70
Period size: 9 Copynumber: 9.6 Consensus size: 9
32966186 AAATATATAA
*
32966196 TTTTCAAAT
1 TTTTTAAAT
32966205 TTTTATAAAT
1 TTTT-TAAAT
* *
32966215 ATATTAAA-
1 TTTTTAAAT
*
32966223 TTTTTGAAT
1 TTTTTAAAT
32966232 TTTTATAAAT
1 TTTT-TAAAT
*
32966242 ATTTTAAA-
1 TTTTTAAAT
*
32966250 TTTTTGAAT
1 TTTTTAAAT
32966259 TTTTATAAAT
1 TTTT-TAAAT
*
32966269 ATTTTAAAT
1 TTTTTAAAT
32966278 TTTTT
1 TTTTT
32966283 GTAAGTTTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
8 11 0.18
9 29 0.48
10 20 0.33
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:32968795 original size:17 final size:17
Alignment explanation
Indices: 32968773--32968867 Score: 77
Period size: 17 Copynumber: 5.5 Consensus size: 17
32968763 CAAACCCATT
*
32968773 TTAAATTTATCTTAAGA
1 TTAAATTTATTTTAAGA
* *
32968790 TTAAATTTGTTTTAAAGT
1 TTAAATTTATTTT-AAGA
32968808 TTAAATTTATTTTAA-A
1 TTAAATTTATTTTAAGA
**
32968824 TTTATTTTTATTTTTAA-A
1 -TTAAATTTA-TTTTAAGA
* *
32968842 TTTAAATTTAATTTAAGT
1 -TTAAATTTATTTTAAGA
32968860 TTAAATTT
1 TTAAATTT
32968868 GCTTTCAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
17 33 0.52
18 30 0.48
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (17 bp):
TTAAATTTATTTTAAGA
Found at i:32968822 original size:29 final size:29
Alignment explanation
Indices: 32968790--32968845 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32968780 TATCTTAAGA
*
32968790 TTAAATTTGTTTTAAAGTTTAAATTTATT
1 TTAAATTTATTTTAAAGTTTAAATTTATT
* **
32968819 TTAAATTTATTTTTATTTTTAAATTTA
1 TTAAATTTATTTTAAAGTTTAAATTTA
32968846 AATTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (29 bp):
TTAAATTTATTTTAAAGTTTAAATTTATT
Found at i:32968827 original size:6 final size:6
Alignment explanation
Indices: 32968800--32968867 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
32968790 TTAAATTTGT
* ** **
32968800 TTTAAA GTTTAAA TTT-AT TTTAAA TTTATT TTTATT TTTAAA TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
32968848 TTT-AA TTTAAG TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTT
32968868 GCTTTCAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
5 9 0.18
6 36 0.71
7 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (6 bp):
TTTAAA
Found at i:32968856 original size:11 final size:11
Alignment explanation
Indices: 32968807--32968863 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
32968797 TGTTTTAAAG
*
32968807 TTTAAATTTAT
1 TTTAAATTTAA
*
32968818 TTTAAATTTATT
1 TTTAAATTTA-A
**
32968830 TTTATTTTTAAA
1 TTTAAATTT-AA
32968842 TTTAAATTTAA
1 TTTAAATTTAA
*
32968853 TTTAAGTTTAA
1 TTTAAATTTAA
32968864 ATTTGCTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
11 22 0.58
12 15 0.39
13 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:32968862 original size:29 final size:29
Alignment explanation
Indices: 32968807--32968862 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
32968797 TGTTTTAAAG
* **
32968807 TTTAAATTTATTTTAAATTTATTTTTATT
1 TTTAAATTTAATTTAAATTTAAGTTTATT
32968836 TTTAAATTTAAATTT-AATTTAAGTTTA
1 TTTAAATTT-AATTTAAATTTAAGTTTA
32968863 AATTTGCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTAAATTTAATTTAAATTTAAGTTTATT
Found at i:32968898 original size:35 final size:33
Alignment explanation
Indices: 32968772--32968900 Score: 125
Period size: 35 Copynumber: 3.7 Consensus size: 33
32968762 CCAAACCCAT
32968772 TTTAAATTTATCTTAAGA-TTAAATTTGTTTTAAA
1 TTTAAATTTAT-TTAA-ATTTAAATTTGTTTTAAA
** *
32968806 GTTTAAATTTATTTTAAATTTATTTTTATTTTTAAA
1 -TTTAAATTTA-TTTAAATTTAAATTT-GTTTTAAA
* *
32968842 TTTAAATTTAATTTAAGTTTAAATTTGCTTTCAAA
1 TTTAAATTT-ATTTAAATTTAAATTTG-TTTTAAA
*
32968877 TTTAAAATTATTATAAATTTAAAT
1 TTTAAATTTATT-TAAATTTAAAT
32968901 GTCCAATTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
34 4 0.05
35 65 0.83
36 9 0.12
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (33 bp):
TTTAAATTTATTTAAATTTAAATTTGTTTTAAA
Found at i:32969641 original size:25 final size:26
Alignment explanation
Indices: 32969600--32969656 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
32969590 TAAGTTTAAT
32969600 ATAATATTTAATAATATCATTAATTA
1 ATAATATTTAATAATATCATTAATTA
* *
32969626 ATAAT-TTTAATGATATTATTAATTA
1 ATAATATTTAATAATATCATTAATTA
32969651 ATAATA
1 ATAATA
32969657 AATAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
ATAATATTTAATAATATCATTAATTA
Found at i:32970694 original size:162 final size:163
Alignment explanation
Indices: 32970494--32970797 Score: 488
Period size: 162 Copynumber: 1.9 Consensus size: 163
32970484 GACTAGGCTA
*
32970494 CCACGTGTCACTTTTTTGGTTTATTTCTGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTT
1 CCACGTGTCACTTTTTTGGTTTATTTATGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTT
* * *
32970559 AATCCTTAAATTAACTT-TTATTTAATTACAAAATTGACCCAAGAATTTTTCAAGATTTATAAA-
66 AATCCTCAAATCAACTTCTT-CTTAATTACAAAATTGACCCAAGAATTTTTCAAGATTTATAAAT
32970622 TCAATCCTTTGACTGTTTGACTGCACCAGAGGCCT
130 TC-ATCCTTTGACTGTTTGACTGCACCAGAGGCCT
*
32970657 CCACGTGTCAC-TTTTTGGTTTATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTT
1 CCACGTGTCACTTTTTTGGTTTATTTATGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTT
* * *
32970721 AATCCTCAAATCAACTTCTTCTTAATTACAAAATTGGCCCGAGAATTTTTTAAGATTTATAAATT
66 AATCCTCAAATCAACTTCTTCTTAATTACAAAATTGACCCAAGAATTTTTCAAGATTTATAAATT
*
32970786 CGTCCTTTGACT
131 CATCCTTTGACT
32970798 ATTGGATGCC
Statistics
Matches: 130, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
162 115 0.88
163 15 0.12
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (163 bp):
CCACGTGTCACTTTTTTGGTTTATTTATGTATCTAGTCCCTATCATTTTTAATTTGTTTTAATTT
AATCCTCAAATCAACTTCTTCTTAATTACAAAATTGACCCAAGAATTTTTCAAGATTTATAAATT
CATCCTTTGACTGTTTGACTGCACCAGAGGCCT
Found at i:32970932 original size:29 final size:29
Alignment explanation
Indices: 32970872--32970936 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
32970862 AACAGTCCAG
* * *
32970872 AAATTGCATTTTGACCCTAAAATTTTAGA
1 AAATTACATTTTGACCCGAAAATTCTAGA
*
32970901 AAATTACATTTTGACCCCGAAACTTCTA-A
1 AAATTACATTTTGA-CCCGAAAATTCTAGA
32970930 AAATTAC
1 AAATTAC
32970937 CGTTTTATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (29 bp):
AAATTACATTTTGACCCGAAAATTCTAGA
Found at i:32971048 original size:29 final size:30
Alignment explanation
Indices: 32970958--32971170 Score: 105
Period size: 29 Copynumber: 7.2 Consensus size: 30
32970948 TGAGCTTTTC
*
32970958 AAAATTCCATTTTTAAACCTCGATTTCACCA
1 AAAATTCCATTTTT-AACCCCGATTTCACCA
* **
32970989 AAAATTACCA-TTTT-ACCATCGAACT-ATCC-
1 AAAATT-CCATTTTTAACC-CCGATTTCA-CCA
*
32971018 AAAATTCCATTTTTAACCCCGGTTTCACCA
1 AAAATTCCATTTTTAACCCCGATTTCACCA
32971048 AAAATTACCA-TTTT-ACCCCTGAACTTT--CC-
1 AAAATT-CCATTTTTAACCCC-G-A-TTTCACCA
* * *
32971077 AAAATTCAATTTTAAACCCCGATTTCACCG
1 AAAATTCCATTTTTAACCCCGATTTCACCA
* **
32971107 AAAATTACC-GTTTT-ACCCTTAAACTTT--CC-
1 AAAATT-CCATTTTTAACCC--CGA-TTTCACCA
*
32971136 AAAATCCCA-TTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTTAACCCCGATTTCACCA
32971165 AAAATT
1 AAAATT
32971171 ACCGTTTTAT
Statistics
Matches: 139, Mismatches: 18, Indels: 52
0.67 0.09 0.25
Matches are distributed among these distances:
26 3 0.02
27 4 0.03
28 14 0.10
29 54 0.39
30 40 0.29
31 15 0.11
32 9 0.06
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:32971121 original size:118 final size:117
Alignment explanation
Indices: 32970928--32971300 Score: 487
Period size: 117 Copynumber: 3.2 Consensus size: 117
32970918 CGAAACTTCT
* * * * * *
32970928 AAAAATTACCGTTTTATCCCTGAGCTTTTCAAAATTCCATTTTTAAACCTCGATTTCACCAAAAA
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATT-CAATTTTAAACCCCGATTTCACCGAAAA
* *
32970993 TTACCATTTTACCATCGAACTATCCAAAATTCCATTTTTAACCCCGGTTTCACC
65 TTACCGTTTTACC-TCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCACC
*
32971047 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCGATTTCACCGAAAAT
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCGATTTCACCGAAAAT
** * *
32971112 TACCGTTTTACCCTTAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACC
66 TACCGTTTTA-CCTCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCACC
* * ** * * * *
32971164 AAAAATTACCGTTTTATCCTTGAACTTTCCAAAATTTTATTTTTAACACCGATTTTACCGAAGAT
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCGATTTCACCGAAAAT
* *
32971229 TACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACC
66 TACCGTTTTACCTC-GAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCACC
*
32971282 GAAAATTACCGTTTTACCC
1 AAAAATTACCGTTTTACCC
32971301 TAAAACCTTC
Statistics
Matches: 221, Mismatches: 30, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
116 2 0.01
117 100 0.45
118 85 0.38
119 34 0.15
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (117 bp):
AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCGATTTCACCGAAAAT
TACCGTTTTACCTCGAACTTTCCAAAATTCCATTTTTAACCCCGGTTTCACC
Found at i:32971196 original size:30 final size:30
Alignment explanation
Indices: 32971107--32971197 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 30
32971097 GATTTCACCG
* *
32971107 AAAATTACCGTTTTACCCTTAAACTTTCC-
1 AAAATTACCGTTTTAACCTTGAACTTTCCA
* * **
32971136 AAAA-TCCCATTTTAACCCCG-A-TTTCACCA
1 AAAATTACCGTTTTAACCTTGAACTTT--CCA
*
32971165 AAAATTACCGTTTTATCCTTGAACTTTCCA
1 AAAATTACCGTTTTAACCTTGAACTTTCCA
32971195 AAA
1 AAA
32971198 TTTTATTTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 11
0.67 0.16 0.16
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 12 0.27
29 8 0.18
30 17 0.38
31 1 0.02
32 3 0.07
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATTACCGTTTTAACCTTGAACTTTCCA
Found at i:32971197 original size:29 final size:29
Alignment explanation
Indices: 32971107--32971199 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
32971097 GATTTCACCG
* *
32971107 AAAATTACCGTTTTACCCTTAAACTTTCC
1 AAAATTACCGTTTTAACCTTGAACTTTCC
* * **
32971136 AAAA-TCCCATTTTAACCCCG-A-TTTCACC
1 AAAATTACCGTTTTAACCTTGAACTTT--CC
*
32971164 AAAAATTACCGTTTTATCCTTGAACTTTCC
1 -AAAATTACCGTTTTAACCTTGAACTTTCC
32971194 AAAATT
1 AAAATT
32971200 TTATTTTTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
26 3 0.06
27 1 0.02
28 12 0.26
29 14 0.30
30 13 0.28
31 1 0.02
32 3 0.06
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACCGTTTTAACCTTGAACTTTCC
Found at i:32971210 original size:176 final size:178
Alignment explanation
Indices: 32970929--32971327 Score: 538
Period size: 176 Copynumber: 2.3 Consensus size: 178
32970919 GAAACTTCTA
* * * * *
32970929 AAAATTACCGTTTTATCCC-TGAGCTTTTCAAAATTCCATTTTTAAACCTCGATTTCACCAAAAA
1 AAAATTACCGTTTTA-CCCTTAAACTTTCCAAAATCCCATTTTTAAACCCCGATTTCACCAAAAA
* *
32970993 TTACCATTTTACCATCGAACTATCCAAAATTCCATTTTTAACCCCGGTTTCACCAAAAATTACCA
65 TTACCATTTTACCATCGAACTATCCAAAATTCCATTTTTAACACCGATTTCACCAAAAATTACCA
32971058 TTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCC-GATTTCACCG
130 TTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCAG-TTTCACCG
32971107 AAAATTACCGTTTTACCCTTAAACTTTCCAAAATCCCA-TTTT-AACCCCGATTTCACCAAAAAT
1 AAAATTACCGTTTTACCCTTAAACTTTCCAAAATCCCATTTTTAAACCCCGATTTCACCAAAAAT
* * * ** * * * *
32971170 TACCGTTTTATCC-TTGAACTTTCCAAAATTTTATTTTTAACACCGATTTTACCGAAGATTACCG
66 TACCATTTTA-CCATCGAACTATCCAAAATTCCATTTTTAACACCGATTTCACCAAAAATTACCA
* *
32971234 TTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCAGTTTCACCG
130 TTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCAGTTTCACCG
* * **
32971283 AAAATTACCGTTTTACCCTAAAACCTTCCAAAATCTAATTTTTAA
1 AAAATTACCGTTTTACCCTTAAACTTTCCAAAATCCCATTTTTAA
32971328 CCTCGAATTT
Statistics
Matches: 194, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
176 149 0.77
177 14 0.07
178 31 0.16
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (178 bp):
AAAATTACCGTTTTACCCTTAAACTTTCCAAAATCCCATTTTTAAACCCCGATTTCACCAAAAAT
TACCATTTTACCATCGAACTATCCAAAATTCCATTTTTAACACCGATTTCACCAAAAATTACCAT
TTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCAGTTTCACCG
Found at i:32971300 original size:59 final size:59
Alignment explanation
Indices: 32970928--32971300 Score: 482
Period size: 59 Copynumber: 6.3 Consensus size: 59
32970918 CGAAACTTCT
* * * *
32970928 AAAAATTACCGTTTTATCCCTGAGCTTTTCAAAATTCCATTTTTAAACCTCGATTTCACC
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCACC
* * * *
32970988 AAAAATTACCATTTTA-CCATCGAACTATCCAAAATTCCATTTTTAACCCCGGTTTCACC
1 AAAAATTACCGTTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
32971047 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCAATTTTAAACCCCGATTTCACC
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
32971106 GAAAATTACCGTTTTACCCTTAAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACC
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * ** * *
32971164 AAAAATTACCGTTTTATCCTTGAACTTTCCAAAATTTTATTTTTAACACCGATTTTACC
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
32971223 GAAGATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCC-AGTTTCACC
1 AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
*
32971282 GAAAATTACCGTTTTACCC
1 AAAAATTACCGTTTTACCC
32971301 TAAAACCTTC
Statistics
Matches: 273, Mismatches: 36, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
58 52 0.19
59 183 0.67
60 38 0.14
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (59 bp):
AAAAATTACCGTTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:32990657 original size:76 final size:76
Alignment explanation
Indices: 32990561--32991570 Score: 1203
Period size: 76 Copynumber: 13.0 Consensus size: 76
32990551 CCGCACCAAC
* * *
32990561 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGGAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
32990626 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
32990637 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
32990702 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
32990713 ATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
32990778 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
32990789 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
32990854 GTAAGAGCAAG
66 GTAAGAGCAAG
*
32990865 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCTCTCTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTA--TCTCTGAAATTG
32990930 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
** *** * *** *** * * * ***
32990943 AAGGAGCACC-AGCAC-CGTTTCCTATCCTCTTG-A-AATT-GAAATAAAGATGGATATCAAGTC
1 -ATCATTTCCTATC-CTC--TTGAAAT--TGAAGTAGAGTTGGATATCAAG-TCTTTATC---TC
*
32991003 TTGATCTCTGAAATCGAAGTAAGAGCAAG
56 -TGA------AA-TTGAAGTAAGAGCAAG
* *
32991032 GTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGTATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
32991097 GTAAGAGCAACG
66 GTAAGAGCAA-G
*
32991109 -TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCACA-TCTTTATCTCTGAAATTGA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTCTGAAATTGA
32991172 AGTAAGAGCAAG
65 AGTAAGAGCAAG
* *
32991184 ATCATTTTCCTATCTTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTATCTCTGAAATTG
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTCTGAAATTG
*
32991248 AACTAAGAGCAAG
64 AAGTAAGAGCAAG
* *
32991261 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
32991326 CTAAGAGCAAG
66 GTAAGAGCAAG
* *
32991337 ATCATTTTCCTATCTTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTATCTCTGAAATTG
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTCTGAAATTG
32991401 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
* * *
32991414 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTAAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
32991479 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
32991490 ATCATTGTCCTATCTTCTTGAAATTGAAGT-GAAGTTGGATAGCAAGTTTTTATCTCTCTGAAAC
1 ATCATT-TCCTATCCTCTTGAAATTGAAGTAG-AGTTGGATATCAAGTCTTTA--TCTCTGAAAT
*
32991554 TGAAGTAAGAGCTAG
62 TGAAGTAAGAGCAAG
32991569 AT
1 AT
32991571 AAAGCATCAA
Statistics
Matches: 810, Mismatches: 87, Indels: 71
0.84 0.09 0.07
Matches are distributed among these distances:
75 3 0.00
76 489 0.60
77 184 0.23
78 31 0.04
79 36 0.04
80 9 0.01
81 3 0.00
82 5 0.01
83 3 0.00
84 2 0.00
85 2 0.00
86 1 0.00
87 12 0.01
88 12 0.01
89 18 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:32991314 original size:153 final size:152
Alignment explanation
Indices: 32990561--32991570 Score: 1427
Period size: 153 Copynumber: 6.5 Consensus size: 152
32990551 CCGCACCAAC
* *
32990561 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGGAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
32990626 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
32990691 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* * * * *
32990713 ATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * * * * *
32990778 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
32990843 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* *
32990865 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCTCTCTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGAAATTG
* * *
32990930 AAGTAAGAGCAAGAAGGAGCACCAGCACCGTTTCCTATCCTCTTGAAATTGAAATAAAGATGGAT
64 AAGTAAGAGC----A--AG----ATCA---TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
* *
32990995 ATCAAGTCTTGATCTCTGAAATCGAAGTAAGAGCAAG
116 ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
* * *
32991032 GTCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGTATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * *
32991097 GTAAGAGCAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCACA-TCTTTAT
66 GTAAGAGCAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA-AGTCTTTAT
32991160 CTCTGAAATTGAAGTAAGAGCAAG
129 CTCTGAAATTGAAGTAAGAGCAAG
*
32991184 ATCATTTTCCTATCTTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTATCTCTGAAATTG
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-AGTCTTTATCTCTGAAATTG
*
32991248 AACTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTAT
64 AAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTAT
*
32991313 CTCTGAAATTGAACTAAGAGCAAG
129 CTCTGAAATTGAAGTAAGAGCAAG
*
32991337 ATCATTTTCCTATCTTCTTGAAATTGAAGTAGAGTTGGATAACACA-TCTTTATCTCTGAAATTG
1 ATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-AGTCTTTATCTCTGAAATTG
32991401 AAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTAT
64 AAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTAT
*
32991466 CTCTAAAATTGAAGTAAGAGCAAG
129 CTCTGAAATTGAAGTAAGAGCAAG
* * * *
32991490 ATCATTGTCCTATCTTCTTGAAATTGAAGT-GAAGTTGGATAGCAAGTTTTTATCTCTCTGAAAC
1 ATCATT-TCCTATCCTCTTGAAATTGAAGTAG-AGTTGGATAACAAGTCTTTA--TCTCTGAAAT
*
32991554 TGAAGTAAGAGCTAGAT
62 TGAAGTAAGAGCAAGAT
32991571 AAAGCATCAA
Statistics
Matches: 779, Mismatches: 53, Indels: 49
0.88 0.06 0.06
Matches are distributed among these distances:
152 259 0.33
153 328 0.42
154 23 0.03
155 27 0.03
158 1 0.00
159 1 0.00
160 3 0.00
161 1 0.00
164 2 0.00
165 22 0.03
167 112 0.14
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (152 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAG
Found at i:32991654 original size:92 final size:93
Alignment explanation
Indices: 32991490--32991667 Score: 243
Period size: 92 Copynumber: 1.9 Consensus size: 93
32991480 TAAGAGCAAG
* * *
32991490 ATCATTGTCCTATCTTCTTGAAATTGAAGTGAAGTTGGATAGCAAGTTTTTATCTCTCTGAAACT
1 ATCATTGTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAACT
*
32991555 GAAGTAAGAGCTAGATAAAGCATCAAAC
66 GAAGTAAGAGCAAGATAAAGCATCAAAC
* * **
32991583 ATCATT-TCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCGAA-TCTTTATCTCTCTGAAGT
1 ATCATTGTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGC-AAGTCTTTATCTCTCTGAAAC
* *
32991646 TGCAGTAAGAGCAAGATGAAGC
65 TGAAGTAAGAGCAAGATAAAGC
32991668 TTCGACACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
92 66 0.89
93 8 0.11
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (93 bp):
ATCATTGTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAACT
GAAGTAAGAGCAAGATAAAGCATCAAAC
Found at i:32992147 original size:17 final size:17
Alignment explanation
Indices: 32992125--32992202 Score: 77
Period size: 17 Copynumber: 4.5 Consensus size: 17
32992115 CAAACCCATT
*
32992125 TTAAATTTATCTTAAGA
1 TTAAATTTATTTTAAGA
* *
32992142 TTAAATTTGTTTTAATGT
1 TTAAATTTATTTTAA-GA
32992160 TTAAATTTATTTTTAA-A
1 TTAAATTTA-TTTTAAGA
* *
32992177 TTTAAATTTAATTTAAGT
1 -TTAAATTTATTTTAAGA
32992195 TTAAATTT
1 TTAAATTT
32992203 GCTTTCAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
17 26 0.52
18 18 0.36
19 6 0.12
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAGA
Found at i:32992163 original size:35 final size:35
Alignment explanation
Indices: 32992124--32992202 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
32992114 CCAAACCCAT
**
32992124 TTTAAATTTA-TCTTAAGA-TTAAATTTGTTTTAATG
1 TTTAAATTTATTCTTAA-ATTTAAATTTAATTTAA-G
*
32992159 TTTAAATTTATTTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTCTTAAATTTAAATTTAATTTAAG
32992194 TTTAAATTT
1 TTTAAATTT
32992203 GCTTTCAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 21 0.54
36 18 0.46
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (35 bp):
TTTAAATTTATTCTTAAATTTAAATTTAATTTAAG
Found at i:32992180 original size:6 final size:6
Alignment explanation
Indices: 32992159--32992202 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
32992149 TGTTTTAATG
** *
32992159 TTTAAA TTTATT TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
32992203 GCTTTCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (6 bp):
TTTAAA
Found at i:32992193 original size:53 final size:52
Alignment explanation
Indices: 32992124--32992235 Score: 138
Period size: 53 Copynumber: 2.1 Consensus size: 52
32992114 CCAAACCCAT
* * * *
32992124 TTTAAATTTATCTTAAGATTAAATTTG-TTTTAATGTTTAAATTTATTTTTAAA
1 TTTAAATTTATCTTAAGATTAAATTTGCTTTCAA-ATTTAAAATTA-TTATAAA
*
32992177 TTTAAATTTAAT-TTAAGTTTAAATTTGCTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTT-ATCTTAAGATTAAATTTGCTTTCAAATTTAAAATTATTATAAA
32992229 TTTAAAT
1 TTTAAAT
32992236 GTCCAATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 13 0.25
53 32 0.62
54 7 0.13
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (52 bp):
TTTAAATTTATCTTAAGATTAAATTTGCTTTCAAATTTAAAATTATTATAAA
Found at i:32992213 original size:35 final size:34
Alignment explanation
Indices: 32992142--32992235 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 34
32992132 TATCTTAAGA
* * *
32992142 TTAAATTTGTTTTAATGTTTAAATTTATTTTTAAAT
1 TTAAATTT-ATTTAA-GTTTAAATTTACTTTCAAAT
*
32992178 TTAAATTTAATTTAAGTTTAAATTTGCTTTCAAAT
1 TTAAATTT-ATTTAAGTTTAAATTTACTTTCAAAT
* *
32992213 TTAAAATTATTATAAATTTAAAT
1 TTAAATTTATT-TAAGTTTAAAT
32992236 GTCCAATTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.06
35 34 0.68
36 13 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTATTTAAGTTTAAATTTACTTTCAAAT
Found at i:32992977 original size:25 final size:26
Alignment explanation
Indices: 32992935--32992992 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
32992925 ATAAGTTTAA
32992935 AATAATATTTAATAATATCATTAATT
1 AATAATATTTAATAATATCATTAATT
* *
32992961 AATAAT-TTTAATGATATTATTAATT
1 AATAATATTTAATAATATCATTAATT
32992986 AATAATA
1 AATAATA
32992993 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
AATAATATTTAATAATATCATTAATT
Found at i:32994143 original size:162 final size:163
Alignment explanation
Indices: 32993809--32994130 Score: 524
Period size: 162 Copynumber: 2.0 Consensus size: 163
32993799 TTCAATTTAA
*
32993809 TCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTTGGTTTATTTCTGTATCT
1 TCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTTGGTTTATTTATGTATCT
* *
32993874 AATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAAAT
66 AATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTTAATTACAAAAT
*
32993939 TGACCCAAGAATTTTTCAAGATTTATAAATCAG
131 TGACCCAAGAATTTTTCAAGATTTACAAATCAG
*
32993972 TCCTTTGACTGTTTGACTGCACCAGAGGCCT-CCACGTGTCAC-TTTTTGGTTTATTTATGTATC
1 TCCTTTGACTGTTTGACTACACCAGAGG-CTGCCACGTGTCACTTTTTTGGTTTATTTATGTATC
*
32994035 TAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTCTT-CTTAATTACAAA
65 TAATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTT-TTACTTAATTACAAA
* * *
32994099 ATTGGCTCGAGAATTTTTCAAGATTTACAAAT
129 ATTGACCCAAGAATTTTTCAAGATTTACAAAT
32994131 TCGTTTTTTG
Statistics
Matches: 148, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
162 106 0.72
163 40 0.27
164 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (163 bp):
TCCTTTGACTGTTTGACTACACCAGAGGCTGCCACGTGTCACTTTTTTGGTTTATTTATGTATCT
AATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTACTTAATTACAAAAT
TGACCCAAGAATTTTTCAAGATTTACAAATCAG
Found at i:32994236 original size:29 final size:29
Alignment explanation
Indices: 32994203--32994288 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 29
32994193 GTTTATAGGT
*
32994203 CCCCAAATAGTCTAG-AAATTGCATTTTGA
1 CCCCAAA-AGTCTAGAAAATTACATTTTGA
* *
32994232 CCCCAAAATTTTAGAAAATTACATTTTGA
1 CCCCAAAAGTCTAGAAAATTACATTTTGA
* **
32994261 CCTCGAAACTTCTA-AAAATTACCATTTT
1 CC-CCAAAAGTCTAGAAAATTA-CATTTT
32994289 ATCCCTAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
28 5 0.10
29 29 0.60
30 14 0.29
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (29 bp):
CCCCAAAAGTCTAGAAAATTACATTTTGA
Found at i:32994409 original size:59 final size:59
Alignment explanation
Indices: 32994272--32994672 Score: 454
Period size: 59 Copynumber: 6.8 Consensus size: 59
32994262 CTCGAAACTT
* * *
32994272 CTAAAAATTACCATTTTATCCCTAAACTTTCCAAAATTCCATTTTTAAACCTCGATTTCA
1 CTAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCA
* * * **
32994332 CTAAAAATTACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAATCTTGATTTCA
1 CTAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
32994391 CTAAAAATTACCATTTTA-CCCTCGAACTTTCTAAAATTCCATTTTTAACCCC-AGTTTCA
1 CTAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCA
* * * *
32994450 -TCAAAAATTACCGTTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCA
1 CT-AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* ** * *
32994509 -TCAAAAATTACCGTTTTATTCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTTA
1 CT-AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
32994568 CCAAAGATTAACATTTTACCCCTAAATTTTCCAAAATTCCATTTTTAACCCTGATTTCA
1 CTAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
32994627 CCAAAAATTACCATTTTA-CCCTCAAACCTTCCAAAA-TCTCATTTTT
1 CTAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTC-CATTTTT
32994673 CACCTCAAAT
Statistics
Matches: 296, Mismatches: 37, Indels: 17
0.85 0.11 0.05
Matches are distributed among these distances:
58 11 0.04
59 238 0.80
60 47 0.16
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (59 bp):
CTAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:32994585 original size:177 final size:176
Alignment explanation
Indices: 32994274--32994678 Score: 501
Period size: 177 Copynumber: 2.3 Consensus size: 176
32994264 CGAAACTTCT
*
32994274 AAAAATTACCATTTTATCCCTAAACTTTCCAAAATTCCATTTTTAAACCTCGATTTCACTAAAAA
1 AAAAATTACCATTTTA-CCCTAAACTTTCCAAAATCCCATTTTT-AACCTCGATTTCACTAAAAA
* *** * *
32994339 TTACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAATCTTGATTTCACTAAAAATTACCA
64 TTACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTAACA
* * *
32994404 TTTTA-CCCTCGAACTTTCTAAAATTCCATTTTTAACCCCAG-TTTCATC
129 TTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAA-CCCAGATTTCACC
* * *
32994452 AAAAATTACCGTTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCA-TCAAAAA
1 AAAAATTACCATTTTA-CCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACT-AAAAA
* ** * * * *
32994516 TTACCGTTTTATTCCTGAACTTTCCAAAATTCCATTTTTAACCCCAATTTTACCAAAGATTAACA
64 TTACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTAACA
* *
32994581 TTTTACCCCTAAATTTTCCAAAATTCCATTTTTAACCCTGATTTCACC
129 TTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCAGATTTCACC
* * *
32994629 AAAAATTACCATTTTACCCTCAAACCTTCCAAAATCTCATTTTTCACCTC
1 AAAAATTACCATTTTACCCT-AAACTTTCCAAAATCCCATTTTTAACCTC
32994679 AAATTTTCCT
Statistics
Matches: 194, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
176 9 0.05
177 142 0.73
178 43 0.22
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (176 bp):
AAAAATTACCATTTTACCCTAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACTAAAAATT
ACCATTTTACCCCCGAACTATCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAATTAACATT
TTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCAGATTTCACC
Found at i:32994672 original size:29 final size:30
Alignment explanation
Indices: 32994638--32994702 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
32994628 CAAAAATTAC
* *
32994638 CATTTTAC-CCTCAAACCTTCC-AAAATCT
1 CATTTTTCACCTCAAACCTTCCTAAAATCA
**
32994666 CATTTTTCACCTCAAATTTTCCTAAAATCA
1 CATTTTTCACCTCAAACCTTCCTAAAATCA
32994696 CATTTTT
1 CATTTTT
32994703 GCCCCCCAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.23
29 11 0.35
30 13 0.42
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (30 bp):
CATTTTTCACCTCAAACCTTCCTAAAATCA
Found at i:32996073 original size:23 final size:23
Alignment explanation
Indices: 32996047--32996091 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32996037 TTCATAGTTA
32996047 TAACACATCAT-CTCTATATTATG
1 TAACACATCATACTC-ATATTATG
**
32996070 TAACATGTCATACTCATATTAT
1 TAACACATCATACTCATATTAT
32996092 AACCCCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (23 bp):
TAACACATCATACTCATATTATG
Found at i:32996094 original size:21 final size:21
Alignment explanation
Indices: 32996033--32996094 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
32996023 GTATGTTTAC
*
32996033 CATATTCATAGTTATAACACAT
1 CATACTCATA-TTATAACACAT
**
32996055 CAT-CTCTATATTATGTAACATGT
1 CATACTC-ATATTA--TAACACAT
32996078 CATACTCATATTATAAC
1 CATACTCATATTATAAC
32996095 CCCTATTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
21 9 0.27
22 6 0.18
23 15 0.45
24 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (21 bp):
CATACTCATATTATAACACAT
Found at i:33000266 original size:26 final size:26
Alignment explanation
Indices: 33000228--33000352 Score: 128
Period size: 26 Copynumber: 4.8 Consensus size: 26
33000218 AACTATACAT
33000228 CGGCTCGAA-GCCTGCTATTTATTCAC
1 CGGCTC-AAGGCCTGCTATTTATTCAC
* * *
33000254 TGGCTCAAGGCCTGTTATATATTCAC
1 CGGCTCAAGGCCTGCTATTTATTCAC
* *
33000280 CGGCTCAAGG-CTGGCTATATATCCAC
1 CGGCTCAAGGCCT-GCTATTTATTCAC
** *
33000306 AAGCTCAAGGCTTGCTATTTATTCAC
1 CGGCTCAAGGCCTGCTATTTATTCAC
* *
33000332 CGGCTCAAGGCTTTCTATTTA
1 CGGCTCAAGGCCTGCTATTTA
33000353 ATTGTTTACG
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
25 4 0.05
26 77 0.94
27 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (26 bp):
CGGCTCAAGGCCTGCTATTTATTCAC
Found at i:33001195 original size:15 final size:15
Alignment explanation
Indices: 33001171--33001205 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33001161 TTACTTAAAA
*
33001171 TTTAATCATTATAAT
1 TTTAACCATTATAAT
33001186 TTTAACCATTATAAT
1 TTTAACCATTATAAT
*
33001201 ATTAA
1 TTTAA
33001206 ATTTTTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAACCATTATAAT
Found at i:33003971 original size:442 final size:441
Alignment explanation
Indices: 33003118--33004002 Score: 1547
Period size: 442 Copynumber: 2.0 Consensus size: 441
33003108 TACATTTCCT
33003118 AATATAGAAGGTGATTTTAAATTAAGCCTGTTTAATTCACTTACTTCCCTCTTTTTGTAGATGTG
1 AATATAGAAGGTGATTTTAAATTAAGCCTGTTTAATTCACTTACTTCCCTCTTTTTGTAGATGTG
* * *
33003183 CAAGAGAAGACCCTTATAAGCATTTGAAAGAATTCCATGTTGTATGCTCTATAATGAAACCACAT
66 CAAGAGAAGACCCTCATAAGCATTTGAAAGAATTCCATGTTGTATGCTCCAGAATGAAACCACAT
*
33003248 GGTGTGACCGACGAGCAAATCAATATTAGAGCTTTTCCCTTTTCTTTAAAGGATCAAGCAAAAGA
131 GGGGTGACCGACGAGCAAATCAATATTAGAGCTTTTCCCTTTTCTTTAAAGGATCAAGCAAAAGA
* * *
33003313 TTGGCTCTATTATCTTCCCTCCGTATTAATAACAACATGGAATGAGATGAAGAGACTATTCTTGG
196 TTGGCTCTATTATCTCCCCTCCGGATTAATAAAAACATGGAATGAGATGAAGAGACTATTCTTGG
*
33003378 ACAAATTCTTCCCAGTGTCTAAAGAAACCAACATTAGGAAGGAAATTTATGGCATAACACATCTC
261 ACAAATTCTTCCCAGTGTCTAAAGAAACCAACATTAGGAAGGAAATTTATGGCATAACACAGCTC
*
33003443 ACTGGAGAGACTTTGTATGAGTATTAGGAGAGGCTCAAACAATTGTGTGCTAGTTTTCCCCATCA
326 ACTAGAGAGACTTTGTATGAGTATTAGGAGAGGCTCAAACAATTGTGTGCTAGTTTTCCCCATCA
33003508 TCAAATTTCAGACTGTCTCCTAATCCAATACTTCTATGAAGGATTGTTACG
391 TCAAATTTCAGACTGTCTCCTAATCCAATACTTCTATGAAGGATTGTTACG
* *
33003559 AATATAGAAGGTGATTTTAAATTAAGTCTAGTTTAATTCACTTACTTCCCTCTTTTTGTGGATGT
1 AATATAGAAGGTGATTTTAAATTAAGCCT-GTTTAATTCACTTACTTCCCTCTTTTTGTAGATGT
33003624 GCAAGAGAAGACCCTCATAAGCATTTGAAAGAATTCCATGTTGTATGCTCCAGAATGAAACCACA
65 GCAAGAGAAGACCCTCATAAGCATTTGAAAGAATTCCATGTTGTATGCTCCAGAATGAAACCACA
* * * *
33003689 TGGGGTGATCGATGAGGAAATCAATATTAGAGCTTTTCCCTTTTCTTTAAAGGATCAAGCAGAAG
130 TGGGGTGACCGACGAGCAAATCAATATTAGAGCTTTTCCCTTTTCTTTAAAGGATCAAGCAAAAG
*
33003754 ATTGGCTCTATTATCTCCCCTCTGGATTAATAAAAACATGGAATGAGATGAAGAGACTATTCTTG
195 ATTGGCTCTATTATCTCCCCTCCGGATTAATAAAAACATGGAATGAGATGAAGAGACTATTCTTG
**
33003819 GACAAATTCTTCCCAGTGTCTAAAGAAACCAACATTAGGAAGGAAATTTATGGCATAATGCAGCT
260 GACAAATTCTTCCCAGTGTCTAAAGAAACCAACATTAGGAAGGAAATTTATGGCATAACACAGCT
* *
33003884 CACTAGAGAGACTTTGTATGAGTATT-GAGAGAGGTTCAAACAATTGTGTGCTAGTTTTCCCTAT
325 CACTAGAGAGACTTTGTATGAGTATTAG-GAGAGGCTCAAACAATTGTGTGCTAGTTTTCCCCAT
* *
33003948 CATCAAATTTTAGACTGTCTCCTAATCCAATACTTCTATGAAGGGTTGTTACG
389 CATCAAATTTCAGACTGTCTCCTAATCCAATACTTCTATGAAGGATTGTTACG
33004001 AA
1 AA
33004003 GGGATAGAAG
Statistics
Matches: 420, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
441 29 0.07
442 391 0.93
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (441 bp):
AATATAGAAGGTGATTTTAAATTAAGCCTGTTTAATTCACTTACTTCCCTCTTTTTGTAGATGTG
CAAGAGAAGACCCTCATAAGCATTTGAAAGAATTCCATGTTGTATGCTCCAGAATGAAACCACAT
GGGGTGACCGACGAGCAAATCAATATTAGAGCTTTTCCCTTTTCTTTAAAGGATCAAGCAAAAGA
TTGGCTCTATTATCTCCCCTCCGGATTAATAAAAACATGGAATGAGATGAAGAGACTATTCTTGG
ACAAATTCTTCCCAGTGTCTAAAGAAACCAACATTAGGAAGGAAATTTATGGCATAACACAGCTC
ACTAGAGAGACTTTGTATGAGTATTAGGAGAGGCTCAAACAATTGTGTGCTAGTTTTCCCCATCA
TCAAATTTCAGACTGTCTCCTAATCCAATACTTCTATGAAGGATTGTTACG
Found at i:33010434 original size:30 final size:30
Alignment explanation
Indices: 33010392--33010525 Score: 109
Period size: 29 Copynumber: 4.6 Consensus size: 30
33010382 TTGAAGGTCT
*
33010392 CTAAACTGTCCAAAAATCATATTTTGACCC
1 CTAAACTTTCCAAAAATCATATTTTGACCC
* *
33010422 C-AAACTTCTCC-AAAATTATATTTTAACCC
1 CTAAACTT-TCCAAAAATCATATTTTGACCC
* * *
33010451 CTGAACTTTCCAAAAATTACATTTT-ACCC
1 CTAAACTTTCCAAAAATCATATTTTGACCC
* *
33010480 CTGAA-TTTCCAAAAATTCCAT-TTTTGACCT
1 CTAAACTTTCCAAAAA-T-CATATTTTGACCC
* *
33010510 CGAAAC-TTCTAAAAAT
1 CTAAACTTTCCAAAAAT
33010526 TACCATTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
28 10 0.12
29 40 0.47
30 36 0.42
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (30 bp):
CTAAACTTTCCAAAAATCATATTTTGACCC
Found at i:33010494 original size:29 final size:30
Alignment explanation
Indices: 33010395--33010543 Score: 121
Period size: 30 Copynumber: 5.0 Consensus size: 30
33010385 AAGGTCTCTA
* * * * *
33010395 AACTGTCCAAAAATCATATTTTGACCCC-A
1 AACTTTCCAAAAATTACATTTTAACCCCTG
*
33010424 AACTTCTCC-AAAATTATATTTTAACCCCTG
1 AACTT-TCCAAAAATTACATTTTAACCCCTG
33010454 AACTTTCCAAAAATTACATTTT-ACCCCTG
1 AACTTTCCAAAAATTACATTTTAACCCCTG
* * *
33010483 AA-TTTCCAAAAATTCCATTTTTGACCTC-G
1 AACTTTCCAAAAATTACA-TTTTAACCCCTG
* *
33010512 AAAC-TTCTAAAAATTACCATTTTACCCCCTG
1 -AACTTTCCAAAAATTA-CATTTTAACCCCTG
33010543 A
1 A
33010544 TATCCAAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
28 14 0.14
29 38 0.38
30 44 0.44
31 3 0.03
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTAACCCCTG
Found at i:33010501 original size:28 final size:28
Alignment explanation
Indices: 33010412--33010626 Score: 118
Period size: 29 Copynumber: 7.4 Consensus size: 28
33010402 CAAAAATCAT
* **
33010412 ATTTTGACCCCAAACTTCTCC-AAAATTAT
1 ATTTTGACCCCGAA-TT-TCCAAAAATTCC
* *
33010441 ATTTTAACCCCTGAACTTTCCAAAAATTAC
1 ATTTTGACCCC-GAA-TTTCCAAAAATTCC
33010471 ATTTT-ACCCCTGAATTTCCAAAAATTCC
1 ATTTTGACCCC-GAATTTCCAAAAATTCC
* * *
33010499 ATTTTTGACCTCGAAACTTCTAAAAATTACC
1 A-TTTTGACCCCG-AATTTCCAAAAATT-CC
* *
33010530 ATTTT-ACCCCCTG-ATATCCAAAAACTCC
1 ATTTTGA-CCCC-GAATTTCCAAAAATTCC
** * *
33010558 ATTTTTGGTCCCGAACCTTCC-AAAATTATC
1 A-TTTTGACCCCGAA-TTTCCAAAAATT-CC
* *
33010588 ATTTT-ACCCCGAATGTCTAAAAATTCC
1 ATTTTGACCCCGAATTTCCAAAAATTCC
33010615 ATTTTTGACCCC
1 A-TTTTGACCCC
33010627 AAACCTTTCT
Statistics
Matches: 146, Mismatches: 24, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
27 4 0.03
28 34 0.23
29 59 0.40
30 45 0.31
31 4 0.03
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (28 bp):
ATTTTGACCCCGAATTTCCAAAAATTCC
Found at i:33010503 original size:58 final size:59
Alignment explanation
Indices: 33010442--33010655 Score: 224
Period size: 58 Copynumber: 3.7 Consensus size: 59
33010432 CAAAATTATA
* *
33010442 TTTTAACCCCTGAACTTTCCAAAAATTA-CATTTTACCCCTGAATTTCCAAAAATTCCAT
1 TTTTGACCCC-GAACTTTCCAAAAATTACCATTTTACCCCTGAATATCCAAAAATTCCAT
* * *
33010501 TTTTGACCTCGAAAC-TTCTAAAAATTACCATTTTACCCCCTG-ATATCCAAAAACTCCAT
1 TTTTGACCCCG-AACTTTCCAAAAATTACCATTTTA-CCCCTGAATATCCAAAAATTCCAT
** * * * *
33010560 TTTTGGTCCCGAACCTTCC-AAAATTATCATTTTACCCC-GAATGTCTAAAAATTCCAT
1 TTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCCTGAATATCCAAAAATTCCAT
* * *
33010617 TTTTGACCCCAAACCTTT-CTAAAATTACTATTTTACCCC
1 TTTTGACCCCGAA-CTTTCCAAAAATTACCATTTTACCCC
33010656 CGAGTGACCA
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
56 1 0.01
57 29 0.22
58 49 0.38
59 44 0.34
60 6 0.05
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (59 bp):
TTTTGACCCCGAACTTTCCAAAAATTACCATTTTACCCCTGAATATCCAAAAATTCCAT
Found at i:33010669 original size:58 final size:58
Alignment explanation
Indices: 33010463--33010678 Score: 203
Period size: 59 Copynumber: 3.7 Consensus size: 58
33010453 GAACTTTCCA
* ** *
33010463 AAAATTAC-ATTTTACCCCTGAATTTCCAAAAATTCCATTTTTGACCTCGAAA-CTTCT
1 AAAATTACTATTTTACCCCCGAATGACCAAAAATTCCATTTTTGACC-CCAAACCTTCT
* * ** * *
33010520 AAAAATTACCATTTTACCCCCTG-AT-ATCCAAAAACTCCATTTTTGGTCCCGAACCTTCC
1 -AAAATTACTATTTTACCCCC-GAATGA-CCAAAAATTCCATTTTTGACCCCAAACCTTCT
* *
33010579 AAAATTA-TCATTTTA-CCCCGAATGTCTAAAAATTCCATTTTTGACCCCAAACCTTTCT
1 AAAATTACT-ATTTTACCCCCGAATGACCAAAAATTCCATTTTTGACCCCAAACC-TTCT
*
33010637 AAAATTACTATTTTACCCCCGAGTGACC-AAAATTACCATTTT
1 AAAATTACTATTTTACCCCCGAATGACCAAAAATT-CCATTTT
33010679 ACCCTCGAGT
Statistics
Matches: 128, Mismatches: 19, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
56 1 0.01
57 29 0.23
58 46 0.36
59 51 0.40
60 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (58 bp):
AAAATTACTATTTTACCCCCGAATGACCAAAAATTCCATTTTTGACCCCAAACCTTCT
Found at i:33010671 original size:28 final size:28
Alignment explanation
Indices: 33010637--33010696 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
33010627 AAACCTTTCT
*
33010637 AAAATTACTATTTTACCCCCGAGTGA-CC
1 AAAATTACCATTTTACCCCCGAGT-ATCC
*
33010665 AAAATTACCATTTTACCCTCGAGTATCC
1 AAAATTACCATTTTACCCCCGAGTATCC
33010693 AAAA
1 AAAA
33010697 ATCACATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.28
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCCGAGTATCC
Found at i:33010704 original size:28 final size:27
Alignment explanation
Indices: 33010637--33010706 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
33010627 AAACCTTTCT
33010637 AAAATTACTATTTTACCCCCGAGTGACC
1 AAAATTAC-ATTTTACCCCCGAGTGACC
*
33010665 AAAATTACCATTTTACCCTCGAGT-ATCC
1 AAAATTA-CATTTTACCCCCGAGTGA-CC
*
33010693 AAAAATCACATTTT
1 -AAAATTACATTTT
33010707 CAACTCCGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 1 0.03
28 29 0.78
29 7 0.19
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACATTTTACCCCCGAGTGACC
Found at i:33013839 original size:50 final size:50
Alignment explanation
Indices: 33013776--33014051 Score: 153
Period size: 50 Copynumber: 5.5 Consensus size: 50
33013766 TAAATTCAAT
*
33013776 CCACTGTAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGTC
1 CCACTGCAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGTC
* * * * * * ** *
33013826 CCACTGCATCTTCAAGGAGACAAGATTTGCT-TCTGTAGCTTCAATCCGAC
1 CCACTGCAACTTCAAGGATATAGGATTTGATGTC-GTAGCTTCATTTTGTC
* * * * * *
33013876 CCACTGCAACTTTAGGGGTATAGGATTTGATGTTGTAGCTTCATCTTGTT
1 CCACTGCAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGTC
** * * * * * * * *
33013926 TTACTGCAACTTCAGAGAGATA-AAGATTTGCTATTGTAGTTTTAATCTGAT-
1 CCACTGCAACTTCA-AG-GATATAGGATTTGATGTCGTAGCTTCATTTTG-TC
* * * * * * * * *
33013977 CCACTACAACTACAAGGATATAGGATTTGGTATTGTAACTTCACTTCGTT
1 CCACTGCAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGTC
* * *
33014027 TCACTGCATCTTCAAGGATAGAGGA
1 CCACTGCAACTTCAAGGATATAGGA
33014052 GTTGTCATTT
Statistics
Matches: 164, Mismatches: 55, Indels: 14
0.70 0.24 0.06
Matches are distributed among these distances:
49 7 0.04
50 122 0.74
51 31 0.19
52 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (50 bp):
CCACTGCAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGTC
Found at i:33014005 original size:101 final size:100
Alignment explanation
Indices: 33013682--33014044 Score: 310
Period size: 101 Copynumber: 3.6 Consensus size: 100
33013672 ATCCGCTTCT
* ** * * * * *
33013682 CTGCAACTTC-AGGAAGATAGGATTTGACATTATAACCTT-ATCTTGCTCCACTGCATCTTCAGG
1 CTGCAACTTCAAGG-ATATAGGATTTGATGTTGT-AGCTTCATCTTGTTTCACTGCATCTTCAAG
* * * * * *
33013745 GAGATAAGATTTAC-T-T-TAACTTAAATTCAATCCA
64 GAGAAAAGATTTGCTTCTGTAGCTTCAATCCGATCCA
* * * **
33013779 CTGTAACTTCAAGGATATAGGATTTGATGTCGTAGCTTCATTTTGTCCCACTGCATCTTCAAGGA
1 CTGCAACTTCAAGGATATAGGATTTGATGTTGTAGCTTCATCTTGTTTCACTGCATCTTCAAGGA
* *
33013844 GACAAGATTTGCTTCTGTAGCTTCAATCCGACCCA
66 GAAAAGATTTGCTTCTGTAGCTTCAATCCGATCCA
* * * * *
33013879 CTGCAACTTTAGGGGTATAGGATTTGATGTTGTAGCTTCATCTTGTTTTACTGCAACTTC-AGAG
1 CTGCAACTTCAAGGATATAGGATTTGATGTTGTAGCTTCATCTTGTTTCACTGCATCTTCAAG-G
* * *
33013943 AGATAAAGATTTGCTAT-TGTAGTTTTAATCTGATCCA
65 AGA-AAAGATTTGCT-TCTGTAGCTTCAATCCGATCCA
* * * * *
33013980 CTACAACTACAAGGATATAGGATTTGGTATTGTAACTTCA-CTTCGTTTCACTGCATCTTCAAGG
1 CTGCAACTTCAAGGATATAGGATTTGATGTTGTAGCTTCATCTT-GTTTCACTGCATCTTCAAGG
33014044 A
65 A
33014045 TAGAGGAGTT
Statistics
Matches: 213, Mismatches: 43, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
96 4 0.02
97 55 0.26
98 4 0.02
99 3 0.01
100 70 0.33
101 74 0.35
102 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (100 bp):
CTGCAACTTCAAGGATATAGGATTTGATGTTGTAGCTTCATCTTGTTTCACTGCATCTTCAAGGA
GAAAAGATTTGCTTCTGTAGCTTCAATCCGATCCA
Found at i:33016800 original size:21 final size:21
Alignment explanation
Indices: 33016776--33016816 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33016766 ATTTTTGGAT
* *
33016776 TCAAATCTAGGGTTTTAAAAA
1 TCAAATCTAAGATTTTAAAAA
33016797 TCAAATCTAAGATTTTAAAA
1 TCAAATCTAAGATTTTAAAA
33016817 GAACATGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (21 bp):
TCAAATCTAAGATTTTAAAAA
Found at i:33020570 original size:9 final size:9
Alignment explanation
Indices: 33020556--33020580 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33020546 GGATCACAAC
33020556 AAAACGTTT
1 AAAACGTTT
33020565 AAAACGTTT
1 AAAACGTTT
33020574 AAAACGT
1 AAAACGT
33020581 CGGTCTACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (9 bp):
AAAACGTTT
Found at i:33021644 original size:29 final size:29
Alignment explanation
Indices: 33021612--33021840 Score: 91
Period size: 30 Copynumber: 7.8 Consensus size: 29
33021602 TTTGGATACC
*
33021612 CGAGGGCAAAATGGTAATTTTGGTGAAAT
1 CGAGGGAAAAATGGTAATTTTGGTGAAAT
*
33021641 CGAGGTTAAAAATGG-AATTTT-G-GAAAGTT
1 CGAGG-GAAAAATGGTAATTTTGGTGAAA--T
* *
33021670 CGAGGGTAAAATGATAATTTTTGGTGAAAT
1 CGAGGGAAAAATGGTAA-TTTTGGTGAAAT
** * * *
33021700 CGAGATTAAAAAAT-GAAATTTTGGAG-AGT
1 CGAG--GGAAAAATGGTAATTTTGGTGAAAT
** *
33021729 TTAGGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGA-GGGAAAAATGGTAA-TTTTGGTGAAAT
* * * *
33021760 CG-GGATTAAAAATGG-AATCTTGGAG-AGT
1 CGAGG--GAAAAATGGTAATTTTGGTGAAAT
** *
33021788 TTAGGGGTAAAATGGTAATTCTTGGTGAAAT
1 CGA-GGGAAAAATGGTAATT-TTGGTGAAAT
*
33021819 CG-GGGTTAAAATGG-AATTTTGG
1 CGAGGG-AAAAATGGTAATTTTGG
33021841 AAAGTTTTGG
Statistics
Matches: 143, Mismatches: 36, Indels: 43
0.64 0.16 0.19
Matches are distributed among these distances:
27 4 0.03
28 25 0.17
29 43 0.30
30 48 0.34
31 14 0.10
32 9 0.06
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (29 bp):
CGAGGGAAAAATGGTAATTTTGGTGAAAT
Found at i:33021648 original size:58 final size:58
Alignment explanation
Indices: 33021577--33021844 Score: 204
Period size: 59 Copynumber: 4.6 Consensus size: 58
33021567 GAAGAAACGA
* * * *
33021577 TGAAATCGGGGTTAAAATCGGGACTTTTGGATA-CCCGAGGGCAAAATGGTAA-TTTTGG
1 TGAAATCGAGGTTAAAAT--GGAATTTTGGAAAGCCCGAGGGCAAAATGATAATTTTTGG
** *
33021635 TGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGATAATTTTTGG
1 TGAAATCGAGGTT-AAAATGGAATTTTGGAAAGCCCGAGGGCAAAATGATAATTTTTGG
* * * *** * *
33021694 TGAAATCGAGATTAAAAAATGAAATTTTGGAGAG-TTTAGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGAGGTT--AAAATGGAATTTTGGAAAGCCCGA-GGGCAAAATGATAATTTTTGG
* * *** * * *
33021754 TGAAATCG-GGATTAAAAATGGAATCTTGGAGAG-TTTAGGGGTAAAATGGTAATTCTTGG
1 TGAAATCGAGG-TT-AAAATGGAATTTTGGAAAGCCCGA-GGGCAAAATGATAATTTTTGG
*
33021813 TGAAATCGGGGTTAAAATGGAATTTTGGAAAG
1 TGAAATCGAGGTTAAAATGGAATTTTGGAAAG
33021845 TTTTGGGGTC
Statistics
Matches: 184, Mismatches: 19, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
57 11 0.06
58 44 0.24
59 79 0.43
60 50 0.27
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (58 bp):
TGAAATCGAGGTTAAAATGGAATTTTGGAAAGCCCGAGGGCAAAATGATAATTTTTGG
Found at i:33021796 original size:119 final size:118
Alignment explanation
Indices: 33021618--33021870 Score: 336
Period size: 119 Copynumber: 2.2 Consensus size: 118
33021608 TACCCGAGGG
* *
33021618 CAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAAT
1 CAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAGTTAGAGGGTAAAAT
* *
33021682 GATAATTTTTGGTGAAATCGAGATTAAAAAATGAAATTTTGGAGAGTTTAGGGGT
66 GATAATTCTTGGTGAAATCGAGATT--AAAATGAAATTTTGGAAAGTTTAGGGGT
*
33021737 -AAAATGGTAATTTTTGGTGAAATCG-GGATTAAAAATGGAATCTTGGAGAGTTTAG-GGGTAAA
1 CAAAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATCTTGGAAAG-TTAGAGGGTAAA
* * * * *
33021799 ATGGTAATTCTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTTGGGGT
64 ATGATAATTCTTGGTGAAATCGAGATTAAAATGAAATTTTGGAAAGTTTAGGGGT
*
33021854 CAAAAT-ATAATTTTTGG
1 CAAAATGGTAATTTTTGG
33021871 AGAGTTTAGG
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
117 35 0.29
118 17 0.14
119 64 0.54
120 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.33
Consensus pattern (118 bp):
CAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAGTTAGAGGGTAAAAT
GATAATTCTTGGTGAAATCGAGATTAAAATGAAATTTTGGAAAGTTTAGGGGT
Found at i:33021852 original size:29 final size:29
Alignment explanation
Indices: 33021709--33021881 Score: 92
Period size: 30 Copynumber: 5.9 Consensus size: 29
33021699 TCGAGATTAA
* *
33021709 AAAATGAAATTTTGGAGAGTTTAGGGG-T
1 AAAATGGAATTTTGGAAAGTTTAGGGGTT
* *
33021737 AAAATGGTAATTTTTGGTGAAA---TCGGGATT
1 AAAATGG-AA-TTTT-G-GAAAGTTTAGGGGTT
* *
33021767 AAAAATGGAATCTTGGAGAGTTTAGGGG-T
1 -AAAATGGAATTTTGGAAAGTTTAGGGGTT
*
33021796 AAAATGGTAATTCTTGGTGAAA---TCGGGGTT
1 AAAATGG-AATT-TT-G-GAAAGTTTAGGGGTT
* *
33021826 AAAATGGAATTTTGGAAAGTTTTGGGGTC
1 AAAATGGAATTTTGGAAAGTTTAGGGGTT
** *
33021855 AAAATATAATTTTTGGAGAGTTTAGGG
1 AAAATGGAA-TTTTGGAAAGTTTAGGG
33021882 ACCTACAGAG
Statistics
Matches: 110, Mismatches: 17, Indels: 34
0.68 0.11 0.21
Matches are distributed among these distances:
26 4 0.04
27 4 0.04
28 16 0.15
29 35 0.32
30 36 0.33
31 9 0.08
32 6 0.05
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGTT
Found at i:33021859 original size:59 final size:59
Alignment explanation
Indices: 33021619--33021870 Score: 332
Period size: 59 Copynumber: 4.3 Consensus size: 59
33021609 ACCCGAGGGC
* *
33021619 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTTAG-GGGT
* * *
33021677 AAAATGATAATTTTTGGTGAAATCGAGATTAAAAAATGAAATTTTGGAGAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGATT-AAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
33021737 AAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGGAATCTTGGAGAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
33021796 AAAATGGTAATTCTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTTGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTTAGGGGT
*
33021854 CAAAAT-ATAATTTTTGG
1 -AAAATGGTAATTTTTGG
33021871 AGAGTTTAGG
Statistics
Matches: 174, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
58 43 0.25
59 78 0.45
60 50 0.29
61 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGATTAAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:33022556 original size:11 final size:11
Alignment explanation
Indices: 33022529--33022579 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
33022519 GTAAGCCGTC
*
33022529 CTTCTTTCTTCT
1 CTTC-TTCTTTT
33022541 CTTCTT-TTCTT
1 CTTCTTCTT-TT
*
33022552 CTTCTTCTTTC
1 CTTCTTCTTTT
33022563 CTTCTTCTTTT
1 CTTCTTCTTTT
*
33022574 ATTCTT
1 CTTCTT
33022580 GATTCTTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 2 0.06
11 25 0.76
12 6 0.18
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTCTTCTTTT
Found at i:33022559 original size:14 final size:14
Alignment explanation
Indices: 33022529--33022571 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
33022519 GTAAGCCGTC
33022529 CTTC-TTTCTTC-T
1 CTTCTTTTCTTCTT
33022541 CTTCTTTTCTTCTT
1 CTTCTTTTCTTCTT
*
33022555 CTTCTTTCCTTCTT
1 CTTCTTTTCTTCTT
33022569 CTT
1 CTT
33022572 TTATTCTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 4 0.14
13 7 0.25
14 17 0.61
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTCTTTTCTTCTT
Found at i:33022925 original size:13 final size:13
Alignment explanation
Indices: 33022897--33022937 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
33022887 TATTTATTAT
33022897 TATT-ATTAAT-A
1 TATTCATTAATAA
33022908 TATTCATTAATAA
1 TATTCATTAATAA
*
33022921 TATTCATTAATAG
1 TATTCATTAATAA
33022934 TATT
1 TATT
33022938 AATGTTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 17 0.63
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTCATTAATAA
Found at i:33023678 original size:18 final size:20
Alignment explanation
Indices: 33023645--33023681 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
33023635 ACACTTGGAC
33023645 TTTTATTAAGTTTAAATTTG
1 TTTTATTAAGTTTAAATTTG
33023665 TTTTA-TAA-TTTAAATTT
1 TTTTATTAAGTTTAAATTT
33023682 AAATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTATTAAGTTTAAATTTG
Found at i:33023682 original size:6 final size:6
Alignment explanation
Indices: 33023666--33023754 Score: 89
Period size: 6 Copynumber: 15.0 Consensus size: 6
33023656 TTAAATTTGT
**
33023666 TTTATAA TTTAAA TTTAAA TTTAAA TTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
33023716 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
33023755 ATCAATTTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
4 5 0.07
5 6 0.09
6 48 0.69
7 5 0.07
8 6 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:33023703 original size:11 final size:11
Alignment explanation
Indices: 33023687--33023737 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
33023677 AATTTAAATT
*
33023687 TAAATTTAAGG
1 TAAATTTAAGA
33023698 TAAATTTAA-A
1 TAAATTTAAGA
* **
33023708 T-AATTAAATT
1 TAAATTTAAGA
33023718 TAAATTTAAGA
1 TAAATTTAAGA
33023729 TAAATTTAA
1 TAAATTTAA
33023738 ATTTAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 24 0.75
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (11 bp):
TAAATTTAAGA
Found at i:33023739 original size:37 final size:38
Alignment explanation
Indices: 33023678--33023754 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 38
33023668 TATAATTTAA
*
33023678 ATTTAAATTTAAATTTAAGGTAAATTTAAATAA-TTAA
1 ATTTAAATTTAAATTAAAGGTAAATTTAAATAATTTAA
**
33023715 ATTTAAATTTAAGA-TAAATTTAAATTTAAATAAATTTAA
1 ATTTAAATTTAA-ATTAAAGGTAAATTTAAAT-AATTTAA
33023754 A
1 A
33023755 ATCAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 26 0.76
38 3 0.09
39 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (38 bp):
ATTTAAATTTAAATTAAAGGTAAATTTAAATAATTTAA
Found at i:33023756 original size:17 final size:16
Alignment explanation
Indices: 33023666--33023754 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
33023656 TTAAATTTGT
33023666 TTTATAATTTAAATTTAAA
1 TTTA-AATTTAAA--TAAA
*
33023685 TTTAAATTTAAGGTAAA
1 TTTAAATTTAA-ATAAA
*
33023702 TTTAAA--TAATTAAA
1 TTTAAATTTAAATAAA
33023716 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
33023733 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
33023749 TTTAAA
1 TTTAAA
33023755 ATCAATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.40
18 7 0.11
19 4 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:33024275 original size:38 final size:37
Alignment explanation
Indices: 33024157--33024508 Score: 142
Period size: 38 Copynumber: 9.3 Consensus size: 37
33024147 TATCCAACTC
*
33024157 TACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCT
1 TACTTCAATTTCAAG-GGATAGGAAATGACGTTGCTCT
* * * *
33024195 TACTTTCAATTTC-AGAGATA--AAGACG-CGTTTATCCACTT
1 TAC-TTCAATTTCAAGGGATAGGAA-ATGACG--T-TGCTC-T
33024234 TACTTCAATTTCAAGCGGATAGGAAATGACGTTGCTCT
1 TACTTCAATTTCAAG-GGATAGGAAATGACGTTGCTCT
* * *
33024272 TACTTCAATTTC-AGAGATA--AAGATG-CGTTATCCACT
1 TACTTCAATTTCAAGGGATAGGAA-ATGACG-T-TGCTCT
* * *
33024308 CTACTTCGATTTCAAACGGATAGGAAAAGATC-TTGCTCT
1 -TACTTCAATTTC-AAGGGATAGGAAATGA-CGTTGCTCT
* * ** **
33024347 TACTTCAATTTC-AGAGATAAAGACTTGATATCTAGCT-T
1 TACTTCAATTTCAAGGGAT-AGGAAATGACGT-T-GCTCT
**
33024385 TACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCT
1 TACTTCAATTTCAAG-GGATAGGAAATGACGTTGCTCT
* * * * * *
33024423 TACTTTAATTT-TAGAGATA--AAGACG-CGTTATCCACT
1 TACTTCAATTTCAAGGGATAGGAA-ATGACG-T-TGCTCT
*
33024459 CTACTTCAATTTCAAGCGGATAGGAAAAGATC-TTGCTCT
1 -TACTTCAATTTCAAG-GGATAGGAAATGA-CGTTGCTCT
33024498 TACTTCAATTT
1 TACTTCAATTT
33024509 TAGAGATCAA
Statistics
Matches: 231, Mismatches: 45, Indels: 76
0.66 0.13 0.22
Matches are distributed among these distances:
34 6 0.03
35 10 0.04
36 22 0.10
37 39 0.17
38 80 0.35
39 48 0.21
40 14 0.06
41 6 0.03
42 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (37 bp):
TACTTCAATTTCAAGGGATAGGAAATGACGTTGCTCT
Found at i:33024399 original size:151 final size:149
Alignment explanation
Indices: 33024113--33024641 Score: 728
Period size: 151 Copynumber: 3.5 Consensus size: 149
33024103 CTTTATCTAA
** *
33024113 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGCTATCCAACTCTACTTCAATTTCAAGA-GGAT
1 CTCTTACTTCAATTTC--AGAGATAAAGACGCGTTATCC-ACTCTACTTCAATTTCAA-ACGGAT
* * ** *
33024177 AGGAAATGATGTTGCTCTTACTTTCAATTTCAGAGATAAAGACGCGTTTATCCA-CTTTACTTCA
62 AGGAAAAGATCTTGCTCTTAC-TTCAATTTCAGAGATAAAGACTTG-ATATCCAGCTTTACTTCA
33024241 ATTTCAAGCGGATAGGAAATGACGTTG
125 ATTTCAAG-GGATAGGAAATGAC-TTG
* *
33024268 CTCTTACTTCAATTTCAGAGATAAAGATGCGTTATCCACTCTACTTCGATTTCAAACGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAACGGATAGGA
*
33024333 AAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCTAGCTTTACTTCAATTTCA
66 AAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
*
33024398 AGAGGATAGGAAATGATTTTG
131 AG-GGATAGGAAATGA-CTTG
* * *
33024419 CTCTTACTTTAATTTTAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAGCGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAACGGATAGGA
* *
33024484 AAAGATCTTGCTCTTACTTCAATTTTAGAGATCAAGACTTGATATCCAGCTTTACTTCAATTTCA
66 AAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
33024549 A--G--AGGAAATGATCTTG
131 AGGGATAGGAAATGA-CTTG
* * *
33024565 TTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAACGGATAGGA
*
33024630 AATGATCTTGCT
66 AAAGATCTTGCT
33024642 GCGGTCTGAT
Statistics
Matches: 344, Mismatches: 27, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
146 85 0.25
148 1 0.00
150 5 0.01
151 180 0.52
152 40 0.12
153 17 0.05
155 16 0.05
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (149 bp):
CTCTTACTTCAATTTCAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAACGGATAGGA
AAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCA
AGGGATAGGAAATGACTTG
Found at i:33024422 original size:76 final size:75
Alignment explanation
Indices: 33024113--33024641 Score: 678
Period size: 75 Copynumber: 7.0 Consensus size: 75
33024103 CTTTATCTAA
*
33024113 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGCTATCCAACTCTACTTCAATTTCAAGAGGATA
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGATA
*
33024178 GGAAATGATGTTG
63 GGAAATGATCTTG
** * *
33024191 CTCTTACTTTCAATTTCAGAGATAAAGACGCGTTTATCCACTTTACTTCAATTTCAAGCGGATAG
1 CTCTTAC-TTCAATTTCAGAGATAAAGACTTG-TTATCCACTCTACTTCAATTTCAAGAGGATAG
33024256 GAAATGA-CGTTG
64 GAAATGATC-TTG
* *
33024268 CTCTTACTTCAATTTCAGAGATAAAGA-TGCGTTATCCACTCTACTTCGATTTCAA-ACGGATAG
1 CTCTTACTTCAATTTCAGAGATAAAGACT-TGTTATCCACTCTACTTCAATTTCAAGA-GGATAG
*
33024331 GAAAAGATCTTG
64 GAAATGATCTTG
* * *
33024343 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCTAGCTTTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA-CTCTACTTCAATTTCAAGAGGATAGG
*
33024408 AAATGATTTTG
65 AAATGATCTTG
* * ** *
33024419 CTCTTACTTTAATTTTAGAGATAAAGACGCGTTATCCACTCTACTTCAATTTCAAGCGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
*
33024484 AAAGATCTTG
66 AATGATCTTG
* * * *
33024494 CTCTTACTTCAATTTTAGAGATCAAGACTTGATATCCAGCTTTACTTCAATTTC-A-A-G--AGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA-CTCTACTTCAATTTCAAGAGGATAGG
33024554 AAATGATCTTG
65 AAATGATCTTG
* * *
33024565 TTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGA
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
33024630 AATGATCTTG
66 AATGATCTTG
33024640 CT
1 CT
33024642 GCGGTCTGAT
Statistics
Matches: 392, Mismatches: 44, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
70 14 0.04
71 47 0.12
73 2 0.01
75 152 0.39
76 101 0.26
77 55 0.14
78 12 0.03
79 9 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (75 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
AATGATCTTG
Found at i:33036700 original size:31 final size:30
Alignment explanation
Indices: 33036664--33036770 Score: 80
Period size: 30 Copynumber: 3.5 Consensus size: 30
33036654 ACCCAGGGGC
33036664 AAAATGGTAATTTTGGTGAAATCGAGGTTAA
1 AAAATGG-AATTTTGGTGAAATCGAGGTTAA
* * *
33036695 AAAATGGAATTTT--AGAAAGTTCGGGGGT--
1 AAAATGGAATTTTGGTGAAA--TCGAGGTTAA
*
33036723 AAAATGGTAATTTTTGGTGAAAT-TAGGATTAAA
1 AAAATGG-AA-TTTTGGTGAAATCGAGG-TT-AA
33036756 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
33036771 AGAGTTTAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
28 11 0.19
29 4 0.07
30 18 0.31
31 13 0.22
32 6 0.10
33 7 0.12
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (30 bp):
AAAATGGAATTTTGGTGAAATCGAGGTTAA
Found at i:33036733 original size:59 final size:59
Alignment explanation
Indices: 33036658--33036918 Score: 323
Period size: 59 Copynumber: 4.4 Consensus size: 59
33036648 TTGGATACCC
* * *
33036658 AGGGGCAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAAATGGAATTTTAGAAAGTTC
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTT-AAAAATGGAATTTTGGAAAGTTT
* * *
33036717 GGGGGTAAAATGGTAATTTTTGGTGAAAT-TAGGATTAAAAAAATGGAATTTTGGAGAGTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGG-TT--AAAAATGGAATTTTGGAAAGTTT
* *
33036778 AGGGGTAAAATGGTAATTTTTGGTGAAATC-ACGATTAAAAATGGAATCTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTT
* *
33036837 AGGGGTAAAATGGTAATTGTTGGTGAAATCGTGGTTAAAAATGGAATTTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
* * *
33036896 TGGTGTCAAAAT-ATAATTTTTGG
1 AGGGGT-AAAATGGTAATTTTTGG
33036919 ACAGTTTAGG
Statistics
Matches: 177, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
59 105 0.59
60 19 0.11
61 52 0.29
62 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (59 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
Found at i:33036875 original size:120 final size:119
Alignment explanation
Indices: 33036658--33036918 Score: 327
Period size: 120 Copynumber: 2.2 Consensus size: 119
33036648 TTGGATACCC
* * * *
33036658 AGGGGCAAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAAATGGAATTTTAGAAAGTTCGGGGG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGATTAAAAAATGGAATCTTAGAAAGTTCAGGGG
* *
33036722 TAAAATGGTAATTTTTGGTGAAATTAGGATTAAAAAAATGGAATTTTGGAGAGTTT
66 TAAAATGGTAATTGTTGGTGAAATTAGGATT--AAAAATGGAATTTTGGAAAGTTT
* *
33036778 AGGGGTAAAATGGTAATTTTTGGTGAAATC-ACGATT-AAAAATGGAATCTTGGAAAGTTTAGGG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGA-GATTAAAAAATGGAATCTTAGAAAGTTCAGGG
33036841 GTAAAATGGTAATTGTTGGTGAAATCGT-GG-TTAAAAATGGAATTTTGGAAAGTTT
65 GTAAAATGGTAATTGTTGGTGAAAT--TAGGATTAAAAATGGAATTTTGGAAAGTTT
* * *
33036896 TGGTGTCAAAAT-ATAATTTTTGG
1 AGGGGT-AAAATGGTAATTTTTGG
33036919 ACAGTTTAGG
Statistics
Matches: 125, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
118 36 0.29
119 5 0.04
120 65 0.52
121 18 0.14
122 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (119 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGATTAAAAAATGGAATCTTAGAAAGTTCAGGGG
TAAAATGGTAATTGTTGGTGAAATTAGGATTAAAAATGGAATTTTGGAAAGTTT
Found at i:33036906 original size:29 final size:28
Alignment explanation
Indices: 33036815--33036925 Score: 73
Period size: 30 Copynumber: 3.8 Consensus size: 28
33036805 ATCACGATTA
* * *
33036815 AAAATGGAATCTTGGAAAGTTTAGGGGT
1 AAAATGGAATTTTGGAAAGTTTTGGTGT
**
33036843 AAAATGGTAATTGTTGGTGAAA-TCGTGGT-T
1 AAAATGG-AATT-TT-G-GAAAGTTTTGGTGT
33036873 AAAAATGGAATTTTGGAAAGTTTTGGTGT
1 -AAAATGGAATTTTGGAAAGTTTTGGTGT
** *
33036902 CAAAATATAATTTTTGGACAGTTT
1 -AAAATGGAA-TTTTGGAAAGTTT
33036926 AGGGACCTAC
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
27 4 0.06
28 13 0.20
29 13 0.20
30 19 0.30
31 11 0.17
32 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTTTGGTGT
Found at i:33037617 original size:11 final size:11
Alignment explanation
Indices: 33037592--33037642 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
33037582 GTAAGCCGTC
33037592 CTTCTT-TTTT
1 CTTCTTCTTTT
33037602 C-TCTTCTTTT
1 CTTCTTCTTTT
33037612 CTTCTTCTTCTTT
1 CTTCTTC-T-TTT
33037625 CCTTCTTCTTTT
1 -CTTCTTCTTTT
*
33037637 ATTCTT
1 CTTCTT
33037643 GATTCTTAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
9 4 0.11
10 6 0.17
11 10 0.29
12 4 0.11
13 4 0.11
14 7 0.20
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (11 bp):
CTTCTTCTTTT
Found at i:33037622 original size:14 final size:14
Alignment explanation
Indices: 33037592--33037634 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
33037582 GTAAGCCGTC
33037592 CTTCTTTT-TTC-T
1 CTTCTTTTCTTCTT
33037604 CTTCTTTTCTTCTT
1 CTTCTTTTCTTCTT
*
33037618 CTTCTTTCCTTCTT
1 CTTCTTTTCTTCTT
33037632 CTT
1 CTT
33037635 TTATTCTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 8 0.29
13 3 0.11
14 17 0.61
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
CTTCTTTTCTTCTT
Found at i:33037988 original size:13 final size:13
Alignment explanation
Indices: 33037960--33038000 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
33037950 TATTTATTAT
33037960 TATT-ATTAAT-A
1 TATTCATTAATAA
33037971 TATTCATTAATAA
1 TATTCATTAATAA
*
33037984 TATTCATTAATAG
1 TATTCATTAATAA
33037997 TATT
1 TATT
33038001 AATGTTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 17 0.63
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTCATTAATAA
Found at i:33038624 original size:11 final size:11
Alignment explanation
Indices: 33038602--33038630 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33038592 GTAGCAGATT
33038602 TGGGTC-AAAA
1 TGGGTCAAAAA
33038612 TGGGTCAAAAA
1 TGGGTCAAAAA
33038623 TGGGTCAA
1 TGGGTCAA
33038631 TTTGTAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (11 bp):
TGGGTCAAAAA
Found at i:33038773 original size:6 final size:6
Alignment explanation
Indices: 33038732--33038803 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
33038722 TTAAATTTGT
* * * **
33038732 TTTATAA TTTTAA TTTTAA TTTTAA TTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
33038782 TTTAAA TTTAAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
33038804 ATCAATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
4 4 0.07
5 3 0.05
6 39 0.71
7 3 0.05
8 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:33039104 original size:10 final size:10
Alignment explanation
Indices: 33039089--33039117 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
33039079 GGAGGAGAAC
33039089 AAGACTTTGG
1 AAGACTTTGG
33039099 AAGACTTTGG
1 AAGACTTTGG
33039109 AAGACTTTG
1 AAGACTTTG
33039118 AAGTCAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (10 bp):
AAGACTTTGG
Found at i:33043850 original size:82 final size:81
Alignment explanation
Indices: 33043701--33043851 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 81
33043691 GCGCAAATTG
** * *
33043701 TTGGTTAAACCAACTAGATTTGGGCTCACTTTCGCGGTTTATCAGCTAGGATCTAGGTGCCAGGA
1 TTGGTTAAACCAACTAGAGCTGGGCTCACTTTCGCGGCTTATCAGCTAGGATCCAGGTGCCAGGA
33043766 ATTGGCGGAACTATCA
66 ATTGGCGGAACTATCA
* * * * *
33043782 TTGGTTAAATCAACTAGAGCTGGGCTCACTTATCGCGGCTTATCCGCTAGGCTCCGGGTGCCATG
1 TTGGTTAAACCAACTAGAGCTGGGCTCACTT-TCGCGGCTTATCAGCTAGGATCCAGGTGCCAGG
33043847 AATTG
65 AATTG
33043852 ACAAATTTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 28 0.47
82 32 0.53
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (81 bp):
TTGGTTAAACCAACTAGAGCTGGGCTCACTTTCGCGGCTTATCAGCTAGGATCCAGGTGCCAGGA
ATTGGCGGAACTATCA
Found at i:33054038 original size:16 final size:15
Alignment explanation
Indices: 33054017--33054077 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
33054007 TGTTTGGTTC
33054017 GCTGTAATAGAATAGA
1 GCTGTAAT-GAATAGA
33054033 GCTGTAATGTAATAGA
1 GCTGTAATG-AATAGA
* *
33054049 ACTGTAATGGAATAAA
1 GCTGTAAT-GAATAGA
*
33054065 GCTGTAATCAATA
1 GCTGTAATGAATA
33054078 TTTCAGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 5 0.13
16 33 0.85
17 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (15 bp):
GCTGTAATGAATAGA
Found at i:33054107 original size:46 final size:44
Alignment explanation
Indices: 33054054--33054147 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
33054044 ATAGAACTGT
33054054 AATGGAATAAAGCTGTAATCAATATTTCAGTTATTTGATTGAATGA
1 AATGGAATAAAGCTGTAAT-AATATTTCAG-TATTTGATTGAATGA
* * * ** *
33054100 AATGGAATAGAGTTGTAATAGTATTTTTGTGTTTGATTGAATGA
1 AATGGAATAAAGCTGTAATAATATTTCAGTATTTGATTGAATGA
33054144 AATG
1 AATG
33054148 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 18 0.43
45 7 0.17
46 17 0.40
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (44 bp):
AATGGAATAAAGCTGTAATAATATTTCAGTATTTGATTGAATGA
Found at i:33057261 original size:4 final size:4
Alignment explanation
Indices: 33057252--33057278 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33057242 CTATATACGT
33057252 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
33057279 AATAAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:33065304 original size:14 final size:15
Alignment explanation
Indices: 33065283--33065326 Score: 67
Period size: 13 Copynumber: 3.1 Consensus size: 15
33065273 GCACAAAGAC
33065283 AAGAAGAAAAAAACA
1 AAGAAGAAAAAAACA
33065298 AAG-AG-AAAAAAC-
1 AAGAAGAAAAAAACA
33065310 AAGAAGAAAAAAACA
1 AAGAAGAAAAAAACA
33065325 AA
1 AA
33065327 AATGTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 9 0.35
15 5 0.19
ACGTcount: A:0.80, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAAAAACA
Found at i:33066444 original size:29 final size:31
Alignment explanation
Indices: 33066391--33066461 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
33066381 TATTCAGTTT
* *
33066391 TTTTAAAAATTAAACCCCTTTTATTTTTCTT-
1 TTTT-AAAATTAAACCCCTGTTATTTTTATTC
* *
33066422 TTTTCAAATTAAA-TCCTGTTATTTTTATTC
1 TTTTAAAATTAAACCCCTGTTATTTTTATTC
33066452 TTTTAAAATT
1 TTTTAAAATT
33066462 TTACCTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.38
30 17 0.50
31 4 0.12
ACGTcount: A:0.30, C:0.13, G:0.01, T:0.56
Consensus pattern (31 bp):
TTTTAAAATTAAACCCCTGTTATTTTTATTC
Found at i:33069985 original size:62 final size:64
Alignment explanation
Indices: 33069861--33069984 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 64
33069851 CTATCATAAA
* *
33069861 AAAACGGGTCGAGATGGAAACCCCGCAAAGGGCATTTTGAAACCCAAAGAGAGAAAAGAAAAAT
1 AAAACGGGTCGAGATGGAAAACCCGCAAAGGGCATCTTGAAACCCAAAGAGAGAAAAGAAAAAT
* * *
33069925 AAAA-GGGTCGAGAT-GAAAACCTGTAAAGGGGATCTTGAAACCCAAAGA-A-AAAAGGAAAAA
1 AAAACGGGTCGAGATGGAAAACCCGCAAAGGGCATCTTGAAACCCAAAGAGAGAAAA-GAAAAA
33069985 AGGAAAAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
60 4 0.07
61 7 0.13
62 29 0.54
63 10 0.19
64 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (64 bp):
AAAACGGGTCGAGATGGAAAACCCGCAAAGGGCATCTTGAAACCCAAAGAGAGAAAAGAAAAAT
Found at i:33069992 original size:9 final size:8
Alignment explanation
Indices: 33069971--33069999 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
33069961 GAAACCCAAA
33069971 GAAAAAAG
1 GAAAAAAG
33069979 GAAAAAAG
1 GAAAAAAG
33069987 GAAAAAA-
1 GAAAAAAG
33069994 GAAAAA
1 GAAAAA
33070000 GAAAAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
GAAAAAAG
Found at i:33071103 original size:111 final size:112
Alignment explanation
Indices: 33070903--33071127 Score: 319
Period size: 111 Copynumber: 2.0 Consensus size: 112
33070893 AATGTTTTCC
* *
33070903 ATTTTTAATATATTCATTCATGCGAGCTTTGCTTGTAATGAAATTCAATGTTATCCACCTTACAA
1 ATTTTTAATATATTCATTCATGCGAGCTTTGCCTGCAATGAAATTCAATGTTATCCACCTTACAA
**
33070968 CCCTGTTCAAGTATGTTTGAATTGAAATAACGGTTAGTGGACTAATG
66 CCCTGTTCAAAAATGTTTGAATTGAAATAACGGTTAGTGGACTAATG
* * * * *
33071015 ATTTTTAATCTTTTCATTCATGCGAGTTTTGCCT-CAATTAAATTCAAT-TTCATCCACCTTATA
1 ATTTTTAATATATTCATTCATGCGAGCTTTGCCTGCAATGAAATTCAATGTT-ATCCACCTTACA
* * *
33071078 ACCCTGTTCAAAAATTTTTGCATTGAAATAACGGTTAGTGGTCTAATG
65 ACCCTGTTCAAAAATGTTTGAATTGAAATAACGGTTAGTGGACTAATG
33071126 AT
1 AT
33071128 ATAAGGAATA
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
110 2 0.02
111 68 0.68
112 30 0.30
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (112 bp):
ATTTTTAATATATTCATTCATGCGAGCTTTGCCTGCAATGAAATTCAATGTTATCCACCTTACAA
CCCTGTTCAAAAATGTTTGAATTGAAATAACGGTTAGTGGACTAATG
Found at i:33071629 original size:49 final size:48
Alignment explanation
Indices: 33071569--33072787 Score: 765
Period size: 49 Copynumber: 24.9 Consensus size: 48
33071559 TACCCTAAAT
* * * *
33071569 ATGTGAAGGGAACGATTGAAACCGCAACGACGAATCTTATATCCTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * * * * *
33071618 ATGT-GATGGGAAACATTGAAGCTGTAACAATGAATCTTATACCTTAGA-
1 ATGTGGA-GGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * ** *
33071666 ATGTGGAGGGAAAGGTCGAAGCCGCAACGATAAACCTTATACCTTGCAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTAG-AG
33071715 ATGT-GATGGGAAAGATTGAAG-CGCAACGACGAACCTTATACCTTAGAG
1 ATGTGGA-GGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * * * *
33071763 ATATGGAGGGAAATATTGAAGCTGCAATGATGAACCTTATACCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * * **
33071812 ATATGGAGGGAAAGGTTGAAGCCGCAATGGTGAACCTTATACCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * * * *
33071861 ATGT-GATGGGAAAGGTTAAAGCTGCAATGACGAACCCTATACCTTAGAG
1 ATGTGGA-GGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * * * *** * * *
33071910 ATGT-TATAGGAAAGATTAAAGCTGCAACGGTAAATCTTGTACCCTAGGG
1 ATGTGGA-GGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * ** * * ** *
33071959 ATATGGAGGGAAAGGTTGAAATCGTAATGGTGAACCTTATACCCTAGAT
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * * * * * * * *
33072008 ATGTGAAGGGAAATACTAAAGTCGCAACGGCGAATCTTGTACCCTAAAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * ** ** * *
33072057 ATGTGAAGGGAAAGATTGAAGTCATAACGGTGAATCTTGTACCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
** * * *
33072106 ATGTGTTGGGAAATATTGAAGCCGCAATGACGAATCTTATACCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * * * * *
33072155 AAGTGGAGGGAAAGGTTGAAGCAGCAAC-AGCAAACCTTATACTTAGAA
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGA-CGAACCTTATACCTAGAG
* * *
33072203 ATGT-GATGGGAAAGATTGAAGCCGTCGTAACGACGGATCTTGTACCTTAGAG
1 ATGTGGA-GGGAAAGATTGAAGCCG-C--AACGACGAACCTTATACC-TAGAG
* * * *
33072255 ATATGGAGGGAAAGGTTGAAGCCGTAACGACGAACCTTATATCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * * *
33072304 ATATGGAGAGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * *
33072353 ATGTGGAGGGAAAGGTTGAAGCCGTAAC-ATTGAACCTTATACCTTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGA-CGAACCTTATACC-TAGAG
* ** ** * *
33072402 ATGT-GATGCGAAAGATTGAAGTTGCAACGGTGAATCTTGTACCCTAGAG
1 ATGTGGA-GGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * * * * *
33072451 ATATGGAGGGAAAGGTTGAAGTCGTAAC-AGCAAACCTTGTACCCTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGA-CGAACCTTATA-CCTAGAG
* * * ** * *
33072500 GTGTGAAAGGAAAGATTGAAGTTG-ATACGACGAATCTTGTACCCTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCA-ACGACGAACCTTATA-CCTAGAG
* * * ** * *
33072549 ATATAGAGGGAAAGGTTGAAGCCGCAACGAAAAACTTTATACCTTAAAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACC-TAGAG
* * * * *
33072598 ATAT-GATAGGAAAGATTGAAGCCGCAAC-AGTGAATCTTGTACCTAGAG
1 ATGTGGA-GGGAAAGATTGAAGCCGCAACGA-CGAACCTTATACCTAGAG
* * *
33072646 ATATGGAGGGAAAGCTTGAAGCCGCAATGACGAACCTTATACCCTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * *** *
33072695 ATGTGGAGGGAAAGATCGAAGTCGCAACGGTAAATCTTATACCCTAGAG
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATA-CCTAGAG
* * * * * *
33072744 ATGTAGAAGGAAAGGTTGAAGCCGGAACAACGAATCTTATACCT
1 ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCT
33072788 TGAAGACGAG
Statistics
Matches: 930, Mismatches: 202, Indels: 77
0.77 0.17 0.06
Matches are distributed among these distances:
47 4 0.00
48 148 0.16
49 731 0.79
50 10 0.01
51 11 0.01
52 24 0.03
53 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGTGGAGGGAAAGATTGAAGCCGCAACGACGAACCTTATACCTAGAG
Found at i:33071883 original size:98 final size:98
Alignment explanation
Indices: 33071575--33072788 Score: 974
Period size: 98 Copynumber: 12.4 Consensus size: 98
33071565 AAATATGTGA
* * * * * *
33071575 AGGGAACGATTGAAACCGCAACGACGAATCTTATATCC-TAGAGATGT-GATGGGAAACATTGAA
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATA-CCTTAGAGATGTGGA-GGGAAAGATTGAA
* * *** *
33071638 GCTGTAACAATGAATCTTATACCTTAGA-ATGTGG
64 GCCGCAACGGCGAATCTTATACCTTAGAGATATGG
* *
33071672 AGGGAAAGGTCGAAGCCGCAACGATAAACCTTATACCTT-GCAGATGT-GATGGGAAAGATTGAA
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAG-AGATGTGGA-GGGAAAGATTGAA
* *
33071735 G-CGCAACGACGAACCTTATACCTTAGAGATATGG
64 GCCGCAACGGCGAATCTTATACCTTAGAGATATGG
** * * * *
33071769 AGGGAAATATTGAAGCTGCAATGATGAACCTTATACCTTAGAGATATGGAGGGAAAGGTTGAAGC
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGC
* * * *
33071834 CGCAATGGTGAACCTTATACCTTAGAGATGT-G
66 CGCAACGGCGAATCTTATACCTTAGAGATATGG
* * * * * * * *
33071866 ATGGGAAAGGTTAAAGCTGCAATGACGAACCCTATACCTTAGAGATGT-TATAGGAAAGATTAAA
1 A-GGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGA-GGGAAAGATTGAA
* ** * * *
33071930 GCTGCAACGGTAAATCTTGTACCCTAGGGATATGG
64 GCCGCAACGGCGAATCTTATACCTTAGAGATATGG
** * * * * * * * * * *
33071965 AGGGAAAGGTTGAAATCGTAATGGTGAACCTTATACCCTAGATATGTGAAGGGAAATACTAAAGT
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGC
* * * * *
33072030 CGCAACGGCGAATCTTGTACCCTAAAGATGTGA
66 CGCAACGGCGAATCTTATACCTTAGAGATATGG
* * ** * * * ** *
33072063 AGGGAAAGATTGAAGTCATAACGGTGAATCTTGTACCTTAGAGATGTGTTGGGAAATATTGAAGC
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGC
* *
33072128 CGCAATGACGAATCTTATACCTTAGAGA-AGTGG
66 CGCAACGGCGAATCTTATACCTTAGAGATA-TGG
* *
33072161 AGGGAAAGGTTGAAGCAGCAAC-A-GCAAACCTTATA-CTTAGAAATGT-GATGGGAAAGATTGA
1 AGGGAAAGGTTGAAGCCGCAACGATG--AACCTTATACCTTAGAGATGTGGA-GGGAAAGATTGA
* * *
33072222 AGCCGTCGTAACGACGGATCTTGTACCTTAGAGATATGG
63 AGCCG-C--AACGGCGAATCTTATACCTTAGAGATATGG
* * * * * *
33072261 AGGGAAAGGTTGAAGCCGTAACGACGAACCTTATATCTTAGAGATATGGAGAGAAAGGTTGAAGC
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGC
* *
33072326 CGCAACGGCGAACCTTATACCTTAGAGATGTGG
66 CGCAACGGCGAATCTTATACCTTAGAGATATGG
* *
33072359 AGGGAAAGGTTGAAGCCGTAAC-ATTGAACCTTATACCTTAGAGATGT-GATGCGAAAGATTGAA
1 AGGGAAAGGTTGAAGCCGCAACGA-TGAACCTTATACCTTAGAGATGTGGA-GGGAAAGATTGAA
** * * *
33072422 GTTGCAACGGTGAATCTTGTACCCTAGAGATATGG
64 GCCGCAACGGCGAATCTTATACCTTAGAGATATGG
* * * * * * *
33072457 AGGGAAAGGTTGAAGTCGTAAC-A-GCAAACCTTGTACCCTAGAGGTGTGAAAGGAAAGATTGAA
1 AGGGAAAGGTTGAAGCCGCAACGATG--AACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAA
** * * * *
33072520 GTTG-ATACGACGAATCTTGTACCCTAGAGATATAG
64 GCCGCA-ACGGCGAATCTTATACCTTAGAGATATGG
** * * * *
33072555 AGGGAAAGGTTGAAGCCGCAACGAAAAACTTTATACCTTAAAGATAT-GATAGGAAAGATTGAAG
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGA-GGGAAAGATTGAAG
* * *
33072619 CCGCAACAGTGAATCTTGTACC-TAGAGATATGG
65 CCGCAACGGCGAATCTTATACCTTAGAGATATGG
* * * * * *
33072652 AGGGAAAGCTTGAAGCCGCAATGACGAACCTTATACCCTAGAGATGTGGAGGGAAAGATCGAAGT
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGC
** * * *
33072717 CGCAACGGTAAATCTTATACCCTAGAGATGTAG
66 CGCAACGGCGAATCTTATACCTTAGAGATATGG
* * * * *
33072750 AAGGAAAGGTTGAAGCCGGAACAACGAATCTTATACCTT
1 AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTT
33072789 GAAGACGAGG
Statistics
Matches: 910, Mismatches: 173, Indels: 67
0.79 0.15 0.06
Matches are distributed among these distances:
96 26 0.03
97 220 0.24
98 574 0.63
99 6 0.01
100 55 0.06
101 26 0.03
102 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (98 bp):
AGGGAAAGGTTGAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGC
CGCAACGGCGAATCTTATACCTTAGAGATATGG
Found at i:33071973 original size:147 final size:145
Alignment explanation
Indices: 33071569--33072788 Score: 861
Period size: 147 Copynumber: 8.3 Consensus size: 145
33071559 TACCCTAAAT
* * * * * * *
33071569 ATGTGAAGGGAACGATTGAAACCGCAACGACGAATCTTATATCC-TAGAGATGTGATGGGAAACA
1 ATGTG-AGGGAAAGGTTGAAGCTGCAACGACGAACCTTATA-CCTTAGAGATGTGA-AGGAAAGA
* * * * * *
33071633 TTGAAGCTGTAACAATGAATCTTATACCTTAGA-ATGTGGAGGGAAAGGTCGAAGCCGCAACGAT
63 TTGAAGCTGCAACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATGAT
*
33071697 AAACCTTATACCTT-GCAG
128 GAACCTTATACCTTAG-AG
* * * *
33071715 ATGTGATGGGAAAGATTGAAGC-GCAACGACGAACCTTATACCTTAGAGATATGGAGGGAAATAT
1 ATGTGA-GGGAAAGGTTGAAGCTGCAACGACGAACCTTATACCTTAGAGATGT-GAAGGAAAGAT
* * * *
33071779 TGAAGCTGCAATGATGAACCTTATACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATGGTG
64 TGAAGCTGCAACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATGATG
33071844 AACCTTATACCTTAGAG
129 AACCTTATACCTTAGAG
* * * *
33071861 ATGTGATGGGAAAGGTTAAAGCTGCAATGACGAACCCTATACCTTAGAGATGTTATAGGAAAGAT
1 ATGTGA-GGGAAAGGTTGAAGCTGCAACGACGAACCTTATACCTTAGAGATGTGA-AGGAAAGAT
* * * * * ** * *
33071926 TAAAGCTGCAACGGTAAATCTTGTACCCTAGGGATATGGAGGGAAAGGTTGAAATCGTAATGGTG
64 TGAAGCTGCAACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATGATG
* *
33071991 AACCTTATACCCTAGAT
129 AACCTTATACCTTAGAG
*** * * * * * *
33072008 ATGTGAAGGGAAATACTAAAG-TCGCAACGGCGAATCTTGTACCCTAAAGATGTGAAGGGAAAGA
1 ATGTG-AGGGAAAGGTTGAAGCT-GCAACGACGAACCTTATACCTTAGAGATGTGAA-GGAAAGA
* * ** **
33072072 TTGAAG-T-CATAACGGTGAATCTTGTACCTTAGAGATGTGTTGGGAAATATTGAAGCCGCAATG
63 TTGAAGCTGC--AACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATG
* *
33072135 ACGAATCTTATACCTTAGAG
126 ATGAACCTTATACCTTAGAG
* * * * *
33072155 AAGTGGAGGGAAAGGTTGAAGCAGCAAC-AGCAAACCTTATA-CTTAGAAATGTGATGGGAAAGA
1 ATGT-GAGGGAAAGGTTGAAGCTGCAACGA-CGAACCTTATACCTTAGAGATGTGA-AGGAAAGA
* * * * *
33072218 TTGAAGCCGTCGTAACGACGGATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGTAAC
63 TTGAAG-C-T-GCAACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAAT
* *
33072283 GACGAACCTTATATCTTAGAG
125 GATGAACCTTATACCTTAGAG
* * * * * *
33072304 ATATGGAGAGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGGAGGGAAAGGT
1 ATGT-GAGGGAAAGGTTGAAGCTGCAACGACGAACCTTATACCTTAGAGATGT-GAAGGAAAGAT
* * * * * * * ** * *
33072369 TGAAGCCGTAAC-ATTGAACCTTATACCTTAGAGATGT-GATGCGAAAGATTGAAGTTGCAACGG
64 TGAAGCTGCAACGA-TGAATCTTGTACCTTAGAGATATGGA-GGGAAAGGTTGAAGCCGCAATGA
* * *
33072432 TGAATCTTGTACCCTAGAG
127 TGAACCTTATACCTTAGAG
* * * * * *
33072451 ATATGGAGGGAAAGGTTGAAG-TCGTAAC-AGCAAACCTTGTACCCTAGAGGTGTGAAAGGAAAG
1 ATGT-GAGGGAAAGGTTGAAGCT-GCAACGA-CGAACCTTATACCTTAGAGATGTG-AAGGAAAG
* * * * *
33072514 ATTGAAGTTG-ATACGACGAATCTTGTACCCTAGAGATATAGAGGGAAAGGTTGAAGCCGCAACG
62 ATTGAAGCTGCA-ACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATG
** * *
33072578 AAAAACTTTATACCTTAAAG
126 ATGAACCTTATACCTTAGAG
* * * * * * * * * *
33072598 ATATGATAGGAAAGATTGAAGCCGCAAC-AGTGAATCTTGTACC-TAGAGATATGGAGGGAAAGC
1 ATGTGA-GGGAAAGGTTGAAGCTGCAACGA-CGAACCTTATACCTTAGAGATGT-GAAGGAAAGA
* * * * * * * * * * * *
33072661 TTGAAGCCGCAATGACGAACCTTATACCCTAGAGATGTGGAGGGAAAGATCGAAGTCGCAACGGT
63 TTGAAGCTGCAACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATGAT
* * *
33072726 AAATCTTATACCCTAGAG
128 GAACCTTATACCTTAGAG
* * * * *
33072744 ATGTAGAAGGAAAGGTTGAAGCCGGAACAACGAATCTTATACCTT
1 ATGT-GAGGGAAAGGTTGAAGCTGCAACGACGAACCTTATACCTT
33072789 GAAGACGAGG
Statistics
Matches: 859, Mismatches: 176, Indels: 77
0.77 0.16 0.07
Matches are distributed among these distances:
144 2 0.00
145 63 0.07
146 228 0.27
147 439 0.51
148 5 0.01
149 97 0.11
150 23 0.03
151 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (145 bp):
ATGTGAGGGAAAGGTTGAAGCTGCAACGACGAACCTTATACCTTAGAGATGTGAAGGAAAGATTG
AAGCTGCAACGATGAATCTTGTACCTTAGAGATATGGAGGGAAAGGTTGAAGCCGCAATGATGAA
CCTTATACCTTAGAG
Found at i:33073203 original size:39 final size:39
Alignment explanation
Indices: 33073149--33073243 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 39
33073139 ACATCATCAT
* * * *
33073149 CATCCAATCTCTTACCCCAACCATGGGGTAGATTAAAGC
1 CATCCAATCTTTTACCCCAACCATAGGGCAAATTAAAGC
* *
33073188 CATCCAATCTTTTACCCCGACCATAGGGCAAATTGAAGC
1 CATCCAATCTTTTACCCCAACCATAGGGCAAATTAAAGC
*
33073227 CATCCATTCTTTTACCC
1 CATCCAATCTTTTACCC
33073244 TAATCAAGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (39 bp):
CATCCAATCTTTTACCCCAACCATAGGGCAAATTAAAGC
Found at i:33090035 original size:21 final size:21
Alignment explanation
Indices: 33090009--33090050 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33089999 CTAATCTAAT
* *
33090009 TAAAATTAAATTAAAATTTCA
1 TAAAATTAAAATAAAAATTCA
33090030 TAAAATTAAAATAAAAATTCA
1 TAAAATTAAAATAAAAATTCA
33090051 ATTTAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATTAAAATAAAAATTCA
Found at i:33090645 original size:28 final size:28
Alignment explanation
Indices: 33090627--33090687 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
33090617 AATTGAATAT
*
33090627 AAATTTT-AATTTAAAAATAAATAATTA
1 AAATTTTAAAATTAAAAATAAATAATTA
33090654 AAATTTTAAAATTAAAAATACAA-AATTTA
1 AAATTTTAAAATTAAAAATA-AATAA-TTA
33090683 AAATT
1 AAATT
33090688 AAAATTTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 13 0.43
29 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATTTTAAAATTAAAAATAAATAATTA
Found at i:33090654 original size:14 final size:13
Alignment explanation
Indices: 33090637--33090693 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
33090627 AAATTTTAAT
33090637 TTAAAAATAAATAA
1 TTAAAAATAAA-AA
* *
33090651 TTAAAATTTTAAAA
1 TTAAAA-ATAAAAA
33090665 TTAAAAATACAAAA
1 TTAAAAATA-AAAA
* *
33090679 TTTAAAATTAAAA
1 TTAAAAATAAAAA
33090692 TT
1 TT
33090694 TACAATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
13 7 0.20
14 25 0.71
15 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:33090697 original size:22 final size:21
Alignment explanation
Indices: 33090634--33090698 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
33090624 TATAAATTTT
*
33090634 AATTTAAAAATAAATAATTA-AA
1 AATTT-AAAATTAA-AATTACAA
* *
33090656 ATTTTAAAATTAAAAATACAA
1 AATTTAAAATTAAAATTACAA
33090677 AATTTAAAATTAAAATTTACAA
1 AATTTAAAATTAAAA-TTACAA
33090699 TATATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.11
21 23 0.64
22 9 0.25
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
AATTTAAAATTAAAATTACAA
Found at i:33091553 original size:18 final size:18
Alignment explanation
Indices: 33091513--33091563 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
33091503 AAATTTCTAA
*
33091513 AAAAATATTAAAAATTATAT
1 AAAAAT-TT-AAAAGTATAT
*
33091533 AAAAATTTAAAAGTATTT
1 AAAAATTTAAAAGTATAT
33091551 AAAAATTGTAAAA
1 AAAAATT-TAAAA
33091564 AATATCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.54
19 7 0.25
20 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAATTTAAAAGTATAT
Found at i:33091699 original size:23 final size:26
Alignment explanation
Indices: 33091673--33091738 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
33091663 CTTATACGTG
33091673 TAAA-CAA-ATATTTTATTAATA-AA
1 TAAATCAATATATTTTATTAATACAA
* *
33091696 TAAATCAATATTTTTTATTTATACAA
1 TAAATCAATATATTTTATTAATACAA
* * *
33091722 TAACTAAATAAATTTTA
1 TAAATCAATATATTTTA
33091739 ACTAGATAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 12 0.35
26 15 0.44
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAATCAATATATTTTATTAATACAA
Found at i:33091731 original size:26 final size:25
Alignment explanation
Indices: 33091683--33091731 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
33091673 TAAACAAATA
*
33091683 TTTTATTAATAAATAAATCAATATT
1 TTTTATTAATAAATAAATAAATATT
* *
33091708 TTTTATTTATACAATAACTAAATA
1 TTTTATTAATA-AATAAATAAATA
33091732 AATTTTAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTTATTAATAAATAAATAAATATT
Found at i:33091737 original size:26 final size:25
Alignment explanation
Indices: 33091682--33091765 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 25
33091672 GTAAACAAAT
* * * *
33091682 ATTTTATTAATAAATAAATCAATAT
1 ATTTTATTTATAAATAACTAAATAA
*
33091707 TTTTTATTTATACAATAACTAAATAA
1 ATTTTATTTATA-AATAACTAAATAA
** *
33091733 ATTTTAACTAGATAAGTAACTAAATAA
1 ATTTT-A-TTTATAAATAACTAAATAA
33091760 ATTTTA
1 ATTTTA
33091766 CGATATAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
25 10 0.21
26 15 0.32
27 18 0.38
28 4 0.09
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTTTATTTATAAATAACTAAATAA
Found at i:33091777 original size:4 final size:4
Alignment explanation
Indices: 33091770--33091847 Score: 66
Period size: 4 Copynumber: 19.0 Consensus size: 4
33091760 ATTTTACGAT
* * * * * *
33091770 ATAA ATAA ATAA GTAT GTAA ATAA GTAA ATAA ATAA CTAA ATAA ACAAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TAA
* *
33091819 ATAA ACAAA ATAA ATAA CTAA ATAA ATAA
1 ATAA A-TAA ATAA ATAA ATAA ATAA ATAA
33091848 TTTTACGATG
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
4 52 0.90
5 6 0.10
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:33091822 original size:9 final size:9
Alignment explanation
Indices: 33091808--33091832 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33091798 ATAAATAACT
33091808 AAATAAACA
1 AAATAAACA
33091817 AAATAAACA
1 AAATAAACA
33091826 AAATAAA
1 AAATAAA
33091833 TAACTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAACA
Found at i:33092361 original size:21 final size:21
Alignment explanation
Indices: 33092320--33092361 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33092310 CTAGTCTAAT
*
33092320 TAAAATTAAATAAAAGTTTCA
1 TAAAATTAAATAAAAGATTCA
33092341 TAAAATTAAAATAAAA-ATTCA
1 TAAAATT-AAATAAAAGATTCA
33092362 ATTTAACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAAATTAAATAAAAGATTCA
Found at i:33092807 original size:22 final size:22
Alignment explanation
Indices: 33092782--33092828 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
33092772 AAATTTAATT
* *
33092782 TTTATATTTTTAATTTTAAGAA
1 TTTAGATTTTTAATTTTAAAAA
**
33092804 TTTAGATTTTTTGTTTTAAAAA
1 TTTAGATTTTTAATTTTAAAAA
33092826 TTT
1 TTT
33092829 TACAAGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTAGATTTTTAATTTTAAAAA
Found at i:33093941 original size:10 final size:10
Alignment explanation
Indices: 33093926--33093999 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
33093916 ATCAAATTTC
33093926 TAAAAAATAT
1 TAAAAAATAT
*
33093936 TAAAAATTA-
1 TAAAAAATAT
33093945 TATAAAAAT-T
1 TA-AAAAATAT
*
33093955 T-AAAAGTAT
1 TAAAAAATAT
*
33093964 TTAAAAAT-T
1 TAAAAAATAT
33093973 GTAAAAAATAT
1 -TAAAAAATAT
33093984 CT-AAAAATA-
1 -TAAAAAATAT
33093993 TAAAAAA
1 TAAAAAA
33094000 AAACTCAAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
8 6 0.12
9 10 0.20
10 33 0.65
11 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:33094000 original size:20 final size:19
Alignment explanation
Indices: 33093928--33093999 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
33093918 CAAATTTCTA
*
33093928 AAAAATATTAAAAATTATAT
1 AAAAAT-TTAAAAAATATAT
* *
33093948 AAAAATTT-AAAAGTATTT
1 AAAAATTTAAAAAATATAT
*
33093966 AAAAATTGTAAAAAATATCT
1 AAAAATT-TAAAAAATATAT
*
33093986 AAAAATATAAAAAA
1 AAAAATTTAAAAAA
33094000 AAACTCAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
18 15 0.33
19 10 0.22
20 20 0.44
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAATTTAAAAAATATAT
Found at i:33094279 original size:4 final size:4
Alignment explanation
Indices: 33094262--33094368 Score: 70
Period size: 4 Copynumber: 25.8 Consensus size: 4
33094252 AAATTTTAAC
* ** * * **
33094262 TAAA TAAG TAAA TAAA TAAA TTTTA TGATA TAAA TAAA TAAG TATG TAAA
1 TAAA TAAA TAAA TAAA TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
* * * * *
33094312 TAAG TAAA TAAA TAAT TAAA TAAA CAAAA TAAA CAAAA TAAA TAAC TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA -TAAA TAAA -TAAA TAAA TAAA TAAA
33094362 TAAA TAA
1 TAAA TAA
33094369 TTTTACGATG
Statistics
Matches: 79, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
4 68 0.86
5 11 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:33094343 original size:9 final size:9
Alignment explanation
Indices: 33094329--33094353 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33094319 ATAAATAATT
33094329 AAATAAACA
1 AAATAAACA
33094338 AAATAAACA
1 AAATAAACA
33094347 AAATAAA
1 AAATAAA
33094354 TAACTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAATAAACA
Found at i:33094596 original size:7 final size:7
Alignment explanation
Indices: 33094584--33094651 Score: 57
Period size: 7 Copynumber: 9.0 Consensus size: 7
33094574 ACAGTGGAAA
33094584 GAAAATT
1 GAAAATT
33094591 GAAAATAT
1 GAAAAT-T
33094599 GAAAAATT
1 G-AAAATT
*
33094607 GAAAGAGT
1 GAAA-ATT
33094615 GAAAATAT
1 GAAAAT-T
*
33094623 AGGAAAATG
1 --GAAAATT
33094632 GAAAA-T
1 GAAAATT
33094638 GAAAATT
1 GAAAATT
33094645 GAAAATT
1 GAAAATT
33094652 ATTATTTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
6 5 0.10
7 23 0.46
8 11 0.22
9 5 0.10
10 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (7 bp):
GAAAATT
Found at i:33094619 original size:24 final size:22
Alignment explanation
Indices: 33094584--33094649 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
33094574 ACAGTGGAAA
*
33094584 GAAAATTGAAAATATGAAAAATT
1 GAAAA-TGAAAATATGAAAAATG
*
33094607 GAAAGAGTGAAAATATAGGAAAATG
1 GAAA-A-TGAAAATAT-GAAAAATG
33094632 GAAAATGAAAAT-TGAAAA
1 GAAAATGAAAATATGAAAA
33094650 TTATTATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 4 0.11
22 1 0.03
23 11 0.30
24 11 0.30
25 10 0.27
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.20
Consensus pattern (22 bp):
GAAAATGAAAATATGAAAAATG
Found at i:33095045 original size:31 final size:31
Alignment explanation
Indices: 33095007--33095065 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
33094997 TATTTGAGTT
33095007 AATCAAGTTATTT-GGATCAACTCGAATAAAA
1 AATCAAGTT-TTTCGGATCAACTCGAATAAAA
33095038 AATCAAGTTTTTCGGATCAACTCGAATA
1 AATCAAGTTTTTCGGATCAACTCGAATA
33095066 TAAATTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (31 bp):
AATCAAGTTTTTCGGATCAACTCGAATAAAA
Found at i:33095210 original size:70 final size:67
Alignment explanation
Indices: 33095105--33095237 Score: 187
Period size: 70 Copynumber: 1.9 Consensus size: 67
33095095 TCCGAATAAA
* * * *
33095105 AAAATGTAAAACTATGTCGTTTTGATAATTGTTTACCTTTTCTAAAGTTAAAA-GTCAAAATCAT
1 AAAATGTAAAACTACGTCGTTTTGATAAATATTTA-CTTAT-T-AAGTTAAAAGGT-AAAATCAT
33095169 TAAGTT
62 TAAGTT
33095175 AAAATGTAAAACTACGTCGTTTTGATAAATATTTACTTATTAAGTTAAAAGGTAAAATCATTA
1 AAAATGTAAAACTACGTCGTTTTGATAAATATTTACTTATTAAGTTAAAAGGTAAAATCATTA
33095238 TATTGTTCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
67 19 0.33
68 3 0.05
69 4 0.07
70 32 0.55
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (67 bp):
AAAATGTAAAACTACGTCGTTTTGATAAATATTTACTTATTAAGTTAAAAGGTAAAATCATTAAG
TT
Found at i:33096484 original size:58 final size:58
Alignment explanation
Indices: 33096420--33096538 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 58
33096410 AAAAGAGTTA
* *
33096420 TTTATGAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
1 TTTATGAGTATT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
*
33096478 TTTATGAGTATTTTTGAAGAATAAAATTATATTTGGGTTTAAAAATATTTGGGTTTAG
1 TTTATGAGTATTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
33096536 TTT
1 TTT
33096539 GTTGATGGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (58 bp):
TTTATGAGTATTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAG
Found at i:33097536 original size:16 final size:14
Alignment explanation
Indices: 33097516--33097544 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33097506 GTATGTAAAG
33097516 TGTGTGTACATTGT
1 TGTGTGTACATTGT
33097530 TGTGTGTACATTGT
1 TGTGTGTACATTGT
33097544 T
1 T
33097545 AAAAGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (14 bp):
TGTGTGTACATTGT
Found at i:33106775 original size:17 final size:18
Alignment explanation
Indices: 33106755--33106806 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
33106745 TCGAATTTGA
33106755 ATTTTATATTATATTA-T
1 ATTTTATATTATATTATT
*
33106772 ATTTTATATTTTATTATT
1 ATTTTATATTATATTATT
* *
33106790 ATTTCATAAT-TATTATT
1 ATTTTATATTATATTATT
33106807 TATAATAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTATATTATATTATT
Found at i:33107100 original size:45 final size:46
Alignment explanation
Indices: 33107036--33107130 Score: 149
Period size: 45 Copynumber: 2.1 Consensus size: 46
33107026 TTTATGGTTT
*
33107036 TTGTGTGTGGTCCTTATTATTACGTTATCATA-TTT-GATCATTTCA
1 TTGTGTGTGGTCCTTATTATTACGTTAACATATTTTCG-TCATTTCA
*
33107081 TTGTGTGTGGTCTTTATTATTACGTTAACATATTTTCGTCATTTCA
1 TTGTGTGTGGTCCTTATTATTACGTTAACATATTTTCGTCATTTCA
33107127 TTGT
1 TTGT
33107131 CAATCTATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
45 30 0.65
46 15 0.33
47 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.16, T:0.53
Consensus pattern (46 bp):
TTGTGTGTGGTCCTTATTATTACGTTAACATATTTTCGTCATTTCA
Found at i:33107760 original size:21 final size:20
Alignment explanation
Indices: 33107730--33107769 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33107720 GATAAATCAA
33107730 CCTCTATAATAATCACTCTCC
1 CCTCTATAATAATC-CTCTCC
* *
33107751 CCTCTTTAATATTCCTCTC
1 CCTCTATAATAATCCTCTC
33107770 TCGTTGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.40
Consensus pattern (20 bp):
CCTCTATAATAATCCTCTCC
Found at i:33108730 original size:17 final size:17
Alignment explanation
Indices: 33108694--33108765 Score: 69
Period size: 17 Copynumber: 4.2 Consensus size: 17
33108684 GGTAAAGATA
*
33108694 TAAATTTAGTTTTAAA-T
1 TAAATTTA-TTATAAATT
*
33108711 TAAATTTATTATGAATT
1 TAAATTTATTATAAATT
33108728 TAAATTTGCA-TA-AAATT
1 TAAATTT--ATTATAAATT
*
33108745 TGAATTTATTATAAATT
1 TAAATTTATTATAAATT
33108762 TAAA
1 TAAA
33108766 CTTAAAACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 34 0.76
18 2 0.04
19 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (17 bp):
TAAATTTATTATAAATT
Found at i:33109551 original size:22 final size:21
Alignment explanation
Indices: 33109523--33109597 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
33109513 TAATAATGGC
33109523 TTAATAATAATTAATAATAATA
1 TTAATAATAATTAATAA-AATA
*
33109545 TTAATAACAATTACA-ACAAATA
1 TTAATAATAATTA-ATA-AAATA
*
33109567 TTAAT-ATGAAATTAAT-GAATA
1 TTAATAAT--AATTAATAAAATA
33109588 TTAATAATAA
1 TTAATAATAA
33109598 CGAATGGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
20 2 0.05
21 10 0.23
22 25 0.57
23 7 0.16
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (21 bp):
TTAATAATAATTAATAAAATA
Found at i:33110696 original size:58 final size:57
Alignment explanation
Indices: 33110634--33110965 Score: 323
Period size: 58 Copynumber: 5.7 Consensus size: 57
33110624 AAATTTTAGG
* * * *
33110634 AAATTACATTTTGACCCCAAAACTTC-CAAAAATTACCATTTCACCCTCGAACTTCCCA
1 AAATTCCATTTTGACCCC--GATTTCACAAAAATTACCATTTTACCCTCGAACTTCCCA
* * *
33110692 AAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCTCGAACCTT-CTA
1 AAATTCCA-TTTTGACCCCGATTTCACAAAAATTACCATTTTACCCTCGAA-CTTCCCA
* * *
33110750 AAATTCCATTTTTGACCTCGATTTCACCAAAAATTACCATTTTACCC-CTAAACTTTCCA
1 AAATTCCA-TTTTGACCCCGATTTCA-CAAAAATTACCATTTTACCCTC-GAACTTCCCA
* * * * **
33110809 AAATTTCATTTTGACCCTGATTTCACCAAAATTACCATTTTACCCTCGAACCTCTTA
1 AAATTCCATTTTGACCCCGATTTCACAAAAATTACCATTTTACCCTCGAACTTCCCA
* * * *
33110866 AAATTCCATTTTTAACCCCGATTTTATCAAAAATTACCATTTTA-CCTCCGAAGCCT-CAA
1 AAATTCCA-TTTTGACCCCGATTTCA-CAAAAATTACCATTTTACCCT-CGAA-CTTCCCA
* * *
33110925 AAATTCCATTTTAACCCTGATTTCACCAAAATTACCATTTT
1 AAATTCCATTTTGACCCCGATTTCACAAAAATTACCATTTT
33110966 GCCCCCGGTA
Statistics
Matches: 232, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
57 50 0.22
58 108 0.47
59 71 0.31
60 3 0.01
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (57 bp):
AAATTCCATTTTGACCCCGATTTCACAAAAATTACCATTTTACCCTCGAACTTCCCA
Found at i:33110721 original size:29 final size:28
Alignment explanation
Indices: 33110662--33110970 Score: 163
Period size: 29 Copynumber: 10.7 Consensus size: 28
33110652 AAAACTTCCA
* *
33110662 AAAATTACCATTTCACCCTCGAACTTC-CC
1 AAAATTACCATTTTACCC-CG-ATTTCACC
33110691 AAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAATTACCA-TTTT-ACCCCGATTTCACC
* *
33110720 AAAATTACCATTTTACCCTCGAACCTT--CT
1 AAAATTACCATTTTACCC-CG-A-TTTCACC
*
33110749 AAAATT-CCATTTTTGACCTCGATTTCACC
1 AAAATTACCA-TTTT-ACCCCGATTTCACC
*
33110778 AAAAATTACCATTTTACCCCTAAACTTT--CC
1 -AAAATTACCATTTTACCCC--GA-TTTCACC
* *
33110808 AAAATT-TCATTTTGACCCTGATTTCACC
1 AAAATTACCATTTT-ACCCCGATTTCACC
** **
33110836 AAAATTACCATTTTACCCTCGAACCTC-TT
1 AAAATTACCATTTTACCC-CG-ATTTCACC
* *
33110865 AAAATT-CCATTTTTAACCCCGATTTTATCA
1 AAAATTACCA-TTTT-ACCCCGATTTCA-CC
*** * *
33110895 AAAATTACCATTTTACCTCCGAAGCCTCA
1 AAAATTACCATTTTACC-CCGATTTCACC
*
33110924 AAAATT-CCATTTTAACCCTGATTTCACC
1 AAAATTACCATTTT-ACCCCGATTTCACC
*
33110952 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
33110971 CGGTATCCAA
Statistics
Matches: 214, Mismatches: 36, Indels: 61
0.69 0.12 0.20
Matches are distributed among these distances:
26 3 0.01
27 3 0.01
28 59 0.28
29 93 0.43
30 44 0.21
31 9 0.04
32 3 0.01
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGATTTCACC
Found at i:33110853 original size:116 final size:116
Alignment explanation
Indices: 33110659--33110965 Score: 431
Period size: 116 Copynumber: 2.6 Consensus size: 116
33110649 CCCAAAACTT
* * * *
33110659 CCAAAAATTACCATTTCA-CCCTCGAACTTCCCAAAATTCCATTTTTAACCCCGATTTCACCAAA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCA-TTTTAACCCTGATTTCACCAAA
* *
33110723 ATTACCATTTTACCCTCGAACCT-TCTAAAATTCCATTTTTGACCTCGATTTCA
64 ATTACCATTTTACCCTCGAACCTCT-TAAAATTCCATTTTTAACCCCGATTTCA
* *
33110776 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTGACCCTGATTTCACCAAAAT
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCTGATTTCACCAAAAT
*
33110841 TACCATTTTACCCTCGAACCTCTTAAAATTCCATTTTTAACCCCGATTTTA
66 TACCATTTTACCCTCGAACCTCTTAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
33110892 TCAAAAATTACCATTTTACCTCCGAAGC-CTCAAAAATTCCATTTTAACCCTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACC-CCTAAACTTTCCAAAATTCCATTTTAACCCTGATTTCACCAAAA
33110956 TTACCATTTT
65 TTACCATTTT
33110966 GCCCCCGGTA
Statistics
Matches: 171, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
116 129 0.75
117 38 0.22
118 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (116 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCTGATTTCACCAAAAT
TACCATTTTACCCTCGAACCTCTTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:33123291 original size:76 final size:76
Alignment explanation
Indices: 33123082--33123899 Score: 1008
Period size: 76 Copynumber: 11.1 Consensus size: 76
33123072 CAGACCGCAC
* * * * * *
33123082 CAAGATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACACGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123147 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
33123158 C-A-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACAGTCTTTATCTCTGAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTCTGAAA
*
33123215 ATGAAGTAAGAG
65 TTGAAGTAAGAG
*
33123227 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123292 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * * *
33123303 CAAGATCAGTTCCTATCCTCTTGAACTTGAAGTAAAGTTGGATTTCTAGTCTTTATCTCTAAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123368 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
33123379 CAAGATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTTTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123444 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
33123455 CAAGATCATTCCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTTTGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123520 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
33123531 CAAGATCAGTTCCTATCCTCTGGAAATTGAAGTAAAGTTGGATATTAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123596 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * * *
33123607 C---A--A----C-GTCCGCTTGAAATTGAAGTAGAGTTAGATAGCACGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
33123662 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
33123673 C-A-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACA-TCTTTATCTCTGAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCA-AGTCTTTATCTCTGAAA
*
33123729 TTGAAGTAAGAA
65 TTGAAGTAAGAG
* *
33123741 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
*
33123805 TGAAATAAGAG
66 TGAAGTAAGAG
* * * *
33123816 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTTGTCCCTCTGAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTAT--CTCTGAA
*
33123881 ATTGAAATAAGAG
64 ATTGAAGTAAGAG
33123894 CAAGAT
1 CAAGAT
33123900 GAAGCACCGA
Statistics
Matches: 655, Mismatches: 62, Indels: 48
0.86 0.08 0.06
Matches are distributed among these distances:
66 54 0.08
67 2 0.00
68 42 0.06
69 72 0.11
70 3 0.00
71 4 0.01
72 1 0.00
73 2 0.00
74 3 0.00
75 95 0.15
76 343 0.52
77 8 0.01
78 26 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:33123649 original size:66 final size:65
Alignment explanation
Indices: 33123546--33123818 Score: 294
Period size: 66 Copynumber: 4.0 Consensus size: 65
33123536 TCAGTTCCTA
* * ** *
33123546 TCCTCTGGAAATTGAAGTAAAGTTGGATATTAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 TCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33123611 G
65 G
* * * *
33123612 TCCGCTTGAAATTGAAGTAGAGTTAGATAGCACGTCTTTATCTCCGAAATTGAAGTAAGAGCAAC
1 TCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
33123677 G
65 G
*
33123678 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACATCTTTATCTCTGAAATTGAAGTAAGAACA
1 ---TCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAG----
* *
33123743 AGATCATTTCCTA
59 AG--CA---AC-G
*
33123756 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAATAAGAGCAA
1 TCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
33123819 GATCATTTCC
Statistics
Matches: 176, Mismatches: 18, Indels: 26
0.80 0.08 0.12
Matches are distributed among these distances:
66 58 0.33
68 32 0.18
69 23 0.13
71 2 0.01
72 2 0.01
74 2 0.01
75 56 0.32
77 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (65 bp):
TCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG
Done.