Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 56 of 433
Found at i:15795290 original size:43 final size:43
Alignment explanation
Indices: 15795243--15795332 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
15795233 CTTTTAGCAA
* * *
15795243 CGTTTTTGGGAAAAGCGCAGCTAAAGGTTATGATCTTTAGCGG
1 CGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATCTTTAGCGG
*
15795286 CGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGG
1 CGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATCTTTAGCGG
15795329 CGTT
1 CGTT
15795333 ATCTATAGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
CGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATCTTTAGCGG
Found at i:15795341 original size:15 final size:15
Alignment explanation
Indices: 15795318--15795347 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15795308 AAAGGTCATG
*
15795318 ATCTTTAGCGGCGTT
1 ATCTATAGCGGCGTT
15795333 ATCTATAGCGGCGTT
1 ATCTATAGCGGCGTT
15795348 TTTTGTGGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (15 bp):
ATCTATAGCGGCGTT
Found at i:15797804 original size:31 final size:31
Alignment explanation
Indices: 15797769--15797831 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
15797759 CTATCAACAT
*
15797769 GTCATCAACATAAAAAAGTAGATACATAAAA
1 GTCATCAACATAAAAAAGTAGATACACAAAA
*
15797800 GTCATCAACATAAAGAAGTAGATACACAAAA
1 GTCATCAACATAAAAAAGTAGATACACAAAA
15797831 G
1 G
15797832 AACCATCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.13, T:0.17
Consensus pattern (31 bp):
GTCATCAACATAAAAAAGTAGATACACAAAA
Found at i:15800850 original size:5 final size:5
Alignment explanation
Indices: 15800840--15800867 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15800830 CAATTTGTGA
15800840 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
15800868 GAACACAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:15803723 original size:7 final size:7
Alignment explanation
Indices: 15803711--15803745 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
15803701 AATGTATCTC
15803711 AATATAT
1 AATATAT
15803718 AATATAT
1 AATATAT
15803725 AATATAT
1 AATATAT
*
15803732 AACATAT
1 AATATAT
15803739 AATATAT
1 AATATAT
15803746 GATTCGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:15816464 original size:13 final size:13
Alignment explanation
Indices: 15816446--15816472 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15816436 TGAATTGATA
15816446 TGTGTGAAAATTT
1 TGTGTGAAAATTT
15816459 TGTGTGAAAATTT
1 TGTGTGAAAATTT
15816472 T
1 T
15816473 ATTGTTTGTG
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:15819119 original size:64 final size:64
Alignment explanation
Indices: 15819045--15819172 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
15819035 CATATGGGCA
15819045 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
1 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
*
15819109 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTGTATG
1 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
15819173 AAAATGTATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (64 bp):
TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
Found at i:15819185 original size:64 final size:64
Alignment explanation
Indices: 15819053--15819186 Score: 205
Period size: 64 Copynumber: 2.1 Consensus size: 64
15819043 CATGGTTTTG
**** * *
15819053 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGTGGTTTTG
1 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGAAAATGTA
*
15819117 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTGTATGAAAATGTA
1 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGAAAATGTA
15819181 TGACTA
1 TGACTA
15819187 TTGCCATGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.38
Consensus pattern (64 bp):
TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGAAAATGTA
Found at i:15819940 original size:23 final size:23
Alignment explanation
Indices: 15819910--15819971 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
15819900 GTTATGCCCG
*
15819910 CAAGTGATAGTGGCAGTACAATA
1 CAAGTGATAGTGGCACTACAATA
* *
15819933 CAAGTGATAGTGGCACTTCAATG
1 CAAGTGATAGTGGCACTACAATA
* *
15819956 CAAGTGACAGTAGCAC
1 CAAGTGATAGTGGCAC
15819972 ACCCGTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (23 bp):
CAAGTGATAGTGGCACTACAATA
Found at i:15825412 original size:41 final size:43
Alignment explanation
Indices: 15825363--15825491 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
15825353 ATCAGCACGA
* * *
15825363 AGCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATT-T
1 AGCCTGCTAGACTTGAAGCCCGATA-TCATTTCACCGGCATTAT
* *
15825404 CGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTAT
1 AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
* ** * * *
15825447 AGCCTGCTAGGCCCGAAGCCCAATATTATCTCACCGGCATTAT
1 AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
15825490 AG
1 AG
15825492 TTTGCTAGGC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 21 0.28
42 13 0.18
43 40 0.54
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (43 bp):
AGCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTAT
Found at i:15825465 original size:43 final size:43
Alignment explanation
Indices: 15825391--15825514 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
15825381 TCTGAACTCA
* **
15825391 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
15825433 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* ** *
15825476 CTCACCGGCATTATAGTTTGCTAGGCCCGAAGCTCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
15825515 ATATTATTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 12 0.17
43 59 0.83
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:15832654 original size:13 final size:13
Alignment explanation
Indices: 15832636--15832661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15832626 GCCCAAACGT
15832636 CAAAATTTTCAAA
1 CAAAATTTTCAAA
15832649 CAAAATTTTCAAA
1 CAAAATTTTCAAA
15832662 AAATCATTCC
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:15833983 original size:15 final size:14
Alignment explanation
Indices: 15833925--15833998 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 14
15833915 ATAATTCAAG
*
15833925 ATAAGGAAATCCATA
1 ATAAAGAAATCCA-A
**
15833940 ATGGAGAAATCCAGA
1 ATAAAGAAATCCA-A
*
15833955 ATATAGAAATCCAA
1 ATAAAGAAATCCAA
15833969 CATAAAGAAATCCAA
1 -ATAAAGAAATCCAA
15833984 A-ACAAGAAAATCCAA
1 ATA-AAG-AAATCCAA
15833999 TCAGACTGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 1 0.02
14 5 0.10
15 43 0.88
ACGTcount: A:0.57, C:0.16, G:0.12, T:0.15
Consensus pattern (14 bp):
ATAAAGAAATCCAA
Found at i:15835816 original size:30 final size:31
Alignment explanation
Indices: 15835780--15835848 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 31
15835770 CACGGCTGAG
15835780 ACACATGGCCGTATATTTGCCCGTATGGCT-
1 ACACATGGCCGTATATTTGCCCGTATGGCTA
* *
15835810 ACACATGGCCGTATCTTTGCCCGTGTGGCTA
1 ACACATGGCCGTATATTTGCCCGTATGGCTA
15835841 ACACATGG
1 ACACATGG
15835849 GCTATTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (31 bp):
ACACATGGCCGTATATTTGCCCGTATGGCTA
Found at i:15845179 original size:11 final size:11
Alignment explanation
Indices: 15845163--15845187 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15845153 CATCTTGAAG
15845163 AAAAAAAAAGA
1 AAAAAAAAAGA
15845174 AAAAAAAAAGA
1 AAAAAAAAAGA
15845185 AAA
1 AAA
15845188 GTAAAGTGAG
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:15845357 original size:32 final size:32
Alignment explanation
Indices: 15845316--15845381 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15845306 AGAAAGGTGT
*
15845316 AAGAAGTGGATATAATGTGGAGATGTTATTTA
1 AAGAAGTGGATATAACGTGGAGATGTTATTTA
15845348 AAGAAGTGGATATAACGTGGAGATGTTATTTA
1 AAGAAGTGGATATAACGTGGAGATGTTATTTA
15845380 AA
1 AA
15845382 ATTGAGGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (32 bp):
AAGAAGTGGATATAACGTGGAGATGTTATTTA
Found at i:15845784 original size:11 final size:11
Alignment explanation
Indices: 15845754--15845788 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
15845744 CATAATATTA
*
15845754 TTTTATTTGTT
1 TTTTTTTTGTT
15845765 TTGTTTTTTGTT
1 TT-TTTTTTGTT
15845777 TTTTTTTTGTT
1 TTTTTTTTGTT
15845788 T
1 T
15845789 AGTTTGCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:15853706 original size:259 final size:258
Alignment explanation
Indices: 15853238--15853949 Score: 1199
Period size: 259 Copynumber: 2.7 Consensus size: 258
15853228 TCCTTTTTTC
* * *
15853238 TTTGTATGTAAAAACATTTAGGACAATATACAAAGGATATAAATGTAATTGATGAATATTTTTAT
1 TTTGTATGCAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
*
15853303 TAAACCAATTTGTTCAAAAAAAAATAAGTATACAAAACAAATATACTACACTTAGGCACTAGATC
66 TAAACCAATTTGTTC-AAAAAATATAAGTATACAAAACAAATATACTACACTTAGGCACTAGATC
* * *
15853368 CAACATGATAATCCATAATTGATTACTCATTTCAGACACATTGCTCTATGTAATGTTTCTTGTAC
130 CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATAC
*
15853433 AAAACAAATATACTACACTTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
195 AAAACAAATATACTACACTTACGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* * **
15853497 TTTGCATGCAAAAACATTGAAGACAATATACAAATAATATAAATGTAATTGATGGATATTTTTAT
1 TTTGTATGCAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
*
15853562 TAAACTAATTTGTTCAAAAAATATAAGTATACAAAACAAATATACTACACTTAGGCCACTAGATC
66 TAAACCAATTTGTTCAAAAAATATAAGTATACAAAACAAATATACTACACTTAGG-CACTAGATC
*
15853627 CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTTTATGTAATGTTTCTTATAC
130 CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATAC
15853692 AAAACAAATATACTACACTTACGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
195 AAAACAAATATACTACACTTACGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* * *
15853756 TTTGTATGCAAAAACATTGAGGATAATAAACAAAGGATATAAATGTAATTGGTGGATATTTTTAT
1 TTTGTATGCAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
* *
15853821 TAGACCAATTTGTTCAAAAAATATAAGTATACAAAAAAAATATACTACACTTAGGGCACTAGATC
66 TAAACCAATTTGTTCAAAAAATATAAGTATACAAAACAAATATACTACACTTA-GGCACTAGATC
* * *
15853886 CCACATGATAATCCATAATTGATTAATCATTTTAGACTCATTGCTCTATGTAATATTTCTTATA
130 CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
15853950 AGATTGTTTC
Statistics
Matches: 423, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
258 39 0.09
259 382 0.90
260 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (258 bp):
TTTGTATGCAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTGATGGATATTTTTAT
TAAACCAATTTGTTCAAAAAATATAAGTATACAAAACAAATATACTACACTTAGGCACTAGATCC
AACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATACA
AAACAAATATACTACACTTACGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
Found at i:15858783 original size:18 final size:17
Alignment explanation
Indices: 15858760--15858822 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
15858750 TATTTGTAAC
15858760 ATTATATATATAAATTTT
1 ATTATAT-TATAAATTTT
*
15858778 ATTATATGTTATATATTTTT
1 ATTATA--TTATA-AATTTT
**
15858798 ATTATATTATTTATTTT
1 ATTATATTATAAATTTT
15858815 ATTATATT
1 ATTATATT
15858823 TTTATATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.32
18 10 0.26
19 4 0.11
20 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATATTATAAATTTT
Found at i:15858799 original size:20 final size:19
Alignment explanation
Indices: 15858760--15858829 Score: 74
Period size: 18 Copynumber: 3.8 Consensus size: 19
15858750 TATTTGTAAC
* *
15858760 ATTATATATATA-AATTTT
1 ATTATATTTATATATTTTT
15858778 ATTATATGTTATATATTTTT
1 ATTATAT-TTATATATTTTT
*
15858798 ATTATA-TTATTTA-TTTT
1 ATTATATTTATATATTTTT
*
15858815 ATTATATTTTTATAT
1 ATTATATTTATATAT
15858830 ATAAAATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 10 0.23
18 18 0.42
19 4 0.09
20 11 0.26
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (19 bp):
ATTATATTTATATATTTTT
Found at i:15858820 original size:28 final size:29
Alignment explanation
Indices: 15858776--15858832 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
15858766 TATATAAATT
15858776 TTATTATATGTTATATATTTTTAT-TATA
1 TTATTATATGTTATATATTTTTATATATA
*
15858804 TTATT-TATTTTATTATATTTTTATATATA
1 TTATTATATGTTA-TATATTTTTATATATA
15858833 AAATATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 6 0.23
28 16 0.62
29 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTATTATATGTTATATATTTTTATATATA
Found at i:15858839 original size:27 final size:27
Alignment explanation
Indices: 15858781--15858840 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
15858771 AAATTTTATT
* * *
15858781 ATATGTTATATATTTTTATTATATTAT
1 ATATTTTATATATTTTTATTATATAAA
*
15858808 TTATTTTATTATATTTTTA-TATATAAA
1 ATATTTTA-TATATTTTTATTATATAAA
15858835 ATATTT
1 ATATTT
15858841 GTTACATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
ATATTTTATATATTTTTATTATATAAA
Found at i:15864086 original size:18 final size:18
Alignment explanation
Indices: 15864063--15864105 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15864053 ATATTTTTTC
15864063 ATTCTTTT-ACCTATAAA
1 ATTCTTTTGACCTATAAA
*
15864080 TATTCTTTTGACCTTTAAA
1 -ATTCTTTTGACCTATAAA
15864099 ATTCTTT
1 ATTCTTT
15864106 CTAAATTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTCTTTTGACCTATAAA
Found at i:15867208 original size:176 final size:175
Alignment explanation
Indices: 15866977--15867363 Score: 560
Period size: 176 Copynumber: 2.2 Consensus size: 175
15866967 ACCTTTGACG
* * *
15866977 AGAAGCAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAGCAGATCCAAGA
1 AGAA-CAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGA
* * * * *
15867042 TAATAGATCTGGCATTTCCATTTCGACGAAGAGCAGGTACATAGCAGGTCTAATCTTCAGATG-T
65 TAACAGATCTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGAT
* *
15867106 TTATACTGAAGCAGATCCAAGATGATTTGGACATTCTTGTGTTTACAA
130 TT-TACTGAAGCAGATCCAAGATGATTTGG-CATCCTTGTGTTCACAA
* *
15867154 GGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGAT
1 AGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGAT
* * *
15867219 AACAGATCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGATT
66 AACAGATCTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATT
*
15867284 TTACTGAAGCAGATCCTAGATGATTTGGCATCCTTGTGTTCACAA
131 TTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
* * * *
15867329 AGAGCAAATCGAAGACACAGCATATTTGGCTTTCA
1 AGAACAAATCGAAGACATAGCAGATTTGACTTTCA
15867364 CGTGTTTACG
Statistics
Matches: 187, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
175 44 0.24
176 137 0.73
177 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
AGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGAT
AACAGATCTGGCATCTCCATTTCGACGAAGAGCAGATACATAGCAGATCTAACCTTCAGATGATT
TTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
Found at i:15869460 original size:18 final size:17
Alignment explanation
Indices: 15869437--15869499 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
15869427 TATTTGTAAC
15869437 ATTATATATATAAATTTT
1 ATTATAT-TATAAATTTT
*
15869455 ATTATATGTTATATATTTTT
1 ATTATA--TTATA-AATTTT
**
15869475 ATTATATTATTTATTTT
1 ATTATATTATAAATTTT
15869492 ATTATATT
1 ATTATATT
15869500 TTTATATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.32
18 10 0.26
19 4 0.11
20 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATATTATAAATTTT
Found at i:15869467 original size:23 final size:20
Alignment explanation
Indices: 15869451--15869498 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
15869441 TATATATAAA
15869451 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
15869471 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
15869488 TTTTATTATAT
1 TTTTATTATAT
15869499 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:15869476 original size:20 final size:18
Alignment explanation
Indices: 15869437--15869506 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
15869427 TATTTGTAAC
* *
15869437 ATTATATATATAAATTTT
1 ATTATATTTATATATTTT
15869455 ATTATATGTTATATATTTTT
1 ATTATAT-TTATATA-TTTT
*
15869475 ATTATA-TTATTTATTTT
1 ATTATATTTATATATTTT
*
15869492 ATTATATTTTTATAT
1 ATTATATTTATATAT
15869507 GTAAAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.23
18 19 0.43
19 5 0.11
20 10 0.23
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTATATTTATATATTTT
Found at i:15869505 original size:25 final size:28
Alignment explanation
Indices: 15869453--15869506 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
15869443 TATATAAATT
*
15869453 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
15869481 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
15869506 T
1 T
15869507 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:15871632 original size:3 final size:3
Alignment explanation
Indices: 15871587--15871665 Score: 51
Period size: 3 Copynumber: 28.0 Consensus size: 3
15871577 TCTGGGCAGT
* * * * * *
15871587 AGA AGA ACA AG- AGA AAA ATA AGA ATA AG- AGA AGA AG- TGG AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
15871632 AGA AGA A-A AGA AGA AGA TG- AGA ATA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15871666 GAAAATGGAA
Statistics
Matches: 57, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
2 8 0.14
3 49 0.86
ACGTcount: A:0.63, C:0.01, G:0.29, T:0.06
Consensus pattern (3 bp):
AGA
Found at i:15871634 original size:25 final size:25
Alignment explanation
Indices: 15871606--15871668 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
15871596 AGAGAAAAAT
*
15871606 AAGAATAAGAGAAGAAG-TGGAGAAG
1 AAGAAGAAGAGAAGAAGAT-GAGAAG
* *
15871631 AAGAAGAAAAGAAGAAGATGAGAAT
1 AAGAAGAAGAGAAGAAGATGAGAAG
15871656 AAGAAGAAGAGAA
1 AAGAAGAAGAGAA
15871669 AATGGAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (25 bp):
AAGAAGAAGAGAAGAAGATGAGAAG
Found at i:15871643 original size:14 final size:14
Alignment explanation
Indices: 15871626--15871670 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
15871616 GAAGAAGTGG
15871626 AGAAGAAGAAGAAA
1 AGAAGAAGAAGAAA
15871640 AGAAGAAGATGAGAATA
1 AGAAGAAGA--AGAA-A
15871657 AGAAGAAG-AGAAA
1 AGAAGAAGAAGAAA
15871670 A
1 A
15871671 TGGAAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
14 13 0.46
16 4 0.14
17 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
AGAAGAAGAAGAAA
Found at i:15871646 original size:17 final size:17
Alignment explanation
Indices: 15871587--15871665 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
15871577 TCTGGGCAGT
* *
15871587 AGAAGAACAAGAGAAAA
1 AGAAGAAGAAGAGAATA
* * *
15871604 ATAAGAATAAGAGAAGA
1 AGAAGAAGAAGAGAATA
*
15871621 AGTGGAGAAGAAGAAGAA-A
1 A--GAAGAAGAAG-AGAATA
*
15871640 AGAAGAAGATGAGAATA
1 AGAAGAAGAAGAGAATA
15871657 AGAAGAAGA
1 AGAAGAAGA
15871666 GAAAATGGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.08
17 33 0.66
19 9 0.18
20 4 0.08
ACGTcount: A:0.63, C:0.01, G:0.29, T:0.06
Consensus pattern (17 bp):
AGAAGAAGAAGAGAATA
Found at i:15873773 original size:20 final size:20
Alignment explanation
Indices: 15873750--15873792 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15873740 AGGCACAGTT
*
15873750 GTGCAAACAAGAACACCGAA
1 GTGCAAACAAGAACACCAAA
* *
15873770 GTGCAATCAAGGACACCAAA
1 GTGCAAACAAGAACACCAAA
15873790 GTG
1 GTG
15873793 TATACAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.09
Consensus pattern (20 bp):
GTGCAAACAAGAACACCAAA
Found at i:15876110 original size:22 final size:22
Alignment explanation
Indices: 15876085--15876130 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15876075 ATATAGGTTG
15876085 TATCATCTTTTATTATTTTTCT
1 TATCATCTTTTATTATTTTTCT
15876107 TATCATCTTTTATTATTTTTCT
1 TATCATCTTTTATTATTTTTCT
15876129 TA
1 TA
15876131 GTATCGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (22 bp):
TATCATCTTTTATTATTTTTCT
Found at i:15878580 original size:225 final size:225
Alignment explanation
Indices: 15878154--15878589 Score: 543
Period size: 225 Copynumber: 1.9 Consensus size: 225
15878144 TTAGTTTTAC
* * * * *
15878154 TTTACCAAAAATAAAACAATATTGGTAGATCTTCAACTTCGAGATTTATGGTGAGTTTAGATAAA
1 TTTACCAAAAATAAAACAATATTGGTAGACCTTCAACTTCAAAATTTAAGATGAGTTTAGATAAA
* * * *
15878219 TAGTAGAGGATGATATAATATATTTAGTTTATTTTTTATCTCATATGATAATGTTATTATAATAT
66 CAGTAGAGGATAATATAATACATTTAGTTTATTTTTTATCTCATATGATAATATTATTATAATAT
* * * * * * * *** **
15878284 TTAATTCCATTATCACAAATATTTTTACATTAACTATAAATATATGTATTATCTATTTAAATTTA
131 TTAATTCCATCACCACAAATATTTTTACACTAACCACAAATATATGTACTACCTACCCAAACCTA
15878349 CCCTTAAATAATTAATGATTGATCTTTTCT
196 CCCTTAAATAATTAATGATTGATCTTTTCT
* * *
15878379 TTTATCAAAAATAAAACAATATTGGTAGCCCTTCAACTTCAAAATTTAAGATGAGTTTAGATAGA
1 TTTACCAAAAATAAAACAATATTGGTAGACCTTCAACTTCAAAATTTAAGATGAGTTTAGATAAA
* * * * *
15878444 CAGTAGAGTATAATATAGTGCGTTTAGTTTATTTTTTGTCTCATACT-ATAATATTATTATAATA
66 CAGTAGAGGATAATATAATACATTTAGTTTATTTTTTATCTCATA-TGATAATATTATTATAATA
* * *
15878508 TTTAATTTCATCACCACTAATATTTTTACACTAACCACAAATATATGTACTGCCTACCCAAACCC
130 TTTAATTCCATCACCACAAATATTTTTACACTAACCACAAATATATGTACTACCTACCCAAA-CC
*
15878573 T-CCCTTAATTAATTAAT
194 TACCCTTAAATAATTAAT
15878590 CACCGATCCC
Statistics
Matches: 176, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
225 174 0.99
226 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (225 bp):
TTTACCAAAAATAAAACAATATTGGTAGACCTTCAACTTCAAAATTTAAGATGAGTTTAGATAAA
CAGTAGAGGATAATATAATACATTTAGTTTATTTTTTATCTCATATGATAATATTATTATAATAT
TTAATTCCATCACCACAAATATTTTTACACTAACCACAAATATATGTACTACCTACCCAAACCTA
CCCTTAAATAATTAATGATTGATCTTTTCT
Found at i:15895565 original size:206 final size:206
Alignment explanation
Indices: 15895200--15895611 Score: 587
Period size: 206 Copynumber: 2.0 Consensus size: 206
15895190 ATACAAATTG
* *
15895200 CTTCTAGAATCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTATA
1 CTTCTAGAACCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACA
* * * *
15895265 CTTAGAATTTCTTCATGGAACTTTAACACATGCATATACTCATATTCTAAGCCTCATAATAAACA
66 CATAGAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAGCCTCATAATAAACA
* * *
15895330 TAAAATAAATATTTTGATGTCATATTTGTGGTCCCGAAACCACTATT-TCGACTAGGCCCTATTT
131 TAAAATAAATATTTTAACGTCAGATTTGTGGTCCCGAAACCACTATTCT-GACTAGGCCCTATTT
15895394 TGGGATGTTACA
195 TGGGATGTTACA
**
15895406 CTTCTAGAACCCAAGTTTTGT-AATTTATTCAATTTAGTCCTTAATTTCCAATTGGACACCTTAC
1 CTTCTAGAACCCAAGTTTT-TCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTAC
* * ** * * * *
15895470 ACATAGAATTTCTTCATGAAAATTTAACATATGGATATTTTAATA-TCTTAGACCTTATAATGAT
65 ACATAGAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAG-CCTCATAATAAA
* *
15895534 CATGAAATAATTATTTTAACGTCAGATTTGTGGTCCCGAAACCACTATTCTGACTAGGCCCTATT
129 CATAAAATAAATATTTTAACGTCAGATTTGTGGTCCCGAAACCACTATTCTGACTAGGCCCTATT
15895599 TTGGGATGTTACA
194 TTGGGATGTTACA
15895612 ACAAACCTTT
Statistics
Matches: 182, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
205 5 0.03
206 175 0.96
207 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (206 bp):
CTTCTAGAACCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACA
CATAGAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAGCCTCATAATAAACA
TAAAATAAATATTTTAACGTCAGATTTGTGGTCCCGAAACCACTATTCTGACTAGGCCCTATTTT
GGGATGTTACA
Found at i:15896393 original size:40 final size:40
Alignment explanation
Indices: 15896281--15896409 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
15896271 AGGTTATATA
* ** * *
15896281 TGAATGCACATATGTGCCCCTGTTTGTACTTCAATATCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
15896321 TAAATGCACATGCATGCCCTTGTTTGTGCTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
15896361 TGAATGTACATACGTGCCCCTGTTTGTACTTCGGTACCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCC
15896402 TGAATGCA
1 TGAATGCA
15896410 TTATAATGTC
Statistics
Matches: 71, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
40 60 0.85
41 11 0.15
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:15896400 original size:20 final size:20
Alignment explanation
Indices: 15896341--15896400 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
15896331 TGCATGCCCT
*
15896341 TGTTTGTGCTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
** * *
15896361 TGAATGTACATAC-GTGCCCC
1 TGTTTGTAC-TTCGGTACCCC
15896381 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
15896401 CTGAATGCAT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.13, C:0.30, G:0.22, T:0.35
Consensus pattern (20 bp):
TGTTTGTACTTCGGTACCCC
Found at i:15901902 original size:11 final size:11
Alignment explanation
Indices: 15901886--15901910 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15901876 ATTTCTTGAA
15901886 TTTTTTTTGTT
1 TTTTTTTTGTT
15901897 TTTTTTTTGTT
1 TTTTTTTTGTT
15901908 TTT
1 TTT
15901911 GAGATTATTG
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:15903927 original size:22 final size:24
Alignment explanation
Indices: 15903892--15903935 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
15903882 TACTTTAGTC
15903892 TTTTTAATTATTATTTT-TTTATG
1 TTTTTAATTATTATTTTCTTTATG
*
15903915 TTTTT-ATTGTTATTTTCTTTA
1 TTTTTAATTATTATTTTCTTTA
15903936 GATTTCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTAATTATTATTTTCTTTATG
Found at i:15906371 original size:17 final size:18
Alignment explanation
Indices: 15906349--15906389 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
15906339 TAATAAATGA
15906349 AAATATATAAAATT-ATT
1 AAATATATAAAATTAATT
*
15906366 AAATAT-TAAATTTAATT
1 AAATATATAAAATTAATT
*
15906383 TAATATA
1 AAATATA
15906390 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAAAATTAATT
Found at i:15910679 original size:27 final size:26
Alignment explanation
Indices: 15910619--15910681 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
15910609 ATAAGGCTCC
*
15910619 ATTTTATTAGGATATTTAATATTAAG
1 ATTTTATTTGGATATTTAATATTAAG
* * *
15910645 ATAATTATTTGGATTATTTAATTTTAGG
1 AT-TTTATTTGGA-TATTTAATATTAAG
15910673 ATTTTATTT
1 ATTTTATTT
15910682 TAATTATCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.47
28 14 0.47
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (26 bp):
ATTTTATTTGGATATTTAATATTAAG
Found at i:15910703 original size:20 final size:20
Alignment explanation
Indices: 15910675--15910720 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15910665 ATTTTAGGAT
*
15910675 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
15910694 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
15910714 TTTATCT
1 TTTATCT
15910721 ATTTAGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 17 0.71
21 2 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:15914396 original size:5 final size:5
Alignment explanation
Indices: 15914382--15914438 Score: 73
Period size: 5 Copynumber: 11.4 Consensus size: 5
15914372 GCAACCCAAT
*
15914382 TTTTA TTTTTA TTTTA TTTTA TTTTTA TTTTA TTTTA TTTTA -TCT- TTTTA
1 TTTTA -TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
15914432 TTTTA TT
1 TTTTA TT
15914439 ATTTATTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
4 4 0.09
5 32 0.70
6 10 0.22
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15914403 original size:16 final size:16
Alignment explanation
Indices: 15914382--15914445 Score: 92
Period size: 16 Copynumber: 3.8 Consensus size: 16
15914372 GCAACCCAAT
15914382 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
15914398 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
*
15914414 TTTTATTTTATCTTTTTA
1 TTTTATTTT-T-ATTTTA
15914432 TTTTATTATTTATT
1 TTTTATT-TTTATT
15914446 ATTTCAGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
16 25 0.58
17 3 0.07
18 13 0.30
19 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:15914440 original size:21 final size:20
Alignment explanation
Indices: 15914380--15914442 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
15914370 AGGCAACCCA
15914380 ATTTTTATTTTTATTTTATTTT
1 ATTTTTA-TTTTA-TTTATTTT
15914402 ATTTTTATTTTATTTTATTTT
1 ATTTTTATTTTA-TTTATTTT
15914423 ATCTTTTTATTTTA-TTATTT
1 A--TTTTTATTTTATTTATTT
15914443 ATTATTTCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
21 21 0.54
22 7 0.18
23 11 0.28
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTTTATTTTATTTATTTT
Found at i:15929531 original size:40 final size:39
Alignment explanation
Indices: 15929471--15929674 Score: 167
Period size: 40 Copynumber: 5.1 Consensus size: 39
15929461 CGGAATTTAG
* **
15929471 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAAC
* * *** * *
15929511 TCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAAC
*
15929551 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAAC
* * * * *
15929591 CCGGATATAACCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACAACTCGCA-CAATGCCTTCGGGTCTTAAC
* * * *
15929631 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAAC
15929671 CCGG
1 CCGG
15929675 GTATCATTTA
Statistics
Matches: 141, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 138 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAAC
Found at i:15929557 original size:80 final size:79
Alignment explanation
Indices: 15929458--15929674 Score: 229
Period size: 80 Copynumber: 2.7 Consensus size: 79
15929448 AACCGAGTCT
* * * * * ***
15929458 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACTCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAA-TGCCTTCGGGTCTTAACCCGGATATAAC
*
15929522 AACTTGCACAAATGC
65 AACTAGCACAAATGC
* * * *
15929537 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AATGCCTTCGGGTCTTAACCCGGATATAAC
* *
15929602 CACTAGCATAAATGC
65 AACTAGCACAAATGC
* * * *
15929617 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCA-CAATGCCTTCGGGTCTTAACCCGG
15929675 GTATCATTTA
Statistics
Matches: 114, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 10 0.09
80 102 0.89
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAATGCCTTCGGGTCTTAACCCGGATATAACA
ACTAGCACAAATGC
Found at i:15931692 original size:69 final size:69
Alignment explanation
Indices: 15931604--15931740 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
15931594 AGTCGCTACA
*
15931604 GCTTACCATCCATAGACAAATGGGCAAGCTGAACTGGC-AAACAAAGAGATAAAAGGCATACTTG
1 GCTTACCATCCACAGACAAATGGGCAAGCTGAACTGGCGAAA-AAAGAGATAAAAGGCATACTTG
15931668 AGAAG
65 AGAAG
* *
15931673 GCTTACCATCCACAGACAAATGGGCAAGCTGAACTGGCGAAATAAGAGATAAAAGGTATACTTGA
1 GCTTACCATCCACAGACAAATGGGCAAGCTGAACTGGCGAAAAAAGAGATAAAAGGCATACTTGA
15931738 GAA
66 GAA
15931741 AGTAGTTTGC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 61 0.95
70 3 0.05
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (69 bp):
GCTTACCATCCACAGACAAATGGGCAAGCTGAACTGGCGAAAAAAGAGATAAAAGGCATACTTGA
GAAG
Found at i:15944978 original size:46 final size:48
Alignment explanation
Indices: 15944922--15945011 Score: 148
Period size: 46 Copynumber: 1.9 Consensus size: 48
15944912 TTTGGGTGAC
* *
15944922 TTATGTGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACA
1 TTATGAGAGCTAGTATAAGACCATGTCTAGGACATGGCATCGGCCACA
15944968 TTATGAGAGCTAGTATAAGACCATGTCTAGGACATGGCATCGGC
1 TTATGAGAGCTAGTATAAGACCATGTCTAGGACATGGCATCGGC
15945012 TAATACCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 18 0.45
47 14 0.35
48 8 0.20
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
TTATGAGAGCTAGTATAAGACCATGTCTAGGACATGGCATCGGCCACA
Found at i:15945922 original size:32 final size:32
Alignment explanation
Indices: 15945883--15945943 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
15945873 GACGAGTAGA
15945883 CACATGGGCGTGT-GTCTAGACCGTGTGTCTGC
1 CACATGGGCGTGTGGTCT-GACCGTGTGTCTGC
* *
15945915 CACATGGGCTTGTGGTCTGGCCGTGTGTC
1 CACATGGGCGTGTGGTCTGACCGTGTGTC
15945944 CCCTGCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.10, C:0.25, G:0.36, T:0.30
Consensus pattern (32 bp):
CACATGGGCGTGTGGTCTGACCGTGTGTCTGC
Found at i:15948501 original size:25 final size:25
Alignment explanation
Indices: 15948473--15948526 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
15948463 CTGAGTTGAA
15948473 GATTGAATCAGTGTTGGTAGTTTGT
1 GATTGAATCAGTGTTGGTAGTTTGT
15948498 GATTGAATCAGTGTTGGTAGTTTGT
1 GATTGAATCAGTGTTGGTAGTTTGT
15948523 GATT
1 GATT
15948527 TTACAGACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.44
Consensus pattern (25 bp):
GATTGAATCAGTGTTGGTAGTTTGT
Found at i:15954859 original size:32 final size:32
Alignment explanation
Indices: 15954813--15954874 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
15954803 CATCTATTTT
*
15954813 CATTTTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
15954845 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
15954875 ACCAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:15956726 original size:46 final size:46
Alignment explanation
Indices: 15956557--15956727 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
15956547 TATTTGAGCT
* * * *
15956557 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAT--TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACAT-A-AGCC
* * * *
15956603 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGAC-A-TAAGCC
15956651 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCC
*
15956697 AGTGTAAGACATGTCTGGGAAATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
15956728 TAAGAGTTGT
Statistics
Matches: 104, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 54 0.52
47 28 0.27
48 18 0.17
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCC
Found at i:15956770 original size:46 final size:42
Alignment explanation
Indices: 15956557--15956770 Score: 142
Period size: 46 Copynumber: 4.7 Consensus size: 42
15956547 TATTTGAGCT
* * * *
15956557 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAG-CC
1 AGTGTAAGACATGTCTGGGACATGCATC-G--GC-TGA-GAGTGTGC
*
15956603 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TGAGA-GTGTGC
* * **
15956650 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CT-GAGA-GTGTG-C
* *
15956697 AGTGTAAGACATGTCTGGGAAATGCATCGGCTAAGAGTTGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAG-TGTG-C
*
15956741 AGTGTAAGACCAAGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
15956771 ACACGGATAG
Statistics
Matches: 138, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
44 14 0.10
45 18 0.13
46 60 0.43
47 32 0.23
48 14 0.10
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (42 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAGTGTGC
Found at i:15959386 original size:23 final size:23
Alignment explanation
Indices: 15959362--15959408 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
15959352 GTTGTGAGTG
15959362 TTTGGTTGCC-TAAATATGATATGT
1 TTTGG-TGCCTTAAAT-TGATATGT
15959386 TTTGGTGCCTTTAAATTGATATG
1 TTTGGTGCC-TTAAATTGATATG
15959409 AGCGCATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (23 bp):
TTTGGTGCCTTAAATTGATATGT
Found at i:15960355 original size:42 final size:41
Alignment explanation
Indices: 15960296--15960409 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 41
15960286 ATGTTTGATA
* *
15960296 CGTGTATGACCATGTCTGGAACATGGCATCGATATGAGATTT
1 CGTGTAAGACCATGTCTGG-ACATGGCATCGATATGAGACTT
* **
15960338 CGTGTAAGACCATGTCTGGGACACGTAATCGATATGAGACTT
1 CGTGTAAGACCATGTCT-GGACATGGCATCGATATGAGACTT
15960380 CGTGTAAGACCATAGT-TGGACTATGGCATC
1 CGTGTAAGACCAT-GTCTGGAC-ATGGCATC
15960410 AAGTAAACGA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 4 0.07
42 53 0.87
43 4 0.07
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGACATGGCATCGATATGAGACTT
Found at i:15967387 original size:27 final size:27
Alignment explanation
Indices: 15967357--15967510 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
15967347 ATAGTGAATC
15967357 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
15967384 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
15967412 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
15967439 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
15967468 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
15967497 TGCACACTTAGTGC
1 CGCACACTTAGTGC
15967511 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:15967404 original size:29 final size:28
Alignment explanation
Indices: 15967357--15967510 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
15967347 ATAGTGAATC
15967357 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
15967384 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
15967412 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
15967439 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
15967468 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
15967497 TGCACACTTAGTGC
1 CGCACACTTAGTGC
15967511 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:15967428 original size:55 final size:55
Alignment explanation
Indices: 15967357--15967460 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
15967347 ATAGTGAATC
15967357 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
15967412 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
15967461 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:15975249 original size:27 final size:27
Alignment explanation
Indices: 15975219--15975372 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
15975209 ATAGTGAATC
15975219 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
15975246 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
15975274 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
15975301 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
15975330 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
15975359 TGCACACTTAGTGC
1 CGCACACTTAGTGC
15975373 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:15975266 original size:29 final size:28
Alignment explanation
Indices: 15975219--15975372 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
15975209 ATAGTGAATC
15975219 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
15975246 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
15975274 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
15975301 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
15975330 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
15975359 TGCACACTTAGTGC
1 CGCACACTTAGTGC
15975373 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:15975290 original size:55 final size:55
Alignment explanation
Indices: 15975219--15975322 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
15975209 ATAGTGAATC
15975219 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
15975274 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
15975323 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:15983137 original size:93 final size:93
Alignment explanation
Indices: 15983030--15983200 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
15983020 GCCCCTAAGT
* * *
15983030 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15983095 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
15983123 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15983188 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15983201 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:15983197 original size:46 final size:46
Alignment explanation
Indices: 15983025--15983197 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
15983015 AACCCGCCCC
* * * *
15983025 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
15983071 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCA
* * *
15983119 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
15983164 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15983198 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:15986543 original size:43 final size:42
Alignment explanation
Indices: 15986439--15986556 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
15986429 GATTTGAGAT
* *
15986439 TTACATGTAAGACCATGTTTGGGACA-TCGGCATCGTATATGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCATCATATATGA
* * * *
15986481 TTTCGTG-AGAGACCCTGTCTGGGACAGTGGCATCAATATTTGA
1 TTACATGTA-AGACCATGTCTGGGACAGTGGCATC-ATATATGA
*
15986524 TTACATGTAAGACCATGTCTAGGAC-GTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACAG-TGGCAT
15986557 TGTACCAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 32 0.52
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCATATATGA
Found at i:15988318 original size:14 final size:14
Alignment explanation
Indices: 15988295--15988338 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
15988285 CCTAGATCCC
*
15988295 TAAACACTAAATCT
1 TAAACTCTAAATCT
*
15988309 TAAACTCTAAATAT
1 TAAACTCTAAATCT
*
15988323 TAAATTCTAAATCT
1 TAAACTCTAAATCT
15988337 TA
1 TA
15988339 TTCATCCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAACTCTAAATCT
Found at i:15995366 original size:2 final size:2
Alignment explanation
Indices: 15995359--15995390 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15995349 TTATAACCTA
15995359 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
15995391 TATTTCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15998391 original size:14 final size:15
Alignment explanation
Indices: 15998374--15998402 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15998364 TCACGAAAAT
15998374 TTCACACAT-ATAAA
1 TTCACACATAATAAA
15998388 TTCACACATAATAAA
1 TTCACACATAATAAA
15998403 CAAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:16004709 original size:24 final size:24
Alignment explanation
Indices: 16004547--16004709 Score: 132
Period size: 24 Copynumber: 6.7 Consensus size: 24
16004537 GAAATGACAT
*
16004547 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
* *
16004572 TGGCACTATGTGTGCAGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
16004596 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * * *
16004620 TGTCAATACGAGTATGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* *
16004647 -GGCACTATGTGTGCAGG-TTAGCA
1 TGGCACTATGTGTGC-GGATTTGAA
*
16004670 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
16004694 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
16004710 AAATCGATTG
Statistics
Matches: 105, Mismatches: 27, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
23 3 0.03
24 68 0.65
25 18 0.17
26 14 0.13
27 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:16011969 original size:24 final size:24
Alignment explanation
Indices: 16011933--16012093 Score: 144
Period size: 24 Copynumber: 6.7 Consensus size: 24
16011923 GAAATGACAT
*
16011933 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
16011957 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
16011981 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
16012005 TGTCAATAGAGTGTGTGGATTTCCAA
1 TGGCACTA-TGTGTGCGGATTT-GAA
* * * *
16012031 -GGCACTATGTGTGTGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
** *
16012054 TGGCACTAAATGGGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
16012078 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
16012094 AAATTGATTG
Statistics
Matches: 104, Mismatches: 30, Indels: 6
0.74 0.21 0.04
Matches are distributed among these distances:
23 1 0.01
24 86 0.83
25 15 0.14
26 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:16013483 original size:27 final size:27
Alignment explanation
Indices: 16013453--16013593 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
16013443 GTGACGAAGT
16013453 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
16013480 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
16013507 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
16013534 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
16013561 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
16013588 CACCAG
1 CACCAG
16013594 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 88 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:16013528 original size:54 final size:54
Alignment explanation
Indices: 16013453--16013593 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
16013443 GTGACGAAGT
*
16013453 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
16013507 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
16013561 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
16013594 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16013761 original size:28 final size:26
Alignment explanation
Indices: 16013697--16013772 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
16013687 CAAAATTAAC
** *
16013697 CATAGGGGTATAACGGTAATTTTGCA
1 CATAGGGGTATAATAGTAATTTTCCA
*
16013723 CCTAGGGGTATAATAGTAATTTTCCATA
1 CATAGGGGTATAATAGTAATTTTCC--A
*
16013751 CATAGGGGTATTATAGTAATTT
1 CATAGGGGTATAATAGTAATTT
16013773 AGCTTCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (26 bp):
CATAGGGGTATAATAGTAATTTTCCA
Found at i:16015261 original size:52 final size:52
Alignment explanation
Indices: 16015204--16015311 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
16015194 ATAAATGCCC
16015204 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
16015256 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
16015308 ATCA
1 ATCA
16015312 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:16015306 original size:26 final size:26
Alignment explanation
Indices: 16015204--16015311 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
16015194 ATAAATGCCC
* *
16015204 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16015230 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16015256 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16015282 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16015308 ATCA
1 ATCA
16015312 ATTTGTACCA
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:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16020329 original size:27 final size:27
Alignment explanation
Indices: 16020299--16020436 Score: 185
Period size: 27 Copynumber: 5.1 Consensus size: 27
16020289 GTGACGAAGT
16020299 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
16020326 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
16020353 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
16020380 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
16020407 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
16020434 CAC
1 CAC
16020437 TAGGACGCTT
Statistics
Matches: 99, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:16020374 original size:54 final size:54
Alignment explanation
Indices: 16020299--16020436 Score: 242
Period size: 54 Copynumber: 2.6 Consensus size: 54
16020289 GTGACGAAGT
*
16020299 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
16020353 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
16020407 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
16020437 TAGGACGCTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16028662 original size:40 final size:40
Alignment explanation
Indices: 16028596--16028762 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
16028586 AAATTGAATG
* * *
16028596 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
16028635 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
16028675 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
16028715 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
16028755 ATATCCGG
1 ATATCCGG
16028763 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:16030319 original size:25 final size:26
Alignment explanation
Indices: 16030291--16030396 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
16030281 TAAAATGCCC
* *
16030291 ATCATGGAATA-TTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16030316 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16030342 ATCATGGAAGATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16030368 ATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16030393 ATCA
1 ATCA
16030397 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 27 0.36
26 47 0.64
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16030384 original size:51 final size:51
Alignment explanation
Indices: 16030291--16030396 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
16030281 TAAAATGCCC
*
16030291 ATCATGGAATATTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAAGATTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
16030342 ATCATGGAAGATTTACCTAATCCATTATCATGGAACA-TTACCTAACCCATT
1 ATCATGGAAGA-TTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
16030393 ATCA
1 ATCA
16030397 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 28 0.54
52 24 0.46
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (51 bp):
ATCATGGAAGATTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:16032215 original size:27 final size:28
Alignment explanation
Indices: 16032185--16032241 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
16032175 ATCGATGCCA
16032185 ACGTAT-AAAACATGGTCTTACTCGCAC
1 ACGTATCAAAACATGGTCTTACTCGCAC
***
16032212 ACGTATCGATGCCATGGTCTTACTCGCAC
1 ACGTATC-AAAACATGGTCTTACTCGCAC
16032241 A
1 A
16032242 TCACATAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.24
29 19 0.76
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (28 bp):
ACGTATCAAAACATGGTCTTACTCGCAC
Found at i:16035331 original size:29 final size:26
Alignment explanation
Indices: 16035267--16035341 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 26
16035257 ATTACCATAT
16035267 AAGTGAGCCTCT-GTGGCTATCTCTAA
1 AAGTGAGCCT-TAGTGGCTATCTCTAA
16035293 AAGT-ATGCCTTAGTGGCTATCTCAGTTAA
1 AAGTGA-GCCTTAGTGGCTATCTC---TAA
16035322 AAGTGAGCCTTTA-TGGCTAT
1 AAGTGAGCC-TTAGTGGCTAT
16035342 TATATTAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
25 2 0.05
26 19 0.45
29 17 0.40
30 4 0.10
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (26 bp):
AAGTGAGCCTTAGTGGCTATCTCTAA
Found at i:16037344 original size:40 final size:40
Alignment explanation
Indices: 16037285--16037492 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
16037275 CAATTGAATG
* * * * *
16037285 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * **
16037325 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACCT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT-AGTT
* * *
16037366 -CATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * *
16037405 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * * *
16037445 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
16037485 ATATCCGG
1 ATATCCGG
16037493 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.02
40 133 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
Found at i:16037423 original size:80 final size:80
Alignment explanation
Indices: 16037286--16037492 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
16037276 AATTGAATGA
* * ** * * *
16037286 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
16037351 -TTGTGCTAGT-GACC
65 TTTGTGCAAGTCGACC
* * *
16037365 TCATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
1 T-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
**
16037430 TTTGTGCAAGTCGTTC
65 TTTGTGCAAGTCGACC
* *
16037446 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
16037493 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 3 0.03
80 103 0.94
81 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTCGACC
Found at i:16040312 original size:13 final size:13
Alignment explanation
Indices: 16040294--16040323 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16040284 GAAATGGGAA
16040294 AAAAACTAAAGAC
1 AAAAACTAAAGAC
*
16040307 AAAAACTAAAGAG
1 AAAAACTAAAGAC
16040320 AAAA
1 AAAA
16040324 TTATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAACTAAAGAC
Found at i:16053120 original size:13 final size:13
Alignment explanation
Indices: 16053101--16053131 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16053091 GGGTTTGTTT
16053101 ACTAAACTAATTA
1 ACTAAACTAATTA
*
16053114 TCTAAACTAATTA
1 ACTAAACTAATTA
16053127 ACTAA
1 ACTAA
16053132 TTTAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:16057619 original size:79 final size:79
Alignment explanation
Indices: 16057487--16057632 Score: 197
Period size: 79 Copynumber: 1.8 Consensus size: 79
16057477 AATGTTCGAA
**
16057487 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATCCGGGCTAAGTCCCGAA
16057551 GGCAATTGTGCGAG
66 GGCAATTGTGCGAG
* * * * *
16057565 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAAT-CGGGCTATGTCCCG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCAT-ATCCGGGCTAAGTCCCG
16057629 AAGG
64 AAGG
16057633 TGTTTTGAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
78 18 0.31
79 30 0.52
80 10 0.17
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (79 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATATCCGGGCTAAGTCCCGAA
GGCAATTGTGCGAG
Found at i:16057632 original size:40 final size:39
Alignment explanation
Indices: 16057490--16057607 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 39
16057480 GTTCGAATTG
*
16057490 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
16057529 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
16057568 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
16057608 CCATAATCGG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 52 0.72
40 20 0.28
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:16065540 original size:40 final size:39
Alignment explanation
Indices: 16065401--16065554 Score: 191
Period size: 39 Copynumber: 3.9 Consensus size: 39
16065391 TGTGAATGAA
* *
16065401 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
16065440 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
16065479 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
16065519 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
16065555 TGTTTTGAAC
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 60 0.60
40 40 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:16065540 original size:79 final size:79
Alignment explanation
Indices: 16065401--16065554 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 79
16065391 TGTGAATGAA
** *
16065401 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
16065466 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * *
16065479 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTA
*
16065544 TGTCCCGAAGG
65 AGTCCCGAAGG
16065555 TGTTTTGAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 25 0.38
79 32 0.49
80 8 0.12
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:16072597 original size:13 final size:13
Alignment explanation
Indices: 16072578--16072608 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
16072568 GGGTTTGTTT
16072578 ACTAAACTAATTA
1 ACTAAACTAATTA
*
16072591 TCTAAACTAATTA
1 ACTAAACTAATTA
16072604 ACTAA
1 ACTAA
16072609 TTTAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:16078320 original size:50 final size:50
Alignment explanation
Indices: 16078237--16078637 Score: 371
Period size: 50 Copynumber: 8.0 Consensus size: 50
16078227 TAAGATGGTT
* * *
16078237 TTAGGTCACGTGTATAGTACTAAGTGCACGCTACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * * * * * *
16078287 TTAGGTCGCATGTGTAGTACTACGTCCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAG
* * * * * * * * *
16078338 TTCA-ATCACGTGTGTAGTACTAAGTGAAAGCTACTATGTTTATCAAATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* *
16078388 TTAGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
16078438 TTAGGTCACATGTGTAGTACCAAGTGCAGGCTACTATGCGTACCCGAGA-AC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGATAG
* * *
16078489 TTCA-ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
* * * *
16078539 TTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACC-GAATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAG
* * * * *
16078589 TT-GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTGCCAAATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
16078638 CTTCGGTTAC
Statistics
Matches: 278, Mismatches: 63, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
49 43 0.15
50 157 0.56
51 73 0.26
52 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
Found at i:16078371 original size:101 final size:101
Alignment explanation
Indices: 16078242--16078423 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 101
16078232 TGGTTTTAGG
* * * * *
16078242 TCACGTGTATAGTACTAAGTGCACGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGAAAGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGCAC
*
16078307 TACGTCCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTCCAGGCTACTATGCGTACCCGACAACTTCAA
* * * * * *
16078343 TCACGTGTGTAGTACTAAGTGAAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGCAC
1 TCACGTGTATAGTACTAAGTGAAAGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGCAC
*
16078408 TAAGTGCAGGCTACTA
66 TAAGTCCAGGCTACTA
16078424 CGTGTACCAG
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 68 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (101 bp):
TCACGTGTATAGTACTAAGTGAAAGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTAGCAC
TAAGTCCAGGCTACTATGCGTACCCGACAACTTCAA
Found at i:16078471 original size:151 final size:151
Alignment explanation
Indices: 16078191--16078625 Score: 601
Period size: 151 Copynumber: 2.9 Consensus size: 151
16078181 ATTGTGAGAA
* * *
16078191 CACATGTGTTGTACTATGT-ACAAGCTACTATGTGTT-T-AAGATGGTTTTAGGTCACGTGTATA
1 CACATGTGTAGTACTAAGTGA-AAGCTACTATGT-TTATCAA-ATGG--TTAGGTCACGTGTGTA
* * *
16078253 GTACTAAGTGCACGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTACGTCCAGGC
61 GTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGC
16078318 TACTATGCGTACCCGACAACTTCAAT
126 TACTATGCGTACCCGACAACTTCAAT
* *
16078344 CACGTGTGTAGTACTAAGTGAAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGCACT
1 CACATGTGTAGTACTAAGTGAAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGTACT
* *
16078409 AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACCAAGTGCAGGCTACTA
66 AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
*
16078474 TGCGTACCCGAGAACTTCAAT
131 TGCGTACCCGACAACTTCAAT
* * * * *
16078495 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGAAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGTACT
* * * *
16078560 AAGTACAGGCTACTACATGTACC-GAATTGTT-GGTCGCATGTGTAGTACTAAGTGTAGGCTACT
66 AAGTGCAGGCTACTACGTGTACCAG-ATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
16078623 ATG
130 ATG
16078626 TGTGCCAAAT
Statistics
Matches: 254, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
150 33 0.13
151 183 0.72
152 2 0.01
153 33 0.13
154 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGAAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCGACAACTTCAAT
Found at i:16078503 original size:101 final size:101
Alignment explanation
Indices: 16078393--16078574 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
16078383 AATGGTTAGG
*
16078393 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
16078458 CAAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
66 CAAGTACAGGCTACTATGCGTACCCGAGAACTTCAA
* * * *
16078494 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
16078559 TAAGTACAGGCTACTA
66 CAAGTACAGGCTACTA
16078575 CATGTACCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (101 bp):
TCACATGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
CAAGTACAGGCTACTATGCGTACCCGAGAACTTCAA
Found at i:16078865 original size:15 final size:16
Alignment explanation
Indices: 16078835--16078866 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16078825 GAATGGAGTA
16078835 AGTGAAATTATGTAAT
1 AGTGAAATTATGTAAT
16078851 AGTGAAATT-TGTAAT
1 AGTGAAATTATGTAAT
16078866 A
1 A
16078867 ATATAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AGTGAAATTATGTAAT
Found at i:16082621 original size:40 final size:40
Alignment explanation
Indices: 16082564--16082748 Score: 166
Period size: 40 Copynumber: 4.7 Consensus size: 40
16082554 TCGAATGATG
* * *
16082564 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGATTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTGACTAAA
* *
16082604 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACTAAA
** *
16082644 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACTAAA
** *
16082684 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCT-ACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAG-TGACTA-AA
* *
16082725 -CCGGGCTAAG-TCCGAAGGTATTTG
1 TCCGGACTAAGATCCGAAGGCATTTG
16082749 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
39 13 0.10
40 105 0.81
41 11 0.09
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:16086860 original size:2 final size:2
Alignment explanation
Indices: 16086847--16086884 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
16086837 TCACTTGGCC
*
16086847 AT AT AC 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
16086885 CTAAACATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16088117 original size:43 final size:43
Alignment explanation
Indices: 16088051--16088207 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
16088041 AGCTTGTGCA
* *
16088051 ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAAACAGGGTCTTACACGTAATCAAATATCG
* ** * *
16088094 ATGCC-ACTGTCCCAGACAGGGTCTTACACAAAATCATATA-CA
1 ATGCCAAC-GTCCCAAACAGGGTCTTACACGTAATCAAATATCG
* * *
16088136 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACGA-ATCG
1 ATGCCAACGTCCCAAACAGGGTCTTACACGT-AATCA-AATATCG
*
16088180 ATGCCAACGTCCCAGAC-GTGGTCTTACA
1 ATGCCAACGTCCCAAACAG-GGTCTTACA
16088208 AAATAACACA
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 26 0.29
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACAGGGTCTTACACGTAATCAAATATCG
Found at i:16088203 original size:86 final size:85
Alignment explanation
Indices: 16088049--16088207 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 85
16088039 TAAGCTTGTG
*
16088049 CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGG
1 CAATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGG
16088114 GTCTTACACAAAATCATATA
66 GTCTTACACAAAATCATATA
* *
16088134 CAATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACGA-ATCGATGCCAAC-GTCCCAGAC
1 CAATGCCAACGTCCCAAACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGAC
16088197 -GTGGTCTTACA
63 AG-GGTCTTACA
16088208 AAATAACACA
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
85 32 0.48
86 32 0.48
87 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (85 bp):
CAATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGG
GTCTTACACAAAATCATATA
Found at i:16089212 original size:26 final size:26
Alignment explanation
Indices: 16089170--16089222 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
16089160 TTATTTTTAT
16089170 TATCATTAATAACATAAT-TACTAAAC
1 TATCATTAATAACATAATATA-TAAAC
*
16089196 TATCCTTAATGAA-ATAATATATAAAC
1 TATCATTAAT-AACATAATATATAAAC
16089222 T
1 T
16089223 TAATAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (26 bp):
TATCATTAATAACATAATATATAAAC
Found at i:16092617 original size:40 final size:40
Alignment explanation
Indices: 16092532--16092698 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
16092522 AAATTGAATG
* * ** *
16092532 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * * *
16092571 AGATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * *
16092611 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
16092651 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
16092691 ATATCCGG
1 ATATCCGG
16092699 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 16 0.16
40 84 0.82
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:16098091 original size:42 final size:42
Alignment explanation
Indices: 16097979--16098140 Score: 164
Period size: 43 Copynumber: 3.8 Consensus size: 42
16097969 CATAAGCTCG
* * *
16097979 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA
* * * * *
16098021 TATCGATGCCACTGTTCCAGACAGGGTCTTACACGAAATCATA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA
*
16098064 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACGAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA--AA
* ** *
16098109 T-CGATGCCAACATCCCAGACGTGGTCTTACAC
1 TACAATGCCAATGTCCCAGACATGGTCTTACAC
16098141 AATAACACAT
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 29 0.30
43 40 0.41
44 26 0.27
45 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:16098137 original size:86 final size:85
Alignment explanation
Indices: 16097979--16098140 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
16097969 CATAAGCTCG
* * * * *
16097979 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCCAGACA
1 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACA
16098044 GGGTCTTACACGAAATCATA
66 GGGTCTTACACGAAATCATA
*
16098064 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACGA-ATCGATGCCAAC-ATCCCAG
1 TACAATGCCAATGTCCCAAACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTATCCCAG
16098127 AC-GTGGTCTTACAC
63 ACAG-GGTCTTACAC
16098141 AATAACACAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 33 0.49
86 31 0.46
87 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
TACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACA
GGGTCTTACACGAAATCATA
Found at i:16103756 original size:20 final size:20
Alignment explanation
Indices: 16103731--16103769 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16103721 TACTAGGCTC
*
16103731 GTTCAACTAGTAGTTGGGTG
1 GTTCAACTAGTAATTGGGTG
16103751 GTTCAACTAGTAATTGGGT
1 GTTCAACTAGTAATTGGGT
16103770 CTTAGTCTCA
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:0.23, C:0.10, G:0.31, T:0.36
Consensus pattern (20 bp):
GTTCAACTAGTAATTGGGTG
Found at i:16103828 original size:13 final size:13
Alignment explanation
Indices: 16103810--16103834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16103800 ATTTACAATC
16103810 TCAAGTTCAATTT
1 TCAAGTTCAATTT
16103823 TCAAGTTCAATT
1 TCAAGTTCAATT
16103835 AGCCATTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:16104461 original size:19 final size:20
Alignment explanation
Indices: 16104428--16104465 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16104418 TTATAATATC
*
16104428 ATAAACAATATGAATAAAAA
1 ATAAACAATAGGAATAAAAA
16104448 ATAAA-AATAGGAATAAAA
1 ATAAACAATAGGAATAAAA
16104466 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:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
ATAAACAATAGGAATAAAAA
Found at i:16105764 original size:24 final size:24
Alignment explanation
Indices: 16105732--16105797 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
16105722 GGATAAGAAA
* *
16105732 ATACAGCACTATGTGTGCAAGGCT
1 ATACGGCACTATGTGTGCAAGACT
*
16105756 ATACGGCACTATGTGTGCAAGATT
1 ATACGGCACTATGTGTGCAAGACT
* *
16105780 ACATGGCACTATGTGTGC
1 ATACGGCACTATGTGTGC
16105798 GAGAAAACGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (24 bp):
ATACGGCACTATGTGTGCAAGACT
Found at i:16105812 original size:24 final size:24
Alignment explanation
Indices: 16105761--16105823 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
16105751 AGGCTATACG
* ** *
16105761 GCACTATGTGTGCAAGATTACATG
1 GCACTATGTGTGCGAGAAAACATA
*
16105785 GCACTATGTGTGCGAGAAAACGTA
1 GCACTATGTGTGCGAGAAAACATA
*
16105809 GCACTAAGTGTGCGA
1 GCACTATGTGTGCGA
16105824 ATAAGTAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (24 bp):
GCACTATGTGTGCGAGAAAACATA
Found at i:16112218 original size:12 final size:11
Alignment explanation
Indices: 16112196--16112269 Score: 60
Period size: 12 Copynumber: 6.3 Consensus size: 11
16112186 CAATATGAAT
16112196 AAAA-AAATAA
1 AAAAGAAATAA
*
16112206 AAATAGGAATAA
1 AAA-AGAAATAA
16112218 AAGAAGAAATTAA
1 AA-AAGAAA-TAA
*
16112231 AAAAAAAATAA
1 AAAAGAAATAA
*
16112242 AAATAGGAATAA
1 AAA-AGAAATAA
16112254 AAGAAGAAATTAA
1 AA-AAGAAA-TAA
16112267 AAA
1 AAA
16112270 TAAGTGTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
10 3 0.06
11 7 0.14
12 29 0.57
13 12 0.24
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (11 bp):
AAAAGAAATAA
Found at i:16112243 original size:36 final size:36
Alignment explanation
Indices: 16112196--16112269 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
16112186 CAATATGAAT
16112196 AAAAAAATAAAAATAGGAATAAAAGAAGAAATTAAA
1 AAAAAAATAAAAATAGGAATAAAAGAAGAAATTAAA
16112232 AAAAAAATAAAAATAGGAATAAAAGAAGAAATTAAA
1 AAAAAAATAAAAATAGGAATAAAAGAAGAAATTAAA
16112268 AA
1 AA
16112270 TAAGTGTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (36 bp):
AAAAAAATAAAAATAGGAATAAAAGAAGAAATTAAA
Found at i:16116070 original size:12 final size:12
Alignment explanation
Indices: 16116053--16116082 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16116043 CCACACACGC
16116053 CCGTGTGCTAGG
1 CCGTGTGCTAGG
16116065 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
16116077 CTGTGT
1 CCGTGT
16116083 AACTCACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:16119889 original size:40 final size:40
Alignment explanation
Indices: 16119834--16120051 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
16119824 CGGATGATAA
* *
16119834 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
16119874 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
16119914 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
16119954 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16119994 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
16120034 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16120052 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16124021 original size:40 final size:40
Alignment explanation
Indices: 16123959--16124256 Score: 440
Period size: 40 Copynumber: 7.5 Consensus size: 40
16123949 AAGCCAAGTA
* * * * *
16123959 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
16123998 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16124038 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16124078 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
16124118 CCTTCGGGACTTATCCCGGATATAGTAACTCGCCCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16124158 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
16124198 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
16124238 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
16124257 TTATCATCCA
Statistics
Matches: 239, Mismatches: 17, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
39 13 0.05
40 226 0.95
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:16129066 original size:33 final size:33
Alignment explanation
Indices: 16129024--16129090 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16129014 TCTGTGAATG
16129024 TAAGATTTTCGGAGTTGATTTGATTAAAGATGC
1 TAAGATTTTCGGAGTTGATTTGATTAAAGATGC
16129057 TAAGATTTTCGGAGTTGATTTGATTAAAGATGC
1 TAAGATTTTCGGAGTTGATTTGATTAAAGATGC
16129090 T
1 T
16129091 GAGCAGAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (33 bp):
TAAGATTTTCGGAGTTGATTTGATTAAAGATGC
Found at i:16131682 original size:38 final size:40
Alignment explanation
Indices: 16131577--16131790 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
16131567 CGGATGATAA
* *
16131577 CCGGGCTAAGTCCCGAA-GCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
16131616 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
16131656 CCGGGCTAAGT-CC-AAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16131694 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
16131734 CCGGGCTAAGTCCCGAAGGCATTTGAGCG-G-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
16131773 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
16131791 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 54 0.34
39 26 0.16
40 80 0.50
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:16131709 original size:78 final size:80
Alignment explanation
Indices: 16131573--16131790 Score: 306
Period size: 78 Copynumber: 2.8 Consensus size: 80
16131563 TATTCGGATG
* * *
16131573 ATAACCGGGCTAAGTCCCGAA-GCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
16131636 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
*
16131652 ATATCCGGGCTAAGT-CC-AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
16131715 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * *
16131730 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCG-G-TAGCTATAT-CTGGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
16131791 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
77 2 0.02
78 87 0.69
79 24 0.19
80 13 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:16135585 original size:45 final size:45
Alignment explanation
Indices: 16135497--16135669 Score: 278
Period size: 45 Copynumber: 3.9 Consensus size: 45
16135487 CGAAATTCAT
** *
16135497 TCACCGGCATT-TCTCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
16135540 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
16135585 TCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
16135630 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
16135670 GTACTGCACA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
43 10 0.08
44 13 0.11
45 96 0.81
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:16141684 original size:46 final size:46
Alignment explanation
Indices: 16141632--16141944 Score: 502
Period size: 46 Copynumber: 6.8 Consensus size: 46
16141622 AGTGTGCTCT
*
16141632 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16141678 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16141724 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16141770 GTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
16141816 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16141862 CTGATATGAAATGAGTAAGACCACGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
16141908 ATGACA-GAAAGCGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATGAAA-TGTGTAAGACCATGGTTGAAAGATAC
16141945 TATGACATCA
Statistics
Matches: 253, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 249 0.98
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Done.