Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 72 of 373
Found at i:21895636 original size:49 final size:49
Alignment explanation
Indices: 21895389--21895662 Score: 133
Period size: 49 Copynumber: 5.8 Consensus size: 49
21895379 ATAGTTTTTG
* * * * * *
21895389 AGCTAGTGTAAGACATGTTTGGGACAT-GCATCG--GTCGCAT-TATGAG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTC-AATATACGAA
* * *
21895435 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATAC--A
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTC-A-ATATACGAA
* * * **
21895483 AGCTAGTATAAGACCTGTCTGGGACATGGCGTC-AGCTT--GT-T--GTG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTTCAATATACGAA
* * * * * ** * * * *
21895527 TGTTAGTGTAAGACCTGCCTGGGAGACGGCATCGACACCGATAGATGAG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTCAATATACGAA
* *
21895576 AGCCAGCGTAAGACCTGTCTGGGACATGGCATCGACTTCAATATACGAA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTCAATATACGAA
* * * * *
21895625 AGTTAGTGTAAGACCTATCTTGGACACGACATCGACTT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACTT
21895663 TAATGTACTA
Statistics
Matches: 170, Mismatches: 44, Indels: 25
0.71 0.18 0.10
Matches are distributed among these distances:
44 28 0.16
45 2 0.01
46 33 0.19
48 28 0.16
49 77 0.45
50 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACTTCAATATACGAA
Found at i:21903444 original size:26 final size:26
Alignment explanation
Indices: 21903415--21903522 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
21903405 TGAAATGCCC
*
21903415 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAAACCATT
*
21903441 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
21903467 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
21903493 ATCATGGAACATGTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
21903519 ATCA
1 ATCA
21903523 ATTTGTACTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:21903493 original size:52 final size:52
Alignment explanation
Indices: 21903415--21903522 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
21903405 TGAAATGCCC
*
21903415 ATCATGGAACATTTACCTAAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAATCATTATCATGGAACATGTACCTAACCCATT
*
21903467 ATCATGGAATATTTACCT-AATCCATTATCATGGAACATGTACCTAACCCATT
1 ATCATGGAACATTTACCTAAAT-CATTATCATGGAACATGTACCTAACCCATT
21903519 ATCA
1 ATCA
21903523 ATTTGTACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 3 0.06
52 50 0.94
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAATCATTATCATGGAACATGTACCTAACCCATT
Found at i:21910500 original size:26 final size:26
Alignment explanation
Indices: 21910469--21910576 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
21910459 TGAAATGCCC
*
21910469 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
21910495 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
21910521 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
21910547 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21910573 ATCA
1 ATCA
21910577 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21916699 original size:31 final size:31
Alignment explanation
Indices: 21916661--21916719 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
21916651 GAGGAGAGTA
21916661 GGCATACCCTTCTTGGCTGATCCCTTTCGCT
1 GGCATACCCTTCTTGGCTGATCCCTTTCGCT
21916692 GGCATACCCTTCTTGGCTGATCCCTTTC
1 GGCATACCCTTCTTGGCTGATCCCTTTC
21916720 TCTTTGTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.10, C:0.36, G:0.19, T:0.36
Consensus pattern (31 bp):
GGCATACCCTTCTTGGCTGATCCCTTTCGCT
Found at i:21916720 original size:16 final size:16
Alignment explanation
Indices: 21916670--21916720 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
21916660 AGGCATACCC
21916670 TTCTTGGCTGATCCCT
1 TTCTTGGCTGATCCCT
*
21916686 TTCGCTGGC--ATACCC-
1 TTC-TTGGCTGAT-CCCT
21916701 TTCTTGGCTGATCCCT
1 TTCTTGGCTGATCCCT
21916717 TTCT
1 TTCT
21916721 CTTTGTGACG
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 4 0.14
15 8 0.29
16 12 0.43
17 4 0.14
ACGTcount: A:0.08, C:0.33, G:0.18, T:0.41
Consensus pattern (16 bp):
TTCTTGGCTGATCCCT
Found at i:21918824 original size:6 final size:6
Alignment explanation
Indices: 21918800--21918954 Score: 93
Period size: 6 Copynumber: 25.0 Consensus size: 6
21918790 TAACCCATTA
* * *
21918800 CAGAAT CAGAAG CAAAAT CAGAAT CAG-GT GACAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * * * *
21918849 CAGAAT TAGAAT TAGTAT CGAGTAA- CAGAAT CAAAAT CAGAAT CAGTAT
1 CAGAAT CAGAAT CAGAAT C-AG-AAT CAGAAT CAGAAT CAGAAT CAGAAT
* * * *
21918898 TAGGTAA- CAGAAT CAAAAT CAGAAT CAGTAT CAGGTAAT -AGAAT CAAAAAT
1 CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT C-AGAAT
21918949 CAGAAT
1 CAGAAT
21918955 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
5 8 0.07
6 86 0.75
7 15 0.13
8 5 0.04
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:21918860 original size:37 final size:36
Alignment explanation
Indices: 21918800--21918931 Score: 133
Period size: 37 Copynumber: 3.6 Consensus size: 36
21918790 TAACCCATTA
* * *
21918800 CAGAATCAGAAGCAAAATCAGAATCAGGTGACAGAAT
1 CAGAATCAGAATCAGAATCAGAATTAGGT-ACAGAAT
*
21918837 CAGAATCAGAATCAGAATTAGAATTA-GTATCGAGTAA-
1 CAGAATCAGAATCAGAATCAGAATTAGGTA-C-AG-AAT
* *
21918874 CAGAATCAAAATCAGAATCAGTATTAGGTAACAGAAT
1 CAGAATCAGAATCAGAATCAGAATTAGGT-ACAGAAT
* *
21918911 CAAAATCAGAATCAGTATCAG
1 CAGAATCAGAATCAGAATCAG
21918932 GTAATAGAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
35 1 0.01
36 5 0.06
37 67 0.85
38 5 0.06
39 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (36 bp):
CAGAATCAGAATCAGAATCAGAATTAGGTACAGAAT
Found at i:21918878 original size:31 final size:31
Alignment explanation
Indices: 21918843--21918954 Score: 154
Period size: 31 Copynumber: 3.6 Consensus size: 31
21918833 GAATCAGAAT
* * *
21918843 CAGAATCAGAATTAGAATTAGTATC-GAGTAA
1 CAGAATCAAAATCAGAATCAGTATCAG-GTAA
*
21918874 CAGAATCAAAATCAGAATCAGTATTAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
21918905 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
21918936 TAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
21918955 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
31 61 0.84
32 12 0.16
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:21919154 original size:26 final size:27
Alignment explanation
Indices: 21919091--21919164 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
21919081 GCTCAGTTAT
* *
21919091 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
21919118 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
21919144 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
21919165 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:21919359 original size:22 final size:22
Alignment explanation
Indices: 21919334--21919387 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
21919324 TGGCACACAT
* * *
21919334 CCATAATCAGGTTGGCATAGAG
1 CCATAATCAGGTTGACACAAAG
*
21919356 CCAT-ATGTAGGTTGACACAAAG
1 CCATAAT-CAGGTTGACACAAAG
21919378 CCATAATCAG
1 CCATAATCAG
21919388 AAGGCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (22 bp):
CCATAATCAGGTTGACACAAAG
Found at i:21919871 original size:27 final size:27
Alignment explanation
Indices: 21919813--21920035 Score: 286
Period size: 27 Copynumber: 8.3 Consensus size: 27
21919803 AGGGGCAAAA
* * * *
21919813 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
21919839 CGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
21919866 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
21919893 CGATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
21919920 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
21919947 CGGTAATTCTACCCTACAAGAGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
21919974 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
21920001 TGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
21920028 TGGTAATT
1 TGGTAATT
21920036 TTGTAAATCG
Statistics
Matches: 175, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
26 14 0.08
27 161 0.92
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:21920050 original size:27 final size:27
Alignment explanation
Indices: 21919993--21920360 Score: 312
Period size: 27 Copynumber: 13.6 Consensus size: 27
21919983 TACCCTACAG
* ** *
21919993 GGGTATTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTGGTAATTTTA-CAAATCAA
** *
21920020 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
***** *
21920047 GGGTAAAACCGTAATTTTATAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
21920074 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*** * ** *
21920101 GGGTATTTCCATAATTTTATAGGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
** *
21920128 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCAA
*
21920154 GGTTTATTTTGGTAATTTTACAAA-CTAA
1 GG-GTATTTTGGTAATTTTACAAATC-AA
*
21920182 GGGTATTTTGATAATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
21920209 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCAA
** *
21920235 GTGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAATTTTACAAATCAA
* *
21920263 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
21920290 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
21920317 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
21920344 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
21920361 GTAAACTAAA
Statistics
Matches: 278, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
26 9 0.03
27 262 0.94
28 7 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:21922350 original size:20 final size:21
Alignment explanation
Indices: 21922312--21922350 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21922302 TCAACAGGGC
21922312 CACACGGACGTGTTGCCCTTT
1 CACACGGACGTGTTGCCCTTT
*
21922333 CACACGGGCGTG-TGCCCT
1 CACACGGACGTGTTGCCCT
21922351 GTTCTAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGACGTGTTGCCCTTT
Found at i:21925708 original size:266 final size:266
Alignment explanation
Indices: 21925121--21925920 Score: 1269
Period size: 266 Copynumber: 3.0 Consensus size: 266
21925111 TCGAGTCTTA
21925121 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
1 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
* * *
21925186 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGTTTTAAATGACTCTAATCTTAC
66 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
* * * *
21925251 AGGGAAAAGATAGAGAGATTTTTTTTCCCTGCATATTTTTCAAACTATTTTTCGATGCTAGGCAA
131 AGGGAAAAGATAGAGAGA-TTTTTTTCCCTGCATATTTTTCAAACTGTTTTCCGATGATAGACAA
* * *
21925316 AGGCAAGGCTACTGTTCGTTGATCACTACAACTATGCTACTGCTGTGCTCATCTTGTTGTTGTAT
195 AGGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTGCTGTGCTCATCCTGTTGTTGTAT
21925381 CCTGAGC
260 CCTGAGC
* * * *
21925388 TAGACTTGCTGATATTTTAGCTCAATACGTAATCTTAATTTTCCTTAGCAGAGCTTATAATTTTG
1 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
* * *
21925453 GAGTTAAAAGGAGTTAATACCTTTAATTCAAAATTTAATTTAGGTTTAAATGGCTCTAATCTGAC
66 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
* *
21925518 AGGGAAAAGATAGAGAGATTTTTTTCCCTGCATATTTTTCAGACTGTTTTCCGGTGATAGACAAA
131 AGGGAAAAGATAGAGAGATTTTTTTCCCTGCATATTTTTCAAACTGTTTTCCGATGATAGACAAA
* *
21925583 GGTAAGGCTACTGTTCGTTGATCACTGCAACCGTGCTACTGCTGTGCTCATCCTGTTGTTGTATC
196 GGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTGCTGTGCTCATCCTGTTGTTGTATC
*
21925648 TTGAGC
261 CTGAGC
* * * *
21925654 TAGACTTGCGGATATTTTAGCCCGATATATAATCTGAATTTTCCTCAGCAGAGCTTATCATTTTG
1 TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
* *
21925719 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTTGGTTTAAATGGCTCCAATCTGAC
66 GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
*
21925784 AGCGAAAAGATAGAGAGATATTTTTTTCCCTGCATATTTTTCAAACTGTTTTCCGATGATAGACA
131 AGGGAAAAGATAGAGAG--ATTTTTTTCCCTGCATATTTTTCAAACTGTTTTCCGATGATAGACA
* **
21925849 AAGGCAAGGCTACTGTTCGTTGATCACTGCAATTGTGCTACTATTGTGCTCA-CCTTGTTGTTGT
194 AAGGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTGCTGTGCTCATCC-TGTTGTTGT
21925913 ATCCTGAG
258 ATCCTGAG
21925921 AGATAGCTGA
Statistics
Matches: 486, Mismatches: 44, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
266 239 0.49
267 140 0.29
268 107 0.22
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (266 bp):
TAGACTTGCGGATATTTTAGCCCAATATGTAATCTTAATTTTCCTTAGCAGAGCTTATCATTTTG
GAATTAAAAGGAGTTAATGCCTTTAATTCAAAAATTAATTTAGGTTTAAATGGCTCTAATCTGAC
AGGGAAAAGATAGAGAGATTTTTTTCCCTGCATATTTTTCAAACTGTTTTCCGATGATAGACAAA
GGCAAGGCTACTGTTCGTTGATCACTGCAACTGTGCTACTGCTGTGCTCATCCTGTTGTTGTATC
CTGAGC
Found at i:21931782 original size:20 final size:20
Alignment explanation
Indices: 21931757--21931801 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21931747 AGGGACTAAA
* *
21931757 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
21931777 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
21931797 ATGAA
1 ATGAA
21931802 TACATGCGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:21940450 original size:25 final size:25
Alignment explanation
Indices: 21940421--21940468 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
21940411 TTATAACATG
* * *
21940421 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
21940446 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21940469 GTTTATGTAT
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:21940535 original size:20 final size:20
Alignment explanation
Indices: 21940512--21940569 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
21940502 TAAGCATGGT
21940512 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
21940532 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
21940552 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
21940570 CTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:21940552 original size:11 final size:11
Alignment explanation
Indices: 21940516--21940569 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
21940506 CATGGTATGT
21940516 ATGATATGCAC
1 ATGATATGCAC
* *
21940527 ATGACATG--T
1 ATGATATGCAC
21940536 ATGATATGCAC
1 ATGATATGCAC
*
21940547 ATGATATG--T
1 ATGATATGCAC
21940556 ATGATATGCAC
1 ATGATATGCAC
21940567 ATG
1 ATG
21940570 CTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:21940653 original size:24 final size:24
Alignment explanation
Indices: 21940621--21940692 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
21940611 GAGGAAGTGA
21940621 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
21940645 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
21940669 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
21940693 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 31 0.76
25 10 0.24
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:21940921 original size:31 final size:31
Alignment explanation
Indices: 21940886--21940949 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
21940876 CGTTTACAGT
*
21940886 AAAGGCTTTGGCCC-AGTAATATGAAATATGA
1 AAAGGC-TTCGCCCTAGTAATATGAAATATGA
**
21940917 AAAGGCTTCGCCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGCCCTAGTAATATGAAATATGA
21940948 AA
1 AA
21940950 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGCCCTAGTAATATGAAATATGA
Found at i:21948482 original size:25 final size:25
Alignment explanation
Indices: 21948453--21948500 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21948443 TTATAACGTG
* *
21948453 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
21948478 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
21948501 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:21948676 original size:24 final size:24
Alignment explanation
Indices: 21948613--21948678 Score: 116
Period size: 23 Copynumber: 2.8 Consensus size: 24
21948603 GAGGAACTGA
*
21948613 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
21948637 AAAA-GGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATT
21948660 AAAAGGGCTTATGCCCTAG
1 AAAAGGGCTTATGCCCTAG
21948679 GCTTTGCCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCTAGTTATT
Found at i:21948695 original size:35 final size:36
Alignment explanation
Indices: 21948640--21948709 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
21948630 AGTTATTAAA
*
21948640 AGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCT
1 AGGCTTATGCCCCAGTTATTAAAAGGG-TTATGCCCT
*
21948677 AGGCTT-TGCCCCA-TTATTAAAAGGGTTTTGCCC
1 AGGCTTATGCCCCAGTTATTAAAAGGGTTATGCCC
21948710 CAGTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
34 7 0.23
35 12 0.39
36 6 0.19
37 6 0.19
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (36 bp):
AGGCTTATGCCCCAGTTATTAAAAGGGTTATGCCCT
Found at i:21948965 original size:31 final size:31
Alignment explanation
Indices: 21948930--21948989 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
21948920 CGTTTATAGT
21948930 AAAGGCTTCGGCCCAGTAATATGAAATATTA
1 AAAGGCTTCGGCCCAGTAATATGAAATATTA
* **
21948961 AAAGGCTTCGGTCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
21948990 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATTA
Found at i:21956505 original size:13 final size:13
Alignment explanation
Indices: 21956487--21956514 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21956477 CCCTACGACT
21956487 CATAATCCTTAAG
1 CATAATCCTTAAG
21956500 CATAATCCTTAAG
1 CATAATCCTTAAG
21956513 CA
1 CA
21956515 ATTCAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
CATAATCCTTAAG
Found at i:21971805 original size:32 final size:32
Alignment explanation
Indices: 21971762--21971822 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
21971752 ATAGCTTGTA
21971762 GGACACCTTTTCCTTTAATGTTATTTTTTTTG
1 GGACACCTTTTCCTTTAATGTTATTTTTTTTG
* *
21971794 GGACACGTTTTCTTTTAATGTTATTTTTT
1 GGACACCTTTTCCTTTAATGTTATTTTTT
21971823 AAACAGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.57
Consensus pattern (32 bp):
GGACACCTTTTCCTTTAATGTTATTTTTTTTG
Found at i:21971968 original size:21 final size:21
Alignment explanation
Indices: 21971944--21972000 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
21971934 TTCTAAATTC
21971944 TCAATCTTCAATCTTT-TATCT
1 TCAATCTTCAAT-TTTATATCT
* *
21971965 TCAATTTTCAATTTTATATTT
1 TCAATCTTCAATTTTATATCT
21971986 TCAATCTTCACATTT
1 TCAATCTTCA-ATTT
21972001 AAATTTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.10
21 24 0.77
22 4 0.13
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.54
Consensus pattern (21 bp):
TCAATCTTCAATTTTATATCT
Found at i:21972042 original size:7 final size:7
Alignment explanation
Indices: 21972002--21972041 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
21971992 TTCACATTTA
21972002 AATTTCT
1 AATTTCT
21972009 AATTTCT
1 AATTTCT
21972016 AATTTCT
1 AATTTCT
*
21972023 AATTTTT
1 AATTTCT
*
21972030 AATTTTT
1 AATTTCT
21972037 AATTT
1 AATTT
21972042 TCAATCATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (7 bp):
AATTTCT
Found at i:21972086 original size:15 final size:15
Alignment explanation
Indices: 21972068--21972107 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
21972058 TTTTAAATTC
* *
21972068 TTTTCTTCTTTTGAA
1 TTTTATTCTTTTCAA
*
21972083 TTTTATTCTCTTCAA
1 TTTTATTCTTTTCAA
21972098 TTTTATTCTT
1 TTTTATTCTT
21972108 AAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.68
Consensus pattern (15 bp):
TTTTATTCTTTTCAA
Found at i:21972213 original size:28 final size:28
Alignment explanation
Indices: 21972181--21972239 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
21972171 TTACAAATGG
21972181 TAAGTAAATTTATTAAATTATTTAACTT
1 TAAGTAAATTTATTAAATTATTTAACTT
21972209 TAAGTAAATTTATTAAATTATTTAACTT
1 TAAGTAAATTTATTAAATTATTTAACTT
21972237 TAA
1 TAA
21972240 ATAGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (28 bp):
TAAGTAAATTTATTAAATTATTTAACTT
Found at i:21976379 original size:19 final size:20
Alignment explanation
Indices: 21976346--21976383 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21976336 TTATAATATC
*
21976346 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
21976366 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
21976384 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:21977494 original size:49 final size:48
Alignment explanation
Indices: 21977437--21977546 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 48
21977427 AGAAATTTCA
* ** *
21977437 GCACTATGTGTGCAAGGTTATGCGGCACTATGTGTG-TA-AAAACTAAGTG
1 GCACTATGTGTGCAAGATTACACGGCACTATGTGTGCGAGAAAAC---GTG
* *
21977486 GCACTATGTGTGCGAGATTACATGGCACTATGTGTGCGAGAAAACGTG
1 GCACTATGTGTGCAAGATTACACGGCACTATGTGTGCGAGAAAACGTG
21977534 GCACTATGTGTGC
1 GCACTATGTGTGC
21977547 GAATAAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 16 0.30
49 31 0.58
50 1 0.02
51 5 0.09
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (48 bp):
GCACTATGTGTGCAAGATTACACGGCACTATGTGTGCGAGAAAACGTG
Found at i:21977572 original size:25 final size:24
Alignment explanation
Indices: 21977483--21977548 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
21977473 TAAAAACTAA
**
21977483 GTGGCACTATGTGTGCGAGATTAC
1 GTGGCACTATGTGTGCGAGAAAAC
*
21977507 ATGGCACTATGTGTGCGAGAAAAC
1 GTGGCACTATGTGTGCGAGAAAAC
21977531 GTGGCACTATGTGTGCGA
1 GTGGCACTATGTGTGCGA
21977549 ATAAGTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (24 bp):
GTGGCACTATGTGTGCGAGAAAAC
Found at i:21980756 original size:37 final size:37
Alignment explanation
Indices: 21980697--21980805 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
21980687 AGCTCAGACG
** *
21980697 AAATCTCCACACAAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
21980734 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21980771 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
21980806 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:21981079 original size:48 final size:48
Alignment explanation
Indices: 21980951--21981137 Score: 241
Period size: 48 Copynumber: 3.8 Consensus size: 48
21980941 GCACATCGCC
* *
21980951 TACATATTTCATACTAGCCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC----A
* * *
21981003 TATATATTTCACATT-GACCATTCAGCTTTACCGCATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATACATATCTCA
* *
21981051 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
* *
21981099 CACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
21981138 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
48 80 0.66
49 1 0.01
51 1 0.01
52 40 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
Found at i:21981186 original size:47 final size:47
Alignment explanation
Indices: 21981107--21981347 Score: 329
Period size: 47 Copynumber: 5.1 Consensus size: 47
21981097 CACACATATT
* * * * * *
21981107 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
21981154 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
21981201 TCACATTGGCCATTCGACCTTCTCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
21981248 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * ***
21981295 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
21981342 TCACAT
1 TCACAT
21981348 AAAATCCTAA
Statistics
Matches: 176, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 176 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:21981203 original size:25 final size:25
Alignment explanation
Indices: 21981175--21981252 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 25
21981165 ATTCGGCCTT
21981175 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
*
21981200 AT--CACAT-TGGCCAT--TCGACCTTC
1 ATCACACATAT-G-CATGCTC-ACATTC
21981223 -TCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
21981247 ATCACA
1 ATCACA
21981253 TTGGCCATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
22 4 0.10
23 14 0.33
24 14 0.33
25 10 0.24
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:21981273 original size:22 final size:22
Alignment explanation
Indices: 21981247--21981318 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
21981237 GCTCACATTC
21981247 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
21981269 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
21981293 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21981316 ATC
1 ATC
21981319 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21985350 original size:40 final size:40
Alignment explanation
Indices: 21985318--21985668 Score: 605
Period size: 40 Copynumber: 8.8 Consensus size: 40
21985308 CCAGCATGAT
* * *
21985318 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
21985358 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
21985398 TGCTCTTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
21985437 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
21985477 TGCTCTTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
21985517 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
21985557 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
21985597 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
21985637 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
21985669 CTCAATTCTC
Statistics
Matches: 293, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.12
40 257 0.88
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:21986983 original size:37 final size:37
Alignment explanation
Indices: 21986933--21987082 Score: 239
Period size: 37 Copynumber: 4.1 Consensus size: 37
21986923 CTTTAGCTCA
*
21986933 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
21986970 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
*
21987007 GACATAATCTCCACAC-ATAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGA-AGTCATCGGGTCTTACCCG
* *
21987044 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
21987081 GA
1 GA
21987083 ATATATTTCC
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCGGGTCTTACCCG
Found at i:21987346 original size:100 final size:96
Alignment explanation
Indices: 21987228--21987413 Score: 275
Period size: 100 Copynumber: 1.9 Consensus size: 96
21987218 GCACATCGCC
* * *
21987228 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT-T-TC-T-CATACATATTTCACA
21987293 TT-GACCATTCAGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCAGCTTTACCACATATGCATATCTCA
*
21987328 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
*
21987393 CCATTCGGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
21987414 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
96 35 0.44
97 2 0.03
98 2 0.03
99 1 0.01
100 40 0.50
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:21987354 original size:48 final size:48
Alignment explanation
Indices: 21987228--21987414 Score: 268
Period size: 48 Copynumber: 3.8 Consensus size: 48
21987218 GCACATCGCC
* *
21987228 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTC----A
* *
21987280 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATACATATCTCA
*
21987328 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
*
21987376 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
21987415 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
48 82 0.66
49 1 0.01
51 1 0.01
52 41 0.33
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
Found at i:21987447 original size:47 final size:47
Alignment explanation
Indices: 21987384--21987577 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
21987374 CATACATATT
* * * *
21987384 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
21987431 CCACATTGGCCATTCGGCCTTAGCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
21987478 TCACCTTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
21987525 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
21987572 TCACAT
1 TCACAT
21987578 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:21996508 original size:11 final size:11
Alignment explanation
Indices: 21996494--21996518 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21996484 TAAAACTTTG
21996494 AAAAAATTCTA
1 AAAAAATTCTA
21996505 AAAAAATTCTA
1 AAAAAATTCTA
21996516 AAA
1 AAA
21996519 TATATATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATTCTA
Found at i:22001212 original size:54 final size:54
Alignment explanation
Indices: 22001149--22001254 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
22001139 ACATATAACT
* * *
22001149 GAATCACATATCGATGTCAACGTATTAAATGTGATCTTACTCGCACAAATATCA
1 GAATCACATATCAATGCCAACGTATTAAACGTGATCTTACTCGCACAAATATCA
* *
22001203 GAATCACATATCAATGCCAACGTATTAAACGTGGTCTTACTCGCACACATAT
1 GAATCACATATCAATGCCAACGTATTAAACGTGATCTTACTCGCACAAATAT
22001255 ATCAATACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (54 bp):
GAATCACATATCAATGCCAACGTATTAAACGTGATCTTACTCGCACAAATATCA
Found at i:22002171 original size:12 final size:12
Alignment explanation
Indices: 22002154--22002178 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22002144 CAAATGCATG
22002154 ATGTTTTATTAT
1 ATGTTTTATTAT
22002166 ATGTTTTATTAT
1 ATGTTTTATTAT
22002178 A
1 A
22002179 ATAAGATATT
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
ATGTTTTATTAT
Found at i:22006059 original size:14 final size:15
Alignment explanation
Indices: 22006038--22006073 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
22006028 GATTTGCCTT
22006038 TACTTTGGTGGGATA
1 TACTTTGGTGGGATA
22006053 T-CTTTGGTGGGATA
1 TACTTTGGTGGGATA
22006067 TACTTTG
1 TACTTTG
22006074 ATTCCACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (15 bp):
TACTTTGGTGGGATA
Found at i:22008018 original size:20 final size:20
Alignment explanation
Indices: 22007988--22008044 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
22007978 AATACTATGA
* *
22007988 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
* *
22008008 ACTATTCCATTGACTTACTT
1 ACCATTCCATTTACTTACTT
* *
22008028 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
22008045 GCATAAACTT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:22014678 original size:29 final size:28
Alignment explanation
Indices: 22014636--22014692 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
22014626 TGCGAGTTAT
22014636 ACTGATTTGGCTTTGACCCATGAATATCA
1 ACTGATTTGGCTTTGACCCATG-ATATCA
**
22014665 ACTGATTTGGCTTTGGGCCATGATATCA
1 ACTGATTTGGCTTTGACCCATGATATCA
22014693 GTACTTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (28 bp):
ACTGATTTGGCTTTGACCCATGATATCA
Found at i:22030734 original size:44 final size:44
Alignment explanation
Indices: 22030671--22030805 Score: 243
Period size: 44 Copynumber: 3.1 Consensus size: 44
22030661 GTTTCCAAAC
* *
22030671 TACTTTCACGAGAGCTATGCTTTTATTACTTAACTGTTTAACCT
1 TACTTTCACGAGAGCTATGCTTTTATTTCTCAACTGTTTAACCT
*
22030715 TACTTTCATGAGAGCTATGCTTTTATTTCTCAACTGTTTAACCT
1 TACTTTCACGAGAGCTATGCTTTTATTTCTCAACTGTTTAACCT
22030759 TACTTTCACGAGAGCTATGCTTTTATTTCTCAACTGTTTAACCT
1 TACTTTCACGAGAGCTATGCTTTTATTTCTCAACTGTTTAACCT
22030803 TAC
1 TAC
22030806 GTGACAAAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 87 1.00
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (44 bp):
TACTTTCACGAGAGCTATGCTTTTATTTCTCAACTGTTTAACCT
Found at i:22041426 original size:34 final size:34
Alignment explanation
Indices: 22041385--22041455 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
22041375 TTAGCCCCTT
*
22041385 TTTCAGTAACAGT-AGCAGTTTAGGCCTTAGCCCA
1 TTTCAGTAACAGTGA-CAGTCTAGGCCTTAGCCCA
*
22041419 TTTCAGTAATAGTGACAGTCTAGGCCTTAGCCCA
1 TTTCAGTAACAGTGACAGTCTAGGCCTTAGCCCA
22041453 TTT
1 TTT
22041456 TAGAATAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (34 bp):
TTTCAGTAACAGTGACAGTCTAGGCCTTAGCCCA
Found at i:22055413 original size:45 final size:45
Alignment explanation
Indices: 22055355--22055442 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
22055345 GAACTATGTA
*
22055355 ATCTGAACCCATTGAGTTGTGGTCTGAGTTCAAGATATATGTGGC
1 ATCTGAACCCATTGAGTTCTGGTCTGAGTTCAAGATATATGTGGC
* * *
22055400 ATCTGAACTCATTGAGTTCTGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACCCATTGAGTTCTGGTCTGAGTTCAAGATATATGTG
22055443 ACATATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (45 bp):
ATCTGAACCCATTGAGTTCTGGTCTGAGTTCAAGATATATGTGGC
Found at i:22060449 original size:39 final size:40
Alignment explanation
Indices: 22060335--22060519 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
22060325 ACTACTCGTT
* *
22060335 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
22060375 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
22060415 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
22060454 CAAATGCCTTC-GGATCTTAGTCTGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
22060495 CAAA-GCCTTCGGGACTTATCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22060520 CATCATTCGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:22060503 original size:79 final size:81
Alignment explanation
Indices: 22060335--22060519 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
22060325 ACTACTCGTT
* *
22060335 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
22060399 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
22060416 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
22060478 GATATAGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
22060495 CAAAGCCTTCGGGACTTATCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
22060520 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:22071974 original size:30 final size:30
Alignment explanation
Indices: 22071938--22071998 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
22071928 TTCTTTACTC
*
22071938 AAACTTTT-CAAAAGTTACATTTTTGCCCCT
1 AAACTTTTGC-AAAGTTACACTTTTGCCCCT
* *
22071968 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAGTTACACTTTTGCCCCT
22071998 A
1 A
22071999 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAGTTACACTTTTGCCCCT
Found at i:22074665 original size:25 final size:26
Alignment explanation
Indices: 22074608--22074667 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
22074598 CCAACCCAAC
22074608 ACCCAAACAAACACCAATTACACAAA
1 ACCCAAACAAACACCAATTACACAAA
* * **
22074634 ACCCAAACAAAC-CCATTTCCTTAAA
1 ACCCAAACAAACACCAATTACACAAA
22074659 ACCCAAACA
1 ACCCAAACA
22074668 GGCCCAACGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.12
Consensus pattern (26 bp):
ACCCAAACAAACACCAATTACACAAA
Found at i:22082875 original size:5 final size:5
Alignment explanation
Indices: 22082865--22082894 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
22082855 ATATCAGTTT
22082865 ATATC ATATC ATATC ATATC ATA-C ATATC A
1 ATATC ATATC ATATC ATATC ATATC ATATC A
22082895 GAAGCAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATC
Found at i:22086718 original size:26 final size:25
Alignment explanation
Indices: 22086687--22086737 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
22086677 AATATTTGAC
22086687 AAATTTAGA-TATTAAATTAAGAAAAA
1 AAATTTA-ATTATTAAATTAA-AAAAA
22086713 AAATTTAATTATTAAATTAAAAAAA
1 AAATTTAATTATTAAATTAAAAAAA
22086738 TATCAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AAATTTAATTATTAAATTAAAAAAA
Found at i:22086783 original size:17 final size:16
Alignment explanation
Indices: 22086749--22086792 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
22086739 ATCAAAATTA
*
22086749 ATCAAAAAAATTAGAT
1 ATCAAAAAAAGTAGAT
*
22086765 ATCAAGAAAAAGTATAT
1 ATCAA-AAAAAGTAGAT
22086782 ATCAAATAAAA
1 ATCAAA-AAAA
22086793 AAATACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.23
Consensus pattern (16 bp):
ATCAAAAAAAGTAGAT
Found at i:22092380 original size:16 final size:16
Alignment explanation
Indices: 22092354--22092407 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
22092344 TTTGGTTCGC
*
22092354 TGTAATTGAATAAAGT
1 TGTAATGGAATAAAGT
*
22092370 TGTAGTGGAATAAAGT
1 TGTAATGGAATAAAGT
* *
22092386 TGTAATGGAATAGAGC
1 TGTAATGGAATAAAGT
22092402 TGTAAT
1 TGTAAT
22092408 CAATAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAAAGT
Found at i:22094304 original size:25 final size:24
Alignment explanation
Indices: 22094263--22094312 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
22094253 TTATATTATT
*
22094263 ATTTTGAAATTAAAAA-TATATAAA
1 ATTTTAAAATTAAAAATTA-ATAAA
*
22094287 ATTTTAAAATATATAAATTAATAAA
1 ATTTTAAAAT-TAAAAATTAATAAA
22094312 A
1 A
22094313 CAGTTGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 9 0.41
25 11 0.50
26 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTTAAAATTAAAAATTAATAAA
Found at i:22094311 original size:17 final size:17
Alignment explanation
Indices: 22094269--22094312 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
22094259 TATTATTTTG
22094269 AAATTA-AAAATATATA
1 AAATTATAAAATATATA
*
22094285 AAATTTTAAAATATAT-
1 AAATTATAAAATATATA
22094301 AAATTAATAAAA
1 AAATT-ATAAAA
22094313 CAGTTGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTATAAAATATATA
Found at i:22111247 original size:47 final size:47
Alignment explanation
Indices: 22111196--22111300 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
22111186 TAGTATTAAT
*
22111196 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
22111243 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
22111290 AATGTGATAAG
1 TATGTGATAAG
22111301 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:22117404 original size:16 final size:17
Alignment explanation
Indices: 22117372--22117411 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
22117362 GCAATAGAAA
22117372 GGAAAGAAAAGAAAAGG
1 GGAAAGAAAAGAAAAGG
22117389 GGAAAGAAAA-AAAAGG
1 GGAAAGAAAAGAAAAGG
*
22117405 AGAAAGA
1 GGAAAGA
22117412 CAAGGCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAGAAAAGG
Found at i:22121692 original size:81 final size:81
Alignment explanation
Indices: 22121557--22121719 Score: 290
Period size: 81 Copynumber: 2.0 Consensus size: 81
22121547 AAAACCCAGG
22121557 GGGTAAAGAAGATCTTCATTATCATCTCCAGCATTGACCACAGGGTTCTTTCCTTTTTCTACCCC
1 GGGTAAAGAAGATCTTCATTATCATCTCCAGCATTGACCACAGGGTTCTTTCCTTTTTCTACCCC
22121622 ACCAGTCAATAGTTGT
66 ACCAGTCAATAGTTGT
* *
22121638 GGGTAAAGAGGATCTTCATTATCATCTCCAGCATTGACCACAGGGTTCTTTCCTTTTTCTAGCCC
1 GGGTAAAGAAGATCTTCATTATCATCTCCAGCATTGACCACAGGGTTCTTTCCTTTTTCTACCCC
* *
22121703 ACCAGTCAGTGGTTGT
66 ACCAGTCAATAGTTGT
22121719 G
1 G
22121720 TTAATTGGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (81 bp):
GGGTAAAGAAGATCTTCATTATCATCTCCAGCATTGACCACAGGGTTCTTTCCTTTTTCTACCCC
ACCAGTCAATAGTTGT
Found at i:22127719 original size:16 final size:16
Alignment explanation
Indices: 22127684--22127726 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
22127674 ATAGATCGGT
* * *
22127684 AAAAGTCGAAATGCCG
1 AAAAGTCAAAATACCA
22127700 AAAAGTCAAAATACCA
1 AAAAGTCAAAATACCA
*
22127716 AAAAGCCAAAA
1 AAAAGTCAAAA
22127727 GTTCAACTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.58, C:0.19, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAAGTCAAAATACCA
Found at i:22127980 original size:29 final size:29
Alignment explanation
Indices: 22127938--22128059 Score: 138
Period size: 29 Copynumber: 4.2 Consensus size: 29
22127928 GTGAGCATGA
*
22127938 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* *
22127966 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* ** *
22127995 ATATGAATATAAATTGGGCCTAACGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
* * * *
22128024 ATATGAACGTGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGAATTGGGCCTAACGGGCC
22128053 ATATAAA
1 ATATAAA
22128060 TGAGATTAGG
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 4 0.05
29 76 0.95
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (29 bp):
ATATAAAGGTGAATTGGGCCTAACGGGCC
Found at i:22133157 original size:20 final size:20
Alignment explanation
Indices: 22133132--22133170 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22133122 CACACGGCTG
*
22133132 TGTGTTCGGTCCCACAGGCA
1 TGTGTTCGGTCACACAGGCA
22133152 TGTGTTCGGTCACACAGGC
1 TGTGTTCGGTCACACAGGC
22133171 GTGGGAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (20 bp):
TGTGTTCGGTCACACAGGCA
Found at i:22133511 original size:145 final size:145
Alignment explanation
Indices: 22133232--22133502 Score: 375
Period size: 145 Copynumber: 1.9 Consensus size: 145
22133222 CCACACGACT
*
22133232 TGGACACACGAGCGTGTCCAAGGCTGTGTGAAAATTGGGATTATTTTATTAATTGCACACAAGCA
1 TGGACACACGAGCGTGTCCAAGGCCGTGTGAAAATTGGGATTATTTTATTAATTGCACACAAGCA
* * * *
22133297 TGTGGTATGTCACACGGGCATGGGAGAAGCAAACGAGATTGCACACGACCGTGCGACACGGGTGA
66 TGTGGTAGGTCACACGGGCATGAGAGAAACAAACGAGATTGCAAACGACCGTGCGACACGGGTGA
22133362 GTGAACCAGATGGCC
131 GTGAACCAGATGGCC
* * * **
22133377 TGGACACACG-GATGTGTCCAAGGCCGTGTGAAAATTGGGCTTATTTTATTAATTGTACACGGGC
1 TGGACACACGAG-CGTGTCCAAGGCCGTGTGAAAATTGGGATTATTTTATTAATTGCACACAAGC
* * * * *
22133441 GTGTGGTAGG-CTACATGGGCATGAGAGAAACAAACGAGCTTGGAAACGGCCGTGCGACACGG
65 ATGTGGTAGGTC-ACACGGGCATGAGAGAAACAAACGAGATTGCAAACGACCGTGCGACACGG
22133503 TCGTGTGAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
144 2 0.02
145 107 0.98
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.21
Consensus pattern (145 bp):
TGGACACACGAGCGTGTCCAAGGCCGTGTGAAAATTGGGATTATTTTATTAATTGCACACAAGCA
TGTGGTAGGTCACACGGGCATGAGAGAAACAAACGAGATTGCAAACGACCGTGCGACACGGGTGA
GTGAACCAGATGGCC
Found at i:22136960 original size:48 final size:48
Alignment explanation
Indices: 22136888--22137136 Score: 383
Period size: 48 Copynumber: 5.0 Consensus size: 48
22136878 CAAGATAAAT
* *
22136888 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
*
22136936 ATATGTATATGTGGTAAAGACGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
22136984 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGC-----T--AGTGTGAAATATGAATGAG
*
22137039 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
22137087 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGCAA-GAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG-AATGAG
22137135 AT
1 AT
22137137 GTGTGTATAT
Statistics
Matches: 187, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
48 137 0.73
49 1 0.01
50 1 0.01
53 1 0.01
55 47 0.25
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
Found at i:22137009 original size:28 final size:28
Alignment explanation
Indices: 22136977--22137064 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
22136967 TGTGAAATAT
22136977 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
22137005 GAATG-GCTAGTGTGA-A-GT-GTGAAATAT
1 GAATGAGATA-TGT-ATATGTGGT-AAAGCC
22137032 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
22137060 GAATG
1 GAATG
22137065 GCTAGTGTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
26 3 0.07
27 17 0.38
28 22 0.49
29 3 0.07
ACGTcount: A:0.35, C:0.06, G:0.31, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:22137027 original size:55 final size:55
Alignment explanation
Indices: 22136965--22137123 Score: 260
Period size: 55 Copynumber: 3.0 Consensus size: 55
22136955 ACGAATGGCT
22136965 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
1 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
22137020 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGC-----T--
1 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
*
22137068 AGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
1 AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
22137123 A
1 A
22137124 ATATGCAAGA
Statistics
Matches: 96, Mismatches: 1, Indels: 14
0.86 0.01 0.13
Matches are distributed among these distances:
48 46 0.48
50 1 0.01
53 1 0.01
55 48 0.50
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.30
Consensus pattern (55 bp):
AGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA
Found at i:22137063 original size:103 final size:102
Alignment explanation
Indices: 22136888--22137123 Score: 394
Period size: 103 Copynumber: 2.4 Consensus size: 102
22136878 CAAGATAAAT
*
22136888 ATATGTATATGTGGTAAAGCCGAATGGC-----T-AATGTGAAATATGTATGAGATATGTATATG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAATGTGAAATATGAATGAGATATGTATATG
22136947 TGGTAAAGACGAATGGCTAGTGTGAAATATGAATGAG
66 TGGTAAAGACGAATGGCTAGTGTGAAATATGAATGAG
22136984 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAGTGTGAAATATGAATGAGATATGTATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA-TGTGAAATATGAATGAGATATGTATAT
* *
22137049 GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
65 GTGGTAAAGACGAATGGCTAGTGTGAAATATGAATGAG
22137087 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
22137124 ATATGCAAGA
Statistics
Matches: 130, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
96 28 0.22
101 1 0.01
102 2 0.02
103 99 0.76
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (102 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAATGTGAAATATGAATGAGATATGTATATG
TGGTAAAGACGAATGGCTAGTGTGAAATATGAATGAG
Found at i:22137327 original size:37 final size:37
Alignment explanation
Indices: 22137277--22137379 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
22137267 GGAAATATAT
22137277 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
22137314 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
22137351 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
22137380 GGACTATTCG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:22144660 original size:39 final size:40
Alignment explanation
Indices: 22144617--22144784 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
22144607 CTCGTTCAAG
* * * *
22144617 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
22144656 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
22144696 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
22144736 GGCCTTCGGGACTTAACCTGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
22144776 TGCCTTCGG
1 TGCCTTCGG
22144785 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 80 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:22144706 original size:40 final size:39
Alignment explanation
Indices: 22144654--22144784 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
22144644 TAACTCATAC
* *
22144654 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
22144694 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
22144734 AAGGCCTTCGGGACTTAACCTGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
22144774 AATGCCTTCGG
1 AATGCCTTCGG
22144785 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:22144768 original size:80 final size:80
Alignment explanation
Indices: 22144652--22144837 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
22144642 AGTAACTCAT
* * *
22144652 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
22144716 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
* **
22144731 ACAAAGGCCTTCGGGACTTAACCTGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
22144795 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
22144812 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
22144838 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
79 11 0.12
80 70 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:22164936 original size:40 final size:40
Alignment explanation
Indices: 22164684--22164926 Score: 337
Period size: 40 Copynumber: 6.1 Consensus size: 40
22164674 AACCCAAGTA
* * *
22164684 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
22164723 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
22164763 CCTTCGGGACTTAGCCCGGATATAGTAACTCA-TACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
* * * *
22164803 CCTTCGAGACTTAGCCCAGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
22164843 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
22164883 CCTTCGGGACTTAGCCCGGATTTGGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
22164923 CCTT
1 CCTT
22164927 TGGATCTTAG
Statistics
Matches: 180, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
39 13 0.07
40 166 0.92
41 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:22166362 original size:13 final size:13
Alignment explanation
Indices: 22166346--22166373 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22166336 TTTATTATTT
22166346 TTAACACAAAATA
1 TTAACACAAAATA
22166359 TTAACACAAAATA
1 TTAACACAAAATA
22166372 TT
1 TT
22166374 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:22173238 original size:15 final size:15
Alignment explanation
Indices: 22173216--22173260 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
22173206 TCTAAGAAAG
22173216 AAGAATCCAAGATA-
1 AAGAATCCAAGATAC
*
22173230 AAGATATCCAAGGTAC
1 AAGA-ATCCAAGATAC
*
22173246 AAAAATCCAAGATAC
1 AAGAATCCAAGATAC
22173261 CATATCATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 19 0.73
16 3 0.12
ACGTcount: A:0.53, C:0.18, G:0.13, T:0.16
Consensus pattern (15 bp):
AAGAATCCAAGATAC
Found at i:22176514 original size:27 final size:27
Alignment explanation
Indices: 22176441--22176550 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 27
22176431 AGCATGGCTG
* * *
22176441 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAAAGCCA
* **
22176467 CAAGATACAGATAATCATGGCAAAGCCA
1 CCAGA-ACAGATAATTGTGGCAAAGCCA
*
22176495 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAAAGCCA
* * * *
22176522 TCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAAAGCCA
22176549 CC
1 CC
22176551 TGGACGCTTC
Statistics
Matches: 65, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
26 7 0.11
27 44 0.68
28 14 0.22
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAAAGCCA
Found at i:22185519 original size:30 final size:30
Alignment explanation
Indices: 22185485--22185545 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22185475 TCCTTAACTC
22185485 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22185515 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22185545 A
1 A
22185546 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22186574 original size:31 final size:31
Alignment explanation
Indices: 22186530--22186604 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
22186520 TGGGCTAAGG
*
22186530 ACACGAGCGTGTGTGACCACACGGCCTACCCT
1 ACACGGGCGTGTGTGACCACACGGCCTA-CCT
22186562 -CACGGGCGTGTGTGACCACACGGCCTACCT
1 ACACGGGCGTGTGTGACCACACGGCCTACCT
*
22186592 ACACAGGCGTGTG
1 ACACGGGCGTGTG
22186605 ACCCTCCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 3 0.08
31 37 0.93
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (31 bp):
ACACGGGCGTGTGTGACCACACGGCCTACCT
Found at i:22189651 original size:34 final size:34
Alignment explanation
Indices: 22189613--22189694 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
22189603 TTTCTATAGC
22189613 ATGAGCACATACATCCTTATGAAAATGTCCTCAA
1 ATGAGCACATACATCCTTATGAAAATGTCCTCAA
22189647 ATGAGCACATACATCCTTATGAAAATGTCCTCAA
1 ATGAGCACATACATCCTTATGAAAATGTCCTCAA
*
22189681 ATAAGCACATACAT
1 ATGAGCACATACAT
22189695 GAAAATTTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (34 bp):
ATGAGCACATACATCCTTATGAAAATGTCCTCAA
Found at i:22191434 original size:28 final size:28
Alignment explanation
Indices: 22191394--22191457 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
22191384 TGGGAAGTAG
* *
22191394 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
22191422 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
22191450 TTGGGCCT
1 TTGGGCCT
22191458 AAAAGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:22191825 original size:27 final size:27
Alignment explanation
Indices: 22191781--22192243 Score: 427
Period size: 27 Copynumber: 17.4 Consensus size: 27
22191771 GAGAAATTGC
*
22191781 CGAAATA-CCTCCGGTTTGTAAAATTAT
1 CGAAATACCCT-CGATTTGTAAAATTAT
** * *
22191808 CGAAGCACCCCCGATTTGTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAT
* * * *
22191835 CGAAGTACCCCCAATTTGTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAT
22191862 CGAAATACCCTC-AGTTT-TCAAAATTA-
1 CGAAATACCCTCGA-TTTGT-AAAATTAT
*
22191888 CTGAAATACCCTCAATTTGTAAAATTAT
1 C-GAAATACCCTCGATTTGTAAAATTAT
22191916 CGAAATACCCTCGA-TTGTAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAT
* *
22191942 TGAAATACCCTCGATTTATAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAT
22191969 CGAAATACCCTCGATTTGTAAAATTA-
1 CGAAATACCCTCGATTTGTAAAATTAT
* *
22191995 CTAAAATACCCCCGATTTGTAAAATTAT
1 C-GAAATACCCTCGATTTGTAAAATTAT
* *
22192023 C-----ACCATCGA-TTGTGAAATTA-
1 CGAAATACCCTCGATTTGTAAAATTAT
* * *
22192043 CTGAAGTACACTTGATTTGTAAAATTAT
1 C-GAAATACCCTCGATTTGTAAAATTAT
* *
22192071 CGAAATACCC-CTGATTTGTGAAATTAC
1 CGAAATACCCTC-GATTTGTAAAATTAT
* * * *
22192098 CGAAACACCTTCGATTTGTAATATTTT
1 CGAAATACCCTCGATTTGTAAAATTAT
* *
22192125 TGAAACACCCTCGATTTGTAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAT
* * *
22192152 CGAAACACCCTCAATTTGAAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAT
**
22192179 TAAAATACCCTCGATTTGTAAAATTAT
1 CGAAATACCCTCGATTTGTAAAATTAT
* *
22192206 CGAAATACCC-CTG-TAGTGTAAAATTAC
1 CGAAATACCCTC-GAT-TTGTAAAATTAT
22192233 CGAAATACCCT
1 CGAAATACCCT
22192244 TGTAGTAAAA
Statistics
Matches: 363, Mismatches: 50, Indels: 45
0.79 0.11 0.10
Matches are distributed among these distances:
20 1 0.00
21 10 0.03
22 6 0.02
26 36 0.10
27 302 0.83
28 8 0.02
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
CGAAATACCCTCGATTTGTAAAATTAT
Found at i:22192247 original size:27 final size:27
Alignment explanation
Indices: 22192195--22192249 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
22192185 ACCCTCGATT
*
22192195 TGTAAAATTATCGAAATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
*
22192222 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCCTGTAG
22192249 T
1 T
22192250 AAAAAATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCCTGTAG
Found at i:22192255 original size:27 final size:27
Alignment explanation
Indices: 22192198--22192256 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
22192188 CTCGATTTGT
* **
22192198 AAAATTATCGAAATACCCCTGTAGTGT
1 AAAATTACCGAAATACCCCTGTAGTAA
*
22192225 AAAATTACCGAAATACCCTTGTAGTAA
1 AAAATTACCGAAATACCCCTGTAGTAA
22192252 AAAAT
1 AAAAT
22192257 GACTGGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGTAA
Found at i:22197973 original size:34 final size:34
Alignment explanation
Indices: 22197930--22198015 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
22197920 CGAATCAGTA
* *
22197930 ACAGT-TCAGTTTCAGT-TAGGGCCTTAGCCCATT
1 ACAGTATCAGTATCAGTAT-GGGCCATAGCCCATT
22197963 ACAGTATCAGTATCAGTATGGGCCATAGCCCATT
1 ACAGTATCAGTATCAGTATGGGCCATAGCCCATT
* * *
22197997 TCAGTAACAGTAGCAGTAT
1 ACAGTATCAGTATCAGTAT
22198016 AGATATGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.11
34 40 0.87
35 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTATGGGCCATAGCCCATT
Found at i:22204124 original size:33 final size:33
Alignment explanation
Indices: 22204087--22204151 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
22204077 TAGTACCGTT
* *
22204087 TGGGCCAAAGCCGTATTCAGTATCAATATAGTC
1 TGGGCCAAAGCCCTATTCAGTAACAATATAGTC
22204120 TGGGCCAAAGCCCTATTCAGTAACAATATAGT
1 TGGGCCAAAGCCCTATTCAGTAACAATATAGT
22204152 ACGATGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (33 bp):
TGGGCCAAAGCCCTATTCAGTAACAATATAGTC
Found at i:22204372 original size:27 final size:26
Alignment explanation
Indices: 22204287--22204387 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
22204277 AGAAATAATG
* ** *
22204287 ATGTAGCATAGCTGCCAGAAACAGTAA
1 ATGTGGCATAGCCACCAGTAACAGT-A
* * **
22204314 ATGTGGCAAAGCCACAAGTATTAGTA
1 ATGTGGCATAGCCACCAGTAACAGTA
22204340 ATTGTGGCATAGCCACCAGTAACAGTGA
1 A-TGTGGCATAGCCACCAGTAACAGT-A
* *
22204368 ATGTGACATAGTCACCAGTA
1 ATGTGGCATAGCCACCAGTA
22204388 CAGAACTTCC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
26 2 0.03
27 54 0.93
28 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (26 bp):
ATGTGGCATAGCCACCAGTAACAGTA
Found at i:22204563 original size:27 final size:27
Alignment explanation
Indices: 22204528--22204632 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
22204518 GGGCATAATC
* *
22204528 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
22204555 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
*
22204582 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
22204609 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-CAGGGGTATT
22204633 TTAGTCATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.06
27 62 0.93
28 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:22204768 original size:54 final size:54
Alignment explanation
Indices: 22204710--22204815 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
22204700 AGGTCGAGGG
22204710 TATTTCGGTAATTTCAC-AAACAAATGGTATTTTGGTAATTTTACAAACCAAGGT
1 TATTTCGGTAATTTCACTAAACAAA-GGTATTTTGGTAATTTTACAAACCAAGGT
* ** ** **
22204764 TATTTTGGTAATTTTTCTAGTCAAAGGTATTTTGGTAATTTTGTAAACCAAG
1 TATTTCGGTAATTTCACTAAACAAAGGTATTTTGGTAATTTTACAAACCAAG
22204816 TGTATTTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 39 0.89
55 5 0.11
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
TATTTCGGTAATTTCACTAAACAAAGGTATTTTGGTAATTTTACAAACCAAGGT
Found at i:22204805 original size:27 final size:26
Alignment explanation
Indices: 22204708--22204830 Score: 120
Period size: 27 Copynumber: 4.6 Consensus size: 26
22204698 ACAGGTCGAG
* *
22204708 GGTATTTCGGTAATTTCACAAACAAA
1 GGTATTTTGGTAATTTTACAAACAAA
*
22204734 TGGTATTTTGGTAATTTTACAAACCAA
1 -GGTATTTTGGTAATTTTACAAACAAA
* **
22204761 GGTTATTTTGGTAATTTTTCTAGTCAAA
1 GG-TATTTTGGTAATTTTAC-AAACAAA
** *
22204789 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACAAA
*
22204815 GTGTATTTTAGTAATT
1 G-GTATTTTGGTAATT
22204831 CTACCCTACA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.09
27 67 0.84
28 6 0.08
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACAAA
Found at i:22204848 original size:27 final size:27
Alignment explanation
Indices: 22204812--22204946 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
22204802 TTTTGTAAAC
* *
22204812 CAAGTGTATTTTAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
22204839 C-AGGGATATTTTAGTAATTCTATCCTA
1 CAAGGG-TATTTCAGTAATTCTACCCTA
* *
22204866 CAAGGGCATTTCAGTAATTTTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
22204893 CAAGGGTATTTCCGTAATTCTACCATA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * * *
22204920 TAGGGGTATTTCAGTAATACTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
22204947 TAGATATGAG
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
26 3 0.03
27 83 0.92
28 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:22206201 original size:27 final size:27
Alignment explanation
Indices: 22206138--22206210 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
22206128 GTCACATTCG
*
22206138 CTGTTACTGGTGGCTATGCCATAATTA
1 CTGTTACTGGTGGCTATGCCACAATTA
* * *
22206165 CTGATACTGGTGGCTTTGCCACATTTA
1 CTGTTACTGGTGGCTATGCCACAATTA
* **
22206192 CTGTTTCTGGCAGCTATGC
1 CTGTTACTGGTGGCTATGC
22206211 TGCATCATTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGTTACTGGTGGCTATGCCACAATTA
Found at i:22208126 original size:40 final size:40
Alignment explanation
Indices: 22208052--22208257 Score: 292
Period size: 40 Copynumber: 5.2 Consensus size: 40
22208042 AACCCAAGTA
* * *
22208052 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
*
22208091 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* *
22208131 CCTTCGGGACTTAGCCCGGATATAGTAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACT-AGCACAAATG
*
22208171 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* *
22208211 CCTTCGGGACTTAGCCCGGATATAGTCACTACCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
22208251 CCTTCGG
1 CCTTCGG
22208258 ATCTTAGTCC
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 13 0.09
40 134 0.89
41 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:22208184 original size:80 final size:80
Alignment explanation
Indices: 22208050--22208257 Score: 339
Period size: 80 Copynumber: 2.6 Consensus size: 80
22208040 CAAACCCAAG
* * * *
22208050 TACCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTTGGGACTTAGCCCGGATAT
1 TACCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
22208114 AATCACTAGCACAAA
66 AATCACTAGCACAAA
*
22208129 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
1 TACCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
22208194 AATCACTAGCACAAA
66 AATCACTAGCACAAA
*
22208209 TACCTTCGGGACTTAGCCCGGATATAGTCACT-ACCACAAATGCCTTCGG
1 TACCTTCGGGACTTAGCCCGGATATAGTAACTCA-CACAAATGCCTTCGG
22208258 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
79 15 0.12
80 105 0.88
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
TACCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
AATCACTAGCACAAA
Found at i:22209299 original size:24 final size:24
Alignment explanation
Indices: 22209255--22209300 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22209245 ACAATTTTAG
* *
22209255 AACATCTAAACGACACTTGTTCAA
1 AACATCTAAACAACACATGTTCAA
22209279 AACAT-TAAACAACTACATGTTC
1 AACATCTAAACAAC-ACATGTTC
22209301 GGCTATTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (24 bp):
AACATCTAAACAACACATGTTCAA
Found at i:22214474 original size:13 final size:13
Alignment explanation
Indices: 22214458--22214485 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22214448 TTTATTATTT
22214458 TTAACACAAAATA
1 TTAACACAAAATA
22214471 TTAACACAAAATA
1 TTAACACAAAATA
22214484 TT
1 TT
22214486 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:22221130 original size:80 final size:80
Alignment explanation
Indices: 22220998--22221203 Score: 351
Period size: 80 Copynumber: 2.6 Consensus size: 80
22220988 AACCCAAGTA
* * *
22220998 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTTGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
22221062 TCACTAGCACAAATG
66 TCACTAGCACAAATG
22221077 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
22221142 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * *
22221157 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGG
22221204 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 13 0.11
80 107 0.89
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TCACTAGCACAAATG
Found at i:22221210 original size:40 final size:40
Alignment explanation
Indices: 22220998--22221203 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
22220988 AACCCAAGTA
* *
22220998 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
22221037 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
22221077 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
22221117 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
22221157 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
22221197 CCTTCGG
1 CCTTCGG
22221204 ATCTTAGTCC
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.08
40 139 0.91
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:22223921 original size:58 final size:56
Alignment explanation
Indices: 22223778--22223990 Score: 327
Period size: 56 Copynumber: 3.8 Consensus size: 56
22223768 CCCCAGACAG
* *
22223778 GGTCTTACTCGTACACATATATCAGAGTCATATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCAATGCCAACGTATTAAACGT
* **
22223834 GGTCTTACTCGCACACATATATCGGAGTCACATATTGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCAATGCCAACGTATTAAACGT
*
22223890 GGTCTTACTCGCACACATATATATCAGAGTCACATATCAATACCAACGTATTAAACGT
1 GGTCTTACTCGCACAC--ATATATCAGAGTCACATATCAATGCCAACGTATTAAACGT
* * *
22223948 GGTCTTACTCGCACATATATATCGGAGTCACATATCGATGCCA
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCAATGCCA
22223991 TATATCCTTC
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
56 91 0.64
58 51 0.36
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCAATGCCAACGTATTAAACGT
Found at i:22223947 original size:114 final size:112
Alignment explanation
Indices: 22223778--22223990 Score: 363
Period size: 114 Copynumber: 1.9 Consensus size: 112
22223768 CCCCAGACAG
* * *
22223778 GGTCTTACTCGTACACATATATCAGAGTCATATATCAATGCCAACGTATTAAACGTGGTCTTACT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCAATACCAACGTATTAAACGTGGTCTTACT
*
22223843 CGCACACATATATCGGAGTCACATATTGATGCCAACGTATTAAACGT
66 CGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
22223890 GGTCTTACTCGCACACATATATATCAGAGTCACATATCAATACCAACGTATTAAACGTGGTCTTA
1 GGTCTTACTCGCACAC--ATATATCAGAGTCACATATCAATACCAACGTATTAAACGTGGTCTTA
*
22223955 CTCGCACATATATATCGGAGTCACATATCGATGCCA
64 CTCGCACACATATATCGGAGTCACATATCGATGCCA
22223991 TATATCCTTC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
112 15 0.16
114 79 0.84
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (112 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCAATACCAACGTATTAAACGTGGTCTTACT
CGCACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
Found at i:22233596 original size:50 final size:50
Alignment explanation
Indices: 22233532--22233913 Score: 256
Period size: 50 Copynumber: 7.6 Consensus size: 50
22233522 CTGGGATGCA
* *
22233532 TAGTAGCCTGCACTTAGTACTACTCATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * * *
22233582 TAGTACCCTCCACTTAGTACTACACATGTGGCTTACCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * ** * * * *
22233632 TAGTAGCTTGCACTTAGTACTACGCACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATCTGGTACACG
* * * **
22233683 TAGTAG-CTGCAGTTAGTACTACACATGCGACCTATCAATCCGGTACATA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * ** *
22233732 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCCTCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
* * * * * * * *
22233782 TAGTAGCTTGCACTTAGTACTACATACGTGA-TTGAAACTATC-GAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--ATCAATCTG-GTACACG
* * * * *
22233833 TAGTAG-GTGCACTTAGTACTACACACGTGACCTA--AATTTGTCTTAAACAG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTG--GTACAC-G
*
22233883 ATAGTAGCCTGCACATAGTACTACACATGTG
1 -TAGTAGCCTGCACTTAGTACTACACATGTG
22233914 TTCTTATAAC
Statistics
Matches: 253, Mismatches: 66, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
47 2 0.01
48 4 0.02
49 20 0.08
50 170 0.67
51 36 0.14
52 21 0.08
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACG
Found at i:22233775 original size:150 final size:150
Alignment explanation
Indices: 22233529--22233866 Score: 471
Period size: 150 Copynumber: 2.2 Consensus size: 150
22233519 TCTCTGGGAT
* * *
22233529 GCATAGTAGCCTGCACTTAGTACTACTCATGCGACCTATCAATCTGGTACACGTAGTACCCTCCA
1 GCATAGTAG-CTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACATAGTACCCTCCA
* * * *
22233594 CTTAGTACTACACATGTGGCTTACCCATCTGATACACGTAGTAGCTTGCACTTAGTACTACGCAC
65 CTTAGTACTACACACGTGCCTAACCCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACAC
** *
22233659 GTGATCGAAGTTAACGGGTAC
130 GTGATCGAAACTAACGAGTAC
* * * *
22233680 GCATAGTAGCTGCAGTTAGTACTACACATGCGACCTATCAATCCGGTACATATAGTAGCCTGCAC
1 GCATAGTAGCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACATAGTACCCTCCAC
*
22233745 TTAGTACTACACACGTGACCTAACCC-TCTGATACACGTAGTAGCTTGCACTTAGTACTACATAC
66 TTAGTACTACACACGTG-CCTAACCCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACAC
* *
22233809 GTGATTGAAACTATCGAGTAC
130 GTGATCGAAACTAACGAGTAC
* * *
22233830 GCATAGTAGGTGCACTTAGTACTACACACGTGACCTA
1 GCATAGTAGCTGCACTTAGTACTACACATGCGACCTA
22233867 AATTTGTCTT
Statistics
Matches: 165, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
150 150 0.91
151 15 0.09
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (150 bp):
GCATAGTAGCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACATAGTACCCTCCAC
TTAGTACTACACACGTGCCTAACCCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACG
TGATCGAAACTAACGAGTAC
Found at i:22234576 original size:30 final size:30
Alignment explanation
Indices: 22234532--22234590 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
22234522 CAAAAACCAT
* *
22234532 ACTTTTACAAATTTACATTTTGGCCCCTAA
1 ACTTTCACAAATTTACACTTTGGCCCCTAA
*
22234562 ACTTTCACATATTTACACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGGCCCCTA
22234591 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGGCCCCTAA
Found at i:22245490 original size:20 final size:20
Alignment explanation
Indices: 22245465--22245528 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
22245455 AGTTCTGAAC
*
22245465 TCGTTGAGTTGAGTTCGAGA
1 TCGTTGAGTTGAGTCCGAGA
22245485 TCGTTGAGTTGAGTCCGAGA
1 TCGTTGAGTTGAGTCCGAGA
* *
22245505 TGGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGA
22245525 TCGT
1 TCGT
22245529 GAGATGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.17, C:0.12, G:0.36, T:0.34
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGA
Found at i:22254860 original size:40 final size:40
Alignment explanation
Indices: 22254803--22254894 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
22254793 GGTATTTGGT
22254803 ACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAAAGC
1 ACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAAAGC
* ** *
22254843 AGTAAGTGTGCGATTTAAACTAGCTTTTGCTATATAAGGC
1 ACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAAAGC
22254883 ACTAAGTGTGCG
1 ACTAAGTGTGCG
22254895 GCACCGAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (40 bp):
ACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAAAGC
Found at i:22263271 original size:46 final size:44
Alignment explanation
Indices: 22263204--22263380 Score: 187
Period size: 46 Copynumber: 3.9 Consensus size: 44
22263194 TGTAACCCGC
* *
22263204 CCATAAGCGAACTCGGACTCAACTCAACGAGGTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATTCGCAT
*
22263250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCGC-A--T
* *
22263296 ACATCTCA-TGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATTCGCAT
* * *
22263343 CCATAAGTGAACTCGAACTCAACTCAATGAGTTTGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
22263381 GCCCAAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
44 6 0.05
45 4 0.04
46 61 0.55
47 32 0.29
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCGCAT
Found at i:22263324 original size:93 final size:93
Alignment explanation
Indices: 22263212--22263383 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
22263202 GCCCATAAGC
*
22263212 GAACTCGGACTCAACTCAACGAGGTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGGTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
22263276 ACGAGTTCGGATGCCTAGTTACATCTCAT
65 ACGAGTTCGGATGCCTAGTTACATCTCAT
* *
22263305 GAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
* *
22263370 TGAGTTTGGATGCC
66 CGAGTTCGGATGCC
22263384 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:22265849 original size:22 final size:22
Alignment explanation
Indices: 22265808--22265851 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22265798 ATAGAAAAAC
**
22265808 CCAGAATAAAGAAATTCAAGAT
1 CCAGAATAAAGAAACCCAAGAT
*
22265830 CCAGGATAAAGAAACCCAAGAT
1 CCAGAATAAAGAAACCCAAGAT
22265852 ACGATACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.14
Consensus pattern (22 bp):
CCAGAATAAAGAAACCCAAGAT
Found at i:22268848 original size:47 final size:48
Alignment explanation
Indices: 22268770--22268902 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 48
22268760 GTAACCCGCC
* *
22268770 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCC-AGTTACAT
* * * *
22268819 C-TCA-TGAACTCGGTCTCAACTCAATGAGTTCGGA---CATTTGCAT
1 CATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCAGTTACAT
*
22268862 CTATAAGTGAACTCGGACTCAACTTAATGAGTTCGGATGCC
1 C-ATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCC
22268903 CAAATATCCC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
43 7 0.10
44 1 0.01
45 2 0.03
46 28 0.41
47 27 0.39
48 2 0.03
49 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
CATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCAGTTACAT
Found at i:22277106 original size:16 final size:16
Alignment explanation
Indices: 22277087--22277123 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
22277077 TGTGAGTTCT
22277087 TCAGTCTGCAAGCTCA
1 TCAGTCTGCAAGCTCA
* *
22277103 TCAGCCTGTAAGCTCA
1 TCAGTCTGCAAGCTCA
22277119 TCAGT
1 TCAGT
22277124 TGCCTTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (16 bp):
TCAGTCTGCAAGCTCA
Found at i:22277704 original size:13 final size:13
Alignment explanation
Indices: 22277686--22277711 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22277676 TAAACTCTAC
22277686 TTTCAAGTTATGT
1 TTTCAAGTTATGT
22277699 TTTCAAGTTATGT
1 TTTCAAGTTATGT
22277712 ATTACACGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTCAAGTTATGT
Found at i:22279904 original size:13 final size:13
Alignment explanation
Indices: 22279864--22279955 Score: 64
Period size: 13 Copynumber: 7.1 Consensus size: 13
22279854 AAATGGTAAA
*
22279864 ATGAAATGTTTAG
1 ATGAAATGTTTAT
*
22279877 AAGAAATG-TTAT
1 ATGAAATGTTTAT
*
22279889 ATGAAATGTTTTT
1 ATGAAATGTTTAT
*
22279902 ATGAAAATAG-ATAT
1 ATG-AAAT-GTTTAT
*
22279916 ATGAAACTG-ATAT
1 ATGAAA-TGTTTAT
*
22279929 ATGAAGTGTTTAT
1 ATGAAATGTTTAT
* *
22279942 ACGAAATATTTAT
1 ATGAAATGTTTAT
22279955 A
1 A
22279956 AGAATATAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
12 12 0.19
13 40 0.63
14 10 0.16
15 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.38
Consensus pattern (13 bp):
ATGAAATGTTTAT
Found at i:22279907 original size:25 final size:27
Alignment explanation
Indices: 22279864--22279921 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
22279854 AAATGGTAAA
*
22279864 ATGAAATGTTTAGAAG-AAAT-GTTAT
1 ATGAAATGTTTAGAAGAAAATAGATAT
** *
22279889 ATGAAATGTTTTTATGAAAATAGATAT
1 ATGAAATGTTTAGAAGAAAATAGATAT
22279916 ATGAAA
1 ATGAAA
22279922 CTGATATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 13 0.48
26 4 0.15
27 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (27 bp):
ATGAAATGTTTAGAAGAAAATAGATAT
Found at i:22281190 original size:17 final size:17
Alignment explanation
Indices: 22281168--22281202 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22281158 AAGAAGTATG
22281168 AAATGCTAAGTAGTTAC
1 AAATGCTAAGTAGTTAC
22281185 AAATGCTAAGTAGTTAC
1 AAATGCTAAGTAGTTAC
22281202 A
1 A
22281203 CTTTGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (17 bp):
AAATGCTAAGTAGTTAC
Found at i:22284852 original size:16 final size:16
Alignment explanation
Indices: 22284831--22284865 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
22284821 AGAGAGGGAG
22284831 TAAACATAAAGCTTAA
1 TAAACATAAAGCTTAA
22284847 TAAACATAAAGCTTAA
1 TAAACATAAAGCTTAA
22284863 TAA
1 TAA
22284866 GCTTGCATGT
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:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAACATAAAGCTTAA
Done.