Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 48 of 132
Found at i:13113797 original size:3 final size:3
Alignment explanation
Indices: 13113789--13113869 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
13113779 TTCGACTGCC
* *
13113789 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
13113837 TTA AGA ATA GTA TTA TTA TTA TTGA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
13113870 GATACTATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13114011 original size:6 final size:6
Alignment explanation
Indices: 13113984--13114053 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
13113974 GACTTTGTTT
* * *
13113984 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA ATATAA ATTTAA A-ATAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
13114030 ATTT-A ATCTTAA A-ATAA ATTTAA A
1 ATTTAA AT-TTAA ATTTAA ATTTAA A
13114054 ATGGATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 31 0.63
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:13114022 original size:29 final size:28
Alignment explanation
Indices: 13113987--13114055 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13113977 TTTGTTTATT
* *
13113987 TAAATTTAGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
13114016 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
13114044 TAAATTTAAAAT
1 TAAATTTAAAAT
13114056 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:13114023 original size:18 final size:17
Alignment explanation
Indices: 13113984--13114053 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
13113974 GACTTTGTTT
*
13113984 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
*
13114001 TTTTAAATTT-AAAT--
1 ATTTAAATTTAAAATAA
13114015 A--TAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
13114030 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
13114047 ATTTAAA
1 ATTTAAA
13114054 ATGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 1 0.02
16 6 0.14
17 23 0.53
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:13114055 original size:11 final size:12
Alignment explanation
Indices: 13114004--13114035 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13113994 AGAATAATTT
13114004 TAAATTTAAATA
1 TAAATTTAAATA
13114016 TAAATTTAAA-A
1 TAAATTTAAATA
13114027 TAAATTTAA
1 TAAATTTAA
13114036 TCTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:13138736 original size:11 final size:11
Alignment explanation
Indices: 13138720--13138749 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13138710 GTTTGACCCA
13138720 TCTTTTTTTCT
1 TCTTTTTTTCT
13138731 TCTTTTTTTCT
1 TCTTTTTTTCT
13138742 T-TTTTTTT
1 TCTTTTTTT
13138750 ATAACACATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:13142595 original size:59 final size:59
Alignment explanation
Indices: 13142527--13142666 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 59
13142517 AAAAATAACA
* * *
13142527 TTTTAGACATCCGAGGATAAAATGGTAATTTTTGGAAA-ATTCGGGATCAAAAATGGATT
1 TTTTGGACATCCGAGGATAAAACGGTAATTTTT-GAAAGATTCGGGATCAAAAATGGAGT
* * *
13142586 TTTTGGACATCCG-GGAGTAAAACGGTAATTTTTGAAAGTTTCGGGGTCCAAAATGGAGT
1 TTTTGGACATCCGAGGA-TAAAACGGTAATTTTTGAAAGATTCGGGATCAAAAATGGAGT
*
13142645 TTTTGGACATCCGAGGGTAAAA
1 TTTTGGACATCCGAGGATAAAA
13142667 ATGTATGGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 7 0.10
59 62 0.87
60 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.31
Consensus pattern (59 bp):
TTTTGGACATCCGAGGATAAAACGGTAATTTTTGAAAGATTCGGGATCAAAAATGGAGT
Found at i:13142600 original size:29 final size:28
Alignment explanation
Indices: 13142527--13142619 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 28
13142517 AAAAATAACA
*
13142527 TTTTAGACATCCGAGGATAAAATGGTAAT
1 TTTTGGACATCCG-GGATAAAATGGTAAT
* * *
13142556 TTTTGGAAAATTCGGGATCAAAAATGG-ATT
1 TTTTGG-ACATCCGGGAT--AAAATGGTAAT
*
13142586 TTTTGGACATCCGGGAGTAAAACGGTAAT
1 TTTTGGACATCCGGGA-TAAAATGGTAAT
13142615 TTTTG
1 TTTTG
13142620 AAAGTTTCGG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 6 0.12
29 24 0.47
30 14 0.27
31 7 0.14
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (28 bp):
TTTTGGACATCCGGGATAAAATGGTAAT
Found at i:13142728 original size:29 final size:29
Alignment explanation
Indices: 13142675--13142826 Score: 107
Period size: 29 Copynumber: 5.2 Consensus size: 29
13142665 AAATGTATGG
*
13142675 AATTTTT-GAAG-TTCGAGGGTAAAAATGT
1 AATTTTTAGAAGTTTCGA-GGTCAAAATGT
*
13142703 AATTTTTAGAAGTTTCG-GGTTCAAAAATGG
1 AATTTTTAGAAGTTTCGAGG-TC-AAAATGT
* * ** *
13142733 GATTTTTAG-ATTTTTTAGTGTAAAAATGT
1 AATTTTTAGAAGTTTCGAG-GTCAAAATGT
* * * *
13142762 AATTTTTTGAATTTTAGCGG-CAAAAATGT
1 AATTTTTAGAAGTTTCGAGGTC-AAAATGT
* *
13142791 AATTTTTAGAAGTTTCGAGGCCAAAATAT
1 AATTTTTAGAAGTTTCGAGGTCAAAATGT
13142820 AATTTTT
1 AATTTTT
13142827 GAACAGTTTA
Statistics
Matches: 96, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
28 9 0.09
29 59 0.61
30 27 0.28
31 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (29 bp):
AATTTTTAGAAGTTTCGAGGTCAAAATGT
Found at i:13142731 original size:30 final size:30
Alignment explanation
Indices: 13142675--13142810 Score: 113
Period size: 29 Copynumber: 4.7 Consensus size: 30
13142665 AAATGTATGG
*
13142675 AATTTTT-GAAG-TTCGAGGGTAAAAATGT
1 AATTTTTAGAAGTTTCGAGGTTAAAAATGT
*
13142703 AATTTTTAGAAGTTTCG-GGTTCAAAAATGG
1 AATTTTTAGAAGTTTCGAGGTT-AAAAATGT
* * **
13142733 GATTTTTAG-ATTTTTTA-GTGTAAAAATGT
1 AATTTTTAGAAGTTTCGAGGT-TAAAAATGT
* * * * *
13142762 AATTTTTTGAATTTTAGCGG-CAAAAATGT
1 AATTTTTAGAAGTTTCGAGGTTAAAAATGT
13142791 AATTTTTAGAAGTTTCGAGG
1 AATTTTTAGAAGTTTCGAGG
13142811 CCAAAATATA
Statistics
Matches: 84, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
28 7 0.08
29 51 0.61
30 25 0.30
31 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.41
Consensus pattern (30 bp):
AATTTTTAGAAGTTTCGAGGTTAAAAATGT
Found at i:13142739 original size:91 final size:88
Alignment explanation
Indices: 13142610--13142816 Score: 204
Period size: 91 Copynumber: 2.3 Consensus size: 88
13142600 GAGTAAAACG
* *
13142610 GTAATTTTT-GAAAGTTTCGGGGTCCAAAATGGAGTTTTTGGACATCCGAGGGTAAAAATGTATG
1 GTAATTTTTAG-AAGTTTCGGGGTCAAAAATGGAGTTTTTAGACATCCGAGGGTAAAAATGTA--
*
13142674 GAATTTTTGAAGTTCGAG-GGTAAAAAT
63 -AATTTTTGAA-TTCGAGCGGCAAAAAT
* ** *** * *
13142701 GTAATTTTTAGAAGTTTCGGGTTCAAAAATGG-GATTTTTAGATTTTTTAGTGTAAAAATGTAAT
1 GTAATTTTTAGAAGTTTCGGGGTCAAAAATGGAG-TTTTTAGACATCCGAGGGTAAAAATGTAAA
**
13142765 TTTTTGAATTTTAGCGGCAAAAAT
65 TTTTTGAATTCGAGCGGCAAAAAT
* *
13142789 GTAATTTTTAGAAGTTTCGAGGCCAAAA
1 GTAATTTTTAGAAGTTTCGGGGTCAAAA
13142817 TATAATTTTT
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
87 4 0.04
88 42 0.43
90 1 0.01
91 49 0.51
92 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (88 bp):
GTAATTTTTAGAAGTTTCGGGGTCAAAAATGGAGTTTTTAGACATCCGAGGGTAAAAATGTAAAT
TTTTGAATTCGAGCGGCAAAAAT
Found at i:13144688 original size:6 final size:6
Alignment explanation
Indices: 13144663--13144732 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
13144653 GCTTTTTTTT
* * **
13144663 TTTAAA TTTGAAA -ATAAA TTTAAA TTTAAA TTCAAA TTTAAA -AAAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
13144710 TCTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
13144733 AGGGCCCGAT
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
5 10 0.20
6 36 0.73
7 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (6 bp):
TTTAAA
Found at i:13144716 original size:17 final size:17
Alignment explanation
Indices: 13144696--13144732 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13144686 ATTTAAATTC
13144696 AAATTTAAAAAAAATCT
1 AAATTTAAAAAAAATCT
* *
13144713 AAATTTAAAATAAATTT
1 AAATTTAAAAAAAATCT
13144730 AAA
1 AAA
13144733 AGGGCCCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAAAATCT
Found at i:13147688 original size:13 final size:12
Alignment explanation
Indices: 13147665--13147696 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13147655 TATTTTAAGA
13147665 TTAAATTTAT-T
1 TTAAATTTATAT
13147676 TTAAATTTATAT
1 TTAAATTTATAT
13147688 TTAAATTTA
1 TTAAATTTA
13147697 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATTTATAT
Found at i:13147689 original size:17 final size:18
Alignment explanation
Indices: 13147647--13147690 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
13147637 CTAAATCCAT
13147647 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
13147665 -TTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
13147681 TTTATATTTA
1 TTTAAATTTA
13147691 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:13147894 original size:3 final size:3
Alignment explanation
Indices: 13147886--13147944 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
13147876 AAATAGTATC
* * ** * *
13147886 AAT AAT AAT AAT AAT ACT ATT CTT AAT AGT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13147934 AAT AAT AAT AA
1 AAT AAT AAT AA
13147945 GGCAGTCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:13149119 original size:30 final size:30
Alignment explanation
Indices: 13149041--13149485 Score: 162
Period size: 30 Copynumber: 14.9 Consensus size: 30
13149031 AAAGGTCCCT
* * *
13149041 AAACTGTCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAATTACATTTTGACCCCC
*
13149071 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAATTACATTTTGACCCCC
* * *
13149101 AAACTTTCCAAAATTTACA--TT-A-TCAC
1 AAACTTTCCAAAAATTACATTTTGACCCCC
* * *
13149127 GAAC-TTCAAAAAAATTACCATTTT-ACCCCT
1 AAACTTTC-CAAAAATTA-CATTTTGACCCCC
*
13149157 AAA-TTTCCAAAAATT-CAATTTTTGA-CCCT
1 AAACTTTCCAAAAATTAC-A-TTTTGACCCCC
** * *
13149186 GGAC-TTCTTAAAAACTTACCATTTTGTTTTTAACCCC
1 AAACTTTC-CAAAAA-TTA-CATTTTG-----ACCCCC
*
13149223 AAACTTTCCCAAAATTACCATTTT-ACCCCC
1 AAACTTTCCAAAAATTA-CATTTTGACCCCC
* * * * ***
13149253 GAA-TGTCCAAAAATTCCATTATTTA-CTTT
1 AAACTTTCCAAAAATTACATT-TTGACCCCC
* * *
13149282 GAACTTCCCAAAAATTACCATTTT-ACCCCT
1 AAACTTTCCAAAAATTA-CATTTTGACCCCC
* **
13149312 AAAC-TTCCAAAAATTCCATTTTTGA-CCTT
1 AAACTTTCCAAAAATTACA-TTTTGACCCCC
*
13149341 AAACTTTCCCAAAATTACCATTTT-ACCCCC
1 AAACTTTCCAAAAATTA-CATTTTGACCCCC
* * *
13149371 AAAC-ATCCAAAAATTCCATTTTTTA-CCCC
1 AAACTTTCCAAAAATTACA-TTTTGACCCCC
* * **
13149400 AAATTTTCCAAAAATTGCCATTTT-ACCCTT
1 AAACTTTCCAAAAATT-ACATTTTGACCCCC
* * * * *
13149430 AGAC-TTCTAAAAATT-CCTTTTTAACCCC
1 AAACTTTCCAAAAATTACATTTTGACCCCC
*
13149458 AAACTTTCCCAAAATTACCATTTT-ACCC
1 AAACTTTCCAAAAATTA-CATTTTGACCC
13149486 TCTAATGTCT
Statistics
Matches: 312, Mismatches: 63, Indels: 80
0.69 0.14 0.18
Matches are distributed among these distances:
25 3 0.01
26 12 0.04
27 9 0.03
28 17 0.05
29 101 0.32
30 124 0.40
31 21 0.07
32 1 0.00
33 1 0.00
36 11 0.04
37 9 0.03
38 3 0.01
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
AAACTTTCCAAAAATTACATTTTGACCCCC
Found at i:13149301 original size:59 final size:57
Alignment explanation
Indices: 13149212--13149540 Score: 311
Period size: 59 Copynumber: 5.6 Consensus size: 57
13149202 TACCATTTTG
* * *
13149212 TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCA
1 TTTTTGACCTCAAAC-TTCCCAAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCA
* ** *
13149271 TTATTT-ACTTTGAACTTCCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCA
1 TT-TTTGACCTCAAACTTCCC-AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCA
* *
13149330 TTTTTGACCTTAAACTTTCCCAAAATTACCATTTTACCCCCAAACATCCAAAAATTCCA
1 TTTTTGACCTCAAAC-TTCCCAAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCA
* * * * * ** * *
13149389 TTTTTTACCCCAAATTTTCCAAAAATTGCCATTTTACCCTTAGACTTCTAAAAATTCC-
1 TTTTTGACCTCAAA-CTTCCCAAAATTACCATTTTACCCCCA-AATTCCAAAAATTCCA
* * * * *
13149447 TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCTCTAATGTCTAAAAATTCCA
1 TTTTTGACCTCAAAC-TTCCCAAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCA
* *
13149506 TTTTTGACCTCGAACTTCCTAAAAATTACCATTTT
1 TTTTTGACCTCAAACTTCC-CAAAATTACCATTTT
13149541 TCCCTGGGCA
Statistics
Matches: 227, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
57 2 0.01
58 59 0.26
59 156 0.69
60 10 0.04
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (57 bp):
TTTTTGACCTCAAACTTCCCAAAATTACCATTTTACCCCCAAATTCCAAAAATTCCA
Found at i:13149350 original size:118 final size:116
Alignment explanation
Indices: 13149212--13149540 Score: 442
Period size: 118 Copynumber: 2.8 Consensus size: 116
13149202 TACCATTTTG
*
13149212 TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTATTT
1 TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATT-TTT
* *
13149277 ACTTTGAACTTCCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCC
65 ACCTCGAACTTCCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCC
* ** **
13149329 ATTTTTGACCTTAAACTTTCCCAAAATTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTT
1 -TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCA-TTTT
* * * * * * * *
13149394 TACCCCAAATTTTCCAAAAATTGCCATTTTACCCTTAGACTTCTAAAAATTCC
64 TACCTCGAACTTCCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCC
* * *
13149447 TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCTCTAATGTCTAAAAATTCCATTTTTG
1 TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTT-
*
13149512 ACCTCGAACTTCCTAAAAATTACCATTTT
65 ACCTCGAACTTCCCAAAAATTACCATTTT
13149541 TCCCTGGGCA
Statistics
Matches: 179, Mismatches: 30, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
116 5 0.03
117 74 0.41
118 98 0.55
119 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (116 bp):
TTTTTAACCCCAAACTTTCCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTA
CCTCGAACTTCCCAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCC
Found at i:13149530 original size:30 final size:29
Alignment explanation
Indices: 13149136--13149541 Score: 221
Period size: 29 Copynumber: 13.6 Consensus size: 29
13149126 CGAACTTCAA
*
13149136 AAAAATTACCA-TTTTACCCCTAAATTTCC
1 AAAAATTACCATTTTTACCCC-AAACTTCC
* *** *
13149165 AAAAATT-CAATTTTTGACCCTGGACTTCTT
1 AAAAATTACCATTTTT-ACCCCAAACTTC-C
13149195 AAAAACTTACCATTTTGTTTTTAACCCCAAACTTTCC
1 AAAAA-TTACCA-----TTTTT-ACCCCAAAC-TTCC
* *
13149232 CAAAATTACCA-TTTTACCCCCGAA-TGTCC
1 AAAAATTACCATTTTTA-CCCCAAACT-TCC
****
13149261 AAAAATT-CCATTATTTACTTTGAACTTCCC
1 AAAAATTACCATT-TTTACCCCAAACTT-CC
13149291 AAAAATTACCA-TTTTACCCCTAAACTTCC
1 AAAAATTACCATTTTTACCCC-AAACTTCC
**
13149320 AAAAATT-CCATTTTTGACCTTAAACTTTCC
1 AAAAATTACCATTTTT-ACCCCAAAC-TTCC
* *
13149350 CAAAATTACCA-TTTTACCCCCAAACATCC
1 AAAAATTACCATTTTTA-CCCCAAACTTCC
*
13149379 AAAAATT-CCATTTTTTACCCCAAATTTTCC
1 AAAAATTACCA-TTTTTACCCCAAA-CTTCC
* * * *
13149409 AAAAATTGCCA-TTTTACCCTTAGACTTCT
1 AAAAATTACCATTTTTACCC-CAAACTTCC
13149438 AAAAATT-CC-TTTTTAACCCCAAACTTTCC
1 AAAAATTACCATTTTT-ACCCCAAAC-TTCC
* * *
13149467 CAAAATTACCA-TTTTACCCTCTAA-TGTCT
1 AAAAATTACCATTTTTACCC-CAAACT-TCC
* *
13149496 AAAAATT-CCATTTTTGACCTCGAACTTCC
1 AAAAATTACCATTTTT-ACCCCAAACTTCC
13149525 TAAAAATTACCATTTTT
1 -AAAAATTACCATTTTT
13149542 CCCTGGGCAT
Statistics
Matches: 291, Mismatches: 45, Indels: 80
0.70 0.11 0.19
Matches are distributed among these distances:
28 25 0.09
29 122 0.42
30 99 0.34
31 19 0.07
32 2 0.01
36 6 0.02
37 15 0.05
38 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTACCATTTTTACCCCAAACTTCC
Found at i:13156281 original size:29 final size:29
Alignment explanation
Indices: 13156214--13156385 Score: 152
Period size: 29 Copynumber: 5.9 Consensus size: 29
13156204 ACATCCGAGA
* *
13156214 GTAAAACA-GTAATTTTTGAAAGTTTCGGG
1 GTAAAA-ATGTAATTTTTGGAAGTTTAGGG
* * *
13156243 GTCTAAAATGGAGTTTTTGGAAGTTTAGGG
1 GT-AAAAATGTAATTTTTGGAAGTTTAGGG
*
13156273 GTAGAAATGTAATTTTTGGAAGTTTCA-GG
1 GTAAAAATGTAATTTTTGGAAGTTT-AGGG
** * * *
13156302 GTCAAAAATGGGATTTTTAGATG-TTCGAGG
1 GT-AAAAATGTAATTTTTGGAAGTTTAG-GG
* *
13156332 GTAAAAATGTATTTTTTGGAATTTTAGGG
1 GTAAAAATGTAATTTTTGGAAGTTTAGGG
*
13156361 GTAAAAATGTAATTTTTAGAAGTTT
1 GTAAAAATGTAATTTTTGGAAGTTT
13156386 CGAGGCCAAA
Statistics
Matches: 111, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
29 66 0.59
30 45 0.41
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
GTAAAAATGTAATTTTTGGAAGTTTAGGG
Found at i:13156319 original size:59 final size:60
Alignment explanation
Indices: 13156214--13156390 Score: 177
Period size: 59 Copynumber: 3.0 Consensus size: 60
13156204 ACATCCGAGA
* * * *
13156214 GTAAAACA-GTAATTTTTGAAAGTTTCGGGGTCTAAAAT-GGAGTTTTTGGAAGTTTAG-GG
1 GTAAAA-ATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGA-TTTTTAGAAGTTTAGAGG
* * *
13156273 GTAGAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGATTTTTAGATG-TTCGAGG
1 GTAAAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGATTTTTAGAAGTTTAGAGG
* * ** *
13156332 GTAAAAATGTATTTTTTGGAA-TTTTAGGGGT-AAAAATGTAATTTTTAGAAGTTTCGAGG
1 GTAAAAATGTAATTTTTGGAAGTTTCA-GGGTCAAAAATGGGATTTTTAGAAGTTTAGAGG
13156391 CCAAAATATA
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
58 25 0.25
59 72 0.72
60 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (60 bp):
GTAAAAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGGATTTTTAGAAGTTTAGAGG
Found at i:13156396 original size:29 final size:30
Alignment explanation
Indices: 13156222--13156404 Score: 119
Period size: 29 Copynumber: 6.2 Consensus size: 30
13156212 GAGTAAAACA
*
13156222 GTAATTTTT-GAAAGTTTCG-GGGTCTAAAAT
1 GTAATTTTTAG-AAGTTTCGAGGG-CAAAAAT
* * * * * *
13156252 GGAGTTTTTGGAAGTTTAG-GGGTAGAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
*
13156281 GTAATTTTTGGAAGTTTC-AGGGTCAAAAAT
1 GTAATTTTTAGAAGTTTCGAGGG-CAAAAAT
** * *
13156311 GGGATTTTTAGATG-TTCGAGGGTAAAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
* * * * *
13156340 GTATTTTTTGGAATTTTAG-GGGTAAAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
*
13156369 GTAATTTTTAGAAGTTTCGA-GGCCAAAAT
1 GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
*
13156398 ATAATTT
1 GTAATTT
13156405 CTGAGCAGTT
Statistics
Matches: 117, Mismatches: 30, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
29 77 0.66
30 39 0.33
31 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (30 bp):
GTAATTTTTAGAAGTTTCGAGGGCAAAAAT
Found at i:13158253 original size:6 final size:6
Alignment explanation
Indices: 13158242--13158297 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
13158232 AATATGAAAA
* * * * *
13158242 TAAATT TAAATT CAAATT CAAATT TAAA-A TAAATC TAAATT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
13158288 TAAATT TAAA
1 TAAATT TAAA
13158298 AGGGCTCGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:13158297 original size:17 final size:17
Alignment explanation
Indices: 13158242--13158297 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
13158232 AATATGAAAA
*
13158242 TAAATTTAAATTCAAATT
1 TAAATTTAAAAT-AAATT
* *
13158260 CAAATTTAAAATAAATC
1 TAAATTTAAAATAAATT
13158277 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
13158294 TAAA
1 TAAA
13158298 AGGGCTCGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
17 23 0.70
18 10 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:13166363 original size:209 final size:209
Alignment explanation
Indices: 13165706--13166360 Score: 868
Period size: 209 Copynumber: 3.1 Consensus size: 209
13165696 TATCCAAAAT
* *
13165706 ATAAAGTGGTTACCTTCCTAATGAGATACAGAGAAGTGAACCAGA-TCTGTCTTCCTAATGAGAC
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTC-GTCTTCCTAATGAGAC
* * * *
13165770 ACAGAAAAGTGGATCAAAACAAGCGATACGGTCATCTTCTTGATGAGATACTGT-GAAGAAGACC
65 ACAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACT-TAGAAGAAGGCC
*** * * * *
13165834 AAATCAAT-AAAATAGGCTCAAAGTGAGAGAATCTTCGAACCCTAGCTTCCTAATGAGATATTGA
129 AAATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGA
13165898 GAAGCAGGTCGAAGCA
194 GAAGCAGGTCGAAGCA
*** *
13165914 ATAAAGCAGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTAATGAGACA
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
* * * * *
13165979 CAGAGAAGTGGA-TCAAACTAAGCGAAGCGGTCATCTTCCTGATAAGATACTAAGAAGAAGGCCA
66 CAGAGAAGTGGATTAAAAC-AAGCGATGCGGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCA
* * * *
13166043 AATCAATGAAGCCAAGCTCAAAATGAGCAAATCTTCGAACCCCAACTTCTTGATGAGATATTGAG
130 AATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAG
13166108 AAGCAGGTCGAAGCA
195 AAGCAGGTCGAAGCA
* * * * * * * *
13166123 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGCCTTTCTGATGAGATA
1 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
* * * * *
13166188 CGGAGAAGTAGATTGAAACAAGTGATGCTGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
66 CAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
*
13166253 ATCAATGAAGCCAAGCTCAAAGTAAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
131 ATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
*
13166318 AGCAGGTCAAAGCA
196 AGCAGGTCGAAGCA
* *
13166332 ATAAAATGGTTATCATCCTGATGAGATAC
1 ATAAAATGGTTACCTTCCTGATGAGATAC
13166361 TGAAAAGCGG
Statistics
Matches: 389, Mismatches: 53, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
207 4 0.01
208 115 0.30
209 265 0.68
210 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTAATGAGACA
CAGAGAAGTGGATTAAAACAAGCGATGCGGTCATCTTCTTGATGAGATACTTAGAAGAAGGCCAA
ATCAATGAAGCCAAGCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATATTGAGA
AGCAGGTCGAAGCA
Found at i:13166755 original size:18 final size:17
Alignment explanation
Indices: 13166732--13166795 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
13166722 CTAAACCAAT
13166732 TTTAAATTTATTTTGAAA
1 TTTAAATTTATTTT-AAA
* *
13166750 TTTAAATATGTTTTAAAA
1 TTTAAATTTATTTT-AAA
**
13166768 TTTAAATTTAAATTAATA
1 TTTAAATTTATTTTAA-A
13166786 TTTAAATTTA
1 TTTAAATTTA
13166796 AAAATATTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 36 0.95
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13166778 original size:42 final size:41
Alignment explanation
Indices: 13166732--13166815 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 41
13166722 CTAAACCAAT
* * * *
13166732 TTTAAATTTAT-TTTGAAATTTAAATATGTTTTAAAATTTAAA
1 TTTAAATTAATATTT-AAATTTAAAAATATTCT-AAATTTAAA
13166774 TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
1 TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
13166815 T
1 T
13166816 AAACAAAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.27
42 24 0.65
43 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (41 bp):
TTTAAATTAATATTTAAATTTAAAAATATTCTAAATTTAAA
Found at i:13166796 original size:18 final size:18
Alignment explanation
Indices: 13166762--13166815 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
13166752 TAAATATGTT
*
13166762 TTAAAATTTAAATTTAAA
1 TTAATATTTAAATTTAAA
13166780 TTAATATTTAAATTTAAA
1 TTAATATTTAAATTTAAA
13166798 --AATATTCTAAATTTAAA
1 TTAATATT-TAAATTTAAA
13166815 T
1 T
13166816 AAACAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 6 0.18
17 10 0.30
18 17 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATATTTAAATTTAAA
Found at i:13166815 original size:6 final size:6
Alignment explanation
Indices: 13166765--13166797 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
13166755 ATATGTTTTA
13166765 AAATTT AAATTT AAA-TT AATATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AA-ATTT AAATTT AAA
13166798 AATATTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.16
6 17 0.68
7 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:13168764 original size:30 final size:30
Alignment explanation
Indices: 13168726--13169309 Score: 142
Period size: 30 Copynumber: 19.9 Consensus size: 30
13168716 CCCAAAAGGT
* *
13168726 CCCT-AAACTATCCAAAAATCATATTTTGA
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* *
13168755 CCCTCAAACTTTCCAAAAGTTACATTTTGA
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* *
13168785 CCCTCAAACTTTCCAAAATTTACA--TT-A
1 CCCTCAAACTTTCCAAAAATCACATTTTGA
* * * *
13168812 -TCACGAAC-TTCACAAAAATTACCATTTT-A
1 CCCTCAAACTTTC-CAAAAATCA-CATTTTGA
13168841 CCC-CTAAA-TTTCCAAAAATTC-CATTTTTGA
1 CCCTC-AAACTTTCCAAAAA-TCACA-TTTTGA
** * * *
13168871 -CCTTGAACTGTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* *
13168900 TCCTCAAA-TGTCCAAAAATTC-CATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
*
13168930 CCCT-AAAC-TTCTTAAAAA-CTACCATTTT-A
1 CCCTCAAACTTTC-CAAAAATC-A-CATTTTGA
* * *
13168959 CCTTC-GAC-TTCCAAAAATTC-CATTTTTAA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
* *
13168988 CCC-CAAACTTTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* *
13169017 TCCTC-GA-TTGTCCAAAAATTC-CATTTTTGA
1 CCCTCAAACTT-TCCAAAAA-TCACA-TTTTGA
* * *
13169047 CTCT-GAAC-TTCCAAAAAATTACCATTTT-A
1 CCCTCAAACTTTCC-AAAAATCA-CATTTTGA
*
13169076 CCC-CTAAAC-TTCCAAAAATTC-CATTTTTAA
1 CCCTC-AAACTTTCCAAAAA-TCACA-TTTTGA
* *
13169106 CCCT-GAACTTTCCCAAAATCACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
13169135 CCCCCAAAC-ATCCAAAAATTC-CATTTTTA
1 CCCTCAAACTTTCCAAAAA-TCACATTTTGA
* * *
13169164 CCC-CAAATTTTCCTAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
13169193 CCCTCAAAC-TTCCAATAATTC-TATTTTTA
1 CCCTCAAACTTTCCAA-AAATCACATTTTGA
* * *
13169222 ACCTCAAACTTTCCCAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATCA-CATTTTGA
* * *
13169252 CCCCCGAA-TGTCCAAAAATTCA-ATTTTTGA
1 CCCTCAAACTTTCCAAAAA-TCACA-TTTTGA
* *
13169282 -CCTCCAAC-TTCCTAAAAATTACCATTTT
1 CCCTCAAACTTTCC-AAAAATCA-CATTTT
13169310 TCCTGGGGCA
Statistics
Matches: 412, Mismatches: 72, Indels: 141
0.66 0.12 0.23
Matches are distributed among these distances:
25 3 0.01
26 13 0.03
27 5 0.01
28 40 0.10
29 158 0.38
30 177 0.43
31 16 0.04
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATCACATTTTGA
Found at i:13168889 original size:59 final size:58
Alignment explanation
Indices: 13168726--13169309 Score: 471
Period size: 59 Copynumber: 10.0 Consensus size: 58
13168716 CCCAAAAGGT
13168726 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTGA
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTGACCC-CAAACTTTCCCAAAA-TTACCATTTT-A
* * * * * *
13168785 CCCTCAAACTTTCCAAAATTTACA---TT-ATCACGAAC-TTCACAAAAATTACCATTTTA
1 CCCT-AAAC-TTCCAAAAATTCCATTTTTGACCCCAAACTTTC-CCAAAATTACCATTTTA
* *** *
13168841 CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * ** *
13168900 TCCTCAAA-TGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCTTAAAAACTACCATTTTA
1 CCCT-AAACT-TCCAAAAATTCCATTTTTGACCCCAAACTTTC-CCAAAATTACCATTTTA
* ** *
13168959 CCTTCGACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAATTACCATTTTA
1 CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* ** * * ** *
13169017 TCCTCGATTGTCCAAAAATTCCATTTTTGACTCTGAAC-TTCCAAAAAATTACCATTTTA
1 CCCTAAACT-TCCAAAAATTCCATTTTTGACCCCAAACTTTCC-CAAAATTACCATTTTA
* ** *
13169076 CCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAACTTTCCCAAAATCACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
13169135 CCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAATTTTCCTAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
* * * *
13169193 CCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTA
1 CCCT-AAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
** * *
13169252 CCCCCGAA-TGTCCAAAAATTCAATTTTTGACCTCC-AAC-TTCCTAAAAATTACCATTTT
1 -CCCTAAACT-TCCAAAAATTCCATTTTTGACC-CCAAACTTTCC-CAAAATTACCATTTT
13169310 TCCTGGGGCA
Statistics
Matches: 431, Mismatches: 66, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
55 14 0.03
56 11 0.03
57 20 0.05
58 111 0.26
59 245 0.57
60 26 0.06
61 2 0.00
62 2 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTCCATTTTTGACCCCAAACTTTCCCAAAATTACCATTTTA
Found at i:13169033 original size:176 final size:173
Alignment explanation
Indices: 13168826--13169309 Score: 573
Period size: 176 Copynumber: 2.7 Consensus size: 173
13168816 GAACTTCACA
*
13168826 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATT
1 AAAATTACCATTTTA-CCCTCAATTTCCAAAAATTCCATTTTTGACCTTGAACT-TCCCAAAATT
* *
13168891 ACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCTTAAAAACTACCATT
64 ACCATTTTA-CCCCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATT
** * *
13168956 TTACCTTC-GACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCC
128 TTACCCCCAAACATCCAAAAATTCCATTTTT-ACCCCAAACTTTCCC
* * *
13169002 AAAATTACCATTTTATCCTCGATTGTCCAAAAATTCCATTTTTGA-CTCTGAACTTCCAAAAAAT
1 AAAATTACCATTTTACCCTCAATT-TCCAAAAATTCCATTTTTGACCT-TGAACTTCC-CAAAAT
* * * *
13169066 TACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTTAACCCTGAACTTTCCCAAAATC-ACC
63 TACCATTTTACCCC-AAA-TGTCCAAAAATTCCATTTTTGACCCTAAAC-TTCCTAAAAACTACC
* *
13169129 ATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAATTTTCCT
125 ATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAACTTTCCC
* * * * **
13169178 AAAATTACCATTTTACCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATT
1 AAAATTACCATTTTACCCTC-AATTTCCAAAAATTCCATTTTTGACCTTGAAC-TTCCCAAAATT
* * * *
13169243 ACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTGA-CCTCCAACTTCCTAAAAATTACCAT
64 ACCATTTTA-CCCCAAATGTCCAAAAATTCCATTTTTGACCCT-AAACTTCCTAAAAACTACCAT
13169307 TTT
127 TTT
13169310 TCCTGGGGCA
Statistics
Matches: 262, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
175 26 0.10
176 195 0.74
177 41 0.16
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (173 bp):
AAAATTACCATTTTACCCTCAATTTCCAAAAATTCCATTTTTGACCTTGAACTTCCCAAAATTAC
CATTTTACCCCAAATGTCCAAAAATTCCATTTTTGACCCTAAACTTCCTAAAAACTACCATTTTA
CCCCCAAACATCCAAAAATTCCATTTTTACCCCAAACTTTCCC
Found at i:13169324 original size:117 final size:117
Alignment explanation
Indices: 13168726--13169309 Score: 602
Period size: 117 Copynumber: 5.0 Consensus size: 117
13168716 CCCAAAAGGT
*
13168726 CCCTAAACTATCCAAAAA-T-CATATTTTGACCCTCAAACTTT-CCAAAAGTTA-CATTTTGACC
1 CCCTAAACT-TCCAAAAATTCCAT-TTTT-AACCTCAAACTTTCCCAAAA-TTACCATTTT-ACC
* * * * * * *
13168787 CTCAAACTTTCCAAAATTTACA-TTAT--CAC-GAACTTCAC-AAAAATTACCATTTTA
61 CCCAAA-TGTCCAAAAATTCCATTTTTGACCCTCAACTTC-CTAAAAATTACCATTTTA
* * ** * * *
13168841 CCCCTAAATTTCCAAAAATTCCATTTTTGACCTTGAACTGTCCCAAAATTACCATTTTATCCTCA
1 -CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCA
* * *
13168906 AATGTCCAAAAATTCCATTTTTGACCCTAAACTTCTTAAAAACTACCATTTTA
65 AATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
* ** * * * *
13168959 CCTTCGACTTCCAAAAATTCCATTTTTAACCCCAAACTTTCCCAAAATTACCATTTTATCCTCGA
1 CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCAA
* * * *
13169024 TTGTCCAAAAATTCCATTTTTGACTCTGAACTTCCAAAAAATTACCATTTTA
66 ATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
* *
13169076 CCCCTAAACTTCCAAAAATTCCATTTTTAACC-CTGAACTTTCCCAAAATCACCATTTTACCCCC
1 -CCCTAAACTTCCAAAAATTCCATTTTTAACCTC-AAACTTTCCCAAAATTACCATTTTACCCCC
** *
13169140 AAACATCCAAAAATTCCATTTTT-ACCC-CAAATTTTCCT-AAAATTACCATTTTA
64 AAATGTCCAAAAATTCCATTTTTGACCCTC-AA-CTTCCTAAAAATTACCATTTTA
* * *
13169193 CCCTCAAACTTCCAATAATTCTATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCG
1 CCCT-AAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCA
*
13169258 AATGTCCAAAAATTCAATTTTTGA-CCTCCAACTTCCTAAAAATTACCATTTT
65 AATGTCCAAAAATTCCATTTTTGACCCT-CAACTTCCTAAAAATTACCATTTT
13169310 TCCTGGGGCA
Statistics
Matches: 394, Mismatches: 55, Indels: 36
0.81 0.11 0.07
Matches are distributed among these distances:
114 12 0.03
115 30 0.08
116 29 0.07
117 206 0.52
118 116 0.29
119 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (117 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAACCTCAAACTTTCCCAAAATTACCATTTTACCCCCAA
ATGTCCAAAAATTCCATTTTTGACCCTCAACTTCCTAAAAATTACCATTTTA
Found at i:13191326 original size:25 final size:28
Alignment explanation
Indices: 13191103--13191524 Score: 276
Period size: 29 Copynumber: 14.5 Consensus size: 28
13191093 TGCCCAAGGA
*
13191103 AAAATGGTAATCTTTAGGAAGTTT-GAGGT
1 AAAATGGTAAT-TTTTGGAAGTTTAG-GGT
*
13191132 CAAAAATTG-AATTTTTGGACA-TTTAGGGGT
1 --AAAATGGTAATTTTTGGA-AGTTTA-GGGT
* * *
13191162 AAAATGGTAATTTTGGGAAAGTTCGAGGTT
1 AAAATGGTAATTTTTGG-AAGTT-TAGGGT
* *
13191192 AAAAATAG-AATTTTTGGAAGTCTGAGGGT
1 -AAAATGGTAATTTTTGGAAGT-TTAGGGT
* *
13191221 AAAATGGTAATTTTAGGAAAATTT-GGGAT
1 AAAATGGTAATTTTTGG-AAGTTTAGGG-T
* *
13191250 AAAAATGG-AATTTTTGGATGTTTGGGGGT
1 -AAAATGGTAATTTTTGGAAGTTT-AGGGT
* * *
13191279 AAAATAGTGATTTTGGGAAAGTTTAGGGT
1 AAAATGGTAATTTTTGG-AAGTTTAGGGT
*
13191308 TAAA-GG-AATTTTT-GAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGAAGTTT-AGGGT
*
13191334 AAAATGGTAATTTTTGGGAAGTTTAGAGT
1 AAAATGGTAATTTTT-GGAAGTTTAGGGT
*
13191363 CAAAAATGG-AATTTTTGGACA-TTCGAGGGT
1 --AAAATGGTAATTTTTGGA-AGTT-TAGGGT
* * *
13191393 GAAATGGTAATTTTGGGAAAGTTTGGGGTT
1 AAAATGGTAATTTTTGG-AAGTTTAGGG-T
* * *
13191423 AAAAATGG-AATTTTTTGAAGTCTAAGGT
1 -AAAATGGTAATTTTTGGAAGTTTAGGGT
*
13191451 AAAATGGTAGTTTTTAGGAAGTTTAGGGT
1 AAAATGGTAATTTTT-GGAAGTTTAGGGT
*
13191480 CAAAAATGG-AATTTTTGGAAATTTAGGGGT
1 --AAAATGGTAATTTTTGGAAGTTTA-GGGT
13191510 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
13191525 ATGAAGTTCC
Statistics
Matches: 309, Mismatches: 45, Indels: 76
0.72 0.10 0.18
Matches are distributed among these distances:
25 6 0.02
26 9 0.03
27 14 0.05
28 53 0.17
29 113 0.37
30 80 0.26
31 34 0.11
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (28 bp):
AAAATGGTAATTTTTGGAAGTTTAGGGT
Found at i:13191487 original size:231 final size:231
Alignment explanation
Indices: 13191103--13191523 Score: 609
Period size: 231 Copynumber: 1.8 Consensus size: 231
13191093 TGCCCAAGGA
* *
13191103 AAAATGGTAATCTTTAGGAAGTTTGAGGTCAAAAATTGAATTTTTGGACATTTAGGGGTAAAATG
1 AAAATGGTAATCTTTAGGAAGTTTGAGGTCAAAAATGGAATTTTTGGACATTGAGGGGTAAAATG
*
13191168 GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAGGGTAAAATGGTAATT
66 GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAATT
** * *
13191233 TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATAGTGATTTTGGGAA
131 TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGAA
13191298 AGTTTAGGGTTAAAGGAATTTTTGAAGTTTAAGGGT
196 AGTTTAGGGTTAAAGGAATTTTTGAAGTTTAAGGGT
* * *
13191334 AAAATGGTAATTTTTGGGAAGTTT-AGAGTCAAAAATGGAATTTTTGGACATTCGA-GGGTGAAA
1 AAAATGGTAATCTTTAGGAAGTTTGAG-GTCAAAAATGGAATTTTTGGACATT-GAGGGGTAAAA
* * * *
13191397 TGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCT-AAGGTAAAATGGTAG
64 TGGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTA-
* * *
13191461 TTTTTAGG-AAGTTTAGGG-TCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTT
128 ATTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTT
13191524 TATGAAGTTC
Statistics
Matches: 168, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
230 21 0.12
231 146 0.87
232 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.35
Consensus pattern (231 bp):
AAAATGGTAATCTTTAGGAAGTTTGAGGTCAAAAATGGAATTTTTGGACATTGAGGGGTAAAATG
GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAATT
TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGAA
AGTTTAGGGTTAAAGGAATTTTTGAAGTTTAAGGGT
Found at i:13191532 original size:59 final size:59
Alignment explanation
Indices: 13191103--13191523 Score: 413
Period size: 59 Copynumber: 7.2 Consensus size: 59
13191093 TGCCCAAGGA
*
13191103 AAAATGGTAATCTTTAGG-AAGTTT-GAGGTCAAAAATTGAATTTTTGGACA-TTTAGGGGT
1 AAAATGGTAAT-TTTAGGAAAGTTTAG-GGTCAAAAATGGAATTTTTGGA-AGTTTAGGGGT
* * * * *
13191162 AAAATGGTAATTTTGGGAAAG-TTCGAGGTTAAAAATAGAATTTTTGGAAGTCT-GAGGGT
1 AAAATGGTAATTTTAGGAAAGTTTAG-GGTCAAAAATGGAATTTTTGGAAGTTTAG-GGGT
* * *
13191221 AAAATGGTAATTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTAGGAAAGTTTAGGG-TCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * * *
13191279 AAAATAGTGATTTTGGGAAAGTTTAGGGT--TAAA-GGAATTTTT-GAAGTTTAAGGGT
1 AAAATGGTAATTTTAGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * *
13191334 AAAATGGTAATTTTTGGGAAGTTTAGAGTCAAAAATGGAATTTTTGGACA--TTCGAGGGT
1 AAAATGGTAATTTTAGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGA-AGTTTAG-GGGT
* * * * * * *
13191393 GAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCTA-AGGT
1 AAAATGGTAATTTTAGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* *
13191451 AAAATGGTAGTTTTTAGG-AAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTA-ATTTTAGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
13191510 AAAATGGTAATTTT
1 AAAATGGTAATTTT
13191524 TATGAAGTTC
Statistics
Matches: 299, Mismatches: 45, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
55 34 0.11
56 9 0.03
57 6 0.02
58 114 0.38
59 132 0.44
60 4 0.01
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTAGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
Found at i:13191574 original size:30 final size:30
Alignment explanation
Indices: 13191539--13191619 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
13191529 AGTTCCTGAT
*
13191539 AATGTAAATTTTGGAAAGTTTGGGGGTTAA
1 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
* *
13191569 AATGTAACTTTTGGAAAGTGTGGGGGTCAA
1 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
* * * *
13191599 AATATGATTTTTGGATAGTTT
1 AATGTAAATTTTGGAAAGTTT
13191620 AGGGACCTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.31, C:0.02, G:0.28, T:0.38
Consensus pattern (30 bp):
AATGTAAATTTTGGAAAGTTTGGGGGTCAA
Found at i:13192764 original size:3 final size:3
Alignment explanation
Indices: 13192750--13192805 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
13192740 GACTGCCTTT
* ** * *
13192750 TTA TTA TT- TTA TTA TTA CTA TTA AAA ATA GTA TTA TTA TTA TTA TTGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
13192798 TTA TTA TT
1 TTA TTA TT
13192806 GATACTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13192802 original size:10 final size:10
Alignment explanation
Indices: 13192780--13192808 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13192770 TTAAAAATAG
13192780 TATTATT-AT
1 TATTATTGAT
13192789 TATTATTGAT
1 TATTATTGAT
13192799 TATTATTGAT
1 TATTATTGAT
13192809 ACTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TATTATTGAT
Found at i:13193564 original size:17 final size:16
Alignment explanation
Indices: 13193542--13193573 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13193532 CTTTTGTTTA
13193542 TTTAAATTTAGAATATT
1 TTTAAATTTA-AATATT
13193559 TTTAAATTTAAATAT
1 TTTAAATTTAAATAT
13193574 AAATTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTTAAATATT
Found at i:13193596 original size:18 final size:18
Alignment explanation
Indices: 13193568--13193648 Score: 99
Period size: 18 Copynumber: 4.5 Consensus size: 18
13193558 TTTTAAATTT
* *
13193568 AAATATAAATTTTAAAAC
1 AAATTTAAATTTAAAAAC
* *
13193586 ATATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAC
*
13193604 AAATTTAAATTTTAAAAC
1 AAATTTAAATTTAAAAAC
* *
13193622 ATATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAC
13193640 AAATTTAAA
1 AAATTTAAA
13193649 ATGGGTTTAG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAC
Found at i:13193599 original size:36 final size:36
Alignment explanation
Indices: 13193567--13193648 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
13193557 TTTTTAAATT
13193567 TAAATATAAATTTTAAAACATATTTAAATTTAAAAA
1 TAAATATAAATTTTAAAACATATTTAAATTTAAAAA
*
13193603 TAAATTTAAATTTTAAAACATATTTAAATTTAAAAA
1 TAAATATAAATTTTAAAACATATTTAAATTTAAAAA
*
13193639 TAAATTTAAA
1 TAAATATAAA
13193649 ATGGGTTTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (36 bp):
TAAATATAAATTTTAAAACATATTTAAATTTAAAAA
Found at i:13194433 original size:209 final size:208
Alignment explanation
Indices: 13194012--13194665 Score: 871
Period size: 209 Copynumber: 3.1 Consensus size: 208
13194002 TTCAATCTAT
* *
13194012 TTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
1 TTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
* *
13194077 GGAAGCTGGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCAG
66 GGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCAG
* ** * * *
13194142 TATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATCAGAAAGG
131 TATCTCATCAGGAAGATGACAGCATCGCTTGTTT-AATCCACTTCTCTGTGTCTCATCAGAAAGA
* * *
13194207 CGAATTTGGTCCAC
195 CGGATCTGGTTCAC
* *
13194221 TTCTCAGTATCTCATCTGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
1 TTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
* * * *
13194286 AGAAGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTTAG
66 GGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCAG
* * * * *
13194351 TATCTTATCAGGAAGATGACCGCTTCGCTTAGTTTGATCCACTTCTCTGTGTCTCATTAGAAAGA
131 TATCTCATCAGGAAGATGACAGCATCGCTT-GTTTAATCCACTTCTCTGTGTCTCATCAGAAAGA
13194416 CGGATCTGGTTCAC
195 CGGATCTGGTTCAC
** * * *
13194430 TTCTTTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGCTTCTCAATATCTCATTA
1 TTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
* * ** * *
13194495 GGAAGCTGGGGTTCGGAGATTCT-CTCACTTTGAGCCTGATTTTATTGATTTGGTCTTCTTCTCA
66 GGAAGCTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
* * * *
13194559 GTATCTCATCAAGAAGATGACTGAATCGCTTGTTTTAATCCACTTCTCTGTGTCTCATCAGGAAG
130 GTATCTCATCAGGAAGATGACAGCATCGCTTG-TTTAATCCACTTCTCTGTGTCTCATCAGAAAG
* *
13194624 ACAGATCTGCTTCAC
194 ACGGATCTGGTTCAC
*
13194639 TTCTCTA-TACCTCATCAGGAAGGTAAC
1 TTCTC-AGTATCTCATCAGGAAGGTAAC
13194666 TGCTTTATAT
Statistics
Matches: 388, Mismatches: 53, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
208 1 0.00
209 382 0.98
210 5 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (208 bp):
TTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
GGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCAG
TATCTCATCAGGAAGATGACAGCATCGCTTGTTTAATCCACTTCTCTGTGTCTCATCAGAAAGAC
GGATCTGGTTCAC
Found at i:13201001 original size:23 final size:23
Alignment explanation
Indices: 13200937--13200995 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
13200927 GAATTATTAC
*
13200937 GCGAAAATATGCAAATATGCTAT
1 GCGAAAATATGCAAATATGCAAT
13200960 GCGAAAATATGCAAATATGCAAT
1 GCGAAAATATGCAAATATGCAAT
*
13200983 GCGAAAAAATGCA
1 GCGAAAATATGCA
13200996 TGTATGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (23 bp):
GCGAAAATATGCAAATATGCAAT
Found at i:13201014 original size:23 final size:23
Alignment explanation
Indices: 13200952--13201019 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
13200942 AATATGCAAA
* * * **
13200952 TATGCTATGCGAAAATATGCAAA
1 TATGCAATGCGAAAAAAGGCATG
*
13200975 TATGCAATGCGAAAAAATGCATG
1 TATGCAATGCGAAAAAAGGCATG
*
13200998 TATGTAATGC-AAGAAAAGGCAT
1 TATGCAATGCGAA-AAAAGGCAT
13201020 TGATTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (23 bp):
TATGCAATGCGAAAAAAGGCATG
Found at i:13204792 original size:30 final size:28
Alignment explanation
Indices: 13204748--13205240 Score: 195
Period size: 29 Copynumber: 16.9 Consensus size: 28
13204738 TGCCAGGGGA
13204748 AAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAATGG-AATTTTT-GGAAGTTCGAGGTT
*
13204778 AAAAATGGAATTTTTGGACA-TTCGGGGTT
1 -AAAATGGAATTTTTGGA-AGTTCGAGGTT
* *
13204807 AAAATGGTAATTTTGGGAAAGTT-TAGG--
1 AAAATGG-AATTTTTGG-AAGTTCGAGGTT
** *
13204834 -AAATGGAATTTTTGGAAGTTTAAGGGT
1 AAAATGGAATTTTTGGAAGTTCGAGGTT
* *
13204861 AAAATGGTAATTTTAGGAAAGTAT-GAGGTCA
1 AAAATGG-AATTTTTGG-AAGT-TCGAGGT-T
** * * *
13204892 AAAATAAAATTTTTGGATGTTTGAGGGT
1 AAAATGGAATTTTTGGAAGTTCGAGGTT
* * *
13204920 AAAATGTTAATTTTGGGAAAGTTCGAGGTCA
1 AAAATG-GAATTTTTGG-AAGTTCGAGGT-T
* *
13204951 AAAATGGAATTTTTGGAAG-TCTAAGGGT
1 AAAATGGAATTTTTGGAAGTTC-GAGGTT
* * *
13204979 AAAATGGTAATATTTGGGAAGTTTG-GAGTCA
1 AAAATGG-AAT-TTTTGGAAGTTCGAG-GT-T
* * *
13205010 AAAATGGAATTTTTAGACA-TTCGGGGGT
1 AAAATGGAATTTTTGGA-AGTTCGAGGTT
* * * * *
13205038 GAAATGGTAATTTTGGGAAAGTTTGGGGTCA
1 AAAATGG-AATTTTTGG-AAGTTCGAGGT-T
* * *
13205069 AAAATAGAATTTTTGGAAGTTTG-GGCGT
1 AAAATGGAATTTTTGGAAGTTCGAGG-TT
* *
13205097 AAAATGGTAATTTTTGGCAAGTT-TAGGGTGA
1 AAAATGG-AATTTTTGG-AAGTTCGA-GGT-T
* * *
13205128 AAAATGGAATTTTTGGACA-TTTGGGGGT
1 AAAATGGAATTTTTGGA-AGTTCGAGGTT
* * * *
13205156 AGAATGGTAA-TTATGGAAAAGTTCGGGGTCA
1 AAAATGG-AATTTTTGG--AAGTTCGAGGT-T
* *
13205187 AAAATAGAATTTTTGGAAATTCGAGG-T
1 AAAATGGAATTTTTGGAAGTTCGAGGTT
13205214 AAAATGGTAATTTTTGTGAAGTTCGAG
1 AAAATGG-AATTTTTG-GAAGTTCGAG
13205241 TGCAATAATG
Statistics
Matches: 348, Mismatches: 70, Indels: 90
0.69 0.14 0.18
Matches are distributed among these distances:
24 5 0.01
25 11 0.03
26 6 0.02
27 6 0.02
28 61 0.18
29 113 0.32
30 95 0.27
31 51 0.15
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTTGGAAGTTCGAGGTT
Found at i:13204818 original size:59 final size:57
Alignment explanation
Indices: 13204743--13205296 Score: 434
Period size: 59 Copynumber: 9.5 Consensus size: 57
13204733 TTCGATGCCA
* * *
13204743 GGGGAAAAATGGTAATTTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTGGACATTC
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGA-ATTC
* *
13204801 GGGGTTAAAATGGTAATTTTGGGAAAGTT-TAGG----AAATGGAATTTTTGGAAGTTTA
1 GGGG-TAAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAA--TTC
* * ** * *
13204856 AGGGTAAAATGGTAATTTTAGGAAAGTAT-GAGGTCAAAAATAAAATTTTTGGATGTTT
1 GGGGTAAAATGGTAATTTTGGGAAAGT-TCGAGGTCAAAAATGGAATTTTTGGA-ATTC
* *
13204914 GAGGGTAAAATGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAGTCTA
1 G-GGGTAAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAA-T-TC
* * *
13204974 AGGGTAAAATGGTAATATTTGGG-AAGTTTG-GAGTCAAAAATGGAATTTTTAGACATTC
1 GGGGTAAAATGGTAAT-TTTGGGAAAGTTCGAG-GTCAAAAATGGAATTTTTGGA-ATTC
* * * * *
13205032 GGGGGTGAAATGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTT
1 -GGGGTAAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAA-TTC
* * * * *
13205091 GGGCGTAAAATGGTAATTTTTGGCAAGTT-TAGGGTGAAAAATGGAATTTTTGGACATTTG
1 GGG-GTAAAATGGTAATTTTGGGAAAGTTCGA-GGTCAAAAATGGAATTTTTGGA-A-TTC
* * * * *
13205151 GGGGTAGAATGGTAATTATGGAAAAGTTCGGGGTCAAAAATAGAATTTTTGGAAATTC
1 GGGGTAAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGG-AATTC
* * * * *
13205209 GAGGTAAAATGGTAATTTTTGTG-AAGTTCGA-GTGCAATAATGTAAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTTCGAGGT-CAAAAATGGAATTTTTGG-AA-TTC
*
13205268 AAGGGTCAAAAT-GTAATTCTT-GGAAAGTT
1 -GGGGT-AAAATGGTAATT-TTGGGAAAGTT
13205297 TAAGGGTCAA
Statistics
Matches: 403, Mismatches: 60, Indels: 64
0.76 0.11 0.12
Matches are distributed among these distances:
53 1 0.00
54 38 0.09
55 9 0.02
57 2 0.00
58 67 0.17
59 251 0.62
60 30 0.07
61 5 0.01
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.33
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAATTC
Found at i:13204820 original size:28 final size:30
Alignment explanation
Indices: 13204747--13205292 Score: 224
Period size: 30 Copynumber: 18.7 Consensus size: 30
13204737 ATGCCAGGGG
13204747 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAAATGGTAATTTTT-GGAAGTTCGAGGTT
*
13204778 AAAAATGG-AATTTTTGGACA-TTCGGGGTT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* *
13204807 -AAAATGGTAATTTTGGGAAAGTT-TAGG--
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
** *
13204834 --AAATGG-AATTTTTGGAAGTTTAAGGGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
* *
13204861 -AAAATGGTAATTTTAGGAAAGTAT-GAGGTC
1 AAAAATGGTAATTTTTGG-AAGT-TCGAGGTT
** * * *
13204891 AAAAAT-AAAATTTTTGGATGTTTGAGGGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
* * *
13204920 -AAAATGTTAATTTTGGGAAAGTTCGAGGTC
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* *
13204950 AAAAATGG-AATTTTTGGAAG-TCTAAGGGT
1 AAAAATGGTAATTTTTGGAAGTTC-GAGGTT
* * *
13204979 -AAAATGGTAATATTTGGGAAGTTTG-GAGTC
1 AAAAATGGTAAT-TTTTGGAAGTTCGAG-GTT
* * *
13205009 AAAAATGG-AATTTTTAGACA-TTCGGGGGT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* * * * *
13205038 -GAAATGGTAATTTTGGGAAAGTTTGGGGTC
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* * *
13205068 AAAAATAG-AATTTTTGGAAGTTTG-GGCGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGG-TT
* *
13205097 -AAAATGGTAATTTTTGGCAAGTT-TAGGGTG
1 AAAAATGGTAATTTTTGG-AAGTTCGA-GGTT
* * *
13205127 AAAAATGG-AATTTTTGGACA-TTTGGGGGT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* * * *
13205156 -AGAATGGTAA-TTATGGAAAAGTTCGGGGTC
1 AAAAATGGTAATTTTTGG--AAGTTCGAGGTT
* *
13205186 AAAAATAG-AATTTTTGGAAATTCGAGG-T
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
*
13205214 -AAAATGGTAATTTTTGTGAAGTTCGA-GTGC
1 AAAAATGGTAATTTTTG-GAAGTTCGAGGT-T
* * * *
13205244 AATAAT-GTAAATTTTGGAAAGTTCAAGGGT
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* *
13205274 CAAAAT-GTAATTCTTGGAA
1 AAAAATGGTAATTTTTGGAA
13205293 AGTTTAAGGG
Statistics
Matches: 386, Mismatches: 80, Indels: 100
0.68 0.14 0.18
Matches are distributed among these distances:
24 5 0.01
25 11 0.03
26 6 0.02
27 6 0.02
28 62 0.16
29 115 0.30
30 124 0.32
31 57 0.15
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAAATGGTAATTTTTGGAAGTTCGAGGTT
Found at i:13204846 original size:26 final size:24
Alignment explanation
Indices: 13204808--13204879 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 24
13204798 TTCGGGGTTA
13204808 AAATGGTAATTTTGGGAAAGTTTAGG
1 AAATGGTAATTTT-GG-AAGTTTAGG
13204834 AAATGG-AATTTTTGGAAGTTTAAGGG
1 AAATGGTAA-TTTTGGAAGTTT-A-GG
13204860 TAAAATGGTAATTTTAGGAA
1 --AAATGGTAATTTT-GGAA
13204880 AGTATGAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
24 6 0.15
25 5 0.13
26 12 0.31
28 10 0.26
29 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (24 bp):
AAATGGTAATTTTGGAAGTTTAGG
Found at i:13205010 original size:118 final size:118
Alignment explanation
Indices: 13204748--13205236 Score: 557
Period size: 118 Copynumber: 4.2 Consensus size: 118
13204738 TGCCAGGGGA
* * * *
13204748 AAAATGGTAATTTTTAGGAAG-TTCGAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* *
13204812 GGTAATTTTGGGAAAGTT-TAGG----AAATGGAATTTTTGGAAGTTTAAGGGT
66 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAG-TTAAGGGT
* * * ** ** * *
13204861 AAAATGGTAATTTTAGGAAAGTAT-GAGGTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* *
13204925 GTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAGTCTAAGGGT
66 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAGT-TAAGGGT
* * *
13204979 AAAATGGTAATATTTGGGAAGTTTGGA-GTCAAAAATGGAATTTTTAGACATTCGGGGGTGAAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * **
13205043 GGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTGGGCGT
66 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAGTTAAGG-GT
* * * * *
13205097 AAAATGGTAATTTTTGGCAAGTTTAG-GGTGAAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * * *
13205161 GGTAATTATGGAAAAGTTCGGGGTCAAAAATAGAATTTTTGGAAATT-CGAGGT
66 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAGTTAAG-GGT
*
13205214 AAAATGGTAATTTTTGTGAAGTT
1 AAAATGGTAATTTTTGGGAAGTT
13205237 CGAGTGCAAT
Statistics
Matches: 318, Mismatches: 47, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
113 67 0.21
114 4 0.01
117 28 0.09
118 217 0.68
119 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (118 bp):
AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAGTTAAGGGT
Found at i:13205082 original size:177 final size:172
Alignment explanation
Indices: 13204748--13205227 Score: 517
Period size: 177 Copynumber: 2.7 Consensus size: 172
13204738 TGCCAGGGGA
* *
13204748 AAAATGGTAATTTTTAGGAAGTTCGAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAATG
1 AAAATGGTAA-TTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGGACATTAGGGG-TAAAATG
* **
13204813 GTAATTTTGGGAAAGTTT--AG---GAAATGGAATTTTTGGAAGTTTAAGGGTAAAATGGTAATT
64 GTAATTTTGGG-AAGTTTGGAGTCAAAAATGGAATTTTTGGAA--TTCGGGGTAAAATGGTAATT
*
13204873 TTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGATGTTTGAGG-GT
126 TTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTTG-GGCGT
* * *
13204920 AAAATGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGA-AGTCTAAGGGTAAAAT
1 AAAATGGTAATTTTAGG-AAGTTCGAGGTCAAAAATGGAATTTTTGGACA-T-TAGGGGTAAAAT
* *
13204984 GGTAATATTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTAGACATTCGGGGGTGAAATGGTAAT
63 GGTAAT-TTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTGGA-ATTC-GGGGTAAAATGGTAAT
* * * *
13205049 TTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTGGGCGT
125 TTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTTGGGCGT
* * * * *
13205097 AAAATGGTAATTTTTGGCAAGTT-TAGGGTGAAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAATTTTAGG-AAGTTCGA-GGTCAAAAATGGAATTTTTGGACA-TTAGGGGTAAAAT
* * * * * *
13205161 GGTAATTATGGAAAAGTTCGGGGTCAAAAATAGAATTTTTGGAAATTCGAGGTAAAATGGTAATT
63 GGTAATTTTGG-GAAGTTTGGAGTCAAAAATGGAATTTTTGG-AATTCGGGGTAAAATGGTAATT
13205226 TT
126 TT
13205228 TGTGAAGTTC
Statistics
Matches: 260, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
171 7 0.03
172 57 0.22
173 10 0.04
174 2 0.01
176 26 0.10
177 154 0.59
178 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (172 bp):
AAAATGGTAATTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGGACATTAGGGGTAAAATGGT
AATTTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTGGAATTCGGGGTAAAATGGTAATTTTAGG
AAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTTGGGCGT
Found at i:13205257 original size:118 final size:117
Alignment explanation
Indices: 13204748--13205296 Score: 507
Period size: 118 Copynumber: 4.7 Consensus size: 117
13204738 TGCCAGGGGA
* *
13204748 AAAATGGTAATTTTTAGGAAGTTCGAG-GTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAAT
1 AAAATGGTAATTTTT-GGAAGTTCGAGTG-CAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * *
13204812 GGTAATTTTGGGAAAGTT-TAGG----AAATGGAATTTTTGGAAGTTTAAGGGT
64 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAATTCAAGGGT
* ** ** * *
13204861 AAAATGGTAATTTTAGGAAAGTAT-GAG-GTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAA
1 AAAATGGTAATTTTTGG-AAGT-TCGAGTG-CAAAAATGGAATTTTTGGACATTCGGGGGTAAAA
* * *
13204924 TGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGG-AAGTCTAAGGGT
63 TGGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAATTC-AAGGGT
* * * *
13204979 AAAATGGTAATATTTGGGAAGTTTGGAGT-CAAAAATGGAATTTTTAGACATTCGGGGGTGAAAT
1 AAAATGGTAAT-TTTTGGAAG-TTCGAGTGCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * **
13205043 GGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTT-TGGGCGT
64 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAATTCAAGG-GT
* * * *
13205097 AAAATGGTAATTTTTGGCAAGTTTAGGGTG-AAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAATTTTTGG-AAG-TTCGAGTGCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * *
13205161 GGTAATTATGGAAAAGTTCGGGGTCAAAAATAGAATTTTTGGAAATTCGA-GGT
64 GGTAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAATTCAAGGGT
* * * * **
13205214 AAAATGGTAATTTTTGTGAAGTTCGAGTGCAATAATGTAAATTTTGGAAAGTTCAAGGGTCAAAA
1 AAAATGGTAATTTTTG-GAAGTTCGAGTGCAAAAATGGAATTTTTGGACA-TTCGGGGGT-AAAA
13205279 T-GTAATTCTT-GGAAAGTT
63 TGGTAATT-TTGGGAAAGTT
13205297 TAAGGGTCAA
Statistics
Matches: 358, Mismatches: 56, Indels: 39
0.79 0.12 0.09
Matches are distributed among these distances:
112 2 0.01
113 67 0.19
114 4 0.01
116 6 0.02
117 46 0.13
118 217 0.61
119 16 0.04
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGAAGTTCGAGTGCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGG
TAATTTTGGGAAAGTTCGAGGTCAAAAATAGAATTTTTGGAAATTCAAGGGT
Found at i:13205302 original size:30 final size:30
Alignment explanation
Indices: 13205197--13205309 Score: 103
Period size: 30 Copynumber: 3.8 Consensus size: 30
13205187 AAAATAGAAT
* *
13205197 TTTTGGAAA-TTCGA-GGT-AAAATGGTAAT
1 TTTTGGAAAGTTCAAGGGTCAAAAT-GTAAA
* *
13205225 TTTTGTG-AAGTTCGAGTG-CAATAATGTAAA
1 TTTTG-GAAAGTTCAAGGGTCAA-AATGTAAA
13205255 TTTTGGAAAGTTCAAGGGTCAAAATGT-AA
1 TTTTGGAAAGTTCAAGGGTCAAAATGTAAA
*
13205284 TTCTTGGAAAGTTTAAGGGTCAAAAT
1 TT-TTGGAAAGTTCAAGGGTCAAAAT
13205310 ATGATTTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
28 7 0.10
29 11 0.15
30 48 0.67
31 6 0.08
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTTGGAAAGTTCAAGGGTCAAAATGTAAA
Found at i:13206443 original size:3 final size:3
Alignment explanation
Indices: 13206435--13206515 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
13206425 TTCGACTGCC
*
13206435 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
13206483 CTA TTA AGA ATA GTA TTA TTA TTGA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
13206516 GATACTATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13206657 original size:6 final size:6
Alignment explanation
Indices: 13206630--13206699 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
13206620 GACTTTGTTT
* * *
13206630 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA ATATAA ATTTAA A-ATAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
13206676 ATTT-A ATCTTAA A-ATAA ATTTAA A
1 ATTTAA AT-TTAA ATTTAA ATTTAA A
13206700 ATGGATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 31 0.63
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:13206668 original size:29 final size:28
Alignment explanation
Indices: 13206633--13206701 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13206623 TTTGTTTATT
* *
13206633 TAAATTTAGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
13206662 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
13206690 TAAATTTAAAAT
1 TAAATTTAAAAT
13206702 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:13206669 original size:18 final size:17
Alignment explanation
Indices: 13206630--13206699 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
13206620 GACTTTGTTT
*
13206630 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
*
13206647 TTTTAAATTT-AAAT--
1 ATTTAAATTTAAAATAA
13206661 A--TAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
13206676 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
13206693 ATTTAAA
1 ATTTAAA
13206700 ATGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 1 0.02
16 6 0.14
17 23 0.53
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:13206701 original size:11 final size:12
Alignment explanation
Indices: 13206650--13206681 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13206640 AGAATAATTT
13206650 TAAATTTAAATA
1 TAAATTTAAATA
13206662 TAAATTTAAA-A
1 TAAATTTAAATA
13206673 TAAATTTAA
1 TAAATTTAA
13206682 TCTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:13210005 original size:369 final size:372
Alignment explanation
Indices: 13209324--13210067 Score: 1431
Period size: 369 Copynumber: 2.0 Consensus size: 372
13209314 GATTCACCAT
13209324 CTCCGTCTGCTTAATGATATAGGATTGCTTCAACTAACAATAGGTTACAAGACGTGATGTGCTCA
1 CTCCGTCTGCTTAATGATATAGGATTGCTTCAACTAACAATAGGTTACAAGACGTGATGTGCTCA
13209389 ATATTGTTCTTTTGTCTTTATTTTCAATATTGTTCCGGAAGCTTAATTATTGTCTGTCATTAAAT
66 ATATTGTTCTTTTGTCTTTATTTTCAATATTGTTCCGGAAGCTTAATTATTGTCTGTCATTAAAT
13209454 TTAAGTCGAGTTAAATTAATTTTAGTTGTACAAAAATTAAATGGTTCTAGAGAAGCCATTGCTTA
131 TTAAGTCGAGTTAAATTAATTTTAGTTGTACAAAAATTAAATGGTTCTAGAGAAGCCATTGCTTA
13209519 ATACACTACGATTTTATAAGGCCATTATTTTTAATTTTATAGCATTGGAACTTGATAACCATCTC
196 ATACACTACGATTTTATAAGGCCATTATTTTTAATTTTATAGCATTGGAACTTGATAACCATCTC
13209584 AAATCGAGTACTATATATTGTTCCACATTGTTTAAATTGAAACAAATATCAATATTTTAAATGTT
261 AAATCGAGTACTATATATTGTTCCACATTGTTTAAATTGAAACAAATATCAATATTTTAAATGTT
*
13209649 AATTTCATTGTAATAATGTGGAACTGGAATTTTT-TGTGCTGAGAAA
326 AATTTCATTGCAATAATGTGGAACTGGAATTTTTGTGTGCTGAGAAA
13209695 CTCCGTCTGCTTAATGATATAGGATTGCTTCAACTAACAATAGGTTACAAGACGTGATGTGCTCA
1 CTCCGTCTGCTTAATGATATAGGATTGCTTCAACTAACAATAGGTTACAAGACGTGATGTGCTCA
*
13209760 ATATTGTTCTTTTGTCTTTATTTTCAAT-TT-TTCCGGAAGCTTAATTATTGTCTGTCGTTAAAT
66 ATATTGTTCTTTTGTCTTTATTTTCAATATTGTTCCGGAAGCTTAATTATTGTCTGTCATTAAAT
13209823 TTAAGTCGAGTTAAATTAATTTTAGTTGTACAAAAATTAAATGGTTCTAGAGAAGCCATTGCTTA
131 TTAAGTCGAGTTAAATTAATTTTAGTTGTACAAAAATTAAATGGTTCTAGAGAAGCCATTGCTTA
13209888 ATACACTACGATTTTATAAGGCCATTATTTTTAATTTTATAGCATTGGAACTTGATAACCATCTC
196 ATACACTACGATTTTATAAGGCCATTATTTTTAATTTTATAGCATTGGAACTTGATAACCATCTC
*
13209953 AAATCGAGTACTATATATTGTTTCACATTGTTTAAATTGAAACAAATATCAATATTTTAAATGTT
261 AAATCGAGTACTATATATTGTTCCACATTGTTTAAATTGAAACAAATATCAATATTTTAAATGTT
13210018 AATTTCATTGCAATAATGTGGAACTGGAATTTTTGGTGTGCTGAGAAA
326 AATTTCATTGCAATAATGTGGAACTGGAATTTTT-GTGTGCTGAGAAA
13210066 CT
1 CT
13210068 GAAACAACAT
Statistics
Matches: 368, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
369 259 0.70
370 2 0.01
371 107 0.29
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (372 bp):
CTCCGTCTGCTTAATGATATAGGATTGCTTCAACTAACAATAGGTTACAAGACGTGATGTGCTCA
ATATTGTTCTTTTGTCTTTATTTTCAATATTGTTCCGGAAGCTTAATTATTGTCTGTCATTAAAT
TTAAGTCGAGTTAAATTAATTTTAGTTGTACAAAAATTAAATGGTTCTAGAGAAGCCATTGCTTA
ATACACTACGATTTTATAAGGCCATTATTTTTAATTTTATAGCATTGGAACTTGATAACCATCTC
AAATCGAGTACTATATATTGTTCCACATTGTTTAAATTGAAACAAATATCAATATTTTAAATGTT
AATTTCATTGCAATAATGTGGAACTGGAATTTTTGTGTGCTGAGAAA
Found at i:13218213 original size:23 final size:23
Alignment explanation
Indices: 13218183--13218244 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
13218173 TTAGAATTAT
13218183 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
13218206 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
* * *
13218229 AATGAGAAAAAATGCA
1 TATGCGAAAATATGCA
13218245 TGTATGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGC
Found at i:13226673 original size:591 final size:591
Alignment explanation
Indices: 13225547--13226647 Score: 1925
Period size: 591 Copynumber: 1.9 Consensus size: 591
13225537 GGAAAATAAT
*
13225547 TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCATGAGTATTTTCGAGACAGGTAG
1 TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
13225612 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
66 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
* * *
13225677 AGAGGACTCTCGAGAATCCTCTATTCAAAGAACTAAACCCAACTACAATTATAGCGAAGAGCATC
131 AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
*
13225742 GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAGGAT
196 GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAAGAT
* *
13225807 TGCTTCAACTAACAATAAGTTACAGGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
261 TGCTTCAACTAACAACAAGTTACAAGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
* ** *
13225872 AATATTGTTCCTTAAGCGTCATTATTGTGTGTCGTTAAATTTAAGTCGAGTTAAATTATTTTAGT
326 AACATTGTTCCGGAAGCGTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATTATTTTAGT
*
13225937 TGTACGAAAATTAAATGGTTCTAGAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCCTT
391 TGTACGAAAATTAAATGGTTCTAGAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCATT
* *
13226002 TTTTGTAATTTTATTGCATTAGAACTTGATAACCATCTCAAAACGAGTACTATATATTGTTTCAC
456 TTTTGTAATTTTATAGCATTAGAACTTGATAACCATCTCAAAACGAGTACTAGATATTGTTTCAC
* **
13226067 ATTGTTTAAATTGAAAAAAATTGCAATGTTATAAACGTTATGTTCATTGCAATAATGTGGAACAT
521 ATGGTAGAAATTGAAAAAAATTGCAATGTTATAAACGTTATGTTCATTGCAATAATGTGGAACAT
13226132 GGAACA
586 GGAACA
*
13226138 TGTGAAACTAAAGTTGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
1 TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
13226203 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
66 TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
13226268 AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
131 AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
* * * *
13226333 GAAACATGGAACAACTGCATGGCATTGATCGATTTACCGTCTCCGTCTGCTTAATGATATAAGAT
196 GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAAGAT
* *
13226398 TGCTTCAACTAACAACAGGTTACAAGACGTGATGTGCTCAATATTGTTCTTTTGTCTTTATTTTC
261 TGCTTCAACTAACAACAAGTTACAAGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
*
13226463 AACATTGTTCCGGAAGCTTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATTAATTTTAG
326 AACATTGTTCCGGAAGCGTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATT-ATTTTAG
*
13226528 TTGTACGAAAATTAAATGGTTCTAGAGAAGCCATTACTTAATACACTATGATTTTATAAGGCCAT
390 TTGTACGAAAATTAAATGGTTCTAGAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCAT
* *
13226593 TATTTT-TAATTTTATAGCATTGGAACTTGATAACCATCTCAAATCGAGTACTAGA
455 T-TTTTGTAATTTTATAGCATTAGAACTTGATAACCATCTCAAAACGAGTACTAGA
13226648 ATTTTTGGTG
Statistics
Matches: 483, Mismatches: 25, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
591 363 0.75
592 116 0.24
593 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (591 bp):
TGTGAAACTAAAGTGGGTTGGCCCTGTCTTCAAGAAACTTTCACGAGTATTTTCGAGACAGGTAG
TATTTCTAACAAGTGTTGCAGCGAACTTGTTACGTTGGGAAAAGTTTGCCACGCAGCATTAAGAA
AGAGGACTCTCGAGAATCCTCTATTCAAAGAAATAAACCCAACTAAAATTATAGCAAAGAGCATC
GAAACATGGAACAACTGCATGGCATTGATCGATTCACCATATCCGTCTGCTTAACGATATAAGAT
TGCTTCAACTAACAACAAGTTACAAGACGTGATGTGCTCAAAATTGTTCTTTTGTCTTTATTTTC
AACATTGTTCCGGAAGCGTCATTATTGTCTGTCGTTAAATTTAAGTCGAGTTAAATTATTTTAGT
TGTACGAAAATTAAATGGTTCTAGAGAAGCCATTACGTAATACACTATGATTTTATAAGGCCATT
TTTTGTAATTTTATAGCATTAGAACTTGATAACCATCTCAAAACGAGTACTAGATATTGTTTCAC
ATGGTAGAAATTGAAAAAAATTGCAATGTTATAAACGTTATGTTCATTGCAATAATGTGGAACAT
GGAACA
Found at i:13229098 original size:29 final size:27
Alignment explanation
Indices: 13228978--13229408 Score: 203
Period size: 29 Copynumber: 14.8 Consensus size: 27
13228968 TGCCCAAGGA
*
13228978 AAAATGGTAATCTTTAGGAAGTTCGA-GGT
1 AAAATGG-AAT-TTTTGGAAGTT-GAGGGT
* *
13229007 CAAAAATTGAATTTTTGGACA-TTCGGGGGT
1 --AAAATGGAATTTTTGGA-AGTT-GAGGGT
* *
13229037 AAAATGGTAATTTTGGGAAAGTTCGAGGTT
1 AAAATGG-AATTTTTGG-AAGTT-GAGGGT
*
13229067 AAAAATAGAATTTTTGGAAGTCTGAGGGT
1 -AAAATGGAATTTTTGGAAGT-TGAGGGT
* * *
13229096 AAAATGGTAATTTTAGGAAAATTTG-GGAT
1 AAAATGG-AATTTTTGG--AAGTTGAGGGT
* *
13229125 AAAAATGGAATTTTTGGATGTTTGGGGGT
1 -AAAATGGAATTTTTGGAAG-TTGAGGGT
* * *
13229154 AAAATAGTG-ATTTTGGGAAAGTTCAAGGT
1 AAAAT-G-GAATTTTTGG-AAGTTGAGGGT
* * *
13229183 TAAA-GGAATTTTTTGAAGTTTAAGGGT
1 AAAATGGAATTTTTGGAAG-TTGAGGGT
* *
13229210 AAAATGGTAATTTTTGGGAAGTTTAGAGT
1 AAAATGG-AATTTTT-GGAAGTTGAGGGT
13229239 CAAAAATGGAATTTTTGGACA-TTCGAGGGT
1 --AAAATGGAATTTTTGGA-AGTT-GAGGGT
* *
13229269 GAAATGGTAATTTTGGGAAAGTTTG-GGGTT
1 AAAATGG-AATTTTTGG-AAG-TTGAGGG-T
* *
13229299 AAAAATGGAATTTTTTGAAGTCT-AAGGT
1 -AAAATGGAATTTTTGGAAGT-TGAGGGT
* *
13229327 AAAATGGTAGTTTTTAGGAAGTTTAGGGT
1 AAAATGG-AATTTTT-GGAAGTTGAGGGT
* *
13229356 CAAAAATGGAATTTTTGGAAATTTAGGGGT
1 --AAAATGGAATTTTTGGAAGTTGA-GGGT
13229386 AAAATGGTAATTTTTGTGAAGTT
1 AAAATGG-AATTTTTG-GAAGTT
13229409 CGTGATAATG
Statistics
Matches: 313, Mismatches: 46, Indels: 83
0.71 0.10 0.19
Matches are distributed among these distances:
26 4 0.01
27 24 0.08
28 44 0.14
29 127 0.41
30 77 0.25
31 37 0.12
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (27 bp):
AAAATGGAATTTTTGGAAGTTGAGGGT
Found at i:13229387 original size:232 final size:232
Alignment explanation
Indices: 13228978--13229399 Score: 618
Period size: 232 Copynumber: 1.8 Consensus size: 232
13228968 TGCCCAAGGA
* * *
13228978 AAAATGGTAATCTTTAGGAAGTTCGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAATG
1 AAAATGGTAATCTTTAGGAAGTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
*
13229043 GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAGGGTAAAATGGTAATT
66 GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAATT
** * *
13229108 TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATAGTGATTTTGGGAA
131 TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGAA
13229173 AGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
196 AGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
* * *
13229210 AAAATGGTAATTTTTGGGAAGTTTAGA-GTCAAAAATGGAATTTTTGGACATTCGAGGGTGAAAT
1 AAAATGGTAATCTTTAGGAAG-TTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAAT
* * * * *
13229274 GGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCT-AAGGTAAAATGGTAGT
65 GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTA-A
* *
13229338 TTTTAGG-AAGTTTAGGG-TCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTT
129 TTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTT
13229400 TGTGAAGTTC
Statistics
Matches: 168, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
231 19 0.11
232 145 0.86
233 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (232 bp):
AAAATGGTAATCTTTAGGAAGTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATG
GTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAATT
TTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGAA
AGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
Found at i:13229407 original size:59 final size:60
Alignment explanation
Indices: 13228978--13229498 Score: 371
Period size: 59 Copynumber: 9.0 Consensus size: 60
13228968 TGCCCAAGGA
* * * * **
13228978 AAAATGGTAATCTTTAGG-AAG-TTCGAGGTCAAAAATTGAATTTTTGGACA-TTCGGGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAG-GGTCAAAAATGGAATTTTTGGA-AGTTTAGGGGT
* * * *
13229037 AAAATGGTAA-TTTTGGGAAAG-TTCGAGGTTAAAAATAGAATTTTTGGAAGTCT-GAGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAG-GGTCAAAAATGGAATTTTTGGAAGTTTAG-GGGT
* * * *
13229096 AAAATGGTAA-TTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGATGTTTGGGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGG-TCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * * * * *
13229154 AAAATAGTGA-TTTTGGGAAAGTTCAAGGT--TAAA-GGAATTTTTTGAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* *
13229210 AAAATGGTAATTTTTGGG-AAGTTTAGAGTCAAAAATGGAATTTTTGGACA--TTCGAGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGA-AGTTTAG-GGGT
* * * * * *
13229269 GAAATGGTAA-TTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCTA-AGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * *
13229327 AAAATGGTAGTTTTTAGG-AAGTTTAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
* * * * * *
13229386 AAAATGGTAATTTTTGTG-AAG-TT--CGT-GATAATGTAAATTTTGGAAAGTTT-GGGGTT
1 AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGG-AAGTTTAGGGG-T
* *
13229442 AAAAT-GTAACTTTT-GGAAAGTTTGGGGGTCAAAATAT-G-ATTTTTGGATAGTTTAGGG
1 AAAATGGTAATTTTTGGGAAAGTTT-AGGGTCAAAA-ATGGAATTTTTGGA-AGTTTAGGG
13229499 ACCTTTTGGG
Statistics
Matches: 369, Mismatches: 64, Indels: 57
0.75 0.13 0.12
Matches are distributed among these distances:
54 1 0.00
55 28 0.08
56 50 0.14
57 10 0.03
58 111 0.30
59 158 0.43
60 9 0.02
61 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (60 bp):
AAAATGGTAATTTTTGGGAAAGTTTAGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGT
Found at i:13229447 original size:232 final size:232
Alignment explanation
Indices: 13228978--13229488 Score: 603
Period size: 232 Copynumber: 2.2 Consensus size: 232
13228968 TGCCCAAGGA
* * * * *
13228978 AAAATGGTAATCTTTAGGAAG-TTCGAGGTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAAT
1 AAAATGGTAATTTTTGGGAAGTTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAAT
*
13229042 GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAGGGTAAAATGGTAAT
66 GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAAT
** * *
13229107 TTTAGGAAAATTTGGGATAAAAATGGAATTTTTGGATGTTTGGGGGTAAAATAGTGATTTTGGGA
131 TTTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGA
* * *
13229172 AAGTTCAAGGTTAAAGGAATTTTTTGAAGTTTAAGGGT
196 AAGTTC-AGGATAAAGGAAATTTTGGAAGTTTAAGGGT
*
13229210 AAAATGGTAATTTTTGGGAAGTTTAGA-GTCAAAAATGGAATTTTTGGACATTCGAGGGTGAAAT
1 AAAATGGTAATTTTTGGGAAGTTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAAT
* * * * *
13229274 GGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTTGAAGTCT-AAGGTAAAATGGTAGT
66 GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTA-A
* *
13229338 TTTTAGG-AAGTTTAGGG-TCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTT
130 TTTTAGGAAAATTT-GGGAT-AAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAA-TTTT
* * * *
13229401 GTG-AAGTTC-GTGATAATGTAAATTTTGGAAAGTTT-GGGGTT
192 GGGAAAGTTCAG-GATAAAGGAAATTTTGG-AAGTTTAAGGG-T
* * * *
13229442 AAAAT-GTAACTTTTGGAAAGTTTGGGGGTCAAAATAT-G-ATTTTTGGA
1 AAAATGGTAATTTTTGGGAAGTTTAGAGGTCAAAA-ATGGAATTTTTGGA
13229489 TAGTTTAGGG
Statistics
Matches: 240, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
230 1 0.00
231 60 0.25
232 167 0.70
233 12 0.05
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (232 bp):
AAAATGGTAATTTTTGGGAAGTTTAGAGGTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAAT
GGTAATTTTGGGAAAGTTCGAGGTTAAAAATAGAATTTTTGGAAGTCTGAAGGTAAAATGGTAAT
TTTAGGAAAATTTGGGATAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATAGTAATTTTGGGA
AAGTTCAGGATAAAGGAAATTTTGGAAGTTTAAGGGT
Found at i:13229476 original size:30 final size:29
Alignment explanation
Indices: 13229415--13229494 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
13229405 AGTTCGTGAT
*
13229415 AATGTAAATTTTGGAAAGTTTGGGGTTAA
1 AATGTAAATTTTGGAAAGTTTGGGGTCAA
*
13229444 AATGTAACTTTTGGAAAGTTTGGGGGTCAA
1 AATGTAAATTTTGGAAAGTTT-GGGGTCAA
* * * *
13229474 AATATGATTTTTGGATAGTTT
1 AATGTAAATTTTGGAAAGTTT
13229495 AGGGACCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.31, C:0.03, G:0.26, T:0.40
Consensus pattern (29 bp):
AATGTAAATTTTGGAAAGTTTGGGGTCAA
Found at i:13231435 original size:6 final size:6
Alignment explanation
Indices: 13231426--13231491 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
13231416 TTAGAATATT
** *
13231426 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTTAAA -ACATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
**
13231474 TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
13231492 ATGGGTTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
5 2 0.04
6 40 0.83
7 6 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:13232276 original size:209 final size:208
Alignment explanation
Indices: 13231854--13232508 Score: 900
Period size: 209 Copynumber: 3.1 Consensus size: 208
13231844 TTTCAATCCG
* *
13231854 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* *
13231919 AGGAAGCTGGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
* ** * *
13231984 GTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATCAGAAAG
131 GTATCTCATCAGGAAGATGACAGCATCGCTTGTTT-AATCCACTTCTCTGTGTCTCATCAGAAAG
* * * *
13232049 GCGAATTTGGTCCA
195 ACGGATCTGGTTCA
* *
13232063 CTTCTCAGTATCTCATCTGGAAGCTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* * * *
13232128 AAGAAGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTTA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
* * * * *
13232193 GTATCTTATCAGGAAGATGACCGCTTCGCTTAGTTTGATCCACTTCTCTGTGTCTCATTAGAAAG
131 GTATCTCATCAGGAAGATGACAGCATCGCTT-GTTTAATCCACTTCTCTGTGTCTCATCAGAAAG
13232258 ACGGATCTGGTTCA
195 ACGGATCTGGTTCA
* * * *
13232272 CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGCTTCTCAATATCTCATT
1 CTTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* ** * *
13232337 AGGAAGCTGGGGTTCGAAGATTCT-CTCACTTTGAGCCTGATTTTATTGATTTGGTCTTCTTCTC
66 AGGAAGCTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTC
* * * *
13232401 AGTATCTCATCAAGAAGATGACTGAATCGCTTGTTTTAATCCACTTCTCTGTGTCTCATCAGGAA
130 AGTATCTCATCAGGAAGATGACAGCATCGCTTG-TTTAATCCACTTCTCTGTGTCTCATCAGAAA
* *
13232466 GACAGATCTGCTTCA
194 GACGGATCTGGTTCA
13232481 CTTCTCTA-TATCTCATCAGGAAGGTAAC
1 CTTCTC-AGTATCTCATCAGGAAGGTAAC
13232509 TGCTTTATAT
Statistics
Matches: 393, Mismatches: 49, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
208 1 0.00
209 387 0.98
210 5 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (208 bp):
CTTCTCAGTATCTCATCAGGAAGGTAACCGTTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
GTATCTCATCAGGAAGATGACAGCATCGCTTGTTTAATCCACTTCTCTGTGTCTCATCAGAAAGA
CGGATCTGGTTCA
Found at i:13240716 original size:23 final size:23
Alignment explanation
Indices: 13240652--13240710 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
13240642 GAATTATTAC
*
13240652 GCGAAAATATGCAAATATGCTAT
1 GCGAAAATATGCAAATATGCAAT
13240675 GCGAAAATATGCAAATATGCAAT
1 GCGAAAATATGCAAATATGCAAT
*
13240698 GCGAAAAAATGCA
1 GCGAAAATATGCA
13240711 TGTATGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (23 bp):
GCGAAAATATGCAAATATGCAAT
Found at i:13240729 original size:23 final size:23
Alignment explanation
Indices: 13240667--13240734 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
13240657 AATATGCAAA
* * * **
13240667 TATGCTATGCGAAAATATGCAAA
1 TATGCAATGCGAAAAAAGGCATG
*
13240690 TATGCAATGCGAAAAAATGCATG
1 TATGCAATGCGAAAAAAGGCATG
*
13240713 TATGTAATGC-AAGAAAAGGCAT
1 TATGCAATGCGAA-AAAAGGCAT
13240735 TGATTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (23 bp):
TATGCAATGCGAAAAAAGGCATG
Found at i:13244137 original size:30 final size:28
Alignment explanation
Indices: 13244093--13244585 Score: 177
Period size: 29 Copynumber: 16.9 Consensus size: 28
13244083 TGCCAGGGGA
13244093 AAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAATGG-AATTTTT-GGAAGTTCGAGGTT
*
13244123 AAAAATGGAATTTTTGGACA-TTCGGGGTT
1 -AAAATGGAATTTTTGGA-AGTTCGAGGTT
* *
13244152 AAAATGGTAATTTTGGGAAAGTT-TAGG--
1 AAAATGG-AATTTTTGG-AAGTTCGAGGTT
* ** *
13244179 -AAATGGAATTTTTCGAAGTTTAAGGGT
1 AAAATGGAATTTTTGGAAGTTCGAGGTT
* *
13244206 AAAATGGTAATTTTAGGAAAGTAT-GAGGTCA
1 AAAATGG-AATTTTTGG-AAGT-TCGAGGT-T
** * * *
13244237 AAAATAAAATTTTTGGATGTTTGAGGGT
1 AAAATGGAATTTTTGGAAGTTCGAGGTT
* * *
13244265 AAAATGTTAATTTTGGGAAAGTTCGAGGTCA
1 AAAATG-GAATTTTTGG-AAGTTCGAGGT-T
* *
13244296 AAAATGGAATTTTTGGAAG-TCTAAGGGT
1 AAAATGGAATTTTTGGAAGTTC-GAGGTT
* * *
13244324 AAAATGGTAATATTTGGGAAGTTTG-GAGTCA
1 AAAATGG-AAT-TTTTGGAAGTTCGAG-GT-T
* * *
13244355 AAAATGGAATTTTTAGACA-TTCGGGGGT
1 AAAATGGAATTTTTGGA-AGTTCGAGGTT
* * * * *
13244383 GAAATGGTAATTTTGGGAAAGTTTGGGGTCA
1 AAAATGG-AATTTTTGG-AAGTTCGAGGT-T
* * *
13244414 AAAATAGAATTTTTGGAAGTTTG-GGCGT
1 AAAATGGAATTTTTGGAAGTTCGAGG-TT
* *
13244442 AAAATGGTAATTTTTGGCAAGTT-TAGGGTGA
1 AAAATGG-AATTTTTGG-AAGTTCGA-GGT-T
* * *
13244473 AAAATGGAATTTTTGGACA-TTTGGGGGT
1 AAAATGGAATTTTTGGA-AGTTCGAGGTT
* * * * *
13244501 AGAATGGTAA-TTATGGAAAAGTTTGGGGTCA
1 AAAATGG-AATTTTTGG--AAGTTCGAGGT-T
* *
13244532 AAAATAGAATTTTTGGAAATTCGAGG-T
1 AAAATGGAATTTTTGGAAGTTCGAGGTT
13244559 AAAATGGTAATTTTTGTGAAGTTCGAG
1 AAAATGG-AATTTTTG-GAAGTTCGAG
13244586 TGCAATAATG
Statistics
Matches: 346, Mismatches: 72, Indels: 90
0.68 0.14 0.18
Matches are distributed among these distances:
24 5 0.01
25 10 0.03
26 6 0.02
27 6 0.02
28 61 0.18
29 111 0.32
30 96 0.28
31 51 0.15
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTTGGAAGTTCGAGGTT
Found at i:13244163 original size:59 final size:56
Alignment explanation
Indices: 13244088--13244572 Score: 417
Period size: 59 Copynumber: 8.3 Consensus size: 56
13244078 TTCGATGCCA
* * *
13244088 GGGGAAAAATGGTAATTTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTGGACATTC
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGGA-ATTC
* * *
13244146 GGGGTTAAAATGGTAATTTTGGGAAAGTTTAGG----AAATGGAATTTTTCGAAGTTTA
1 GGGG-TAAAATGGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAA--TTC
* * ** * *
13244201 AGGGTAAAATGGTAATTTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGATGTTT
1 GGGGTAAAATGGTAATTTTGGGAAAGT-TGAGGTCAAAAATGGAATTTTTGGA-ATTC
* *
13244259 GAGGGTAAAATGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAGTCTA
1 G-GGGTAAAATGGTAATTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGGAA-T-TC
* *
13244319 AGGGTAAAATGGTAATATTTGGG-AAGTTTG-GAGTCAAAAATGGAATTTTTAGACATTC
1 GGGGTAAAATGGTAAT-TTTGGGAAAG-TTGAG-GTCAAAAATGGAATTTTTGGA-ATTC
* * * *
13244377 GGGGGTGAAATGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTT
1 -GGGGTAAAATGGTAATTTTGGGAAAG-TTGAGGTCAAAAATGGAATTTTTGGAA-TTC
* * * * *
13244436 GGGCGTAAAATGGTAATTTTTGGCAAGTTTAGGGTGAAAAATGGAATTTTTGGACATTTG
1 GGG-GTAAAATGGTAATTTTGGGAAAGTTGA-GGTCAAAAATGGAATTTTTGGA-A-TTC
* * * * *
13244496 GGGGTAGAATGGTAATTATGGAAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAATTC
1 GGGGTAAAATGGTAATTTTGGGAAAG-TTGAGGTCAAAAATGGAATTTTTGG-AATTC
*
13244554 GAGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
13244573 TGTGAAGTTC
Statistics
Matches: 349, Mismatches: 51, Indels: 54
0.77 0.11 0.12
Matches are distributed among these distances:
53 1 0.00
54 37 0.11
55 9 0.03
58 48 0.14
59 234 0.67
60 20 0.06
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAATTC
Found at i:13244165 original size:28 final size:30
Alignment explanation
Indices: 13244092--13244637 Score: 206
Period size: 30 Copynumber: 18.7 Consensus size: 30
13244082 ATGCCAGGGG
13244092 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAAATGGTAATTTTT-GGAAGTTCGAGGTT
*
13244123 AAAAATGG-AATTTTTGGACA-TTCGGGGTT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* *
13244152 -AAAATGGTAATTTTGGGAAAGTT-TAGG--
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* ** *
13244179 --AAATGG-AATTTTTCGAAGTTTAAGGGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
* *
13244206 -AAAATGGTAATTTTAGGAAAGTAT-GAGGTC
1 AAAAATGGTAATTTTTGG-AAGT-TCGAGGTT
** * * *
13244236 AAAAAT-AAAATTTTTGGATGTTTGAGGGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
* * *
13244265 -AAAATGTTAATTTTGGGAAAGTTCGAGGTC
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* *
13244295 AAAAATGG-AATTTTTGGAAG-TCTAAGGGT
1 AAAAATGGTAATTTTTGGAAGTTC-GAGGTT
* * *
13244324 -AAAATGGTAATATTTGGGAAGTTTG-GAGTC
1 AAAAATGGTAAT-TTTTGGAAGTTCGAG-GTT
* * *
13244354 AAAAATGG-AATTTTTAGACA-TTCGGGGGT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* * * * *
13244383 -GAAATGGTAATTTTGGGAAAGTTTGGGGTC
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* * *
13244413 AAAAATAG-AATTTTTGGAAGTTTG-GGCGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGG-TT
* *
13244442 -AAAATGGTAATTTTTGGCAAGTT-TAGGGTG
1 AAAAATGGTAATTTTTGG-AAGTTCGA-GGTT
* * *
13244472 AAAAATGG-AATTTTTGGACA-TTTGGGGGT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* * * * *
13244501 -AGAATGGTAA-TTATGGAAAAGTTTGGGGTC
1 AAAAATGGTAATTTTTGG--AAGTTCGAGGTT
* *
13244531 AAAAATAG-AATTTTTGGAAATTCGAGG-T
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
*
13244559 -AAAATGGTAATTTTTGTGAAGTTCGA-GTGC
1 AAAAATGGTAATTTTTG-GAAGTTCGAGGT-T
* * * *
13244589 AATAAT-GTAAATTTTGGAAAGTTCAAGGGT
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* *
13244619 CAAAAT-GTAATTCTTGGAA
1 AAAAATGGTAATTTTTGGAA
13244638 AGTTTAAGGG
Statistics
Matches: 384, Mismatches: 82, Indels: 100
0.68 0.14 0.18
Matches are distributed among these distances:
24 5 0.01
25 10 0.03
26 6 0.02
27 6 0.02
28 62 0.16
29 113 0.29
30 125 0.33
31 57 0.15
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (30 bp):
AAAAATGGTAATTTTTGGAAGTTCGAGGTT
Found at i:13244355 original size:118 final size:118
Alignment explanation
Indices: 13244093--13244581 Score: 557
Period size: 118 Copynumber: 4.2 Consensus size: 118
13244083 TGCCAGGGGA
* * * *
13244093 AAAATGGTAATTTTTAGGAAG-TTCGAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* *
13244157 GGTAATTTTGGGAAAGTTT-AGG----AAATGGAATTTTTCGAAGTTTAAGGGT
66 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAG-TTAAGGGT
* * * ** ** * *
13244206 AAAATGGTAATTTTAGGAAAGTAT-GAGGTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * *
13244270 GTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAGTCTAAGGGT
66 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAGT-TAAGGGT
* * *
13244324 AAAATGGTAATATTTGGGAAGTTTGGA-GTCAAAAATGGAATTTTTAGACATTCGGGGGTGAAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* **
13244388 GGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTGGGCGT
66 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAGTTAAGG-GT
* * * * *
13244442 AAAATGGTAATTTTTGGCAAGTTTAG-GGTGAAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * * *
13244506 GGTAATTATGGAAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAATT-CGAGGT
66 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAGTTAAG-GGT
*
13244559 AAAATGGTAATTTTTGTGAAGTT
1 AAAATGGTAATTTTTGGGAAGTT
13244582 CGAGTGCAAT
Statistics
Matches: 318, Mismatches: 47, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
113 67 0.21
114 4 0.01
117 28 0.09
118 217 0.68
119 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (118 bp):
AAAATGGTAATTTTTGGGAAGTTTGGAGGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAGTTAAGGGT
Found at i:13244427 original size:177 final size:172
Alignment explanation
Indices: 13244093--13244572 Score: 517
Period size: 177 Copynumber: 2.7 Consensus size: 172
13244083 TGCCAGGGGA
* *
13244093 AAAATGGTAATTTTTAGGAAGTTCGAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAATG
1 AAAATGGTAA-TTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGGACATTAGGGG-TAAAATG
* * **
13244158 GTAATTTTGGGAAAGTTT--AG---GAAATGGAATTTTTCGAAGTTTAAGGGTAAAATGGTAATT
64 GTAATTTTGGG-AAGTTTGGAGTCAAAAATGGAATTTTTAGAA--TTCGGGGTAAAATGGTAATT
*
13244218 TTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGATGTTTGAGG-GT
126 TTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTTG-GGCGT
* * *
13244265 AAAATGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGA-AGTCTAAGGGTAAAAT
1 AAAATGGTAATTTTAGG-AAGTTCGAGGTCAAAAATGGAATTTTTGGACA-T-TAGGGGTAAAAT
*
13244329 GGTAATATTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTAGACATTCGGGGGTGAAATGGTAAT
63 GGTAAT-TTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTAGA-ATTC-GGGGTAAAATGGTAAT
* * * *
13244394 TTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTGGGCGT
125 TTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTTGGGCGT
* * * * *
13244442 AAAATGGTAATTTTTGGCAAGTT-TAGGGTGAAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAATTTTAGG-AAGTTCGA-GGTCAAAAATGGAATTTTTGGACA-TTAGGGGTAAAAT
* * * * * *
13244506 GGTAATTATGGAAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAATTCGAGGTAAAATGGTAATT
63 GGTAATTTTGG-GAAGTTTGGAGTCAAAAATGGAATTTTTAG-AATTCGGGGTAAAATGGTAATT
13244571 TT
126 TT
13244573 TGTGAAGTTC
Statistics
Matches: 261, Mismatches: 31, Indels: 28
0.82 0.10 0.09
Matches are distributed among these distances:
171 7 0.03
172 57 0.22
173 10 0.04
174 2 0.01
176 26 0.10
177 155 0.59
178 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (172 bp):
AAAATGGTAATTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTGGACATTAGGGGTAAAATGGT
AATTTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTAGAATTCGGGGTAAAATGGTAATTTTAGG
AAAGTATGAGGTCAAAAATAAAATTTTTGGAAGTTTGGGCGT
Found at i:13244602 original size:118 final size:117
Alignment explanation
Indices: 13244093--13244653 Score: 513
Period size: 118 Copynumber: 4.8 Consensus size: 117
13244083 TGCCAGGGGA
* *
13244093 AAAATGGTAATTTTTAGGAAGTTCGAG-GTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAAT
1 AAAATGGTAATTTTT-GGAAGTTCGAGTG-CAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * *
13244157 GGTAATTTTGGGAAAGTTT-AGG----AAATGGAATTTTTCGAAGTTTAAGGGT
64 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAATTCAAGGGT
* ** ** * *
13244206 AAAATGGTAATTTTAGGAAAGTAT-GAG-GTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAA
1 AAAATGGTAATTTTTGG-AAGT-TCGAGTG-CAAAAATGGAATTTTTGGACATTCGGGGGTAAAA
* * * *
13244269 TGTTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGG-AAGTCTAAGGGT
63 TGGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAATTC-AAGGGT
* * * *
13244324 AAAATGGTAATATTTGGGAAGTTTGGAGT-CAAAAATGGAATTTTTAGACATTCGGGGGTGAAAT
1 AAAATGGTAAT-TTTTGGAAG-TTCGAGTGCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * **
13244388 GGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTT-TGGGCGT
64 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAATTCAAGG-GT
* * * *
13244442 AAAATGGTAATTTTTGGCAAGTTTAGGGTG-AAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAATTTTTGG-AAG-TTCGAGTGCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * *
13244506 GGTAATTATGGAAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAATTCGA-GGT
64 GGTAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAATTCAAGGGT
* * * * **
13244559 AAAATGGTAATTTTTGTGAAGTTCGAGTGCAATAATGTAAATTTTGGAAAGTTCAAGGGTCAAAA
1 AAAATGGTAATTTTTG-GAAGTTCGAGTGCAAAAATGGAATTTTTGGACA-TTCGGGGGT-AAAA
*
13244624 T-GTAATTCTT-GGAAAGTTTAAGGGTCAAAA
63 TGGTAATT-TTGGGAAAGTTTGA-GGTCAAAA
13244654 TATGATTTTT
Statistics
Matches: 367, Mismatches: 58, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
112 2 0.01
113 67 0.18
114 4 0.01
116 6 0.02
117 46 0.13
118 218 0.59
119 24 0.07
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGAAGTTCGAGTGCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGG
TAATTTTGGGAAAGTTTGAGGTCAAAAATAGAATTTTTGGAAATTCAAGGGT
Found at i:13244643 original size:177 final size:170
Alignment explanation
Indices: 13244123--13244653 Score: 477
Period size: 177 Copynumber: 3.0 Consensus size: 170
13244113 GTTCGAGGTT
* * *
13244123 AAAAATGGAATTTTTGGACATTCGGGGTTAAAATGGTAATTTTGGGAAAGTTT-AGG----AAAT
1 AAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTT-GGAAAGTTTGGGGTCAAAAAT
* * ** * *
13244183 GGAATTTTTCGAAGTTTAAGGGTAAAATGGTAATTTTAGGAAAGTATGAGGTCAAAAATAAAATT
65 GGAATTTTTAGAAATTCGA-GGTAAAATGGTAATTTTTGGAAAGT-TGAGGTCAAAAATGAAA-T
* * *
13244248 TTTGGATGTTTGAGGGTAAAATGTTAATTTTGGGAAAG-TTCGAGGTC
127 TTTGGAAG-TTAAGGGTAAAATG-TAATTTT-GGAAAGTTTAG-GGTC
* ** * *
13244295 AAAAATGGAATTTTTGGA-AGTCTAAGGGTAAAATGGTAATATTTGGGAAGTTTGGAGTCAAAAA
1 AAAAATGGAATTTTTGGACA-TTTGGGGGTAAAATGGTAAT-TTTGGAAAGTTTGGGGTCAAAAA
* * * * * *
13244359 TGGAATTTTTAGACATTCGGGGGTGAAATGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAAT
64 TGGAATTTTTAGAAATTC-GAGGTAAAATGGTAATTTTTGGAAAG-TTGAGGTCAAAAAT-GAAA
** * *
13244424 TTTTGGAAGTTTGGGCGTAAAATGGTAATTTTTGGCAAGTTTAGGGTG
126 TTTTGGAAGTTAAGG-GTAAAAT-GTAA-TTTTGGAAAGTTTAGGGTC
* *
13244472 AAAAATGGAATTTTTGGACATTTGGGGGTAGAATGGTAATTATGGAAAAGTTTGGGGTCAAAAAT
1 AAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG-AAAGTTTGGGGTCAAAAAT
* * *
13244537 AGAATTTTTGGAAATTCGAGGTAAAATGGTAATTTTTGTG-AAGTTCGA-GTGCAATAATGTAAA
65 GGAATTTTTAGAAATTCGAGGTAAAATGGTAATTTTTG-GAAAGTT-GAGGT-CAAAAATG-AAA
13244600 TTTTGGAAAGTTCAAGGGTCAAAATGTAATTCTTGGAAAGTTTAAGGGTC
126 TTTTGG-AAGTT-AAGGGT-AAAATGTAATT-TTGGAAAGTTT-AGGGTC
13244650 AAAA
1 AAAA
13244654 TATGATTTTT
Statistics
Matches: 289, Mismatches: 45, Indels: 44
0.76 0.12 0.12
Matches are distributed among these distances:
171 1 0.00
172 41 0.14
173 4 0.01
175 5 0.02
176 46 0.16
177 164 0.57
178 28 0.10
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.33
Consensus pattern (170 bp):
AAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGAAAGTTTGGGGTCAAAAATG
GAATTTTTAGAAATTCGAGGTAAAATGGTAATTTTTGGAAAGTTGAGGTCAAAAATGAAATTTTG
GAAGTTAAGGGTAAAATGTAATTTTGGAAAGTTTAGGGTC
Found at i:13244647 original size:30 final size:30
Alignment explanation
Indices: 13244542--13244654 Score: 103
Period size: 30 Copynumber: 3.8 Consensus size: 30
13244532 AAAATAGAAT
* *
13244542 TTTTGGAAA-TTCGA-GGT-AAAATGGTAAT
1 TTTTGGAAAGTTCAAGGGTCAAAAT-GTAAA
* *
13244570 TTTTGTG-AAGTTCGAGTG-CAATAATGTAAA
1 TTTTG-GAAAGTTCAAGGGTCAA-AATGTAAA
13244600 TTTTGGAAAGTTCAAGGGTCAAAATGT-AA
1 TTTTGGAAAGTTCAAGGGTCAAAATGTAAA
*
13244629 TTCTTGGAAAGTTTAAGGGTCAAAAT
1 TT-TTGGAAAGTTCAAGGGTCAAAAT
13244655 ATGATTTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
28 7 0.10
29 11 0.15
30 48 0.67
31 6 0.08
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTTGGAAAGTTCAAGGGTCAAAATGTAAA
Found at i:13245788 original size:3 final size:3
Alignment explanation
Indices: 13245780--13245845 Score: 78
Period size: 3 Copynumber: 21.7 Consensus size: 3
13245770 TTCGACTGCC
* ** * *
13245780 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA AGA ATA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13245828 TTA TTA TTGA TTA TTA TT
1 TTA TTA TT-A TTA TTA TT
13245846 GATACTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:13245987 original size:6 final size:6
Alignment explanation
Indices: 13245960--13246029 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
13245950 GACTTTGTTT
* * *
13245960 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA ATATAA ATTTAA A-ATAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
13246006 ATTT-A ATCTTAA A-ATAA ATTTAA A
1 ATTTAA AT-TTAA ATTTAA ATTTAA A
13246030 ATGGATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 31 0.63
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:13245998 original size:29 final size:28
Alignment explanation
Indices: 13245963--13246031 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13245953 TTTGTTTATT
* *
13245963 TAAATTTAGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
13245992 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
13246020 TAAATTTAAAAT
1 TAAATTTAAAAT
13246032 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:13245999 original size:18 final size:17
Alignment explanation
Indices: 13245960--13246029 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
13245950 GACTTTGTTT
*
13245960 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
*
13245977 TTTTAAATTT-AAAT--
1 ATTTAAATTTAAAATAA
13245991 A--TAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
13246006 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
13246023 ATTTAAA
1 ATTTAAA
13246030 ATGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 1 0.02
16 6 0.14
17 23 0.53
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:13246031 original size:11 final size:12
Alignment explanation
Indices: 13245980--13246011 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
13245970 AGAATAATTT
13245980 TAAATTTAAATA
1 TAAATTTAAATA
13245992 TAAATTTAAA-A
1 TAAATTTAAATA
13246003 TAAATTTAA
1 TAAATTTAA
13246012 TCTTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:13257183 original size:8 final size:8
Alignment explanation
Indices: 13257170--13257233 Score: 50
Period size: 8 Copynumber: 8.2 Consensus size: 8
13257160 TATTATGCGA
13257170 AAATATGC
1 AAATATGC
13257178 AAATATGC
1 AAATATGC
13257186 ---TATGC
1 AAATATGC
13257191 AAAAATATGC
1 --AAATATGC
13257201 AAATATGC
1 AAATATGC
13257209 ---TATGC
1 AAATATGC
13257214 GAAAATATGC
1 --AAATATGC
13257224 AAATATGC
1 AAATATGC
13257232 AA
1 AA
13257234 TGAGAAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 20
0.70 0.00 0.30
Matches are distributed among these distances:
5 10 0.22
8 26 0.57
10 10 0.22
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.25
Consensus pattern (8 bp):
AAATATGC
Found at i:13257191 original size:13 final size:13
Alignment explanation
Indices: 13257173--13257223 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
13257163 TATGCGAAAA
13257173 TATGCAAATATGC
1 TATGCAAATATGC
*
13257186 TATGCAAA-A--A
1 TATGCAAATATGC
13257196 TATGCAAATATGC
1 TATGCAAATATGC
13257209 TATGCGAAAATATGC
1 TATGC--AAATATGC
13257224 AAATATGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 13 0.42
15 8 0.26
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (13 bp):
TATGCAAATATGC
Found at i:13257195 original size:23 final size:23
Alignment explanation
Indices: 13257163--13257247 Score: 134
Period size: 23 Copynumber: 3.7 Consensus size: 23
13257153 TTAGAATTAT
13257163 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
*
13257186 TATGCAAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
13257209 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
* * *
13257232 AATGAGAAAAAATGCA
1 TATGCGAAAATATGCA
13257248 TGTATGTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGC
Found at i:13261254 original size:59 final size:59
Alignment explanation
Indices: 13261182--13261561 Score: 366
Period size: 59 Copynumber: 6.5 Consensus size: 59
13261172 TGCCAGGGGC
* * * *
13261182 AAAATGGTCATTTTTAGG-AAGTTCGAGGTCAAAAATGGAATTTTTAGACATTCGAGGGT
1 AAAATGGT-AATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * **
13261241 AAAATGGTAATTTTGGGAAAGTAT-GGGGTCAAAAATGGAATTTTTGGTAGTTTAAGGGT
1 AAAATGGTAATTTTGGGAAAGT-TCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * *
13261300 AAAATGTTAATTTTGGAAAAGTTCGAGGTCAAAAATAGAATTTTT-GAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTCGAGGGT
* * *
13261359 AAAATGGTATTTTTTGGG-AAGTTC-AGGGTGAAAAATGGAATTTTTGGACATTCG-GGGT
1 AAAATGGTA-ATTTTGGGAAAGTTCGA-GGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
*
13261417 AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTC-AAGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * * * * *
13261475 AAAATGGTAATTTTTGTG-AAGCTCGAGGGCAATAATGTAAATTTTGGAAAGTTCAAGGAT
1 AAAATGGTAA-TTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTCGAGGGT
* *
13261535 CAAAAT-GTAATTTTTGAAAAGTT-GAGG
1 -AAAATGGTAATTTTGGGAAAGTTCGAGG
13261562 GGTCAAAATA
Statistics
Matches: 266, Mismatches: 40, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
57 7 0.03
58 95 0.36
59 138 0.52
60 21 0.08
61 5 0.02
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
Found at i:13261550 original size:30 final size:30
Alignment explanation
Indices: 13261176--13261592 Score: 189
Period size: 30 Copynumber: 14.1 Consensus size: 30
13261166 TTTCGATGCC
* * *
13261176 AGGGGCAAAATGGTCATTTTTAGG-AAGTTCG
1 AGGGTCAAAAT-GTAATTTTT-GGAAAGTTCA
* * * *
13261207 A-GGTCAAAAATGGAATTTTTAGACA-TTCG
1 AGGGTC-AAAATGTAATTTTTGGAAAGTTCA
*
13261236 AGGGT-AAAATGGTAATTTTGGGAAAG-T-A
1 AGGGTCAAAAT-GTAATTTTTGGAAAGTTCA
* * * *
13261264 TGGGGTCAAAAATGGAATTTTTGG-TAGTTTA
1 -AGGGTC-AAAATGTAATTTTTGGAAAGTTCA
*
13261295 AGGGT-AAAATGTTAA-TTTTGGAAAAGTTCG
1 AGGGTCAAAATG-TAATTTTTGG-AAAGTTCA
**
13261325 A-GGTCAAAAATAG-AATTTTT-GAAAGTTTG
1 AGGGTC-AAAAT-GTAATTTTTGGAAAGTTCA
* * *
13261354 GGGGT-AAAATGGTATTTTTTGGGAAGTTC-
1 AGGGTCAAAAT-GTAATTTTTGGAAAGTTCA
* * *
13261383 AGGGTGAAAAATGGAATTTTTGGACA-TTC-
1 AGGGT-CAAAATGTAATTTTTGGAAAGTTCA
* * *
13261412 GGGGT-AAAATGGTAATTTTGGGAAAGTTCG
1 AGGGTCAAAAT-GTAATTTTTGGAAAGTTCA
*
13261442 A-GGTCAAAAATGGAATTTTTGGAAA-TTCA
1 AGGGTC-AAAATGTAATTTTTGGAAAGTTCA
* *
13261471 A-GGT-AAAATGGTAATTTTTGTG-AAGCTCG
1 AGGGTCAAAAT-GTAATTTTTG-GAAAGTTCA
*
13261500 AGGG-CAATAATGTAAATTTTGGAAAGTTCA
1 AGGGTCAA-AATGTAATTTTTGGAAAGTTCA
* * *
13261530 AGGATCAAAATGTAATTTTTGAAAAGTTGA
1 AGGGTCAAAATGTAATTTTTGGAAAGTTCA
* * * *
13261560 GGGGTCAAAATATGATTTTT-AAACAGTTCA
1 AGGGTCAAAATGTAATTTTTGGAA-AGTTCA
13261590 AGG
1 AGG
13261593 ACCTTTTAGG
Statistics
Matches: 296, Mismatches: 54, Indels: 73
0.70 0.13 0.17
Matches are distributed among these distances:
27 10 0.03
28 45 0.15
29 73 0.25
30 130 0.44
31 37 0.12
32 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (30 bp):
AGGGTCAAAATGTAATTTTTGGAAAGTTCA
Found at i:13265314 original size:17 final size:18
Alignment explanation
Indices: 13265271--13265315 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
13265261 GATCGGGCCC
*
13265271 TTTTAAATTTATTTTAAA
1 TTTTGAATTTATTTTAAA
13265289 TTTTG-ATTTATTTTAAA
1 TTTTGAATTTATTTTAAA
13265306 -TTTGAATTTA
1 TTTTGAATTTA
13265316 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTGAATTTATTTTAAA
Found at i:13267263 original size:29 final size:30
Alignment explanation
Indices: 13267199--13267280 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
13267189 CATCGAAACT
* * *
13267199 TCTAAAATTTACATTTTTA-CCCCTAACAT
1 TCTAAAAATTACATTTTTACCCCCGAACAA
*
13267228 TCCAAAAATTACATTTTTACCCCCGAA-AA
1 TCTAAAAATTACATTTTTACCCCCGAACAA
**
13267257 TCTAAAAATCCCATTTTTGACCCC
1 TCTAAAAATTACATTTTT-ACCCC
13267281 AAAACTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 33 0.75
30 11 0.25
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (30 bp):
TCTAAAAATTACATTTTTACCCCCGAACAA
Found at i:13267305 original size:59 final size:58
Alignment explanation
Indices: 13267230--13267422 Score: 185
Period size: 59 Copynumber: 3.3 Consensus size: 58
13267220 CCTAACATTC
* ** *
13267230 CAAAAATTA-CATTTTTACCCCCGAAAATCTAAAAATCCCATTTTTGACCCCAAAACTTT
1 CAAAAATTACCA-TTTTACCCTCGAATGTCTAAAAAT-CCATTTTTGACCCCAAAATTTT
* * * * * * *
13267289 CAAAAATTACCGTTTTACTCTCGGATGTCCAAAAAATCCATTTTTGATCCC-GATTTTT
1 CAAAAATTACCATTTTACCCTCGAATGT-CTAAAAATCCATTTTTGACCCCAAAATTTT
* *
13267347 CCAAAAATTACCATTTTACCCTCGAATGTCT-AAAATGTCATTTTTAACCCCAAAATTTTT
1 -CAAAAATTACCATTTTACCCTCGAATGTCTAAAAAT-CCATTTTTGACCCCAAAA-TTTT
*
13267407 CCAAAATTACCATTTT
1 CAAAAATTACCATTTT
13267423 GCCTCCGAGA
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
57 5 0.05
58 16 0.15
59 74 0.69
60 12 0.11
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCTCGAATGTCTAAAAATCCATTTTTGACCCCAAAATTTT
Found at i:13267470 original size:29 final size:29
Alignment explanation
Indices: 13267409--13267470 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
13267399 AAATTTTTCC
* *
13267409 AAAATTACCATTTTGCCTCCGAGAGTCCC
1 AAAATTACCATTTTCCCTCCGAGAGTCCA
13267438 AAAATTACCATTTTACCCT-CGAGTA-TCCA
1 AAAATTACCATTTT-CCCTCCGAG-AGTCCA
13267467 AAAA
1 AAAA
13267471 GTCTCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (29 bp):
AAAATTACCATTTTCCCTCCGAGAGTCCA
Found at i:13267851 original size:95 final size:96
Alignment explanation
Indices: 13267688--13267877 Score: 251
Period size: 95 Copynumber: 2.0 Consensus size: 96
13267678 AAACTTTAAT
* * **
13267688 ATCGAGGCAATATTCTTTTATTTCGAGTTTCAAAAAGTTGTGCCTTAACTTACTAGGTGCAATTT
1 ATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAAGTTGCGCCTTAACTTACTAGGTGCAACCT
*
13267753 TTCTTCAAATCAAAATAATCGAATATCCTTA
66 TTCTTCAAATCAAAATAATCGAACATCCTTA
* * *
13267784 ATCGAGGCAATGTT-TCCTTATCTTCGA-TTTC-AAAATTTGCGCCTTAACTTACTAGGTTCAAC
1 ATCGAGGCAATATTCT-CTTAT-TTCGAGTTTCAAAAAGTTGCGCCTTAACTTACTAGGTGCAAC
* *
13267846 CTTTCTTCAAATCGAGATAATCGAACATCCTT
64 CTTTCTTCAAATCAAAATAATCGAACATCCTT
13267878 TTCCAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
95 56 0.68
96 21 0.26
97 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (96 bp):
ATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAAGTTGCGCCTTAACTTACTAGGTGCAACCT
TTCTTCAAATCAAAATAATCGAACATCCTTA
Found at i:13273523 original size:49 final size:48
Alignment explanation
Indices: 13273382--13273587 Score: 155
Period size: 49 Copynumber: 4.1 Consensus size: 48
13273372 AGATTTGACT
* * ** * *
13273382 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAGATACA-AAA
1 GGGAAAGATCTAAG-CCGCGA-GACGGATCCAGTACTACGAAG--ACATGAA
** *
13273433 GGGAAAGATCTAAAGCCGTAACGGCGGATCCAGTA-TCACGAAGACATGAA
1 GGGAAAGATCT-AAGCCGCGA-GACGGATCCAGTACT-ACGAAGACATGAA
* *
13273483 GGGAAAGATCTAAGCCGCGATGACGGACCCAGTACTACGAAGACAGGAA
1 GGGAAAGATCTAAGCCGCGA-GACGGATCCAGTACTACGAAGACATGAA
* * * * * **
13273532 GAGAAAGATCTAAGCTGCGACAGCAGATCCAGTACCACGAAGATTTGAA
1 GGGAAAGATCTAAGCCGCGAGA-CGGATCCAGTACTACGAAGACATGAA
13273581 GGGAAAG
1 GGGAAAG
13273588 GTTTAAGTCG
Statistics
Matches: 129, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 77 0.60
50 14 0.11
51 34 0.26
52 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.28, T:0.12
Consensus pattern (48 bp):
GGGAAAGATCTAAGCCGCGAGACGGATCCAGTACTACGAAGACATGAA
Found at i:13274484 original size:205 final size:205
Alignment explanation
Indices: 13273977--13274973 Score: 1372
Period size: 205 Copynumber: 4.9 Consensus size: 205
13273967 TACCAACTCA
* * * * * * *
13273977 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTGAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
*
13274042 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * * * * *
13274107 AAGCGAATTGAAACAAGTGAGGCGGTCACCTT-CTGATGAGATACAGAGAAGTATACCAACTC--
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAA
* *
13274169 A---AGGCTCA
195 ACCCACGCTCG
* * * *
13274177 AAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * *
13274242 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAGGTATAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
*
13274307 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAA
13274372 ACCCACGCTCG
195 ACCCACGCTCG
*
13274383 ATGTGAGCAAATCTTCGAACCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
* * *
13274448 TGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGGTACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
*
13274513 AGC-GATTGAAACAAGCGATGCGGTCA-CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
131 AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAA
13274576 CCCACGCTCG
196 CCCACGCTCG
13274586 ATGTGAGCAAATCTTCGAACCCAGC-TCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
13274650 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCCGTCTTCCTGATGAGATACAGAG
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATT-CGTCTTCCTGATGAGATACAGAG
* * * * *
13274715 AAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATA-AGAGAAGAACACCAAATCAG
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAA
*
13274779 ACCAACGCTCG
195 ACCCACGCTCG
* ** * *
13274790 ATGTGAGCAAAATCTTCAAACCCTTAGCTTTTTGATGAGATATTGAGAAGCAGGTCAAAGCAATA
1 ATGTGAGC-AAATCTTCGAACCC--AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
* * * * * *
13274855 AAGTGGTTA-CTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAG
63 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
* * * * * *
13274919 AG-AGTGGA-TCAAAAAAGTGATGTGGTCATCTTCCTTATGAGATACAGAGAAGAAG
128 AGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAG
13274974 TCCAGTCAAT
Statistics
Matches: 718, Mismatches: 64, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
199 3 0.00
200 139 0.19
201 26 0.04
202 78 0.11
203 98 0.14
204 109 0.15
205 144 0.20
206 47 0.07
207 34 0.05
208 40 0.06
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (205 bp):
ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAA
CCCACGCTCG
Found at i:13274775 original size:407 final size:405
Alignment explanation
Indices: 13273977--13274973 Score: 1371
Period size: 407 Copynumber: 2.5 Consensus size: 405
13273967 TACCAACTCA
* * * * * * *
13273977 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTGAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
*
13274042 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * *
13274107 AAGCGAATTGAAACAAGTGAGGCGGTCACCTT-CTGATGAGATACAGAGAAGTATACCAACTCAA
130 AAGCG-ATTGAAACAAGTGATGCGGTCACCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAA
*
13274171 GGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGC
194 CGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGC
*
13274236 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAGGT
259 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAGAT
* * * * * *
13274301 ATAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
324 ACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCA
*
13274366 AATCAAACCCACGCTCG
389 AATCAAACCAACGCTCG
*
13274383 ATGTGAGCAAATCTTCGAACCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
* * *
13274448 TGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGGTACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* *
13274513 AGCGATTGAAACAAGCGATGCGGTCA-CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
131 AGCGATTGAAACAAGTGATGCGGTCACCTTCCTGATGAGATACAGAGAAGAAGACCAAATC--A-
* * * * *
13274577 CCACGCTCGATGTGAGCAAATCTTCGAACCC-AGC-TCCTGATGAGATACTGAGAAGCAGGTCGA
193 --ACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGA
*
13274640 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCCGTCTTCCTGATG
256 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATT-CGACTTCCTGATG
13274705 AGATACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATA-AGAGAAGAAC
320 AGATACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAC
*
13274769 ACCAAATCAGACCAACGCTCG
385 ACCAAATCAAACCAACGCTCG
* ** * *
13274790 ATGTGAGCAAAATCTTCAAACCCTTAGCTTTTTGATGAGATATTGAGAAGCAGGTCAAAGCAATA
1 ATGTGAGC-AAATCTTCGAACCC--AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
* * * * * *
13274855 AAGTGGTTA-CTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAG
63 AAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
* * * * * *
13274919 AG-AGTGGA-TCAAAAAAGTGATGTGGTCATCTTCCTTATGAGATACAGAGAAGAAG
128 AGAAG-CGATTGAAACAAGTGATGCGGTCACCTTCCTGATGAGATACAGAGAAGAAG
13274974 TCCAGTCAAT
Statistics
Matches: 523, Mismatches: 56, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
403 3 0.01
404 46 0.09
405 106 0.20
406 17 0.03
407 113 0.22
408 94 0.18
409 101 0.19
410 43 0.08
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (405 bp):
ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGATTGAAACAAGTGATGCGGTCACCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAACG
CTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGCAA
TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAGATAC
AGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAAA
TCAAACCAACGCTCG
Found at i:13275322 original size:21 final size:23
Alignment explanation
Indices: 13275296--13275341 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
13275286 TTTTATTTTA
* *
13275296 AATTTAGATTTATTTT-AAA-TT
1 AATTTAAATTAATTTTCAAAGTT
13275317 AATTTAAATTAATTTTCAAAGTT
1 AATTTAAATTAATTTTCAAAGTT
13275340 AA
1 AA
13275342 AAAAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 3 0.14
23 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTTAAATTAATTTTCAAAGTT
Found at i:13277761 original size:30 final size:31
Alignment explanation
Indices: 13277718--13278019 Score: 119
Period size: 28 Copynumber: 10.5 Consensus size: 31
13277708 TGCCAGGGGC
*
13277718 AAAATGGTCATTTTTAGGAAGTTCGA-GGTCA
1 AAAATGGTAATTTTTAGGAAGTTCGAGGGT-A
13277749 AAAATGG-AATTTTTA-GACA-TTCGAGGGT-
1 AAAATGGTAATTTTTAGGA-AGTTCGAGGGTA
*
13277777 AAAATGGTAATTTTT-GGAAAAGTT-TAGGGTA
1 AAAATGGTAATTTTTAGG--AAGTTCGAGGGTA
* **
13277808 AAAATGG-AA-TTTT-GGTAGTTTAAGGGT-
1 AAAATGGTAATTTTTAGGAAGTTCGAGGGTA
* *
13277835 TAAATGGTAA-TTTT-GGAAAGTAT--TGGGTAA
1 AAAATGGTAATTTTTAGG-AAGT-TCGAGGGT-A
** *
13277865 AAAAT-AAAATTTTT-GGATGTTC--GGGT-
1 AAAATGGTAATTTTTAGGAAGTTCGAGGGTA
* * *
13277891 AAAATGCTAA-TTTTGGGAAAGTTCGA-GGTC
1 AAAATGGTAATTTTTAGG-AAGTTCGAGGGTA
* * * *
13277921 AAAATAG-AATTTTT-GAAAGTTTGGGGGT-
1 AAAATGGTAATTTTTAGGAAGTTCGAGGGTA
* *
13277949 AAAATGGTATTTTTTTGGAAGTTC-A-GGTGA
1 AAAATGGTAATTTTTAGGAAGTTCGAGGGT-A
13277979 AAAATGG-AATTTTT-GGACA-TTCG-GGGT-
1 AAAATGGTAATTTTTAGGA-AGTTCGAGGGTA
13278006 AAAATGGTAATTTT
1 AAAATGGTAATTTT
13278020 GGGAAAGTTC
Statistics
Matches: 214, Mismatches: 25, Indels: 67
0.70 0.08 0.22
Matches are distributed among these distances:
26 9 0.04
27 21 0.10
28 61 0.29
29 54 0.25
30 52 0.24
31 17 0.08
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.35
Consensus pattern (31 bp):
AAAATGGTAATTTTTAGGAAGTTCGAGGGTA
Found at i:13277846 original size:28 final size:28
Alignment explanation
Indices: 13277772--13278028 Score: 131
Period size: 28 Copynumber: 9.0 Consensus size: 28
13277762 TAGACATTCG
13277772 AGGGTAAAATGGTAATTTTTGGAAAAGTTT
1 AGGGTAAAATGGTAA-TTTTGG-AAAGTTT
*
13277802 AGGGTAAAAATGG-AATTTTGG-TAGTTT
1 AGGGT-AAAATGGTAATTTTGGAAAGTTT
*
13277829 AAGGGTTAAATGGTAATTTTGGAAAGTATT
1 -AGGGTAAAATGGTAATTTTGGAAAGT-TT
** *
13277859 -GGGTAAAAAAT-AAAATTTTTGG-ATG-TT
1 AGGGT--AAAATGGTAA-TTTTGGAAAGTTT
* *
13277886 CGGGTAAAATGCTAATTTTGGGAAAG-TT
1 AGGGTAAAATGGTAATTTT-GGAAAGTTT
* * *
13277914 CGAGGTCAAAATAG-AATTTTTGAAAGTTT
1 AG-GGT-AAAATGGTAATTTTGGAAAGTTT
* * *
13277943 GGGGGTAAAATGGTATTTTTTTGG-AAGTTC
1 -AGGGTAAAATGGTA--ATTTTGGAAAGTTT
* * *
13277973 AGGTGAAAAATGG-AATTTTTGGACA-TTC
1 AGG-GTAAAATGGTAA-TTTTGGAAAGTTT
*
13278001 GGGGTAAAATGGTAATTTTGGGAAAGTT
1 AGGGTAAAATGGTAATTTT-GGAAAGTT
13278029 CAAAATGGAA
Statistics
Matches: 177, Mismatches: 25, Indels: 51
0.70 0.10 0.20
Matches are distributed among these distances:
26 9 0.05
27 29 0.16
28 55 0.31
29 34 0.19
30 38 0.21
31 12 0.07
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (28 bp):
AGGGTAAAATGGTAATTTTGGAAAGTTT
Found at i:13277911 original size:57 final size:55
Alignment explanation
Indices: 13277718--13278070 Score: 233
Period size: 58 Copynumber: 6.3 Consensus size: 55
13277708 TGCCAGGGGC
* * * *
13277718 AAAATGGTCATTTTTAGG-AAGTTCGAGGTCAAAAATGGAATTTTTAGACA-TTCGAGGGT
1 AAAATGGT-AATTTTGGGAAAGTTCG-GGT-AAAAATAGAATTTTTGGA-AGTTC--GGGT
* * * * *
13277777 AAAATGGTAATTTTTGGAAAAGTTTAGGGTAAAAATGGAA-TTTTGGTAGTTTAAGGGT
1 AAAATGGTAA-TTTTGGGAAAG-TTCGGGTAAAAATAGAATTTTTGGAAG-TT-CGGGT
* * * *
13277835 TAAATGGTAATTTT-GGAAAGTATTGGGTAAAAAATAAAATTTTTGGATGTTCGGGT
1 AAAATGGTAATTTTGGGAAAGT-TCGGGT-AAAAATAGAATTTTTGGAAGTTCGGGT
* * * *
13277891 AAAATGCTAATTTTGGGAAAGTTCGAGGTCAAAATAGAATTTTTGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGGAAAGTTCG-GGTAAAAATAGAATTTTTGGAAG-TT-CGGGT
* * * *
13277949 AAAATGGTATTTTTTTGG-AAGTTCAGGTGAAAAATGGAATTTTTGGACA-TTCGGGGT
1 AAAATGGTA-ATTTTGGGAAAGTTCGGGT-AAAAATAGAATTTTTGGA-AGTTC-GGGT
* * *
13278006 AAAATGGTAATTTTGGGAAAGTTC-----AAAATGGAATTTTTGGAAATTCAAGGT
1 AAAATGGTAATTTTGGGAAAGTTCGGGTAAAAATAGAATTTTTGGAAGTTC-GGGT
13278057 AAAATGGTAATTTT
1 AAAATGGTAATTTT
13278071 TGTGAAGCTC
Statistics
Matches: 240, Mismatches: 35, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
50 1 0.00
51 37 0.15
55 1 0.00
56 50 0.21
57 51 0.21
58 59 0.25
59 32 0.13
60 6 0.03
61 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (55 bp):
AAAATGGTAATTTTGGGAAAGTTCGGGTAAAAATAGAATTTTTGGAAGTTCGGGT
Found at i:13277935 original size:114 final size:114
Alignment explanation
Indices: 13277718--13278029 Score: 310
Period size: 114 Copynumber: 2.7 Consensus size: 114
13277708 TGCCAGGGGC
* ** *
13277718 AAAATGGTCAT-TTTTAGGAAGTTCGAGGTCAAAAATGGAATTTTTAGACATTCGAGGGTAAAAT
1 AAAATGGT-ATATTTT-GGAAGTTC-AGGTAAAAAATAAAATTTTTGGACATTCG-GGGTAAAAT
* * * **
13277782 GGTAATTTTTGGAAAAGTT-TAGGGTAAAAATGGAATTTTGGTAGTTTAAGGGT
62 GGTAA-TTTTGGGAAAGTTCGAGGGTAAAAATAGAATTTTGAAAGTTTAAGGGT
* ** ** *
13277835 TAAATGGTA-ATTTTGGAAAGTATTGGGTAAAAAATAAAATTTTTGGATGTTC-GGGTAAAATGC
1 AAAATGGTATATTTTGG-AAGT-TCAGGTAAAAAATAAAATTTTTGGACATTCGGGGTAAAATGG
* **
13277898 TAATTTTGGGAAAGTTCGA-GGTCAAAATAGAATTTTTGAAAGTTTGGGGGT
64 TAATTTTGGGAAAGTTCGAGGGTAAAAATAGAA-TTTTGAAAGTTTAAGGGT
* * **
13277949 AAAATGGTATTTTTTTGGAAGTTCAGGTGAAAAATGGAATTTTTGGACATTCGGGGTAAAATGGT
1 AAAATGGTA-TATTTTGGAAGTTCAGGTAAAAAATAAAATTTTTGGACATTCGGGGTAAAATGGT
13278014 AATTTTGGGAAAGTTC
65 AATTTTGGGAAAGTTC
13278030 AAAATGGAAT
Statistics
Matches: 159, Mismatches: 28, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
113 23 0.14
114 59 0.37
115 33 0.21
116 36 0.23
117 8 0.05
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (114 bp):
AAAATGGTATATTTTGGAAGTTCAGGTAAAAAATAAAATTTTTGGACATTCGGGGTAAAATGGTA
ATTTTGGGAAAGTTCGAGGGTAAAAATAGAATTTTGAAAGTTTAAGGGT
Found at i:13277971 original size:58 final size:57
Alignment explanation
Indices: 13277713--13278072 Score: 226
Period size: 57 Copynumber: 6.4 Consensus size: 57
13277703 TTCGATGCCA
* * * * * *
13277713 GGGGCAAAATGGTCATTTTTAGG-AAGTTCGAGGTCAAAAATGGAATTTTTAGACATTC
1 GGGGTAAAATGGT-ATTTTTGGGAAAGTTC-AGGTGAAAAATAGAATTTTTGGAAATTC
* * * ** *
13277771 GAGGGTAAAATGGTAATTTTTGGAAAAGTTTAGG-GTAAAAATGGAA-TTTTGGTAGTTTA
1 G-GGGTAAAATGGT-ATTTTTGGGAAAGTTCAGGTG-AAAAATAGAATTTTTGG-AAATTC
* * * ** * * **
13277830 AGGGTTAAATGGTAATTTT-GGAAAGTATTGGGTAAAAAATAAAATTTTTGGATGTTC
1 GGGGTAAAATGGTATTTTTGGGAAAGT-TCAGGTGAAAAATAGAATTTTTGGAAATTC
* * * *
13277887 -GGGTAAAATGCTAATTTTGGGAAAGTTCGAGGT-CAAAATAGAATTTTT-GAAAGTTTG
1 GGGGTAAAATGGTATTTTTGGGAAAGTTC-AGGTGAAAAATAGAATTTTTGGAAA--TTC
* * *
13277944 GGGGTAAAATGGTATTTTTTTGG-AAGTTCAGGTGAAAAATGGAATTTTTGGACATTC
1 GGGGTAAAATGGTA-TTTTTGGGAAAGTTCAGGTGAAAAATAGAATTTTTGGAAATTC
* *
13278001 GGGGTAAAATGGTAATTTTGGGAAAGTTC------AAAATGGAATTTTTGGAAATTC
1 GGGGTAAAATGGTATTTTTGGGAAAGTTCAGGTGAAAAATAGAATTTTTGGAAATTC
**
13278052 AAGGTAAAATGGTAATTTTTG
1 GGGGTAAAATGGT-ATTTTTG
13278073 TGAAGCTCGA
Statistics
Matches: 242, Mismatches: 43, Indels: 40
0.74 0.13 0.12
Matches are distributed among these distances:
51 32 0.13
52 6 0.02
55 2 0.01
56 42 0.17
57 58 0.24
58 54 0.22
59 43 0.18
60 5 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (57 bp):
GGGGTAAAATGGTATTTTTGGGAAAGTTCAGGTGAAAAATAGAATTTTTGGAAATTC
Found at i:13278043 original size:24 final size:22
Alignment explanation
Indices: 13278006--13278053 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
13277996 CATTCGGGGT
13278006 AAAATGGTAATTTTGGGAAAGTTC
1 AAAATGGTAATTTT-GGAAA-TTC
13278030 AAAATGG-AATTTTTGGAAATTC
1 AAAATGGTAA-TTTTGGAAATTC
13278052 AA
1 AA
13278054 GGTAAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 7 0.30
24 11 0.48
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (22 bp):
AAAATGGTAATTTTGGAAATTC
Found at i:13278047 original size:23 final size:23
Alignment explanation
Indices: 13278006--13278053 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
13277996 CATTCGGGGT
13278006 AAAATGGTAATTTTGGGAAAGTTC
1 AAAATGGTAATTTTGGGAAA-TTC
*
13278030 AAAATGG-AATTTTTGGAAATTC
1 AAAATGGTAATTTTGGGAAATTC
13278052 AA
1 AA
13278054 GGTAAAATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 11 0.48
24 7 0.30
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (23 bp):
AAAATGGTAATTTTGGGAAATTC
Found at i:13278124 original size:30 final size:29
Alignment explanation
Indices: 13277717--13278174 Score: 126
Period size: 30 Copynumber: 16.0 Consensus size: 29
13277707 ATGCCAGGGG
* *
13277717 CAAAATGGTCATTTTTAGG-AAGTTCGAGGT
1 CAAAAT-GTAATTTTT-GGAAAGTTCAAGGT
* * * *
13277747 CAAAAATGGAATTTTTAGACA-TTCGAGGGT
1 C-AAAATGTAATTTTTGGAAAGTTC-AAGGT
* *
13277777 -AAAATGGTAATTTTTGGAAAAGTTTAGGGT
1 CAAAAT-GTAATTTTTGG-AAAGTTCAAGGT
* * * *
13277807 AAAAATGGAA-TTTTGG-TAGTTTAAGGGT
1 CAAAATGTAATTTTTGGAAAGTTCAA-GGT
* **
13277835 -TAAATGGTAA-TTTTGGAAAGTAT-TGGGT
1 CAAAAT-GTAATTTTTGGAAAGT-TCAAGGT
* ** * *
13277863 AAAAAATAAAATTTTTGG-ATGTTC-GGGT
1 -CAAAATGTAATTTTTGGAAAGTTCAAGGT
* *
13277891 -AAAATGCTAATTTTGGGAAAGTTCGAGGT
1 CAAAATG-TAATTTTTGGAAAGTTCAAGGT
***
13277920 CAAAATAG-AATTTTT-GAAAGTTTGGGGGT
1 CAAAAT-GTAATTTTTGGAAAG-TTCAAGGT
*
13277949 -AAAATGGTATTTTTTTGG-AAGTTC-AGGT
1 CAAAAT-GTA-ATTTTTGGAAAGTTCAAGGT
* * * **
13277977 GAAAAATGGAATTTTTGGACA-TTCGGGGT
1 -CAAAATGTAATTTTTGGAAAGTTCAAGGT
*
13278006 -AAAATGGTAATTTTGGGAAAG-T-----T
1 CAAAAT-GTAATTTTTGGAAAGTTCAAGGT
*
13278029 CAAAATGGAATTTTTGGAAA-TTCAAGGT
1 CAAAATGTAATTTTTGGAAAGTTCAAGGT
* * *
13278057 -AAAATGGTAATTTTTGTG-AAGCTCGAGGG
1 CAAAAT-GTAATTTTTG-GAAAGTTCAAGGT
*
13278086 CAATAATGTAAATTTTGGAAAGTTCAAGGAT
1 CAA-AATGTAATTTTTGGAAAGTTCAAGG-T
* * *
13278117 CAAAATGTAATTTTTGAAAAGTTGAGGGGT
1 CAAAATGTAATTTTTGGAAAGTTCA-AGGT
* * *
13278147 CAAAATATGATTTTT-AAACAGTTCAAGG
1 CAAAATGTAATTTTTGGAA-AGTTCAAGG
13278175 ACCTTTTAGG
Statistics
Matches: 323, Mismatches: 59, Indels: 93
0.68 0.12 0.20
Matches are distributed among these distances:
23 14 0.04
24 5 0.02
26 5 0.02
27 28 0.09
28 78 0.24
29 63 0.20
30 108 0.33
31 22 0.07
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
CAAAATGTAATTTTTGGAAAGTTCAAGGT
Found at i:13281920 original size:6 final size:6
Alignment explanation
Indices: 13281900--13281969 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
13281890 ATCGGGCCCT
* * * *
13281900 TTTAAA TTT-AT TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
13281946 TTTAAA TTT-AT TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTT-AAA TTTAAA
13281970 AAAAAAAACA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
5 11 0.22
6 35 0.70
7 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:13281925 original size:17 final size:17
Alignment explanation
Indices: 13281900--13281969 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 17
13281890 ATCGGGCCCT
13281900 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13281917 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13281934 TTT-GA---A-TTTAAA
1 TTTAAATTTATTTTAAA
13281946 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
13281964 TTTAAA
1 TTTAAA
13281970 AAAAAAAACA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.20
13 2 0.04
16 3 0.07
17 22 0.49
18 9 0.20
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13283893 original size:29 final size:30
Alignment explanation
Indices: 13283829--13283910 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
13283819 CATCGAAACT
* * *
13283829 TCTAAAATTTACATTTTTA-CCCCTAACAT
1 TCTAAAAATTACATTTTTACCCCCGAACAA
*
13283858 TCCAAAAATTACATTTTTACCCCCGAA-AA
1 TCTAAAAATTACATTTTTACCCCCGAACAA
**
13283887 TCTAAAAATCCCATTTTTGACCCC
1 TCTAAAAATTACATTTTT-ACCCC
13283911 AAAACTTTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 33 0.75
30 11 0.25
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (30 bp):
TCTAAAAATTACATTTTTACCCCCGAACAA
Found at i:13283935 original size:59 final size:58
Alignment explanation
Indices: 13283860--13284060 Score: 183
Period size: 59 Copynumber: 3.4 Consensus size: 58
13283850 CCTAACATTC
** *
13283860 CAAAAATTA-CATTTTTACCCCCGAAAATCTAAAAATCCCATTTTTGACCCCAAAACTTT
1 CAAAAATTACCA-TTTTACCCCCGAATGTCTAAAAAT-CCATTTTTGACCCCAAAATTTT
* * * * * * * *
13283919 CAAAAATTACCGTTTTACTCTCGGATGTCCAAAAAATCCATTTTTGATCCC-GATTTTT
1 CAAAAATTACCATTTTACCCCCGAATGT-CTAAAAATCCATTTTTGACCCCAAAATTTT
* * *
13283977 CCAAAAATTACCATTTTACCCTCGAATGTCT-AAAATGTCATTTTTAACCCCAAAATTTTT
1 -CAAAAATTACCATTTTACCCCCGAATGTCTAAAAAT-CCATTTTTGACCCCAAAA-TTTT
* *
13284037 CCAAAATTACCATTTTACCTCCGA
1 CAAAAATTACCATTTTACCCCCGA
13284061 GAGTCCCAAA
Statistics
Matches: 113, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
57 5 0.04
58 16 0.14
59 80 0.71
60 12 0.11
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAATGTCTAAAAATCCATTTTTGACCCCAAAATTTT
Found at i:13284100 original size:29 final size:29
Alignment explanation
Indices: 13284039--13284100 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
13284029 AAATTTTTCC
*
13284039 AAAATTACCATTTTACCTCCGAGAGTCCC
1 AAAATTACCATTTTACCTCCGAGAGTCCA
13284068 AAAATTACCATTTTACC-CTCGAGTA-TCCA
1 AAAATTACCATTTTACCTC-CGAG-AGTCCA
13284097 AAAA
1 AAAA
13284101 GTCTCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (29 bp):
AAAATTACCATTTTACCTCCGAGAGTCCA
Found at i:13284481 original size:95 final size:96
Alignment explanation
Indices: 13284318--13284507 Score: 251
Period size: 95 Copynumber: 2.0 Consensus size: 96
13284308 AAACTTTAAT
* * **
13284318 ATCGAGGCAATATTCTTTTATTTCGAGTTTCAAAAAGTTGTGCCTTAACTTACTAGGTGCAATTT
1 ATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAAGTTGCGCCTTAACTTACTAGGTGCAACCT
*
13284383 TTCTTCAAATCAAAATAATCGAATATCCTTA
66 TTCTTCAAATCAAAATAATCGAACATCCTTA
* * *
13284414 ATCGAGGCAATGTT-TCCTTATCTTCGA-TTTC-AAAATTTGCGCCTTAACTTACTAGGTTCAAC
1 ATCGAGGCAATATTCT-CTTAT-TTCGAGTTTCAAAAAGTTGCGCCTTAACTTACTAGGTGCAAC
* *
13284476 CTTTCTTCAAATCGAGATAATCGAACATCCTT
64 CTTTCTTCAAATCAAAATAATCGAACATCCTT
13284508 TTCCAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
95 56 0.68
96 21 0.26
97 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (96 bp):
ATCGAGGCAATATTCTCTTATTTCGAGTTTCAAAAAGTTGCGCCTTAACTTACTAGGTGCAACCT
TTCTTCAAATCAAAATAATCGAACATCCTTA
Found at i:13290079 original size:51 final size:50
Alignment explanation
Indices: 13290003--13290116 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 50
13289993 AGATTTGACT
* *
13290003 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCAAAGATACA-AAA
1 GGGAAAGATCTAAAACCGCAACGGCGGATCCAGTATCACAAAG--ACATAAA
* * *
13290054 GGGAAAGATCTAAAACCGTAACGGCGGATCCAGTATCACGAAGACATGAA
1 GGGAAAGATCTAAAACCGCAACGGCGGATCCAGTATCACAAAGACATAAA
13290104 GGGAAAGATCTAA
1 GGGAAAGATCTAA
13290117 GCCGCGATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
49 3 0.05
50 15 0.26
51 39 0.68
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.13
Consensus pattern (50 bp):
GGGAAAGATCTAAAACCGCAACGGCGGATCCAGTATCACAAAGACATAAA
Found at i:13290148 original size:49 final size:49
Alignment explanation
Indices: 13290003--13290208 Score: 161
Period size: 49 Copynumber: 4.1 Consensus size: 49
13289993 AGATTTGACT
* * *
13290003 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTA-T-CGCAAAGATACA-AAA
1 GGGAAAGATCTAAG-CCGCGACAGCGGATCCAGTACTACG--AAG--ACATGAA
* ** *
13290054 GGGAAAGATCTAAAACCGTAACGGCGGATCCAGTA-TCACGAAGACATGAA
1 GGGAAAGATCT-AAGCCGCGACAGCGGATCCAGTACT-ACGAAGACATGAA
* * *
13290104 GGGAAAGATCTAAGCCGCGA-TGACGGACCCAGTACTACGAAGACAGGAA
1 GGGAAAGATCTAAGCCGCGACAG-CGGATCCAGTACTACGAAGACATGAA
* * * * **
13290153 GAGAAAGATCTAAGCTGCGACAGCAGATCCAGTACCACGAAGATTTGAA
1 GGGAAAGATCTAAGCCGCGACAGCGGATCCAGTACTACGAAGACATGAA
13290202 GGGAAAG
1 GGGAAAG
13290209 GTTTAAGTCG
Statistics
Matches: 129, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 75 0.58
50 15 0.12
51 34 0.26
52 2 0.02
53 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.13
Consensus pattern (49 bp):
GGGAAAGATCTAAGCCGCGACAGCGGATCCAGTACTACGAAGACATGAA
Found at i:13291108 original size:205 final size:205
Alignment explanation
Indices: 13290599--13291610 Score: 1424
Period size: 204 Copynumber: 4.9 Consensus size: 205
13290589 TACCAACTCA
* * * * * * *
13290599 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTGAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * *
13290664 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCTTGATGATATACAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * * * * * * *
13290729 AAGCGAATTGAAACAAGTGAGGCGGTCACCTTCTTGATGAGATACAGAGAAGTATACCAACTC--
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
* *
13290792 A---AGGCTCA
195 ACCCACGCTCG
* * * *
13290800 AAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* * *
13290865 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAGGTATAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
13290930 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
13290995 ACCCACGCTCG
195 ACCCACGCTCG
* *
13291006 ATGTGAGTAAATCTTCGAACCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
* * *
13291071 TGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGGTACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
13291136 AGC-GATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
131 AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
13291200 CCCACGCTCG
196 CCCACGCTCG
13291210 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
*
13291275 TTGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* * * *
13291340 AGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAGA
131 AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
*
13291405 CCAACGCTCG
196 CCCACGCTCG
** * *
13291415 ATGTGAGCAAATCTTCGAACCCTTAGCTTTTTGATGAGATATTGAGAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAACCC--AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * * * *
13291480 AGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGA
64 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
* ** * * * * * *
13291545 GAAGTGGATCAAAAAAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAGAAGGCCAAGTCA
129 GAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCA
13291610 A
194 A
13291611 TGAAACCAGA
Statistics
Matches: 730, Mismatches: 72, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
200 3 0.00
201 163 0.22
203 1 0.00
204 198 0.27
205 192 0.26
206 25 0.03
207 148 0.20
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (205 bp):
ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
CCCACGCTCG
Found at i:13291375 original size:409 final size:407
Alignment explanation
Indices: 13290599--13291610 Score: 1445
Period size: 409 Copynumber: 2.5 Consensus size: 407
13290589 TACCAACTCA
* * * * * * *
13290599 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTGAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* *
13290664 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCTTGATGATATACAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAAATACAGAG
* * * * * *
13290729 AAGCGAATTGAAACAAGTGAGGCGGTCACCTTCTTGATGAGATACAGAGAAGTATACCAACTC--
130 AAGCG-ATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAA
*
13290792 AAGGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAA
194 AACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAA
13290857 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAG
259 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAG
* * * * *
13290922 GTATAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGAC
324 ATACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGAC
*
13290987 CAAATCAAACCCACGCTCG
389 CAAATCAAACCAACGCTCG
* *
13291006 ATGTGAGTAAATCTTCGAACCCAGCTTCCTAATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
* **
13291071 TGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGGTACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAAATACAGAGA
* *
13291136 AGCGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
131 AGCGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAA-
* * * * *
13291201 CCACGCTCGATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGA
195 --ACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGA
* *
13291265 AGCAATAAAATTGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGA
258 AGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGA
13291330 GATACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGA
323 GATACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGA
*
13291395 CCAAATCAGACCAACGCTCG
388 CCAAATCAAACCAACGCTCG
** * *
13291415 ATGTGAGCAAATCTTCGAACCCTTAGCTTTTTGATGAGATATTGAGAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAACCC--AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * * * *
13291480 AGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGA
64 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAAATACAGA
* ** * * * *
13291545 GAAGTGGATCAAAAAAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAGAAGGCCAAGTCA
129 GAAG-CGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCA
13291610 A
193 A
13291611 TGAAACCAGA
Statistics
Matches: 537, Mismatches: 60, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
405 49 0.09
406 106 0.20
407 16 0.03
409 192 0.36
410 26 0.05
411 96 0.18
412 52 0.10
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (407 bp):
ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAAATACAGAGA
AGCGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAAA
CGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGC
AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGACTTCCTGATGAGAT
ACAGAGAAGCAGAGTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCA
AATCAAACCAACGCTCG
Found at i:13291936 original size:17 final size:17
Alignment explanation
Indices: 13291911--13291954 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
13291901 ACCGAGCCCT
13291911 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13291928 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
13291945 TTTGAATTTA
1 TTTAAATTTA
13291955 AATTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:13293864 original size:29 final size:29
Alignment explanation
Indices: 13293832--13293969 Score: 82
Period size: 29 Copynumber: 4.4 Consensus size: 29
13293822 ACCCTCGAAC
13293832 TTCCAAAAATTACATTATTGCCCCCAAAA
1 TTCCAAAAATTACATTATTGCCCCCAAAA
* * * *
13293861 TTCCAAATATTCCAAACATTCCATTTTTACCCCGAAAC
1 TTCCAAAAATT----ACATT--A---TTGCCCCCAAAA
*
13293899 TTCCAAAAATTACATT-TTGACCCCCAAAC
1 TTCCAAAAATTACATTATTG-CCCCCAAAA
* * *
13293928 TTCC-AAAATTTCATTTTTGACCCCAAAA
1 TTCCAAAAATTACATTATTGCCCCCAAAA
*
13293956 CTTTCAAAAATTAC
1 -TTCCAAAAATTAC
13293970 CGTTTTACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
28 19 0.23
29 28 0.33
30 7 0.08
33 5 0.06
34 5 0.06
35 1 0.01
38 19 0.23
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (29 bp):
TTCCAAAAATTACATTATTGCCCCCAAAA
Found at i:13293874 original size:38 final size:38
Alignment explanation
Indices: 13293832--13293905 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
13293822 ACCCTCGAAC
*
13293832 TTCCAAAAATTACATTATTGCCCCCAAAATTCCAAATA
1 TTCCAAAAATTACATTATTACCCCCAAAATTCCAAATA
* * * * *
13293870 TTCCAAACATTCCATTTTTACCCCGAAACTTCCAAA
1 TTCCAAAAATTACATTATTACCCCCAAAATTCCAAA
13293906 AATTACATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.30
Consensus pattern (38 bp):
TTCCAAAAATTACATTATTACCCCCAAAATTCCAAATA
Found at i:13312627 original size:22 final size:18
Alignment explanation
Indices: 13312602--13312646 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
13312592 CTCATTTTCC
13312602 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
13312624 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
13312642 TAAAA
1 TAAAA
13312647 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Done.