Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_pilon, whole genome shotgun sequence
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: 3030657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 15
Found at i:970513 original size:9 final size:9
Alignment explanation
Indices: 970499--970620 Score: 56
Period size: 9 Copynumber: 13.2 Consensus size: 9
970489 ATGTCCTGTA
970499 TATTTATTT
1 TATTTATTT
970508 TATTTA-TT
1 TATTTATTT
*
970516 TCTTTA-TT
1 TATTTATTT
970524 T-TTTATTT
1 TATTTATTT
* *
970532 CATTCTTGTTCT
1 TA-T-TTATT-T
*
970544 TATTT-GTT
1 TATTTATTT
*
970552 TATTTATTA
1 TATTTATTT
*
970561 TATATATTAT
1 TATTTATT-T
970571 TATTT-TCTT
1 TATTTAT-TT
*
970580 TATTTCCTTT
1 TATTT-ATTT
*
970590 ATCTTTATTTT
1 -TATTTA-TTT
*
970601 TATTTCTTT
1 TATTTATTT
970610 TATTTATTT
1 TATTTATTT
970619 TA
1 TA
970621 AATACTTTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
7 4 0.05
8 18 0.21
9 35 0.41
10 14 0.16
11 13 0.15
12 2 0.02
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (9 bp):
TATTTATTT
Found at i:970528 original size:24 final size:24
Alignment explanation
Indices: 970501--970687 Score: 65
Period size: 24 Copynumber: 7.8 Consensus size: 24
970491 GTCCTGTATA
970501 TTTATTTTATTTATTTCTTTATTT
1 TTTATTTTATTTATTTCTTTATTT
*
970525 TTTATTTCATTCT-TGTTC-TTATTT
1 TTTATTTTATT-TAT-TTCTTTATTT
* *
970549 GTTTA-TTTA-TTA--TATATA-TT
1 -TTTATTTTATTTATTTCTTTATTT
* * *
970569 ATTATTTTCTTTATTTCCTTTA-TC
1 TTTATTTTATTTATTT-CTTTATTT
* *
970593 TTTATTTTTATTTCTTTTATTTATTT
1 TTTA-TTTTATTT-ATTTCTTTATTT
* * *
970619 TAAATACTTT-TTTATCTTACTTTATCT
1 T--TTATTTTATTTAT-TT-CTTTATTT
* *
970646 TTTA-TTTA-TTATTTTCTTTGTCT
1 TTTATTTTATTTA-TTTCTTTATTT
*
970669 CTT-TTTTATTTATTTCTTT
1 TTTATTTTATTTATTTCTTT
970688 TTTGCCCTTT
Statistics
Matches: 120, Mismatches: 22, Indels: 43
0.65 0.12 0.23
Matches are distributed among these distances:
19 3 0.03
20 6 0.05
21 5 0.04
22 1 0.01
23 22 0.18
24 38 0.32
25 23 0.19
26 10 0.08
27 10 0.08
28 2 0.02
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTATTTTATTTATTTCTTTATTT
Found at i:970530 original size:15 final size:15
Alignment explanation
Indices: 970510--970614 Score: 51
Period size: 15 Copynumber: 7.0 Consensus size: 15
970500 ATTTATTTTA
970510 TTTATTTCTTTATTT
1 TTTATTTCTTTATTT
* *
970525 TTTATTTCATTCTTGT
1 TTTATTTCTTTATT-T
*
970541 TCTTATTTGTTTATTT
1 T-TTATTTCTTTATTT
* * *
970557 ATTA--TATATA-TT
1 TTTATTTCTTTATTT
*
970569 ATTATTTTCTTTATTT
1 TTTA-TTTCTTTATTT
970585 CCTTTA--TCTTTA-TT
1 --TTTATTTCTTTATTT
970599 TTTATTTCTTTTATTT
1 TTTATTTC-TTTATTT
970615 ATTTTAAATA
Statistics
Matches: 67, Mismatches: 11, Indels: 23
0.66 0.11 0.23
Matches are distributed among these distances:
12 10 0.15
13 4 0.06
14 4 0.06
15 29 0.43
16 7 0.10
17 10 0.15
18 3 0.04
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTCTTTATTT
Found at i:971654 original size:14 final size:14
Alignment explanation
Indices: 971631--971660 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
971621 AACCAGGAAG
*
971631 TTTACTTTTTTACT
1 TTTACCTTTTTACT
971645 TTTACCTTTTTACT
1 TTTACCTTTTTACT
971659 TT
1 TT
971661 CGTTATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTACCTTTTTACT
Found at i:975853 original size:14 final size:14
Alignment explanation
Indices: 975836--975863 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
975826 TGAAATTAAG
975836 TTTTGAAATTACTC
1 TTTTGAAATTACTC
975850 TTTTGAAATTACTC
1 TTTTGAAATTACTC
975864 CCCCTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTTGAAATTACTC
Found at i:978280 original size:20 final size:20
Alignment explanation
Indices: 978251--978288 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
978241 CCCCTTCAAA
*
978251 GGGGGAATCGGTTCCCTCAG
1 GGGGGAATCGATTCCCTCAG
*
978271 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
978289 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.39, T:0.21
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAG
Found at i:982144 original size:20 final size:21
Alignment explanation
Indices: 982102--982150 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
982092 TTGTTTTCAT
* *
982102 TTTTCA-ATTTTGAAACATCA
1 TTTTCATATTTTGAAAAATAA
982122 TTTTCATATTTT-AAAAATAA
1 TTTTCATATTTTGAAAAATAA
982142 TTTCTCATA
1 TTT-TCATA
982151 ATCCGAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTTCATATTTTGAAAAATAA
Found at i:984578 original size:23 final size:23
Alignment explanation
Indices: 984547--984590 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
984537 TGTACTTCTG
* *
984547 TGCTGAATCATTCAGTATTGATT
1 TGCTGAATCAATCAGCATTGATT
*
984570 TGCTTAATCAATCAGCATTGA
1 TGCTGAATCAATCAGCATTGA
984591 ATCATTCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (23 bp):
TGCTGAATCAATCAGCATTGATT
Found at i:988381 original size:47 final size:45
Alignment explanation
Indices: 988289--988414 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 45
988279 GGTAAGTATG
* ** *
988289 AAAATAAGCTTACGAGCTTA-TTAAT-AATGGCAAGTATATGGAT
1 AAAATAAACTTACGAGCTTACGGAATAAATGGTAAGTATATGGAT
* * *
988332 AAAATAAGCTTATGAGCTTACGGAATTTAAATGGTAAGTATATTGAT
1 AAAATAAACTTACGAGCTTACGGAA--TAAATGGTAAGTATATGGAT
* *
988379 AAAATAAACTTACGAGCTTATGGGATAAATGGTAAG
1 AAAATAAACTTACGAGCTTACGGAATAAATGGTAAG
988415 AGATTTTATA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 19 0.27
44 2 0.03
45 11 0.16
46 1 0.01
47 37 0.53
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (45 bp):
AAAATAAACTTACGAGCTTACGGAATAAATGGTAAGTATATGGAT
Found at i:988884 original size:21 final size:21
Alignment explanation
Indices: 988855--988901 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
988845 AATATGTAAA
*
988855 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATATTCCAAAT
*
988876 TCGCGTTGCGATATTCCAAAT
1 TCGCATTGCGATATTCCAAAT
988897 TCGCA
1 TCGCA
988902 ACGCGATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATATTCCAAAT
Found at i:988917 original size:20 final size:20
Alignment explanation
Indices: 988892--989002 Score: 134
Period size: 20 Copynumber: 5.6 Consensus size: 20
988882 TGCGATATTC
*
988892 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
** *
988912 CAAATTATCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* *
988932 CAAATTCGCAACGTGATAGT
1 CAAATTCGCAACGCGAAAGT
988952 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
* **
988972 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAAAGT
988991 CAAATTCGCAAC
1 CAAATTCGCAAC
989003 AGGTTTTAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 16 0.21
20 61 0.79
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:988942 original size:40 final size:40
Alignment explanation
Indices: 988892--988983 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
988882 TGCGATATTC
* *
988892 CAAATTCGCAACGCGATAGTCAAATTATCAATGCGAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTAGCAACGCGAAAGT
* *
988932 CAAATTCGCAACGTGATAGTCAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTAGCAACGCGAAAGT
988972 CAAATTCGCAAC
1 CAAATTCGCAAC
988984 TGAATTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTAGCAACGCGAAAGT
Found at i:989769 original size:12 final size:12
Alignment explanation
Indices: 989748--989781 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
989738 ACCACATTTC
*
989748 CAATACCAAACA
1 CAATATCAAACA
989760 CAATATCAAACA
1 CAATATCAAACA
*
989772 CAATCTCAAA
1 CAATATCAAA
989782 ACCACAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:989957 original size:24 final size:24
Alignment explanation
Indices: 989906--989959 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
989896 GTATTCGAAA
*
989906 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
989930 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
989954 TTTGAT
1 TTTGAT
989960 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:992189 original size:18 final size:18
Alignment explanation
Indices: 992166--992201 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
992156 AAGCAAAAGG
*
992166 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
992184 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
992202 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:992550 original size:20 final size:20
Alignment explanation
Indices: 992527--992580 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
992517 AAGCGTTGCA
992527 AATTTGACTATCGCGTAGCG
1 AATTTGACTATCGCGTAGCG
* *
992547 AATTTGACTTTCGCGTTGCG
1 AATTTGACTATCGCGTAGCG
992567 AATTTGACTATCGC
1 AATTTGACTATCGC
992581 AACGCTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
AATTTGACTATCGCGTAGCG
Found at i:992622 original size:20 final size:20
Alignment explanation
Indices: 992593--992670 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
992583 CGCTTATTTC
992593 GCGTTACGAATTTACCTTTT
1 GCGTTACGAATTTACCTTTT
*
992613 GCGTTGCGAATTTACCTTTT
1 GCGTTACGAATTTACCTTTT
* *
992633 GCGTTACAAATTTACCTTTC
1 GCGTTACGAATTTACCTTTT
*
992653 GCGTTGCGAATTTACCTT
1 GCGTTACGAATTTACCTT
992671 CAACGGTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (20 bp):
GCGTTACGAATTTACCTTTT
Found at i:992648 original size:40 final size:40
Alignment explanation
Indices: 992593--992670 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
992583 CGCTTATTTC
* *
992593 GCGTTACGAATTTACCTTTTGCGTTGCGAATTTACCTTTT
1 GCGTTACAAATTTACCTTTCGCGTTGCGAATTTACCTTTT
992633 GCGTTACAAATTTACCTTTCGCGTTGCGAATTTACCTT
1 GCGTTACAAATTTACCTTTCGCGTTGCGAATTTACCTT
992671 CAACGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (40 bp):
GCGTTACAAATTTACCTTTCGCGTTGCGAATTTACCTTTT
Found at i:993085 original size:18 final size:18
Alignment explanation
Indices: 993064--993100 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
993054 GTAATTGGAG
993064 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
993082 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
993100 T
1 T
993101 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:993107 original size:24 final size:24
Alignment explanation
Indices: 993056--993108 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
993046 TTTCATATGT
* * *
993056 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
993080 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
993104 AATTT
1 AATTT
993109 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:993862 original size:61 final size:62
Alignment explanation
Indices: 993732--993871 Score: 167
Period size: 61 Copynumber: 2.2 Consensus size: 62
993722 TTTTAGAAAC
* *
993732 AACAAATCAACGTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACAAATCAAATTA
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAATAAATCTTATTTACAAATCAAATTA
* * ** *
993797 AACAAATCAACTTTTACAAATCAATT-AATCAAAAAATAAATCTTATTTCCTCATC-AATTGT
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAATAAATCTTATTTACAAATCAAATT-A
993858 AACAAATCAACTTT
1 AACAAATCAACTTT
993872 CAATGTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 4 0.06
61 38 0.57
65 25 0.37
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (62 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:995752 original size:63 final size:63
Alignment explanation
Indices: 995659--995779 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 63
995649 CCGCGTAGCA
* * *
995659 CACCATTATCATCGCGTAAAAAATCCACCTCACCACGTAAAG-ATCGAACCTCATCACGCCATG
1 CACCATTATCATCACGTAAAAAATCCACCTCACCACGCAAAGCACCG-ACCTCATCACGCCATG
* ** **
995722 CACCATTATCTTCACGTAAAGTA-CCGACCTCATGACGCAAAGCACCGACCTCATCACG
1 CACCATTATCATCACGTAAAAAATCC-ACCTCACCACGCAAAGCACCGACCTCATCACG
995780 TAATTCCCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
62 2 0.04
63 43 0.90
64 3 0.06
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.19
Consensus pattern (63 bp):
CACCATTATCATCACGTAAAAAATCCACCTCACCACGCAAAGCACCGACCTCATCACGCCATG
Found at i:997979 original size:20 final size:20
Alignment explanation
Indices: 997954--998038 Score: 118
Period size: 20 Copynumber: 4.2 Consensus size: 20
997944 GCGTAAAAAC
997954 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
997974 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
* *
997994 ATTTGACTTTCGTGTTGAGA
1 ATTTGACTTTCGCGTTGCGA
*
998014 ATTTGACTATT-GCATTGCGA
1 ATTTGACT-TTCGCGTTGCGA
998034 ATTTG
1 ATTTG
998039 GAATATCGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:997999 original size:40 final size:40
Alignment explanation
Indices: 997954--998038 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
997944 GCGTAAAAAC
* *
997954 ATTTGACTTTCGCGTTGCGAATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGAGAATTTGACTATCGCATTGCGA
* *
997994 ATTTGACTTTCGTGTTGAGAATTTGACTATTGCATTGCGA
1 ATTTGACTTTCGCGTTGAGAATTTGACTATCGCATTGCGA
998034 ATTTG
1 ATTTG
998039 GAATATCGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (40 bp):
ATTTGACTTTCGCGTTGAGAATTTGACTATCGCATTGCGA
Found at i:998056 original size:21 final size:21
Alignment explanation
Indices: 998030--998075 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
998020 CTATTGCATT
998030 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAATATCGCAAC
*
998051 GCGAATTTGGAATATCGCAAT
1 GCGAATTTGGAATATCGCAAC
998072 GCGA
1 GCGA
998076 TTTACATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (21 bp):
GCGAATTTGGAATATCGCAAC
Found at i:998136 original size:20 final size:20
Alignment explanation
Indices: 998113--998155 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
998103 AACTGGGTTG
998113 CGAAATTGGA-ATTCGCGTTA
1 CGAAATTGGAGA-TCGCGTTA
*
998133 CG-AATTTGAGATCGCGTTA
1 CGAAATTGGAGATCGCGTTA
998152 CGAA
1 CGAA
998156 TTTGTTGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
CGAAATTGGAGATCGCGTTA
Found at i:1000868 original size:11 final size:11
Alignment explanation
Indices: 1000852--1000937 Score: 93
Period size: 11 Copynumber: 7.4 Consensus size: 11
1000842 AAAAAGAAAG
1000852 AAAAGAAAAAA
1 AAAAGAAAAAA
1000863 AAAAGAAAAAA
1 AAAAGAAAAAA
1000874 ATAGAA-AAAGAAA
1 A-A-AAGAAA-AAA
* *
1000887 AGAAGAAAACA
1 AAAAGAAAAAA
1000898 AAAAGAAAGAAGA
1 AAAAGAAA-AA-A
1000911 AAAAGAAAAAA
1 AAAAGAAAAAA
1000922 AAAAGAGAAAAA
1 AAAAGA-AAAAA
1000934 AAAA
1 AAAA
1000938 TAATAAATGC
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
11 30 0.47
12 19 0.30
13 15 0.23
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:1000888 original size:32 final size:32
Alignment explanation
Indices: 1000848--1000939 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
1000838 TTACAAAAAG
1000848 AAAGAAAAGAAAAAA-AAAAGAAAAAAATAGAA
1 AAAGAAAAGAAAAAACAAAA-AAAAAAATAGAA
* *
1000880 AAAGAAAAGAAGAAAACAAAAAGAAAGA-AGAA
1 AAAGAAAAGAA-AAAACAAAAAAAAAAATAGAA
* *
1000912 AAAGAAAA-AAAAAAGAGAAAAAAAAATA
1 AAAGAAAAGAAAAAACAAAAAAAAAAATA
1000940 ATAAATGCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
30 12 0.24
31 3 0.06
32 23 0.45
33 9 0.18
34 4 0.08
ACGTcount: A:0.83, C:0.01, G:0.14, T:0.02
Consensus pattern (32 bp):
AAAGAAAAGAAAAAACAAAAAAAAAAATAGAA
Found at i:1005092 original size:43 final size:46
Alignment explanation
Indices: 1005045--1005156 Score: 140
Period size: 47 Copynumber: 2.5 Consensus size: 46
1005035 GATAAGTATG
* * *
1005045 AAAATAAGTTTACGAGCTTAT-TAA-T-AATGGCAAGTATATGGAT
1 AAAATAAGCTTACGAGCTTATGAAATTAAATGACAAGTATATGGAT
* * *
1005088 AAAATAAGCTTACGAGCTTATGAAATTTAAATGATAAGTATTTTGAT
1 AAAATAAGCTTACGAGCTTATGAAA-TTAAATGACAAGTATATGGAT
1005135 AAAATAAGCTTACGAGCTTATG
1 AAAATAAGCTTACGAGCTTATG
1005157 GCATAAATGG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
43 20 0.34
44 2 0.03
46 1 0.02
47 36 0.61
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGAAATTAAATGACAAGTATATGGAT
Found at i:1007138 original size:34 final size:34
Alignment explanation
Indices: 1007095--1007185 Score: 105
Period size: 33 Copynumber: 2.7 Consensus size: 34
1007085 TAGATTGGAT
* *
1007095 TTCAACTTCACGACGAAGGATATCCAATTCA-AGG
1 TTCAACTTCACGACGAAGGATATCC-ATCCACAAG
* * * *
1007129 TTCAACTTCACAACGAAGG-GAGCCATCCACAAT
1 TTCAACTTCACGACGAAGGATATCCATCCACAAG
1007162 TTCAACTTCACGACGAAGGATATC
1 TTCAACTTCACGACGAAGGATATC
1007186 GTTCCAATCA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
32 4 0.09
33 22 0.48
34 20 0.43
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (34 bp):
TTCAACTTCACGACGAAGGATATCCATCCACAAG
Found at i:1007350 original size:249 final size:248
Alignment explanation
Indices: 1007032--1008117 Score: 1721
Period size: 249 Copynumber: 4.4 Consensus size: 248
1007022 TGAAAAATCT
* *
1007032 ACGATTTCAACTTCACGATGAAGGATATTGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* *
1007097 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACAAT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGG-GCCATCCACGAT
* * *
1007162 TTCAACTTCACGACGAAGGATATCGTTCCAATCAGCAACATTCATCTTTAGATTGGATTTCAACT
130 TTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACT
* * * *
1007227 TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCC
195 TCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* * * *
1007281 ACGATTTCAACTTCACGACGAATGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
*
1007346 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCCACGATT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATT
*
1007411 TCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTT
131 TCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTT
* *
1007476 CACGATGAAGGATATCCAATTCAAGGTTCAACTTCATAACGAAGGGAGCCATCC
196 CACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGG-GCCATCC
*
1007530 ACGATTTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* * * * *
1007595 CAACTTCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCATGATT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATT
* *
1007660 TCAACTTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTTCAACTT
131 TCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTT
* * *
1007725 CACGATGAAGG-TATCCAATTCAAGGCTTAACTTCACAACGAATGGGTCATCC
196 CACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* *
1007777 ACGATTTCAACTTCACGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* *
1007842 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAATGGGCCATCCACGATT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATT
1007907 TCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTT
131 TCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTT
* *
1007972 CATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
196 CACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* * * *
1008025 ACGATTTCAACTTCACGA--ATAGGATATCGTGCCCA-CAAGTAGCATCCATCTCTAGATTGGAT
1 ACGATTTCAACTTCACGACGA-AGGATATCGTGCCCATC-AGCAACATTCATCTTTAGATTGGAT
* * *
1008087 TTTAACTTCACAACGAAGAATATCCAATTCA
64 TTCAACTTCACGACGAAGGATATCCAATTCA
1008118 CAGCGAATGA
Statistics
Matches: 771, Mismatches: 62, Indels: 10
0.91 0.07 0.01
Matches are distributed among these distances:
246 2 0.00
247 262 0.34
248 200 0.26
249 307 0.40
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (248 bp):
ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATT
TCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTT
CACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
Found at i:1007362 original size:124 final size:124
Alignment explanation
Indices: 1007032--1008117 Score: 1712
Period size: 124 Copynumber: 8.8 Consensus size: 124
1007022 TGAAAAATCT
* *
1007032 ACGATTTCAACTTCACGATGAAGGATATTGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
*
1007097 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGG-GCCATCC
* * *
1007157 ACAATTTCAACTTCACGACGAAGGATATCGTTCCAATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* * * *
1007222 CAACTTCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* * * *
1007281 ACGATTTCAACTTCACGACGAATGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
*
1007346 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* *
1007405 ACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* * *
1007470 CAACTTCACGATGAAGGATATCCAATTCAAGGTTCAACTTCATAACGAAGGGAGCCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGG-GCCATCC
*
1007530 ACGATTTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* * * *
1007595 CAACTTCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* *
1007654 ATGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* * * *
1007719 CAACTTCACGATGAAGG-TATCCAATTCAAGGCTTAACTTCACAACGAATGGGTCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* *
1007777 ACGATTTCAACTTCACGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* *
1007842 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAATGGGCCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
*
1007901 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
*
1007966 CAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
66 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* * * *
1008025 ACGATTTCAACTTCACGA--ATAGGATATCGTGCCCA-CAAGTAGCATCCATCTCTAGATTGGAT
1 ACGATTTCAACTTCACGACGA-AGGATATCGTGCCCATC-AGCAACATTCATCTTTAGATTGGAT
* * *
1008087 TTTAACTTCACAACGAAGAATATCCAATTCA
64 TTCAACTTCACGACGAAGGATATCCAATTCA
1008118 CAGCGAATGA
Statistics
Matches: 888, Mismatches: 69, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
122 2 0.00
123 179 0.20
124 483 0.54
125 224 0.25
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (124 bp):
ACGATTTCAACTTCACGACGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
Found at i:1007512 original size:58 final size:59
Alignment explanation
Indices: 1007445--1008007 Score: 174
Period size: 58 Copynumber: 9.2 Consensus size: 59
1007435 TGCCCACCAG
*
1007445 CAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAGGTT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTT
*** ** * *
1007504 CAAC-TTCATAACGAAGGGAGCCATCCACGATTTCAACTTCACGACGAAGGATAT-C-GTTCCCA
1 CAACATTCAT--C---TTTAG--AT--TGGATTTCAACTTCACGACGAAGGATATCCAATT-CAA
****
1007566 TCAG
56 GGTT
* * *
1007570 CAACATTCATCTTTAGATTGGATTTCAACTTCACGAAGAAGGATATTCAATTCAAGGCT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTT
* * ** *
1007629 CAAC-TTCACAACGAATGGGTCATCCAT-GATTTCAACTTCACGACGAAGGATATCGTGCCCA-T
1 CAACATT--CATC--TTTAG--AT---TGGATTTCAACTTCACGACGAAGGATA---T-CCAATT
1007691 C-A-G-T
53 CAAGGTT
*
1007695 -AACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAGG-TATCCAATTCAAGGCTT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGG-TT
* * ** ** * * *
1007753 -AAC-TTCACAACGAATGGGTCATCCACGATTTCAACTTCACGACGAAGGATAT-C-ATGCCCAT
1 CAACATT--CATC--TTTAG--AT--TGGATTTCAACTTCACGACGAAGGATATCCAAT-TCAAG
***
1007814 CAG
57 GTT
* *
1007817 CAACATTCATCTTTAGATTAGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTT
* * * ** ** *****
1007876 CAACTTTACAACGAATGGGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCA-
1 CAACATT-CATC--TTTAG--AT--TGGATTTCAACTTCACGACGAAGGATATCCAATTCA--AG
1007940 G--
57 GTT
* *
1007941 CAACATTCATCTTTAGATTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCT
1 CAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTT
1008000 CAAC-TTCA
1 CAACATTCA
1008008 CAACGAAGGG
Statistics
Matches: 358, Mismatches: 87, Indels: 119
0.63 0.15 0.21
Matches are distributed among these distances:
53 3 0.01
54 3 0.01
55 1 0.00
56 2 0.01
57 6 0.02
58 115 0.32
59 27 0.08
60 19 0.05
61 2 0.01
62 12 0.03
63 4 0.01
64 15 0.04
65 41 0.11
66 68 0.19
67 33 0.09
68 2 0.01
69 3 0.01
70 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (59 bp):
CAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGTT
Found at i:1007723 original size:373 final size:373
Alignment explanation
Indices: 1007032--1008117 Score: 1795
Period size: 373 Copynumber: 2.9 Consensus size: 373
1007022 TGAAAAATCT
*
1007032 ACGATTTCAACTTCACGATGAAGGATATTGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGATGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
*
1007097 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACAAT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACGAT
*
1007162 TTCAACTTCACGACGAAGGATATCGTTCCAATCAGCAACATTCATCTTTAGATTGGATTTCAACT
131 TTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTTCAACT
1007227 TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAAC
196 TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAAC
* * * * *
1007292 TTCACGACGAATGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTTCAACTTCACGA
261 TTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTTCAACTTCACGA
*
1007357 CGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCC
326 CGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
*
1007405 ACGATTTCAACTTCACGATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGATGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* *
1007470 CAACTTCACGATGAAGGATATCCAATTCAAGGTTCAACTTCATAACGAAGGGAGCCATCCACGAT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACGAT
1007535 TTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTTCAACT
131 TTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTTCAACT
*
1007600 TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCATGATTTCAAC
196 TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAAC
1007665 TTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTTCAACTTCACGA
261 TTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTTCAACTTCACGA
* * * *
1007730 TGAAGG-TATCCAATTCAAGGCTTAACTTCACAACGAATGGGTCATCC
326 CGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* * *
1007777 ACGATTTCAACTTCACGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGATTT
1 ACGATTTCAACTTCACGATGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
* * *
1007842 CAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAATGG-GCCATCCACGAT
66 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACGAT
* *
1007906 TTCAACTTCACGACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACT
131 TTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTTCAACT
* * * * *
1007971 TCATGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAAC
196 TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAAC
* * * *
1008036 TTCACGA--ATAGGATATCGTGCCCA-CAAGTAGCATCCATCTCTAGATTGGATTTTAACTTCAC
261 TTCACGACGA-AGGATATCGTGCCCATC-AGTAACATTCATCTTTAGATTGGATTTCAACTTCAC
* *
1008098 AACGAAGAATATCCAATTCA
324 GACGAAGGATATCCAATTCA
1008118 CAGCGAATGA
Statistics
Matches: 669, Mismatches: 41, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
369 2 0.00
370 52 0.08
371 152 0.23
372 145 0.22
373 318 0.48
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (373 bp):
ACGATTTCAACTTCACGATGAAGGATATCGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACGAT
TTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTTCAACT
TCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAAC
TTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTTCAACTTCACGA
CGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
Found at i:1008216 original size:496 final size:494
Alignment explanation
Indices: 1007032--1008289 Score: 1648
Period size: 496 Copynumber: 2.5 Consensus size: 494
1007022 TGAAAAATCT
* * * *
1007032 ACGATTTCAACTTCACGATGAAGGATATTGTGCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGA-CAAGGATATCGTGCCCATCAGCAACATCCATCTCTAGATTGGATTT
* * * ** * * *
1007097 CAACTTCACGACGAAGGATATCCAATTCAAGGTTCAACTTCACAACGAAGGGAGCCATCCACAAT
65 CAACTTCACGAAGAAGAATATCCAATTCAAGGATCAACTTCACAACGAA-TCAGTCAGCCA-GAT
* * * * *
1007162 TTCAACTTCACGACGAAGGATATCGTTC-CAATCAGCAACATTCATCTTTAGATTGGATTTCAAC
128 TTCAACTTCACGACGAAGGATATC-TGCAC-ATCAGAAACATGCAACTTCAGATTGGATTTCAAC
*
1007226 TTCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAA
191 TTCACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAA
*
1007291 CTTCACGACGAATGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTTCAACTTCACG
256 CTTCACGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTTCAACTTCACG
1007356 ACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCCACGATTTCAACTTCAC
321 ACGAAGGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCCACGATTTCAACTTCAC
* *
1007421 GATGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCACGATGAAG
386 GACGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAG
* *
1007486 GATATCCAATTCAAGGTTCAACTTCATAACGAAGGGAGCCATCC
451 GATATCCAATTCAAGGCTCAACTTCACAACGAAGGGAGCCATCC
* * *
1007530 ACGATTTCAACTTCACGACGAAGGATATCGTTCCCATCAGCAACATTCATCTTTAGATTGGATTT
1 ACGATTTCAACTTCACGAC-AAGGATATCGTGCCCATCAGCAACATCCATCTCTAGATTGGATTT
* * * ** *
1007595 CAACTTCACGAAGAAGGATATTCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCATGATT
65 CAACTTCACGAAGAAGAATATCCAATTCAAGGATCAACTTCACAACGAATCAGTCAGCCA-GATT
* * * * *
1007660 TCAACTTCACGACGAAGGATATCGTGCCCATCAGTAACATTCATCTTTAGATTGGATTTCAACTT
129 TCAACTTCACGACGAAGGATATC-TGCACATCAGAAACATGCAACTTCAGATTGGATTTCAACTT
* *
1007725 CACGATGAAGG-TATCCAATTCAAGGCTTAACTTCACAACGAATGGGTCATCCACGATTTCAACT
193 CACGAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAACT
*
1007789 TCACGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGATTTCAACTTCACGAC
258 TCACGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTTCAACTTCACGAC
*
1007854 GAAGGATATCCAATTCAAGGCTCAACTTTACAACGAATGGGCCATCCACGATTTCAACTTCACGA
323 GAAGGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCCACGATTTCAACTTCACGA
*
1007919 CGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCATGACGAAGGA
388 CGAAGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGA
1007984 TATCCAATTCAAGGCTCAACTTCACAACGAAGGG-GCCATCC
453 TATCCAATTCAAGGCTCAACTTCACAACGAAGGGAGCCATCC
* *
1008025 ACGATTTCAACTTCACGA-ATAGGATATCGTGCCCA-CAAGTAGCATCCATCTCTAGATTGGATT
1 ACGATTTCAACTTCACGACA-AGGATATCGTGCCCATC-AGCAACATCCATCTCTAGATTGGATT
* * * ** *
1008088 TTAACTTCAC-AACGAAGAATATCCAATTCACAGCGAATGAGCTTTC-C-A-GTTTCATTCAGAG
64 TCAACTTCACGAA-GAAGAATATCCAATTCA-AG-G-ATCAAC-TTCACAACGAATCAGTC--AG
* * * *
1008149 CCA-ATTTCAACTTCACGGCGAAGGATAT-TGGAC-T-TGAAACAATGCAACTTACACAGGATTA
122 CCAGATTTCAACTTCACGACGAAGGATATCTGCACATCAGAAAC-ATGCAACTT---CA-GATTG
* * * *
1008210 GATTTCAACTTCA-TAACGAAGGATATCCAATT-TAGAGCTCAACTTCACGACGAATGAG-CTAT
182 GATTTCAACTTCACGAA-GAAGGATATCCAATTCAAG-GCTCAACTTCACAACGAATGGGTC-AT
*
1008272 CTACGATTTCAACTTCAC
244 CCACGATTTCAACTTCAC
1008290 TGCAAATGAT
Statistics
Matches: 683, Mismatches: 57, Indels: 41
0.87 0.07 0.05
Matches are distributed among these distances:
491 4 0.01
492 8 0.01
493 7 0.01
494 60 0.09
495 57 0.08
496 299 0.44
497 137 0.20
498 111 0.16
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (494 bp):
ACGATTTCAACTTCACGACAAGGATATCGTGCCCATCAGCAACATCCATCTCTAGATTGGATTTC
AACTTCACGAAGAAGAATATCCAATTCAAGGATCAACTTCACAACGAATCAGTCAGCCAGATTTC
AACTTCACGACGAAGGATATCTGCACATCAGAAACATGCAACTTCAGATTGGATTTCAACTTCAC
GAAGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAACTTCA
CGACGAAGGATATCATGCCCATCAGCAACATTCATCTTTAGATTAGACTTCAACTTCACGACGAA
GGATATCCAATTCAAGGCTCAACTTTACAACGAAGGGGCCATCCACGATTTCAACTTCACGACGA
AGGATATCGTGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAACTTCACGACGAAGGATAT
CCAATTCAAGGCTCAACTTCACAACGAAGGGAGCCATCC
Found at i:1008601 original size:2 final size:2
Alignment explanation
Indices: 1008581--1008637 Score: 75
Period size: 2 Copynumber: 30.0 Consensus size: 2
1008571 TATGTTTAAG
*
1008581 AT AT -T AT AT -T AT AT A- AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1008620 AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1008638 TCATTGTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1009855 original size:26 final size:27
Alignment explanation
Indices: 1009809--1009872 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
1009799 TTTCTTTTGG
1009809 TTTTTTTATTATTACTATTATTGT-TAATA
1 TTTTTTTATTATTAC-ATTATT-TAT-ATA
1009838 TTTTTTTATT-TTAC-TTATTTATATA
1 TTTTTTTATTATTACATTATTTATATA
1009863 -TTTTTTATTA
1 TTTTTTTATTA
1009873 CTTTTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
24 9 0.27
25 4 0.12
26 6 0.18
28 4 0.12
29 10 0.30
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTTTTATTATTACATTATTTATATA
Found at i:1009866 original size:23 final size:22
Alignment explanation
Indices: 1009835--1009891 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
1009825 ATTATTGTTA
1009835 ATAT-TTTTTTATTTTACTTATTT
1 ATATATTTTTTA--TTACTTATTT
*
1009858 ATATATTTTTTATTACTTTTTT
1 ATATATTTTTTATTACTTATTT
*
1009880 TTATTATTTTTT
1 ATA-TATTTTTT
1009892 CCTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.37
23 12 0.40
24 7 0.23
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
ATATATTTTTTATTACTTATTT
Found at i:1010199 original size:11 final size:11
Alignment explanation
Indices: 1010194--1010385 Score: 64
Period size: 11 Copynumber: 17.3 Consensus size: 11
1010184 CTATTGTTTT
1010194 TTTATTCTTTA
1 TTTATTCTTTA
*
1010205 TTTATAC-TTA
1 TTTATTCTTTA
*
1010215 -TT-TTATTTA
1 TTTATTCTTTA
1010224 TTTA-T-TTTA
1 TTTATTCTTTA
1010233 TTTA-TCTTTA
1 TTTATTCTTTA
1010243 CTTTATT-TTTA
1 -TTTATTCTTTA
* *
1010254 TTTCCTT-TATA
1 TTT-ATTCTTTA
*
1010265 TTTATTTATTTA
1 TTTA-TTCTTTA
*
1010277 TTTTATTTATTTA
1 -TTTA-TTCTTTA
*
1010290 TTTATTTTTTA
1 TTTATTCTTTA
1010301 TTTCATTCTTGT-
1 TTT-ATTCTT-TA
* *
1010313 TATTATTTGTTTC
1 T-TTA-TTCTTTA
* *
1010326 TTTATTATATA
1 TTTATTCTTTA
* *
1010337 TATTATTATTTTC
1 T-TTATT-CTTTA
1010350 TTTATTCTATTA
1 TTTATTCT-TTA
*
1010362 -TT-TCCTTTA
1 TTTATTCTTTA
1010371 TTTATATCTTTA
1 TTTAT-TCTTTA
1010383 TTT
1 TTT
1010386 TTATTTTTAT
Statistics
Matches: 140, Mismatches: 20, Indels: 41
0.70 0.10 0.20
Matches are distributed among these distances:
8 1 0.01
9 17 0.12
10 18 0.13
11 42 0.30
12 39 0.28
13 23 0.16
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (11 bp):
TTTATTCTTTA
Found at i:1010221 original size:15 final size:14
Alignment explanation
Indices: 1010201--1010296 Score: 74
Period size: 13 Copynumber: 6.5 Consensus size: 14
1010191 TTTTTTATTC
1010201 TTTATTTATACTTAT
1 TTTATTTAT-CTTAT
1010216 TTTATTTAT-TTAT
1 TTTATTTATCTTAT
1010229 TTTATTTATCTTTACT
1 TTTATTTATC-TTA-T
*
1010245 TTATTTTTATTTCCTTTAT
1 TT-TATTTA--T-C-TTAT
1010264 ATTTATTTAT-TTAT
1 -TTTATTTATCTTAT
1010278 TTTATTTAT-TTA-
1 TTTATTTATCTTAT
1010290 TTTATTT
1 TTTATTT
1010297 TTTATTTCAT
Statistics
Matches: 71, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
12 7 0.10
13 25 0.35
14 4 0.06
15 12 0.17
16 3 0.04
17 6 0.08
19 7 0.10
20 7 0.10
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTATCTTAT
Found at i:1010223 original size:4 final size:4
Alignment explanation
Indices: 1010201--1010465 Score: 99
Period size: 4 Copynumber: 63.5 Consensus size: 4
1010191 TTTTTTATTC
1010201 TTTA TTTA TACTTA TTTTA TTTA TTTA TTTTA TTTA TCTTTA CTTTA -TT-
1 TTTA TTTA T--TTA -TTTA TTTA TTTA -TTTA TTTA --TTTA -TTTA TTTA
*
1010250 TTTA TTTCC TTTA --TA TTTA TTTA TTTA TTTTA TTTA TTTA TTTA TTT-
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA
* * *
1010297 TTTA TTTCA TTCT- TGTTA -TTA TTTG TTTC TTTA -TTA TATA TATTA
1 TTTA TTT-A TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA
* * * * *
1010342 -TTA TTTTC TTTA TTCTA -TTA TTTCC TTTA TTTA TATC TTTA TTT- TTATT
1 TTTA -TTTA TTTA TT-TA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TT-TA
* *
1010391 TTTA TTTC TATTA TTT- TATTA TTTTA TTTTA TTTA TTTTA TGTA CTTT-
1 TTTA TTTA T-TTA TTTA T-TTA -TTTA -TTTA TTTA -TTTA TTTA -TTTA
*
1010439 TTTA TATTA CTTTA TCT- TTTA TTTA TT
1 TTTA T-TTA -TTTA TTTA TTTA TTTA TT
1010466 ATCTTCTTTG
Statistics
Matches: 202, Mismatches: 22, Indels: 74
0.68 0.07 0.25
Matches are distributed among these distances:
2 2 0.01
3 26 0.13
4 106 0.52
5 57 0.28
6 10 0.05
7 1 0.00
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:1010253 original size:17 final size:14
Alignment explanation
Indices: 1010192--1010428 Score: 99
Period size: 15 Copynumber: 16.9 Consensus size: 14
1010182 TACTATTGTT
*
1010192 TTTTTA-TTCTTTA
1 TTTTTATTTATTTA
* *
1010205 TTTATACTTATTT-
1 TTTTTATTTATTTA
*
1010218 TATTTATTTATTTTA
1 TTTTTATTTA-TTTA
* *
1010233 TTTATCTTTACTTTA
1 TTTTTATTTA-TTTA
*
1010248 TTTTTATTTCCTTTA
1 TTTTTATTT-ATTTA
*
1010263 TATTTATTTATTTA
1 TTTTTATTTATTTA
1010277 -TTTTATTTATTTA
1 TTTTTATTTATTTA
1010290 --TTTATTT-TTTA
1 TTTTTATTTATTTA
*
1010301 -TTTCATTCT-TGTTA
1 TTTTTATT-TAT-TTA
* *
1010315 TTATTTGTTTCTTTA
1 TT-TTTATTTATTTA
*
1010330 TTATATATATTA-TTA
1 TT-TTTAT-TTATTTA
*
1010345 -TTTTCTTTATTCTA
1 TTTTTATTTATT-TA
*
1010359 TTATTTCCTTTATTTA
1 TT-TTT-ATTTATTTA
1010375 TATCTTTA-TT-TTTA
1 T-T-TTTATTTATTTA
*
1010389 TTTTTATTTCTATTA
1 TTTTTATTTAT-TTA
1010404 -TTTTA-TTATTT-
1 TTTTTATTTATTTA
1010415 TATTTTATTTATTT
1 T-TTTTATTTATTT
1010429 TATGTACTTT
Statistics
Matches: 175, Mismatches: 26, Indels: 45
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.02
12 21 0.12
13 41 0.23
14 35 0.20
15 50 0.29
16 13 0.07
17 11 0.06
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:1010262 original size:26 final size:25
Alignment explanation
Indices: 1010194--1010307 Score: 91
Period size: 26 Copynumber: 4.7 Consensus size: 25
1010184 CTATTGTTTT
1010194 TTTATTCTTTATTT-ATACTTAT-TTTA
1 TTTATT-TTTATTTCAT--TTATATTTA
* *
1010220 TTTA--TTTATTTTATTTATCTTTA
1 TTTATTTTTATTTCATTTATATTTA
*
1010243 CTTTATTTTTATTTCCTTTATATTTA
1 -TTTATTTTTATTTCATTTATATTTA
*
1010269 TTTA--TTTATTTTA-TT-TATTTA
1 TTTATTTTTATTTCATTTATATTTA
1010290 TTTATTTTTTATTTCATT
1 TTTA-TTTTTATTTCATT
1010308 CTTGTTATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 19
0.74 0.06 0.19
Matches are distributed among these distances:
21 10 0.14
22 6 0.08
23 18 0.25
24 14 0.19
25 5 0.07
26 20 0.27
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTATTTTTATTTCATTTATATTTA
Found at i:1010301 original size:53 final size:53
Alignment explanation
Indices: 1010212--1010453 Score: 134
Period size: 53 Copynumber: 4.6 Consensus size: 53
1010202 TTATTTATAC
* * *
1010212 TTAT-TTTATTTATTTATTTTATTTA--TCT-TTACTTTAT-TTTTATTTCCT
1 TTATATTTATTTATTTATTTTATTTATTTATATTATTTTTTATTTTATTTCCT
* *
1010260 TTATATTTATTTATTTATTTTATTTATTTAT-TTATTTTTTATTTCA-TTCTT
1 TTATATTTATTTATTTATTTTATTTATTTATATTATTTTTTATTTTATTTCCT
* * * * *
1010311 GTTATTATTTGTTTCTTTATTATATATA-TTATTATT-TTCTTTATTCTATTATTTCCT
1 -TTA-TATTTATTTATTTATTTTATTTATTTA-TATTATTTTTTA-T-T-TTATTTCCT
* **
1010368 TTAT-TTATATCTTTATTT-TTATT-TTTATTTCTATTATTTTATTATTTTATTTTAT
1 TTATATT-TA--TTTATTTATT-TTATTTATTTATATTATTTT-TTATTTTATTTCCT
* *
1010423 TTAT-TTTATGTACTT-TTTTATATTACTTTAT
1 TTATATTTATTTATTTATTTTAT-TTA-TTTAT
1010454 CTTTTATTTA
Statistics
Matches: 149, Mismatches: 23, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
48 4 0.03
49 21 0.14
51 15 0.10
52 18 0.12
53 29 0.19
54 11 0.07
55 16 0.11
56 15 0.10
57 17 0.11
58 3 0.02
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.71
Consensus pattern (53 bp):
TTATATTTATTTATTTATTTTATTTATTTATATTATTTTTTATTTTATTTCCT
Found at i:1010390 original size:6 final size:6
Alignment explanation
Indices: 1010367--1010424 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
1010357 TATTATTTCC
* * * * *
1010367 TTTATT TATATC TTTATT TTTATT TTTATT TCTATT ATT-TT ATTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1010413 TTTA-T TTTATT T
1 TTTATT TTTATT T
1010425 ATTTTATGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
5 14 0.33
6 28 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:1010400 original size:42 final size:41
Alignment explanation
Indices: 1010325--1010406 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
1010315 TTATTTGTTT
1010325 CTTTATTATATATATTATTATTTTCTTTATTCTATTATTTC
1 CTTTATTATATATATTATTATTTTCTTTATTCTATTATTTC
* *
1010366 CTTTATT-TATATCTTTATT-TTTATTTTTATTTCTATTATTT
1 CTTTATTATATAT-ATTATTATTT-TCTTTA-TTCTATTATTT
1010407 TATTATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 8 0.22
41 17 0.47
42 11 0.31
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (41 bp):
CTTTATTATATATATTATTATTTTCTTTATTCTATTATTTC
Found at i:1010453 original size:31 final size:31
Alignment explanation
Indices: 1010391--1010453 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
1010381 TATTTTTATT
* *
1010391 TTTATTTCTATTATTTTATTATTTTATTTTA
1 TTTATTTCTATTATTTTATTATATTACTTTA
1010422 TTTATTT-TATGTACTTTT-TTATATTACTTTA
1 TTTATTTCTAT-TA-TTTTATTATATTACTTTA
1010453 T
1 T
1010454 CTTTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.11
31 21 0.75
32 4 0.14
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (31 bp):
TTTATTTCTATTATTTTATTATATTACTTTA
Found at i:1010473 original size:17 final size:17
Alignment explanation
Indices: 1010244--1010474 Score: 97
Period size: 17 Copynumber: 13.1 Consensus size: 17
1010234 TTATCTTTAC
*
1010244 TTTATTT-TTATTTCCT
1 TTTATTTATTATTTTCT
*
1010260 TTATATTTATT-TATTTAT
1 TT-TATTTATTAT-TTTCT
*
1010278 TTTATTTATTTATTTATTT
1 TTTATTTA-TTATTT-TCT
* *
1010297 TTTATTTCATTCTTGT-T
1 TTTATTT-ATTATTTTCT
* * *
1010314 ATTATTTGTT-TCTTTAT
1 TTTATTTATTAT-TTTCT
1010331 TATATATATTATTATTTTC-
1 T-T-TAT-TTATTATTTTCT
*
1010350 TTTATTCTATTA-TTTCC
1 TTTATT-TATTATTTTCT
*
1010367 TTTATTTA-TATCTTTATT
1 TTTATTTATTAT-TTT-CT
1010385 TTTATTT-TTA-TTTCT
1 TTTATTTATTATTTTCT
* *
1010400 ATTATTTTATTATTTTAT
1 TTTA-TTTATTATTTTCT
1010418 TTTATTTATT-TTATGTACT
1 TTTATTTATTATT-T-T-CT
1010437 TTT-TTATATTACTTTATCT
1 TTTATT-TATTA-TTT-TCT
*
1010456 TTTATTTATTATCTTCT
1 TTTATTTATTATTTTCT
1010473 TT
1 TT
1010475 GTCTCTTTTT
Statistics
Matches: 166, Mismatches: 20, Indels: 57
0.68 0.08 0.23
Matches are distributed among these distances:
15 7 0.04
16 21 0.13
17 52 0.31
18 35 0.21
19 36 0.22
20 12 0.07
21 3 0.02
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTATTTATTATTTTCT
Found at i:1010488 original size:28 final size:28
Alignment explanation
Indices: 1010455--1010518 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
1010445 TTACTTTATC
1010455 TTTTATTTATTATCTTCTT-TGTCTCTTT-
1 TTTTATTTATT-TCTTCTTCTGTC-CTTTA
*
1010483 TTTTATTTATTTCTTTTTCTGTCCTTTA
1 TTTTATTTATTTCTTCTTCTGTCCTTTA
1010511 TTTTATTT
1 TTTTATTT
1010519 TCTTTATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 10 0.30
28 23 0.70
ACGTcount: A:0.11, C:0.12, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTTATTTATTTCTTCTTCTGTCCTTTA
Found at i:1010932 original size:20 final size:21
Alignment explanation
Indices: 1010891--1010932 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1010881 TTCGACACCA
*
1010891 TCACATCAGCATCGTGAACTG
1 TCACATCAACATCGTGAACTG
*
1010912 TCACATCAATATCGT-AACTG
1 TCACATCAACATCGTGAACTG
1010932 T
1 T
1010933 TAACGCTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (21 bp):
TCACATCAACATCGTGAACTG
Found at i:1012144 original size:17 final size:17
Alignment explanation
Indices: 1012119--1012157 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1012109 TCTGTTGAAA
*
1012119 ATTTAAAATTATTATAT
1 ATTTTAAATTATTATAT
* *
1012136 ATTTTAAATTTTTATGT
1 ATTTTAAATTATTATAT
1012153 ATTTT
1 ATTTT
1012158 TGATTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTAAATTATTATAT
Found at i:1017858 original size:3 final size:3
Alignment explanation
Indices: 1017850--1017918 Score: 113
Period size: 3 Copynumber: 23.0 Consensus size: 3
1017840 AATTTAAATT
*
1017850 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
1017896 TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
1017919 ATACATTTTG
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.03
3 57 0.92
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1020143 original size:16 final size:16
Alignment explanation
Indices: 1020122--1020152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1020112 TTTGTCTTAT
1020122 AAAATTATTTTAAAAA
1 AAAATTATTTTAAAAA
*
1020138 AAAATTGTTTTAAAA
1 AAAATTATTTTAAAA
1020153 GACGTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTATTTTAAAAA
Found at i:1024922 original size:12 final size:13
Alignment explanation
Indices: 1024905--1024947 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
1024895 AATCGAGAAA
1024905 ACATACATCA-AT
1 ACATACATCACAT
1024917 ACATACAT-ACAT
1 ACATACATCACAT
*
1024929 ACAGACATACACAT
1 ACATACAT-CACAT
1024943 ACATA
1 ACATA
1024948 TATGATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 17 0.65
14 8 0.31
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (13 bp):
ACATACATCACAT
Found at i:1025467 original size:103 final size:105
Alignment explanation
Indices: 1025360--1025547 Score: 276
Period size: 104 Copynumber: 1.8 Consensus size: 105
1025350 TTTTATCTCA
* *
1025360 CTTGAGACA-TTTTTCCTTTGAGATACAAAATTTGAATTT-ATTTCTCATT-AAAC-AAAGTTGA
1 CTTGAGACATTTTTTCCTTTGAGATACAAAATTTGAATTTGA-TTCAC-TTGAAACAAAAATTGA
*
1025421 TCTCATTTGAGATCGCTTTCTCTTAAAACAAACTTCGTATTG
64 TCTCACTTGAGATCGCTTTCTCTTAAAACAAACTTCGTATTG
* *
1025463 CTTGAGACATTTTTTCCTTTGATATACAAATTTTGAATTTGATTCACTTGAAACAAAAATTGATC
1 CTTGAGACATTTTTTCCTTTGAGATACAAAATTTGAATTTGATTCACTTGAAACAAAAATTGATC
*
1025528 TCACTTGAGATCGTTTTCTC
66 TCACTTGAGATCGCTTTCTC
1025548 AAGAACAATT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
103 11 0.15
104 36 0.48
105 28 0.37
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (105 bp):
CTTGAGACATTTTTTCCTTTGAGATACAAAATTTGAATTTGATTCACTTGAAACAAAAATTGATC
TCACTTGAGATCGCTTTCTCTTAAAACAAACTTCGTATTG
Found at i:1025689 original size:30 final size:31
Alignment explanation
Indices: 1025653--1025711 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1025643 AACAAACATC
1025653 ATCTTTGAGTC-ATTTCTTTTGAAACAAAGA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAAGA
1025683 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1025712 ACTTTGTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAAGA
Found at i:1025956 original size:66 final size:65
Alignment explanation
Indices: 1025776--1026010 Score: 221
Period size: 64 Copynumber: 3.6 Consensus size: 65
1025766 TAAAACAAAA
* *
1025776 TGAAAAAAATCTTTGAGTATGTTTCTTTGATAACAAAATTTTGTCTCTTTTGAGAAAGTTTCTTT
1 TGAAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTT
* * * * *
1025841 TG-AAATAATCTTTGAGTATGTTTCTTGGGAAACAAAATTTTTTCACTTTTGAGACAG-TTCTTT
1 TGAAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTTC-TT
1025904 T
65 T
* * ** * *
1025905 TGAAGAAAAATCTTTAAATATGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTAAGACAATTT-T
1 TGAA-AAAAATCTTTGAGTATGTTTCTT-TGAAAACAAAATTTTGTCTCTTTTGAGACAGTTTCT
1025968 TCT
64 T-T
* *
1025971 TAAAACAAACATCTTTGA-TATTGTTTCCCTTG-AAACAAAA
1 TGAAA-AAA-ATCTTTGAGTA-TGTTT-CTTTGAAAACAAAA
1026011 CCTATCTTTG
Statistics
Matches: 137, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
63 3 0.02
64 53 0.39
65 8 0.06
66 49 0.36
67 21 0.15
68 2 0.01
69 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (65 bp):
TGAAAAAAATCTTTGAGTATGTTTCTTTGAAAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTT
Found at i:1026020 original size:33 final size:33
Alignment explanation
Indices: 1025981--1026043 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1025971 TAAAACAAAC
1025981 ATCTTTGA-TATTGTTTCCCTTGAAACAAAACCT
1 ATCTTTGAGT-TTGTTTCCCTTGAAACAAAACCT
*
1026014 ATCTTTGAGTTTGTTTCTCTTGAAACAAAA
1 ATCTTTGAGTTTGTTTCCCTTGAAACAAAA
1026044 GTCTGTGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (33 bp):
ATCTTTGAGTTTGTTTCCCTTGAAACAAAACCT
Found at i:1026058 original size:29 final size:29
Alignment explanation
Indices: 1025973--1026187 Score: 198
Period size: 29 Copynumber: 7.2 Consensus size: 29
1025963 ATTTTTCTTA
* * * **
1025973 AAACAAACATCTTTGATATTGTTTCCCTTG
1 AAACAAAAATCTGTGA-GTTGTTTCTTTTG
* *
1026003 AAACAAAACCTATCTTTGAGTTTGTTTCTCTTG
1 AAACAAAA---ATCTGTGAG-TTGTTTCTTTTG
*
1026036 AAACAAAAGTCTGTGAGTTGTTTCTTTTG
1 AAACAAAAATCTGTGAGTTGTTTCTTTTG
* *
1026065 AAATAAAAGTCTGTGAGTTGTTTCTTTTG
1 AAACAAAAATCTGTGAGTTGTTTCTTTTG
*
1026094 AAATAAAAATCTGTGAGTTGTTTCTTTTG
1 AAACAAAAATCTGTGAGTTGTTTCTTTTG
* * * *
1026123 AAATAAAAATCTTTGAGTTATTTATTTTG
1 AAACAAAAATCTGTGAGTTGTTTCTTTTG
* * *
1026152 AAA-AAAATTCTTTGAGTCTATTTCTTTTG
1 AAACAAAAATCTGTGAGT-TGTTTCTTTTG
*
1026181 AACCAAA
1 AAACAAA
1026188 GTTTTGTTTC
Statistics
Matches: 165, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
28 13 0.08
29 108 0.65
30 17 0.10
33 27 0.16
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (29 bp):
AAACAAAAATCTGTGAGTTGTTTCTTTTG
Found at i:1026124 original size:87 final size:88
Alignment explanation
Indices: 1026014--1026182 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 88
1026004 AACAAAACCT
* * * *
1026014 ATCTTTGAGTTTGTTTCTCTTGAAACAAAAGTCTGTGAGTTGTTTCTTTTGAAATAAAAGTCTGT
1 ATCTGTGAGTTTGTTTCTCTTGAAACAAAAATCTGTGAGTTATTTATTTTGAAA-AAAAGTCTGT
*
1026079 GAGT-TGTTTCTTTTGAAATAAAA
65 GAGTCTATTTCTTTTGAAATAAAA
* * * * *
1026102 ATCTGTGAG-TTGTTTCTTTTGAAATAAAAATCTTTGAGTTATTTATTTTGAAAAAAATTCTTTG
1 ATCTGTGAGTTTGTTTCTCTTGAAACAAAAATCTGTGAGTTATTTATTTTGAAAAAAAGTCTGTG
1026166 AGTCTATTTCTTTTGAA
66 AGTCTATTTCTTTTGAA
1026183 CCAAAGTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 12 0.17
87 50 0.71
88 8 0.11
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (88 bp):
ATCTGTGAGTTTGTTTCTCTTGAAACAAAAATCTGTGAGTTATTTATTTTGAAAAAAAGTCTGTG
AGTCTATTTCTTTTGAAATAAAA
Found at i:1026800 original size:134 final size:134
Alignment explanation
Indices: 1026560--1026942 Score: 552
Period size: 134 Copynumber: 2.9 Consensus size: 134
1026550 AATCATTAAC
* * * *
1026560 CCTAAAGATGGCCAGAACTCTTCGTCACGTATGAGTCGTGTCATCTCCTGACCAGATCTCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
* *
1026625 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGTGTTATCTC
66 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCAC
1026690 CCTT
131 CCTT
* * *
1026694 CCTAAAGATGGCCATAACTATTCATCACATATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
* * *
1026759 CACGTATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
66 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCAC
1026824 CCTT
131 CCTT
* * * *
1026828 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCGACCAGATTTCCTCA
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCA
* * * * *
1026893 TCACGTAGGAACCGTGTCACCCTTAGACAACCCGAAC-TCTTCATCACGTA
65 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAG-ACGTCCTCATCACGTA
1026943 TGAGCAGTGT
Statistics
Matches: 220, Mismatches: 27, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
134 135 0.61
135 84 0.38
136 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCAT
CACGTAGGAGCCGTGTCACCCCTAGATAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCAC
CCTT
Found at i:1026953 original size:43 final size:40
Alignment explanation
Indices: 1026842--1026962 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 40
1026832 AAGATGGCCA
*
1026842 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCGACC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCAACC
** * * * *
1026882 AGATTTCCTCATCACGTAGGAACCGTGTCA-CCCTTAGACAACC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCC-T---CAACC
* *
1026925 CGAACTCTTCATCACGTATGAGCAGTGTCTTCCC-CAAC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCAAC
1026963 AACCAACATT
Statistics
Matches: 61, Mismatches: 15, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
39 7 0.11
40 25 0.41
43 26 0.43
44 3 0.05
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCAACC
Found at i:1027130 original size:3 final size:3
Alignment explanation
Indices: 1027122--1027165 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
1027112 AATTTAAATT
*
1027122 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1027166 ATACATTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1029868 original size:160 final size:159
Alignment explanation
Indices: 1029556--1029873 Score: 387
Period size: 160 Copynumber: 2.0 Consensus size: 159
1029546 TGACAATCCC
* * ***
1029556 TAAATTTAAGTTTAATTTAAATGTGCATTGATGAAAATTTTGATTTGAAAAACGAAATCATTGTA
1 TAAATTTAAGTTTAATTTAAATATGCATTAATGAAAAAACTGATTTGAAAAACGAAATCATTGTA
* * * * *
1029621 TGTAAATGATATGAAATAAATATTGATGTAGATGTTTTTAATCGGTTGAGATCATTGTTGACTTG
66 TGTAAATGATATGAAATAAACATTGATGTAGATGATTTTAATCGGTTGAAACCATTGATGACTTG
*
1029686 GTGGAAAGGAACTATAAAATAATTTCTCT
131 GTGGAAAGGAACCATAAAATAATTTCTCT
*
1029715 TAAATTTAAGTTTAATTTAAATATGCATTAATGGAAAAAACTGATTT-AGAAAATGAAATCCA-T
1 TAAATTTAAGTTTAATTTAAATATGCATTAAT-GAAAAAACTGATTTGA-AAAACGAAAT-CATT
* *
1029778 GTATGTAAATGCTATGGATAA-AAACATTGATGT-GAAT-ATTTTAATTGGTTGAAACCATTGAT
63 GTATGTAAATGATAT-GA-AATAAACATTGATGTAG-ATGATTTTAATCGGTTGAAACCATTGAT
* *
1029840 GA-TATGGTGGAAAGGATCCATGAAATAATTTCTC
125 GACT-TGGTGGAAAGGAACCATAAAATAATTTCTC
1029874 CTATTTTTGG
Statistics
Matches: 136, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
159 32 0.24
160 85 0.62
161 17 0.12
162 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (159 bp):
TAAATTTAAGTTTAATTTAAATATGCATTAATGAAAAAACTGATTTGAAAAACGAAATCATTGTA
TGTAAATGATATGAAATAAACATTGATGTAGATGATTTTAATCGGTTGAAACCATTGATGACTTG
GTGGAAAGGAACCATAAAATAATTTCTCT
Found at i:1035851 original size:17 final size:17
Alignment explanation
Indices: 1035829--1035863 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1035819 CTCGAAACCG
*
1035829 AACCATAAGTACACGAA
1 AACCATAACTACACGAA
1035846 AACCATAACTACACGAA
1 AACCATAACTACACGAA
1035863 A
1 A
1035864 CATGGTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.26, G:0.09, T:0.11
Consensus pattern (17 bp):
AACCATAACTACACGAA
Found at i:1038132 original size:136 final size:136
Alignment explanation
Indices: 1037956--1038238 Score: 433
Period size: 136 Copynumber: 2.1 Consensus size: 136
1037946 GTCATAGGTG
* *
1037956 CATTTCGGCATACTTTGTGTATGAAGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTT
1 CATTTCGACATAATTTGTGTATGAAGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTT
* * *
1038021 CATATCAGTACTATTTGTACTTTCGACACTAAGTGTG-AACCATGGTATTCATAATGAGTTTGTG
66 CATATCAGTACTATATGTACTTTCGACACCAAGTGTGCAACCATGGAATTCATAATGAGTTTGTG
1038085 AATTAC
131 AATTAC
1038091 CATTTCGACATATATTTGTGTATGAAGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTT
1 CATTTCGACATA-ATTTGTGTATGAAGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTT
** * * * * *
1038156 TTGTATCAGTACTATATGTACTTTCGGCACCATGTTTGCATCTATGGAATTCATAATGAGTTTGT
65 TCATATCAGTACTATATGTACTTTCGACACCAAGTGTGCAACCATGGAATTCATAATGAGTTTGT
*
1038221 GAATTTC
130 GAATTAC
1038228 CATTTCGACAT
1 CATTTCGACAT
1038239 TTAGGTGCGA
Statistics
Matches: 133, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
135 11 0.08
136 82 0.62
137 40 0.30
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (136 bp):
CATTTCGACATAATTTGTGTATGAAGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTT
CATATCAGTACTATATGTACTTTCGACACCAAGTGTGCAACCATGGAATTCATAATGAGTTTGTG
AATTAC
Found at i:1038676 original size:2 final size:2
Alignment explanation
Indices: 1038669--1038696 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1038659 ACTCTGTTTA
1038669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1038697 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1041608 original size:21 final size:22
Alignment explanation
Indices: 1041583--1041624 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1041573 ATATGAAGAG
1041583 TTATAAGAGAAT-AAATATAAA
1 TTATAAGAGAATGAAATATAAA
* *
1041604 TTATATGATAATGAAATATAA
1 TTATAAGAGAATGAAATATAA
1041625 GACTATGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (22 bp):
TTATAAGAGAATGAAATATAAA
Found at i:1042561 original size:23 final size:23
Alignment explanation
Indices: 1042518--1042561 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1042508 GAGTCGAGGG
*
1042518 TCTACGCGGTCCTTTGAGACAAT
1 TCTACGCGGTCCTTCGAGACAAT
* *
1042541 TCTACGTGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGAGACA
1042562 TATAAGTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGAGACAAT
Found at i:1042701 original size:23 final size:23
Alignment explanation
Indices: 1042675--1042743 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 23
1042665 AATTTTATAT
*
1042675 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
1042698 GGCACTTCGGTGTAAATTCTACGT
1 GGCACTTCGGTG-CATTTCTACGC
* *
1042722 GGTACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
1042744 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:1047769 original size:137 final size:136
Alignment explanation
Indices: 1047492--1047762 Score: 445
Period size: 137 Copynumber: 2.0 Consensus size: 136
1047482 GTCATAGGTG
* *
1047492 CATTTCGACATACTTTGTGTATGAAGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTT
1 CATTTCGACATACTTTATGTATGAAGGTTATCGATCAATTTTGTTTAATGCATATGTTGCATTTT
* * *
1047557 CGTATCAGTACTATTTGTACTTTCGGCACTAGGTGTGCAACCATGGTATTCATAATGAGTTTGTG
66 CGTATCAGTACTATATGTACTTTCGGCACCAGGTGTGCAACCATGGTATTCATAATGAGTTTCTG
1047622 AATTAC
131 AATTAC
1047628 CATTTCGACATACATTTATGTATGAAGGTTATCGATCAATTTTGTTTAATGCATATGTTGCATTT
1 CATTTCGACATAC-TTTATGTATGAAGGTTATCGATCAATTTTGTTTAATGCATATGTTGCATTT
* * *
1047693 TCGTATCAGTACTATATGTACTTTTGGCACCATGTGTGCATCCAT-GTAATTCATAATGAGTTTC
65 TCGTATCAGTACTATATGTACTTTCGGCACCAGGTGTGCAACCATGGT-ATTCATAATGAGTTTC
1047757 TGAATT
129 TGAATT
1047763 TTCATTTTGG
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
136 15 0.12
137 110 0.88
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (136 bp):
CATTTCGACATACTTTATGTATGAAGGTTATCGATCAATTTTGTTTAATGCATATGTTGCATTTT
CGTATCAGTACTATATGTACTTTCGGCACCAGGTGTGCAACCATGGTATTCATAATGAGTTTCTG
AATTAC
Found at i:1048212 original size:2 final size:2
Alignment explanation
Indices: 1048205--1048242 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1048195 GCTCTGTTTA
1048205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1048243 GAAGAATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1048700 original size:70 final size:70
Alignment explanation
Indices: 1048570--1048710 Score: 192
Period size: 70 Copynumber: 2.0 Consensus size: 70
1048560 CACCCGATAG
* * * *
1048570 GGTTAGGCAACAATGTGGAAGCAAAACACCACTAGGGCTAATCCAAGTAACCTAGGTTGAACAGA
1 GGTTAGGCAACAATGCGGAAGCAAAACACCACTAGGGCTAATCCAAGCAACCAAGATTGAACAGA
1048635 TCTCA
66 TCTCA
* * * ** *
1048640 GGTTAGGCAACAATGCGTAAGCAAAACACCATTAGGGCTGATCCAAGCCTCCAAGATTGAACGGA
1 GGTTAGGCAACAATGCGGAAGCAAAACACCACTAGGGCTAATCCAAGCAACCAAGATTGAACAGA
1048705 TCTCA
66 TCTCA
1048710 G
1 G
1048711 AAGTACGAGA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (70 bp):
GGTTAGGCAACAATGCGGAAGCAAAACACCACTAGGGCTAATCCAAGCAACCAAGATTGAACAGA
TCTCA
Found at i:1053677 original size:18 final size:17
Alignment explanation
Indices: 1053662--1053695 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1053652 CTTAATTTAA
1053662 ACATAC-TAAATAATTT
1 ACATACATAAATAATTT
1053678 ACATACATTAAATAATTT
1 ACATACA-TAAATAATTT
1053696 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
ACATACATAAATAATTT
Found at i:1054325 original size:21 final size:21
Alignment explanation
Indices: 1054299--1054446 Score: 116
Period size: 21 Copynumber: 7.0 Consensus size: 21
1054289 CCGCGTAGAA
*
1054299 ATGTCCCGAATGACCACATAT
1 ATGTCCCGAAGGACCACATAT
*
1054320 ATGTCCTGAAGGACCACATAGAT
1 ATGTCCCGAAGGACCACAT--AT
* * *
1054343 TTGTCCCTAAGGACAACATAT
1 ATGTCCCGAAGGACCACATAT
* * *
1054364 ATGTTCCAAAGGACCAAATAT
1 ATGTCCCGAAGGACCACATAT
* * ** **
1054385 TTGTCCTGAATAACTGCATAT
1 ATGTCCCGAAGGACCACATAT
* * *
1054406 ATGTTCCAAAGGATCACATAT
1 ATGTCCCGAAGGACCACATAT
*
1054427 ACGTCCCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
1054447 GAACCCTCGA
Statistics
Matches: 92, Mismatches: 33, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
21 75 0.82
23 17 0.18
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:1054354 original size:23 final size:23
Alignment explanation
Indices: 1054276--1054379 Score: 74
Period size: 23 Copynumber: 4.7 Consensus size: 23
1054266 GCCATATAAA
* * * *
1054276 ATGTCCCAAAGGACCGCGTAGAA
1 ATGTCCCTAAGGACCACATAGAT
* *
1054299 ATGTCCCGAATGACCACAT--AT
1 ATGTCCCTAAGGACCACATAGAT
1054320 ATGT-CCTGAAGGACCACATAGAT
1 ATGTCCCT-AAGGACCACATAGAT
* *
1054343 TTGTCCCTAAGGACAACAT--AT
1 ATGTCCCTAAGGACCACATAGAT
* *
1054364 ATGTTCCAAAGGACCA
1 ATGTCCCTAAGGACCA
1054380 AATATTTGTC
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
20 2 0.03
21 29 0.45
23 30 0.47
24 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
ATGTCCCTAAGGACCACATAGAT
Found at i:1054376 original size:44 final size:44
Alignment explanation
Indices: 1054276--1054425 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 44
1054266 GCCATATAAA
* * * ** * *
1054276 ATGTCCCAAAGGACCGCGTAGAAATGTCCCGAATGACCACATAT
1 ATGTTCCAAAGGACCACATAGATTTGTCCCTAATGACAACATAT
* *
1054320 ATG-TCCTGAAGGACCACATAGATTTGTCCCTAAGGACAACATAT
1 ATGTTCC-AAAGGACCACATAGATTTGTCCCTAATGACAACATAT
* * **
1054364 ATGTTCCAAAGGACCA-A-ATATTTGT-CCTGAATAACTGCATAT
1 ATGTTCCAAAGGACCACATAGATTTGTCCCT-AATGACAACATAT
*
1054406 ATGTTCCAAAGGATCACATA
1 ATGTTCCAAAGGACCACATA
1054426 TACGTCCCGA
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.04
42 31 0.36
43 4 0.05
44 44 0.52
45 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGTTCCAAAGGACCACATAGATTTGTCCCTAATGACAACATAT
Found at i:1058151 original size:21 final size:20
Alignment explanation
Indices: 1058107--1058152 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1058097 TGTTTGTGCG
* *
1058107 TTTCTAGCCGTTGGGGATGA
1 TTTCTACCCGTTGGGAATGA
*
1058127 TTTCTACCCGTTTGGGAATGT
1 TTTCTACCCG-TTGGGAATGA
1058148 TTTCT
1 TTTCT
1058153 CTGCAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.43
Consensus pattern (20 bp):
TTTCTACCCGTTGGGAATGA
Found at i:1058487 original size:847 final size:843
Alignment explanation
Indices: 1056781--1059270 Score: 3736
Period size: 847 Copynumber: 2.9 Consensus size: 843
1056771 TGGGTAAATA
* * **
1056781 TTAGGATTTATGAAGCTTAATTTGAACAACCAAAAAATGTACAAGAGGGGTGAATTGGCAAATAT
1 TTAGGATTTATGAAGCTCAATTTGAACAACCGAAAAATGTACAAGA-GGGTGAATTGATAAATAT
* * * * *
1056846 TATTTAAGGAGTAAAGAGAAAGAAAAGATAAACAACTTTGCACAACGATTTATAGTGGTTTGACT
65 TGTTTAGGGAGTAAGGAGAAAGAAAAGATAGACAATTTTGCACAACGATTTATAGTGGTTTGACT
* * * * *
1056911 TCTCAACTAATTCTACATCCACTACCTTAGCTCATCACTAAGGATTTTCCAACTAATCCACTAAT
130 TCTCAATTAATTATACATCCACTAACTTAGCTCCTCACTAAGGATTTTCCAACAAATCCACTAAT
* *
1056976 TTGTTCTTTCTTTTTCAAAGACAAAGAGATAACATTTACAACTCCCTAGCTTTTAACACGCTTAG
195 TTGTTCTTTCTTTTTC-AAGAAAAAGAGATAACCTTTACAACTCCCTAGCTTTTAACA-GCTTAG
* *
1057041 CTAGAACCAAAACCCCTTTACAAAAGAT-AAAAAAAGTAAACAATAAAACCTCTGCAAAGTATGA
258 CTAGAACCAAAACCCCTTTACAAAAGATAAAAAAAAGTAAACAATAAAACCTCTGCAAAGTAGGG
1057105 TGTTTACAAATTAAAGCTCACAAAACACAATATTTACAAGAGAAAGAAAATAAAGAGTGAAAAAT
323 TGTTTACAAATTAAAGCTCACAAAACACAATATTTACAAGAGAAAGAAAATAAAGAGTGAAAAAT
* * *
1057170 GTTTCTCTTGTGTTTGATTACTTGGATAGGTGTTCTAACTCTTCTTCAAATATCTTGAACTTGTA
388 ATTTCTATTGTGTTTGATTACTTGGATAGGTGTTCTAAC-CTTCTTCAAGTATCTTGAACTTGTA
* * *
1057235 TTTATATGTTGGAATATGTTTGTGCGTTTCTAGTCGTTGGGGATGATTTCTAGCCATATGGGAAT
452 TTTATATGTTGGAATGTGTTTGTGCGTTTCTAGCCGTTGGGGATGATTTCTAGCCATTTGGGAAT
*
1057300 GTTTTCTCTGCAAAAAGAAACTG-CTAGTACAGAGGGTATCGGTACTCCTATAGGGAGTATCGGT
517 GTTTTCTCTGCAAAAAGAAACTGCCCAGTACAGAGGGTATCGGTACTCCTATAGGGAGTATCGGT
* * *
1057364 ACTACCTTTGTTATTTTAAAATAAAACTAGTTGTTGGGTCTGACGGTATCGATACTAAGCATATA
582 ACTACCTTTGTTATTTTTAAATAAAACTAGTTGTTGGGTCTGACGGTATCGATACTAAGCCTATG
* * *
1057429 GTATCAATACTACTATATAAAGTAGTATTGGTATCCCTTTGGGTATCAGTACCATTTTTGCATT-
647 GTATCGATACTACTATGTAAAGTAGTATTGGTACCCCTTTGGGTATCAGTACCATTTTTGCATTC
* * * *
1057493 TAAAAATTTGAGCAATGTTGGTAGTATCGGTATTATCTAGAGGGTATC-AGTACTTCTCTTACAT
712 T-AAAATTTGAGCAATGTTGGTAGTATCGGTACTACCTAGAGAGTATCGA-TACTTCTCTTACCT
** * * * * *
1057557 AGGGTATTGGTACCACCTGAACAATATTTGTACTGTTCATATAGTACCGATAATGTAAGAGAAAT
775 AGGGTATCAGTACCACATAAACAATATCTATACTGTTCATATAGTACCGATAATATAAGAGAAAT
1057622 ATTG
840 ATTG
* *
1057626 TTAGGATTTATGAAGCTCAATATGAACAACCGAAAAGTGTACAAGATGGGTGAATTGATAAATAT
1 TTAGGATTTATGAAGCTCAATTTGAACAACCGAAAAATGTACAAGA-GGGTGAATTGATAAATAT
* **
1057691 TGTTTAGGGAGTAAGGAGAAAGAAAAGATAGACAATTTTTCACAATAATTTATAGTGGTTTGACT
65 TGTTTAGGGAGTAAGGAGAAAGAAAAGATAGACAATTTTGCACAACGATTTATAGTGGTTTGACT
* *
1057756 TCTTAATTAATTATACATCCATTAACTTAGCTCCTCACTAAGGATTTTCCAACAAATCCACTAAT
130 TCTCAATTAATTATACATCCACTAACTTAGCTCCTCACTAAGGATTTTCCAACAAATCCACTAAT
*
1057821 TTATTCTTTCTTTTTCAAGGAAAAAGAGATAACCTTTACAACTCCCTAGCTTTTAACAGACTTAG
195 TTGTTCTTTCTTTTTCAA-GAAAAAGAGATAACCTTTACAACTCCCTAGCTTTTAACAG-CTTAG
*
1057886 CTAGAACCAAAACCCCTTTACAAAAGATAAAAAAAAGTAAACAATAAAACCTCTGTAAAGTAGGG
258 CTAGAACCAAAACCCCTTTACAAAAGATAAAAAAAAGTAAACAATAAAACCTCTGCAAAGTAGGG
* * *
1057951 TGTTTACAAATTAAAGCTCATAAAACACAATATTTACAAGAGAAAGAAAATAAAGAATGAAAAAC
323 TGTTTACAAATTAAAGCTCACAAAACACAATATTTACAAGAGAAAGAAAATAAAGAGTGAAAAAT
1058016 ATTTCTATTGTGTTTGATTACTTGGATAGGTGTTCTAACCATTCTTCAAGTATCTTGAACTTGTA
388 ATTTCTATTGTGTTTGATTACTTGGATAGGTGTTCTAACC-TTCTTCAAGTATCTTGAACTTGTA
* *
1058081 TTTATATGTTGGAATGTGTTTGTGCGTTTCTAGCCGTTGGGGATGATTTCTACCCGTTTGGGAAT
452 TTTATATGTTGGAATGTGTTTGTGCGTTTCTAGCCGTTGGGGATGATTTCTAGCCATTTGGGAAT
* ***
1058146 GTTTTCTCTGCAAAAAGAAACTGCCCAGTACAGAGGATATTAATACTCCTATAGGGAGTATCGGT
517 GTTTTCTCTGCAAAAAGAAACTGCCCAGTACAGAGGGTATCGGTACTCCTATAGGGAGTATCGGT
1058211 ACTACCTTTGTTATTTTTAAATAAAACTAGTTGTTGGGTCTGACGGTATCGATACTAAGCCTATG
582 ACTACCTTTGTTATTTTTAAATAAAACTAGTTGTTGGGTCTGACGGTATCGATACTAAGCCTATG
* *
1058276 GTATCGATACTATTATGTAAAGTAGTATTGGTACCCCTTTGGGTATCAATACCATTTTTGCATTC
647 GTATCGATACTACTATGTAAAGTAGTATTGGTACCCCTTTGGGTATCAGTACCATTTTTGCATTC
* *
1058341 TAAAATATGAGCAATGTTGGTAATATCGGTACTACCTAGAGAGTATCGATACTTCTCTTACCTAG
712 TAAAATTTGAGCAATGTTGGTAGTATCGGTACTACCTAGAGAGTATCGATACTTCTCTTACCTAG
* * * *
1058406 GGTATCAGTACCACATAAATAGTATCTATATTGTTCATATAGTACCGATACTATAAGA-ACAATA
777 GGTATCAGTACCACATAAACAATATCTATACTGTTCATATAGTACCGATAATATAAGAGA-AATA
1058470 TTG
841 TTG
*
1058473 TTATGATTTATGAAGCTCAATTTGAACAACCGAAAAATGTACAAGAGAGGTGAATTGATAAATAT
1 TTAGGATTTATGAAGCTCAATTTGAACAACCGAAAAATGTACAAGAG-GGTGAATTGATAAATAT
*
1058538 TGTTTAGGAAGTAAGGAGAAAGAAAAGATAGACAATTTTGCACAACGATTTATAGTGGTTTGACT
65 TGTTTAGGGAGTAAGGAGAAAGAAAAGATAGACAATTTTGCACAACGATTTATAGTGGTTTGACT
* *
1058603 TCTCAATTAAGTATACATCCACTAACTTAGCTCCTCACTAAGGATTTTCCAACAAATCCACCAAT
130 TCTCAATTAATTATACATCCACTAACTTAGCTCCTCACTAAGGATTTTCCAACAAATCCACTAAT
* * *
1058668 TTGTTCTTTCTTTTTCAACAACAAAGAGATAACCTTTAGAACTCCATAGCTTTTAACAGGCTTAG
195 TTGTTCTTTCTTTTTCAAGAA-AAAGAGATAACCTTTACAACTCCCTAGCTTTTAACA-GCTTAG
* * **
1058733 CTAGAACCAAAACCCCTTTACAAATGATAAAAAGAAGTAAACAATAAAACCTCTGCATGGTAGGG
258 CTAGAACCAAAACCCCTTTACAAAAGATAAAAAAAAGTAAACAATAAAACCTCTGCAAAGTAGGG
*
1058798 TGTTTACAAATTAAAGCAT-ACAAAACACAATATTTACAAGAGAAAGAAAATAAAGAGTGGAAAA
323 TGTTTACAAATTAAAGC-TCACAAAACACAATATTTACAAGAGAAAGAAAATAAAGAGTGAAAAA
* * ** *
1058862 TATTTCTGTTGTGTTTGATTGA-TTAGATATATGTTCTAACCTTTTTTCAAGTATCTTGAACTTG
387 TATTTCTATTGTGTTTGATT-ACTTGGATAGGTGTTCTAACC-TTCTTCAAGTATCTTGAACTTG
*
1058926 TATTTATATGTTGGAATGTGTTTGTGGTCGTTTCTAGCCGTTGGGGATGATTTCTAGTCATTTGT
450 TATTTATATGTTGGAATGTGTTTGT-G-CGTTTCTAGCCGTTGGGGATGATTTCTAGCCATTTG-
* * * *
1058991 GG-ATCTTTTCTCTGCAAAAATAAACTACCCAGTACAGAGGGTATCGGTACTCCTATAGAGAGTA
512 GGAATGTTTTCTCTGCAAAAAGAAACTGCCCAGTACAGAGGGTATCGGTACTCCTATAGGGAGTA
* * * * *
1059055 TCGTTACTACCTTTTTTATTTTTAAATAAAACTAGCCATTACTAGTTGTTGGGCCTTACAGTATC
577 TCGGTACTACCTTTGTTATTTTTAAAT---A--A---A--ACTAGTTGTTGGGTCTGACGGTATC
* * * *
1059120 GATACTAAGTCTATGGTATCGATACTACTATGTAAAGTAGTATCGATACCCCTTTGGGTATCGGT
632 GATACTAAGCCTATGGTATCGATACTACTATGTAAAGTAGTATTGGTACCCCTTTGGGTATCAGT
** *
1059185 ACCATTTTTGCATTCTGTAATTTGAGCAATGCTGGTAGTATCGGTACTACCTAGAGAGTATCGAT
697 ACCATTTTTGCATTCTAAAATTTGAGCAATGTTGGTAGTATCGGTACTACCTAGAGAGTATCGAT
1059250 ACTTCTCTTACCTAGGGTATC
762 ACTTCTCTTACCTAGGGTATC
1059271 GATACTTCTC
Statistics
Matches: 1493, Mismatches: 126, Indels: 38
0.90 0.08 0.02
Matches are distributed among these distances:
844 3 0.00
845 259 0.17
846 242 0.16
847 704 0.47
848 6 0.00
849 112 0.08
850 2 0.00
852 1 0.00
854 1 0.00
857 1 0.00
859 162 0.11
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (843 bp):
TTAGGATTTATGAAGCTCAATTTGAACAACCGAAAAATGTACAAGAGGGTGAATTGATAAATATT
GTTTAGGGAGTAAGGAGAAAGAAAAGATAGACAATTTTGCACAACGATTTATAGTGGTTTGACTT
CTCAATTAATTATACATCCACTAACTTAGCTCCTCACTAAGGATTTTCCAACAAATCCACTAATT
TGTTCTTTCTTTTTCAAGAAAAAGAGATAACCTTTACAACTCCCTAGCTTTTAACAGCTTAGCTA
GAACCAAAACCCCTTTACAAAAGATAAAAAAAAGTAAACAATAAAACCTCTGCAAAGTAGGGTGT
TTACAAATTAAAGCTCACAAAACACAATATTTACAAGAGAAAGAAAATAAAGAGTGAAAAATATT
TCTATTGTGTTTGATTACTTGGATAGGTGTTCTAACCTTCTTCAAGTATCTTGAACTTGTATTTA
TATGTTGGAATGTGTTTGTGCGTTTCTAGCCGTTGGGGATGATTTCTAGCCATTTGGGAATGTTT
TCTCTGCAAAAAGAAACTGCCCAGTACAGAGGGTATCGGTACTCCTATAGGGAGTATCGGTACTA
CCTTTGTTATTTTTAAATAAAACTAGTTGTTGGGTCTGACGGTATCGATACTAAGCCTATGGTAT
CGATACTACTATGTAAAGTAGTATTGGTACCCCTTTGGGTATCAGTACCATTTTTGCATTCTAAA
ATTTGAGCAATGTTGGTAGTATCGGTACTACCTAGAGAGTATCGATACTTCTCTTACCTAGGGTA
TCAGTACCACATAAACAATATCTATACTGTTCATATAGTACCGATAATATAAGAGAAATATTG
Found at i:1059272 original size:24 final size:24
Alignment explanation
Indices: 1059232--1059293 Score: 106
Period size: 24 Copynumber: 2.5 Consensus size: 24
1059222 GTATCGGTAC
1059232 TACCTAGAGAGTATCGATACTTCTCT
1 TACCTAG-G-GTATCGATACTTCTCT
1059258 TACCTAGGGTATCGATACTTCTCT
1 TACCTAGGGTATCGATACTTCTCT
1059282 TACCTAGGGTAT
1 TACCTAGGGTAT
1059294 TAGTACCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 28 0.78
25 1 0.03
26 7 0.19
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (24 bp):
TACCTAGGGTATCGATACTTCTCT
Found at i:1061847 original size:21 final size:21
Alignment explanation
Indices: 1061815--1061854 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1061805 AACTGTCTAG
1061815 TATAGAGGGTATAGATACTCC
1 TATAGAGGGTATAGATACTCC
*
1061836 TATAG-GGAGTATCGATACT
1 TATAGAGG-GTATAGATACT
1061855 ACCTTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (21 bp):
TATAGAGGGTATAGATACTCC
Found at i:1062584 original size:2 final size:2
Alignment explanation
Indices: 1062579--1062614 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1062569 ATAGTGTGTG
1062579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1062615 CATTTCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1063734 original size:20 final size:20
Alignment explanation
Indices: 1063709--1063757 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1063699 CATGGAAAAA
*
1063709 GTATCGATACTACA-GAGTTG
1 GTATCGATACT-CATGAGATG
*
1063729 GTATCGATACTCATGGGATG
1 GTATCGATACTCATGAGATG
1063749 GTATCGATA
1 GTATCGATA
1063758 TCGACATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.31
Consensus pattern (20 bp):
GTATCGATACTCATGAGATG
Found at i:1067649 original size:73 final size:73
Alignment explanation
Indices: 1067366--1067967 Score: 953
Period size: 73 Copynumber: 8.3 Consensus size: 73
1067356 ATAAACAATG
* *
1067366 AATTAAGAAATTAGTAACATTTATT-AATTTTTTCAATAATAAGATTGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1067430 AGTATCTT
66 AGTATCTT
1067438 AATTAAGAAATTAGTAATATTTATT-AATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1067502 AGTATCTT
66 AGTATCTT
* * *
1067510 AATTAA-AAATTTAGTAATATTTATT-AATTTTTT-AATAATAAGATCAAGTTATCAAATGGTTC
1 AATTAAGAAA-TTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTT
*
1067572 TAGTATTTT
65 TAGTATCTT
1067581 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1067646 AGTATCTT
66 AGTATCTT
* * *
1067654 AATTAAGAAATTAGTAATATCTATTAATTTTTTTCAATAATAACATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1067719 AGTATCTT
66 AGTATCTT
* ** *
1067727 AATTAAGAAATTAATAATATTTATTATTTTTTTTTCAATAATAAGATTGAGTGATCAAATGGTTT
1 AATTAAGAAATTAGTAATATTTATTA-AATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTT
1067792 TAGTATCTT
65 TAGTATCTT
* * *
1067801 AATTACGAAATTATTAATATTTATTAATTTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1067866 AGTATCTT
66 AGTATCTT
* * * *
1067874 AATTAAGAAATTAATAATATTTATTAATTTTTTTCAATAATAAAATCGAGTTATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1067939 AGTATCTT
66 AGTATCTT
* *
1067947 AATTACGAAATTAGTTATATT
1 AATTAAGAAATTAGTAATATT
1067968 GAGAATTAGA
Statistics
Matches: 496, Mismatches: 29, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
71 58 0.12
72 110 0.22
73 260 0.52
74 68 0.14
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (73 bp):
AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
AGTATCTT
Found at i:1067826 original size:147 final size:145
Alignment explanation
Indices: 1067366--1067967 Score: 967
Period size: 147 Copynumber: 4.1 Consensus size: 145
1067356 ATAAACAATG
* *
1067366 AATTAAGAAATTAGTAACATTTATTAATTTTTTCAATAATAAGATTGAGTGATCAAATGGTTTTA
1 AATTAAGAAATTAGTAATATTTATTAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTTA
*
1067431 GTATCTTAATTAAGAAATTAGTAATATTTATT-AATTTTTTCAATAATAAGATCGAGTGATCAAA
66 GTATCTTAATTAAGAAATTAATAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAA
1067495 TGGTTTTAGTATCTT
131 TGGTTTTAGTATCTT
* * *
1067510 AATTAA-AAATTTAGTAATATTTATTAATTTTTT-AATAATAAGATCAAGTTATCAAATGGTTCT
1 AATTAAGAAA-TTAGTAATATTTATTAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
* *
1067573 AGTATTTTAATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAA
65 AGTATCTTAATTAAGAAATTAATAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAA
1067638 ATGGTTTTAGTATCTT
130 ATGGTTTTAGTATCTT
* *
1067654 AATTAAGAAATTAGTAATATCTATTAATTTTTTTCAATAATAACATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAA-TTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
** *
1067719 AGTATCTTAATTAAGAAATTAATAATATTTATTATTTTTTTTTCAATAATAAGATTGAGTGATCA
65 AGTATCTTAATTAAGAAATTAATAATATTTATTA-AATTTTTTCAATAATAAGATCGAGTGATCA
1067784 AATGGTTTTAGTATCTT
129 AATGGTTTTAGTATCTT
* *
1067801 AATTACGAAATTATTAATATTTATTAATTTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAA-TTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
* * *
1067866 AGTATCTTAATTAAGAAATTAATAATATTTATTAATTTTTTTCAATAATAAAATCGAGTTATCAA
65 AGTATCTTAATTAAGAAATTAATAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAA
1067931 ATGGTTTTAGTATCTT
130 ATGGTTTTAGTATCTT
* *
1067947 AATTACGAAATTAGTTATATT
1 AATTAAGAAATTAGTAATATT
1067968 GAGAATTAGA
Statistics
Matches: 426, Mismatches: 26, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
143 61 0.14
144 97 0.23
145 9 0.02
146 120 0.28
147 139 0.33
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (145 bp):
AATTAAGAAATTAGTAATATTTATTAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTTA
GTATCTTAATTAAGAAATTAATAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAA
TGGTTTTAGTATCTT
Found at i:1067844 original size:220 final size:216
Alignment explanation
Indices: 1067366--1067959 Score: 967
Period size: 220 Copynumber: 2.7 Consensus size: 216
1067356 ATAAACAATG
* *
1067366 AATTAAGAAATTAGTAACATTTATTAATTTTTTCAATAATAAGATTGAGTGATCAAATGGTTTTA
1 AATTAAGAAATTAGTAATATTTATTAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTTA
*
1067431 GTATCTTAATTAAGAAATTAGTAATATTTATTAA-TTTTTTCAATAATAAGATCGAGTGATCAAA
66 GTATCTTAATTAAGAAATTAGTAATATTTATTAATTTTTTTCAATAATAAAATCGAGTGATCAAA
*
1067495 TGGTTTTAGTATCTTAATTAA-AAATTTAGTAATATTTATTAATTTTTTAATAATAAGATCAAGT
131 TGGTTTTAGTATCTTAATTAAGAAA-TTAATAATATTTATTAATTTTTTAATAATAAGATCAAGT
* *
1067559 TATCAAATGGTTCTAGTATTTT
195 GATCAAATGGTTCTAGTATCTT
1067581 AATTAAGAAATTAGTAATATTTATTAAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATT-AATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
* *
1067646 AGTATCTTAATTAAGAAATTAGTAATATCTATTAATTTTTTTCAATAATAACATCGAGTGATCAA
65 AGTATCTTAATTAAGAAATTAGTAATATTTATTAATTTTTTTCAATAATAAAATCGAGTGATCAA
* **
1067711 ATGGTTTTAGTATCTTAATTAAGAAATTAATAATATTTATTATTTTTTTTTCAATAATAAGATTG
130 ATGGTTTTAGTATCTTAATTAAGAAATTAATAATATTTATTA--ATTTTTT-AATAATAAGATCA
*
1067776 AGTGATCAAATGGTTTTAGTATCTT
192 AGTGATCAAATGGTTCTAGTATCTT
* *
1067801 AATTACGAAATTATTAATATTTATTAATTTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
1 AATTAAGAAATTAGTAATATTTATTAA-TTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTT
* *
1067866 AGTATCTTAATTAAGAAATTAATAATATTTATTAATTTTTTTCAATAATAAAATCGAGTTATCAA
65 AGTATCTTAATTAAGAAATTAGTAATATTTATTAATTTTTTTCAATAATAAAATCGAGTGATCAA
*
1067931 ATGGTTTTAGTATCTTAATTACGAAATTA
130 ATGGTTTTAGTATCTTAATTAAGAAATTA
1067960 GTTATATTGA
Statistics
Matches: 354, Mismatches: 18, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
215 24 0.07
216 72 0.20
217 65 0.18
218 3 0.01
219 8 0.02
220 182 0.51
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (216 bp):
AATTAAGAAATTAGTAATATTTATTAATTTTTTCAATAATAAGATCGAGTGATCAAATGGTTTTA
GTATCTTAATTAAGAAATTAGTAATATTTATTAATTTTTTTCAATAATAAAATCGAGTGATCAAA
TGGTTTTAGTATCTTAATTAAGAAATTAATAATATTTATTAATTTTTTAATAATAAGATCAAGTG
ATCAAATGGTTCTAGTATCTT
Found at i:1072238 original size:18 final size:18
Alignment explanation
Indices: 1072215--1072284 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
1072205 ATTCTAAATG
1072215 TTTACAGTTATCAGACAT
1 TTTACAGTTATCAGACAT
* *
1072233 TTTACAGTTATCAGGCGTT
1 TTTACAGTTATCAGAC-AT
**
1072252 TTTA-AGTTATCAGATGT
1 TTTACAGTTATCAGACAT
1072269 TTTACAGTTATCAGAC
1 TTTACAGTTATCAGAC
1072285 GTAGATTAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.11
18 34 0.77
19 5 0.11
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTACAGTTATCAGACAT
Found at i:1087355 original size:324 final size:324
Alignment explanation
Indices: 1086766--1087418 Score: 1216
Period size: 324 Copynumber: 2.0 Consensus size: 324
1086756 TGCGATCATT
1086766 TGAATCATGGAATTATGACACTCGAAATTCAAGAAGCCCATTTTAAGCTCAAACATGTGATGTTC
1 TGAATCATGGAATTATGACACTCGAAATTCAAGAAGCCCATTTTAAGCTCAAACATGTGATGTTC
*
1086831 AATATGTTAAATTCTATAGGGTAATTTGGGGGCTTGCCAACTACATATTCTAGGTAGCAAATTCA
66 AATATGTTAAATTCTATAGGGTAATTTGGGGGCTTGCCAACTACAGATTCTAGGTAGCAAATTCA
*
1086896 ATATGTTAAATTCTATTTTCATACTATTTGTGTGATAGAGTGAGGGCTTGGTTGAGTGGTGTTCC
131 ATATGTTAAATTCTATTTTCATACTATTTGTGTGACAGAGTGAGGGCTTGGTTGAGTGGTGTTCC
*
1086961 ATCTGGTTGAGTGGAATCATGGACCAATCTTTGTAAACGTTTCCTATTGCGCTATAACCTGCCAA
196 ATCTGGTTGAGTGAAATCATGGACCAATCTTTGTAAACGTTTCCTATTGCGCTATAACCTGCCAA
* * *
1087026 ACATGAACACTCAGCTGAAGAATAACATAGCATCCTTTCGCCAAGGCGATGATGAATCTATTTA
261 ACATGAACACTCAGCTGAAGAATAACATAGCATCCTTTCGCCAAGGCGATGACGAATATATGTA
*
1087090 TGAATCATGGAATTATGGCACTCGAAATTCAAGAAGCCCATTTTAAGCTCAAACATGTGATGTTC
1 TGAATCATGGAATTATGACACTCGAAATTCAAGAAGCCCATTTTAAGCTCAAACATGTGATGTTC
1087155 AATATGTTAAATTCTATAGGGTAATTTGGGGGCTTGCCAACTACAGATTCTAGGTAGCAAATTCA
66 AATATGTTAAATTCTATAGGGTAATTTGGGGGCTTGCCAACTACAGATTCTAGGTAGCAAATTCA
1087220 ATATGTTAAATTCTATTTTCATACTATTTGTGTGACAGAGTGAGGGCTTGGTTGAGTGGTGTTCC
131 ATATGTTAAATTCTATTTTCATACTATTTGTGTGACAGAGTGAGGGCTTGGTTGAGTGGTGTTCC
* **
1087285 ATCTGGTTGAGTGAAATCATGGGCTGATCTTTGTAAACGTTTCCTATTGCGCTATAACCTGCCAA
196 ATCTGGTTGAGTGAAATCATGGACCAATCTTTGTAAACGTTTCCTATTGCGCTATAACCTGCCAA
1087350 ACATGAACACTCAGCTGAAGAATAACATAGCATCCTTTCGCCAAGGCGATGACGAATATATGTA
261 ACATGAACACTCAGCTGAAGAATAACATAGCATCCTTTCGCCAAGGCGATGACGAATATATGTA
1087414 TGAAT
1 TGAAT
1087419 ATTGAGATCG
Statistics
Matches: 319, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
324 319 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (324 bp):
TGAATCATGGAATTATGACACTCGAAATTCAAGAAGCCCATTTTAAGCTCAAACATGTGATGTTC
AATATGTTAAATTCTATAGGGTAATTTGGGGGCTTGCCAACTACAGATTCTAGGTAGCAAATTCA
ATATGTTAAATTCTATTTTCATACTATTTGTGTGACAGAGTGAGGGCTTGGTTGAGTGGTGTTCC
ATCTGGTTGAGTGAAATCATGGACCAATCTTTGTAAACGTTTCCTATTGCGCTATAACCTGCCAA
ACATGAACACTCAGCTGAAGAATAACATAGCATCCTTTCGCCAAGGCGATGACGAATATATGTA
Found at i:1092380 original size:15 final size:15
Alignment explanation
Indices: 1092360--1092394 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1092350 AATAAAGAAT
*
1092360 TTATTTTTATTTTTC
1 TTATTTTTATTTTTA
1092375 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
1092390 TTATT
1 TTATT
1092395 CATGGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:1097672 original size:18 final size:18
Alignment explanation
Indices: 1097629--1097672 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1097619 CTAAATGTTC
1097629 ACAGTTATCAGATGTTTT
1 ACAGTTATCAGATGTTTT
*
1097647 TCAGTTATCAGATGTTTT
1 ACAGTTATCAGATGTTTT
*
1097665 ACATTTAT
1 ACAGTTAT
1097673 AAGACAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (18 bp):
ACAGTTATCAGATGTTTT
Found at i:1098278 original size:16 final size:16
Alignment explanation
Indices: 1098257--1098294 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
1098247 GTTTTACTTA
1098257 GTGCGTGATTATTTTC
1 GTGCGTGATTATTTTC
1098273 GTGCGTGATTATTTTC
1 GTGCGTGATTATTTTC
*
1098289 ATGCGT
1 GTGCGT
1098295 AGGTTCGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.47
Consensus pattern (16 bp):
GTGCGTGATTATTTTC
Found at i:1100723 original size:81 final size:81
Alignment explanation
Indices: 1100604--1101258 Score: 927
Period size: 81 Copynumber: 8.1 Consensus size: 81
1100594 ATTATTCCAA
* * * *
1100604 AGTAAAAGATTAATAGCCTAGTTGTGCATTAGGAAGAAAGGTGTCAATTATACTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
* *
1100669 AGGTCAAATACCTTTA
66 AGGTTAAATACCTTTG
* * * * * *
1100685 AGCAAAAGAATAATAGCCTAGCTGTACATTTGGCAGAAAGGTTTTAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
*
1100750 AGGTTAAAAACCTTTG
66 AGGTTAAATACCTTTG
* *
1100766 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
*
1100831 AGGTTAAATATCTTTG
66 AGGTTAAATACCTTTG
*
1100847 AGTAAAAGATTAATAGCCTAGTTGTGCATTTGGC-GAAAAGGTGTCAATTATGCTAGTTAGATGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAG-AAAGGTGTCAATTATGCTAGTTAGATGA
*
1100911 AAGGTTAAATACTTTTG
65 AAGGTTAAATACCTTTG
* *
1100928 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1100993 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
1101009 AGTAAAAGATTAATAGCTTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
*
1101074 AGGTTAAATACCTTTA
66 AGGTTAAATACCTTTG
* * * * *
1101090 AGTAAAATATTAATAGCCTAACTGTACATTTGGCAGAAATGTGTCAATTATG-TCAGTTAGTTGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCT-AGTTAGATGA
*
1101154 AAGGTTAAATAACTTTG
65 AAGGTTAAATACCTTTG
* * * * **
1101171 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAGAAAAGTTTCAATCATGAAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
** *
1101236 AGACTAAATGCCTTTG
66 AGGTTAAATACCTTTG
*
1101252 GGTAAAA
1 AGTAAAA
1101259 CACTAAAGGA
Statistics
Matches: 514, Mismatches: 56, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
80 2 0.00
81 511 0.99
82 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:1101328 original size:2 final size:2
Alignment explanation
Indices: 1101321--1101367 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1101311 AGGGATGTTG
1101321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1101363 TA TA T
1 TA TA T
1101368 GTACAACAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1103764 original size:20 final size:19
Alignment explanation
Indices: 1103714--1103769 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
1103704 AACCAATAAT
1103714 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
1103733 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
1103753 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
1103770 GAAGATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:1104125 original size:26 final size:26
Alignment explanation
Indices: 1104095--1104150 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
1104085 AAACATAGTA
1104095 AATAAGTA-AACATAGATAAAAATAAT
1 AATAA-TATAACATAGATAAAAATAAT
* * *
1104121 AATAATATAATATATATATAAATAAT
1 AATAATATAACATAGATAAAAATAAT
1104147 AATA
1 AATA
1104151 GGAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (26 bp):
AATAATATAACATAGATAAAAATAAT
Found at i:1104132 original size:11 final size:11
Alignment explanation
Indices: 1104116--1104166 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
1104106 ATAGATAAAA
1104116 ATAATAATAAT
1 ATAATAATAAT
1104127 ATAAT-ATATAT
1 ATAATAATA-AT
1104138 ATAAATAATAAT
1 AT-AATAATAAT
*
1104150 AGGAA-AATAAT
1 A-TAATAATAAT
1104161 ATAATA
1 ATAATA
1104167 TAACGCAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
10 5 0.15
11 17 0.52
12 8 0.24
13 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:1104158 original size:26 final size:28
Alignment explanation
Indices: 1104110--1104169 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
1104100 GTAAACATAG
* *
1104110 ATAAA-AATAATAATAATATAATATATAT
1 ATAAATAATAATAAGAAAATAATATA-AT
*
1104138 ATAAATAATAATAGGAAAATAATATAAT
1 ATAAATAATAATAAGAAAATAATATAAT
1104166 ATAA
1 ATAA
1104170 CGCAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
ATAAATAATAATAAGAAAATAATATAAT
Found at i:1104162 original size:23 final size:23
Alignment explanation
Indices: 1104118--1104169 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
1104108 AGATAAAAAT
* *
1104118 AATAATAATATAATATATATATA
1 AATAATAATAGAAAATATATATA
1104141 AATAATAATAGGAAAATA-ATATA
1 AATAATAATA-GAAAATATATATA
1104164 ATATAA
1 A-ATAA
1104170 CGCAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AATAATAATAGAAAATATATATA
Found at i:1104213 original size:23 final size:24
Alignment explanation
Indices: 1104179--1104243 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
1104169 ACGCAAAGAA
1104179 AAATGAAA-AAAATTATAAT-AAAT
1 AAAT-AAATAAAATTATAATCAAAT
1104202 AAATAAATAAAA-TATAATCAAAT
1 AAATAAATAAAATTATAATCAAAT
* * *
1104225 ATATACATATAAATAATAA
1 AAATAAATA-AAATTATAA
1104244 GGGTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 9 0.26
23 19 0.54
24 3 0.09
25 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATAAATAAAATTATAATCAAAT
Found at i:1104684 original size:37 final size:37
Alignment explanation
Indices: 1104643--1104727 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
1104633 GGATCCTATC
* * *
1104643 TTTAGGAGTTTAAATAATAGTAGAACTCTATCTTATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
* ** *
1104680 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCATATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
*
1104717 TTTAAGAGTTT
1 TTTAGGAGTTT
1104728 GAATCCTAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (37 bp):
TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
Found at i:1105898 original size:106 final size:106
Alignment explanation
Indices: 1105768--1106328 Score: 729
Period size: 106 Copynumber: 5.3 Consensus size: 106
1105758 TGACCCCTTC
* * * * * * *
1105768 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAGTTGGTTCTGGAACTGGAAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAATGGAAAGTTGTTTGTTGACA
* *
1105833 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGTCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1105874 CGAGTCCAATATCCTTCGCTGTGAAGATGAAATTGGCTCTGAAACTTGGAAA-TGGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-ATGGAAAGTTGTTTGTTGAC
* *
1105938 AACCAGTCGTACCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
65 AACCAGTCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
1105980 CGAGTCCAATATCATTCGTTGTGAAGTTGAGATTCGCTCTG-AAATTGAGAAGTTGTTTGTTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAATGGA-AAGTTGTTTGTTGAC
*
1106044 AACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
65 AACCAGTCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
1106086 -GTAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-AAAATTGAGAAGTTATTTGTTGA
1 CG-AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAATGGA-AAGTTGTTTGTTGA
*
1106149 CAACCAG-CAGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCT
64 CAACCAGTC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
1106192 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAATGGAAAGTTGTTTGTTGACA
* *
1106257 ACTAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGTC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
1106298 GGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAA
1106329 CTTGCGTTGT
Statistics
Matches: 408, Mismatches: 39, Indels: 16
0.88 0.08 0.03
Matches are distributed among these distances:
104 3 0.01
105 5 0.01
106 388 0.95
107 12 0.03
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAATGGAAAGTTGTTTGTTGACA
ACCAGTCGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:1106328 original size:43 final size:43
Alignment explanation
Indices: 1106267--1106371 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
1106257 ACTAGCGGTC
*
1106267 CCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
*
1106310 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTTGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
*
1106353 CCTTCGCTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
1106372 ATTGGCTCTG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
Found at i:1106347 original size:149 final size:149
Alignment explanation
Indices: 1106161--1106436 Score: 489
Period size: 149 Copynumber: 1.9 Consensus size: 149
1106151 ACCAGCAGTC
1106161 CCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* * *
1106226 GACTCTGAAATTGGGAAGTTGTTTATTGACAACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
66 GACTCTGAAATTGGGAAGTTATTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
1106291 ATTGTCTGGAGTCCAATAT
131 ATTGTCTGGAGTCCAATAT
* *
1106310 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
* *
1106375 GGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCAGTCCCTTCGTTGTGAAGTTGAACT
66 GACTCTGAAATTGGGAAGTTATTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACT
1106437 CCACTCTCGA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 120 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (149 bp):
CCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
GACTCTGAAATTGGGAAGTTATTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGC
ATTGTCTGGAGTCCAATAT
Found at i:1107858 original size:11 final size:10
Alignment explanation
Indices: 1107842--1107895 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
1107832 TTTTTGTTCC
1107842 TTTTTTTCTT
1 TTTTTTTCTT
*
1107852 TTGTTTTCTT
1 TTTTTTTCTT
*
1107862 CTTTTTTGCTT
1 -TTTTTTTCTT
*
1107873 CTTTTTTT-GT
1 -TTTTTTTCTT
1107883 TTTTTTTCTT
1 TTTTTTTCTT
1107893 TTT
1 TTT
1107896 GTTCTGATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 7 0.19
10 14 0.39
11 15 0.42
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1107877 original size:32 final size:31
Alignment explanation
Indices: 1107832--1107892 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
1107822 TTCTTTTTGA
1107832 TTTTTGTTCCTTTTTTTCTTTTGTTTTCTTCT
1 TTTTTGTTCCTTTTTTTCTTTT-TTTTCTTCT
*
1107864 TTTTTGCTT-CTTTTTTTGTTTTTTTTCTT
1 TTTTTG-TTCCTTTTTTTCTTTTTTTTCTT
1107893 TTTGTTCTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 18 0.67
33 2 0.07
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (31 bp):
TTTTTGTTCCTTTTTTTCTTTTTTTTCTTCT
Found at i:1107896 original size:27 final size:26
Alignment explanation
Indices: 1107850--1107900 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1107840 CCTTTTTTTC
1107850 TTTTGTTTTCTTCTTTTTTGCTTCTTT
1 TTTTGTTTTCTTCTTTTTTG-TTCTTT
*
1107877 TTTTGTTTT-TTTTCTTTTTGTTCT
1 TTTTGTTTTCTTCT-TTTTTGTTCT
1107901 GATTGAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (26 bp):
TTTTGTTTTCTTCTTTTTTGTTCTTT
Found at i:1109063 original size:7 final size:8
Alignment explanation
Indices: 1109040--1109068 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1109030 GTAGATGAAG
1109040 ATGCAAAA
1 ATGCAAAA
1109048 ATGCAAAA
1 ATGCAAAA
1109056 ATGC-AAA
1 ATGCAAAA
1109063 ATGCAA
1 ATGCAA
1109069 GGATGCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:1109074 original size:15 final size:15
Alignment explanation
Indices: 1109037--1109075 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1109027 AACGTAGATG
1109037 AAGATGCAAAAATGCA
1 AAGATGC-AAAATGCA
*
1109053 AAAATGCAAAATGCA
1 AAGATGCAAAATGCA
*
1109068 AGGATGCA
1 AAGATGCA
1109076 TGAAATGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (15 bp):
AAGATGCAAAATGCA
Found at i:1112466 original size:19 final size:19
Alignment explanation
Indices: 1112412--1112466 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1112402 AACCAATAAT
1112412 AATAAACATAAAA-AAATTG
1 AATAAA-ATAAAATAAATTG
* *
1112431 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
1112450 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
1112467 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 4 0.14
18 1 0.03
19 19 0.66
20 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:1112588 original size:10 final size:10
Alignment explanation
Indices: 1112573--1112610 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
1112563 ATAATTAAAG
1112573 TATAAAAAAA
1 TATAAAAAAA
1112583 TATAAAAAATA
1 TATAAAAAA-A
*
1112594 TATATAAAAA
1 TATAAAAAAA
1112604 TATAAAA
1 TATAAAA
1112611 TGTATGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:1112600 original size:13 final size:12
Alignment explanation
Indices: 1112573--1112607 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1112563 ATAATTAAAG
*
1112573 TATAAAAAAATA
1 TATAAAAATATA
1112585 TA-AAAAATATA
1 TATAAAAATATA
1112596 TATAAAAATATA
1 TATAAAAATATA
1112608 AAATGTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TATAAAAATATA
Found at i:1112628 original size:23 final size:21
Alignment explanation
Indices: 1112578--1112621 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1112568 TAAAGTATAA
*
1112578 AAAAATATAAAAAATATATAT
1 AAAAATATAAAAAATATGTAT
**
1112599 AAAAATATAAAATGTATGTAT
1 AAAAATATAAAAAATATGTAT
1112620 AA
1 AA
1112622 TATAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAATATAAAAAATATGTAT
Found at i:1112629 original size:21 final size:20
Alignment explanation
Indices: 1112548--1112633 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 20
1112538 GCAAAGAAAC
1112548 TAAAATATA-ATGAAA-ATAA
1 TAAAATATATAT-AAATATAA
* * *
1112567 TTAAAGTATAAAAAAATATAA
1 -TAAAATATATATAAATATAA
*
1112588 -AAAATATATATAAAAAT-A
1 TAAAATATATATAAATATAA
* *
1112606 TAAAATGTATGTATAATATAA
1 TAAAATATATATA-AATATAA
1112627 TAAAATA
1 TAAAATA
1112634 CTAAATAGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
18 1 0.02
19 23 0.45
20 15 0.29
21 12 0.24
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
TAAAATATATATAAATATAA
Found at i:1112767 original size:13 final size:13
Alignment explanation
Indices: 1112749--1112774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1112739 TAACGTTAGG
1112749 AAAATATAGTAAA
1 AAAATATAGTAAA
1112762 AAAATATAGTAAA
1 AAAATATAGTAAA
1112775 TAAGTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATATAGTAAA
Found at i:1112836 original size:21 final size:21
Alignment explanation
Indices: 1112795--1112843 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
1112785 TAGATAAAAA
* *
1112795 ATAATAATATAATATATATAT
1 ATAATAATAGAAAATATATAT
1112816 ATAATAATAGGAAAATAATATAAT
1 ATAATAATA-GAAAAT-ATAT-AT
1112840 ATAA
1 ATAA
1112844 CACAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 4 0.17
23 4 0.17
24 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATAATAGAAAATATATAT
Found at i:1113412 original size:37 final size:37
Alignment explanation
Indices: 1113327--1113422 Score: 138
Period size: 37 Copynumber: 2.6 Consensus size: 37
1113317 GGATCCTATC
* ** * *
1113327 TTTAGGAGTTTAAATAATAGTATAACTCTATCCTATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCATATT
*
1113364 TTTAGGAGTTTGAATCCTAGTAAAATTCTATCATATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCATATT
1113401 TTTAGGAGTTTGAATCCTAGTA
1 TTTAGGAGTTTGAATCCTAGTA
1113423 GGATGAAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAAAACTCTATCATATT
Found at i:1114629 original size:81 final size:81
Alignment explanation
Indices: 1114477--1115050 Score: 783
Period size: 81 Copynumber: 7.1 Consensus size: 81
1114467 ACTATTCCAA
*
1114477 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAG-AAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1114541 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
** * * * *
1114557 AGTAAAAGATTAATAGCCTATATGTGCATTTGGTAGAAATGTGTCAATTATTCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1114622 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
1114638 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGGCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1114703 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
1114719 AGTAAAACATTAATAGCCTAGTTGTGCATTTGGCA-AAATGTGTCTATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1114783 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * * * **
1114799 AGTAAAAGACTAATAGTCTAGGTGTGAATTTGGTAGAAATGTGTCAATTATAACAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
1114864 AGATTTAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
1114880 AGTAAAAGATCAATATCATAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1114945 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * * * *
1114961 AGTAAAATATTAATGGCCTAGCTGTGCATTTAGCAGAAAAGTGTTAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
1115026 AGGCTAAATGCCTTTG
66 AGGTTAAATACCTTTG
*
1115042 GGTAAAAGA
1 AGTAAAAGA
1115051 CTAAAAGAAT
Statistics
Matches: 429, Mismatches: 63, Indels: 3
0.87 0.13 0.01
Matches are distributed among these distances:
80 102 0.24
81 327 0.76
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:1114908 original size:242 final size:242
Alignment explanation
Indices: 1114477--1115054 Score: 854
Period size: 242 Copynumber: 2.4 Consensus size: 242
1114467 ACTATTCCAA
* * * *
1114477 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAGAAGGTGTCAATTATGCCAGTTAGATGAAA
1 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAAAAAGTGTCTATTATGCAAGTTAGATGAAA
* * *
1114542 GGTTAAATACCTTTGAGTAAAAGATTAATAGCCTATATGTGCATTTGGTAGAAATGTGTCAATTA
66 GGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGATGTGAATTTGGTAGAAATGTGTCAATTA
* * * * *
1114607 TTCTAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAATATTAATAGCCTAGCTGTGCATTTGGC
131 TACTAGTTAGATGAAAGATTAAATACCTTTGAGTAAAAGATCAATAGCATAGCTGTGCATTTGGC
1114672 AGAAAGGTGGCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
196 AGAAAGGTGGCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
* * * *
1114719 AGTAAAACATTAATAGCCTAGTTGTGCATTTGGCAAAATGTGTCTATTATGCTAGTTAGATGAAA
1 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAAAAAGTGTCTATTATGCAAGTTAGATGAAA
* *
1114784 GGTTAAATACCTTTGAGTAAAAGACTAATAGTCTAGGTGTGAATTTGGTAGAAATGTGTCAATTA
66 GGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGATGTGAATTTGGTAGAAATGTGTCAATTA
* * *
1114849 TAAC-AGTTAGATGAAAGATTTAATACCTTTGAGTAAAAGATCAATATCATAGTTGTGCATTTGG
131 T-ACTAGTTAGATGAAAGATTAAATACCTTTGAGTAAAAGATCAATAGCATAGCTGTGCATTTGG
* *
1114913 CATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
195 CAGAAAGGTGGCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
* * *
1114961 AGTAAAATATTAATGGCCTAGCTGTGCATTTAGCAGAAAAGTGT-TAATCATGCAAGTTAGATGA
1 AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCA-AAAAGTGTCT-ATTATGCAAGTTAGATGA
* * *
1115025 AAGGCTAAATGCCTTTGGGTAAAAGACTAA
64 AAGGTTAAATACCTTTGAGTAAAAGACTAA
1115055 AAGAATTATA
Statistics
Matches: 302, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
242 251 0.83
243 51 0.17
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (242 bp):
AGTAAAATATTAATAGCCTAGCTGTGCATTTGGCAAAAAGTGTCTATTATGCAAGTTAGATGAAA
GGTTAAATACCTTTGAGTAAAAGACTAATAGCCTAGATGTGAATTTGGTAGAAATGTGTCAATTA
TACTAGTTAGATGAAAGATTAAATACCTTTGAGTAAAAGATCAATAGCATAGCTGTGCATTTGGC
AGAAAGGTGGCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTG
Found at i:1125756 original size:18 final size:18
Alignment explanation
Indices: 1125716--1125778 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
1125706 AATGTTTAGT
*
1125716 GTTATCAGACATTTTACA
1 GTTATCAGACATTTTTCA
*
1125734 ATTATCAGACATTTTTCA
1 GTTATCAGACATTTTTCA
* **
1125752 GTTATTAGATGTTTTAT-A
1 GTTATCAGACATTTT-TCA
1125770 GTTATCAGA
1 GTTATCAGA
1125779 AGTAGATTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
18 36 0.97
19 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (18 bp):
GTTATCAGACATTTTTCA
Found at i:1141066 original size:61 final size:61
Alignment explanation
Indices: 1140971--1141161 Score: 310
Period size: 61 Copynumber: 3.1 Consensus size: 61
1140961 CAAGGACACT
* * *
1140971 TAGTGCAGGTGGTGGGCATAACCTTATGTGTCATATCTGGATCAGCACTAGAGTGTAAACC
1 TAGTGTAGGTGGTGGGAATGACCTTATGTGTCATATCTGGATCAGCACTAGAGTGTAAACC
* *
1141032 TAGTGTAGGTGGTGGGAATGACCTTATGTGTCATATATGGATCAGTACTAGAGTGTAAACC
1 TAGTGTAGGTGGTGGGAATGACCTTATGTGTCATATCTGGATCAGCACTAGAGTGTAAACC
* * *
1141093 TAGTGTAGGTGGTGGGAATGACCTTATGTGTCATATCTGGATCAGCACTAGAGCGTAAGCT
1 TAGTGTAGGTGGTGGGAATGACCTTATGTGTCATATCTGGATCAGCACTAGAGTGTAAACC
1141154 TAGTGTAG
1 TAGTGTAG
1141162 TTTAGCACTA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 120 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (61 bp):
TAGTGTAGGTGGTGGGAATGACCTTATGTGTCATATCTGGATCAGCACTAGAGTGTAAACC
Done.