Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 319 of 410
Found at i:99091092 original size:49 final size:48
Alignment explanation
Indices: 99090971--99091195 Score: 181
Period size: 49 Copynumber: 4.7 Consensus size: 48
99090961 CGAGATGTGT
* *
99090971 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAGATGAGA
* * * *
99091019 CAATATAAGACCATGTCTGGGACATGTCATTGGCACAG-ATATG-TGAGA
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGACAC-GTATA-GATGAGA
* * * * * * *
99091067 CTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGATTTTGAT-AGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCAT-TGACACG-TATAGATGAGA
* * * ** *
99091117 CAGTGTAAGACAATGTCTGAGACATGGCATCGACTTG-ATGGATGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAGATGAGA
*
99091163 CAAGTGTAACACCATGTCTGGGACATGGCATTG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATTG
99091196 GCATCATACC
Statistics
Matches: 140, Mismatches: 28, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
46 5 0.04
47 29 0.21
48 43 0.31
49 54 0.39
50 7 0.05
51 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGTATAGATGAGA
Found at i:99093171 original size:40 final size:40
Alignment explanation
Indices: 99093063--99093272 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99093053 CGGGATTTAA
* * * * *
99093063 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99093103 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99093143 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99093183 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99093223 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99093263 CCGGATATAT
1 CCGGATATAT
99093273 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99095867 original size:42 final size:42
Alignment explanation
Indices: 99095749--99095899 Score: 115
Period size: 42 Copynumber: 3.6 Consensus size: 42
99095739 AGTTATCATG
* * * * * * *
99095749 TAAGACCATATCCGAGATATGGCATTGATACGAGATTTCGTC
1 TAAGACCATATCTGGGACATGGCATCGATATGAGAATTCGTA
** * ** *
99095791 TAAGACCACCTCTAGGACATGGTGTCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGACATGGCATCGATATGAGAATTCGTA
* * * * *
99095833 TAAGACCATATCTGGGATATGGCATCGATGTGAG-ATCCCATG
1 TAAGACCATATCTGGGACATGGCATCGATATGAGAAT-TCGTA
*
99095875 TAAGACCATGTCTGGGACATGGCAT
1 TAAGACCATATCTGGGACATGGCAT
99095900 TGGCATCTTA
Statistics
Matches: 82, Mismatches: 26, Indels: 2
0.75 0.24 0.02
Matches are distributed among these distances:
41 2 0.02
42 80 0.98
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCATCGATATGAGAATTCGTA
Found at i:99098160 original size:5 final size:5
Alignment explanation
Indices: 99098150--99098204 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
99098140 AAGAAAATGT
99098150 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
99098200 TATTA
1 TATTA
99098205 GTTTAATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:99099667 original size:31 final size:31
Alignment explanation
Indices: 99099629--99099690 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
99099619 ATGCGCAGGT
*
99099629 TAGGTTAAAGTCAGACTGATGATTCAGCATC
1 TAGGTTAAAGTCAGACTAATGATTCAGCATC
99099660 TAGGTTAAAGTCAGACTAATGATTCAGCATC
1 TAGGTTAAAGTCAGACTAATGATTCAGCATC
99099691 CATCAGAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (31 bp):
TAGGTTAAAGTCAGACTAATGATTCAGCATC
Found at i:99100309 original size:23 final size:21
Alignment explanation
Indices: 99100269--99100311 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
99100259 ATGTTTATGG
*
99100269 CCACACGGGTGTGTCCCTTGA
1 CCACACGGGTGTGACCCTTGA
99100290 CCACACGGGCGTGTGACCCTTG
1 CCACAC-GG-GTGTGACCCTTG
99100312 TAGCTAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.14, C:0.35, G:0.30, T:0.21
Consensus pattern (21 bp):
CCACACGGGTGTGACCCTTGA
Found at i:99100443 original size:19 final size:20
Alignment explanation
Indices: 99100406--99100443 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
99100396 CTTGAAGGCT
*
99100406 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
99100426 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
99100444 AAATGTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:99108362 original size:63 final size:63
Alignment explanation
Indices: 99108294--99108434 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 63
99108284 TACACTCTTT
* * ***
99108294 CCTACATCATCACCTTCAGT-TCTGGTTTATTTTTCACAACCACCACAGCATGTACAATCATTC
1 CCTACATCAACACCTTCAGTAT-TGGTTTATTTTACACAACCACCACAGCACACACAATCATTC
* ** * *
99108357 CCTACATCAACACGTTTTGTATTTGTTTATTTTACACAAGCACCACAGCACACACAATCATTC
1 CCTACATCAACACCTTCAGTATTGGTTTATTTTACACAACCACCACAGCACACACAATCATTC
* *
99108420 TCTGCATCAACACCT
1 CCTACATCAACACCT
99108435 ACTCTAGGGA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 63 0.98
64 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (63 bp):
CCTACATCAACACCTTCAGTATTGGTTTATTTTACACAACCACCACAGCACACACAATCATTC
Found at i:99113762 original size:48 final size:48
Alignment explanation
Indices: 99113653--99113781 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
99113643 TTAACATGTA
*
99113653 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACTGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
99113700 TAACTGTAGCATATCCATTTAGCACCACGTTACATGTATCAATATGTG
1 TAACTGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
99113748 TAATTGTGGTATATCCACTTAACACCATGTTACA
1 TAACTGTGGCATATCCACTTAGCACCACGTTACA
99113782 AATATAACTG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
47 29 0.41
48 41 0.59
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.32
Consensus pattern (48 bp):
TAACTGTGGCATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:99115080 original size:27 final size:27
Alignment explanation
Indices: 99115040--99115244 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
99115030 AAAGTACTCC
*
99115040 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
99115067 C-AGGTTATAGAATTACCGTTTTACCCC
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
99115094 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
99115121 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
99115148 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
99115175 CGATTTATAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
99115202 TGATTTACAGAATTACTGTTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
99115229 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
99115245 TAAAATACCC
Statistics
Matches: 154, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 152 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:99115281 original size:81 final size:81
Alignment explanation
Indices: 99115115--99115288 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
99115105 ATTATCGTTT
* ***
99115115 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
***
99115180 TATAGAATTACAGTTT
66 TATAGAATTACAGCAA
* ** * * *
99115196 TACCCTTGATTTACAGAATTACTGTTTTATCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
* *
99115261 TGT-GAAATTACCGCAA
66 TATAG-AATTACAGCAA
*
99115277 TACCCTCAATTT
1 TACCCTCGATTT
99115289 GTAAAACTAC
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 74 0.99
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
TATAGAATTACAGCAA
Found at i:99116509 original size:25 final size:25
Alignment explanation
Indices: 99116480--99116527 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
99116470 TTATAATATG
* * *
99116480 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
99116505 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
99116528 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:99116577 original size:9 final size:9
Alignment explanation
Indices: 99116565--99116641 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
99116555 TTTGATAAAC
99116565 ATGATATGT
1 ATGATATGT
*
99116574 ATGATATGCAC
1 ATGATATG--T
99116585 ATGATATGT
1 ATGATATGT
*
99116594 ATGATATGCAC
1 ATGATATG--T
*
99116605 ATGACATGT
1 ATGATATGT
*
99116614 ATGATATGCAC
1 ATGATATG--T
99116625 ATGATATGT
1 ATGATATGT
99116634 ATGATATG
1 ATGATATG
99116642 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:99116590 original size:11 final size:11
Alignment explanation
Indices: 99116574--99116645 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
99116564 CATGATATGT
99116574 ATGATATGCAC
1 ATGATATGCAC
*
99116585 ATGATATG--T
1 ATGATATGCAC
99116594 ATGATATGCAC
1 ATGATATGCAC
* *
99116605 ATGACATG--T
1 ATGATATGCAC
99116614 ATGATATGCAC
1 ATGATATGCAC
*
99116625 ATGATATG--T
1 ATGATATGCAC
99116634 ATGATATGCAC
1 ATGATATGCAC
99116645 A
1 A
99116646 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:99116653 original size:20 final size:20
Alignment explanation
Indices: 99116563--99116645 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
99116553 ATTTTGATAA
99116563 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
99116583 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
99116603 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
99116623 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
99116643 ACA
1 ACA
99116646 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:99116753 original size:24 final size:24
Alignment explanation
Indices: 99116696--99116909 Score: 319
Period size: 24 Copynumber: 9.0 Consensus size: 24
99116686 GGAGGAAGTG
99116696 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99116720 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99116743 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99116767 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99116791 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99116814 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99116838 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
99116861 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
99116885 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
99116910 ATGATAAAGC
Statistics
Matches: 176, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
23 66 0.38
24 99 0.56
25 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:99116765 original size:47 final size:47
Alignment explanation
Indices: 99116697--99116909 Score: 322
Period size: 47 Copynumber: 4.5 Consensus size: 47
99116687 GAGGAAGTGC
*
99116697 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
99116743 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
99116791 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
99116838 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
99116886 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
99116910 ATGATAAAGC
Statistics
Matches: 156, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
47 113 0.72
48 32 0.21
49 11 0.07
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:99116812 original size:71 final size:71
Alignment explanation
Indices: 99116696--99116909 Score: 351
Period size: 71 Copynumber: 3.0 Consensus size: 71
99116686 GGAGGAAGTG
99116696 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
99116761 AGTTAT
66 AGTTAT
99116767 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
99116832 AGTTAT
66 AGTTAT
* * * *
99116838 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCC
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC
99116901 TCCAGTTAT
64 -CCAGTTAT
99116910 ATGATAAAGC
Statistics
Matches: 136, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
70 23 0.17
71 102 0.75
72 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:99117134 original size:30 final size:31
Alignment explanation
Indices: 99117100--99117162 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
99117090 CGTTTACAGT
99117100 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
99117130 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
99117161 AA
1 AA
99117163 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:99120206 original size:27 final size:27
Alignment explanation
Indices: 99120002--99120205 Score: 268
Period size: 27 Copynumber: 7.6 Consensus size: 27
99119992 AAAGTACTCC
*
99120002 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
99120029 C-AGGTTATAGAATTACCGTTTTACCC-
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
99120055 CAATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
99120082 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
99120109 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
99120136 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
99120163 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
99120190 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
99120206 TAAAATACCC
Statistics
Matches: 156, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.13
27 135 0.87
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:99120242 original size:81 final size:81
Alignment explanation
Indices: 99120076--99120249 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
99120066 ATTATCGTTT
* ***
99120076 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
99120141 TATAGAATTACTGTTT
66 TATAGAATTACCGCAA
* ** * * *
99120157 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
*
99120222 TGT-GAAATTACCGCAA
66 TATAG-AATTACCGCAA
*
99120238 TACCCTCAATTT
1 TACCCTCGATTT
99120250 GTAAAACTAC
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 1 0.01
81 74 0.99
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCGCAA
Found at i:99121466 original size:25 final size:25
Alignment explanation
Indices: 99121437--99121484 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
99121427 TTATAATATG
* * *
99121437 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
99121462 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
99121485 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:99121534 original size:9 final size:9
Alignment explanation
Indices: 99121522--99121598 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
99121512 TTTGATAAAC
99121522 ATGATATGT
1 ATGATATGT
*
99121531 ATGATATGCAC
1 ATGATATG--T
99121542 ATGATATGT
1 ATGATATGT
*
99121551 ATGATATGCAC
1 ATGATATG--T
*
99121562 ATGACATGT
1 ATGATATGT
*
99121571 ATGATATGCAC
1 ATGATATG--T
99121582 ATGATATGT
1 ATGATATGT
99121591 ATGATATG
1 ATGATATG
99121599 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:99121547 original size:11 final size:11
Alignment explanation
Indices: 99121531--99121602 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
99121521 CATGATATGT
99121531 ATGATATGCAC
1 ATGATATGCAC
*
99121542 ATGATATG--T
1 ATGATATGCAC
99121551 ATGATATGCAC
1 ATGATATGCAC
* *
99121562 ATGACATG--T
1 ATGATATGCAC
99121571 ATGATATGCAC
1 ATGATATGCAC
*
99121582 ATGATATG--T
1 ATGATATGCAC
99121591 ATGATATGCAC
1 ATGATATGCAC
99121602 A
1 A
99121603 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:99121610 original size:20 final size:20
Alignment explanation
Indices: 99121520--99121602 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
99121510 ATTTTGATAA
99121520 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
99121540 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
99121560 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
99121580 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
99121600 ACA
1 ACA
99121603 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:99121710 original size:24 final size:24
Alignment explanation
Indices: 99121653--99121866 Score: 319
Period size: 24 Copynumber: 9.0 Consensus size: 24
99121643 GGAGGAAGTG
99121653 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99121677 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99121700 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99121724 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99121748 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
99121771 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
99121795 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
99121818 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
99121842 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
99121867 ATGATAAAGC
Statistics
Matches: 176, Mismatches: 9, Indels: 9
0.91 0.05 0.05
Matches are distributed among these distances:
23 66 0.38
24 99 0.56
25 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:99121722 original size:47 final size:47
Alignment explanation
Indices: 99121654--99121866 Score: 322
Period size: 47 Copynumber: 4.5 Consensus size: 47
99121644 GAGGAAGTGC
*
99121654 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
99121700 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
99121748 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
99121795 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
99121843 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
99121867 ATGATAAAGC
Statistics
Matches: 156, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
47 113 0.72
48 32 0.21
49 11 0.07
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:99121769 original size:71 final size:71
Alignment explanation
Indices: 99121653--99121866 Score: 351
Period size: 71 Copynumber: 3.0 Consensus size: 71
99121643 GGAGGAAGTG
99121653 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
99121718 AGTTAT
66 AGTTAT
99121724 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
99121789 AGTTAT
66 AGTTAT
* * * *
99121795 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCC
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC
99121858 TCCAGTTAT
64 -CCAGTTAT
99121867 ATGATAAAGC
Statistics
Matches: 136, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
70 23 0.17
71 102 0.75
72 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:99124917 original size:15 final size:15
Alignment explanation
Indices: 99124894--99124933 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
99124884 GAAGCCCAGA
99124894 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
99124909 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
99124924 ATAAGGAAAT
1 ATAAGGAAAT
99124934 TCCATTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:99128001 original size:14 final size:15
Alignment explanation
Indices: 99127982--99128011 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
99127972 TCACATATCT
99127982 AACTCATA-ATTCAA
1 AACTCATATATTCAA
99127996 AACTCATATATTCAA
1 AACTCATATATTCAA
99128011 A
1 A
99128012 TTCCGGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
AACTCATATATTCAA
Found at i:99128229 original size:38 final size:38
Alignment explanation
Indices: 99128186--99128329 Score: 137
Period size: 38 Copynumber: 3.6 Consensus size: 38
99128176 TTCCAAATTA
*
99128186 ACATGTATAACCGTGGGATATCCACTTAGCACCATGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCATGTT
*
99128224 ACATGTTTAACCGTGGTATATCCACTTAGCACCACAT-TAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCA-C-CATGT--T
* * *
99128265 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCATGTT
*
99128309 ACATGTATAACTGTGGTATAT
1 ACATGTATAACCGTGGTATAT
99128330 TCATTTACCA
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
38 41 0.48
39 2 0.02
40 7 0.08
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 5 0.06
46 2 0.02
47 23 0.27
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCATGTT
Found at i:99151126 original size:21 final size:21
Alignment explanation
Indices: 99151102--99151155 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
99151092 TACCATTGTT
*
99151102 TCTAATCTCACCGCTACATTA
1 TCTAATCTCACCGCTACAGTA
* *
99151123 TCTAATCTTACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
99151144 ACTAATCTCACC
1 TCTAATCTCACC
99151156 ACCACAGCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.31, G:0.06, T:0.33
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:99152769 original size:12 final size:12
Alignment explanation
Indices: 99152752--99152777 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99152742 AAAATAGGGC
99152752 TTTAGCGGCGTT
1 TTTAGCGGCGTT
99152764 TTTAGCGGCGTT
1 TTTAGCGGCGTT
99152776 TT
1 TT
99152778 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:99152910 original size:41 final size:41
Alignment explanation
Indices: 99152801--99153010 Score: 298
Period size: 41 Copynumber: 5.1 Consensus size: 41
99152791 GCAAAAATTG
* * *** *
99152801 TAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAACACCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGC
* *
99152842 TAAAA-ACTGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
99152882 TAAAAGACAGAGCTTTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
99152923 TAAAAGACAGAGCAGTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
99152964 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
99153005 TAAAAG
1 TAAAAG
99153011 TCATATAACT
Statistics
Matches: 155, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 30 0.19
41 125 0.81
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (41 bp):
TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:99153654 original size:24 final size:24
Alignment explanation
Indices: 99153627--99153675 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
99153617 CGTATATTTA
*
99153627 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
99153651 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
99153675 T
1 T
99153676 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:99154017 original size:7 final size:7
Alignment explanation
Indices: 99153958--99154110 Score: 67
Period size: 7 Copynumber: 21.6 Consensus size: 7
99153948 GAGTTACTAT
*
99153958 TTTAAGG
1 TTTATGG
99153965 TTTATGG
1 TTTATGG
*
99153972 ATTATGG
1 TTTATGG
*
99153979 ATTATGGG
1 TTTAT-GG
99153987 TTTATGG
1 TTTATGG
*
99153994 ATTATGG
1 TTTATGG
**
99154001 TTTACAG
1 TTTATGG
99154008 TTTATGG
1 TTTATGG
*
99154015 TTTAAGG
1 TTTATGG
* **
99154022 GTTGGGG
1 TTTATGG
*
99154029 TTTAAGG
1 TTTATGG
99154036 TTTA-GG
1 TTTATGG
*
99154042 TGTTAGGG
1 T-TTATGG
*
99154050 GTTATGG
1 TTTATGG
* *
99154057 GTTAGGG
1 TTTATGG
*
99154064 GTTATGG
1 TTTATGG
*
99154071 GTTATGG
1 TTTATGG
*
99154078 ATTTAAGG
1 -TTTATGG
*
99154086 GTTAT-G
1 TTTATGG
*
99154092 TTGTATGA
1 TT-TATGG
*
99154100 TTTAGGG
1 TTTATGG
99154107 TTTA
1 TTTA
99154111 GGGGATAAAA
Statistics
Matches: 112, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
6 5 0.04
7 92 0.82
8 15 0.13
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTATGG
Found at i:99154031 original size:21 final size:21
Alignment explanation
Indices: 99154009--99154089 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
99153999 GGTTTACAGT
99154009 TTATGGTTTAAGGGTT-GGGG
1 TTATGGTTTAAGGGTTAGGGG
*
99154029 TTTAAGGTTT-AGGTGTTAGGGG
1 -TTATGGTTTAAGG-GTTAGGGG
* * *
99154051 TTATGGGTTAGGGGTTATGGG
1 TTATGGTTTAAGGGTTAGGGG
99154072 TTATGGATTTAAGGGTTA
1 TTATGG-TTTAAGGGTTA
99154090 TGTTGTATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.06
21 31 0.63
22 15 0.31
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAGGGG
Found at i:99154256 original size:14 final size:14
Alignment explanation
Indices: 99154239--99154298 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
99154229 GGTAAAATGT
99154239 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
99154253 TTTCTGGAAAATAA
1 TTTCTGGAAAATAA
* *
99154267 TTTCTTGAAAAATGA
1 TTTC-TGGAAAATAA
* *
99154282 TTTATGGAAAATGA
1 TTTCTGGAAAATAA
99154296 TTT
1 TTT
99154299 ACTTTTCTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 30 0.73
15 11 0.27
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATAA
Found at i:99154299 original size:14 final size:14
Alignment explanation
Indices: 99154232--99154299 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
99154222 GTTTGCAGGT
* *
99154232 AAAATGTTTTCTGG
1 AAAATGATTTATGG
* *
99154246 AAAATAATTTCTGG
1 AAAATGATTTATGG
* * *
99154260 AAAATAATTTCTTGA
1 AAAATGATTT-ATGG
99154275 AAAATGATTTATGG
1 AAAATGATTTATGG
99154289 AAAATGATTTA
1 AAAATGATTTA
99154300 CTTTTCTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
14 35 0.76
15 11 0.24
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATGATTTATGG
Found at i:99154452 original size:2 final size:2
Alignment explanation
Indices: 99154445--99154475 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
99154435 GAGTTTACTT
*
99154445 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99154476 TAATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:99154497 original size:13 final size:13
Alignment explanation
Indices: 99154443--99154507 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
99154433 TTGAGTTTAC
99154443 TTTATATATATAAA
1 TTTATATAT-TAAA
* *
99154457 TATATATA-TATA
1 TTTATATATTAAA
* *
99154469 TATATATTAATAAA
1 TTTATA-TATTAAA
*
99154483 TTTATATTTTAAA
1 TTTATATATTAAA
99154496 TTTATATATTAA
1 TTTATATATTAA
99154508 TAAAAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
12 9 0.21
13 18 0.43
14 15 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTATATATTAAA
Found at i:99154914 original size:22 final size:21
Alignment explanation
Indices: 99154883--99154929 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
99154873 AAATTTATTT
99154883 AAAATTAATATAAAAGA-TATA
1 AAAATTAATATAAAA-ATTATA
99154904 AAAATTCAATATAAAAATTATA
1 AAAATT-AATATAAAAATTATA
99154926 AAAA
1 AAAA
99154930 AGTCAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAATTAATATAAAAATTATA
Found at i:99154971 original size:40 final size:40
Alignment explanation
Indices: 99154940--99155048 Score: 159
Period size: 38 Copynumber: 2.8 Consensus size: 40
99154930 AGTCAAAAAT
99154940 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
* * * *
99154980 TAGCGGCGTTTAT-AT-AAAACGTCGTAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
*
99155018 TAGCGGCATTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
99155049 AGTAATTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
38 31 0.52
39 4 0.07
40 25 0.42
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.19
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:99155167 original size:16 final size:18
Alignment explanation
Indices: 99155148--99155182 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
99155138 TCCCCCCCCC
99155148 CCCAATTCC-CT-TCTTT
1 CCCAATTCCACTCTCTTT
99155164 CCCAATTCCACTCTCTTT
1 CCCAATTCCACTCTCTTT
99155182 C
1 C
99155183 TCAGCCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.14, C:0.46, G:0.00, T:0.40
Consensus pattern (18 bp):
CCCAATTCCACTCTCTTT
Found at i:99157634 original size:43 final size:42
Alignment explanation
Indices: 99157572--99157732 Score: 178
Period size: 43 Copynumber: 3.8 Consensus size: 42
99157562 GTAAAAGCGT
* *
99157572 CGCTAAAAGCCATGACTTTTAGCGGCGCTTTTCCAATAAACGC
1 CGCTAAAAGCCAAGACTTTTAGCGGCGCTTTTCC-ACAAACGC
* * *
99157615 CGCTAAAAGTCAAGGCTTTTAGTGGCGCTTTTACCACAAACGC
1 CGCTAAAAGCCAAGACTTTTAGCGGCGCTTTT-CCACAAACGC
* * * *
99157658 CACTAAAAGTCAAGGCTTTTAGCGGCGCTTTTCCCACAAATGC
1 CGCTAAAAGCCAAGACTTTTAGCGGCGCTTTT-CCACAAACGC
* ** *
99157701 AGCTAAAAGCCTTGACTTTTAGCGGCGTTTTT
1 CGCTAAAAGCCAAGACTTTTAGCGGCGCTTTT
99157733 TTTTCAATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 99 0.98
44 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
CGCTAAAAGCCAAGACTTTTAGCGGCGCTTTTCCACAAACGC
Found at i:99159559 original size:138 final size:138
Alignment explanation
Indices: 99159285--99159548 Score: 368
Period size: 138 Copynumber: 1.9 Consensus size: 138
99159275 AAAGAGGAAT
*
99159285 TATATTCTTTCCAAAGGAATATTAATTTCCATGTCTCTTATATTTTGACCAAAATCAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTCTTATATTTTGACCAAAATCAATTAATAT
* * *
99159350 AACTGTTTATATTAATAATTTTAATAAAATATATACAAATAATATTTTGTATGAATCAAATACAT
66 AACTGTTTATATTAATAAATTCAATAAAATATATACAAATAATATTTTATATGAATCAAATACAT
99159415 AAATTAAC
131 AAATTAAC
* * * * ** *
99159423 TATATTTTTTCCAAAAGAATATTAATTTTCATGTCTTTTATTTTTTGACTGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTCTTATATTTTGACCAAAATCAATTAATAT
* ** * *
99159488 AA-TTTTTAATATTAATAAATTCGGTAAAATATATGCAATTAATATTTTATATGAATCAAAT
66 AACTGTTT-ATATTAATAAATTCAATAAAATATATACAAATAATATTTTATATGAATCAAAT
99159549 TCATCTATTA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
137 4 0.04
138 105 0.96
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
TATATTCTTTCCAAAAGAATATTAATTTCCATGTCTCTTATATTTTGACCAAAATCAATTAATAT
AACTGTTTATATTAATAAATTCAATAAAATATATACAAATAATATTTTATATGAATCAAATACAT
AAATTAAC
Found at i:99162927 original size:18 final size:18
Alignment explanation
Indices: 99162901--99162938 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
99162891 TCTTATGGGT
*
99162901 CACACGGGCGTGTGGGCC
1 CACACGGGCGTGTGAGCC
*
99162919 CACATGGGCGTGTGAGCC
1 CACACGGGCGTGTGAGCC
99162937 CA
1 CA
99162939 TTCATCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.39, T:0.13
Consensus pattern (18 bp):
CACACGGGCGTGTGAGCC
Found at i:99170551 original size:40 final size:40
Alignment explanation
Indices: 99170507--99170611 Score: 185
Period size: 40 Copynumber: 2.6 Consensus size: 40
99170497 GTTCTGCATA
99170507 CTGTATCTGGTTGGGCTAAGGCCCTAGTATATGTCTGATT
1 CTGTATCTGGTTGGGCTAAGGCCCTAGTATATGTCTGATT
*
99170547 CTGTATCTGATTGGGCTAAGGCCCTAGTATATGTCTGATT
1 CTGTATCTGGTTGGGCTAAGGCCCTAGTATATGTCTGATT
*
99170587 CTGTATCT-GATGGGCTAAGGCCCTA
1 CTGTATCTGGTTGGGCTAAGGCCCTA
99170612 ACTGATTCTA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 15 0.24
40 47 0.76
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (40 bp):
CTGTATCTGGTTGGGCTAAGGCCCTAGTATATGTCTGATT
Found at i:99177310 original size:24 final size:24
Alignment explanation
Indices: 99177283--99177373 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
99177273 GCTGGAAATA
99177283 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
99177307 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
99177331 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
99177355 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
99177374 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:99177387 original size:48 final size:48
Alignment explanation
Indices: 99177282--99177395 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
99177272 TGCTGGAAAT
* * **
99177282 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
99177330 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
99177379 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
99177396 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:99184820 original size:24 final size:24
Alignment explanation
Indices: 99184793--99184883 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
99184783 GCTGGAAATA
99184793 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
99184817 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
99184841 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
99184865 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
99184884 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:99184897 original size:48 final size:48
Alignment explanation
Indices: 99184792--99184905 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
99184782 TGCTGGAAAT
* * **
99184792 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
99184840 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
99184889 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
99184906 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:99188114 original size:94 final size:94
Alignment explanation
Indices: 99187953--99188311 Score: 371
Period size: 94 Copynumber: 3.8 Consensus size: 94
99187943 TTTCTGCGCC
* * * *
99187953 AGTGTAATACATGTCTGGGACATGCTTTAGCCA-CATTATAAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATCATTATGAGAGCCAGTGTAAGACCATGTCTG
*
99188017 GGACATGGCATCGGCATCCAGAAGAGGGCT
66 GGACATGGCATCGGCAT-CAGAAGAGTGCT
* * * *
99188047 AGTGTAAGACATGTCTGGGACATGCTTCAGCCAT-ATTATGAGAGCCAATGTAAGACCATTTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATCATTATGAGAGCCAGTGTAAGACCATGTCTG
*
99188111 GGACATGGCATCGGCA-CAGAGATGAGTGCC
66 GGACATGGCATCGGCATCAGA-A-GAGTGCT
* * * * * *
99188141 AGAGTAAGAAATGTTTGGGACATGCATCGGCC-TCGA-CA-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATC-ATTATGAG--AGCCAGTGTAAGACCATGT
* ** * *
99188202 CTGGGACA-CGCATTAGC-TAAG-AGTTGTGCT
63 CTGGGACATGGCATCGGCATCAGAAG-AGTGCT
99188232 AGTGTAAGACATGTCTGGGACATGCATCAG-CATGCATATATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-CAT-TATGAGAGCCAGTGTAAGACCATGTC
99188296 TGGGACATGGCATCGG
64 TGGGACATGGCATCGG
99188312 TAATTTATCC
Statistics
Matches: 216, Mismatches: 33, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
90 2 0.01
91 33 0.15
92 18 0.08
93 26 0.12
94 124 0.57
95 13 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATCATTATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCAGAAGAGTGCT
Found at i:99188148 original size:48 final size:45
Alignment explanation
Indices: 99187950--99188311 Score: 180
Period size: 47 Copynumber: 7.7 Consensus size: 45
99187940 TGATTTCTGC
* * * * * ** *
99187950 GCCAGTGTAATACATGTCTGGGACATGCTTTAGCCACATTATAAGA
1 GCCAGAGTAAGACATGTCTGGGACATGC-ATCGGCACAGAATGAGA
* *
99187996 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGAA-GAGG
1 GCCAGAGTAAGA-CATGTCTGGGACAT-GCATCGGCA--CAGAATGAGA
* * * * *
99188044 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGC-CATATTATGAGA
1 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCACAGA--ATGAGA
* * *
99188090 GCCA-ATGTAAGACCATTTTTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGA-GTAAGA-CATGTCTGGGACAT-GCATCGGCACAGA-ATGAGA
* * *
99188138 GCCAGAGTAAGAAATGTTTGGGACATGCATCGGCCTCGACAG-A-GATA
1 GCCAGAGTAAGACATGTCTGGGACATGCATCGG---C-ACAGAATGAGA
* * * ** * * *
99188185 GCCAGTGTAAGACGTGTCTGGGACACGCATTAGCTA-AGAGT-TGT
1 GCCAGAGTAAGACATGTCTGGGACATGCATCGGC-ACAGAATGAGA
* * * *
99188229 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAGA
1 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCA--CAGA-ATGAGA
*
99188277 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGAGTAAGA-CATGTCTGGGACAT-GCATCGG
99188312 TAATTTATCC
Statistics
Matches: 243, Mismatches: 48, Indels: 46
0.72 0.14 0.14
Matches are distributed among these distances:
43 6 0.02
44 32 0.13
45 1 0.00
46 38 0.16
47 85 0.35
48 49 0.20
49 22 0.09
50 10 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GCCAGAGTAAGACATGTCTGGGACATGCATCGGCACAGAATGAGA
Found at i:99188309 original size:141 final size:140
Alignment explanation
Indices: 99187950--99188311 Score: 362
Period size: 141 Copynumber: 2.6 Consensus size: 140
99187940 TGATTTCTGC
* * * *
99187950 GCCAGTGTAATACATGTCTGGGACATGCTTTAGCCACAT-TATAAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CACATATATGAGAGCCAGTGTAAGACCATGT
* * *
99188014 CTGGGACATGGCATCGGCATCCAGAAGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCC
65 CTGGGACATGGCATCGGCATCCAGAAGAGAGCCAGTGTAAGACATGTCTGGGACACGCTTCAGCC
**
99188079 ATATTATGAGA
130 ATAAGATGAGA
* * * * * * * * *
99188090 GCCAATGTAAGACCATTTTTGGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGA-AATG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATATATGAGAGCCAGTGTAAGACCATG
* * * *
99188154 TTTGGGACAT-GCATCGGCCTCGACAG-AGATAGCCAGTGTAAGACGTGTCTGGGACACGCATT-
64 TCTGGGACATGGCATCGGCATC--CAGAAGAGAGCCAGTGTAAGACATGTCTGGGACACGC-TTC
* *
99188216 AG-C-TAAGA-GTTGT
126 AGCCATAAGATG-AGA
*
99188229 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCA--CATATATGAGAGCCAGTGTAAGACCATG
99188294 TCTGGGACATGGCATCGG
64 TCTGGGACATGGCATCGG
99188312 TAATTTATCC
Statistics
Matches: 176, Mismatches: 35, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
137 8 0.05
138 13 0.07
139 33 0.19
140 33 0.19
141 65 0.37
142 24 0.14
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCACATATATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCATCCAGAAGAGAGCCAGTGTAAGACATGTCTGGGACACGCTTCAGCCA
TAAGATGAGA
Found at i:99195792 original size:43 final size:43
Alignment explanation
Indices: 99195692--99195801 Score: 118
Period size: 43 Copynumber: 2.5 Consensus size: 43
99195682 GATCATGACT
* * *
99195692 TTTAGTGGCGCTTTTTCTAAAAACGCCGCTAATGGTCCTGGTCA
1 TTTAGCGGCG-TTTTTTTAAAAACGCCGCTAAAGGTCCTGGTCA
* *
99195736 TTT-GCTGCATTTTTTTAAAAAGCGCCGCTAAAGGTCCCT-GTC-
1 TTTAGCGGCGTTTTTTTAAAAA-CGCCGCTAAAGGT-CCTGGTCA
99195778 TTTAGCGGCGTTTTTTATAAAAAC
1 TTTAGCGGCGTTTTTT-TAAAAAC
99195802 ACACTAAAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
42 14 0.25
43 29 0.53
44 12 0.22
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTTAAAAACGCCGCTAAAGGTCCTGGTCA
Found at i:99201783 original size:9 final size:9
Alignment explanation
Indices: 99201769--99201885 Score: 117
Period size: 9 Copynumber: 12.3 Consensus size: 9
99201759 ATGTATTAGT
99201769 TAAGTTATG
1 TAAGTTATG
99201778 TAAGTTGTTATG
1 TAA---GTTATG
*
99201790 TACGTTATG
1 TAAGTTATG
*
99201799 TGAGTTATG
1 TAAGTTATG
*
99201808 TAAATTATG
1 TAAGTTATG
99201817 TAAGTTATG
1 TAAGTTATG
*
99201826 TGAGTTATG
1 TAAGTTATG
99201835 TAAGTTGTTATG
1 TAA---GTTATG
*
99201847 TAAATTATG
1 TAAGTTATG
*
99201856 TAAGTTATA
1 TAAGTTATG
*
99201865 TGAGTTATG
1 TAAGTTATG
99201874 TAAGTTATG
1 TAAGTTATG
99201883 TAA
1 TAA
99201886 TTTGTTCAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 71 0.81
12 17 0.19
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:99201816 original size:39 final size:38
Alignment explanation
Indices: 99201773--99201885 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
99201763 ATTAGTTAAG
99201773 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTGTTATGTA-GTTATGTGAGTTATGTAAA
*
99201812 TTATGTAA---GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGT-AGTTATGT--G-AGTTATGTAAA
* *
99201851 TTATGTAAGTT-ATATG-AGTTATGTAAGTTATGTAA
1 TTATGTAAGTTGTTATGTAGTTATGTGAGTTATGTAA
99201886 TTTGTTCAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
36 23 0.37
37 1 0.02
38 1 0.02
39 34 0.54
41 4 0.06
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (38 bp):
TTATGTAAGTTGTTATGTAGTTATGTGAGTTATGTAAA
Found at i:99201845 original size:48 final size:48
Alignment explanation
Indices: 99201769--99201891 Score: 140
Period size: 48 Copynumber: 2.6 Consensus size: 48
99201759 ATGTATTAGT
* * * * * *
99201769 TAAGTTATGTAAGTTGT-TATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTATGTAAGT-TGTTATGTAAATTATGTAAATTATA
* *
99201817 TAAGTTATGTGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATA
1 TAAGTTATGTAAGTTATGTAAGTTGTTATGTAAATTATGTAAATTATA
* *
99201865 TGAGTTATGTAAGTTATGTAATTTGTT
1 TAAGTTATGTAAGTTATGTAAGTTGTT
99201892 CAAGTAATGA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 59 0.94
49 4 0.06
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (48 bp):
TAAGTTATGTAAGTTATGTAAGTTGTTATGTAAATTATGTAAATTATA
Found at i:99201862 original size:57 final size:57
Alignment explanation
Indices: 99201771--99201883 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
99201761 GTATTAGTTA
** * *
99201771 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
* *
99201828 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGT
99201884 AATTTGTTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:99202730 original size:23 final size:23
Alignment explanation
Indices: 99202704--99202753 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
99202694 GTTCAAGTTT
*
99202704 ATTTAAAGGGTTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
99202727 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
99202750 ATTT
1 ATTT
99202754 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:99205958 original size:3 final size:3
Alignment explanation
Indices: 99205950--99206038 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
99205940 TTTCTTTCTT
99205950 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99205998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
99206039 TCTTATTAAT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:99206589 original size:21 final size:21
Alignment explanation
Indices: 99206565--99206607 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
99206555 TTTAGAATTC
*
99206565 AAGGTTTA-ATATTTAGGGTTT
1 AAGGTTTACA-ATTTAAGGTTT
99206586 AAGGTTTACAATTTAAGGTTT
1 AAGGTTTACAATTTAAGGTTT
99206607 A
1 A
99206608 TGACTAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
AAGGTTTACAATTTAAGGTTT
Found at i:99207169 original size:40 final size:38
Alignment explanation
Indices: 99207065--99207181 Score: 99
Period size: 40 Copynumber: 2.9 Consensus size: 38
99207055 CAATTTAATC
** *
99207065 TTTTAGCGGCATTTTAAATAAAGCGCCGCTATAGGTCGAT
1 TTTTAGCGGCATTTTTTATAAA-CGCCGCTATA-CTCGAT
* * * * *
99207105 CTATAGCGGCGCTTTATTAAAAACGCCGCTATTACTCGAT
1 TTTTAGCGGC-ATTTTTTATAAACGCCGCTA-TACTCGAT
*
99207145 TTTTAGCGGCATTTTTTGATAAACGCCCCTAATACTC
1 TTTTAGCGGCATTTTTT-ATAAACGCCGCT-ATACTC
99207182 AATCTATTCG
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
39 5 0.08
40 44 0.75
41 10 0.17
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (38 bp):
TTTTAGCGGCATTTTTTATAAACGCCGCTATACTCGAT
Found at i:99212656 original size:20 final size:21
Alignment explanation
Indices: 99212618--99212656 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
99212608 CTAATTAAAA
**
99212618 TTTAGATAGCATGGGTTTTGG
1 TTTAGATAGCATGAATTTTGG
99212639 TTTA-ATAGCATGAATTTT
1 TTTAGATAGCATGAATTTT
99212657 TTATTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.46
Consensus pattern (21 bp):
TTTAGATAGCATGAATTTTGG
Found at i:99213510 original size:16 final size:16
Alignment explanation
Indices: 99213489--99213523 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
99213479 TTTGATAAGT
99213489 TAAGTTTATTGCTATA
1 TAAGTTTATTGCTATA
99213505 TAAGTTTATTGCTATA
1 TAAGTTTATTGCTATA
99213521 TAA
1 TAA
99213524 ACTTACTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (16 bp):
TAAGTTTATTGCTATA
Found at i:99214448 original size:26 final size:26
Alignment explanation
Indices: 99214419--99214526 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
99214409 TGATACAAAT
99214419 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
99214445 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99214471 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99214497 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99214523 TGAT
1 TGAT
99214527 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99216171 original size:27 final size:27
Alignment explanation
Indices: 99216111--99216250 Score: 189
Period size: 27 Copynumber: 5.2 Consensus size: 27
99216101 AGGAAGCGTC
* *
99216111 CTGGTGGCTATGCCACA-AT-TACTGAT
1 CTGGTGGCTCTGCCACATATAT-CTGTT
99216137 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
99216164 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGTT
99216191 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
99216218 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
99216245 CTGGTG
1 CTGGTG
99216251 ACTTCGTCAC
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
26 26 0.25
27 74 0.72
28 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:99216201 original size:54 final size:53
Alignment explanation
Indices: 99216111--99216250 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
99216101 AGGAAGCGTC
99216111 CTGGTGGCTATGCCACAATTA-CTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
99216164 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
99216218 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
99216251 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
53 27 0.33
54 55 0.67
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:99216261 original size:27 final size:27
Alignment explanation
Indices: 99216111--99216268 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
99216101 AGGAAGCGTC
*
99216111 CTGGTGGCTATGCCACAAT-TACTG-AT
1 CTGGTGGCTCTGCCACAATAT-CTGTAT
99216137 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
99216164 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
99216191 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
99216218 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
99216245 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
99216269 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
26 26 0.22
27 88 0.76
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:99221147 original size:26 final size:26
Alignment explanation
Indices: 99221118--99221225 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
99221108 TGATACAAAT
99221118 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99221144 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99221170 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99221196 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99221222 TGAT
1 TGAT
99221226 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99222849 original size:27 final size:27
Alignment explanation
Indices: 99222811--99222951 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 27
99222801 AGGAAGCGTC
99222811 CTGGTGGCTCTGCCACAATTACT-TGAT
1 CTGGTGGCTCTGCCACAATTA-TATGAT
* *
99222838 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATATGAT
* * * * *
99222865 TTGGTCGTTATGCCACGATTATATGAT
1 CTGGTGGCTCTGCCACAATTATATGAT
* *
99222892 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATATGAT
* * *
99222919 CTAGTGGCTTTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATATG-AT
99222946 CTGGTG
1 CTGGTG
99222952 ACTTCGTTAC
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
26 11 0.12
27 77 0.85
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATATGAT
Found at i:99222933 original size:54 final size:52
Alignment explanation
Indices: 99222814--99222951 Score: 161
Period size: 54 Copynumber: 2.5 Consensus size: 52
99222804 AAGCGTCCTG
* * *
99222814 GTGGCTCTGCCACAATTACTTGATCTGGTGGCTCTGCCACATATATCTGTTTTG
1 GTGGCTTTGCCAC-ATTA-TTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
*
99222868 GTCG-TTATGCCACGATTATATGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTT-TGCCAC-ATTAT-TGATCTGGTGGCTCTGCCACATATATCTGTTCTA
*
99222922 GTGGCTTTGCCACAATATCTGTATCTGGTG
1 GTGGCTTTGCCACATTAT-TG-ATCTGGTG
99222952 ACTTCGTTAC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
53 8 0.11
54 62 0.86
55 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (52 bp):
GTGGCTTTGCCACATTATTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
Found at i:99241454 original size:133 final size:133
Alignment explanation
Indices: 99241216--99241482 Score: 489
Period size: 133 Copynumber: 2.0 Consensus size: 133
99241206 AACGAATTTA
*
99241216 ACTCAAAGGAATCAAGGATATCATATGAGGGTAACACGTACATGACGATGTTATTGAACAAAGAA
1 ACTCAAAGGAATCAAGGATATCATATGAGGGTAACACGTACATGACGATGTTATTAAACAAAGAA
99241281 GTTGGATGAATTACTTTCATAAATAGTATACAATAAGGAGTTTTCAATCATGGTACTTCTTATGG
66 GTTGGATGAATTACTTTCATAAATAGTATACAATAAGGAGTTTTCAATCATGGTACTTCTTATGG
99241346 ACT
131 ACT
* * *
99241349 ACTCAAAGGAATCAAGGATATCATATGAGGGTAACATGTACATGACGATGTTATTAAACGAAGCA
1 ACTCAAAGGAATCAAGGATATCATATGAGGGTAACACGTACATGACGATGTTATTAAACAAAGAA
*
99241414 GTTGGATGAATTACTTTCATAAATAGTATACAGTAAGGAGTTTTCAATCATGGTACTTCTTATGG
66 GTTGGATGAATTACTTTCATAAATAGTATACAATAAGGAGTTTTCAATCATGGTACTTCTTATGG
99241479 ACT
131 ACT
99241482 A
1 A
99241483 ACTACATGAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (133 bp):
ACTCAAAGGAATCAAGGATATCATATGAGGGTAACACGTACATGACGATGTTATTAAACAAAGAA
GTTGGATGAATTACTTTCATAAATAGTATACAATAAGGAGTTTTCAATCATGGTACTTCTTATGG
ACT
Found at i:99243558 original size:25 final size:25
Alignment explanation
Indices: 99243524--99243574 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
99243514 TACTTACCCT
99243524 TAAAAAATTATATATCCCTCAACAA
1 TAAAAAATTATATATCCCTCAACAA
*
99243549 TAAAAAATTATATGTCCCTCAACAA
1 TAAAAAATTATATATCCCTCAACAA
99243574 T
1 T
99243575 CAAGGGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (25 bp):
TAAAAAATTATATATCCCTCAACAA
Found at i:99246084 original size:44 final size:42
Alignment explanation
Indices: 99246036--99246128 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 42
99246026 AGTTAACCGA
*
99246036 ATATT-AATTTATTATATATTTATATTATTTCTAAACACAT-ATTT
1 ATATTAAATTTATCATATA--TATATTATTT-TAAA-ACATCATTT
*
99246080 ATATTTAAATTTATCGTATATATATTATTTTAAAACATGCATTT
1 ATA-TTAAATTTATCATATATATATTATTTTAAAACAT-CATTT
99246124 ATATT
1 ATATT
99246129 TTAATTTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
42 4 0.09
43 6 0.14
44 20 0.47
45 2 0.05
46 11 0.26
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (42 bp):
ATATTAAATTTATCATATATATATTATTTTAAAACATCATTT
Found at i:99246544 original size:28 final size:28
Alignment explanation
Indices: 99246492--99246545 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
99246482 ATTAATATAA
*
99246492 TATAAAAATTAATTAATTATGAAAATTG
1 TATAAAAATTAATTAATTATCAAAATTG
*
99246520 TATAAAATTTAGATTAATTA-CAAAAT
1 TATAAAAATTA-ATTAATTATCAAAAT
99246546 GAGTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (28 bp):
TATAAAAATTAATTAATTATCAAAATTG
Found at i:99248361 original size:18 final size:18
Alignment explanation
Indices: 99248334--99248378 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
99248324 TATTTTCAAG
* *
99248334 AAGTACTTTTAAGATAAA
1 AAGTATTTTTAACATAAA
*
99248352 AAGTATTTTTGACATAAA
1 AAGTATTTTTAACATAAA
99248370 AAGTATTTT
1 AAGTATTTT
99248379 AAAAAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
AAGTATTTTTAACATAAA
Found at i:99255865 original size:13 final size:13
Alignment explanation
Indices: 99255847--99255873 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99255837 ATACTCCTCA
99255847 TTCCTGCTATCAT
1 TTCCTGCTATCAT
99255860 TTCCTGCTATCAT
1 TTCCTGCTATCAT
99255873 T
1 T
99255874 CTCATCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.07, T:0.48
Consensus pattern (13 bp):
TTCCTGCTATCAT
Found at i:99264543 original size:81 final size:83
Alignment explanation
Indices: 99264398--99264561 Score: 233
Period size: 81 Copynumber: 2.0 Consensus size: 83
99264388 GTTATGGAGG
* * * *
99264398 TGAAGGAAAAATCCAAAGAACGAAAGAATCTAAGAATAATTATTTGCATGGTATGATTATGAATG
1 TGAAGGAAAAATCCAAAGAACAAAAGAATCTAAGAATAATTATTTGCATAGTATAATTACGAATG
99264463 -AAGAATAAAAGAATATT
66 AAAGAATAAAAGAATATT
* * *
99264480 TGAAGG-AAAATCCAAAGAATAAAAGAATCTAAGAATAATTATTTGCGTAGTGTAATTACGAATG
1 TGAAGGAAAAATCCAAAGAACAAAAGAATCTAAGAATAATTATTTGCATAGTATAATTACGAATG
*
99264544 AAAAGAATGAAAGAATAT
66 -AAAGAATAAAAGAATAT
99264562 CTGCTAAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
81 51 0.71
82 6 0.08
83 15 0.21
ACGTcount: A:0.51, C:0.06, G:0.18, T:0.25
Consensus pattern (83 bp):
TGAAGGAAAAATCCAAAGAACAAAAGAATCTAAGAATAATTATTTGCATAGTATAATTACGAATG
AAAGAATAAAAGAATATT
Found at i:99268480 original size:30 final size:30
Alignment explanation
Indices: 99268423--99268480 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
99268413 TTTCTGGGCC
* **
99268423 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
99268453 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
99268481 ATACAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:99268965 original size:46 final size:46
Alignment explanation
Indices: 99268866--99268989 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
99268856 TTATGAGAGC
*
99268866 CAGTGTAAGACCATGTCTGGAACATGGCATC-AGCATTGAGACGAGTG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGAGCATTGAGACGAGTG
99268913 CTAGTGTAAGACATGTCTGGGACATGCATCGA-C-TTCGAGACGTAAGT-
1 C-AGTGTAAGACATGTCTGGGACATGCATCGAGCATT-GAGACG--AGTG
99268960 CAGTGTAAGACATGTCTGGGACATGCATCG
1 CAGTGTAAGACATGTCTGGGACATGCATCG
99268990 GCTACAAGAT
Statistics
Matches: 71, Mismatches: 1, Indels: 11
0.86 0.01 0.13
Matches are distributed among these distances:
45 2 0.03
46 41 0.58
47 16 0.23
48 12 0.17
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGAGCATTGAGACGAGTG
Found at i:99271448 original size:40 final size:40
Alignment explanation
Indices: 99271404--99271485 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
99271394 TGATACAAAC
*
99271404 TCAGAAATGTCTAGTTTTATACCCAACCACCAATACGACT
1 TCAGAAATGTCTAGTTTCATACCCAACCACCAATACGACT
* * * *
99271444 TCAGAAATGTCTCGTTTCATACCTAAGCACTAATACGACT
1 TCAGAAATGTCTAGTTTCATACCCAACCACCAATACGACT
99271484 TC
1 TC
99271486 TTCAAATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (40 bp):
TCAGAAATGTCTAGTTTCATACCCAACCACCAATACGACT
Found at i:99277081 original size:2 final size:2
Alignment explanation
Indices: 99277074--99277099 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99277064 AGTCATGACT
99277074 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
99277100 TATATATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:99278698 original size:30 final size:30
Alignment explanation
Indices: 99278662--99278822 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
99278652 GACAAGATTG
* * * * *
99278662 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
99278692 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
99278720 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
99278750 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
99278780 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
99278809 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
99278823 GATTCACTAT
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 20 0.16
30 76 0.62
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:99278753 original size:58 final size:58
Alignment explanation
Indices: 99278662--99278822 Score: 227
Period size: 58 Copynumber: 2.8 Consensus size: 58
99278652 GACAAGATTG
* * * * * *
99278662 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAATTATATA
99278720 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTG--AATTATATA
99278780 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCG
99278823 GATTCACTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
57 2 0.02
58 41 0.44
59 20 0.21
60 31 0.33
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAATTATATA
Found at i:99285443 original size:48 final size:48
Alignment explanation
Indices: 99285391--99285601 Score: 209
Period size: 48 Copynumber: 4.5 Consensus size: 48
99285381 TATCCTGGAT
*
99285391 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCTAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* ** ** * *
99285439 ATGGTCTTACATAGGATCGTAGGTCGATGCCAATTCCATGTCCCAGAA
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* *
99285487 ATGGTCTTACATAGGATCACATATCGATGTCAAT---A-G-CCCAG-C
1 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
* ** * * * *
99285529 TATGGTCTTACACGAAATTACGTATCGACGCCAAAGCCATGTCCCAGAC
1 -ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
*
99285578 ATGGTCTTACATGGGATCATATAT
1 ATGGTCTTACATGGGATCACATAT
99285602 AACCCTAATG
Statistics
Matches: 127, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
43 30 0.24
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 92 0.72
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGAC
Found at i:99288523 original size:34 final size:32
Alignment explanation
Indices: 99288442--99288516 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 32
99288432 ATTTGTTTGC
99288442 ATACTGTACTGAAATGGGCTAAGGCCCAGACT
1 ATACTGTACTGAAATGGGCTAAGGCCCAGACT
* *
99288474 ACCT-CTGTTACTGAAATGGGCTCAGGCCTAGACT
1 A--TACTG-TACTGAAATGGGCTAAGGCCCAGACT
99288508 GATACTGTA
1 -ATACTGTA
99288517 ATTGAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
32 1 0.03
33 6 0.17
34 28 0.78
35 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (32 bp):
ATACTGTACTGAAATGGGCTAAGGCCCAGACT
Found at i:99307219 original size:40 final size:40
Alignment explanation
Indices: 99307189--99307452 Score: 299
Period size: 40 Copynumber: 6.6 Consensus size: 40
99307179 GCTACTCGTT
* *
99307189 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
*
99307229 CAAATACCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCA
99307269 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCA
* * * *
99307309 CCAATGCCTTCGGG-CTTAGCCCAG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTA-TAGTAACTCGCA
*
99307348 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGTTATAGTAACTCGCA
** * * *
99307388 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGTTATAGTAAC-TCGCA
*
99307429 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
99307453 GCATCATTCG
Statistics
Matches: 194, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
39 38 0.20
40 143 0.74
41 13 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
Found at i:99307367 original size:119 final size:120
Alignment explanation
Indices: 99307191--99307451 Score: 368
Period size: 119 Copynumber: 2.2 Consensus size: 120
99307181 TACTCGTTCA
* ** *
99307191 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCAGAT
* *
99307256 TTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACC
66 TTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-C
*
99307311 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGA
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCAGA
** *
99307374 TTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCAC
65 TTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCAC
*
99307430 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
99307452 GGCATCATTC
Statistics
Matches: 126, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
118 3 0.02
119 97 0.77
120 26 0.21
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCAGAT
TTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCAC
Found at i:99316976 original size:42 final size:42
Alignment explanation
Indices: 99316929--99317017 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
99316919 TGGGGCAAGC
* * *
99316929 CGTGTGTCATACATGATCTAGACACACGCTTGTGTGCCTACT
1 CGTGTGTCACACATGATCTAGACACACACCTGTGTGCCTACT
* *
99316971 CGTGTGTCACACATGATTTAGACAGACACCTGTGTGCCTACT
1 CGTGTGTCACACATGATCTAGACACACACCTGTGTGCCTACT
99317013 CGTGT
1 CGTGT
99317018 AGACAAAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (42 bp):
CGTGTGTCACACATGATCTAGACACACACCTGTGTGCCTACT
Found at i:99321454 original size:41 final size:43
Alignment explanation
Indices: 99321378--99321475 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 43
99321368 AATGATATCA
*
99321378 CACACTTAGTGCCATCATATTAAACTGAAGATATCTCAATATATG
1 CACACTTAGTGCCATCATATTAAACCGAAGATATCTCAA-A-ATG
* *
99321423 -ACACTTAGTGCCAT-ATA-T-AGCCGAAGCTATCTCAAAATG
1 CACACTTAGTGCCATCATATTAAACCGAAGATATCTCAAAATG
*
99321462 CACACTAAGTGCCA
1 CACACTTAGTGCCA
99321476 AACATAGTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
39 3 0.06
40 13 0.27
41 14 0.29
42 1 0.02
43 3 0.06
44 14 0.29
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (43 bp):
CACACTTAGTGCCATCATATTAAACCGAAGATATCTCAAAATG
Found at i:99325279 original size:71 final size:71
Alignment explanation
Indices: 99325190--99325327 Score: 231
Period size: 71 Copynumber: 1.9 Consensus size: 71
99325180 ACTTAAAGTA
99325190 TAATGGTCTAACTACCATTTAAGGACCTCCAATTTAAAATTTCATAGCAATTAGAAACCTCTAGC
1 TAATGGTCTAACTACCATTTAAGGACCTCCAATTTAAAATTTCATAGCAATTAGAAACCTCTAGC
99325255 TTTTAG
66 TTTTAG
* * * * *
99325261 TAATGGTCTAATTACCATTTAAGGACCTCTAATTTAAAATTTCATAGTAATTAGACACCTTTAGC
1 TAATGGTCTAACTACCATTTAAGGACCTCCAATTTAAAATTTCATAGCAATTAGAAACCTCTAGC
99325326 TT
66 TT
99325328 CTAGAACACA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (71 bp):
TAATGGTCTAACTACCATTTAAGGACCTCCAATTTAAAATTTCATAGCAATTAGAAACCTCTAGC
TTTTAG
Found at i:99327368 original size:16 final size:18
Alignment explanation
Indices: 99327331--99327368 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
99327321 ATTAATTTTA
*
99327331 TTATTGAAAATAAATTAT
1 TTATTGAAAATAAATAAT
99327349 TTATT-AAAAT-AATAAT
1 TTATTGAAAATAAATAAT
99327365 TTAT
1 TTAT
99327369 AAATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTATTGAAAATAAATAAT
Found at i:99331230 original size:28 final size:28
Alignment explanation
Indices: 99331184--99331239 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
99331174 ATGTCACTGA
* **
99331184 ATACTCAATGTCTTTCACACTAAGTGTC
1 ATACTCAATATCTCACACACTAAGTGTC
99331212 ATACTCAATATCTCACACACTAAGTGTC
1 ATACTCAATATCTCACACACTAAGTGTC
99331240 GTACATAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGTC
Found at i:99331310 original size:40 final size:41
Alignment explanation
Indices: 99331227--99331341 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 41
99331217 CAATATCTCA
* * * *
99331227 CACACTAAGTGTCGTACATAGCCGAAGCTATCTC-AAGTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAAGTCG
* *
99331267 CACACTAAGTGCCATATATAGCTGAAGCTATGTCGAA-TTG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAAGTCG
* * *
99331307 CACAGTAAGTGCCATCTATAGCCAAAGCTATGTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCG
99331342 TCTCGCACAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 62 0.97
41 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAAGTCG
Found at i:99347795 original size:25 final size:25
Alignment explanation
Indices: 99347757--99347807 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
99347747 ACTAATGATT
99347757 TAAAGAATGAAATTGTGTAAAAGGAA
1 TAAAGAATGAAATT-TGTAAAAGGAA
* *
99347783 TAAAGTAT-AAATTTGTGAAAGGAA
1 TAAAGAATGAAATTTGTAAAAGGAA
99347807 T
1 T
99347808 TAATGAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 5 0.22
26 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (25 bp):
TAAAGAATGAAATTTGTAAAAGGAA
Found at i:99350448 original size:2 final size:2
Alignment explanation
Indices: 99350441--99350478 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
99350431 CACTAAAGGC
99350441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99350479 CTTAATTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99353157 original size:33 final size:33
Alignment explanation
Indices: 99353115--99353180 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
99353105 TAAAAACAAA
99353115 ATGTCTGAACTGAGCTCTAGATTCACCACCAAT
1 ATGTCTGAACTGAGCTCTAGATTCACCACCAAT
99353148 ATGTCTGAACTGAGCTCTAGATTCACCACCAAT
1 ATGTCTGAACTGAGCTCTAGATTCACCACCAAT
99353181 CCTAAATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (33 bp):
ATGTCTGAACTGAGCTCTAGATTCACCACCAAT
Found at i:99357593 original size:12 final size:12
Alignment explanation
Indices: 99357563--99357595 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
99357553 TATATATTTT
99357563 AAAATT-ATATA
1 AAAATTAATATA
99357574 AAAA-TAATATA
1 AAAATTAATATA
99357585 AAAATTAATAT
1 AAAATTAATAT
99357596 GGGCATGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:99366828 original size:12 final size:12
Alignment explanation
Indices: 99366811--99366835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99366801 TGACTTGCCT
99366811 ATCCACAAAACA
1 ATCCACAAAACA
99366823 ATCCACAAAACA
1 ATCCACAAAACA
99366835 A
1 A
99366836 AGTTCAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.32, G:0.00, T:0.08
Consensus pattern (12 bp):
ATCCACAAAACA
Found at i:99368510 original size:19 final size:20
Alignment explanation
Indices: 99368486--99368523 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99368476 GTCATCATAG
*
99368486 AAAATTTTAAA-AAAAAATT
1 AAAATTATAAATAAAAAATT
99368505 AAAATTATAAATAAAAAAT
1 AAAATTATAAATAAAAAAT
99368524 GCAATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTATAAATAAAAAATT
Found at i:99368962 original size:8 final size:8
Alignment explanation
Indices: 99368949--99368977 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
99368939 TTATGTTTAG
99368949 TATATTAT
1 TATATTAT
99368957 TATATTAT
1 TATATTAT
99368965 TATATTAT
1 TATATTAT
99368973 TATAT
1 TATAT
99368978 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:99369459 original size:22 final size:21
Alignment explanation
Indices: 99369434--99369485 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
99369424 TTGGTTAAAA
*
99369434 AATTTAGTAGAAATG-AAGTATG
1 AATTTAGTAGAAAAGTAAG--TG
*
99369456 AATTAAGATAGAAAAGTAAGTG
1 AATTTAG-TAGAAAAGTAAGTG
99369478 AATTTAGT
1 AATTTAGT
99369486 TAGGATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.04
22 14 0.56
23 7 0.28
24 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (21 bp):
AATTTAGTAGAAAAGTAAGTG
Found at i:99370310 original size:25 final size:25
Alignment explanation
Indices: 99370252--99370336 Score: 59
Period size: 29 Copynumber: 3.2 Consensus size: 25
99370242 ATGTTTTACA
* * *
99370252 ATTGAAATTGATTGATTTTAGTATGCG
1 ATTGAAATTTATTGAATTTA-TAT-TG
99370279 A-TG-AATTTATTGAATTTATATTG
1 ATTGAAATTTATTGAATTTATATTG
99370302 ATTGAAATTATTTTGATTGAA-TTATATTG
1 ATTG-AA--A-TTT-ATTGAATTTATATTG
99370331 ATTGAA
1 ATTGAA
99370337 TTATATAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
23 2 0.04
24 5 0.10
25 13 0.27
26 3 0.06
27 1 0.02
28 3 0.06
29 15 0.31
30 6 0.12
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (25 bp):
ATTGAAATTTATTGAATTTATATTG
Found at i:99370326 original size:14 final size:14
Alignment explanation
Indices: 99370287--99370342 Score: 85
Period size: 14 Copynumber: 3.9 Consensus size: 14
99370277 CGATGAATTT
99370287 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
99370302 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
99370317 ATTGAATTATATTG
1 ATTGAATTATATTG
99370331 ATTGAATTATAT
1 ATTGAATTATAT
99370343 AATATATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 21 0.55
15 15 0.39
16 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:99370782 original size:21 final size:21
Alignment explanation
Indices: 99370724--99370784 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
99370714 CAGCACTTTA
99370724 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGT-TTT-AGGCACCTCG
* *
99370747 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTTTTAGGCACCTCG
99370768 TGTGTCGTTTTAGGCAC
1 TGTGTCGTTTTAGGCAC
99370785 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.74
22 1 0.03
23 8 0.24
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTTTTAGGCACCTCG
Found at i:99370792 original size:21 final size:21
Alignment explanation
Indices: 99370723--99370796 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
99370713 TCAGCACTTT
99370723 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGT-TTT-AGGCACCTC
* * *
99370746 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTTTTAGGCACCTC
* * *
99370767 GTGTGTCGTTTTAGGCACTTT
1 ATGTGTCGTTTTAGGCACCTC
99370788 ATGTGTCGT
1 ATGTGTCGT
99370797 ACTCTGATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 34 0.79
22 1 0.02
23 8 0.19
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (21 bp):
ATGTGTCGTTTTAGGCACCTC
Found at i:99374165 original size:6 final size:6
Alignment explanation
Indices: 99374154--99374178 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99374144 GAAGTAATCT
99374154 CATTTC CATTTC CATTTC CATTTC C
1 CATTTC CATTTC CATTTC CATTTC C
99374179 TGATGTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTTC
Found at i:99375925 original size:13 final size:13
Alignment explanation
Indices: 99375907--99375949 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
99375897 AAGAGATTAC
99375907 AAATATACAATTG
1 AAATATACAATTG
*
99375920 AAATATA-AA--C
1 AAATATACAATTG
99375930 AAATATACAATTG
1 AAATATACAATTG
99375943 AAATATA
1 AAATATA
99375950 AATACATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATATACAATTG
Found at i:99375964 original size:29 final size:23
Alignment explanation
Indices: 99375905--99375951 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
99375895 ATAAGAGATT
99375905 ACAAATATACAATTGAAATATAA
1 ACAAATATACAATTGAAATATAA
99375928 ACAAATATACAATTGAAATATAA
1 ACAAATATACAATTGAAATATAA
99375951 A
1 A
99375952 TACATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
ACAAATATACAATTGAAATATAA
Found at i:99377439 original size:20 final size:19
Alignment explanation
Indices: 99377414--99377461 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
99377404 AAGTATTACA
*
99377414 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
99377434 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
99377453 TA-ATTATTT
1 TATATTATTT
99377462 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:99377472 original size:21 final size:19
Alignment explanation
Indices: 99377414--99377465 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
99377404 AAGTATTACA
* *
99377414 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
99377434 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
99377453 TA-ATTATTTTTAC
1 TATATTATTTTTAC
99377466 CATACATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:99378647 original size:21 final size:21
Alignment explanation
Indices: 99378622--99378674 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
99378612 AGCGGTGGCA
*
99378622 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGATACTGTAGCG
* *
99378643 GTGAGATTGGATATTGTAGCG
1 GTGAGATTAGATACTGTAGCG
99378664 GTGAGATTAGA
1 GTGAGATTAGA
99378675 AACAATGGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.36, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCG
Found at i:99383443 original size:3 final size:3
Alignment explanation
Indices: 99383435--99383494 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
99383425 TAACACTCAA
99383435 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
99383483 AAG AAG AAG AAG
1 AAG AAG AAG AAG
99383495 TCATTTTGTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:99394739 original size:2 final size:2
Alignment explanation
Indices: 99394732--99394756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99394722 GCAAGATAAT
99394732 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
99394757 GCGAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99411932 original size:19 final size:19
Alignment explanation
Indices: 99411892--99411946 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
99411882 ATTATAAAAT
99411892 AAATTCAAAATAAATTT-T-A
1 AAATTCAAAAT--ATTTATAA
99411911 AAATTCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
99411930 AAATTC-TAATATTTATA
1 AAATTCAAAATATTTATA
99411947 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 11 0.33
19 18 0.55
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:99414423 original size:29 final size:30
Alignment explanation
Indices: 99414378--99414445 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
99414368 GCAATCAAGC
*
99414378 AAGAAAGG-GACAAAAAAAGAAAAG-AAAGT
1 AAGAAAGGAGAC-AAAAAAGAAAAGTAAAGG
* *
99414407 AAGAAAGGAGAC-GAAAAGAATAGTAAAGG
1 AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
99414436 AAGAAGAGGA
1 AAGAA-AGGA
99414446 TGAAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 9 0.27
29 17 0.52
30 7 0.21
ACGTcount: A:0.63, C:0.03, G:0.29, T:0.04
Consensus pattern (30 bp):
AAGAAAGGAGACAAAAAAGAAAAGTAAAGG
Found at i:99418417 original size:23 final size:22
Alignment explanation
Indices: 99418360--99418431 Score: 85
Period size: 21 Copynumber: 3.3 Consensus size: 22
99418350 GTCCCTGGTC
99418360 CACACGGGCGTGTGCCT-TAGT
1 CACACGGGCGTGTGCCTCTAGT
* * **
99418381 CATACGGGCTTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTAGT
99418403 CACACGGGGCGTGTGCCTC-AGT
1 CACAC-GGGCGTGTGCCTCTAGT
99418425 CACACGG
1 CACACGG
99418432 TTGTGTGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 17 0.41
22 12 0.29
23 12 0.29
ACGTcount: A:0.14, C:0.32, G:0.31, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCTAGT
Found at i:99426766 original size:16 final size:15
Alignment explanation
Indices: 99426760--99426789 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99426750 AAAATTTTTA
99426760 AAATTTAAAATTAAT
1 AAATTTAAAATTAAT
99426775 AAATTTAAAA-TAAT
1 AAATTTAAAATTAAT
99426789 A
1 A
99426790 TTTTACCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATTTAAAATTAAT
Done.