Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 24 of 170
Found at i:6423062 original size:16 final size:16
Alignment explanation
Indices: 6423041--6423111 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
6423031 TCAACCATTA
*
6423041 CATTACACCTCTAATC
1 CATTACACCTCTATTC
*
6423057 CATTACAACTCTATTC
1 CATTACACCTCTATTC
**
6423073 CATTATGCCTCTATTC
1 CATTACACCTCTATTC
**
6423089 CATTATGCCTCTATTC
1 CATTACACCTCTATTC
*
6423105 CAATACA
1 CATTACA
6423112 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.28, C:0.32, G:0.03, T:0.37
Consensus pattern (16 bp):
CATTACACCTCTATTC
Found at i:6430366 original size:23 final size:23
Alignment explanation
Indices: 6430306--6430366 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
6430296 CATATATAGT
*
6430306 TATATATATTATAAAAACATGCA
1 TATATATATTAAAAAAACATGCA
*
6430329 -AGTATACTAGATAAAAAAACATGCA
1 TA-TATA-TA-TTAAAAAAACATGCA
6430354 TATATATATTAAA
1 TATATATATTAAA
6430367 TGAAAGAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.03
23 8 0.26
24 4 0.13
25 17 0.55
26 1 0.03
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (23 bp):
TATATATATTAAAAAAACATGCA
Found at i:6430401 original size:3 final size:3
Alignment explanation
Indices: 6430388--6430467 Score: 60
Period size: 3 Copynumber: 27.7 Consensus size: 3
6430378 CGCATGTATG
* * * *
6430388 AAT AA- AAT AAT AAT AAG AAT GAT AAT AAT AAT AAT AAT AAT CAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
6430435 -AT AA- CAT AAT TAT AAT AAA AAT GAAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
6430468 AATGTTAAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
2 6 0.10
3 49 0.84
4 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6432102 original size:44 final size:45
Alignment explanation
Indices: 6432011--6432108 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
6432001 AAGACTTGTA
* ** *
6432011 TCTTCGATCTACTTCACTACCAGTATGGGAAGATAAAATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAAATCTGCTT
* * *
6432056 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACTACCAATACAGGAAGACAAAATCTGCTT
6432100 TCTTCGATC
1 TCTTCGATC
6432109 GATTCCACTG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 29 0.63
45 17 0.37
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (45 bp):
TCTTCGATCTACTTCACTACCAATACAGGAAGACAAAATCTGCTT
Found at i:6432299 original size:132 final size:132
Alignment explanation
Indices: 6432085--6433510 Score: 1946
Period size: 132 Copynumber: 10.8 Consensus size: 132
6432075 CAATACATGA
*** * * * * *
6432085 AGACAAGATCTGCTTTCTTCGATCGATTCCACTGCCGACC-GGGAAGATAGAATTAGTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * * ** * * * *
6432149 ATATACTCCACTGCAACCTCAATGAGGTAAAGTCTGCCATTTTTTATCTGCTCCACTACAGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6432214 GGG
130 GGG
* * * ** *
6432217 AGATAAGATCTGTAATATTCAATCTATTCCACTATTGCCTAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* *
6432281 ATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6432346 GGG
130 GGG
* * *
6432349 AGATAAGATCTGAAATCTTCAATTTATTCCACTGTTGCCCCAGGGAAGTAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG-CCCAGGGAAGTAGAATTACTGGCTTCA
* * * *
6432414 ATGTACTCCACTATAACCACAAGGAGGTAAAATCTACCACCTTTGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6432479 GGG
130 GGG
**
6432482 AGACAAGATCTGAAATCTTCAATCTATTCTGCTG-TCGCCCAGGGAAGTAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCT-GCCCAGGGAAGTAGAATTACTGGCTTCA
* * * *
6432546 ATGTATTCCATTGTAACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6432611 GGG
130 GGG
* * * *
6432614 AGATAAGATCTAAAATCTTCAATCTATTCCGCTTG-TGCCCAGGGAAGTAGAATTGCTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCAC-TGCTGCCCAGGGAAGTAGAATTACTGGCTTCA
* * * * * *
6432678 ATGTACTCCACTGTAACCATAGGGAGGTAAAATCCGTCATCTTTGATCTGTTCCACTACTTCTTG
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6432743 GGG
130 GGG
* * *
6432746 AGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCACAGGAAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * * * *
6432811 TGTACTCTACTGTAACCACAGAGAGGTAAAATCTACTATCTTTAATCTGCTCCACTACTGTTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6432876 GG
131 GG
* * *
6432878 AGACAAGATCTAAAATCTTCAATCTATTTCACTGCTGCCTAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * * * *
6432942 ATGTACTCCACTGTAACCACAGAGAGGTAAAATCCGTCATCTTTGATCTGTTCTACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTA
6433007 GGG
130 GGG
* * * * *
6433010 AGACAAGATCTGAAATATTCAATATATTCCGCTGCTGCCCAGGGAAATAGAATTACTGGCCTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
6433075 TGTACTCCACTATAACCACAGAGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6433140 GG
131 GG
* ** * *
6433142 AGACAAGATCTGAAATATTCAATCTATTCTGCTGCTGCCCAGGAAAGTAGAATTATTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
6433207 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6433272 GG
131 GG
*
6433274 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
6433339 TGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
6433404 GG
131 GG
* * * * *
6433406 AGATAAGATCTGTAATATTCAATCTATTCCACTGCTGTCCAGAG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* *
6433470 ATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATC
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
6433511 AACCTGCTCC
Statistics
Matches: 1156, Mismatches: 129, Indels: 18
0.89 0.10 0.01
Matches are distributed among these distances:
131 5 0.00
132 1026 0.89
133 123 0.11
134 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:6437714 original size:19 final size:18
Alignment explanation
Indices: 6437690--6437737 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6437680 AACGGTGTCT
*
6437690 AATGCATATAATGTAATG
1 AATGCATATAATGAAATG
* *
6437708 AAATGCAAATGTATGAAATG
1 -AATGCATAT-AATGAAATG
6437728 AATGCATATA
1 AATGCATATA
6437738 GAGACATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (18 bp):
AATGCATATAATGAAATG
Found at i:6439794 original size:23 final size:23
Alignment explanation
Indices: 6439734--6439794 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
6439724 CATATATAGT
*
6439734 TATATATATTATAAAAACATGCA
1 TATATATATTAAAAAAACATGCA
*
6439757 -AGTATACTAGATAAAAAAACATGCA
1 TA-TATA-TA-TTAAAAAAACATGCA
6439782 TATATATATTAAA
1 TATATATATTAAA
6439795 TGAAAGAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.03
23 8 0.26
24 4 0.13
25 17 0.55
26 1 0.03
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (23 bp):
TATATATATTAAAAAAACATGCA
Found at i:6439829 original size:3 final size:3
Alignment explanation
Indices: 6439816--6439862 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
6439806 CGCATGTATG
* *
6439816 AAT AA- AAT AAT AAT AAG AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6439863 CATAGTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6441953 original size:19 final size:19
Alignment explanation
Indices: 6441929--6441988 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
6441919 ATAATAACAT
*
6441929 AAATAATAAAATAAAATGA
1 AAATAATAAAATGAAATGA
* * *
6441948 AAATAATATAATGAATTCA
1 AAATAATAAAATGAAATGA
6441967 ATAATAATAAAA-GAAATGA
1 A-AATAATAAAATGAAATGA
6441986 AAA
1 AAA
6441989 AAATTCAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 2 0.06
19 22 0.67
20 9 0.27
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AAATAATAAAATGAAATGA
Found at i:6445195 original size:61 final size:63
Alignment explanation
Indices: 6445104--6445225 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 63
6445094 TATTTAAGTT
6445104 AAAAAATCTAAAAACAATCATTTTAATAGCCT-AAAAAAACTCATTTCCTTTCTT-TTTTTAA
1 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTTATTTTTAA
6445165 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTTATTTTT
1 AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTTATTTTT
6445226 CTCGAGCCCC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 32 0.54
62 22 0.37
63 5 0.08
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (63 bp):
AAAAAATCTAAAAACAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTTATTTTTAA
Found at i:6445837 original size:21 final size:22
Alignment explanation
Indices: 6445811--6445854 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6445801 GCATATTATT
**
6445811 TTTCTCTTTTTCC-TTTTTCTG
1 TTTCTCTGCTTCCATTTTTCTG
6445832 TTTCTCTGCTTCCATTTTTCTG
1 TTTCTCTGCTTCCATTTTTCTG
6445854 T
1 T
6445855 CTTTTGCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.02, C:0.25, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTCTCTGCTTCCATTTTTCTG
Found at i:6448819 original size:57 final size:57
Alignment explanation
Indices: 6448653--6448824 Score: 180
Period size: 51 Copynumber: 3.1 Consensus size: 57
6448643 ATAAAAATTG
6448653 TGAAAATGGAGAAATGAGAAAT-ATTTGAAAAT-AATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATG-G-AATCATTTGAAAATGAA-TATGGTTTTCTCCAAAATGAAAA
* ** * * * *
6448711 TAAAAATAAAGAAATGAAATCATTTGGAAATGATTATAGTTTTCTCC------AAAA
1 TGAAAATGGAGAAATGGAATCATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAA
* *
6448762 TGAAAATGGAGAAATGGAATCATTTAAAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGGAATCATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAA
6448819 TGAAAA
1 TGAAAA
6448825 AGATCTGGAA
Statistics
Matches: 90, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
51 42 0.47
56 3 0.03
57 31 0.34
58 14 0.16
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (57 bp):
TGAAAATGGAGAAATGGAATCATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAA
Found at i:6458511 original size:18 final size:19
Alignment explanation
Indices: 6458488--6458524 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6458478 AGTTGAACTA
*
6458488 GAATTTTTAA-AATTTTTT
1 GAATTTTGAATAATTTTTT
6458506 GAATTTTGAATAATTTTTT
1 GAATTTTGAATAATTTTTT
6458525 AATCGGATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
GAATTTTGAATAATTTTTT
Found at i:6461332 original size:44 final size:44
Alignment explanation
Indices: 6461276--6461394 Score: 166
Period size: 44 Copynumber: 2.7 Consensus size: 44
6461266 CAGATCGCAT
* * * *
6461276 CCAATCTCATCTCCCTGAGGTTGCAGTGGAGCAGATTGAATAAG
1 CCAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGAAA
* *
6461320 TCAATCTTATCTCCCTGAGGTTGTAGTGGAACAGATTGAAGAAA
1 CCAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGAAA
* *
6461364 CCAATCCTATCTCCCTGAAGTTGTAGTGGAG
1 CCAATCTTATCTCCCTGAGGTTGTAGTGGAG
6461395 TGGATCAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
CCAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAGAAA
Found at i:6474045 original size:3 final size:3
Alignment explanation
Indices: 6474039--6474083 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
6474029 TTTGACATTG
* *
6474039 TAT TAT TAT TATT TAC TAT TAT TAT TAT TAT T-T TAT TAT TTT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6474084 ATCCATATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6474063 original size:19 final size:17
Alignment explanation
Indices: 6474039--6474083 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
6474029 TTTGACATTG
6474039 TATTATTATTATTTACTAT
1 TATTATTATTATTT--TAT
6474058 TATTATTATTATTTTAT
1 TATTATTATTATTTTAT
*
6474075 TATTTTTAT
1 TATTATTAT
6474084 ATCCATATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.44
19 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTATTATTTTAT
Found at i:6476139 original size:110 final size:110
Alignment explanation
Indices: 6475735--6476139 Score: 647
Period size: 111 Copynumber: 3.7 Consensus size: 110
6475725 ATATTTGGAA
* * *
6475735 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* * * *
6475797 CAAAACATTGCCTTACTTTGAAATTTTTG-AAAGGATATTTAGCT
66 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
*
6475841 ATTTGGTTGTACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
6475906 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
66 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
* *
6475951 ATTTGGTCGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
* *
6476016 GCAAAACTTTGCCTTATTTTAAAATTTTTGAAAAGGATGTTAAGCC
65 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
6476062 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* *
6476127 CTAAATATTGCCT
66 CAAAACATTGCCT
6476140 CAATTAGAAA
Statistics
Matches: 276, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
106 13 0.05
108 26 0.09
109 46 0.17
110 85 0.31
111 106 0.38
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (110 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
Found at i:6476705 original size:3 final size:3
Alignment explanation
Indices: 6476661--6476693 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
6476651 GTAAAGACGG
6476661 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6476694 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6477744 original size:17 final size:17
Alignment explanation
Indices: 6477722--6477757 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6477712 GTTTAATTGT
* *
6477722 TTTGGGTTGAGGGTTTA
1 TTTGGGTTAAGGATTTA
6477739 TTTGGGTTAAGGATTTA
1 TTTGGGTTAAGGATTTA
6477756 TT
1 TT
6477758 GAGCCCGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (17 bp):
TTTGGGTTAAGGATTTA
Found at i:6478244 original size:46 final size:46
Alignment explanation
Indices: 6478193--6478705 Score: 721
Period size: 46 Copynumber: 11.2 Consensus size: 46
6478183 AAGATTCACC
*
6478193 ATCTTCGATCTCTTCCGCTGCCAGATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
6478239 ATCTTCGATCTCCTCCACTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
6478285 ATCTTCGATCTCCTCTGCTACCAAATACAGGAAGACAATATCTGCT
1 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
6478331 ATCTTCAATCTCCTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
6478377 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** *
6478423 ATCTTCGATCTTCTT-TACTGCCAAATACAGGAAGACAATATCTGCT
1 ATCTTCGATC-TCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* ** *
6478469 ATCTTCAATCT-TCTCAACTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCT-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
6478515 ATCTTCGATCTCCTT-CGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
6478561 ATCTTCGATCT-TCTCCACTACCAAATACAAGAAGACAAGATCTGCT
1 ATCTTCGATCTCT-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
6478607 ATATTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
6478653 ATCTTCGATCTCCTT-CGCTGCCAAATACAGGAAGACAAGATCTATT
1 ATCTTCGATCT-CTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
6478699 ATCTTCG
1 ATCTTCG
6478706 TTAATCTGTT
Statistics
Matches: 420, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
44 2 0.00
45 3 0.01
46 407 0.97
47 7 0.02
48 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTCTTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:6478425 original size:138 final size:138
Alignment explanation
Indices: 6478193--6478705 Score: 812
Period size: 138 Copynumber: 3.7 Consensus size: 138
6478183 AAGATTCACC
* * * * *
6478193 ATCTTCGATCTCTTCCGCTGCCAGATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCACT
1 ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCT
* * *
6478258 GCCAAATATAGGAAGACAAGATCTGCTATCTTCGATCTCCTCTGCTACCAAATACAGGAAGACAA
66 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTTCTCTACTACCAAATACAGGAAGACAA
6478323 TATCTGCT
131 TATCTGCT
*
6478331 ATCTTCAATCTCCTCTGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCT-CTTCCGC
1 ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTT-CGC
* *
6478395 TGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTTCTTTACTGCCAAATACAGGAAGACA
65 TGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTTCTCTACTACCAAATACAGGAAGACA
6478460 ATATCTGCT
130 ATATCTGCT
* ** *
6478469 ATCTTCAATCTTCTCAACTACCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCT
1 ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCT
* *
6478534 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTTCTCCACTACCAAATACAAGAAGACAA
66 GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTTCTCTACTACCAAATACAGGAAGACAA
*
6478599 GATCTGCT
131 TATCTGCT
* *
6478607 ATATTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCT
1 ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCT
**
6478672 GCCAAATACAGGAAGACAAGATCTATTATCTTCG
66 GCCAAATACAGGAAGACAAGATCTGCTATCTTCG
6478706 TTAATCTGTT
Statistics
Matches: 345, Mismatches: 28, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
137 2 0.01
138 340 0.99
139 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (138 bp):
ATCTTCAATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCT
GCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTTCTCTACTACCAAATACAGGAAGACAA
TATCTGCT
Found at i:6479947 original size:6 final size:6
Alignment explanation
Indices: 6479936--6479971 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
6479926 CCTTGACCTC
6479936 TTCTTT TTCTTT TTCTTTT TTCTTCT TTCTTT TTCT
1 TTCTTT TTCTTT TTC-TTT TTCTT-T TTCTTT TTCT
6479972 CTTATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:6479957 original size:13 final size:14
Alignment explanation
Indices: 6479939--6479974 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6479929 TGACCTCTTC
6479939 TTTTTCTT-TTTCT
1 TTTTTCTTCTTTCT
6479952 TTTTTCTTCTTTCT
1 TTTTTCTTCTTTCT
6479966 TTTTCTCTT
1 TTTT-TCTT
6479975 ATTTTTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 9 0.43
15 4 0.19
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTCTTTCT
Found at i:6479974 original size:22 final size:23
Alignment explanation
Indices: 6479934--6479979 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
6479924 CGCCTTGACC
*
6479934 TCTTCTTTTTCTTTTTCTT-TTT
1 TCTTCTTTTTCTTTCTCTTATTT
6479956 TCTTCTTTCTT-TTTCTCTTATTT
1 TCTTCTTT-TTCTTTCTCTTATTT
6479979 T
1 T
6479980 TAACTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TCTTCTTTTTCTTTCTCTTATTT
Found at i:6486251 original size:110 final size:110
Alignment explanation
Indices: 6485852--6486256 Score: 613
Period size: 111 Copynumber: 3.7 Consensus size: 110
6485842 TCAAGAGGAT
* *
6485852 ATTTGGTTAAACGAG--AAATCGA-ATCCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAAC
1 ATTTGGTTGAACGAGAAAAATCGACA-CCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
* * * *
6485913 GCAAAACATTGCCTTACTTTGAAATTTTTG-AAAGGATATTTAGCT
65 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
*
6485958 ATTTGGTTGTACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* *
6486023 CAAAACATGGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGTC
66 CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
* * *
6486068 ATTTGGTCGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTTGAATTTCCAAAC
1 ATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAAC
* *
6486133 GCAAAATATTGCCTTATTTTAAAATTTTTGAAAAGGATGTTAAGCC
65 GCAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
6486179 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
* *
6486244 CTAAATATTGCCT
66 CAAAACATTGCCT
6486257 CAATTAGAAA
Statistics
Matches: 272, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
106 13 0.05
108 25 0.09
109 46 0.17
110 85 0.31
111 103 0.38
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (110 bp):
ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTCCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAATTTTTGAAAAGGATATTAAGCC
Found at i:6486809 original size:27 final size:27
Alignment explanation
Indices: 6486752--6486811 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
6486742 ACAATATCAT
* * * ***
6486752 TAATACTAATAATAATAGTAAAGACGG
1 TAATAATAATAATAATAATAAACAAAA
6486779 TAATAATAATAATAATAATAAACAAAA
1 TAATAATAATAATAATAATAAACAAAA
6486806 TAATAA
1 TAATAA
6486812 AGATGCTACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.27
Consensus pattern (27 bp):
TAATAATAATAATAATAATAAACAAAA
Found at i:6489101 original size:56 final size:55
Alignment explanation
Indices: 6489016--6489122 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 55
6489006 TTATAGATTG
* *
6489016 CAAATTAATTCTTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATATTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATATTA
*
6489071 CAAATTTAATTATTCATAAGCATTATTCAAATTAAAAGTGATGATTTATCAT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCAT
6489123 CCAATGGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 4 0.08
56 44 0.92
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATATTA
Found at i:6492225 original size:20 final size:20
Alignment explanation
Indices: 6492200--6492238 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6492190 AGGTACGTTC
*
6492200 GTACGGGGGT-TGACGTGGCG
1 GTACGGAGGTGTG-CGTGGCG
6492220 GTACGGAGGTGTGCGTGGC
1 GTACGGAGGTGTGCGTGGC
6492239 TAGGGAGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.10, C:0.15, G:0.54, T:0.21
Consensus pattern (20 bp):
GTACGGAGGTGTGCGTGGCG
Found at i:6493747 original size:21 final size:21
Alignment explanation
Indices: 6493694--6493748 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6493684 TATTTTTTTT
* *
6493694 AATCTCATCGCTATAATATCC
1 AATCTCACCACTATAATATCC
*
6493715 AATCTCATCACTATAATAAT-C
1 AATCTCACCACTATAAT-ATCC
*
6493736 AATTTCACCACTA
1 AATCTCACCACTA
6493749 CTACTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (21 bp):
AATCTCACCACTATAATATCC
Found at i:6506501 original size:33 final size:33
Alignment explanation
Indices: 6506459--6506526 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
6506449 CTATGCACAT
6506459 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
6506492 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
6506525 TC
1 TC
6506527 ACATGTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (33 bp):
TCTCATCATACCCATAAACAACATTATTTGCAA
Found at i:6508006 original size:19 final size:20
Alignment explanation
Indices: 6507978--6508019 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6507968 TTTTATAATA
6507978 TTTACCATTTTAAT-ATTTT
1 TTTACCATTTTAATAATTTT
* *
6507997 TTTACTATTTTTATAATTTT
1 TTTACCATTTTAATAATTTT
6508017 TTT
1 TTT
6508020 TTATTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTACCATTTTAATAATTTT
Found at i:6508019 original size:21 final size:21
Alignment explanation
Indices: 6507988--6508038 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
6507978 TTTACCATTT
*
6507988 TAAT-ATTTTTTTACTATTTT-
1 TAATAATTTTTTT-TTATTTTC
6508008 T-ATAATTTTTTTTTATTTTC
1 TAATAATTTTTTTTTATTTTC
6508028 TAATAATTTTT
1 TAATAATTTTT
6508039 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 10 0.37
21 9 0.33
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (21 bp):
TAATAATTTTTTTTTATTTTC
Found at i:6508374 original size:17 final size:17
Alignment explanation
Indices: 6508341--6508375 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6508331 TCAAATTCAA
* *
6508341 ATTTTAAATATATAAAT
1 ATTTTAAATAAAAAAAT
6508358 ATTTTAAATAAAAAAAT
1 ATTTTAAATAAAAAAAT
6508375 A
1 A
6508376 AAGCTTTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTTAAATAAAAAAAT
Found at i:6508895 original size:15 final size:15
Alignment explanation
Indices: 6508847--6508899 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
6508837 TTTTATAAAT
6508847 TAAAAA-AAATAATTA
1 TAAAAATAAATAA-TA
* *
6508862 TAAAAGT-AATTATA
1 TAAAAATAAATAATA
6508876 TTAAAAATAAATAATA
1 -TAAAAATAAATAATA
6508892 TAAAAATA
1 TAAAAATA
6508900 TTCAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 2 0.06
15 23 0.74
16 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
TAAAAATAAATAATA
Found at i:6508973 original size:32 final size:30
Alignment explanation
Indices: 6508917--6508975 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
6508907 TATTATAATT
*
6508917 AAATAAATAATTTTAATAAAATAAAATTTC
1 AAATAAATAATTATAATAAAATAAAATTTC
*
6508947 AAATAAAATATATTATAATTAAATAAAAT
1 AAAT-AAATA-ATTATAATAAAATAAAAT
6508976 AAAAATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.16
31 5 0.20
32 16 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAAATAATTATAATAAAATAAAATTTC
Found at i:6515339 original size:7 final size:6
Alignment explanation
Indices: 6515287--6515326 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
6515277 AAAGGAAAGA
* * *
6515287 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
6515327 AATCAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:6515412 original size:18 final size:18
Alignment explanation
Indices: 6515391--6515427 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6515381 TCAAGATCAA
6515391 AATGAA-AATGAGAAAAAG
1 AATGAAGAATGA-AAAAAG
6515409 AATGAAGAATGAAAAAAG
1 AATGAAGAATGAAAAAAG
6515427 A
1 A
6515428 GAAATTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.11
Consensus pattern (18 bp):
AATGAAGAATGAAAAAAG
Found at i:6516348 original size:7 final size:7
Alignment explanation
Indices: 6516330--6516377 Score: 66
Period size: 6 Copynumber: 7.1 Consensus size: 7
6516320 CTCTAAGTCA
6516330 GAAAATAT
1 GAAAA-AT
6516338 GAAAAAT
1 GAAAAAT
6516345 G-AAAAT
1 GAAAAAT
6516351 G-AAAAT
1 GAAAAAT
6516357 G-AAAAT
1 GAAAAAT
6516363 GAAAAAT
1 GAAAAAT
6516370 GAAAAAT
1 GAAAAAT
6516377 G
1 G
6516378 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 18 0.46
7 16 0.41
8 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (7 bp):
GAAAAAT
Found at i:6516357 original size:12 final size:13
Alignment explanation
Indices: 6516336--6516374 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
6516326 GTCAGAAAAT
6516336 ATGAAAAATGAAA
1 ATGAAAAATGAAA
6516349 ATG-AAAATGAAA
1 ATGAAAAATGAAA
6516361 ATGAAAAATGAAA
1 ATGAAAAATGAAA
6516374 A
1 A
6516375 ATGGAGAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:6517598 original size:43 final size:43
Alignment explanation
Indices: 6517548--6517759 Score: 142
Period size: 43 Copynumber: 4.9 Consensus size: 43
6517538 AAGATTGCAG
6517548 ATCTTATCTTCCCCAGGAGTAGAGAAACAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGAGAAACAGATCTAAGCGGCGA
* * * **
6517591 ATCTTATCTTCCCCAAGAGTA-AGGAAATAGATTTAAGCCACCGA
1 ATCTTATCTTCCCCAGGAGTAGA-GAAACAGATCTAAG-CGGCGA
* * * * * * ** * ** *
6517635 ACCTTATC-TCCCTGAGCAGCAGCGGAGTAGGT-TAAAGATTGCGG
1 ATCTTATCTTCCC-CAGGAGTAGAGAAACAGATCT-AAG-CGGCGA
* *
6517679 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAACGGCGA
1 ATCTTATCTTCCCCAGGAGTAGAGAAACAGATCTAAGCGGCGA
* * * * *
6517722 GTCTTATCTTCCTCAGGAGTAGGGAAACATATTTAAGC
1 ATCTTATCTTCCCCAGGAGTAGAGAAACAGATCTAAGC
6517760 CACAAGTCCT
Statistics
Matches: 125, Mismatches: 37, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
42 1 0.01
43 73 0.58
44 46 0.37
45 5 0.04
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (43 bp):
ATCTTATCTTCCCCAGGAGTAGAGAAACAGATCTAAGCGGCGA
Found at i:6517923 original size:44 final size:44
Alignment explanation
Indices: 6517873--6518255 Score: 223
Period size: 44 Copynumber: 8.2 Consensus size: 44
6517863 CAAGTGTAAG
* *
6517873 GAAGTAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTACAGT
1 GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
* * ** ** **
6517917 GAAGTAGATTAAAACAAAGGATCTTATCTCTTTGAAGTTACAGT
1 GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
*
6517961 CGAGTAGATCGCATCCGATTGAAGCCAGA-AATCTTATTTCCCTGAAGTTACAGT
1 -GA--AG-T---A---GATTGAAGCC-GATAATCTTATCTCCCTGAAGTTACAGT
* *
6518015 GGAGTAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGT
1 GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
* * * * ** ** *
6518059 GGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGT
1 GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
6518103 AGAGTAGATCGCATCCGATTGAAGCCAGA-AATCTTATCTCCCTGAAGTTACAGT
1 -GA--AG-T---A---GATTGAAGCC-GATAATCTTATCTCCCTGAAGTTACAGT
* * * *
6518157 AAAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGT
1 GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
* ** * * * ** *
6518201 GGAGCGGATTAAAACAGAGGATCTTATCTCTCTGAAGTTACAGT
1 GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
6518245 -AGAGTAGATTG
1 GA-AGTAGATTG
6518256 CATCCGATTG
Statistics
Matches: 259, Mismatches: 55, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
43 4 0.02
44 176 0.68
45 3 0.01
47 6 0.02
48 1 0.00
50 1 0.00
51 6 0.02
53 2 0.01
54 58 0.22
55 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
GAAGTAGATTGAAGCCGATAATCTTATCTCCCTGAAGTTACAGT
Found at i:6518051 original size:98 final size:98
Alignment explanation
Indices: 6517879--6518067 Score: 227
Period size: 98 Copynumber: 1.9 Consensus size: 98
6517869 TAAGGAAGTA
* * *
6517879 GATTGAAGTCGATAATCCTATCTCCCTGAAGTTACAGTGAAGTAGATTAAAACAAAGGATCTTAT
1 GATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGAAGTAGATTAAAACAAAGAATCCTAT
** *
6517944 CTCTTTGAAGTTACAGTCGAGTAGATCGCATCC
66 CTCCCTGAAGTTACAGTCGAGCAGATCGCATCC
* * * * * ** *
6517977 GATTGAAGCCAGA-AATCTTATTTCCCTGAAGTTACAGTGGAGTAGATTGAAGCCGATAATCCTA
1 GATTGAAGCC-GATAATCCTATCTCCCTGAAGTTACAGTGAAGTAGATTAAAACAAAGAATCCTA
*
6518041 TCTCCCTGAAGTTACAGTGGAGCAGAT
65 TCTCCCTGAAGTTACAGTCGAGCAGAT
6518068 TAAAACAAAG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 73 0.97
99 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (98 bp):
GATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGAAGTAGATTAAAACAAAGAATCCTAT
CTCCCTGAAGTTACAGTCGAGCAGATCGCATCC
Found at i:6518131 original size:142 final size:142
Alignment explanation
Indices: 6517878--6518399 Score: 737
Period size: 142 Copynumber: 3.7 Consensus size: 142
6517868 GTAAGGAAGT
* * *
6517878 AGATTGAAGTCGATAATCCTATCTCCCTGAAGTTACAGTGAAGTAGATTAAAACAAAGGATCTTA
1 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTA
* * *
6517943 TCTCTTTGAAGTTACAGTCGAGTAGATCGCATCCGATTGAAGCCAGAAATCTTATTTCCCTGAAG
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGCCAGAAATCTTATCTCCCTGAAG
*
6518008 TTACAGTGGAGT
131 TTACAGTGGAGC
6518020 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTA
1 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTA
6518085 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGCCAGAAATCTTATCTCCCTGAAG
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGCCAGAAATCTTATCTCCCTGAAG
**
6518150 TTACAGTAAAGC
131 TTACAGTGGAGC
* * *
6518162 AGATTAAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAGAGGATCTTA
1 AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTA
* *** *
6518227 TCTCTCTGAAGTTACAGTAGAGTAGATTGCATCCGATTGAAGATGGAGATCTTATCTCCCTG-AG
66 TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGCCAGAAATCTTATCTCCCTGAAG
* *
6518291 ATTACAGCGGAAC
131 -TTACAGTGGAGC
* * * ** **
6518304 AGATCGAAGAC-ACT-ATCCTATCTCCCTAAAGTTACAGTGGAGTGGATTAAAGTAATA-GATCT
1 AGATTGAAGCCGA-TAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAA-AGGATCT
* *
6518366 TATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
64 TATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
6518400 TAGGTCTTAT
Statistics
Matches: 345, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
141 75 0.22
142 270 0.78
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (142 bp):
AGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTA
TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCCGATTGAAGCCAGAAATCTTATCTCCCTGAAG
TTACAGTGGAGC
Found at i:6518192 original size:98 final size:98
Alignment explanation
Indices: 6518021--6518200 Score: 254
Period size: 98 Copynumber: 1.8 Consensus size: 98
6518011 CAGTGGAGTA
** * *
6518021 GATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTAT
1 GATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTAAAGCAGATTAAAACAAAGAATCCTAT
*
6518086 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCC
66 CTCCCTGAAGTTACAGTAGAGTAGATCGCATCC
* * ** *
6518119 GATTGAAGCCAGA-AATCTTATCTCCCTGAAGTTACAGTAAAGCAGATTAAAGCCGATAATCCTA
1 GATTGAAGCC-GATAATCCTATCTCCCTGAAGTTACAGTAAAGCAGATTAAAACAAAGAATCCTA
6518183 TCTCCCTGAAGTTACAGT
65 TCTCCCTGAAGTTACAGT
6518201 GGAGCGGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 69 0.97
99 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (98 bp):
GATTGAAGCCGATAATCCTATCTCCCTGAAGTTACAGTAAAGCAGATTAAAACAAAGAATCCTAT
CTCCCTGAAGTTACAGTAGAGTAGATCGCATCC
Found at i:6518496 original size:44 final size:44
Alignment explanation
Indices: 6518404--6518496 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 44
6518394 TCGCATTAGG
* * * **
6518404 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGAAAACAGG
1 TCTTATCCCCCTGAAGTTGCAGCGGAGCAGACCGAGAAAACAAA
* * *
6518448 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACCGA-AGAAGCAAA
1 TCTTATCCCCCTGAAGTTGCAGCGGAGCAGACCGAGA-AAACAAA
6518492 TCTTA
1 TCTTA
6518497 CTTCCCTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.22
Consensus pattern (44 bp):
TCTTATCCCCCTGAAGTTGCAGCGGAGCAGACCGAGAAAACAAA
Found at i:6522365 original size:24 final size:25
Alignment explanation
Indices: 6522323--6522374 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
6522313 GGCTCTATGT
*
6522323 GAGCTTTCTGATTAATGGCTCTCCG
1 GAGCTTTCTCATTAATGGCTCTCCG
*
6522348 GAGCTTT-TCATTAATGGCTCTTCG
1 GAGCTTTCTCATTAATGGCTCTCCG
6522372 GAG
1 GAG
6522375 TTACCCGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (25 bp):
GAGCTTTCTCATTAATGGCTCTCCG
Found at i:6522405 original size:24 final size:24
Alignment explanation
Indices: 6522378--6522433 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
6522368 TTCGGAGTTA
*
6522378 CCCGTTATTGGCT-TGGATGAGCTT
1 CCCGTTATTAGCTCT-GATGAGCTT
*
6522402 CCCGATTA-TAGCTCTTATGAGCTT
1 CCCG-TTATTAGCTCTGATGAGCTT
6522426 CCCGTTAT
1 CCCGTTAT
6522434 ACAACCCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 20 0.74
25 4 0.15
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
CCCGTTATTAGCTCTGATGAGCTT
Found at i:6530842 original size:25 final size:26
Alignment explanation
Indices: 6530794--6530848 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
6530784 TGTTTCCTTC
*
6530794 TAAAAAAATAAGTAAGAAAAAGAAA-
1 TAAAAAAATAAATAAGAAAAAGAAAG
* **
6530819 TAAATAAATAAATAAGAATCAGAAAG
1 TAAAAAAATAAATAAGAAAAAGAAAG
6530845 TAAA
1 TAAA
6530849 CGAGATCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.71, C:0.02, G:0.11, T:0.16
Consensus pattern (26 bp):
TAAAAAAATAAATAAGAAAAAGAAAG
Found at i:6538091 original size:33 final size:33
Alignment explanation
Indices: 6538049--6538133 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
6538039 CAGTCGTGAT
*
6538049 TTGGTGTGTTGGTTTGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
** *
6538082 TTGGTGTGTTGGAGGGATTGGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
6538115 TCTAGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
6538134 CTGACAATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 30 0.70
34 6 0.14
35 7 0.16
ACGTcount: A:0.14, C:0.08, G:0.35, T:0.42
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:6552629 original size:31 final size:31
Alignment explanation
Indices: 6552570--6552629 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
6552560 ATTTACTCTT
* * *
6552570 TTAAAAATCATATTTGACTTGCTGTTTGAAA
1 TTAAAAATCAAATTTAACTTGCTCTTTGAAA
6552601 TTAAAAATCAAATTTAACTT-CATCTTTGA
1 TTAAAAATCAAATTTAACTTGC-TCTTTGA
6552630 TCTTCCTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
TTAAAAATCAAATTTAACTTGCTCTTTGAAA
Found at i:6552719 original size:12 final size:12
Alignment explanation
Indices: 6552702--6552726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6552692 GGTGTTCATT
6552702 CGGTTAACCGAC
1 CGGTTAACCGAC
6552714 CGGTTAACCGAC
1 CGGTTAACCGAC
6552726 C
1 C
6552727 CGAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:6552900 original size:9 final size:9
Alignment explanation
Indices: 6552888--6552939 Score: 68
Period size: 9 Copynumber: 5.8 Consensus size: 9
6552878 TTTTGGTTAA
6552888 AAATTAACC
1 AAATTAACC
6552897 AAATTAACC
1 AAATTAACC
*
6552906 GAATTAACC
1 AAATTAACC
* *
6552915 GAATTGACC
1 AAATTAACC
*
6552924 GAATTAACC
1 AAATTAACC
6552933 AAATTAA
1 AAATTAA
6552940 TCACTACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (9 bp):
AAATTAACC
Found at i:6552912 original size:18 final size:18
Alignment explanation
Indices: 6552889--6552939 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
6552879 TTTGGTTAAA
6552889 AATTAACCAAATTAACCG
1 AATTAACCAAATTAACCG
* *
6552907 AATTAACCGAATTGACCG
1 AATTAACCAAATTAACCG
6552925 AATTAACCAAATTAA
1 AATTAACCAAATTAA
6552940 TCACTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTAACCAAATTAACCG
Found at i:6565147 original size:83 final size:83
Alignment explanation
Indices: 6565014--6565179 Score: 262
Period size: 83 Copynumber: 2.0 Consensus size: 83
6565004 ATTATTATAT
6565014 AAAATCAAACAAAAACTGAATAAAAATTATTATAAAATAAGAAGCACAAGGCAAATAAACAAAAT
1 AAAATCAAACAAAAACTGAATAAAAATTATTATAAAATAAGAAGCACAAGGCAAATAAACAAAAT
6565079 ATAAAAATTGGTCAACAA
66 ATAAAAATTGGTCAACAA
** * *
6565097 AAAATCAAACAAAAACTGAATAAAAAATTATTATAAGGTAA-AAGCTCAAGGTAAATAAACAAAA
1 AAAATCAAACAAAAACTGAAT-AAAAATTATTATAAAATAAGAAGCACAAGGCAAATAAACAAAA
* *
6565161 TATGAAAATTGGTGAACAA
65 TATAAAAATTGGTCAACAA
6565180 GACTTGGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 59 0.78
84 17 0.22
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.19
Consensus pattern (83 bp):
AAAATCAAACAAAAACTGAATAAAAATTATTATAAAATAAGAAGCACAAGGCAAATAAACAAAAT
ATAAAAATTGGTCAACAA
Found at i:6566492 original size:17 final size:17
Alignment explanation
Indices: 6566470--6566503 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6566460 AAAAAGTATT
*
6566470 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
6566487 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
6566504 AAAGTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:6566518 original size:31 final size:31
Alignment explanation
Indices: 6566450--6566518 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
6566440 ATTTTTATTT
* *
6566450 TAAAAATTAAAAAAAGTATTTTAAAAATATT
1 TAAAAATTAAAAAAAGTATTTAAAAAATATG
*
6566481 TTAAAATTAAAAAAA-T-TTTAAAAAAAGTATG
1 TAAAAATTAAAAAAAGTATTT-AAAAAA-TATG
6566512 TAAAAAT
1 TAAAAAT
6566519 ATTTTACAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 6 0.19
31 23 0.72
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (31 bp):
TAAAAATTAAAAAAAGTATTTAAAAAATATG
Found at i:6566537 original size:42 final size:42
Alignment explanation
Indices: 6566456--6566536 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 42
6566446 ATTTTAAAAA
*
6566456 TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATT
1 TTAAAAAAAGTATTGTAAAAATATTTTAAAATTAAAAAAATT
*
6566498 TTAAAAAAAGTA-TGTAAAAATATTTTACAATTAAAAAAA
1 TTAAAAAAAGTATTGTAAAAATATTTTAAAATTAAAAAAA
6566537 AATAAATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
41 25 0.68
42 12 0.32
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (42 bp):
TTAAAAAAAGTATTGTAAAAATATTTTAAAATTAAAAAAATT
Found at i:6568333 original size:21 final size:19
Alignment explanation
Indices: 6568316--6568426 Score: 75
Period size: 18 Copynumber: 5.6 Consensus size: 19
6568306 ACCAAAAATT
6568316 TATTTTAAAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
* *
6568335 GTATTTAAAAATATTTTAAAAA
1 -TATTTTAAAA-A-TTAAAAAA
6568357 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
*** *
6568375 TAATAAAAAAAGTATTTTAAAAA
1 T-ATTTTAAAA--A-TTAAAAAA
6568398 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
*
6568416 -ATTTAAAAAAT
1 TATTTTAAAAAT
6568427 AAATATAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.06
18 20 0.29
19 4 0.06
20 15 0.21
21 9 0.13
22 10 0.14
23 8 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TATTTTAAAAATTAAAAAA
Found at i:6568352 original size:11 final size:11
Alignment explanation
Indices: 6568338--6568407 Score: 67
Period size: 11 Copynumber: 6.6 Consensus size: 11
6568328 TAAAAAAGTA
6568338 TTTAAAAATAT
1 TTTAAAAATAT
6568349 TTTAAAAATAT
1 TTTAAAAATAT
6568360 TTT--AAA-A-
1 TTTAAAAATAT
* *
6568367 TTAAAAAATAA
1 TTTAAAAATAT
**
6568378 TAAAAAAAGTAT
1 TTTAAAAA-TAT
6568390 TTTAAAAATAT
1 TTTAAAAATAT
6568401 TTTAAAA
1 TTTAAAA
6568408 TTAAAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 6 0.12
10 1 0.02
11 31 0.63
12 8 0.16
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:6568361 original size:41 final size:40
Alignment explanation
Indices: 6568316--6568424 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 40
6568306 ACCAAAAATT
6568316 TATTTTAAAAATTAAAAAAGTATTTAAAAA-TATTTTAAAAA
1 TATTTT-AAAATTAAAAAA-TATTTAAAAAGTATTTTAAAAA
**
6568357 TATTTTAAAATTAAAAAATAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAT-ATTTAAAAAGTATTTTAAAAA
6568398 TATTTTAAAATTAAAAAA-ATTTAAAAA
1 TATTTTAAAATTAAAAAATATTTAAAAA
6568425 ATAAATATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 8 0.13
40 19 0.31
41 35 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAATATTTAAAAAGTATTTTAAAAA
Found at i:6568413 original size:17 final size:17
Alignment explanation
Indices: 6568391--6568429 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6568381 AAAAAGTATT
* *
6568391 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAA
6568408 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
*
6568425 ATAAA
1 TTAAA
6568430 TATAATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:6568422 original size:51 final size:51
Alignment explanation
Indices: 6568329--6568428 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
6568319 TTTAAAAATT
***
6568329 AAAAAAGTATTTAAAAATATTTTAAAAATATTTTAAAATTAAAAAATAATA
1 AAAAAAGTATTTAAAAATATTTTAAAAATATAAAAAAATTAAAAAATAATA
6568380 AAAAAAGTATTTTAAAAATATTTT-AAAAT-TAAAAAAATTTAAAAAATAA
1 AAAAAAGTA-TTTAAAAATATTTTAAAAATATAAAAAAA-TTAAAAAATAA
6568429 ATATAATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 5 0.11
51 25 0.57
52 14 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (51 bp):
AAAAAAGTATTTAAAAATATTTTAAAAATATAAAAAAATTAAAAAATAATA
Found at i:6571112 original size:43 final size:43
Alignment explanation
Indices: 6571050--6571285 Score: 319
Period size: 43 Copynumber: 5.5 Consensus size: 43
6571040 AATAAATGTT
** * *
6571050 GCTAAAGACCAAAACCTTTAGCGGCGTTTTTCCCACAAACGCT
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
** ** *
6571093 GCTAAAGGTCATGGTCTTTAGCGGCGCTTTTCTCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
6571136 GCTAAAGACCATGACCTTTAGCGGCACTTCTCCCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
6571179 GCTAAAGACCATGACCTTTAGCGGCACTTCTCCCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
6571222 GCTAAAGACCATGACCTTTAACAGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
6571265 GTTAAAGACCATGATCTTTAG
1 GCTAAAGACCATGACCTTTAG
6571286 TGGCATTTTA
Statistics
Matches: 170, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 170 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (43 bp):
GCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:6578907 original size:42 final size:42
Alignment explanation
Indices: 6578843--6578927 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
6578833 GCTTTTCCAT
* *
6578843 AAGATCGAACTCATCAACGATAAAATCTGTTAAAAATTCTTG
1 AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
* *
6578885 AAGATCAAACTCAGCAATGATAAAATCTGTTGAAAATTCTTG
1 AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
6578927 A
1 A
6578928 GCTATTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (42 bp):
AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
Found at i:6580454 original size:30 final size:30
Alignment explanation
Indices: 6580420--6580485 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
6580410 CTTACAAGGA
*
6580420 CATTCAAGAACTTGAGAATACAT-GATATCT
1 CATTCAAGAACTTGAGAAAAC-TCGATATCT
* * *
6580450 CATTCAGGAGCTTGGGAAAACTCGATATCT
1 CATTCAAGAACTTGAGAAAACTCGATATCT
6580480 CATTCA
1 CATTCA
6580486 GGATATTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (30 bp):
CATTCAAGAACTTGAGAAAACTCGATATCT
Found at i:6582141 original size:39 final size:39
Alignment explanation
Indices: 6582087--6582216 Score: 226
Period size: 39 Copynumber: 3.4 Consensus size: 39
6582077 TTTAGTTTGA
6582087 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
* *
6582126 GTCTTTAATTATGTCTTGGTTTGAACACCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
*
6582165 GTCTTTAATTATGTCTTAGTTTGAACATTATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
6582204 GT-TTTAATTATGT
1 GTCTTTAATTATGT
6582217 GTCTTAATTC
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
38 11 0.13
39 75 0.87
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (39 bp):
GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
Found at i:6587599 original size:15 final size:15
Alignment explanation
Indices: 6587579--6587616 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6587569 GAGAGAAGAA
6587579 AAAAAGAAATGTG-AG
1 AAAAAGAAAT-TGAAG
6587594 AAAAAGAAATTGAAAG
1 AAAAAGAAATTG-AAG
6587610 AAAAAGA
1 AAAAAGA
6587617 GAGCTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 10 0.48
16 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (15 bp):
AAAAAGAAATTGAAG
Found at i:6587611 original size:16 final size:16
Alignment explanation
Indices: 6587579--6587637 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 16
6587569 GAGAGAAGAA
6587579 AAAAAGAAATGTG--AG
1 AAAAAGAAAT-TGAAAG
6587594 AAAAAGAAATTGAAAG
1 AAAAAGAAATTGAAAG
*
6587610 AAAAAGAGAGCTTGAAAG
1 AAAAAGA-A-ATTGAAAG
6587628 AAAAGAGAAA
1 AAAA-AGAAA
6587638 GAAAAAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
15 10 0.27
16 9 0.24
17 1 0.03
18 12 0.32
19 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.24, T:0.10
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:6587719 original size:21 final size:21
Alignment explanation
Indices: 6587680--6587726 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6587670 AAAAGAGTTT
*
6587680 GAGAATGAAAAAGAGGAAAAG
1 GAGAATGAAAAAGAAGAAAAG
*
6587701 GAGAATGAAAGAA-AAGAAAAT
1 GAGAATGAAA-AAGAAGAAAAG
6587722 GAGAA
1 GAGAA
6587727 AGATGAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (21 bp):
GAGAATGAAAAAGAAGAAAAG
Found at i:6590754 original size:41 final size:41
Alignment explanation
Indices: 6590709--6590921 Score: 331
Period size: 41 Copynumber: 5.2 Consensus size: 41
6590699 GGCTCGGTGC
* * * **
6590709 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
*
6590750 CTAGCAGGCTTGTCGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
6590791 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
*
6590832 CTAGCAGGC-T-ACGCCGGTGAAACATTTCAGCCTTTAAGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
* *
6590871 CTAGTAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGT
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
6590912 CTAGCAGGCT
1 CTAGCAGGCT
6590922 AAGTGCCAGT
Statistics
Matches: 158, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 36 0.23
40 2 0.01
41 120 0.76
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGT
Found at i:6590882 original size:80 final size:80
Alignment explanation
Indices: 6590709--6590922 Score: 329
Period size: 80 Copynumber: 2.6 Consensus size: 80
6590699 GGCTCGGTGC
* * * ** *
6590709 CTAGCAGGCTTGATGCCAGTGATATGTTTCAGACTTTAAGTCTAGCAGGCTTGTCGCCGGTGAAA
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGC-T-ACGCCGGTGAAA
6590774 CATTTCAGACTTTAAGT
64 CATTTCAGACTTTAAGT
6590791 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTACGCCGGTGAAACA
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTACGCCGGTGAAACA
*
6590856 TTTCAGCCTTTAAGT
66 TTTCAGACTTTAAGT
* *
6590871 CTAGTAGGCTTGACGCCGGTGAAACATTTCAGACTTTATGTCTAGCAGGCTA
1 CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTA
6590923 AGTGCCAGTG
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 77 0.63
81 1 0.01
82 45 0.37
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (80 bp):
CTAGCAGGCTTGACGCCGGTGAAACATTTCAGACTTTAAGTCTAGCAGGCTACGCCGGTGAAACA
TTTCAGACTTTAAGT
Found at i:6593129 original size:39 final size:38
Alignment explanation
Indices: 6593075--6593162 Score: 158
Period size: 39 Copynumber: 2.3 Consensus size: 38
6593065 AGTTTGAGTA
6593075 TTTAATTATGTCTTAGTTTAAACATCATTAATATGTGT
1 TTTAATTATGTCTTAGTTTAAACATCATTAATATGTGT
*
6593113 CTTTAATTATGTCTTAGTTTGAACATCATTAATATGTGT
1 -TTTAATTATGTCTTAGTTTAAACATCATTAATATGTGT
6593152 TTTAATTATGT
1 TTTAATTATGT
6593163 GTCTTAATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 11 0.23
39 37 0.77
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (38 bp):
TTTAATTATGTCTTAGTTTAAACATCATTAATATGTGT
Found at i:6595170 original size:35 final size:34
Alignment explanation
Indices: 6595046--6595204 Score: 119
Period size: 33 Copynumber: 4.7 Consensus size: 34
6595036 ACGTTTACAT
* * *
6595046 GTAAGACCATAGCTGGGCTATGACATTTTAATAA
1 GTAAGACCATAGTTGGGTTATGACATTTTGATAA
* ** ** * *
6595080 -AAAGACCATAACTAAGTTATGACACTTTGA-AC
1 GTAAGACCATAGTTGGGTTATGACATTTTGATAA
* ***
6595112 GTAAGACCATGGTTGGACCATGACAGTATTT-ATAA
1 GTAAGACCATAGTTGGGTTATGACA-T-TTTGATAA
*
6595147 GTAAGACCATAGTTGGGTTATGACATTTTGATGA
1 GTAAGACCATAGTTGGGTTATGACATTTTGATAA
* *
6595181 -TAAGACCATAATAGGGTTATGACA
1 GTAAGACCATAGTTGGGTTATGACA
6595205 CTACGAATTT
Statistics
Matches: 94, Mismatches: 26, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
32 1 0.01
33 63 0.67
34 5 0.05
35 25 0.27
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (34 bp):
GTAAGACCATAGTTGGGTTATGACATTTTGATAA
Found at i:6595187 original size:101 final size:101
Alignment explanation
Indices: 6595012--6595224 Score: 275
Period size: 101 Copynumber: 2.1 Consensus size: 101
6595002 AATTGATGAA
* *
6595012 TAAGACCATGGTTGGACCATGACAACGTTTACATGTAAGACCATAGCTGGGCTATGACATTTTAA
1 TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGCTATGACATTTTAA
**
6595077 TAAAAAGACCATAACTA-AGTTATGACACTTTGAACG
66 TAAAAAGACCATAA-TAGAGTTATGACACTACGAACG
** * * * *
6595113 TAAGACCATGGTTGGACCATGACAGTATTTATAAGTAAGACCATAGTTGGGTTATGACATTTTGA
1 TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGCTATGACATTTTAA
* * * **
6595178 TGATAAGACCATAATAGGGTTATGACACTACGAATT
66 TAAAAAGACCATAATAGAGTTATGACACTACGAACG
6595214 TAAGACCATGG
1 TAAGACCATGG
6595225 CAGGGCCATG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 2 0.02
101 94 0.98
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGCTATGACATTTTAA
TAAAAAGACCATAATAGAGTTATGACACTACGAACG
Found at i:6597903 original size:18 final size:18
Alignment explanation
Indices: 6597880--6597914 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6597870 CCCAGCCGTC
6597880 TTCTCATTTCTTTCTCAT
1 TTCTCATTTCTTTCTCAT
6597898 TTCTCATTTCTTTCTCA
1 TTCTCATTTCTTTCTCA
6597915 CGTCTGAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTCATTTCTTTCTCAT
Found at i:6599180 original size:7 final size:7
Alignment explanation
Indices: 6599168--6599195 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6599158 ATATGTGGAA
6599168 ATCAAGT
1 ATCAAGT
6599175 ATCAAGT
1 ATCAAGT
6599182 ATCAAGT
1 ATCAAGT
6599189 ATCAAGT
1 ATCAAGT
6599196 TTCGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (7 bp):
ATCAAGT
Found at i:6600949 original size:61 final size:61
Alignment explanation
Indices: 6600884--6601083 Score: 194
Period size: 61 Copynumber: 3.3 Consensus size: 61
6600874 TTATACTATT
* *
6600884 ATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATAATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * * * *
6600945 ATATATTTTAATTAAAATATATTTA-ATAATAATTATGTTAA-ATT-A-TATTTTA-TAGTATC
1 ATATATTATAATTTAAATAAATTCATATAAGAA-TAT-TTAATATTAAGAATTTTATTA-AATC
* * * * *
6601004 ATATATTATGATTTGAATAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATAATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* *
6601065 ATATATTTTAATTAAAATA
1 ATATATTATAATTTAAATA
6601084 TATTTAATAA
Statistics
Matches: 106, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 4 0.04
59 34 0.32
60 14 0.13
61 48 0.45
62 6 0.06
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (61 bp):
ATATATTATAATTTAAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:6600996 original size:120 final size:120
Alignment explanation
Indices: 6600842--6601108 Score: 444
Period size: 120 Copynumber: 2.2 Consensus size: 120
6600832 AAAATTTGAT
* * * *
6600842 TATATTTAATAATAATTATGTTATATTATATTTTATACTATTATATATTATAATTTTAGTAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAATAAATT
*
6600907 CATATAAGAATATTTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
* *
6600962 TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAATAAATT
1 TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAATAAATT
* *
6601027 CATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
6601082 TATATTTAATAATAATTATGTTTAAAT
1 TATATTTAATAATAATTATG-TTAAAT
6601109 ATGATTAAAT
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
120 131 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (120 bp):
TATATTTAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAATTTGAATAAATT
CATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAA
Found at i:6601080 original size:18 final size:17
Alignment explanation
Indices: 6601052--6601086 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6601042 ATTATTAAGA
*
6601052 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6601069 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6601087 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6601277 original size:39 final size:40
Alignment explanation
Indices: 6601234--6601338 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
6601224 TTTCATTATG
6601234 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
6601273 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
6601318 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
6601339 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:6601332 original size:45 final size:44
Alignment explanation
Indices: 6601232--6601341 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
6601222 TTTTTCATTA
6601232 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
6601271 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
6601316 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
6601342 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:6601341 original size:16 final size:16
Alignment explanation
Indices: 6601322--6601373 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
6601312 GATTTGCTAT
* *
6601322 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
6601338 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6601354 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6601370 TACA
1 TACA
6601374 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6603213 original size:16 final size:16
Alignment explanation
Indices: 6603188--6603225 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6603178 CCTAGAGCTG
*
6603188 ATTTTTAAAATAATT-
1 ATTTTTAAAAAAATTA
6603203 ATTTTTAAAAAAAATTA
1 ATTTTT-AAAAAAATTA
6603220 ATTTTT
1 ATTTTT
6603226 TTAGGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTTAAAAAAATTA
Found at i:6606814 original size:40 final size:40
Alignment explanation
Indices: 6606770--6606907 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
6606760 ACACACCAGT
*
6606770 TTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAA
* * * * * *
6606810 TTGACACCCAATGTCTCATCGGCTAA-ACCAA--AGTGAA
1 TTGACACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAA
* *
6606847 TTGGCACCCAGTGCCTCATCGAATTAATTCGAAGTAGTAAA
1 TTGACACCCAGTGCCTCATCGGA-TAATTCGAAGTAGTAAA
*
6606888 TTGACACCCAGTGTCTCATC
1 TTGACACCCAGTGCCTCATC
6606908 AACTCGAAGT
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 22 0.29
38 3 0.04
39 6 0.08
40 23 0.30
41 23 0.30
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
TTGACACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAA
Found at i:6607817 original size:13 final size:13
Alignment explanation
Indices: 6607801--6607827 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6607791 TTCTCCTTCC
6607801 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
6607814 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
6607827 T
1 T
6607828 CCCTTTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTCTTTCTT
Found at i:6607879 original size:7 final size:7
Alignment explanation
Indices: 6607867--6607941 Score: 57
Period size: 7 Copynumber: 10.6 Consensus size: 7
6607857 CTTTCTTTAT
6607867 TATAATA
1 TATAATA
6607874 TATAATA
1 TATAATA
*
6607881 AATAATA
1 TATAATA
6607888 TATAATA
1 TATAATA
6607895 TAT-ATA
1 TATAATA
*
6607901 CT-TAACA
1 -TATAATA
*
6607908 TTTAAGT-
1 TATAA-TA
*
6607915 TTTAATA
1 TATAATA
6607922 TTATAATA
1 -TATAATA
6607930 TTATAATA
1 -TATAATA
6607938 TATA
1 TATA
6607942 TTTTAACTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
6 6 0.11
7 37 0.65
8 14 0.25
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:6609972 original size:13 final size:13
Alignment explanation
Indices: 6609920--6609985 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
6609910 AATTCTTCTT
6609920 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* *
6609933 TATTTTTAAAAAG
1 TACTTTTGAAAAG
* *
6609946 T-GTTGTGGAAAAG
1 TACTT-TTGAAAAG
*
6609959 TACTTTTGAGAAG
1 TACTTTTGAAAAG
*
6609972 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
6609985 T
1 T
6609986 TTAGTTTAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:6609982 original size:26 final size:26
Alignment explanation
Indices: 6609922--6609985 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
6609912 TTCTTCTTTA
*
6609922 CTTTTGAAAAGTATTTTTAAAAAGTG
1 CTTTTGAAAAGTACTTTTAAAAAGTG
* * *
6609948 -TTGTGGAAAAGTACTTTTGAGAAGTG
1 CTT-TTGAAAAGTACTTTTAAAAAGTG
6609974 CTTTTGAAAAGT
1 CTTTTGAAAAGT
6609986 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 2 0.06
26 27 0.87
27 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (26 bp):
CTTTTGAAAAGTACTTTTAAAAAGTG
Found at i:6625561 original size:17 final size:17
Alignment explanation
Indices: 6625464--6625550 Score: 56
Period size: 17 Copynumber: 5.1 Consensus size: 17
6625454 TAGATAATAG
*
6625464 ATTAAATTTAATATTAA
1 ATTAAATTAAATATTAA
* *
6625481 GATAATCAATTTAATATTAA
1 -AT--TAAATTAAATATTAA
* *
6625501 ATT-AATAAAATACT--
1 ATTAAATTAAATATTAA
*
6625515 ATTAAGA-TAAGTATTAA
1 ATTAA-ATTAAATATTAA
6625532 ATTAAATTAAATATTAA
1 ATTAAATTAAATATTAA
6625549 AT
1 AT
6625551 ATATTAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
14 3 0.06
15 6 0.11
16 10 0.19
17 17 0.31
18 2 0.04
19 2 0.04
20 14 0.26
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.40
Consensus pattern (17 bp):
ATTAAATTAAATATTAA
Found at i:6625564 original size:68 final size:69
Alignment explanation
Indices: 6625422--6625567 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 69
6625412 TTTAATTACT
* * *
6625422 ATAATATTAAATTAATATAACACTTATCAAGATAGATAATAGATTAAATTTAATATTAAGATAAT
1 ATAATATTAAATTAATAAAACACTTATCAAGATAGATAATAAATTAAATTAAATATTAAGATAAT
*
6625487 CAAT
66 CAAA
* * * *
6625491 TTAATATTAAATTAATAAAATAC-TATTAAGATA-AGTATTAAATTAAATTAAATATTAA-ATAT
1 ATAATATTAAATTAATAAAACACTTATCAAGATAGA-TAATAAATTAAATTAAATATTAAGATA-
*
6625553 ATTAAA
64 ATCAAA
6625559 ATAATATTA
1 ATAATATTA
6625568 TTTTTAAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
67 4 0.06
68 41 0.63
69 20 0.31
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (69 bp):
ATAATATTAAATTAATAAAACACTTATCAAGATAGATAATAAATTAAATTAAATATTAAGATAAT
CAAA
Found at i:6630448 original size:102 final size:103
Alignment explanation
Indices: 6630271--6630465 Score: 275
Period size: 102 Copynumber: 1.9 Consensus size: 103
6630261 TTAAATAAAA
* ** * ** * * *
6630271 AATAAATTAGGAGTGTGTTGGGCTGGGTAACCAATGGTGGGGTGCTTGGGTTGTCATTCCACTTT
1 AATAAATTAGGAATGTGTTGGGCTAAGTAACCAAGGGTAAGGTGCTTGGATAGTCATTCCACTTC
6630336 GCATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
66 GCATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
*
6630374 AATAAATTAGGAATGTGTTGGGCTAAGTAA-CTAGGGTAAGGTGCTTGGATAGTCATTCCACTTC
1 AATAAATTAGGAATGTGTTGGGCTAAGTAACCAAGGGTAAGGTGCTTGGATAGTCATTCCACTTC
**
6630438 GGGTCAAAAAGGCCAATACATTCTTAAA
66 GCATCAAAAAGGCCAATACATTCTTAAA
6630466 TAAAATATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
102 53 0.66
103 27 0.34
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (103 bp):
AATAAATTAGGAATGTGTTGGGCTAAGTAACCAAGGGTAAGGTGCTTGGATAGTCATTCCACTTC
GCATCAAAAAGGCCAATACATTCTTAAACAACAATAAT
Found at i:6631587 original size:27 final size:27
Alignment explanation
Indices: 6631557--6631617 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
6631547 CATACAAACG
*
6631557 TTTTATAACATAGGGGCATAACAATCA
1 TTTTATAACATAGGAGCATAACAATCA
6631584 TTTTATAACATAGGAGCATAACAATCA
1 TTTTATAACATAGGAGCATAACAATCA
6631611 TTTTATA
1 TTTTATA
6631618 TCAGTTTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTTTATAACATAGGAGCATAACAATCA
Found at i:6631760 original size:18 final size:18
Alignment explanation
Indices: 6631734--6631774 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6631724 TAAAATATGG
6631734 GCCCATGTGGGCCCACAT-
1 GCCCATGT-GGCCCACATA
*
6631752 GCCCGTGTGGCCCACATA
1 GCCCATGTGGCCCACATA
6631770 GCCCA
1 GCCCA
6631775 AAATTGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.17, C:0.41, G:0.27, T:0.15
Consensus pattern (18 bp):
GCCCATGTGGCCCACATA
Found at i:6636458 original size:24 final size:24
Alignment explanation
Indices: 6636404--6636458 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
6636394 AAGTTGAATT
*
6636404 CTCCAAAAAGAAGTTCCATTAAGT
1 CTCCAAAAAGAAGTTCCATTAAGC
6636428 CTGCCAAAAAGATAGTTCC-TTGAA-C
1 CT-CCAAAAAGA-AGTTCCATT-AAGC
6636453 CTCCAA
1 CTCCAA
6636459 CGGTACATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 13 0.48
26 8 0.30
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (24 bp):
CTCCAAAAAGAAGTTCCATTAAGC
Found at i:6638776 original size:34 final size:32
Alignment explanation
Indices: 6638723--6638797 Score: 132
Period size: 34 Copynumber: 2.3 Consensus size: 32
6638713 CAGTAATAGT
6638723 TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
1 TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
6638755 TCAGTATCAGTGTGGGCCTTAGCCCATTACAGTA
1 TCAGT-TCAGT-TGGGCCTTAGCCCATTACAGTA
6638789 TCAGTTCAG
1 TCAGTTCAG
6638798 ACATGCAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 5 0.12
33 9 0.22
34 27 0.66
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.31
Consensus pattern (32 bp):
TCAGTTCAGTTGGGCCTTAGCCCATTACAGTA
Found at i:6638857 original size:22 final size:22
Alignment explanation
Indices: 6638815--6638859 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
6638805 ATAAGAAATC
*
6638815 CTACCCAACCAGCCTCTACACT
1 CTACCCAACCAGCCTCAACACT
*
6638837 CTACTCCATCCAGCC-CAACACT
1 CTAC-CCAACCAGCCTCAACACT
6638859 C
1 C
6638860 CATGTGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.27, C:0.51, G:0.04, T:0.18
Consensus pattern (22 bp):
CTACCCAACCAGCCTCAACACT
Found at i:6639095 original size:27 final size:27
Alignment explanation
Indices: 6639061--6639128 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
6639051 ACAAAAATAT
*
6639061 ACAGTCATTTTATAACATAGGGGCATA
1 ACAGTCATTTTATAACATAGGGGCACA
*
6639088 ATAGTCATTTTATAACATAGGGGCACA
1 ACAGTCATTTTATAACATAGGGGCACA
6639115 ACAGTCATTTTATA
1 ACAGTCATTTTATA
6639129 TCAGTTTGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (27 bp):
ACAGTCATTTTATAACATAGGGGCACA
Found at i:6647314 original size:21 final size:21
Alignment explanation
Indices: 6647277--6647339 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
6647267 TCTCTCTCTA
*
6647277 TTTTTT-TGGTTTATTTTTT-
1 TTTTTTCTTGTTTATTTTTTC
* *
6647296 TGTTTTGTTGTTTATTTTTTC
1 TTTTTTCTTGTTTATTTTTTC
*
6647317 TTTTTTCTTCTTTATTTTTTC
1 TTTTTTCTTGTTTATTTTTTC
6647338 TT
1 TT
6647340 GATTTAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.14
20 12 0.32
21 20 0.54
ACGTcount: A:0.05, C:0.06, G:0.08, T:0.81
Consensus pattern (21 bp):
TTTTTTCTTGTTTATTTTTTC
Found at i:6649542 original size:19 final size:20
Alignment explanation
Indices: 6649518--6649575 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 20
6649508 TCAAATTTTG
6649518 AAAATAATTTTTAAAATT-C
1 AAAATAATTTTTAAAATTCC
*
6649537 AAAAT-ATTTATAGAAATTCC
1 AAAATAATTTTTA-AAATTCC
6649557 AAAATTTATATTTTTAAAA
1 AAAA--TA-ATTTTTAAAA
6649576 AAATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 5 0.16
22 1 0.03
23 3 0.10
24 6 0.19
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATAATTTTTAAAATTCC
Found at i:6659423 original size:25 final size:23
Alignment explanation
Indices: 6659347--6659448 Score: 109
Period size: 22 Copynumber: 4.3 Consensus size: 23
6659337 CACTAATGAG
*
6659347 CAGAGAGCACTAAAGTGCTAT-A
1 CAGAGAGCACTAACGTGCTATAA
* *
6659369 CAGAGAGCACAAATGTGCTA-AA
1 CAGAGAGCACTAACGTGCTATAA
*
6659391 CGGAGAGCACTAACGTGCTAGTAA
1 CAGAGAGCACTAACGTGCTA-TAA
*
6659415 TCAGAGAGCACCAACGTGCTAATAA
1 -CAGAGAGCACTAACGTGCT-ATAA
6659440 TCAGAGAGC
1 -CAGAGAGC
6659449 GCGCTAAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
22 36 0.53
24 2 0.03
25 29 0.43
26 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.16
Consensus pattern (23 bp):
CAGAGAGCACTAACGTGCTATAA
Found at i:6659436 original size:47 final size:44
Alignment explanation
Indices: 6659349--6659436 Score: 122
Period size: 47 Copynumber: 1.9 Consensus size: 44
6659339 CTAATGAGCA
*
6659349 GAGAGCACTAAAGTGCTATACAGAGAGCACAAATGTGCTAAACG
1 GAGAGCACTAAAGTGCTATACAGAGAGCACAAACGTGCTAAACG
* *
6659393 GAGAGCACTAACGTGCTAGTAATCAGAGAGCACCAACGTGCTAA
1 GAGAGCACTAAAGTGCTA-T-A-CAGAGAGCACAAACGTGCTAA
6659437 TAATCAGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 17 0.45
45 1 0.03
46 1 0.03
47 19 0.50
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (44 bp):
GAGAGCACTAAAGTGCTATACAGAGAGCACAAACGTGCTAAACG
Found at i:6660394 original size:19 final size:19
Alignment explanation
Indices: 6660370--6660408 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6660360 CTTTTTGCTA
6660370 TTCTAT-TTCTATTCTCTTT
1 TTCTATCTTCTATT-TCTTT
*
6660389 TTCTATCTTTTATTTCTTT
1 TTCTATCTTCTATTTCTTT
6660408 T
1 T
6660409 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTATCTTCTATTTCTTT
Found at i:6660494 original size:23 final size:23
Alignment explanation
Indices: 6660464--6660510 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6660454 AATAAGTATG
*
6660464 TACATATATTAATTACAAATGTA
1 TACATATATTAATAACAAATGTA
* *
6660487 TACATATATTTATAACACATGTA
1 TACATATATTAATAACAAATGTA
6660510 T
1 T
6660511 TTATAATTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (23 bp):
TACATATATTAATAACAAATGTA
Found at i:6662556 original size:16 final size:16
Alignment explanation
Indices: 6662516--6662559 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6662506 GCATACGAGA
6662516 AATTTT-AAATAAAAT
1 AATTTTAAAATAAAAT
* **
6662531 AAATAAAAAATAAAAT
1 AATTTTAAAATAAAAT
6662547 AATTTTAAAATAA
1 AATTTTAAAATAA
6662560 CATATAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTTTAAAATAAAAT
Found at i:6664307 original size:44 final size:44
Alignment explanation
Indices: 6664259--6664685 Score: 164
Period size: 44 Copynumber: 9.6 Consensus size: 44
6664249 TTTTTAATCC
* *
6664259 GCTCCACTGTAATCTCAGGAAGATAGGATTACTAGCTTCAATTT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
* * * * ** *
6664303 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACTA-GCTTCAATAT
** * *
6664349 ATTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTTAATAT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
* * ** * ** *
6664393 GCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-GCTTCAATAT
** * * * * * *
6664439 ATTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
* * * * ** * * * **
6664480 ACTCTACTGTAA-CTTTAGAGAGATAAAATCCTTTA-TTGTTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAGGA----TTACTAGCTTCAATAT
* * * *
6664527 GCTCTACTGTAATCTCAAGGAGATAGAATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
* * * * ** * ** *
6664571 GCTCCGCTGTAATCTTAGGGAGACAAGATCTAAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAGGAT-TACTA-GCTTCAATAT
** * *
6664617 ATTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
* *
6664661 GCTCCGCTGTAATCTCAGGTAGATA
1 GCTCCACTGTAATCTCAGGGAGATA
6664686 AGATCTGAAA
Statistics
Matches: 275, Mismatches: 90, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
40 1 0.00
41 27 0.10
43 3 0.01
44 113 0.41
45 13 0.05
46 91 0.33
47 26 0.09
48 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATAT
Found at i:6664380 original size:90 final size:90
Alignment explanation
Indices: 6664261--6664731 Score: 558
Period size: 90 Copynumber: 5.3 Consensus size: 90
6664251 TTTAATCCGC
* * *
6664261 TCCACTGTAATCTCAGGAAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
6664326 TAAGATCTGAAATTCTTCGGTCTAT
66 TAAGATCTAAAATTCTTCGGTCTAT
* *
6664351 TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTTAATATGCTCCGCTGTAATCTCAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
6664416 TAAGATCTAAAATTCTTCGGTCTAT
66 TAAGATCTAAAATTCTTCGGTCTAT
* * * * * ** * *
6664441 TCCACTGTAATCTCAGGGAGATA-AGA--CCT-GATGCGATCTACTCTACTGTAA-CTTTAGAGA
1 TCCACTGTAATCTCAGGGAGATAGA-ATTACTAGCTTCAATCTGCTCCGCTGTAATC-TCAGGGA
* ** * *** ***
6664501 GATAAAATCCT-TTATTGTTTTAATCCGC
64 GATAAGAT-CTAAAATT-CTTCGGTCTAT
* * *
6664529 TCTACTGTAATCTCAAGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGA
1 TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
6664594 CAAGATCTAAAATTCTTCGGTCTAT
66 TAAGATCTAAAATTCTTCGGTCTAT
* * *
6664619 TCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGTAGA
1 TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
*
6664684 TAAGATCTGAAATTCTTCGGTCTAT
66 TAAGATCTAAAATTCTTCGGTCTAT
*
6664709 TCCACTATAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
6664732 AGACCTGATG
Statistics
Matches: 316, Mismatches: 55, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.00
87 29 0.09
88 30 0.09
89 2 0.01
90 222 0.70
91 31 0.10
92 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (90 bp):
TCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
TAAGATCTAAAATTCTTCGGTCTAT
Found at i:6664577 original size:268 final size:266
Alignment explanation
Indices: 6664189--6664814 Score: 954
Period size: 268 Copynumber: 2.4 Consensus size: 266
6664179 ACTACACCGC
* * ** * *
6664189 CAGGGA-AGTAAGACCTGGTGCGACCTACTCTACTACAACCTCAGAGAGATAAGATC-TATTTTT
1 CAGGGAGA-TAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTATTATT
* *
6664252 TTAATCCGCTCCACTGTAATCTC-AGGAAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTAAT
65 TTAATCCGCTCCACTGTAATCTCAAGG-AGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAAT
* * *
6664316 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAGAATTAC
129 CTCAGGGAGACAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAGAATTAC
*
6664381 TAGCTTTAATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTATTCCAC
194 TAGCTTCAATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTATTCCAC
*
6664446 TGTAATCT
259 TATAATCT
* * *
6664454 CAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAAATCCTTTATTGT
1 CAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-C-TTATTAT
*
6664519 TTTAATCCGCTCTACTGTAATCTCAAGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAAT
64 TTTAATCCGCTCCACTGTAATCTCAAGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAAT
* *
6664584 CTTAGGGAGACAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAGGATTAC
129 CTCAGGGAGACAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAGAATTAC
* * *
6664649 TAGCTTCAATCTGCTCCGCTGTAATCTCAGGTAGATAAGATCTGAAATTCTTCGGTCTATTCCAC
194 TAGCTTCAATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTATTCCAC
6664714 TATAATCT
259 TATAATCT
* *
6664722 CAGGGAGATAAGACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAGGATCTT-TTATTT
1 CAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTATTATTT
* *
6664786 TAATCTGCTCCACTGTAATCTCAGGGAGA
66 TAATCCGCTCCACTGTAATCTCAAGGAGA
6664815 CAAGGCTGGT
Statistics
Matches: 327, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
265 77 0.24
266 4 0.01
267 1 0.00
268 242 0.74
269 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (266 bp):
CAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTATTATTT
TAATCCGCTCCACTGTAATCTCAAGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCT
CAGGGAGACAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAAGGAGATAGAATTACTA
GCTTCAATATGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTATTCCACTA
TAATCT
Found at i:6664992 original size:44 final size:44
Alignment explanation
Indices: 6664860--6664994 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 44
6664850 GCAGGAAGGT
*
6664860 AAGATCTGTTATCTTCAACCTACTCCACTGCAACCGAGGGAGGC
1 AAGATCTGTTATCTTTAACCTACTCCACTGCAACCGAGGGAGGC
* * * * * *
6664904 AAGGAT-TG-TGTC-TTAGATCTATTTCACCGTCGATA-C-AGGAAGGC
1 AA-GATCTGTTATCTTTA-ACCTACTCCACTG-C-A-ACCGAGGGAGGC
*
6664948 AAGATCTGTTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGC
1 AAGATCTGTTATCTTTAACCTACTCCACTGCAACCGAGGGAGGC
6664992 AAG
1 AAG
6664995 GCTGGGGTCT
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
42 3 0.04
43 17 0.25
44 27 0.40
45 16 0.24
46 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (44 bp):
AAGATCTGTTATCTTTAACCTACTCCACTGCAACCGAGGGAGGC
Found at i:6665036 original size:44 final size:44
Alignment explanation
Indices: 6664988--6665126 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
6664978 CAACCGAGGG
6664988 AGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTATCTATGCAGGA
1 AGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTATCTATGCAGGA
* *** * * * * * * *
6665032 AGGCAAGATCTGCTATCTT-TAACTGCTCCACT-GC-AGTCCGAGGG
1 AGGCAAG-GCTGGGGTCTTCGATCTGCTTCGCTATCTA-TGC-AGGA
6665076 AGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTATCTATGCAGGA
1 AGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTATCTATGCAGGA
6665120 AGGCAAG
1 AGGCAAG
6665127 ATCTGCTATC
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 1 0.01
43 10 0.15
44 45 0.67
45 10 0.15
46 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (44 bp):
AGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTATCTATGCAGGA
Found at i:6665236 original size:87 final size:87
Alignment explanation
Indices: 6664828--6665486 Score: 829
Period size: 87 Copynumber: 7.5 Consensus size: 87
6664818 GGCTGGTATC
* ** * * * *
6664828 TTCGATCTGCTTCACTGTCAGCGCAGGAAGGTAAGATCTGTTATCTTCAACCTACTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
* * *
6664893 CCGAGGGAGGCAAGGATTGTGTC
66 CCGATGGAGGCAAGGCTT-TGTT
* ** * * * * *
6664916 TTAGATCTATTTCACCGTCGATACAGGAAGGCAAGATCTGTTATCTTTAACCTGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
* ** *
6664981 CCGAGGGAGGCAAGGCTGGGGTC
66 CCGATGGAGGCAAGGCT-TTGTT
* *
6665004 TTCGATCTGCTTCGCTATCTATGCAGGAAGGCAAGATCTGCTATCTTTAA-CTGCTCCACTGCAG
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCA-
* * ** *
6665068 TCCGAGGGAGGCAAGGCTGGGGTC
65 ACCGATGGAGGCAAGGCT-TTGTT
* *
6665092 TTCGATCTGCTTCGCTATCTATGCAGGAAGGCAAGATCTGCTATCTTTAA-CTAGCTCCACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCT-GCTCCACTGCA
**
6665156 GTCGATGGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
* * *
6665179 TTCAATCTGCTTCGTTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACTTGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
**
6665244 CCGATGGAGGTGAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
6665266 TTCGATCTGCTTCGCTGTCAATGTAGGAAGACAAGATCTGTTATCTTTAA-CTAGCTCCACTGCA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCT-GCTCCACTGCA
*
6665330 ACTGATGGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
*
6665353 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
*
6665418 CCGATGGAGGCAAGGCTTTGCT
66 CCGATGGAGGCAAGGCTTTGTT
* *
6665440 TTCGATCTGTTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTT
1 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
6665487 CACTGATCTG
Statistics
Matches: 509, Mismatches: 56, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 291 0.57
88 206 0.40
89 11 0.02
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:6666734 original size:6 final size:6
Alignment explanation
Indices: 6666725--6666760 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
6666715 CATTTTTACT
6666725 TTTTCA TTTTTCA TTTCTCA TTTTCA TTTTCA TTTT
1 TTTTCA -TTTTCA TTT-TCA TTTTCA TTTTCA TTTT
6666761 TTTGACTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:6666734 original size:7 final size:7
Alignment explanation
Indices: 6666715--6666761 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
6666705 TTAGCCTCTC
6666715 CATTTTT
1 CATTTTT
6666722 -ACTTTTT
1 CA-TTTTT
6666729 CATTTTT
1 CATTTTT
*
6666736 CATTTCT
1 CATTTTT
6666743 CA-TTTT
1 CATTTTT
6666749 CA-TTTT
1 CATTTTT
6666755 CATTTTT
1 CATTTTT
6666762 TTGACTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 12 0.34
7 22 0.63
8 1 0.03
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:6666762 original size:14 final size:13
Alignment explanation
Indices: 6666715--6666761 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
6666705 TTAGCCTCTC
*
6666715 CATTTTTACTTTTT
1 CATTTTT-CATTTT
6666729 CATTTTTCATTTCT
1 CATTTTTCATTT-T
6666743 CA-TTTTCATTTT
1 CATTTTTCATTTT
6666755 CATTTTT
1 CATTTTT
6666762 TTGACTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 10 0.33
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:6667599 original size:15 final size:15
Alignment explanation
Indices: 6667573--6667610 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6667563 CCTTGACCTC
*
6667573 TCATTTTTTCTTTTT
1 TCATTTTCTCTTTTT
*
6667588 TCCTTTTCTCTTTTT
1 TCATTTTCTCTTTTT
6667603 TCATTTTC
1 TCATTTTC
6667611 ATTTTCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (15 bp):
TCATTTTCTCTTTTT
Found at i:6673807 original size:27 final size:28
Alignment explanation
Indices: 6673759--6673822 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
6673749 TTAGGTTAAT
* *
6673759 TTTAAAAT-AAGTGATACGTAAAATAAC
1 TTTAAAATAAAATGATACATAAAATAAC
* *
6673786 -TTAAAATAAAATGATATATAAAGTAAC
1 TTTAAAATAAAATGATACATAAAATAAC
6673813 TTTAAAATAA
1 TTTAAAATAA
6673823 TAATCTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 7 0.23
27 15 0.48
28 9 0.29
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (28 bp):
TTTAAAATAAAATGATACATAAAATAAC
Found at i:6673932 original size:16 final size:16
Alignment explanation
Indices: 6673892--6673935 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6673882 GCATACGAGA
6673892 AATTTT-AAATAAAAT
1 AATTTTAAAATAAAAT
* **
6673907 AAATAAAAAATAAAAT
1 AATTTTAAAATAAAAT
6673923 AATTTTAAAATAA
1 AATTTTAAAATAA
6673936 CTTATAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTTTAAAATAAAAT
Found at i:6684888 original size:24 final size:23
Alignment explanation
Indices: 6684856--6684942 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 23
6684846 AGTAAAGAGT
6684856 AAAGGATGAATTGATGATATATGC
1 AAAGGATGAATTGA-GATATATGC
* * *
6684880 AAAGGATGAATTGACGGTAAAATGA
1 AAAGGATGAATTGA-GAT-ATATGC
* *
6684905 AAACGATGAATTGACAGTATATGC
1 AAAGGATGAATTGAGA-TATATGC
6684929 AAAGGATGAATTGA
1 AAAGGATGAATTGA
6684943 AGTTTCAGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
24 33 0.65
25 18 0.35
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.24
Consensus pattern (23 bp):
AAAGGATGAATTGAGATATATGC
Found at i:6684913 original size:49 final size:49
Alignment explanation
Indices: 6684834--6684943 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 49
6684824 TGTGAAAAAG
* * *
6684834 GGATGAATTGAAAGTAAAGAGTAAAGGATGAATTGA-TGATATATGCAAA
1 GGATGAATTGAAAGTAAAGAGAAAACGATGAATTGACAG-TATATGCAAA
**
6684883 GGATGAATTGACGGTAAA-ATGAAAACGATGAATTGACAGTATATGCAAA
1 GGATGAATTGAAAGTAAAGA-GAAAACGATGAATTGACAGTATATGCAAA
6684932 GGATGAATTGAA
1 GGATGAATTGAA
6684944 GTTTCAGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.02
49 51 0.96
50 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (49 bp):
GGATGAATTGAAAGTAAAGAGAAAACGATGAATTGACAGTATATGCAAA
Found at i:6684918 original size:25 final size:24
Alignment explanation
Indices: 6684835--6684942 Score: 76
Period size: 25 Copynumber: 4.4 Consensus size: 24
6684825 GTGAAAAAGG
* *
6684835 GATGAATTGAAAGTAAA-GAGTAAAG
1 GATGAATTGACAGTAAATGA--AAAC
* * * *
6684860 GATGAATTGA-TGATATATGCAAAG
1 GATGAATTGACAG-TAAATGAAAAC
*
6684884 GATGAATTGACGGTAAAATGAAAAC
1 GATGAATTGACAGT-AAATGAAAAC
* * *
6684909 GATGAATTGACAGTATATGCAAAG
1 GATGAATTGACAGTAAATGAAAAC
6684933 GATGAATTGA
1 GATGAATTGA
6684943 AGTTTCAGCA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
24 33 0.49
25 34 0.50
26 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.26, T:0.24
Consensus pattern (24 bp):
GATGAATTGACAGTAAATGAAAAC
Found at i:6685118 original size:21 final size:20
Alignment explanation
Indices: 6685057--6685132 Score: 53
Period size: 21 Copynumber: 3.6 Consensus size: 20
6685047 CAGCTCTTTT
*
6685057 GAGCTTCAGTTTAACCCTTA
1 GAGCTTCCGTTTAACCCTTA
* * * * *
6685077 TAGGTTTCCGTTCAGCTCTTA
1 GA-GCTTCCGTTTAACCCTTA
6685098 CGAGCTTCCGTTTAACCCTTA
1 -GAGCTTCCGTTTAACCCTTA
* *
6685119 TGGGTTTCCGTTTA
1 -GAGCTTCCGTTTA
6685133 GCTTTCATGA
Statistics
Matches: 40, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
GAGCTTCCGTTTAACCCTTA
Done.