Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 25
Found at i:5285779 original size:32 final size:32
Alignment explanation
Indices: 5285743--5285807 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
5285733 TAATAAATAA
5285743 ACGAACATAAACGAACACAAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACGAAC
* * *
5285775 ACGAACATAAATGAACACGAACATAAGCGAAC
1 ACGAACATAAACGAACACAAACATAAACGAAC
5285807 A
1 A
5285808 TAAACGTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (32 bp):
ACGAACATAAACGAACACAAACATAAACGAAC
Found at i:5287408 original size:24 final size:24
Alignment explanation
Indices: 5287323--5287402 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
5287313 TATTAGGTTA
* *
5287323 AACATAAATGAACGCACATAAACG
1 AACATAACTAAACGCACATAAACG
*
5287347 AACATAACTAAACGCACATAAATG
1 AACATAACTAAACGCACATAAACG
*
5287371 AACATAACTAAACGCATATAAACG
1 AACATAACTAAACGCACATAAACG
5287395 AACATAAC
1 AACATAAC
5287403 CGAACGTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.15
Consensus pattern (24 bp):
AACATAACTAAACGCACATAAACG
Found at i:5293524 original size:27 final size:28
Alignment explanation
Indices: 5293479--5293534 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
5293469 AGTGTAAAAC
**
5293479 TTTTTATAAATTATGATAAAGGACAATT
1 TTTTTATAAATTACAATAAAGGACAATT
5293507 TTTTTATAAA-TACAATAAAGGACAATT
1 TTTTTATAAATTACAATAAAGGACAATT
5293534 T
1 T
5293535 CTACTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (28 bp):
TTTTTATAAATTACAATAAAGGACAATT
Found at i:5293547 original size:27 final size:27
Alignment explanation
Indices: 5293479--5293548 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
5293469 AGTGTAAAAC
**
5293479 TTTT-TATAAATTATGATAAAGGACAA
1 TTTTCTATAAATTACAATAAAGGACAA
*
5293505 TTTTTTTATAAA-TACAATAAAGGACAA
1 -TTTTCTATAAATTACAATAAAGGACAA
5293532 -TTTCTACTAAATTACAA
1 TTTTCTA-TAAATTACAA
5293549 CAATACTATC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 5 0.14
26 4 0.11
27 22 0.59
28 6 0.16
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (27 bp):
TTTTCTATAAATTACAATAAAGGACAA
Found at i:5293716 original size:22 final size:22
Alignment explanation
Indices: 5293688--5293744 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
5293678 AGCAGGGCGT
* *
5293688 ACGAATGGTGGAAGAAGGTTGC
1 ACGAATGCTGGAAGAAGGCTGC
*
5293710 ACGAATGCTGGAAGTAGGCTGC
1 ACGAATGCTGGAAGAAGGCTGC
5293732 ACGAATGCTGGAA
1 ACGAATGCTGGAA
5293745 ATGGGTTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.37, T:0.18
Consensus pattern (22 bp):
ACGAATGCTGGAAGAAGGCTGC
Found at i:5293754 original size:22 final size:22
Alignment explanation
Indices: 5293688--5293754 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
5293678 AGCAGGGCGT
*
5293688 ACGAATGGTGGAAGA-AGGTTGC
1 ACGAATGCTGGAA-ATAGGTTGC
* *
5293710 ACGAATGCTGGAAGTAGGCTGC
1 ACGAATGCTGGAAATAGGTTGC
*
5293732 ACGAATGCTGGAAATGGGTTGC
1 ACGAATGCTGGAAATAGGTTGC
5293754 A
1 A
5293755 AAGGTGTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.19
Consensus pattern (22 bp):
ACGAATGCTGGAAATAGGTTGC
Found at i:5295097 original size:6 final size:6
Alignment explanation
Indices: 5295086--5295814 Score: 1393
Period size: 6 Copynumber: 122.8 Consensus size: 6
5295076 AGACTCTTAA
5295086 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295134 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295182 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295230 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295278 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295326 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295372 ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATAT-- ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295416 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295464 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295512 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295558 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295606 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295654 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295702 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
5295750 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
5295798 ATATAC ATATAA ATATA
1 ATATAC ATATAC ATATA
5295815 TTTGAAAAAA
Statistics
Matches: 714, Mismatches: 1, Indels: 16
0.98 0.00 0.02
Matches are distributed among these distances:
4 16 0.02
6 698 0.98
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:5298673 original size:29 final size:30
Alignment explanation
Indices: 5298619--5298694 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
5298609 CATTCCCGAT
5298619 TCTGCATGGGATTAATT-TCCTATTCT-ATC
1 TCTGCATGGGATTAATTCTCCTATTCTGA-C
* * *
5298648 TCTGCATGGGATTTATTCTTC-GTTCTGAC
1 TCTGCATGGGATTAATTCTCCTATTCTGAC
*
5298677 TCTGTATGGGATTAATTC
1 TCTGCATGGGATTAATTC
5298695 CCTGATTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 37 0.93
30 3 0.08
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (30 bp):
TCTGCATGGGATTAATTCTCCTATTCTGAC
Found at i:5306937 original size:15 final size:15
Alignment explanation
Indices: 5306917--5306947 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5306907 TTCTCTTGAG
5306917 TATAAACTCTCTTAC
1 TATAAACTCTCTTAC
5306932 TATAAACTCTCTTAC
1 TATAAACTCTCTTAC
5306947 T
1 T
5306948 GGGATAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAAACTCTCTTAC
Found at i:5311529 original size:25 final size:24
Alignment explanation
Indices: 5311501--5311552 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
5311491 TTATTGTGCG
*
5311501 TAATTAAAAAATATATATATTCCGC
1 TAATTAAAAAA-AAATATATTCCGC
5311526 TAA-TAAAAAAAAATATATTCCGC
1 TAATTAAAAAAAAATATATTCCGC
5311549 TAAT
1 TAAT
5311553 GAACTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 15 0.60
24 7 0.28
25 3 0.12
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATTAAAAAAAAATATATTCCGC
Found at i:5312091 original size:22 final size:22
Alignment explanation
Indices: 5312066--5312110 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
5312056 TTTATCATAA
5312066 CATTGTACATTATACATATGTG
1 CATTGTACATTATACATATGTG
5312088 CATTGTACATTATACATATGTG
1 CATTGTACATTATACATATGTG
5312110 C
1 C
5312111 CCACAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (22 bp):
CATTGTACATTATACATATGTG
Found at i:5313100 original size:42 final size:41
Alignment explanation
Indices: 5313054--5313174 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 41
5313044 AATAGTGGCG
*
5313054 TTTTTCCAGCAAACGCCGCAACATAGTAATACTTTAGAAGCA
1 TTTTTCCA-CAAACGCCGCAACAGAGTAATACTTTAGAAGCA
** * * **
5313096 TTTTTGTACAAACGCCGCAATAGAGATAAT-CTATAGTGGCA
1 TTTTTCCACAAACGCCGCAACAGAG-TAATACTTTAGAAGCA
* *
5313137 TTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGA
1 -TTTTTCCACAAACGCCGCAACAGAGTAATACTTTAGA
5313175 GGCGTTTTCA
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 26 0.41
42 37 0.59
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (41 bp):
TTTTTCCACAAACGCCGCAACAGAGTAATACTTTAGAAGCA
Found at i:5313115 original size:41 final size:41
Alignment explanation
Indices: 5313063--5313174 Score: 129
Period size: 41 Copynumber: 2.7 Consensus size: 41
5313053 GTTTTTCCAG
*
5313063 CAAACGCCGCAACATAGTAATACTTTAGAAGCATTTTTGT-A
1 CAAACGCCGCAACAGAGTAATACTTTAGAAGCATTTTT-TAA
* * **
5313104 CAAACGCCGCAATAGAGATAAT-CTATAGTGGCATTTTTTCAA
1 CAAACGCCGCAACAGAG-TAATACTTTAGAAGCATTTTTT-AA
*
5313146 CAAACGCCGCAACAGAGTAGTACTTTAGA
1 CAAACGCCGCAACAGAGTAATACTTTAGA
5313175 GGCGTTTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
40 1 0.02
41 31 0.53
42 26 0.45
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (41 bp):
CAAACGCCGCAACAGAGTAATACTTTAGAAGCATTTTTTAA
Found at i:5313194 original size:83 final size:81
Alignment explanation
Indices: 5312963--5313276 Score: 255
Period size: 83 Copynumber: 3.9 Consensus size: 81
5312953 AATGATACTT
* * * * * * * ** *
5312963 TAGTGGCGTTTCTTAAACAAAAGCCGCGATAGAATAGTACTTTAGCGGTATTTTTATACAAATGC
1 TAGTGGCGTTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGAGG-CGTTTTATACAAACGC
* *
5313028 CGCAATAGGGTTCAT-TAA
65 CGCAATA-GGATAATCT-A
* * * * * * *
5313046 TAGTGGCGTTTTTCCAGCAAACGCCGCAACATAGTAATACTTTAGAAGCATTTTTGTACAAACGC
1 TAGTGGCGTTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGAGGC-GTTTTATACAAACGC
5313111 CGCAATAGAGATAATCTA
65 CGCAATAG-GATAATCTA
* * *
5313129 TAGTGGCATTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGAGGCGTTTTCATATATACGC
1 TAGTGGCGTTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGAGGCGTTTT-ATACAAACGC
* *
5313194 CG-----GGTTCATCTA
65 CGCAATAGGATAATCTA
* * * * *
5313206 TAGTGGTGTTTCTTCAAAAAATGCCGCAACAGAGTAGTACTTTA-ACGGCGTTTTTTACAAACGC
1 TAGTGGCGTTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGA-GGCGTTTTATACAAACGC
5313270 CGCAATA
65 CGCAATA
5313277 ATTTGGTATG
Statistics
Matches: 184, Mismatches: 37, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
76 10 0.05
77 54 0.29
78 1 0.01
82 5 0.03
83 113 0.61
84 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (81 bp):
TAGTGGCGTTTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGAGGCGTTTTATACAAACGCC
GCAATAGGATAATCTA
Found at i:5314932 original size:29 final size:29
Alignment explanation
Indices: 5314889--5314971 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
5314879 CTCACCTAAC
5314889 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
5314919 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
5314948 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
5314972 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:5319650 original size:29 final size:29
Alignment explanation
Indices: 5319607--5319689 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
5319597 CTCACCTAAC
5319607 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
5319637 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
5319666 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
5319690 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:5321688 original size:43 final size:42
Alignment explanation
Indices: 5321641--5321839 Score: 161
Period size: 42 Copynumber: 4.7 Consensus size: 42
5321631 TCATAATATA
* * *
5321641 TAGCGGCGTTTTGTATTACAAACGACACTAAAAACAATAGAAT
1 TAGCGGC-TTTTGTAGTAAAAACGACACTAAAGACAATAGAAT
* *
5321684 TAGCGGCTTTTGTCGCAAAAAC-ACTACTAAAGACAAGTA-AAT
1 TAGCGGCTTTTGTAGTAAAAACGAC-ACTAAAGACAA-TAGAAT
* * * *
5321726 TAGCGGCATTTGTGGTAAAAACGCCACTAAAGACAATAGACT
1 TAGCGGCTTTTGTAGTAAAAACGACACTAAAGACAATAGAAT
* * * * *
5321768 TAGCGGCATTTGTTGCCAAAAAC-ACCACTAAAGATAAGAGAAT
1 TAGCGGCTTTTGTAG-TAAAAACGA-CACTAAAGACAATAGAAT
* * * * *
5321811 TAACGGCATTTGTTGCAAAAACGCCACTA
1 TAGCGGCTTTTGTAGTAAAAACGACACTA
5321840 TAAATCATAA
Statistics
Matches: 131, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
41 4 0.03
42 82 0.63
43 45 0.34
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (42 bp):
TAGCGGCTTTTGTAGTAAAAACGACACTAAAGACAATAGAAT
Found at i:5321713 original size:42 final size:42
Alignment explanation
Indices: 5321666--5321839 Score: 215
Period size: 42 Copynumber: 4.1 Consensus size: 42
5321656 TTACAAACGA
* * *
5321666 CACTAAAAACAATAGAATTAGCGGCTTTTGTCGCAAAAACAC
1 CACTAAAGACAATAGAATTAGCGGCATTTGTTGCAAAAACAC
* * * *
5321708 TACTAAAGACAAGTA-AATTAGCGGCATTTGTGGTAAAAACGC
1 CACTAAAGACAA-TAGAATTAGCGGCATTTGTTGCAAAAACAC
*
5321750 CACTAAAGACAATAGACTTAGCGGCATTTGTTGCCAAAAACAC
1 CACTAAAGACAATAGAATTAGCGGCATTTGTTG-CAAAAACAC
* * * *
5321793 CACTAAAGATAAGAGAATTAACGGCATTTGTTGCAAAAACGC
1 CACTAAAGACAATAGAATTAGCGGCATTTGTTGCAAAAACAC
5321835 CACTA
1 CACTA
5321840 TAAATCATAA
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.02
42 73 0.65
43 38 0.34
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (42 bp):
CACTAAAGACAATAGAATTAGCGGCATTTGTTGCAAAAACAC
Found at i:5321831 original size:85 final size:84
Alignment explanation
Indices: 5321660--5321839 Score: 245
Period size: 85 Copynumber: 2.1 Consensus size: 84
5321650 TTTGTATTAC
* * *
5321660 AAACGACACTAAAAACAATAGAATTAGCGGCTTTTGTCGCAAAAACACTACTAAAGACAAGTAAA
1 AAACGCCACTAAAAACAATAGAATTAGCGGCATTTGTCGCAAAAACACCACTAAAGACAAGTAAA
* *
5321725 TTAGCGGCATTTGTGGTAA
66 TTAACGGCATTTGTGGCAA
* * * *
5321744 AAACGCCACTAAAGACAATAGACTTAGCGGCATTTGTTGCCAAAAACACCACTAAAGATAAG-AG
1 AAACGCCACTAAAAACAATAGAATTAGCGGCATTTGTCG-CAAAAACACCACTAAAGACAAGTA-
*
5321808 AATTAACGGCATTTGTTGCAA
64 AATTAACGGCATTTGTGGCAA
5321829 AAACGCCACTA
1 AAACGCCACTA
5321840 TAAATCATAA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
84 35 0.42
85 49 0.58
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (84 bp):
AAACGCCACTAAAAACAATAGAATTAGCGGCATTTGTCGCAAAAACACCACTAAAGACAAGTAAA
TTAACGGCATTTGTGGCAA
Found at i:5326524 original size:23 final size:22
Alignment explanation
Indices: 5326486--5326531 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
5326476 ATGCACGAAA
5326486 CAAAAAAATTAGACAAGATAAT
1 CAAAAAAATTAGACAAGATAAT
5326508 CAAACAAAATATA-ACAAGATAAT
1 CAAA-AAAAT-TAGACAAGATAAT
5326531 C
1 C
5326532 CAATGAGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.18
23 16 0.73
24 2 0.09
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (22 bp):
CAAAAAAATTAGACAAGATAAT
Found at i:5331679 original size:23 final size:23
Alignment explanation
Indices: 5331652--5331698 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5331642 GTAAAGATTG
5331652 TAAATGATAAGGTAAAAATAGCC
1 TAAATGATAAGGTAAAAATAGCC
5331675 TAAATGATAAGGTAAAAATAGCC
1 TAAATGATAAGGTAAAAATAGCC
5331698 T
1 T
5331699 CAAGCTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (23 bp):
TAAATGATAAGGTAAAAATAGCC
Found at i:5333337 original size:22 final size:21
Alignment explanation
Indices: 5333307--5333352 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
5333297 TCGAAATGTA
5333307 TTTGATTTTTCT-TTTTCACATT
1 TTTGATTTTT-TGTTTTC-CATT
*
5333329 TTTGTTTTTTTGTTTTCCATT
1 TTTGATTTTTTGTTTTCCATT
5333350 TTT
1 TTT
5333353 TGTGCATGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTGATTTTTTGTTTTCCATT
Found at i:5343487 original size:23 final size:24
Alignment explanation
Indices: 5343438--5343501 Score: 94
Period size: 23 Copynumber: 2.6 Consensus size: 24
5343428 TAATTTAATT
*
5343438 TTTTGAATAGTTTATTTACTTATTAA
1 TTTTGAATAATTT-TTTA-TTATTAA
5343464 TTTTGAATAATTTTTT-TTATTAA
1 TTTTGAATAATTTTTTATTATTAA
5343487 TTTTGAATAATTTTT
1 TTTTGAATAATTTTT
5343502 AAATTTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
23 22 0.59
25 3 0.08
26 12 0.32
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTTGAATAATTTTTTATTATTAA
Found at i:5344014 original size:15 final size:14
Alignment explanation
Indices: 5343987--5344042 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
5343977 TTTTGTCCCG
*
5343987 ATTTTAATTTTATT
1 ATTTTAATATTATT
5344001 ATTTCTAATATTATT
1 ATTT-TAATATTATT
5344016 A--TT-AT-TTATT
1 ATTTTAATATTATT
*
5344026 ATTTTATTATTATT
1 ATTTTAATATTATT
5344040 ATT
1 ATT
5344043 ATTTGTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 3 0.09
13 2 0.06
14 12 0.34
15 10 0.29
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTAATATTATT
Found at i:5344015 original size:3 final size:3
Alignment explanation
Indices: 5343996--5344045 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
5343986 GATTTTAATT
*
5343996 TTA TTA TT- TCTA ATA TTA TTA TTA TTTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
5344041 TTA TT
1 TTA TT
5344046 TGTGTTTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 3 0.07
3 35 0.85
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5345556 original size:2 final size:2
Alignment explanation
Indices: 5345549--5345582 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5345539 AAGCTTGAGC
5345549 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
5345583 TCCATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5346183 original size:189 final size:188
Alignment explanation
Indices: 5345863--5346241 Score: 731
Period size: 189 Copynumber: 2.0 Consensus size: 188
5345853 GAAAATGTTA
5345863 AAATGAAAGTGTATCCCATTAAGTGACACAAATCAAATCGAATCTATTTTAAAAATTCGGGGATT
1 AAATGAAAGTGTATCCCATTAAGTGACACAAATCAAATCGAATCTATTTTAAAAATTCGGGGATT
5345928 GGTAAAAATATCATATTCTTTTAATTAAATTCATCTAGAAAAGACTGTTAGATCGAATCTAAGGT
66 GGTAAAAATATCATATTCTTTTAATTAAATTCATCTAGAAAAGACTGTTAGATCGAATCTAAGGT
*
5345993 CTCATCTCGATATATTTAAATAATTGAACATCCTTATTCTCATTAAATATTTGGTAATT
131 CTCATCTCGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATA-TTGGTAATT
*
5346052 AAATGAAAGTGTATCCCATTAAGTGACACAAATTAAATCGAATCTATTTTAAAAATTCGGGGATT
1 AAATGAAAGTGTATCCCATTAAGTGACACAAATCAAATCGAATCTATTTTAAAAATTCGGGGATT
5346117 GGTAAAAATATCATATTCTTTTAATTAAATTCATCTAGAAAAGACTGTTAGATCGAATCTAAGGT
66 GGTAAAAATATCATATTCTTTTAATTAAATTCATCTAGAAAAGACTGTTAGATCGAATCTAAGGT
5346182 CTCATCTCGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATATTGGTAATT
131 CTCATCTCGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATATTGGTAATT
5346240 AA
1 AA
5346242 TTAATTAATT
Statistics
Matches: 188, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
188 11 0.06
189 177 0.94
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (188 bp):
AAATGAAAGTGTATCCCATTAAGTGACACAAATCAAATCGAATCTATTTTAAAAATTCGGGGATT
GGTAAAAATATCATATTCTTTTAATTAAATTCATCTAGAAAAGACTGTTAGATCGAATCTAAGGT
CTCATCTCGAGATATTTAAATAATTGAACATCCTTATTCTCATTAAATATTGGTAATT
Found at i:5348628 original size:11 final size:11
Alignment explanation
Indices: 5348612--5348637 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5348602 GCATTGTATG
5348612 ATCATGACATA
1 ATCATGACATA
5348623 ATCATGACATA
1 ATCATGACATA
5348634 ATCA
1 ATCA
5348638 AGTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (11 bp):
ATCATGACATA
Found at i:5352883 original size:11 final size:10
Alignment explanation
Indices: 5352862--5352995 Score: 81
Period size: 11 Copynumber: 12.5 Consensus size: 10
5352852 ATAAATTCAT
5352862 AAAAAAGAAA
1 AAAAAAGAAA
*
5352872 AAATATAGAAA
1 AAA-AAAGAAA
5352883 AGGAAAAAGAAA
1 A--AAAAAGAAA
*
5352895 AAAAAATAAA
1 AAAAAAGAAA
*
5352905 AAATAGAGAAA
1 AAA-AAAGAAA
*
5352916 AAAGATAGAAA
1 AAA-AAAGAAA
*
5352927 AAGAAAG-AA
1 AAAAAAGAAA
5352936 AAAAAAGAAA
1 AAAAAAGAAA
* * *
5352946 GAGACAAGATA
1 -AAAAAAGAAA
*
5352957 GAAAAAGAAA
1 AAAAAAGAAA
*
5352967 GAAAAGAGAAA
1 -AAAAAAGAAA
5352978 AATGAGAAAGAAA
1 AA--A-AAAGAAA
5352991 AAAAA
1 AAAAA
5352996 TCAAATACTT
Statistics
Matches: 94, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
9 8 0.09
10 29 0.31
11 39 0.41
12 8 0.09
13 10 0.11
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:5352888 original size:6 final size:6
Alignment explanation
Indices: 5352863--5352992 Score: 63
Period size: 6 Copynumber: 20.8 Consensus size: 6
5352853 TAAATTCATA
* * * *
5352863 AAAAAG AAAAA- ATATAG AAAAGG AAAAAG AAAAA- AAAATAA AAAATAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AAAA-AG
* * *
5352911 AGAAAA- AAGATAG AAAAAG AAAGAAA AAAAAG AAAGAG ACAAGATAG
1 A-AAAAG AA-AAAG AAAAAG AAA-AAG AAAAAG AAAAAG A-AA-A-AG
*
5352958 AAAAAG --AAAG AAAAGAG AAAAATG AGAAAG AAAAA
1 AAAAAG AAAAAG AAAA-AG AAAAA-G AAAAAG AAAAA
5352993 AAATCAAATA
Statistics
Matches: 95, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
4 4 0.04
5 8 0.08
6 46 0.48
7 29 0.31
8 5 0.05
9 3 0.03
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:5352906 original size:23 final size:23
Alignment explanation
Indices: 5352863--5352996 Score: 76
Period size: 24 Copynumber: 5.7 Consensus size: 23
5352853 TAAATTCATA
*
5352863 AAAAAGAAAAAATATAGAAAAGG
1 AAAAAGAAAAAAAATAGAAAAGG
5352886 AAAAAGAAAAAAAAATA-AAAA--
1 AAAAAG-AAAAAAAATAGAAAAGG
* * * *
5352907 ATAGAGAAAAAAGATAGAAAAAG
1 AAAAAGAAAAAAAATAGAAAAGG
* * *
5352930 AAAGAAAAAAAAGAAAGAGACAAGATAG
1 AAA-AAGAAAAA-AAATAGA-AA-A-GG
* * *
5352958 AAAAAGAAAGAAAAGAGAAAAATG
1 AAAAAGAAAAAAAATAG-AAAAGG
*
5352982 AGAAAGAAAAAAAAT
1 AAAAAGAAAAAAAAT
5352997 CAAATACTTC
Statistics
Matches: 86, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
20 9 0.10
21 8 0.09
23 12 0.14
24 28 0.33
25 6 0.07
26 10 0.12
27 8 0.09
28 5 0.06
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (23 bp):
AAAAAGAAAAAAAATAGAAAAGG
Found at i:5352914 original size:21 final size:22
Alignment explanation
Indices: 5352865--5352941 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 22
5352855 AATTCATAAA
* *
5352865 AAAG-AAAAAATATAGAAAAGGAA
1 AAAGAAAAAAAAATAGAAAA--AG
*
5352888 AAAGAAAAAAAAATA-AAAAAT
1 AAAGAAAAAAAAATAGAAAAAG
* *
5352909 AGAG-AAAAAAGATAGAAAAAG
1 AAAGAAAAAAAAATAGAAAAAG
5352930 AAAGAAAAAAAA
1 AAAGAAAAAAAA
5352942 GAAAGAGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
20 9 0.20
21 12 0.27
22 6 0.14
23 8 0.18
24 9 0.20
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.06
Consensus pattern (22 bp):
AAAGAAAAAAAAATAGAAAAAG
Found at i:5352932 original size:38 final size:34
Alignment explanation
Indices: 5352885--5352986 Score: 114
Period size: 34 Copynumber: 2.9 Consensus size: 34
5352875 TATAGAAAAG
*
5352885 GAAAAAGAAAAAAAAATAAAAAATAGAGAAAAAAGATA
1 GAAAAAGAAAGAAAAA-AAAAAA-AGAG--AAAAGATA
* *
5352923 GAAAAAGAAAGAAAAAAAAGAAAGAGACAAGATA
1 GAAAAAGAAAGAAAAAAAAAAAAGAGAAAAGATA
* *
5352957 GAAAAAGAAAGAAAAGAGAAAAATGAGAAA
1 GAAAAAGAAAGAAAA-AAAAAAAAGAGAAA
5352987 GAAAAAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
34 22 0.39
35 10 0.18
36 4 0.07
37 5 0.09
38 15 0.27
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.05
Consensus pattern (34 bp):
GAAAAAGAAAGAAAAAAAAAAAAGAGAAAAGATA
Found at i:5352940 original size:34 final size:34
Alignment explanation
Indices: 5352865--5352971 Score: 107
Period size: 34 Copynumber: 3.2 Consensus size: 34
5352855 AATTCATAAA
*
5352865 AAAGAAAAAATATAGA-AAAGGAAA-A-AGAAAAA-
1 AAAGAAAAAAAATAGAGAAA--AAAGATAGAAAAAG
*
5352897 AAA-ATAAAAAATAGAGAAAAAAGATAGAAAAAG
1 AAAGAAAAAAAATAGAGAAAAAAGATAGAAAAAG
* * * *
5352930 AAAGAAAAAAAAGAAAGAGACAAGATAGAAAAAG
1 AAAGAAAAAAAATAGAGAAAAAAGATAGAAAAAG
5352964 AAAGAAAA
1 AAAGAAAA
5352972 GAGAAAAATG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
30 3 0.05
31 11 0.17
32 13 0.21
33 3 0.05
34 33 0.52
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.06
Consensus pattern (34 bp):
AAAGAAAAAAAATAGAGAAAAAAGATAGAAAAAG
Found at i:5352960 original size:45 final size:44
Alignment explanation
Indices: 5352867--5352979 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 44
5352857 TTCATAAAAA
* * * *
5352867 AGAAAAAATATAGAAAAGGAAAAAGAAAAAAAAATAAAAAATAG
1 AGAAAAAAGATAGAAAAAGAAAAAGAAAAAAAAAGAAAAAAGAG
* * *
5352911 AGAAAAAAGATAGAAAAAGAAAGAA-AAAAAAGAAAGAGACAAGAT
1 AGAAAAAAGATAGAAAAAGAAA-AAGAAAAAA-AAAGAAAAAAGAG
*
5352956 AG-AAAAAGAAAGAAAAGAGAAAAA
1 AGAAAAAAGATAGAAAA-AGAAAAA
5352980 TGAGAAAGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 41 0.71
45 17 0.29
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (44 bp):
AGAAAAAAGATAGAAAAAGAAAAAGAAAAAAAAAGAAAAAAGAG
Found at i:5352985 original size:26 final size:24
Alignment explanation
Indices: 5352904--5352992 Score: 76
Period size: 23 Copynumber: 3.6 Consensus size: 24
5352894 AAAAAAATAA
* *
5352904 AAAATAGAGAAAAAAGATAGA-A-
1 AAAATAGAAAAAAAAGAAAGAGAC
*
5352926 AAAGAAAGAAAAAAAAGAAAGAGAC
1 AAA-ATAGAAAAAAAAGAAAGAGAC
*
5352951 AAGATAGAAAAAGAAAGAAAAGAGA-
1 AAAATAGAAAAA-AAAG-AAAGAGAC
5352976 AAAATGAGAAAGAAAAA
1 AAAAT-AGAAA-AAAAA
5352993 AAATCAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.06
23 15 0.28
24 9 0.17
25 10 0.19
26 15 0.28
27 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.04
Consensus pattern (24 bp):
AAAATAGAAAAAAAAGAAAGAGAC
Found at i:5352993 original size:15 final size:14
Alignment explanation
Indices: 5352864--5352995 Score: 60
Period size: 14 Copynumber: 8.9 Consensus size: 14
5352854 AAATTCATAA
5352864 AAAAGAAAAAATATAG
1 AAAAGAAAAAA-A-AG
*
5352880 AAAAG--GAAAAAG
1 AAAAGAAAAAAAAG
5352892 AAAA-AAAAATAAA-
1 AAAAGAAAAA-AAAG
*
5352905 AAATAGAGAAAAAAG
1 AAA-AGAAAAAAAAG
*
5352920 -ATAGAAAAAGAAAG
1 AAAAGAAAAA-AAAG
5352934 AAAA-AAAAGAAAGAG
1 AAAAGAAAA-AAA-AG
5352949 ACAAGATAGAAAAAGAAAG
1 --AA-A-AGAAAAA-AAAG
* *
5352968 AAAAGAGAAAAATG
1 AAAAGAAAAAAAAG
5352982 AGAAAGAAAAAAAA
1 A-AAAGAAAAAAAA
5352996 TCAAATACTT
Statistics
Matches: 89, Mismatches: 10, Indels: 35
0.66 0.07 0.26
Matches are distributed among these distances:
12 6 0.07
13 12 0.13
14 25 0.28
15 25 0.28
16 6 0.07
17 4 0.04
18 1 0.01
19 4 0.04
20 6 0.07
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:5355146 original size:233 final size:233
Alignment explanation
Indices: 5354682--5355941 Score: 1693
Period size: 233 Copynumber: 5.4 Consensus size: 233
5354672 CAAAAAACTG
*
5354682 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTC-AGGCCATCAGTAAGT
1 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGGCCATCAATAAGT
* * * * * * *
5354746 ATTTCGAGCATGTTGCTTAAATCTTTCGGGTCAGCTATAA-TCTTTCGAGTAAGATGATAAGTCC
66 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTC-AGCAAGATGATAAGTCC
* * * * * * *
5354810 TTCAGGCCATCTATAAGACCTTCGGGCAGGGTGTTTTCACATTTCTCTCGAAAAATGAGAATA-A
130 TTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAA-AGG
5354874 TTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
194 TTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
*
5354914 AGAAAAGCTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGG-CATCAATAAGT
1 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGGCCATCAATAAGT
* * *
5354978 CTTTCGAGCATGATTCTTAAATCCTTCAGGTCATCTATAAGTCTTTACAGCAAGGTGATAAGTCC
66 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTT-CAGCAAGATGATAAGTCC
* *
5355043 TTCGGGCCCTCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATTAGAAAGGT
130 TTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAGGT
* * * *
5355108 TCCACATTTAAAGCTGAAAATTGAATTTTTTGAAAAGTA
195 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
** * * * * * *
5355147 AGAAAAAATTCTTATCTAGTAAACTATTTCTAAAGTTGGTAAGT-CTTTGA--CCATTAGTAAGT
1 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGGCCATCAATAAGT
* *
5355209 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTTC
66 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTC-AGCAAGATGATAAGTCC
* * * *
5355274 TTCGGGCCATCCATAAGACCTTCGGGCAGGATGGTTTCACATGTCTCTCAAAAAATAAGAAAAGT
130 TTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAGGT
*
5355339 TTCTCATTCAAATCTGAAAATTGAAATTTTTGAAAAGTA
195 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
*
5355378 AGAAAAGTTTCTTACCTAGTAAACTATTT-CAGAAGTTGGTAAGTCCTTCGA-GCCATCAATAAG
1 AGAAAAGTTTCTTACCTAGTAAACTATTTCCA-AAATTGGTAAGTCCTTCGAGGCCATCAATAAG
** *
5355441 TCTTTCGAGCATGATGCTTCAAA-CCTTTGGGTCATCTGTAAGTCTTTAAAGCAAGATGATAAGT
65 TCTTTCGAGCATGATGCTT-AAATCCTTCAGGTCATCTGTAAGTCTTT-CAGCAAGATGATAAGT
* * *
5355505 CCTTCAGGCCATCCATAAGACCTTTGGACAGGATGTTTTCACATGTCTCTCAAAAAATGAGAACG
128 CCTTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAG
* *
5355570 ATTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAAGTA
193 GTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
* * *
5355611 AGAAAATTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTAG-GGCCATCAATAATT
1 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGGCCATCAATAAGT
* * ** * *
5355675 CTATCGAGCATGATGCTTAAATTCTTTGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTCA
66 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTC-TTTCAGCAAGATGATAAGTCC
*
5355740 TTCGGGCCATCCATAAGACCTTT-GGCAGGATATTTTCACATGTCTCTCAAAAAATGAGAAAGGT
130 TTCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAGGT
*
5355804 TTCTCATTTAAATCTGAAAAATGAAA-TTTTGAAAAGTA
195 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
* * * ** * * * **
5355842 AGAAAATTTTCTTAGCTTGTAAACTATTTCCAAAAAAGATAAGTCATTCG-GGTCATCAGCAAGT
1 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGGCCATCAATAAGT
* * *
5355906 CTTTCGAGCATGATGATTAAACCCTTCAAGTCATCT
66 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
5355942 TTCAGTCTCA
Statistics
Matches: 912, Mismatches: 101, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
230 2 0.00
231 293 0.32
232 167 0.18
233 441 0.48
234 9 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (233 bp):
AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGAGGCCATCAATAAGT
CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTCAGCAAGATGATAAGTCCT
TCGGGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAGGTT
TCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
Found at i:5355654 original size:464 final size:465
Alignment explanation
Indices: 5354682--5355941 Score: 1780
Period size: 464 Copynumber: 2.7 Consensus size: 465
5354672 CAAAAAACTG
* * *
5354682 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAGTAAGTA
1 AGAAAAATTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTAAGGCCATCAGTAAGTC
* * * * *
5354747 TTTCGAGCATGTTGCTTAAATCTTTCGGGTCAGCTATAA-TCTTTCGAGTAAGATGATAAGTCCT
66 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTTCT
* * * * *
5354811 TCAGGCCATCTATAAGACCTTCGGGCAGGGTGTTTTCACATTTCTCTCGAAAAATGAGAATAA-T
131 TCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAA-AAGT
*
5354875 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGCTTCTTACCTAGTAAACTA
195 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTA
* *
5354940 TTTCCAAAATTGGTAAGTCCTTCGAGGCATCAATAAGTCTTTCGAGCATGATTCTTAAATCCTTC
260 TTTCCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA-CCTTC
* * * * *
5355005 AGGTCATCTATAAGTCTTTACAGCAAGGTGATAAGTCCTTCGGGCCCTCCATAAGACCTTTGGGC
324 AGGTCATCTATAAGTCTTTAAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGAC
* * *
5355070 AGGATGTTTTCACATGTCTCTCAAAAAATTAGAAAGGTTCCACATTTAAAGCTGAAAATTGAATT
389 AGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAGATTCCACATTTAAAGCTGAAAATTGAAAT
5355135 TTTTGAAAAGTA
454 TTTTGAAAAGTA
* * * * * * *
5355147 AGAAAAAATTCTTATCTAGTAAACTATTTCTAAAGTTGGTAAGT-CTT-TGACCATTAGTAAGTC
1 AGAAAAATTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTAAGGCCATCAGTAAGTC
*
5355210 TTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTTCT
66 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTTCT
* *
5355275 TCGGGCCATCCATAAGACCTTCGGGCAGGATGGTTTCACATGTCTCTCAAAAAATAAGAAAAGTT
131 TCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAAGTT
*
5355340 TCTCATTCAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTAT
196 TCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTAT
* *
5355405 TT-CAGAAGTTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTCAAACCTTT
261 TTCCA-AAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTT-AAACCTTC
* *
5355469 GGGTCATCTGTAAGTCTTTAAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGAC
324 AGGTCATCTATAAGTCTTTAAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGAC
* * * * *
5355534 AGGATGTTTTCACATGTCTCTCAAAAAATGAGAACGATTTCTCATTTAAATCTGAAATTTGAAAT
389 AGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAGATTCCACATTTAAAGCTGAAAATTGAAAT
5355599 TTTTGAAAAGTA
454 TTTTGAAAAGTA
* * * *
5355611 AGAAAATTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTAGGGCCATCAATAATTC
1 AGAAAAATTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTAAGGCCATCAGTAAGTC
* * * * *
5355676 TATCGAGCATGATGCTTAAATTCTTTGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAG-TCA
66 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTTC-
* * *
5355740 TTCGGGCCATCCATAAGACCTT-TGGCAGGATATTTTCACATGTCTCTCAAAAAATGAGAAAGGT
130 TTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAAGT
* * * *
5355804 TTCTCATTTAAATCTGAAAAATGAAA-TTTTGAAAAGTAAGAAAATTTTCTTAGCTTGTAAACTA
195 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTA
** * * * * ** *
5355868 TTTCCAAAAAAGATAAGTCATTCGGGTCATCAGCAAGTCTTTCGAGCATGATGATTAAACCCTTC
260 TTTCCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA-CCTTC
*
5355933 AAGTCATCT
324 AGGTCATCT
5355942 TTCAGTCTCA
Statistics
Matches: 704, Mismatches: 82, Indels: 19
0.87 0.10 0.02
Matches are distributed among these distances:
463 53 0.08
464 453 0.64
465 110 0.16
466 88 0.12
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (465 bp):
AGAAAAATTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTAAGGCCATCAGTAAGTC
TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTTCT
TCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAAGTT
TCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTAT
TTCCAAAATTGGTAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCATGATGCTTAAACCTTCAG
GTCATCTATAAGTCTTTAAAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTTGGACAG
GATGTTTTCACATGTCTCTCAAAAAATGAGAAAGATTCCACATTTAAAGCTGAAAATTGAAATTT
TTGAAAAGTA
Found at i:5356097 original size:3 final size:3
Alignment explanation
Indices: 5356091--5356137 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
5356081 TTACTACTAA
*
5356091 TAT TAT TAT TATT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5356137 T
1 T
5356138 TGTGTTTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:5357717 original size:2 final size:2
Alignment explanation
Indices: 5357710--5357747 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5357700 AAGCTTGAAC
5357710 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
5357748 TCACTTCCAT
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:5359758 original size:17 final size:19
Alignment explanation
Indices: 5359731--5359765 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5359721 TTCAATTATT
5359731 AATACTCAATTA-TTTTTA
1 AATACTCAATTACTTTTTA
5359749 AATACT-AATTACTTTTT
1 AATACTCAATTACTTTTT
5359766 TGGTTCGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
AATACTCAATTACTTTTTA
Found at i:5363034 original size:46 final size:46
Alignment explanation
Indices: 5362967--5363058 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
5362957 TTCTTCCATG
* *
5362967 TTGACAGTGATTTGACTAGTTATGTTGCTATAGTTGCACAAGGGCA
1 TTGACAGGGATTTGACTAGTTATGTTGCTATAGATGCACAAGGGCA
* *
5363013 TTGACAGGGATTTGACTAGTTATGTTGTTATAGATGCATAAGGGCA
1 TTGACAGGGATTTGACTAGTTATGTTGCTATAGATGCACAAGGGCA
5363059 AACCTGAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (46 bp):
TTGACAGGGATTTGACTAGTTATGTTGCTATAGATGCACAAGGGCA
Found at i:5364932 original size:15 final size:14
Alignment explanation
Indices: 5364898--5364943 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 14
5364888 AATTACTTTA
5364898 AATATAATTAACATAT
1 AATATAATTAA-A-AT
5364914 AATATAATTTAAAAT
1 AATATAA-TTAAAAT
5364929 AATATAAATTAAAAT
1 AATAT-AATTAAAAT
5364944 TAAAATGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 14 0.50
16 10 0.36
17 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATAATTAAAAT
Found at i:5369653 original size:4 final size:4
Alignment explanation
Indices: 5369640--5369677 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
5369630 AAACAATAAT
5369640 GAAA -AAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
5369678 GGAAGGAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:5371117 original size:34 final size:34
Alignment explanation
Indices: 5371078--5371146 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
5371068 TCGTAGATGG
* *
5371078 TGGTTGTTCGATCCCATATTTCATCGGTCGGTTT
1 TGGTTGTTCGATCCCAAATTTCATCGGTCGCTTT
5371112 TGGTTGTTCGATCCCAAATTTCATCGGTCGCTTT
1 TGGTTGTTCGATCCCAAATTTCATCGGTCGCTTT
5371146 T
1 T
5371147 CTCTCAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (34 bp):
TGGTTGTTCGATCCCAAATTTCATCGGTCGCTTT
Found at i:5371509 original size:41 final size:41
Alignment explanation
Indices: 5371459--5371716 Score: 126
Period size: 41 Copynumber: 6.0 Consensus size: 41
5371449 AAAGGAAATG
* *
5371459 AGATATGCTCTGCTACTCTTTAGGTTAGGTCAGATCAAGAT
1 AGATATGCTCTGCTACTCTTCAGGGTAGGTCAGATCAAGAT
* *** * *
5371500 AGATTTGCTCCAATACTCTTCAGGGTAGGTCAAATCTAAAGGAAA
1 AGATATGCTCTGCTACTCTTCAGGGTAGGTCAGATC--AA-G-AT
* * *
5371545 AAATATG-TTTCGCTGCTCTTCAGGGTAGGTCAGATCAAGAT
1 AGATATGCTCT-GCTACTCTTCAGGGTAGGTCAGATCAAGAT
* * * * * *
5371586 AGATTTGCTCTACTGCT-TATTAGGGTAGGTTAAATCTAAAGAAAAAT
1 AGATATGCTCTGCTACTCT-TCAGGGTAGGTCAGATC--AAG----AT
* * * *
5371633 GGAATATGCTCTACTACTCTTCAGGGTAGGTCAAATTAAGAT
1 AG-ATATGCTCTGCTACTCTTCAGGGTAGGTCAGATCAAGAT
* * ** * *
5371675 AAAT-TCGATCCACTTCTCATCAGGGTAGGTCAGATCAAGAT
1 AGATAT-GCTCTGCTACTCTTCAGGGTAGGTCAGATCAAGAT
5371716 A
1 A
5371717 TATTTCCTCC
Statistics
Matches: 163, Mismatches: 38, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 86 0.53
42 5 0.03
43 7 0.04
44 2 0.01
45 27 0.17
46 3 0.02
47 3 0.02
48 27 0.17
49 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (41 bp):
AGATATGCTCTGCTACTCTTCAGGGTAGGTCAGATCAAGAT
Found at i:5371574 original size:86 final size:87
Alignment explanation
Indices: 5371461--5371706 Score: 264
Period size: 86 Copynumber: 2.8 Consensus size: 87
5371451 AGGAAATGAG
* * * *
5371461 ATATGCTCTGCTACTCTTTAGGTTAGGTCAGATCAAGATAGATTTGCTCCAATACTCTTCAGGGT
1 ATATGCTCTACTACTCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCTTCAGGGT
*
5371526 AGGTCAAATCTAAAGGAAAA-A
66 AGGTCAAATCTAAAGAAAAAGA
* * * * * *
5371547 ATATG-TTTCGCTGCTCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCTACTGCT-TATTAGG
1 ATATGCTCT-ACTACTCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCT-TCAGG
*
5371610 GTAGGTTAAATCTAAAGAAAAATGGA
64 GTAGGTCAAATCTAAAGAAAAA--GA
* * * * * * *
5371636 ATATGCTCTACTACTCTTCAGGGTAGGTCAAATTAAGATAAATTCGATCCACTTCTCATCAGGGT
1 ATATGCTCTACTACTCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCTTCAGGGT
5371701 AGGTCA
66 AGGTCA
5371707 GATCAAGATA
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
85 3 0.02
86 70 0.54
89 55 0.42
90 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (87 bp):
ATATGCTCTACTACTCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCTTCAGGGT
AGGTCAAATCTAAAGAAAAAGA
Found at i:5375608 original size:21 final size:21
Alignment explanation
Indices: 5375584--5375623 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5375574 ATGTTTAATG
5375584 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
5375605 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
5375624 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:5376844 original size:20 final size:20
Alignment explanation
Indices: 5376815--5376867 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
5376805 GCAGCCTTGG
* * *
5376815 TGCATGGATGCATAGCAGGA
1 TGCATCGATGCACAACAGGA
*
5376835 TGCATCGATGCACAATAGGA
1 TGCATCGATGCACAACAGGA
5376855 TGCATCGATGCAC
1 TGCATCGATGCAC
5376868 TAATTGCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:5376912 original size:20 final size:20
Alignment explanation
Indices: 5376887--5376942 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
5376877 TCGAAATGGA
*
5376887 GTGCATGGATGCACTACATG
1 GTGCATCGATGCACTACATG
5376907 GTGCATCGATGCACTACATG
1 GTGCATCGATGCACTACATG
5376927 GTGCATCGATGCACTA
1 GTGCATCGATGCACTA
5376943 GTGGCAGGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (20 bp):
GTGCATCGATGCACTACATG
Found at i:5382057 original size:18 final size:18
Alignment explanation
Indices: 5382004--5382059 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
5381994 AAGATATAGC
5382004 AAAAAAATAAATAATTATAT
1 AAAAAAATAAATAA-TA-AT
5382024 AAAAGGAAA-AAA-AATAAT
1 AAAA--AAATAAATAATAAT
*
5382042 AAAATAATAAATAATAAT
1 AAAAAAATAAATAATAAT
5382060 TTTAAAGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
16 2 0.06
17 3 0.10
18 12 0.39
19 2 0.06
20 6 0.19
21 3 0.10
22 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAAAATAAATAATAAT
Found at i:5383006 original size:86 final size:87
Alignment explanation
Indices: 5382905--5383066 Score: 238
Period size: 86 Copynumber: 1.9 Consensus size: 87
5382895 ATAATTCCTA
* *
5382905 AAATAATATCTTAAATCCTAATAAAAACATTTAAAA-CTATTTAAACTAAAATACCTAAAACAAA
1 AAATAATATCCTAAATCCTAATAAAAACA-CTAAAACCTATTTAAACTAAAATACCTAAAACAAA
5382969 GATAAAA-ATAAAATAATATTTT
65 GATAAAATATAAAATAATATTTT
* * * * *
5382991 AAATATTATCCTAAATCCTAATTAATATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAG
1 AAATAATATCCTAAATCCTAATAAAAACACTAAAACCTATTTAAACTAAAATACCTAAAACAAAG
5383056 ATAAAATATAA
66 ATAAAATATAA
5383067 TATTTAAAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 5 0.07
86 58 0.87
87 4 0.06
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (87 bp):
AAATAATATCCTAAATCCTAATAAAAACACTAAAACCTATTTAAACTAAAATACCTAAAACAAAG
ATAAAATATAAAATAATATTTT
Found at i:5387040 original size:194 final size:194
Alignment explanation
Indices: 5386711--5387094 Score: 768
Period size: 194 Copynumber: 2.0 Consensus size: 194
5386701 GGTTTAAAAT
5386711 TGTGAAGGTAGAGATAGTGATAGATAAGGTGGGGCCCATAAAAAGAAATTTGAAACAAAAAGTAT
1 TGTGAAGGTAGAGATAGTGATAGATAAGGTGGGGCCCATAAAAAGAAATTTGAAACAAAAAGTAT
5386776 ATTCAAACTTGGAATTTCGGTAGAGGAGGGAATAAAGAAAAATTTGGGGTATGCTAACGTGCGCC
66 ATTCAAACTTGGAATTTCGGTAGAGGAGGGAATAAAGAAAAATTTGGGGTATGCTAACGTGCGCC
5386841 ACCTGGGGGGGGTCACCTACCTCCTATTTCCAGACGTGAAACACTGTCATTTCGTTAAATTCGA
131 ACCTGGGGGGGGTCACCTACCTCCTATTTCCAGACGTGAAACACTGTCATTTCGTTAAATTCGA
5386905 TGTGAAGGTAGAGATAGTGATAGATAAGGTGGGGCCCATAAAAAGAAATTTGAAACAAAAAGTAT
1 TGTGAAGGTAGAGATAGTGATAGATAAGGTGGGGCCCATAAAAAGAAATTTGAAACAAAAAGTAT
5386970 ATTCAAACTTGGAATTTCGGTAGAGGAGGGAATAAAGAAAAATTTGGGGTATGCTAACGTGCGCC
66 ATTCAAACTTGGAATTTCGGTAGAGGAGGGAATAAAGAAAAATTTGGGGTATGCTAACGTGCGCC
5387035 ACCTGGGGGGGGTCACCTACCTCCTATTTCCAGACGTGAAACACTGTCATTTCGTTAAAT
131 ACCTGGGGGGGGTCACCTACCTCCTATTTCCAGACGTGAAACACTGTCATTTCGTTAAAT
5387095 ATTCGATCAG
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
194 190 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (194 bp):
TGTGAAGGTAGAGATAGTGATAGATAAGGTGGGGCCCATAAAAAGAAATTTGAAACAAAAAGTAT
ATTCAAACTTGGAATTTCGGTAGAGGAGGGAATAAAGAAAAATTTGGGGTATGCTAACGTGCGCC
ACCTGGGGGGGGTCACCTACCTCCTATTTCCAGACGTGAAACACTGTCATTTCGTTAAATTCGA
Found at i:5387149 original size:14 final size:15
Alignment explanation
Indices: 5387125--5387162 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
5387115 TGTTCAGGGA
5387125 AAAATAAAATTAATT
1 AAAATAAAATTAATT
5387140 AAAA-AAAATTAA-T
1 AAAATAAAATTAATT
*
5387153 AGAATAAAAT
1 AAAATAAAAT
5387163 AAAGTTTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 13 0.62
15 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATAAAATTAATT
Found at i:5389012 original size:20 final size:20
Alignment explanation
Indices: 5388987--5389049 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
5388977 AAAAGATAAA
5388987 ATAAAATAAAATAAATAATT
1 ATAAAATAAAATAAATAATT
*
5389007 ATAAAA-AAGGAA-AAATAATA
1 ATAAAATAA--AATAAATAATT
5389027 ATAAAAT-AAAT-AATAATT
1 ATAAAATAAAATAAATAATT
*
5389045 TTAAA
1 ATAAA
5389050 GACAATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 12 0.33
19 2 0.06
20 20 0.56
21 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (20 bp):
ATAAAATAAAATAAATAATT
Found at i:5389014 original size:17 final size:18
Alignment explanation
Indices: 5388986--5389043 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
5388976 GAAAAGATAA
5388986 AATAA-AATAAAATAAAT
1 AATAATAATAAAATAAAT
* *
5389003 AATTATAA-AAAAGGAAA-
1 AATAATAATAAAA-TAAAT
5389020 AATAATAATAAAATAAAT
1 AATAATAATAAAATAAAT
5389038 AATAAT
1 AATAAT
5389044 TTTAAAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 18 0.55
18 15 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (18 bp):
AATAATAATAAAATAAAT
Found at i:5392246 original size:142 final size:141
Alignment explanation
Indices: 5391988--5392259 Score: 336
Period size: 142 Copynumber: 1.9 Consensus size: 141
5391978 GATTTAGATT
* * * * *
5391988 TTTTCACCTTAGTCCTTTAATTTAGGGAATAATTTTATTTGACTCTCACATTAAATGCCTGATGG
1 TTTTCACCTTAGTCCTATAATTTAGAGAATAATTTGATTTGACTCTCACATAAAATGCCTGAGGG
* * ** *
5392053 ATCATTTCGATTATTCGACTCAATAATTGATATGAAAATTAATTAGTTTAATAATTAGAGCATCC
66 ACCATTTCGATTATTCAACTCAATAATTGATATGAAAACAAATTAGATTAAT-ATTAGAGCATCC
5392118 ACTTTAGGCTTA
130 ACTTTAGGCTTA
* * *
5392130 TTTTCACTTTAGCTCC-ATAATTTAGAGAATAATTTGATTTGGCTCTCGCACTAAAATG-CTCGA
1 TTTTCACCTTAG-TCCTATAATTTAGAGAATAATTTGATTTGACTCTCACA-TAAAATGCCT-GA
* *
5392193 GGGACCATTTCGATTATTCAACTCAATAATTGCT-T-AAAACAAATTAGGATTAATATTAGAGCC
63 GGGACCATTTCGATTATTCAACTCAATAATTGATATGAAAACAAATTA-GATTAATATTAGAGCA
5392256 TCCA
127 TCCA
5392260 TATTTAAGAC
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
141 21 0.19
142 49 0.44
143 41 0.37
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (141 bp):
TTTTCACCTTAGTCCTATAATTTAGAGAATAATTTGATTTGACTCTCACATAAAATGCCTGAGGG
ACCATTTCGATTATTCAACTCAATAATTGATATGAAAACAAATTAGATTAATATTAGAGCATCCA
CTTTAGGCTTA
Found at i:5393863 original size:15 final size:15
Alignment explanation
Indices: 5393843--5393924 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
5393833 TTCCAGAAAA
5393843 TGAATTACTGGAATT
1 TGAATTACTGGAATT
5393858 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
5393873 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
5393888 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
5393903 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
5393917 TGAATTAC
1 TGAATTAC
5393925 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:5393877 original size:30 final size:30
Alignment explanation
Indices: 5393843--5393924 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
5393833 TTCCAGAAAA
**
5393843 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
5393873 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
5393903 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
5393925 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:5393889 original size:45 final size:44
Alignment explanation
Indices: 5393838--5393924 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
5393828 TGGTTTTCCA
**
5393838 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
5393883 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
5393925 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:5393930 original size:20 final size:20
Alignment explanation
Indices: 5393907--5393976 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
5393897 GGAATTTGAA
5393907 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
5393927 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
5393947 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
5393967 TTCTGGAAAA
1 TTCTGGAAAA
5393977 CATCTGTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:5394266 original size:8 final size:8
Alignment explanation
Indices: 5394241--5394313 Score: 55
Period size: 8 Copynumber: 9.2 Consensus size: 8
5394231 ATTGATTATT
5394241 TTATAATA
1 TTATAATA
5394249 TTA-AA-A
1 TTATAATA
5394255 -TATAATA
1 TTATAATA
*
5394262 TTATATTA
1 TTATAATA
5394270 TTATAATA
1 TTATAATA
5394278 TTAATAAATA
1 TT-AT-AATA
*
5394288 TTTTAAATA
1 TTAT-AATA
*
5394297 TTTTAATA
1 TTATAATA
*
5394305 AT-TAATA
1 TTATAATA
5394312 TT
1 TT
5394314 TTGATGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
5 2 0.04
6 3 0.05
7 9 0.16
8 23 0.42
9 12 0.22
10 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTATAATA
Found at i:5394288 original size:21 final size:21
Alignment explanation
Indices: 5394242--5394298 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 21
5394232 TTGATTATTT
5394242 TATAATATTA--AAATA-TAA
1 TATAATATTATTAAATATTAA
*
5394260 TATTATATTATTATAATATTAA
1 TATAATATTATTA-AATATTAA
5394282 TA-AATATT-TTAAATATT
1 TATAATATTATTAAATATT
5394299 TTAATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 9 0.27
19 6 0.18
20 4 0.12
21 9 0.27
22 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATAATATTATTAAATATTAA
Found at i:5394546 original size:42 final size:42
Alignment explanation
Indices: 5394487--5394606 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
5394477 ATGAATTACA
*
5394487 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
5394529 TTCCGGAAAACGAATTACGTGAAACAAACACGTGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
5394571 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
5394607 TTCGGGGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:5395719 original size:30 final size:30
Alignment explanation
Indices: 5395680--5395745 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
5395670 AAGAGGAATA
* * *
5395680 AATCTCATGCATATGTCATAATGAGAAATT
1 AATCCCATGCAAATGTCAGAATGAGAAATT
* *
5395710 AATCCCATGCAAATGTCAGAATGTGGAATT
1 AATCCCATGCAAATGTCAGAATGAGAAATT
5395740 AATCCC
1 AATCCC
5395746 GTGTAGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (30 bp):
AATCCCATGCAAATGTCAGAATGAGAAATT
Found at i:5397188 original size:31 final size:31
Alignment explanation
Indices: 5397153--5397229 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
5397143 GGTAAAATTA
5397153 AAAGTTTGGTGGTATAAACGAGTCAATGGAC
1 AAAGTTTGGTGGTATAAACGAGTCAATGGAC
5397184 AAAGTTTGGTGGTATAAACGAGTCAATGGAC
1 AAAGTTTGGTGGTATAAACGAGTCAATGGAC
*
5397215 AAAGTTTAGTGGTAT
1 AAAGTTTGGTGGTAT
5397230 TTGAAATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (31 bp):
AAAGTTTGGTGGTATAAACGAGTCAATGGAC
Found at i:5398229 original size:163 final size:163
Alignment explanation
Indices: 5397933--5398269 Score: 550
Period size: 163 Copynumber: 2.1 Consensus size: 163
5397923 CCGGTTTCAT
5397933 TATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
1 TATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
* * *** *
5397998 GACACTTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCGTACTTTATAAAAA
66 GACACTTTTTGGAATTTAAAAGAAAAACAGTAATAGAACCTATAAAGTATCGTACTTTATAAAAA
* *
5398063 TGTATCGATCCATAATAATATAACAGGTAAGAA
131 TGTATCGATCCATAATAATATAACAGATAAAAA
*
5398096 TATGACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
1 TATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
* *
5398161 GACAC-TTTTGGAATTTAAAAGAAAAACAGTAATAGAACCTATAAAGTATCGATATTTTATATAA
66 GACACTTTTTGGAATTTAAAAGAAAAACAGTAATAGAACCTATAAAGTATCG-TACTTTATAAAA
*
5398225 ATGTATCGATCTATAATAATATAACAGATAAAAA
130 ATGTATCGATCCATAATAATATAACAGATAAAAA
5398259 TATGACAAAAC
1 TATGACAAAAC
5398270 GGGTTTCATT
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
162 40 0.25
163 120 0.75
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (163 bp):
TATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTCCATTGAAATAAGTATC
GACACTTTTTGGAATTTAAAAGAAAAACAGTAATAGAACCTATAAAGTATCGTACTTTATAAAAA
TGTATCGATCCATAATAATATAACAGATAAAAA
Found at i:5400830 original size:12 final size:12
Alignment explanation
Indices: 5400813--5400838 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5400803 CTACTCACGT
5400813 GAAGAAGAATAA
1 GAAGAAGAATAA
5400825 GAAGAAGAATAA
1 GAAGAAGAATAA
5400837 GA
1 GA
5400839 GAAATGCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (12 bp):
GAAGAAGAATAA
Found at i:5403183 original size:46 final size:46
Alignment explanation
Indices: 5403120--5403540 Score: 461
Period size: 46 Copynumber: 9.1 Consensus size: 46
5403110 TATATGTCGT
* * * * *
5403120 TAATACACCATTATGTATTTTCATTTGA-AGCATCCTTTCATGTCAA
1 TAATGCACCGTTATGCATTTTCATTT-ATGGCATCCTTTCATGCCAA
* * *
5403166 TTATGCACCGTTATGTATTTTCATTTATGGCATTCTTTCATG-CAGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCA-A
** * * *
5403212 TAATGCTTCGCTATGCATTTTCATTTATGGTATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
* * *
5403258 TAATGCACTGTTATGCATTTTCATCATTTATGGCATTCTTTCATG-AAGA
1 TAATGCACCGTTATGCA-TTT--TCATTTATGGCATCCTTTCATGCCA-A
* *
5403307 AAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCTA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
* * * *
5403353 TAATGCACCATTATGCATTTTCATTTATGGCATCCTTTAATGGCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
* * *
5403399 TAATACACCATTATGCATTTTCATTTATTGCATCCTTTCATGCCAA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
* * * * *
5403445 AAATTCACCGTTATGCATTTTCATTTATGACATCCTTTCATGTCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
* * * *
5403491 TAATGCACCATTATACATTTTCATTTATTGCATCCTTTCATGCCGA
1 TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
5403537 TAAT
1 TAAT
5403541 TAGATTTAAA
Statistics
Matches: 317, Mismatches: 50, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
45 3 0.01
46 271 0.85
47 4 0.01
48 3 0.01
49 36 0.11
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (46 bp):
TAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGCCAA
Found at i:5408649 original size:46 final size:45
Alignment explanation
Indices: 5408592--5408998 Score: 361
Period size: 46 Copynumber: 8.8 Consensus size: 45
5408582 AATACACCAA
* * * *
5408592 TATGTATTTTCATTTAAAACATTCTTTCATGTCGATTATGCACCGT
1 TATGCATTTTCATTTAAGACATCCTTTCATG-CGATAATGCACCGT
* * * *
5408638 TGTGCATTTTCATTTACGACATCCTTTCATGCTGATAATGCATCAT
1 TATGCATTTTCATTTAAGACATCCTTTCATGC-GATAATGCACCGT
* * *
5408684 TATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGT
1 TATGCATTTTCATTTAAGACATCCTTTCATG-CGATAATGCACCGT
* * * * * *
5408730 TATGCATTTTCATTTATGGCATCCTTTCATGAAGAAAATGAACCAT
1 TATGCATTTTCATTTAAGACATCCTTTCATG-CGATAATGCACCGT
* * * * *
5408776 TATGCATTTTCATTTATGGCATCCTTTCAAGCCTATAATG-AACGAT
1 TATGCATTTTCATTTAAGACATCCTTTCATG-CGATAATGCACCG-T
* * * * *
5408822 TTTGCATTTTCCTTTATGGCATCCTTTCATGGCAATAATGCACCGT
1 TATGCATTTTCATTTAAGACATCCTTTCAT-GCGATAATGCACCGT
* * * *
5408868 TATGTATTTTCATTTATTG-CATCCTTTCATGCCGAAAACT-CATCGT
1 TATGCATTTTCATTTA-AGACATCCTTTCATG-CGATAA-TGCACCGT
* * *
5408914 TATGCATTTTCATTTACGACATCCTTTCATGCCGAAAATGCACCAT
1 TATGCATTTTCATTTAAGACATCCTTTCATG-CGATAATGCACCGT
* *
5408960 TATGCATTTTCATTTATGGCATCCTTTCATGCCGATAAT
1 TATGCATTTTCATTTAAGACATCCTTTCATG-CGATAAT
5408999 TAGATTTAAA
Statistics
Matches: 306, Mismatches: 45, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
45 6 0.02
46 292 0.95
47 8 0.03
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (45 bp):
TATGCATTTTCATTTAAGACATCCTTTCATGCGATAATGCACCGT
Found at i:5408754 original size:92 final size:91
Alignment explanation
Indices: 5408586--5408998 Score: 483
Period size: 92 Copynumber: 4.5 Consensus size: 91
5408576 GTCGTTAATA
* * *** * * * * *
5408586 CACCAATATGTATTTTCATTTAAAACATTCTTTCATGTCGATTATGCACCGTTGTGCATTTTCAT
1 CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCAT
*
5408651 TTACGACATCCTTTCATGCTGATAATG
66 TTACGACATCCTTTCATGC-GAAAATG
*
5408678 CATCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCAT
1 CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCAT
* * *
5408743 TTATGGCATCCTTTCATGAAGAAAATG
66 TTACGACATCCTTTCATG-CGAAAATG
* * * * * *
5408770 AACCATTATGCATTTTCATTTATGGCATCCTTTCAAGCCTATAATGAAC-GATTTTGCATTTTCC
1 CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTG-TTATGCATTTTCA
* *
5408834 TTTATGGCATCCTTTCATG-GCAATAATG
65 TTTACGACATCCTTTCATGCG-AA-AATG
* * * *
5408862 CACCGTTATGTATTTTCATTTATTGCATCCTTTCATGCCGAAAACT-CA-TCGTTATGCATTTTC
1 CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAA-TGCACT-GTTATGCATTTTC
5408925 ATTTACGACATCCTTTCATGCCGAAAATG
64 ATTTACGACATCCTTTCATG-CGAAAATG
5408954 CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAAT
1 CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAAT
5408999 TAGATTTAAA
Statistics
Matches: 274, Mismatches: 38, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
90 1 0.00
91 4 0.01
92 264 0.96
93 4 0.01
94 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.40
Consensus pattern (91 bp):
CACCATTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCAT
TTACGACATCCTTTCATGCGAAAATG
Found at i:5408845 original size:138 final size:137
Alignment explanation
Indices: 5408640--5408998 Score: 488
Period size: 138 Copynumber: 2.6 Consensus size: 137
5408630 TGCACCGTTG
*
5408640 TGCATTTTCATTTACGACATCCTTTCATG-CTGATAATGCATCATTATGCATTTTCATTTATGGC
1 TGCATTTTCATTTACGACATCCTTTCATGCCT-ATAATG-AACATTATGCATTTTCATTTATGGC
*
5408704 ATCCTTTCATGCCGATAATGCACTGTTATGCATTTTCATTTATGGCATCCTTTCATGAAGAAAA-
64 ATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGAAGAAAAC
5408768 TGAACCATTA
129 T-AACCATTA
* * * * *
5408778 TGCATTTTCATTTATGGCATCCTTTCAAGCCTATAATGAACGATTTTGCATTTTCCTTTATGGCA
1 TGCATTTTCATTTACGACATCCTTTCATGCCTATAATGAAC-ATTATGCATTTTCATTTATGGCA
* * * * **
5408843 TCCTTTCATGGCAATAATGCACCGTTATGTATTTTCATTTATTGCATCCTTTCATGCCGAAAACT
65 TCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGAAGAAAACT
* * *
5408908 CATCGTTA
130 AACCATTA
* * *
5408916 TGCATTTTCATTTACGACATCCTTTCATGCCGAAAATGCACCATTATGCATTTTCATTTATGGCA
1 TGCATTTTCATTTACGACATCCTTTCATGCCTATAATG-AACATTATGCATTTTCATTTATGGCA
5408981 TCCTTTCATGCCGATAAT
65 TCCTTTCATGCCGATAAT
5408999 TAGATTTAAA
Statistics
Matches: 191, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
137 2 0.01
138 184 0.96
139 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (137 bp):
TGCATTTTCATTTACGACATCCTTTCATGCCTATAATGAACATTATGCATTTTCATTTATGGCAT
CCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTATGGCATCCTTTCATGAAGAAAACTA
ACCATTA
Found at i:5409391 original size:7 final size:7
Alignment explanation
Indices: 5409379--5409416 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
5409369 TCCTCTCATC
5409379 TTTCCCT
1 TTTCCCT
5409386 TTTCCCT
1 TTTCCCT
5409393 TTTCCCT
1 TTTCCCT
5409400 TTTCCCT
1 TTTCCCT
5409407 TTTCCCT
1 TTTCCCT
5409414 TTT
1 TTT
5409417 TTAAATACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTCCCT
Found at i:5415897 original size:30 final size:30
Alignment explanation
Indices: 5415863--5415921 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
5415853 AACCCAATTT
*
5415863 TTCTTTTTCTTTT-TTTAATTTCTATTTTCG
1 TTCTTTTTATTTTATTTAATTT-TATTTTCG
*
5415893 TTCTTTTTATTTTATTTTATTTTATTTTC
1 TTCTTTTTATTTTATTTAATTTTATTTTC
5415922 CTTGATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (30 bp):
TTCTTTTTATTTTATTTAATTTTATTTTCG
Found at i:5417100 original size:17 final size:17
Alignment explanation
Indices: 5417078--5417117 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5417068 TCTTTCAGTG
5417078 AAAAAAAAACAAAACAA
1 AAAAAAAAACAAAACAA
* * *
5417095 AAAAAAAGAGAAAAGAA
1 AAAAAAAAACAAAACAA
5417112 AAAAAA
1 AAAAAA
5417118 GAAAAATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAACAA
Found at i:5417118 original size:16 final size:15
Alignment explanation
Indices: 5417079--5417123 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
5417069 CTTTCAGTGA
*
5417079 AAAAAAAACAAAACA-
1 AAAAAAAAGAAAA-AG
5417094 AAAAAAAAGAGAAAAG
1 AAAAAAAAGA-AAAAG
5417110 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
5417124 TTGTGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:5419394 original size:2 final size:2
Alignment explanation
Indices: 5419387--5419417 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5419377 CCAGAAAAGT
5419387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5419418 CTTTCTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5421488 original size:46 final size:46
Alignment explanation
Indices: 5421363--5421817 Score: 678
Period size: 46 Copynumber: 9.9 Consensus size: 46
5421353 TAATACATCA
* * * * ** * *
5421363 TTATGTATTTTCACTTGTAGCATCCTTTCATGTTGATTATGTACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
*
5421409 TTGTGCATTTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
1 TTATGCA-TTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
5421456 TAATGCATTTTAATTTATGGCATCCTTTCATGCCGATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
5421502 TTATGCATTTTCATTTATGGCATCCTTTCATGTCTATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
5421548 TTATGCATTTTCATTTATGGTATCCTTTCATGCCAATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
*
5421594 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
*
5421640 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
* *
5421686 TTATGCATTTTCATTTAAT-GCATCCTTTCATGCTGATAATGCATCG
1 TTATGCATTTTCATTT-ATGGCATCCTTTCATGCCGATAATGCACCG
* * *
5421732 TTATGCATTTTCATTTATGGCATCGTTTCATGTCGATAATACACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
*
5421778 TTATGCATTTTCATTTATGGCATCCTTTCATGTCGATAAT
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAAT
5421818 TAGATTTAAA
Statistics
Matches: 375, Mismatches: 31, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
45 2 0.01
46 334 0.89
47 39 0.10
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCGATAATGCACCG
Found at i:5423042 original size:15 final size:16
Alignment explanation
Indices: 5423010--5423042 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5423000 TATAAGAGGC
*
5423010 AACTCATATTTAATTT
1 AACTCATATTTAAATT
5423026 AACTCAT-TTTAAATT
1 AACTCATATTTAAATT
5423041 AA
1 AA
5423043 TTTCAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (16 bp):
AACTCATATTTAAATT
Found at i:5426155 original size:28 final size:29
Alignment explanation
Indices: 5426123--5426179 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
5426113 TCAAACAATG
*
5426123 TAGTT-TGGTTCGAACAGTGCAAAAAAAT
1 TAGTTATGATTCGAACAGTGCAAAAAAAT
* *
5426151 TAGTTATGATTCGAACTGTGCAGAAAAAT
1 TAGTTATGATTCGAACAGTGCAAAAAAAT
5426180 ATACAATGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.30
Consensus pattern (29 bp):
TAGTTATGATTCGAACAGTGCAAAAAAAT
Found at i:5428132 original size:20 final size:20
Alignment explanation
Indices: 5428107--5428176 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
5428097 CCCTTTAAAG
5428107 GGTATCGATATTGATAGCCT
1 GGTATCGATATTGATAGCCT
* * * **
5428127 GGTATCGATACTCACAGGGT
1 GGTATCGATATTGATAGCCT
*
5428147 GGTATCGATATTGATGGCCT
1 GGTATCGATATTGATAGCCT
5428167 GGTATCGATA
1 GGTATCGATA
5428177 CTCACAGGGT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (20 bp):
GGTATCGATATTGATAGCCT
Found at i:5428156 original size:40 final size:40
Alignment explanation
Indices: 5428107--5428197 Score: 173
Period size: 40 Copynumber: 2.3 Consensus size: 40
5428097 CCCTTTAAAG
5428107 GGTATCGATATTGATAGCCTGGTATCGATACTCACAGGGT
1 GGTATCGATATTGATAGCCTGGTATCGATACTCACAGGGT
*
5428147 GGTATCGATATTGATGGCCTGGTATCGATACTCACAGGGT
1 GGTATCGATATTGATAGCCTGGTATCGATACTCACAGGGT
5428187 GGTATCGATAT
1 GGTATCGATAT
5428198 CGAGCTATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (40 bp):
GGTATCGATATTGATAGCCTGGTATCGATACTCACAGGGT
Found at i:5428189 original size:20 final size:20
Alignment explanation
Indices: 5428126--5428196 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
5428116 ATTGATAGCC
5428126 TGGTATCGATACTCACAGGG
1 TGGTATCGATACTCACAGGG
* * * *
5428146 TGGTATCGATATTGA-TGGCC
1 TGGTATCGATACTCACAGG-G
5428166 TGGTATCGATACTCACAGGG
1 TGGTATCGATACTCACAGGG
5428186 TGGTATCGATA
1 TGGTATCGATA
5428197 TCGAGCTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.90
21 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACTCACAGGG
Found at i:5430593 original size:175 final size:175
Alignment explanation
Indices: 5430302--5430652 Score: 702
Period size: 175 Copynumber: 2.0 Consensus size: 175
5430292 TTGAATGTGT
5430302 ACGATGCACACAGCCTAGAAATGTTATTTTTATCACGAAAATCCCTTCATAATCCTCTCAACACT
1 ACGATGCACACAGCCTAGAAATGTTATTTTTATCACGAAAATCCCTTCATAATCCTCTCAACACT
5430367 TCCTATTTCACCTCCTTTTATGTATTTAACTTGTATACACCTACTTAAACTAATTATTATCCATT
66 TCCTATTTCACCTCCTTTTATGTATTTAACTTGTATACACCTACTTAAACTAATTATTATCCATT
5430432 TAATACCTCTAAAACTTAAAAATCTAATCCTCCGTATAAAATTCA
131 TAATACCTCTAAAACTTAAAAATCTAATCCTCCGTATAAAATTCA
5430477 ACGATGCACACAGCCTAGAAATGTTATTTTTATCACGAAAATCCCTTCATAATCCTCTCAACACT
1 ACGATGCACACAGCCTAGAAATGTTATTTTTATCACGAAAATCCCTTCATAATCCTCTCAACACT
5430542 TCCTATTTCACCTCCTTTTATGTATTTAACTTGTATACACCTACTTAAACTAATTATTATCCATT
66 TCCTATTTCACCTCCTTTTATGTATTTAACTTGTATACACCTACTTAAACTAATTATTATCCATT
5430607 TAATACCTCTAAAACTTAAAAATCTAATCCTCCGTATAAAATTCA
131 TAATACCTCTAAAACTTAAAAATCTAATCCTCCGTATAAAATTCA
5430652 A
1 A
5430653 GAATCTCACT
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 176 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (175 bp):
ACGATGCACACAGCCTAGAAATGTTATTTTTATCACGAAAATCCCTTCATAATCCTCTCAACACT
TCCTATTTCACCTCCTTTTATGTATTTAACTTGTATACACCTACTTAAACTAATTATTATCCATT
TAATACCTCTAAAACTTAAAAATCTAATCCTCCGTATAAAATTCA
Found at i:5433947 original size:18 final size:18
Alignment explanation
Indices: 5433924--5433973 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
5433914 AAATATTTGC
5433924 CCCGAAGGACCACTATGT
1 CCCGAAGGACCACTATGT
5433942 CCCGAAGGACCACTATGT
1 CCCGAAGGACCACTATGT
*
5433960 CCTGAAGGACCACT
1 CCCGAAGGACCACT
5433974 GATAATCCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.34, G:0.22, T:0.16
Consensus pattern (18 bp):
CCCGAAGGACCACTATGT
Found at i:5440657 original size:21 final size:21
Alignment explanation
Indices: 5440633--5440682 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
5440623 GAAGCTTTAA
5440633 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTTCTTTTGAT
5440654 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTTCTTTTGAT
5440675 GATCATCA
1 GATCATCA
5440683 TTGACCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.48
Consensus pattern (21 bp):
GATCATCAATTTTCTTTTGAT
Found at i:5440691 original size:21 final size:21
Alignment explanation
Indices: 5440633--5440691 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
5440623 GAAGCTTTAA
**
5440633 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTACCTTTTGAT
**
5440654 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTACCTTTTGAT
5440675 GATCATC-ATTGACCTTT
1 GATCATCAATT-ACCTTT
5440692 GAAAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 3 0.09
21 32 0.91
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (21 bp):
GATCATCAATTACCTTTTGAT
Found at i:5440842 original size:22 final size:21
Alignment explanation
Indices: 5440800--5440839 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5440790 GAGTTTATTT
*
5440800 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
5440821 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
5440840 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:5442875 original size:45 final size:46
Alignment explanation
Indices: 5442790--5442877 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
5442780 AAATAGCCTG
* *
5442790 AGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACTA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
5442836 AGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
5442878 TTCGATGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 22 0.55
46 18 0.45
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (46 bp):
AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
Found at i:5445978 original size:19 final size:21
Alignment explanation
Indices: 5445936--5445979 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
5445926 TAGCTCAATT
5445936 TATTTTTATTTAAAGATAATA
1 TATTTTTATTTAAAGATAATA
*
5445957 TATTTTTA-TTAAATAT-ATA
1 TATTTTTATTTAAAGATAATA
5445976 TATT
1 TATT
5445980 AATATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTTTATTTAAAGATAATA
Found at i:5446162 original size:2 final size:2
Alignment explanation
Indices: 5446155--5446181 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5446145 CTGTTATTAA
5446155 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5446182 AATTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5446321 original size:18 final size:19
Alignment explanation
Indices: 5446298--5446338 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5446288 TTAATTCAAT
5446298 TTATTTTA-TAAAAATAAA
1 TTATTTTATTAAAAATAAA
* *
5446316 TTATTTTATTAAATATATA
1 TTATTTTATTAAAAATAAA
5446335 TTAT
1 TTAT
5446339 GTATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATTTTATTAAAAATAAA
Found at i:5448128 original size:7 final size:7
Alignment explanation
Indices: 5448116--5448149 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
5448106 GAAAGGGTCT
5448116 GAGGTGC
1 GAGGTGC
5448123 GAGGTGC
1 GAGGTGC
5448130 GAGGTGC
1 GAGGTGC
5448137 GAGGTGC
1 GAGGTGC
5448144 -AGGTGC
1 GAGGTGC
5448150 ACGCTTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.15, C:0.15, G:0.56, T:0.15
Consensus pattern (7 bp):
GAGGTGC
Found at i:5453295 original size:19 final size:19
Alignment explanation
Indices: 5453259--5453295 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5453249 TGAACATGAT
*
5453259 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
5453278 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
5453296 ATGGAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:5453875 original size:37 final size:37
Alignment explanation
Indices: 5453781--5453885 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
5453771 CCTTTTCGTC
*
5453781 CTACTAGGATTCAAACTCCAAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
5453818 TTGCTAGGATTCAAATTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
5453855 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
5453886 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:5454404 original size:11 final size:11
Alignment explanation
Indices: 5454366--5454419 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
5454356 CTTTGCGTTA
5454366 TATTATATTAT
1 TATTATATTAT
*
5454377 T-TTCCTATTAT
1 TATT-ATATTAT
5454388 TA-TATA-TAT
1 TATTATATTAT
5454397 ATATTATATTAT
1 -TATTATATTAT
*
5454409 TATTATTTTAT
1 TATTATATTAT
5454420 CTATGTTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
9 3 0.09
10 6 0.17
11 23 0.66
12 3 0.09
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATATTAT
Found at i:5454611 original size:2 final size:2
Alignment explanation
Indices: 5454604--5454632 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5454594 TACATACATT
5454604 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5454633 TATTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5454786 original size:20 final size:19
Alignment explanation
Indices: 5454759--5454814 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
5454749 TTTTATCTTC
5454759 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
5454778 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
5454798 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
5454815 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:5457451 original size:15 final size:15
Alignment explanation
Indices: 5457431--5457461 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5457421 CAAGGATAAC
5457431 TCCTGAGAATCCAAA
1 TCCTGAGAATCCAAA
5457446 TCCTGAGAATCCAAA
1 TCCTGAGAATCCAAA
5457461 T
1 T
5457462 GGTTGATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TCCTGAGAATCCAAA
Found at i:5459164 original size:17 final size:15
Alignment explanation
Indices: 5459105--5459171 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 15
5459095 CAAAAAGGGC
5459105 AAAAACAAAAAAGAA
1 AAAAACAAAAAAGAA
*
5459120 AAGAAGCAAAAAAGAA
1 AA-AAACAAAAAAGAA
*
5459136 GAAAACCAAAAAAAGAA
1 -AAAAAC-AAAAAAGAA
5459153 CAAAAATC-AAAAAGAA
1 -AAAAA-CAAAAAAGAA
5459169 AAA
1 AAA
5459172 GGGATAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.11
16 23 0.52
17 15 0.34
18 1 0.02
ACGTcount: A:0.79, C:0.09, G:0.10, T:0.01
Consensus pattern (15 bp):
AAAAACAAAAAAGAA
Found at i:5459797 original size:22 final size:22
Alignment explanation
Indices: 5459769--5459823 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
5459759 GCTACCCCAT
5459769 CAAACCTTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATAC
*
5459791 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATAC
*
5459813 TAAACCTTTGA
1 CAAACCTTTGA
5459824 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATAC
Found at i:5460259 original size:18 final size:19
Alignment explanation
Indices: 5460236--5460272 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5460226 TCAATATCAA
*
5460236 ATATTGGGGTATT-TTTGG
1 ATATTGGGGCATTATTTGG
5460254 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
5460273 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:5460913 original size:106 final size:106
Alignment explanation
Indices: 5460785--5462060 Score: 2014
Period size: 106 Copynumber: 12.0 Consensus size: 106
5460775 ATATCGTGCC
* * * *
5460785 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5460850 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
5460891 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
5460956 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
5460997 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5461062 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
5461103 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCAGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5461168 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
5461209 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5461274 AATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
5461315 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5461380 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
5461421 ACTCGAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACGAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
5461486 AATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
5461527 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAACGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
5461592 AATTTTTGAGCCAATTTCAACTTCACAACGAATGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
5461633 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
5461698 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
5461739 ACTCCAAACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5461804 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
5461845 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5461910 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
5461951 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
** * * *
5462015 TGATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
5462057 ACTC
1 ACTC
5462061 GGAACAATGC
Statistics
Matches: 1085, Mismatches: 84, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
105 2 0.00
106 1083 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:5462863 original size:37 final size:37
Alignment explanation
Indices: 5462810--5462914 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
5462800 CCTTTTCGTC
5462810 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
5462847 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
5462884 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
5462915 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:5463437 original size:8 final size:9
Alignment explanation
Indices: 5463407--5463439 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
5463397 ATTTTCCTAT
5463407 TATTATATA
1 TATTATATA
5463416 TATATATATA
1 TAT-TATATA
5463426 TATTATAT-
1 TATTATATA
5463434 TATTAT
1 TATTAT
5463440 TATTTTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 8 0.35
10 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TATTATATA
Found at i:5463663 original size:22 final size:22
Alignment explanation
Indices: 5463579--5463697 Score: 86
Period size: 22 Copynumber: 5.4 Consensus size: 22
5463569 TATTTTCATT
*
5463579 TATTTATTATTATTATTACTATTTA
1 TATTT-TTATTATT-TTA-TATATA
* *
5463604 GTA-TTTTATTATATTATACATA
1 -TATTTTTATTATTTTATATATA
*
5463626 CATTTTTA-TATTTTTATATATA
1 TATTTTTATTA-TTTTATATATA
*
5463648 TATTTTTATTATTTTATTTATA
1 TATTTTTATTATTTTATATATA
* *
5463670 CTATTTAT-TTATTTT-CAT-TA
1 -TATTTTTATTATTTTATATATA
5463690 TATTTTTA
1 TATTTTTA
5463698 GTTTCTTTGC
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
19 6 0.08
20 2 0.03
21 4 0.05
22 42 0.55
23 11 0.14
24 7 0.09
25 2 0.03
26 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (22 bp):
TATTTTTATTATTTTATATATA
Found at i:5463665 original size:14 final size:14
Alignment explanation
Indices: 5463631--5463697 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
5463621 ACATACATTT
5463631 TTATATTTTTA-TA
1 TTATATTTTTATTA
5463644 TATATATTTTTATTA
1 T-TATATTTTTATTA
* * *
5463659 TTTTATTTATACTA
1 TTATATTTTTATTA
5463673 TT-TATTTATT-TTCA
1 TTATATTT-TTATT-A
5463687 TTATATTTTTA
1 TTATATTTTTA
5463698 GTTTCTTTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 7 0.16
14 28 0.65
15 8 0.19
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATTTTTATTA
Found at i:5463692 original size:44 final size:43
Alignment explanation
Indices: 5463607--5463696 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
5463597 CTATTTAGTA
*
5463607 TTTTATTATATTATACATACATTTTTATATTTTTATATATATAT
1 TTTTATTATATTATACATACATTTTTATATTTTCATATATAT-T
* **
5463651 TTTTATTATTTTATTTATACTATTTATT-TATTTTCAT-TATATT
1 TTTTATTATATTATACATAC-ATTT-TTATATTTTCATATATATT
5463694 TTT
1 TTT
5463697 AGTTTCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.10
44 22 0.55
45 12 0.30
46 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (43 bp):
TTTTATTATATTATACATACATTTTTATATTTTCATATATATT
Found at i:5463775 original size:22 final size:21
Alignment explanation
Indices: 5463748--5463795 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
5463738 ATTTTACATT
5463748 TTTTATTCTTT-TTGTATATATA
1 TTTTATTCTTTATT-TAT-TATA
*
5463770 TTTTA-TCTTTATTTATTTTA
1 TTTTATTCTTTATTTATTATA
5463790 TTTTAT
1 TTTTAT
5463796 CCAATTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 8 0.35
21 8 0.35
22 7 0.30
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATTCTTTATTTATTATA
Found at i:5463807 original size:20 final size:19
Alignment explanation
Indices: 5463780--5463834 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
5463770 TTTTATCTTT
5463780 ATTTATTTTATTTTATCCA
1 ATTTATTTTATTTTATCCA
5463799 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATCCA
5463819 A-TTATTTTATGTTTAT
1 ATTTATTTTAT-TTTAT
5463835 TATTATTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.41
20 14 0.44
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTATTTTATTTTATCCA
Found at i:5473763 original size:32 final size:31
Alignment explanation
Indices: 5473725--5473801 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
5473715 CGGGACCGTG
*
5473725 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** ** *
5473757 GGGCCTACCCGAGAATGATCTCAGGGCCGTA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
5473788 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
5473802 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:5473794 original size:63 final size:63
Alignment explanation
Indices: 5473678--5473801 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
5473668 CCCTAAGGGA
* * *
5473678 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGACCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCGGGACCGTAGAGCCTACCTAAGAAC
* *
5473741 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGG-CCGTAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTC-GGGACCGTAGAGCCTACCTAAGA
5473802 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 48 0.91
64 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCGGGACCGTAGAGCCTACCTAAGAAC
Found at i:5474733 original size:19 final size:19
Alignment explanation
Indices: 5474711--5474757 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
5474701 TCAACAGTTG
*
5474711 GGTCGGGTCGGGTCAGTCA
1 GGTCGGGTCGGGTCAGACA
*
5474730 GGTCGGGTCGGGTCAGACG
1 GGTCGGGTCGGGTCAGACA
5474749 GGTCGGGTC
1 GGTCGGGTC
5474758 AGACCGGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.21, G:0.51, T:0.19
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGACA
Found at i:5474750 original size:14 final size:14
Alignment explanation
Indices: 5474733--5474766 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
5474723 TCAGTCAGGT
5474733 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
5474747 CGGGTCGGGTCAGA
1 CGGGTCGGGTCAGA
*
5474761 CCGGTC
1 CGGGTC
5474767 CAGACCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.26, G:0.47, T:0.15
Consensus pattern (14 bp):
CGGGTCGGGTCAGA
Found at i:5474792 original size:19 final size:20
Alignment explanation
Indices: 5474770--5474824 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
5474760 ACCGGTCCAG
* *
5474770 ACCGGTCAAACCGGTTC-GA
1 ACCGGTCAAACCGATTCAAA
5474789 ACCGGTCAAACCGATTCAAA
1 ACCGGTCAAACCGATTCAAA
*
5474809 ACTGGTCAAACCGATT
1 ACCGGTCAAACCGATT
5474825 TTCCAGCAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (20 bp):
ACCGGTCAAACCGATTCAAA
Found at i:5474800 original size:9 final size:9
Alignment explanation
Indices: 5474754--5474821 Score: 55
Period size: 9 Copynumber: 7.1 Consensus size: 9
5474744 AGACGGGTCG
*
5474754 GGTCAGACC
1 GGTCAAACC
*
5474763 GGTCCAGACC
1 GGT-CAAACC
5474773 GGTCAAACC
1 GGTCAAACC
*
5474782 GGTTCGAACC
1 GG-TCAAACC
5474792 GGTCAAACC
1 GGTCAAACC
* *
5474801 GATTCAAAACT
1 G-GTC-AAACC
5474812 GGTCAAACC
1 GGTCAAACC
5474821 G
1 G
5474822 ATTTTCCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 21 0.44
11 5 0.10
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:5481104 original size:32 final size:31
Alignment explanation
Indices: 5481068--5481144 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
5481058 CGAGGCCGTG
*
5481068 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
5481100 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
5481131 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
5481145 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:5481128 original size:63 final size:63
Alignment explanation
Indices: 5481021--5481144 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 63
5481011 CCCTAAGGGA
* ** *
5481021 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGAGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCGAGGCCGCAGAGCCTACCTAAGAAC
* *
5481084 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTC-AGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCGA-GGCCGCAGAGCCTACCTAAGA
5481145 GTCACATTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
62 3 0.06
63 49 0.94
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCGAGGCCGCAGAGCCTACCTAAGAAC
Found at i:5482049 original size:14 final size:14
Alignment explanation
Indices: 5482030--5482075 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
5482020 GGTCGGGTCG
*
5482030 GGTCGGGTCAGTCA
1 GGTCGGGTCAGACA
*
5482044 GGTCGGGTCAGACG
1 GGTCGGGTCAGACA
*
5482058 GGTCGGGTCAGACC
1 GGTCGGGTCAGACA
5482072 GGTC
1 GGTC
5482076 CAGACCGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.13, C:0.24, G:0.46, T:0.17
Consensus pattern (14 bp):
GGTCGGGTCAGACA
Done.