Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold60
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: 3815296
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 18690 characters in sequence are not A, C, G, or T
File 1 of 21
Found at i:412 original size:14 final size:15
Alignment explanation
Indices: 385--414 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
375 ATTTCGTTTG
385 GAGCTTCTTCATTTT
1 GAGCTTCTTCATTTT
400 GAGCTTC-TCATTTT
1 GAGCTTCTTCATTTT
414 G
1 G
415 GACATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
GAGCTTCTTCATTTT
Found at i:2262 original size:21 final size:21
Alignment explanation
Indices: 2233--2277 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2223 AAGTTTTTAT
*
2233 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2253 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2275 TTT
1 TTT
2278 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4510 original size:13 final size:13
Alignment explanation
Indices: 4492--4517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4482 CAATTTTTTG
4492 TGTATCGATACAT
1 TGTATCGATACAT
4505 TGTATCGATACAT
1 TGTATCGATACAT
4518 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5896 original size:43 final size:43
Alignment explanation
Indices: 5835--5932 Score: 196
Period size: 43 Copynumber: 2.3 Consensus size: 43
5825 TACAAGTCCT
5835 ATGTATCGATACAAAAAGTGATAAGGTAGCTACTGCTAGTTTC
1 ATGTATCGATACAAAAAGTGATAAGGTAGCTACTGCTAGTTTC
5878 ATGTATCGATACAAAAAGTGATAAGGTAGCTACTGCTAGTTTC
1 ATGTATCGATACAAAAAGTGATAAGGTAGCTACTGCTAGTTTC
5921 ATGTATCGATAC
1 ATGTATCGATAC
5933 CATTCTTCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (43 bp):
ATGTATCGATACAAAAAGTGATAAGGTAGCTACTGCTAGTTTC
Found at i:6688 original size:17 final size:18
Alignment explanation
Indices: 6658--6691 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6648 TTTTTGTTTC
6658 TAAAAAAAATCTCTTTTA
1 TAAAAAAAATCTCTTTTA
*
6676 TAAAACAAA-CTCTTTT
1 TAAAAAAAATCTCTTTT
6692 TTTTCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAAAAATCTCTTTTA
Found at i:13007 original size:19 final size:20
Alignment explanation
Indices: 12963--13034 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
12953 ACACCCAGAT
12963 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
12983 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
*
13002 GTATCGATACATCA-TGAATT-
1 GTATCGATACAT-ATTG-CTTA
13022 GTATCGATACATA
1 GTATCGATACATA
13035 AAATTAACAG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
19 17 0.38
20 26 0.58
21 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:14598 original size:32 final size:32
Alignment explanation
Indices: 14556--14618 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
14546 TAACTAAACT
* *
14556 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATAGATACACAAAAAT-TGTATCGATACAA
14588 TGTATAGATACACAAAAATTGTATCGATACA
1 TGTATAGATACACAAAAATTGTATCGATACA
14619 TTGGCTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATAGATACACAAAAATTGTATCGATACAA
Found at i:17144 original size:20 final size:22
Alignment explanation
Indices: 17121--17163 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
17111 CAAAGCAATA
17121 TGTATCGATAC-TTCT-GGGTT
1 TGTATCGATACTTTCTAGGGTT
*
17141 TGTATCGATGCTTTCTAGGGTT
1 TGTATCGATACTTTCTAGGGTT
17163 T
1 T
17164 TGACCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.14, C:0.14, G:0.26, T:0.47
Consensus pattern (22 bp):
TGTATCGATACTTTCTAGGGTT
Found at i:18628 original size:19 final size:20
Alignment explanation
Indices: 18583--18635 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
18573 CTGCTAGTTT
*
18583 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTAAG
*
18603 TATGTATCGATACAA-TAAG
1 CATGTATCGATACAATTAAG
18622 CATGTATCGATACA
1 CATGTATCGATACA
18636 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTAAG
Found at i:20916 original size:20 final size:20
Alignment explanation
Indices: 20891--20965 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
20881 TTTTACCCAG
20891 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
* * *
20911 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTTA
*
20931 ATATATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
20951 ATGTATCGATACATT
1 ATGTATCGATACATT
20966 CTTATTGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:21918 original size:20 final size:20
Alignment explanation
Indices: 21880--21920 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21870 TAGCCTTTGA
*
21880 TCATGCATTTTCACTATGTT
1 TCATGCATTTTAACTATGTT
21900 TCATGCATTCTTAAC-ATGTT
1 TCATGCATT-TTAACTATGTT
21920 T
1 T
21921 AGCATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (20 bp):
TCATGCATTTTAACTATGTT
Found at i:24814 original size:50 final size:51
Alignment explanation
Indices: 24705--24820 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 51
24695 TCAGAAATAA
* *
24705 CAAGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATCAAAC
1 CAAGGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTAGAAATAAAAC
* *
24756 CAAGGTTGGAGTATCCCCAATT-TGAAAAATC-AGTGTTTTCGAAATAAAA-
1 CAAGGTTGGAGTATCCCCAATTGTGAAAAATCGA-TATTTTAGAAATAAAAC
*
24805 CTAGAGTTGGAGTATC
1 CAAG-GTTGGAGTATC
24821 TCCTTAGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
49 4 0.07
50 33 0.57
51 21 0.36
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (51 bp):
CAAGGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTAGAAATAAAAC
Found at i:24885 original size:129 final size:130
Alignment explanation
Indices: 24660--24953 Score: 392
Period size: 129 Copynumber: 2.3 Consensus size: 130
24650 GAAAAATTGA
* * *
24660 TGTTTTCAAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGA
1 TGTTTTCGAAATAAAACCAGAGTTAGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGA
*
24725 TTGTGAAAAATCGATATTTTAGAAATCAAACCAAGGTTGGAGTATCCCCAATT-TGAAAAATCAG
66 TTGTGAAAAATCGATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCAATTGTGAAAAATCAG
* * * * ** *
24789 TGTTTTCGAAATAAAACTAGAGTTGGAGTATCTCCTTAGAAATAACGGGGTTGGAGTATCCCTGA
1 TGTTTTCGAAATAAAACCAGAGTTAGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGA
* * * * *
24854 TTGTGAAAAATCGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGAAAAATCGG
66 TTGTGAAAAATCGATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCAATTGTGAAAAATCAG
* * * * *
24919 TGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 TGTTTTCGAAATAAAACCAGAGTTAGAGTATCCCC
24954 GATTCTGAAA
Statistics
Matches: 142, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
129 103 0.73
130 39 0.27
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (130 bp):
TGTTTTCGAAATAAAACCAGAGTTAGAGTATCCCCTCAGAAATAACAAGGTTGGAGTATCCCCGA
TTGTGAAAAATCGATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCAATTGTGAAAAATCAG
Found at i:24900 original size:51 final size:51
Alignment explanation
Indices: 24836--24981 Score: 220
Period size: 51 Copynumber: 2.9 Consensus size: 51
24826 AGAAATAACG
* *
24836 GGGTTGGAGTATCCCTGATTGTGAAAAATCGATGTTTTGGAAATAAAACCA
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCA
* * *
24887 GGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCA
* * *
24938 GGGTTGGAGTATCCCCGATTCTGAAAAATTGGTGTTTTGAAAAT
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGGAAAT
24982 CGGGATTGGA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 86 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCA
Found at i:27174 original size:61 final size:61
Alignment explanation
Indices: 27050--27679 Score: 768
Period size: 61 Copynumber: 10.4 Consensus size: 61
27040 GAGAGAGGCA
* * * *
27050 TCCTGCACTTTG-GGAACTAAAAGGTGCCACCAAC-T-TGTGGGCTTTGAAAGGAAAAGACA
1 TCCTGCTCTTTGAGG-ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* *
27109 TCCTGCTCTTTGAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTTTAAAGGGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * * * * * *
27170 TCCTGCTCCTTAAGGACTGAAATGTACCACCAATTTATGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * * *
27231 TCCTGATCTTCGAGGACTAAAAGATGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * * * * *
27292 TCTTGCTCTTTGAGGATTGAAATGTGCCACCAATTTGTGTGGGCATTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * * * *
27353 TCCTGCTCTTCGAGGACTGAAAAGTGCCACCAACTTGTGTGCGTTTTAATAGGAAAAGATG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * * *
27414 TCCTACTCTTTAAGGACTGAAATGTGCCACCAACTTATGTGGGCTTTTAAAGGAAAA-AGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA-CG
* * * *
27475 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTTTGTGGGCTTTAAAATGAAAAGACA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * * *
27536 TCGTGCTCTTTGA-GATTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG-CG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
* * *
27595 TCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
27656 TCCTGCTCTTTGAGGACTGAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
27680 ATAAAAGGTT
Statistics
Matches: 478, Mismatches: 86, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
59 40 0.08
60 82 0.17
61 355 0.74
62 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACG
Found at i:33012 original size:13 final size:13
Alignment explanation
Indices: 32994--33033 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
32984 ACAATGCTCT
32994 TTGTATCGATACA
1 TTGTATCGATACA
*
33007 TTGTATCAATACA
1 TTGTATCGATACA
*
33020 ATGTATCGATACA
1 TTGTATCGATACA
33033 T
1 T
33034 GGTTACTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:34606 original size:13 final size:13
Alignment explanation
Indices: 34588--34614 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34578 ACATTATGCT
34588 TTGTATCGATACA
1 TTGTATCGATACA
34601 TTGTATCGATACA
1 TTGTATCGATACA
34614 T
1 T
34615 GCATAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:36894 original size:392 final size:392
Alignment explanation
Indices: 36276--37059 Score: 1363
Period size: 392 Copynumber: 2.0 Consensus size: 392
36266 AAGTGTCCCA
36276 CATGGTTACAAAGGTGGTCTTTTCCATGTCTTCAACTACCATTTTGATTTGATTATAGCCAAAAA
1 CATGGTTACAAAGGTGGTCTTTTCCATGTCTTCAACTACCATTTTGATTTGATTATAGCCAAAAA
* *
36341 ACCCATCCATGAAAGAAAACAAAGCGCTTTTGGCAGTGTTATCTACTAAGGTATCGATGTGAGGC
66 ACCCATCCATGAAAGAAAACAAAGCGCTTTTGGCAATGTTATCTACTAAGGTATCGATGTAAGGC
*
36406 AGAGGAAAATTATCTTTGGGGCTAGCTTGGTTTAAATCCTTATAATCCACGCACATTCGCATCTT
131 AGAGGAAAATTATCTTTGGGGCTAGCTTGGTTTAAATCCTTATAATCCACGCACATTCGCACCTT
*
36471 GCCATCCTTTTTGGGAACTAGACTATATTGGCCACCCATTCTAGATATTTGGCCACCTCGAGAAA
196 GCCATCCTTTTTGGGAACTAGACTATATTGGCCACCCATTCTAGATATTTGGCCACCTCAAGAAA
*
36536 ACTCGCTTCAAATTGTTTATTGACTTT-TTCCTTAACCTTTAAAAGCACTTCAGGCTTTATCCTT
261 ACCCGCTTCAAATTGTTTATTGA-TTTCTTCCTTAACCTTTAAAAGCACTTCAGGCTTTATCCTT
* * * * *
36600 CTCAGCTTCTATTGTACGGGTTTATACTCAGGTTTTAGAGGAAGCTTATAGACTACAATGTTGGT
325 CTCAGCTTCTATTGTACGAGTTTACACTCAGGTTTGAGAGGAAGCTTATAGACCACAATGTTAGT
36665 GTC
390 GTC
* **
36668 CATGGTTACAAAGGTGGTCTTTTCCATGTCTTCAACTGCCATTTTGATTTGATTATAGCTGAAAA
1 CATGGTTACAAAGGTGGTCTTTTCCATGTCTTCAACTACCATTTTGATTTGATTATAGCCAAAAA
36733 ACCCATCCATGAAAGAAAACAAAGCGCTTTTGGCAATGTTATCTACTAAGGTATCGATGTAAGGC
66 ACCCATCCATGAAAGAAAACAAAGCGCTTTTGGCAATGTTATCTACTAAGGTATCGATGTAAGGC
* * *
36798 AGAGGAAAATTATCTTTGGGTCTAGCTTGGTTTAAGTCCTTGTAATCCACGCACATTCGCACCTT
131 AGAGGAAAATTATCTTTGGGGCTAGCTTGGTTTAAATCCTTATAATCCACGCACATTCGCACCTT
* * *
36863 GCCATCCTTTTTGGGAACTGGACTATATTGGCCACCCATTCTGGATATTTGGCCACCTTAAGAAA
196 GCCATCCTTTTTGGGAACTAGACTATATTGGCCACCCATTCTAGATATTTGGCCACCTCAAGAAA
36928 ACCCGCTTCAAATTGTTTATTGATTTCTTCCTTAACCTTTAAAAGCACTTCAGGCTTTATCCTTC
261 ACCCGCTTCAAATTGTTTATTGATTTCTTCCTTAACCTTTAAAAGCACTTCAGGCTTTATCCTTC
* *
36993 TCAGCTTCTGTTGTACGAGTTTACACTCAGGTTTGAGAGGAAGCTTATGGACCACAATGTTAGTG
326 TCAGCTTCTATTGTACGAGTTTACACTCAGGTTTGAGAGGAAGCTTATAGACCACAATGTTAGTG
37058 TC
391 TC
37060 TAATCCGGGC
Statistics
Matches: 370, Mismatches: 21, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
391 3 0.01
392 367 0.99
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (392 bp):
CATGGTTACAAAGGTGGTCTTTTCCATGTCTTCAACTACCATTTTGATTTGATTATAGCCAAAAA
ACCCATCCATGAAAGAAAACAAAGCGCTTTTGGCAATGTTATCTACTAAGGTATCGATGTAAGGC
AGAGGAAAATTATCTTTGGGGCTAGCTTGGTTTAAATCCTTATAATCCACGCACATTCGCACCTT
GCCATCCTTTTTGGGAACTAGACTATATTGGCCACCCATTCTAGATATTTGGCCACCTCAAGAAA
ACCCGCTTCAAATTGTTTATTGATTTCTTCCTTAACCTTTAAAAGCACTTCAGGCTTTATCCTTC
TCAGCTTCTATTGTACGAGTTTACACTCAGGTTTGAGAGGAAGCTTATAGACCACAATGTTAGTG
TC
Found at i:40110 original size:20 final size:19
Alignment explanation
Indices: 40083--40156 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
40073 ACTATCAGTT
40083 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
40102 TGTATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
40122 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
40142 TAATGTATCGATACA
1 TCATGTATCGATACA
40157 TCTTGATGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:48846 original size:13 final size:13
Alignment explanation
Indices: 48828--48854 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48818 ACAATTGTGT
48828 ATGTATCGATACA
1 ATGTATCGATACA
48841 ATGTATCGATACA
1 ATGTATCGATACA
48854 A
1 A
48855 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:51899 original size:79 final size:79
Alignment explanation
Indices: 51785--52028 Score: 264
Period size: 79 Copynumber: 3.1 Consensus size: 79
51775 TATTTTCTAG
* ** **
51785 ATAAAACC-GAGGTTGGGGGTATCCCCTCGAAAATAACGGGGTCAGAGTATCCTCGATTGTGAAA
1 ATAAAACCAG-GGTT-GGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCGATTGTGAAA
* *
51849 AATCAGTATTTTGAAA
64 AATCGGTGTTTTGAAA
* *
51865 ATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACCAA-GTTGGAGTATCCTCGATTGTGAGAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAA-CAAGGTTGGAGTATCCTCGATTGTGAAAA
*
51929 ATTGGTGTTTTGAAA
65 ATCGGTGTTTTGAAA
* * * * *
51944 ATAAGACCGGGGTTGGA--ATCCCCTCAAAAACAACAAGGTTGGAGTAT-CTCCAATTAGTGAAA
1 ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCT-CGATT-GTGAAA
*
52006 ATTCGGTGTTTTGAAA
64 AATCGGTGTTTTGAAA
52022 ATAAAAC
1 ATAAAAC
52029 TAGATTAGAG
Statistics
Matches: 139, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
76 5 0.04
77 28 0.20
78 25 0.18
79 68 0.49
80 12 0.09
81 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (79 bp):
ATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCTCGATTGTGAAAAA
TCGGTGTTTTGAAA
Found at i:55172 original size:45 final size:43
Alignment explanation
Indices: 55035--55520 Score: 386
Period size: 45 Copynumber: 11.5 Consensus size: 43
55025 GGAAAAGGCA
* * *
55035 TCCTACTCTTTGAGGACTAAAGGAAAAGAAGGAAATAAGGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAA-ATGCG
*
55079 CCCTGCTCTTTGAGGAC-AAAGG-AAA-AAGGAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAA-TGCG
*
55120 TCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAG-GAAAAGAAGGAAAT-AAATGCG
** * * * *
55165 TTTTGCTCTTTAAAGACAAAAGGAAAAAAAGGAAATAAAATGTG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAAT-AAATGCG
* *
55209 CCCTGCTCTTTGAGGAC-AAAGGAGAA-AAGGAAA-AAAT--G
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAATGCG
* * * **
55247 TCCTGCTCATTGAGGACTAAGGGAAAAGAAGGAAATGAGGTGCG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAAT-AAATGCG
* * *
55291 CCCTGCTCTTTAAGGAC-AAAGGAGAAAGGAA--AAA-AAATGCA
1 TCCTGCTCTTTGAGGACAAAAGGA-AAA-GAAGGAAATAAATGCG
* * *
55332 TCATGCTCTCTGAGGACAAAAGGGAAAAGAAGGAAATAAAATGTG
1 TCCTGCTCTTTGAGGACAAAA-GGAAAAGAAGGAAAT-AAATGCG
* * * *
55377 TCATGCTCTTTGAGGA-AAAAGGAGAA-AAGG--A-AAAGGCA
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAATGCG
* **
55415 TCCTGCTCTCTGAGGACAGAAAGGAAAAGAAGGAAATAAAATGTA
1 TCCTGCTCTTTGAGGACA-AAAGGAAAAGAAGGAAAT-AAATGCG
* * * *
55460 TCCTGCTCTTTGAGGATAAAA-GAGAA-AAGG--A-AAAGGCA
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAATGCG
*
55498 TCCTGCTCTTTGAGGACTAAAGG
1 TCCTGCTCTTTGAGGACAAAAGG
55521 GTGCCACCAA
Statistics
Matches: 359, Mismatches: 55, Indels: 61
0.76 0.12 0.13
Matches are distributed among these distances:
38 58 0.16
39 9 0.03
40 21 0.06
41 54 0.15
42 30 0.08
43 38 0.11
44 73 0.20
45 74 0.21
46 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAATGCG
Found at i:55371 original size:168 final size:167
Alignment explanation
Indices: 55080--55488 Score: 457
Period size: 168 Copynumber: 2.4 Consensus size: 167
55070 TAAGGTGCGC
* *
55080 CCTGCTCTTTGAGGACAAAGG-AAA-AAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGA
1 CCTGCTC-TTGAGGACAAAGGAAAAGAAGGAAATAAAGTGCGCCCTGCTCTTTAAGGACAAAAGA
* * ** *
55143 GAAAAGAAGGAAATGAAGTGCGTTTTGCTCTTTAAAGACAAAAGGAAAAAAAGGAAATAAAATGT
65 GAAAAGAA-GAAA-GAAATGCATCATGCTCTCTAAAGACAAAAGGAAAAAAAGGAAATAAAATGT
* * **
55208 GCCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAAATGT
128 GCCATGCTCTTTGAGGAAAAAGGAGAAAAGGAAAAAACAT
* * * *
55248 CCTGCTCATTGAGGACTAAGGGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGG
1 CCTGCTC-TTGAGGAC-AAAGGAAAAGAAGGAAATAAAGTGCGCCCTGCTCTTTAAGGACAAAAG
* * * *
55313 AGAAAGGAA-AAA-AAATGCATCATGCTCTCTGAGGACAAAAGGGAAAAGAAGGAAATAAAATGT
64 AGAAAAGAAGAAAGAAATGCATCATGCTCTCTAAAGACAAAA-GGAAAAAAAGGAAATAAAATGT
* **
55376 GTCATGCTCTTTGAGGAAAAAGGAGAAAAGGAAAAGGCAT
128 GCCATGCTCTTTGAGGAAAAAGGAGAAAAGGAAAAAACAT
* *** * *
55416 CCTGCTCTCTGAGGACAGAAAGGAAAAGAAGGAAATAAAATGTATCCTGCTCTTTGAGGATAAAA
1 CCTGCTCT-TGAGGAC--AAAGGAAAAGAAGGAAATAAAGTGCGCCCTGCTCTTTAAGGACAAAA
55481 GAGAAAAG
63 GAGAAAAG
55489 GAAAAGGCAT
Statistics
Matches: 200, Mismatches: 35, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
167 22 0.11
168 83 0.41
169 51 0.25
170 3 0.01
171 41 0.20
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (167 bp):
CCTGCTCTTGAGGACAAAGGAAAAGAAGGAAATAAAGTGCGCCCTGCTCTTTAAGGACAAAAGAG
AAAAGAAGAAAGAAATGCATCATGCTCTCTAAAGACAAAAGGAAAAAAAGGAAATAAAATGTGCC
ATGCTCTTTGAGGAAAAAGGAGAAAAGGAAAAAACAT
Found at i:55386 original size:212 final size:210
Alignment explanation
Indices: 55011--55409 Score: 555
Period size: 212 Copynumber: 1.9 Consensus size: 210
55001 AAGGGATGTA
** *
55011 GACAAAGAAGAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAGGAAAAGAAGGAAATAAGGT
1 GACAAAGAAGAAAAGGAAAAAACATCCTACTCATTGAGGACTAAAGGAAAAGAAGGAAATAAGGT
* * * * * *
55076 GCGCCCTGCTCTTTGAGGACAAAGGAAAAAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
66 GCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAAAAAAATGCATCATGCTCTCTGAGGACAAAA
* * **
55141 GAGAAAAGAAGGAAATGAAGTGCGTTTTGCTCTTTAAAGACAAAAGGAAAAAAAGGAAATAAAAT
131 GAGAAAAGAAGGAAATAAAATGCGTCATGCTCTTTAAAGA-AAAAGG-AAAAAAGGAAATAAAAT
55206 GTGCCCTGCTCTTTGAG
194 GTGCCCTGCTCTTTGAG
* ** * * *
55223 GACAAAGGAGAAAAGGAAAAAATGTCCTGCTCATTGAGGACTAAGGGAAAAGAAGGAAATGAGGT
1 GACAAAGAAGAAAAGGAAAAAACATCCTACTCATTGAGGACTAAAGGAAAAGAAGGAAATAAGGT
*
55288 GCGCCCTGCTCTTTAAGGACAAAGGAGAAAGGAAAAAAAATGCATCATGCTCTCTGAGGACAAAA
66 GCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAAAAAAATGCATCATGCTCTCTGAGGACAAAA
* * * * *
55353 GGGAAAAGAAGGAAATAAAATGTGTCATGCTCTTTGAGGAAAAAGGAGAAAAGGAAA
131 GAGAAAAGAAGGAAATAAAATGCGTCATGCTCTTTAAAGAAAAAGGAAAAAAGGAAA
55410 AGGCATCCTG
Statistics
Matches: 162, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
210 10 0.06
211 6 0.04
212 146 0.90
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (210 bp):
GACAAAGAAGAAAAGGAAAAAACATCCTACTCATTGAGGACTAAAGGAAAAGAAGGAAATAAGGT
GCGCCCTGCTCTTTAAGGACAAAGGAAAAAGGAAAAAAAATGCATCATGCTCTCTGAGGACAAAA
GAGAAAAGAAGGAAATAAAATGCGTCATGCTCTTTAAAGAAAAAGGAAAAAAGGAAATAAAATGT
GCCCTGCTCTTTGAG
Found at i:55452 original size:83 final size:82
Alignment explanation
Indices: 55080--55520 Score: 433
Period size: 83 Copynumber: 5.3 Consensus size: 82
55070 TAAGGTGCGC
* *
55080 CCTGCTCTTTGAGGAC-AAAGG-AAA-AAGGAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAG
1 CCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAAATGTGTCCTGCTCTTTGAGGA-AAAAG
* *
55142 AGAAAAGAAGGAAATGAAGTGCGT
65 -GAGAA-AAGG-AA--AAG-GCAT
** * * * * *
55166 TTTGCTCTTTAAAGACAAAAGGAAAAAAAGGAAATAAAATGTGCCCTGCTCTTTGAGGACAAAGG
1 CCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAAATGTGTCCTGCTCTTTGAGGAAAAAGG
****
55231 AGAAAAGGAAAAAATGT
66 AGAAAAGGAAAAGGCAT
* * * * ** * * * *
55248 CCTGCTCATTGAGGACTAAGGGAAAAGAAGGAAATGAGGTGCGCCCTGCTCTTTAAGGACAAAGG
1 CCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAAATGTGTCCTGCTCTTTGAGGAAAAAGG
*
55313 AG-AAAGGAAAAAAAATGCAT
66 AGAAAAGG----AAAAGGCAT
* * *
55333 CATGCTCTCTGAGGACAAAAGGGAAAAGAAGGAAATAAAATGTGTCATGCTCTTTGAGGAAAAAG
1 CCTGCTCTTTGAGGACAAAA-GGAAAAGAAGGAAATAAAATGTGTCCTGCTCTTTGAGGAAAAAG
55398 GAGAAAAGGAAAAGGCAT
65 GAGAAAAGGAAAAGGCAT
* *
55416 CCTGCTCTCTGAGGACAGAAAGGAAAAGAAGGAAATAAAATGTATCCTGCTCTTTGAGGATAAAA
1 CCTGCTCTTTGAGGACA-AAAGGAAAAGAAGGAAATAAAATGTGTCCTGCTCTTTGAGGA-AAAA
55481 -GAGAAAAGGAAAAGGCAT
64 GGAGAAAAGGAAAAGGCAT
*
55499 CCTGCTCTTTGAGGACTAAAGG
1 CCTGCTCTTTGAGGACAAAAGG
55521 GTGCCACCAA
Statistics
Matches: 296, Mismatches: 48, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
81 5 0.02
82 61 0.21
83 96 0.32
84 7 0.02
85 22 0.07
86 55 0.19
87 14 0.05
88 7 0.02
89 29 0.10
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (82 bp):
CCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATAAAATGTGTCCTGCTCTTTGAGGAAAAAGG
AGAAAAGGAAAAGGCAT
Found at i:55580 original size:62 final size:62
Alignment explanation
Indices: 55483--56560 Score: 1053
Period size: 62 Copynumber: 17.6 Consensus size: 62
55473 GGATAAAAGA
* *
55483 GAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* * *
55545 GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* *** * *
55607 GAAAAAAAAAATTTATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTCT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* ** * * * * *
55669 AAAAAGAAAAAGGTGTCTTGCTATTTGAGGACTAAAGGGTGCCACCAACTCGTGTAGGCTTG
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* * *
55731 GAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* * * * *** *
55793 GGAAAGGAAAAAGTG--TCTTGCTTTTTGAGGACTGAAGGGTGCCACCAACTCCAGTGCGCTTT
1 -GAAAAGAAAAAG-GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* ** * * * *
55855 GAAAAGGAAAAGGTGTCCTGCTATTTGAGGATTTAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* * ** * *
55917 GAAAAGGAAAAA-GTATCTTGCTCTTTGAACACTGAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* ** * * * **
55979 GAAAAGGAAAAGGTGTCCTACTCTTTAAGGACTAAAAGGTGCCACCAGTTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
56041 AAAAAG-GAAAGGCGTCCTGCTTTTTGAGGACCGAAA-GGTGCCACCAACTTATGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGA-CTAAAGGGTGCCACCAACTTGTGTGGGCTTT
*
56102 -AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT
* * * *
56163 -AAAAGAAAATGTG--TTCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTT
1 GAAAAGAAAAAG-GCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
* *
56223 G-AAAG-GAAA-GCATCCTACTCTTTGAGGACTGAAA-GGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT
* * *
56282 -AAAAGGAAAAA--AAGTCATGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGAGCTTT
1 GAAAA-GAAAAAGGCA-TCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
56343 G-AAAGGAAAA--CGTCTTGCTCTTTGAGGACTGGAA-GGTGTCACCAACTTATGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT
* * *
56402 -AAAAGAAAAAAG-AGTCCTACTCTTTGAGGACTAGAA-GGTGCCACCAACTTATG-GGGCTTT
1 GAAAAGAAAAAGGCA-TCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTT
* * * *
56462 G-AAAGGAAAAGGCATCTTACTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT
* ** * *
56523 -AAAAGGAAAAGGTGTCCTACTCTTCGAGGACTGAAAGG
1 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAGG
56561 ATAAAAGGTT
Statistics
Matches: 866, Mismatches: 117, Indels: 66
0.83 0.11 0.06
Matches are distributed among these distances:
57 1 0.00
59 97 0.11
60 113 0.13
61 235 0.27
62 403 0.47
63 16 0.02
64 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT
Found at i:57506 original size:1 final size:1
Alignment explanation
Indices: 57500--57570 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
57490 CTTAAGCAGG
* * ** * * * * *
57500 TTTTTTTTCTTTTTTTTTTTCTTTTTTCATTTTTTTGTTGTTCTTTTTTGTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57565 TTTTTT
1 TTTTTT
57571 GAAAAAAGAA
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.01, C:0.06, G:0.06, T:0.87
Consensus pattern (1 bp):
T
Found at i:57516 original size:11 final size:11
Alignment explanation
Indices: 57499--57571 Score: 74
Period size: 11 Copynumber: 6.1 Consensus size: 11
57489 GCTTAAGCAG
57499 GTTTTTTTTCTT
1 GTTTTTTTT-TT
*
57511 TTTTTTTTTCTT
1 GTTTTTTTT-TT
*
57523 TTTTCATTTTTTT
1 GTTT--TTTTTTT
57536 GTTGTTCTTTTTT
1 GTT-TT-TTTTTT
57549 GTTTTTTTTTT
1 GTTTTTTTTTT
57560 GTTTTTTTTTT
1 GTTTTTTTTTT
57571 G
1 G
57572 AAAAAAGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
11 18 0.33
12 18 0.33
13 13 0.24
14 6 0.11
ACGTcount: A:0.01, C:0.05, G:0.08, T:0.85
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:61246 original size:22 final size:22
Alignment explanation
Indices: 61218--61262 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
61208 TTGGAAGAGT
*
61218 ACAAGAATTTCATTTTCAGTCC
1 ACAAGAATTTCATTTTCAATCC
61240 ACAAGAATTTCATTTTCAATCC
1 ACAAGAATTTCATTTTCAATCC
61262 A
1 A
61263 AATACTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (22 bp):
ACAAGAATTTCATTTTCAATCC
Found at i:62459 original size:20 final size:20
Alignment explanation
Indices: 62436--62494 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
62426 GTATCAATAT
* *
62436 ATAAGTGAATGTATTGATGC
1 ATAAGTGAATATATTGATAC
62456 ATAAGTGAATATATTGATAC
1 ATAAGTGAATATATTGATAC
*
62476 ATTAGTGAATATATTGATA
1 ATAAGTGAATATATTGATA
62495 ATGGACCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (20 bp):
ATAAGTGAATATATTGATAC
Found at i:62571 original size:31 final size:31
Alignment explanation
Indices: 62533--62613 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
62523 TATGGAAAGA
*
62533 AAATATATCGATACATTCTAGGTTTTGATCC
1 AAATATATCGATATATTCTAGGTTTTGATCC
*
62564 AAATATATTGATATATTCTAGGTTTTGATCC
1 AAATATATCGATATATTCTAGGTTTTGATCC
62595 AAATATATCGATATATTCT
1 AAATATATCGATATATTCT
62614 TCATTATATC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (31 bp):
AAATATATCGATATATTCTAGGTTTTGATCC
Found at i:72756 original size:25 final size:25
Alignment explanation
Indices: 72709--72756 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
72699 TATTAAGTTT
*
72709 AATTTTAATTTTCTGTTAATTTTAA
1 AATTTTAATTTTATGTTAATTTTAA
* * *
72734 AATTTTTATTTTATTTTATTTTT
1 AATTTTAATTTTATGTTAATTTT
72757 TAATTAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (25 bp):
AATTTTAATTTTATGTTAATTTTAA
Found at i:73335 original size:17 final size:17
Alignment explanation
Indices: 73313--73345 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
73303 TGTTTGTTGA
73313 TATGATGTT-AATTTTTG
1 TATGAT-TTCAATTTTTG
73330 TATGATTTCAATTTTT
1 TATGATTTCAATTTTT
73346 CCATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
TATGATTTCAATTTTTG
Found at i:75146 original size:96 final size:98
Alignment explanation
Indices: 74905--75146 Score: 284
Period size: 96 Copynumber: 2.5 Consensus size: 98
74895 ATGGAGCTGG
* * **
74905 AGTATCCCTTC-AGAGGAATAGGGTTGCG-GTATCCCCGAT-AATGATAATTTAGGCAAAAATAA
1 AGTATCCCTTCGA-AAGAATAGGGTTG-GAGTATCCCC-ATGAATGAAAATTTAAACAAAAATAA
* * *
74967 TATTTGAATATTGATAAGTTTAAAAATAGGGTTAGA
63 AATTTAAATATTGACAAGTTTAAAAATAGGGTTAGA
* ** *
75003 A-TATTCCC-TCGAAAGAATGGGGTTGGAGTATCCTGATG-ATGACAATTTAAACAAAAATAAAA
1 AGTA-TCCCTTCGAAAGAATAGGGTTGGAGTATCCCCATGAATGAAAATTTAAACAAAAATAAAA
*
75065 TTTAAATCTTGACAAGTTTAAAAATAGGGTTA-A
65 TTTAAATATTGACAAGTTTAAAAATAGGGTTAGA
75098 AGTATCCCTTCGAAAGAATAGGGTTGGAGTATCCCCATGAAT-AAAATTT
1 AGTATCCCTTCGAAAGAATAGGGTTGGAGTATCCCCATGAATGAAAATTT
75147 TTTATATTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
95 6 0.05
96 87 0.71
97 23 0.19
98 6 0.05
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (98 bp):
AGTATCCCTTCGAAAGAATAGGGTTGGAGTATCCCCATGAATGAAAATTTAAACAAAAATAAAAT
TTAAATATTGACAAGTTTAAAAATAGGGTTAGA
Found at i:77679 original size:20 final size:20
Alignment explanation
Indices: 77654--77691 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
77644 CAAGGTCCAG
77654 TATCGATACATTCACTTACA
1 TATCGATACATTCACTTACA
77674 TATCGATACATTCACTTA
1 TATCGATACATTCACTTA
77692 TGTATCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (20 bp):
TATCGATACATTCACTTACA
Found at i:77697 original size:20 final size:20
Alignment explanation
Indices: 77653--77697 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
77643 ACAAGGTCCA
77653 GTATCGATACATTCACTTAC
1 GTATCGATACATTCACTTAC
* *
77673 ATATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAC
77693 GTATC
1 GTATC
77698 TATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTCACTTAC
Found at i:78098 original size:21 final size:21
Alignment explanation
Indices: 78059--78103 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
78049 AAATAACATT
*
78059 TTTCATCACTAGACC-TTTTA
1 TTTCATCAATAGACCTTTTTA
*
78079 TTTCATCTAATAGTCCTTTTTA
1 TTTCATC-AATAGACCTTTTTA
78101 TTT
1 TTT
78104 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTCATCAATAGACCTTTTTA
Found at i:78540 original size:2 final size:2
Alignment explanation
Indices: 78533--78566 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
78523 AACCAAACGT
78533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78567 GATCTATCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80980 original size:46 final size:47
Alignment explanation
Indices: 80929--81058 Score: 116
Period size: 43 Copynumber: 2.9 Consensus size: 47
80919 TGTACATGTA
80929 TTATTTTTATTAAAATTAATTAATATTGTACATGTATTATTAC---T
1 TTATTTTTATTAAAATTAATTAATATTGTACATGTATTATTACAAAT
* * **
80973 TT-TTATTTA-T-AAATTATTTTAA-ATT-TATTTATAAATTA-TACAAAT
1 TTATT-TTTATTAAAATTA-ATTAATATTGTA--CATGTATTATTACAAAT
*
81018 TTATTTTTATTAAAATTAATTAATATTGTACATGTCTTATT
1 TTATTTTTATTAAAATTAATTAATATTGTACATGTATTATT
81059 TTTATAATTG
Statistics
Matches: 64, Mismatches: 9, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
41 2 0.03
42 12 0.19
43 13 0.20
44 6 0.09
45 7 0.11
46 12 0.19
47 10 0.16
48 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (47 bp):
TTATTTTTATTAAAATTAATTAATATTGTACATGTATTATTACAAAT
Found at i:80991 original size:11 final size:11
Alignment explanation
Indices: 80975--81011 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
80965 TTATTACTTT
80975 TTATTTATAAA
1 TTATTTATAAA
80986 TTATTT-TAAA
1 TTATTTATAAA
80996 TTTATTTATAAA
1 -TTATTTATAAA
81008 TTAT
1 TTAT
81012 ACAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:81019 original size:21 final size:22
Alignment explanation
Indices: 80974--81023 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
80964 ATTATTACTT
**
80974 TTTATTTATAAATTATTTTAAA
1 TTTATTTATAAATTATTACAAA
80996 TTTATTTATAAATTA-TACAAA
1 TTTATTTATAAATTATTACAAA
81017 TTTATTT
1 TTTATTT
81024 TTATTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTATAAATTATTACAAA
Found at i:81387 original size:297 final size:297
Alignment explanation
Indices: 80854--81511 Score: 1029
Period size: 297 Copynumber: 2.2 Consensus size: 297
80844 TACATGTATT
* *
80854 ATTTTTC-GATAACAACTTAAATACGAGCTTTCATTTATCTATAAAATGACCAAG-AAAATATTT
1 ATTTTTCAG-TAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAAT-TTT
* *
80917 ATTGTACATGTATTATTTTTATTAAAATTAATTAATATTGTACATGTATTATTACTTTTTATTTA
64 ATTGTACATGCATTATTTTTATTAAAATTAATTAATATTGTACATGTAGTATTACTTTTTATTTA
80982 TAAATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
129 TAAATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGT
*
81047 ACATGTCTTATTTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTT
194 ACATGTATTATTTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTT
** * * *
81112 TGATAGTGACTTATTTCGAATTTATAGACA-CACATATTTT
259 T-ATAACGACTTATTTCGAATTTA-AGAAAGCACAGATTTC
* *
81152 ATTTTTCAGTAATGACTTAAATATGAGCTTTCCTTTATCTAT-AAATGACCAAGAAAAATTTTAT
1 ATTTTTCAGTAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAATTTTAT
* *
81216 TGTGCTTGCATTATTTTTATTAAAATTAATTAATATTGTACATGTAGTATTACTTTTTATTTATA
66 TGTACATGCATTATTTTTATTAAAATTAATTAATATTGTACATGTAGTATTACTTTTTATTTATA
*
81281 AATTATTTTCAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGTAC
131 AATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGTAC
* *
81346 ATGTATTATTTTTATAATTTATAGAACTTAAATTTATGTTAGGCAACAATAAATTACTTTTTTTA
196 ATGTATTATTTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTTTA
* *
81411 TAACGACTTATTTTGAATTTACGAAAGCACAGATTTC
261 TAACGACTTATTTCGAATTTAAGAAAGCACAGATTTC
* * *
81448 ATTTTTCGGTAACGA-TATAAATACGAGCTTTCCTTTATTTGTAAAATGACCAAGAAAAAGTTTT
1 ATTTTTCAGTAACGACT-TAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAA-TTTT
81512 TCTCAACTTT
Statistics
Matches: 330, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
295 4 0.01
296 62 0.19
297 218 0.66
298 45 0.14
299 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (297 bp):
ATTTTTCAGTAACGACTTAAATACGAGCTTTCCTTTATCTATAAAATGACCAAGAAAAATTTTAT
TGTACATGCATTATTTTTATTAAAATTAATTAATATTGTACATGTAGTATTACTTTTTATTTATA
AATTATTTTAAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGTAC
ATGTATTATTTTTATAATTGATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTTTA
TAACGACTTATTTCGAATTTAAGAAAGCACAGATTTC
Found at i:83628 original size:13 final size:13
Alignment explanation
Indices: 83610--83637 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83600 ATTCATCATT
83610 TATCGATACAATG
1 TATCGATACAATG
83623 TATCGATACAATG
1 TATCGATACAATG
83636 TA
1 TA
83638 CCGTGTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:83647 original size:33 final size:33
Alignment explanation
Indices: 83585--83653 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
83575 CCGTTACAAG
* *
83585 CAATGTATCGATACAATTCATCATTTATCGATA
1 CAATGTATCGATACAATTCACCATGTATCGATA
*
83618 CAATGTATCGATACAATGT-ACCGTGTATCGATA
1 CAATGTATCGATACAAT-TCACCATGTATCGATA
83651 CAA
1 CAA
83654 ATAGTGGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGTATCGATA
Found at i:83730 original size:19 final size:19
Alignment explanation
Indices: 83682--83737 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
83672 CTGCCAGTTT
**
83682 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
83702 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
83721 CATGTATCGATACAATG
1 CATGTATCGATACAATG
83738 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:83740 original size:13 final size:13
Alignment explanation
Indices: 83722--83748 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83712 TACAATGAAC
83722 ATGTATCGATACA
1 ATGTATCGATACA
83735 ATGTATCGATACA
1 ATGTATCGATACA
83748 A
1 A
83749 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:83766 original size:33 final size:32
Alignment explanation
Indices: 83706--83767 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
83696 ATTGTCCATA
* *
83706 TATCGATACAATGAACATGTATCGATACAATG
1 TATCGATACAAAGAACATGTATAGATACAATG
83738 TATCGATACAAAGCATA-ATGTATAGATACA
1 TATCGATACAAAG-A-ACATGTATAGATACA
83768 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 12 0.46
33 13 0.50
34 1 0.04
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATAGATACAATG
Found at i:87303 original size:39 final size:39
Alignment explanation
Indices: 87249--87324 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
87239 TCTTTTTATG
87249 GGAAGTAAGTGAGACTCCTTAGGTGCGAATTGAAAATGA
1 GGAAGTAAGTGAGACTCCTTAGGTGCGAATTGAAAATGA
87288 GGAAGTAAGTGAGACTCCTTAGGTGCGAATTGAAAAT
1 GGAAGTAAGTGAGACTCCTTAGGTGCGAATTGAAAAT
87325 AGGCATAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.24
Consensus pattern (39 bp):
GGAAGTAAGTGAGACTCCTTAGGTGCGAATTGAAAATGA
Found at i:90294 original size:21 final size:20
Alignment explanation
Indices: 90255--90299 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
90245 CATGCAAGTT
**
90255 TTTATTTTCTTAGTTAATTC
1 TTTATTTTCTTAGCCAATTC
*
90275 TTTATTTTCATTAGCCAATTT
1 TTTATTTTC-TTAGCCAATTC
90296 TTTA
1 TTTA
90300 ATATCAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTATTTTCTTAGCCAATTC
Found at i:92546 original size:13 final size:13
Alignment explanation
Indices: 92505--92555 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
92495 GTCATTAGAA
92505 ACAATGTATCGAT
1 ACAATGTATCGAT
92518 ACAA--T-TC-AT
1 ACAATGTATCGAT
92527 -C-ATGTATCGAT
1 ACAATGTATCGAT
*
92538 ACAATGTATCAAT
1 ACAATGTATCGAT
92551 ACAAT
1 ACAAT
92556 TTACCATGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.13
11 3 0.10
12 1 0.03
13 18 0.58
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:92547 original size:33 final size:33
Alignment explanation
Indices: 92505--92574 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
92495 GTCATTAGAA
* *
92505 ACAATGTATCGATACAATTCATCATGTATCGAT
1 ACAATGTATCAATACAATTCACCATGTATCGAT
* *
92538 ACAATGTATCAATACAATTTACCATGTATTGAT
1 ACAATGTATCAATACAATTCACCATGTATCGAT
92571 ACAA
1 ACAA
92575 ACAGTGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (33 bp):
ACAATGTATCAATACAATTCACCATGTATCGAT
Found at i:92642 original size:13 final size:13
Alignment explanation
Indices: 92624--92650 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92614 ATAATTGTCC
92624 ATGTATCGATACA
1 ATGTATCGATACA
92637 ATGTATCGATACA
1 ATGTATCGATACA
92650 A
1 A
92651 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94136 original size:13 final size:13
Alignment explanation
Indices: 94117--94147 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
94107 ACAATTCATC
94117 ATGTATCGATACA
1 ATGTATCGATACA
*
94130 TTGTATCGATACA
1 ATGTATCGATACA
94143 ATGTA
1 ATGTA
94148 CTATGCATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94236 original size:19 final size:20
Alignment explanation
Indices: 94192--94244 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
94182 CAGCCAGTTT
* **
94192 CATGTATTGATACAATTGTC
1 CATGTATCGATACAATTGAA
94212 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
94231 CATGTATCGATACA
1 CATGTATCGATACA
94245 TTATATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:94257 original size:32 final size:33
Alignment explanation
Indices: 94216--94278 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
94206 ATTGTCCATG
*
94216 TATCGATACAATG-AACATGTATCGATACATTA
1 TATCGATACAAAGCAACATGTATCGATACATTA
**
94248 TATCGATACAAAGCATGATGTATCGATACAT
1 TATCGATACAAAGCAACATGTATCGATACAT
94279 CTAGGTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (33 bp):
TATCGATACAAAGCAACATGTATCGATACATTA
Found at i:96784 original size:13 final size:13
Alignment explanation
Indices: 96766--96792 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96756 ATAGTAACCC
96766 ATGTATCGATACA
1 ATGTATCGATACA
96779 ATGTATCGATACA
1 ATGTATCGATACA
96792 A
1 A
96793 GGAATATTGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:102984 original size:34 final size:33
Alignment explanation
Indices: 102940--103005 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
102930 TTAGAAGCAA
*
102940 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
102973 TGTATCCGATACAATGTACCATGTATCGATACA
1 TGTAT-CGATACAATGTACCATGTATCGATACA
103006 AATAGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 24 0.80
35 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:103060 original size:20 final size:20
Alignment explanation
Indices: 103035--103089 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
103025 TTGCCAGTTT
***
103035 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAA
*
103055 CATGTATCGATATAA-TAAA
1 CATGTATCGATACAATTAAA
103074 CATGTATCGATACAAT
1 CATGTATCGATACAAT
103090 GTATCGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:103093 original size:13 final size:13
Alignment explanation
Indices: 103075--103101 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103065 TATAATAAAC
103075 ATGTATCGATACA
1 ATGTATCGATACA
103088 ATGTATCGATACA
1 ATGTATCGATACA
103101 A
1 A
103102 AGCATGATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:103138 original size:20 final size:20
Alignment explanation
Indices: 103115--103162 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
103105 ATGATATATT
103115 GATACATTTGAGTGTGTATC
1 GATACATTTGAGTGTGTATC
* * *
103135 GATACATCTGGGTGTGTATT
1 GATACATTTGAGTGTGTATC
103155 GATACATT
1 GATACATT
103163 CAAGGGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (20 bp):
GATACATTTGAGTGTGTATC
Found at i:104796 original size:92 final size:92
Alignment explanation
Indices: 104657--104863 Score: 229
Period size: 92 Copynumber: 2.2 Consensus size: 92
104647 TCAAAATATC
* * * * *
104657 TGCATTTGTCTCATCTTT-CAACTGTGATATTTACAATCAATCAACTTTTCAGTTATTCCATCAA
1 TGCATTAGTCTAATCTTTGC-AGTGTGATACTTACAATCAATCAACTTTTCAGTTATTCCACCAA
*
104721 AAGGAATCTGATTCTCAAATATAAATT-A
65 AAGGAATCTGACTCTCAAATAT-AATTCA
* * ** * *
104749 TGCATTAGTCTAATCTTTGCAGTGTGATACTTATAGTCAATCAACTTTTCTTTTTTTCTACCAAA
1 TGCATTAGTCTAATCTTTGCAGTGTGATACTTACAATCAATCAACTTTTCAGTTATTCCACCAAA
* **
104814 AGGAATCTGACTCTTATCTATAATTCA
66 AGGAATCTGACTCTCAAATATAATTCA
* *
104841 TACATTAGTCTAATCCTTGCAGT
1 TGCATTAGTCTAATCTTTGCAGT
104864 CTTTCTTTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
91 4 0.04
92 91 0.95
93 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (92 bp):
TGCATTAGTCTAATCTTTGCAGTGTGATACTTACAATCAATCAACTTTTCAGTTATTCCACCAAA
AGGAATCTGACTCTCAAATATAATTCA
Found at i:105005 original size:95 final size:88
Alignment explanation
Indices: 104869--105260 Score: 361
Period size: 95 Copynumber: 4.4 Consensus size: 88
104859 GCAGTCTTTC
* * * * * *
104869 TTTTTTTCTATAAAAAAGAATTTGGTTATCATATATAATTCATACATTAATCTAATCATTGCAGT
1 TTTTTTTCTATAAAAAA-AATCTGATTCTCAGATATAATTCATGCATTAATCTAATCCTTGCAGT
* * *
104934 TTGACATTTATAATCAATCAATCTTTCTTT
65 CTGATATTTACAATCAATCAA-----C-TT
* * * * * *
104964 TTTTTTTCTGTAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTTTAATCCTTACAAT
1 TTTTTTTCTATAAAAAA-AATCTGATTCTCAGATATAATTCATGCATTAATCTAATCCTTGCAGT
* *
105029 CTAATATTTACAATCAGTCAA-TT
65 CTGATATTTACAATCAATCAACTT
*
105052 TTTTTTTCTAT-AAAAAAA----ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
1 TTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAATCTAATCCTTGCAGTC
*
105112 TGAAATTTACAATCAAATCAAC-T
66 TGATATTTACAATC-AATCAACTT
* * * * * *
105135 TTTTTTTCCATAAAAAAAATCTGATTCTTAGGTATAATTCATGCATTAATCTAATCTTTGTAGTT
1 TTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAATCTAATCCTTGCAGTC
* *
105200 TGATATTTACAATCAATTAGCTT
66 TGATATTTACAATCAATCAACTT
* * *
105223 TTCTTTTTCTAT--AAAAAGTTTGATTCTCAAATATAATT
1 TT-TTTTTCTATAAAAAAAATCTGATTCTCAGATATAATT
105261 ACATTTATTT
Statistics
Matches: 248, Mismatches: 40, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
82 50 0.20
83 16 0.06
84 7 0.03
86 2 0.01
87 31 0.12
88 64 0.26
89 8 0.03
95 70 0.28
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (88 bp):
TTTTTTTCTATAAAAAAAATCTGATTCTCAGATATAATTCATGCATTAATCTAATCCTTGCAGTC
TGATATTTACAATCAATCAACTT
Found at i:105066 original size:88 final size:86
Alignment explanation
Indices: 104962--105260 Score: 313
Period size: 88 Copynumber: 3.5 Consensus size: 86
104952 CAATCTTTCT
* * *
104962 TTTTTTTTTCTGTAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTTTAATCCTTACA
1 TTTTTTTTTCTAT-AAAAA-AATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCA
* *
105027 ATCTAATATTTACAATCAGTCAA
64 GTCTAATATTTACAATCAATCAA
*
105050 TTTTTTTTTCTATAAAAAAA----ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
1 TTTTTTTTTCTATAAAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGT
105111 CTGAA-ATTTACAATCAAATCAA
66 CT-AATATTTACAATC-AATCAA
* * * ** * * *
105133 CTTTTTTTTCCATAAAAAAAATCTGATTCTTAGGTATAATTCATGCATTAATCTAATCTTTGTAG
1 TTTTTTTTTCTAT-AAAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAG
* * * *
105198 TTTGATATTTACAATCAATTAGC
65 TCTAATATTTACAATCAATCA-A
* *
105221 TTTTCTTTTTCTAT-AAAAAGTTTGATTCTCAAATATAATT
1 TTTT-TTTTTCTATAAAAAAATCTGATTCTCAAATATAATT
105261 ACATTTATTT
Statistics
Matches: 177, Mismatches: 24, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
82 49 0.28
83 18 0.10
84 7 0.04
86 2 0.01
87 31 0.18
88 62 0.35
89 8 0.05
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (86 bp):
TTTTTTTTTCTATAAAAAAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGT
CTAATATTTACAATCAATCAA
Found at i:105094 original size:82 final size:83
Alignment explanation
Indices: 104988--105154 Score: 248
Period size: 82 Copynumber: 2.0 Consensus size: 83
104978 AAAGAATCTG
* * *
104988 ATTCTCAAATATAATTCATGCATTAGTTTAATCCTTACAATCT-AATATTTACAATC-AGTCAAT
1 ATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAATCTGAA-ATTTACAATCAAATCAAC
*
105051 TTTTTTTTCTATAAAAAAA
65 TTTTTTTTCCATAAAAAAA
* * *
105070 ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGAAATTTACAATCAAATCAACT
1 ATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAATCTGAAATTTACAATCAAATCAACT
105135 TTTTTTTCCATAAAAAAA
66 TTTTTTTCCATAAAAAAA
105153 AT
1 AT
105155 CTGATTCTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
82 49 0.64
83 27 0.36
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (83 bp):
ATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAATCTGAAATTTACAATCAAATCAACT
TTTTTTTCCATAAAAAAA
Found at i:105208 original size:170 final size:174
Alignment explanation
Indices: 104901--105239 Score: 391
Period size: 170 Copynumber: 1.9 Consensus size: 174
104891 TGGTTATCAT
* * *
104901 ATATAATTCATACATTAATCTAATCATTGCAGTTTGACATTTATAATCAATCAATCTTTCTTTTT
1 ATATAATTCATACATTAATCTAATCATTGCAGTCTGAAATTTACAATCAATCAA----TC-TTTT
** * *
104966 TTTTTCTGTAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTTTAATCCTTACAATCT
61 TTTTTCCATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAATCT
*
105031 AATATTTACAATCAGTCA-ATTTT-TTTTTCTATAAAAAAAATTCTCAG
126 AATATTTACAATCAATCAGATTTTCTTTTTCTATAAAAAAAATTCTCAG
* * *
105078 ATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGAAATTTACAATCAAATCAA-C-TTTTTTT
1 ATATAATTCATACATTAATCTAATCATTGCAGTCTGAAATTTACAATC-AATCAATCTTTTTTTT
* ** * ** * * *
105141 TCCATAAAAAA-AATCTGATTCTTAGGTATAATTCATGCATTAATCTAATCTTTGTAGTTTGATA
65 TCCATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAATCTAATA
* *
105205 TTTACAATCAATTAGCTTTTCTTTTTCTATAAAAA
130 TTTACAATCAATCAGATTTTCTTTTTCTATAAAAA
105240 GTTTGATTCT
Statistics
Matches: 137, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
170 54 0.39
171 20 0.15
172 14 0.10
173 1 0.01
177 42 0.31
178 6 0.04
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (174 bp):
ATATAATTCATACATTAATCTAATCATTGCAGTCTGAAATTTACAATCAATCAATCTTTTTTTTT
CCATAAAAAAGAATCTGATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAATCTAATAT
TTACAATCAATCAGATTTTCTTTTTCTATAAAAAAAATTCTCAG
Found at i:106784 original size:11 final size:11
Alignment explanation
Indices: 106770--106800 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
106760 ATTAAAAATG
106770 ATAAAAGAAAA
1 ATAAAAGAAAA
106781 ATAAAAGAAAA
1 ATAAAAGAAAA
106792 ATAAAAGAA
1 ATAAAAGAA
106801 TGAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
ATAAAAGAAAA
Found at i:107522 original size:18 final size:18
Alignment explanation
Indices: 107499--107548 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
107489 ATCTACCTTG
* *
107499 TTTTAAAAGCTCTTTATT
1 TTTTAAAAGCTATTTAAT
*
107517 TTTTAAAAACTATTTAAT
1 TTTTAAAAGCTATTTAAT
* *
107535 TTTAAAAAGTTATT
1 TTTTAAAAGCTATT
107549 CACTCATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTTAAAAGCTATTTAAT
Found at i:107709 original size:11 final size:11
Alignment explanation
Indices: 107693--107732 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
107683 AGGTATGTAA
107693 AAAATAGATAT
1 AAAATAGATAT
* *
107704 AAAATATATAA
1 AAAATAGATAT
107715 ATAAATAGATAT
1 A-AAATAGATAT
107727 AAAATA
1 AAAATA
107733 ATTTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
AAAATAGATAT
Found at i:107720 original size:23 final size:22
Alignment explanation
Indices: 107690--107732 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
107680 TTTAGGTATG
107690 TAAAAAATAGATATAAAATATA
1 TAAAAAATAGATATAAAATATA
107712 TAAATAAATAGATATAAAATA
1 TAAA-AAATAGATATAAAATA
107733 ATTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
TAAAAAATAGATATAAAATATA
Found at i:107768 original size:22 final size:21
Alignment explanation
Indices: 107725--107769 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
107715 ATAAATAGAT
* * *
107725 ATAAAATAATTTTTTTTTTAA
1 ATAAAATAATTATTATTATAA
107746 ATAAAATAAATTATTATTATAA
1 ATAAAAT-AATTATTATTATAA
107768 AT
1 AT
107770 TTATTCATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATAATTATTATTATAA
Found at i:108451 original size:2 final size:2
Alignment explanation
Indices: 108444--108493 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
108434 AAGAAGAATA
108444 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
108486 AG AG AG AG
1 AG AG AG AG
108494 CTTTTTCGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:113296 original size:24 final size:24
Alignment explanation
Indices: 113264--113311 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
113254 ATGCCAACCC
113264 TTAATTGGGTATTTATACTAGATA
1 TTAATTGGGTATTTATACTAGATA
113288 TTAATTGGGTATTTATACTAGATA
1 TTAATTGGGTATTTATACTAGATA
113312 CTAAATTGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (24 bp):
TTAATTGGGTATTTATACTAGATA
Found at i:113474 original size:41 final size:41
Alignment explanation
Indices: 113374--113487 Score: 126
Period size: 41 Copynumber: 2.8 Consensus size: 41
113364 GTGCATAGTT
113374 ATTATCCTAAAGTGATAATTAGATATCTTAAAAGAATAAGA
1 ATTATCCTAAAGTGATAATTAGATATCTTAAAAGAATAAGA
** * * *
113415 ATTATGGTAAAGTGATAATTATATTTTTTAAAAAGAATAAGA
1 ATTATCCTAAAGTGATAATTAGATATCTT-AAAAGAATAAGA
* *
113457 TTTATCCT-AAGTAATAA-TAGA-ATTCTTAAAA
1 ATTATCCTAAAGTGATAATTAGATA-TCTTAAAA
113488 CATAAAACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
39 4 0.07
40 6 0.10
41 32 0.54
42 17 0.29
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (41 bp):
ATTATCCTAAAGTGATAATTAGATATCTTAAAAGAATAAGA
Found at i:115358 original size:92 final size:92
Alignment explanation
Indices: 115190--115375 Score: 273
Period size: 92 Copynumber: 2.0 Consensus size: 92
115180 CTGGTAAGGC
* * *
115190 CAAAACAGGTGCTTCGGTCAAGAGCATCTTGATTCTCTCAAAAGCTTTTTAAGTTGAGTTCATCC
1 CAAAACAGGTGCTTCGATCAAGAGCATCTTGATTCTCTCAAAAGCCTTTTAAGTTAAGTTCATCC
* *
115255 AGTCAATGCTATATATCTTCAAAATTT
66 ACTCAAAGCTATATATCTTCAAAATTT
* * * *
115282 CAAAACAGTTGCTTCGATCAAGAGCATTTTGATTCTCTCAAAAGCCTTTTGAGTTAAGTTCGTCC
1 CAAAACAGGTGCTTCGATCAAGAGCATCTTGATTCTCTCAAAAGCCTTTTAAGTTAAGTTCATCC
* *
115347 ACTTAAAGCTATCTATCTTCAAAATTT
66 ACTCAAAGCTATATATCTTCAAAATTT
115374 CA
1 CA
115376 GTGATAGGAC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (92 bp):
CAAAACAGGTGCTTCGATCAAGAGCATCTTGATTCTCTCAAAAGCCTTTTAAGTTAAGTTCATCC
ACTCAAAGCTATATATCTTCAAAATTT
Found at i:117378 original size:14 final size:14
Alignment explanation
Indices: 117359--117385 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
117349 ACTAAATAAA
117359 AAAAAGAAAAAAAC
1 AAAAAGAAAAAAAC
117373 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
117386 TAGATATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.04, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAC
Found at i:117930 original size:2 final size:2
Alignment explanation
Indices: 117880--117910 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117870 GTGTGTGTGT
117880 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
117911 GGGGCGGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:123205 original size:52 final size:51
Alignment explanation
Indices: 123127--123224 Score: 178
Period size: 52 Copynumber: 1.9 Consensus size: 51
123117 CCATGTTTGT
*
123127 TTGAATGTAATGGACCAGAAAACTTTGAGATATTATCATATAATAATCCTCA
1 TTGAATGTAATGGACCAGAAAACTTTGACATATTATCATAT-ATAATCCTCA
123179 TTGAATGTAATGGACCAGAAAACTTTGACATATTATCATATATAAT
1 TTGAATGTAATGGACCAGAAAACTTTGACATATTATCATATATAAT
123225 GATACTTATG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 5 0.11
52 40 0.89
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (51 bp):
TTGAATGTAATGGACCAGAAAACTTTGACATATTATCATATATAATCCTCA
Found at i:126170 original size:2 final size:2
Alignment explanation
Indices: 126163--126196 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
126153 CTTAAGGAAT
126163 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
126197 AATGCTCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:132052 original size:21 final size:21
Alignment explanation
Indices: 132015--132099 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
132005 TGTTGTTTGT
*
132015 GGTTCTGTTTGAGGTGCTGTA
1 GGTTTTGTTTGAGGTGCTGTA
*
132036 GGTGTTT-TTTGTA-GTGCTGAA
1 GGT-TTTGTTTG-AGGTGCTGTA
132057 GGTTTTGTTTGAGGTGCTGTA
1 GGTTTTGTTTGAGGTGCTGTA
* * * *
132078 GGCTCTGTTTGGGGTACTGTA
1 GGTTTTGTTTGAGGTGCTGTA
132099 G
1 G
132100 TTACTGGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 4 0.08
21 46 0.87
22 3 0.06
ACGTcount: A:0.11, C:0.08, G:0.38, T:0.44
Consensus pattern (21 bp):
GGTTTTGTTTGAGGTGCTGTA
Found at i:137047 original size:48 final size:48
Alignment explanation
Indices: 136976--137075 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
136966 TTAGACTTAG
*
136976 ATGAGCTCAGTTGTTATCCCGTCTATCAAATTGAGGTGGAAGCTGGAA
1 ATGAGCTCAGTTGTTATCCCGTCTATCAAATTCAGGTGGAAGCTGGAA
*
137024 ATGAGCTCAGTTGTTATCCCGTCTATCAAATTCAGGTGGAAGCTTGAA
1 ATGAGCTCAGTTGTTATCCCGTCTATCAAATTCAGGTGGAAGCTGGAA
137072 ATGA
1 ATGA
137076 TACTCAAGCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (48 bp):
ATGAGCTCAGTTGTTATCCCGTCTATCAAATTCAGGTGGAAGCTGGAA
Found at i:137201 original size:20 final size:20
Alignment explanation
Indices: 137176--137215 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
137166 AACCACTCTC
137176 TTACTTCTTGTGAGTTATAT
1 TTACTTCTTGTGAGTTATAT
137196 TTACTTCTTGTGAGTTATAT
1 TTACTTCTTGTGAGTTATAT
137216 ATAGGGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (20 bp):
TTACTTCTTGTGAGTTATAT
Found at i:141569 original size:78 final size:79
Alignment explanation
Indices: 141344--141583 Score: 290
Period size: 79 Copynumber: 3.1 Consensus size: 79
141334 TCATTGATGT
* * * * * *
141344 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCTAATCTCGTTATTTTCGAGGGAA
1 TTTTATTTCTTAAATATCGATTTTTCACCATCGGGGATACTCCAACCTCATTATTTTTGAGGGAA
* *
141409 TACTCCAACCTCGG
66 TACTCCAACCCCGA
* * * *
141423 TTTTATTT-TTAAAATATCGATTTTTCACCATTGGGGATACTCCAACCTCATTATTTCTAAGGGG
1 TTTTATTTCTT-AAATATCGATTTTTCACCATCGGGGATACTCCAACCTCATTATTTTTGAGGGA
141487 ATACTCCAACCCCGA
65 ATACTCCAACCCCGA
* * *
141502 TTTTATTTCTTAAATACCGA-TTTTCACCATCAGAGATACTCCAACC-CTATTATTTTTGAGGGA
1 TTTTATTTCTTAAATATCGATTTTTCACCATCGGGGATACTCCAACCTC-ATTATTTTTGAGGGA
*
141565 ATACTCTAACCCC-A
65 ATACTCCAACCCCGA
141579 TTTTA
1 TTTTA
141584 ATCTCTAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
77 7 0.05
78 48 0.35
79 81 0.59
80 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (79 bp):
TTTTATTTCTTAAATATCGATTTTTCACCATCGGGGATACTCCAACCTCATTATTTTTGAGGGAA
TACTCCAACCCCGA
Found at i:147592 original size:27 final size:27
Alignment explanation
Indices: 147554--147610 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
147544 AAAAAAGAGT
*
147554 AGGGTTTGCTAAATAGAGGCATAATCA
1 AGGGTTTGCTAAATAGAGACATAATCA
*
147581 AGGGTTTGCTAAATAGAGACGTAATCA
1 AGGGTTTGCTAAATAGAGACATAATCA
147608 AGG
1 AGG
147611 TTGAACAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (27 bp):
AGGGTTTGCTAAATAGAGACATAATCA
Found at i:148759 original size:28 final size:28
Alignment explanation
Indices: 148727--148793 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
148717 GAATATTCCC
*
148727 TTGGAGTATGCCCTCGAAAATAACGGGG
1 TTGGAGTATCCCCTCGAAAATAACGGGG
*
148755 TTGGAGTATCCCCTCGAAAATAAGGGGG
1 TTGGAGTATCCCCTCGAAAATAACGGGG
148783 TTGGAGTATCC
1 TTGGAGTATCC
148794 TCAATTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCTCGAAAATAACGGGG
Found at i:149076 original size:78 final size:78
Alignment explanation
Indices: 148751--149079 Score: 310
Period size: 79 Copynumber: 4.2 Consensus size: 78
148741 CGAAAATAAC
* * * * * *
148751 GGGGTTGGAGTATCCCCTCGAAAATAAGGGGGTTGGAGTATCCTCAATTGT-AAAAATCGATGTT
1 GGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGAAGTATCCCCGATAGTGAAAAATCGATGTT
148815 TTAGAAATAAAAT
66 TTAGAAATAAAAT
** *
148828 CGGGGTTGGAGTATCTCC-TCGAAAATAACGGGGTT-AGAGTATCCCTTATAATGAAAAATCGAT
1 -GGGGTTGGAGTATC-CCTTCGAAAATAACGGGGTTGA-AGTATCCCCGATAGTGAAAAATCGAT
148891 GTTTTAGAAATAAAAT
63 GTTTTAGAAATAAAAT
* * * * ** * * * *
148907 CGAGGTTAGAGTATCCCTTCGAAATTAACGGGGTTGGAGTATTTCGGATGGTGAAAAATTGGTGT
1 -GGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGAAGTATCCCCGATAGTGAAAAATCGATGT
148972 TTT-GAAAATAAAACT
65 TTTAG-AAATAAAA-T
* * * * * *
148987 GGGGTTAGAGTATCCCTTCAAAAATAATGGGGTTGAAGCATCCCCGATAGT-TAAAATC-AGTTT
1 GGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGAAGTATCCCCGATAGTGAAAAATCGA-TGT
149050 TTTAGAAATAAAACT
65 TTTAGAAATAAAA-T
*
149065 AGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
149080 TCGAGAGGAA
Statistics
Matches: 207, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
78 76 0.37
79 130 0.63
80 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGAAGTATCCCCGATAGTGAAAAATCGATGTT
TTAGAAATAAAAT
Found at i:149076 original size:157 final size:156
Alignment explanation
Indices: 148752--149079 Score: 355
Period size: 157 Copynumber: 2.1 Consensus size: 156
148742 GAAAATAACG
* *
148752 GGGTTGGAGTATCCCCTCGAAAATAAGGGGGTTGGAGTATCCTCAATTGTAAAAATCGATGTTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCAATGGTAAAAATCGATGTTTT
* * * **
148817 AGAAATAAAATCGGGGTTGGAGTATCTCCTCGAAAATAACGGGGTTAGAGTATCCCTTATAATGA
66 AGAAATAAAATCGGGGTTAGAGTATCTCCTCAAAAATAACGGGGTTAGAGCATCCCCGATAATGA
*
148882 AAAATCGATGTTTTAGAAATAAAATC
131 AAAATCGATGTTTTAGAAATAAAATA
* * * * * * *
148908 GAGGTTAGAGTATCCCTTCGAAATTAACGGGGTTGGAGTAT-TTCGGATGGTGAAAAATTGGTGT
1 G-GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC-AATGGT-AAAAATCGATGT
*
148972 TTT-GAAAATAAAA-CTGGGGTTAGAGTATC-CCTTCAAAAATAATGGGGTT-GAAGCATCCCCG
63 TTTAG-AAATAAAATC-GGGGTTAGAGTATCTCC-TCAAAAATAACGGGGTTAG-AGCATCCCCG
* * *
149033 ATAGT-TAAAATC-AGTTTTTTAGAAATAAAACTA
124 ATAATGAAAAATCGA-TGTTTTAGAAATAAAA-TA
149066 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
149080 TCGAGAGGAA
Statistics
Matches: 143, Mismatches: 20, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
156 4 0.03
157 77 0.54
158 62 0.43
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (156 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCAATGGTAAAAATCGATGTTTT
AGAAATAAAATCGGGGTTAGAGTATCTCCTCAAAAATAACGGGGTTAGAGCATCCCCGATAATGA
AAAATCGATGTTTTAGAAATAAAATA
Found at i:150677 original size:50 final size:50
Alignment explanation
Indices: 150602--150736 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 50
150592 AAAAATGCCT
* *
150602 GAATGTATCGATAC-ATTAAGAAATGTATCAATGCATCT-AGGTAAAACCCAA
1 GAATGTATCGATACAATGAAG-AATGTATCAATACATCTGA-GTAAAA-CCAA
*
150653 -AATGTATCGATACAATGAAGAATGTATCGATACATCTGAGTAAAACCAA
1 GAATGTATCGATACAATGAAGAATGTATCAATACATCTGAGTAAAACCAA
* *
150702 GAATGTATCCATACAATGAAGAATGTATCGATACA
1 GAATGTATCGATACAATGAAGAATGTATCAATACA
150737 AATTGTGAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
49 4 0.05
50 67 0.87
51 6 0.08
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAGAATGTATCAATACATCTGAGTAAAACCAA
Found at i:150725 original size:20 final size:20
Alignment explanation
Indices: 150700--150737 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
150690 GAGTAAAACC
150700 AAGAATGTATCCATACAATG
1 AAGAATGTATCCATACAATG
*
150720 AAGAATGTATCGATACAA
1 AAGAATGTATCCATACAA
150738 ATTGTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (20 bp):
AAGAATGTATCCATACAATG
Found at i:151429 original size:72 final size:73
Alignment explanation
Indices: 151304--151445 Score: 184
Period size: 72 Copynumber: 2.0 Consensus size: 73
151294 GAAAGAAAAG
* * * * *
151304 GAAATGGTGTCCTGCTCTTTGTGGACAAAGGAAAAGAAGTACGCATTGTTCTTCGAGGACAAA-G
1 GAAATGGTGTCCTGCTCCTTGAGGACAAAGAAAAAGAAGTACGCATTGCTCTTCAAGGACAAAGG
151368 GAAAATAT
66 GAAAATAT
151376 GAAATGG-GTCCTGCTCCTTGAGGACAAAGCAAAAATG-AGTACGTC-TTGCTCTTCAAGGACAA
1 GAAATGGTGTCCTGCTCCTTGAGGACAAAG-AAAAA-GAAGTACG-CATTGCTCTTCAAGGACAA
151438 AGGGAAAA
63 AGGGAAAA
151446 AGGAATTGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
71 20 0.33
72 33 0.54
73 8 0.13
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (73 bp):
GAAATGGTGTCCTGCTCCTTGAGGACAAAGAAAAAGAAGTACGCATTGCTCTTCAAGGACAAAGG
GAAAATAT
Found at i:151504 original size:43 final size:42
Alignment explanation
Indices: 151431--151535 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 42
151421 TTGCTCTTCA
* * *
151431 AGGACAAAGGGAAAAAGGAATTGAAGTGCGTCCTACTTTTTG
1 AGGACAAAGGAAAAAAGGAATTGAAGTGCGTCCCACTCTTTG
151473 AGGACAAAGGAAAAGAATGGAA-TGAAGTGCGTCCCACTCTTTG
1 AGGACAAAGGAAAA-AA-GGAATTGAAGTGCGTCCCACTCTTTG
* *
151516 AGGATAAAGGAGAAAAGGAA
1 AGGACAAAGGAAAAAAGGAA
151536 ATGAGTTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.07
42 15 0.27
43 33 0.59
44 4 0.07
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.18
Consensus pattern (42 bp):
AGGACAAAGGAAAAAAGGAATTGAAGTGCGTCCCACTCTTTG
Found at i:151623 original size:43 final size:43
Alignment explanation
Indices: 151579--151731 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 43
151569 GAGTATGTCT
* * * *
151579 TGCTCTTTGATGATAAAGGAAAAAAAGAAAATAAAGTGCGTCT
1 TGCTCTTTGAGGACAAAGGAAAAAAAGGAAATAAAGTGCGTCA
** *
151622 TGCTCTTTGAGGACAAAGG-CGAAAAGGAAATAAAGTGCATCA
1 TGCTCTTTGAGGACAAAGGAAAAAAAGGAAATAAAGTGCGTCA
* *
151664 TGCTTTTTGAGGACAAAGGGAAAAAAAGGAAATGAAA-TGTGTCA
1 TGCTCTTTGAGGACAAA-GGAAAAAAAGGAAAT-AAAGTGCGTCA
* * *
151708 TGCTCCTTGATGATAAAGGAAAAA
1 TGCTCTTTGAGGACAAAGGAAAAA
151732 GGAAATTAGG
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 34 0.37
43 26 0.29
44 28 0.31
45 3 0.03
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.23
Consensus pattern (43 bp):
TGCTCTTTGAGGACAAAGGAAAAAAAGGAAATAAAGTGCGTCA
Found at i:151857 original size:62 final size:61
Alignment explanation
Indices: 151748--152948 Score: 1274
Period size: 62 Copynumber: 19.4 Consensus size: 61
151738 TAGGAAAGTG
*
151748 TCCTGCT-TCTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTAAAAAGAAAAAGGCA
1 TCCTGCTCT-TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
** * * *
151810 TCCCACTCTTTAAGGACTAAAAAGTGCAACCAACTCGTGTGGGCTTTAAAAGAAAAAAGGAAAGC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG-AAAAA-G---GC
151875 A
61 A
* * * * * * **
151876 TCTTGCTCTTTGAGGACTAAAATGTGCCACCAATTCCTGTGAGCTTTAAAAG-GAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * *
151936 TCATGTTCTTTGAGGACTAGAATGTGCCACCAACTCGTGTGGGCTTT--TA-AAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * *
151994 TCTTGCTCTTTGAGGACTAAAAAAGTGCCACTAGCTTC-TGTGGGCTTTGAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAAC-TCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * * *
152056 TCATGCTCTTGGAGGACTAAAAATGTGCCACCAGCTTGTGT-TGCTTTAAAAGAAAAAGACA
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * *
152117 TCTTGCTCTTTGAGGACTAAAAGGTACCACCAAATCGTGTGAGCTTTGAAAGAAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG-AAAAAGGCA
* * * **
152179 TCCTGCTTTTTGAGGACTAAAGAGGTGCCACTAGCTTATGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * *
152241 TCCTGCTCTTTAAGGACTAAAAAGGTGCCACTAGCTTGTGTGGGCTTTGAAAA-AAAATAAGCG
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAA-AGGCA
* * *
152304 TCCTGTTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCGC-
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAG-GCA
*
152366 -CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * *
152426 TCTTGCTCTTTGAGGAATAAAAGGTGCTACCAACTCGTGGGGGCTTTAAATAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAA-AGAAAAAGGCA
* * *
152488 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCCTGTGGGCTTTGAACAGAAAAAAGGTA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG-AAAAAGGCA
* * * * * * *
152551 TCTTGCTCTTTAAAGACTAAAGGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAATGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * * * *
152613 TCTTACTCTTTCAAAGACTAAAAGGTGCCTCCAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGC-
1 TCCTGCTCTTT-GAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG-AAAAAG-GCA
* ** * * *
152677 -CCTGCTCTTTGAGGACTAAAGGGTGCTGCCAACTCGTGTGGCCTTTGAAAAGAAAAAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * *
152738 TCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * *
152800 TCCTGCTCTTTGAGGACTAAAAGGTGCCGCCAACTCGTGTGGGCTTTGAAAAGAAAAAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* *
152862 TCATGCTCTTTGAGGATTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
*
152924 TCCTGCCCTTTGAGGACTAAAAGGT
1 TCCTGCTCTTTGAGGACTAAAAGGT
152949 TAAAATGGGT
Statistics
Matches: 973, Mismatches: 135, Indels: 62
0.83 0.12 0.05
Matches are distributed among these distances:
58 22 0.02
59 24 0.02
60 73 0.08
61 140 0.14
62 498 0.51
63 160 0.16
64 8 0.01
65 2 0.00
66 46 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
Found at i:152275 original size:247 final size:246
Alignment explanation
Indices: 151748--152948 Score: 1295
Period size: 247 Copynumber: 4.9 Consensus size: 246
151738 TAGGAAAGTG
* *
151748 TCCTGCT-TCTTGAGGACTAAAAGGTGCCACCAAC-TCGTGTGGACTTTAAAAAGAAAAAGGCAT
1 TCCTGCTCT-TTGAGGACTAAAAGGTGCCACCAACTTC-TGTGGGCTTT-GAAAGAAAAAGGCAT
** * * *
151811 CCCACTCTTTAAGGACTAAAAAGTGCAACCAACTCGTGTGGGCTTT-AAAAGAAAAAAGGAAAGC
63 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAAAA-G--A-C
* * * * * ** **
151875 ATCTTGCTCTTTGAGGACTAAAATGTGCCACCAATTCCTGTGAGCTTT-AAA-AGGAAAGGTGTC
123 GTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAAGGCATC
* * * * *
151938 ATGTTCTTTGAGGACTAGAATGTGCCACCAACTCGTGTGGGCTTT--TA-AAAAAGGCA
188 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * *
151994 TCTTGCTCTTTGAGGACTAAAAAAGTGCCACTAGCTTCTGTGGGCTTTGAAAGAAAAAGGCGTCA
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAGAAAAAGGCATCC
* * * * * *
152059 TGCTCTTGGAGGACTAAAAATGTGCCACCAGCTTGTGT-TGCTTT-AAAAGAAAAAGACATCTTG
65 TGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCTTG
* * * * *
152122 CTCTTTGAGGACTAAAAGGTACCACCAAATCGTGTGAGCTTTGAAAGAAAAAAGGCGTCCTGCTT
129 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAAGGCATCCTGCTC
* * **
152187 TTTGAGGACTAAAGAGGTGCCACTAGCTTATGTGGGCTTTAAAAGAAAAAGGCA
194 TTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
* * * * * * *
152241 TCCTGCTCTTTAAGGACTAAAAAGGTGCCACTAGCTTGTGTGGGCTTTGAAAAAAAATAAGCGTC
1 TCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAGAAAA-AGGCATC
* * * * *
152306 CTGTTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAG-CGCCCTG
64 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCTTG
* * *
152370 CTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAG-AAAAAGGCATCTTGCTC
129 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAAGGCATCCTGCTC
* * *
152434 TTTGAGGAATAAAAGGTGCTACCAACTCGTGGGGGCTTTAAATAGAAAAAGGCA
194 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAA-AGAAAAAGGCA
* *
152488 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCCTGTGGGCTTTGAACAGAAAAAAGGTATC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTCTGTGGGCTTTGAA-AG-AAAAAGGCATC
* * * * *
152553 TTGCTCTTTAAAGACTAAAGGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAATG-CGTCTT
64 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAA-GACGTCTT
* * * *
152617 ACTCTTTCAAAGACTAAAAGGTGCCTCCAACTCGTGTGGGCTTTGAAAAGAAAAAAGTGC--CCT
128 GCTCTTT-GAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG-AAAGAAAAAAG-GCATCCT
* ** * * *
152680 GCTCTTTGAGGACTAAAGGGTGCTGCCAACTCGTGTGGCCTTTGAAAAGAAAAAAGCG
190 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCA
* * *
152738 TCATGCTCTTTGAGGACTAAAGGGTGCCACCAAC-TCGTGTGGGCTTTGAAAAGAAAAAAGCATC
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTC-TGTGGGCTTTG-AAAGAAAAAGGCATC
* *
152802 CTGCTCTTTGAGGACTAAAAGGTGCCGCCAACTCGTGTGGGCTTTGAAAAGAAAAA-AGCGTCAT
64 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGA-CGTCTT
*
152866 GCTCTTTGAGGATTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAA-AGAAAAAGGCATCCTGC
128 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGA-AAAAAGGCATCCTGC
*
152930 CCTTTGAGGACTAAAAGGT
192 TCTTTGAGGACTAAAAGGT
152949 TAAAATGGGT
Statistics
Matches: 809, Mismatches: 117, Indels: 56
0.82 0.12 0.06
Matches are distributed among these distances:
241 45 0.06
242 4 0.00
243 24 0.03
244 22 0.03
245 5 0.01
246 105 0.13
247 238 0.29
248 142 0.18
249 113 0.14
250 98 0.12
251 11 0.01
252 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (246 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAGAAAAAGGCATCCT
GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGACGTCTTGCT
CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGAAAAAAGGCATCCTGCTCTT
TGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCA
Found at i:154185 original size:18 final size:18
Alignment explanation
Indices: 154163--154209 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
154153 TTTTATTCAT
154163 TTTTTTGTTTTTTCTCTT-A
1 TTTTTTGTTTTTT-T-TTAA
154182 TTTTTTGATTTTTTTTTAA
1 TTTTTTG-TTTTTTTTTAA
154201 -TTTTTGTTT
1 TTTTTTGTTT
154210 CTCTTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 8 0.31
19 9 0.35
20 6 0.23
ACGTcount: A:0.09, C:0.04, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTTTGTTTTTTTTTAA
Found at i:154185 original size:19 final size:17
Alignment explanation
Indices: 154163--154209 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
154153 TTTTATTCAT
154163 TTTTTTGTTTTTTCTCTTA
1 TTTTTTGTTTTTT-T-TTA
154182 TTTTTTGATTTTTTTTTA
1 TTTTTTG-TTTTTTTTTA
*
154200 ATTTTTGTTT
1 TTTTTTGTTT
154210 CTCTTGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 9 0.35
19 8 0.31
20 6 0.23
ACGTcount: A:0.09, C:0.04, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTTA
Found at i:159156 original size:78 final size:79
Alignment explanation
Indices: 159051--159415 Score: 375
Period size: 79 Copynumber: 4.7 Consensus size: 79
159041 ATGGGGCTAA
*
159051 AGTATCCCCGATGGTGAAAAATTGGTG-TTTGGAAATAAAATCGAGGTTGGAGTATTCCCTCAAA
1 AGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATTCCCTCAAA
*
159115 AATTACGGGGTTGG
66 AATAACGGGGTTGG
* * * * * *
159129 AGTATCCCTGATTGTGAAAAATCGGTGTTTTAGAAATAAAA-CCAGGGTTGGAGTATCCCCTCAG
1 AGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGA-GGTTGGAGTATTCCCTCAA
* *
159193 AAATAACGAGGTTAG
65 AAATAACGGGGTTGG
* * * * *
159208 AGTATTCCCGATGAT-ATAAAATTAGTGTTTTAGAAATAAAATCG-GGATTGGAGTATACCCTCG
1 AGTATCCCCGATGGTGA-AAAATTGGTGTTTTAGAAATAAAATCGAGG-TTGGAGTATTCCCTCA
* *
159271 AAATTAATGGGGTTGG
64 AAAATAACGGGGTTGG
* * * * * * * **
159287 AATATCTCGGATGGTGGAAAATCGGTGTTTTGGAAATAAAATCGAGATTGGAGTA-TCCCTTTAA
1 AGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATTCCCTCAAA
*
159351 AATAACAGGGTTGG
66 AATAACGGGGTTGG
* * *
159365 AGCT-TCCCCGATGGTG-AAAATTGATGTTTTAGAAATAAAACCGGGGTTGGA
1 AG-TATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGAGGTTGGA
159416 AAAATTTAGA
Statistics
Matches: 230, Mismatches: 49, Indels: 17
0.78 0.17 0.06
Matches are distributed among these distances:
77 29 0.13
78 57 0.25
79 142 0.62
80 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (79 bp):
AGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATTCCCTCAAA
AATAACGGGGTTGG
Found at i:161051 original size:32 final size:33
Alignment explanation
Indices: 161005--161072 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
160995 GTACCACTAT
*
161005 TTGTATCGATACATGGT-ACATTATATCGATACA
1 TTGTATCGATACATGATGA-ATTATATCGATACA
*
161038 TTGT-TCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTATATCGATACA
161070 TTG
1 TTG
161073 CTTCTAACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 27 0.84
33 5 0.16
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTATATCGATACA
Found at i:167268 original size:13 final size:13
Alignment explanation
Indices: 167250--167276 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
167240 ACAATATTCC
167250 TTGTATCGATACA
1 TTGTATCGATACA
167263 TTGTATCGATACA
1 TTGTATCGATACA
167276 T
1 T
167277 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:167442 original size:20 final size:21
Alignment explanation
Indices: 167406--167445 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
167396 TTACAAATTT
*
167406 CTTCATTTTTACTTCAAAATA
1 CTTCATTTTTACATCAAAATA
167427 CTTCATTTTT-CATCAAAAT
1 CTTCATTTTTACATCAAAAT
167446 CACCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAATA
Found at i:169889 original size:20 final size:20
Alignment explanation
Indices: 169866--169916 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
169856 TGGTATATTA
169866 TATCGATACATAATGAATTG
1 TATCGATACATAATGAATTG
169886 TATCGATACATAATGAATTG
1 TATCGATACATAATGAATTG
169906 TATCGATACAT
1 TATCGATACAT
169917 TGCTTCTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATAATGAATTG
Found at i:172613 original size:21 final size:22
Alignment explanation
Indices: 172583--172638 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
172573 ACAGTGACCT
172583 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
172605 ATGAA-AGTGATGTATTGATAC
1 ATGAACAGTGATGTATCGATAC
*
172626 ATGAATAGTGATG
1 ATGAACAGTGATG
172639 AACAGTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:172734 original size:53 final size:53
Alignment explanation
Indices: 172670--172806 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
172660 CTACTACCAA
172670 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
172723 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
172776 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
172807 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:172839 original size:20 final size:20
Alignment explanation
Indices: 172776--172846 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
172766 GCCAATGTCC
**
172776 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
172796 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
172816 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
172836 TGTATCGATAC
1 TGTATCGATAC
172847 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:172912 original size:21 final size:21
Alignment explanation
Indices: 172886--172926 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
172876 GTCAACCTTG
172886 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
172907 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
172927 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:180898 original size:61 final size:59
Alignment explanation
Indices: 180823--181381 Score: 544
Period size: 61 Copynumber: 9.2 Consensus size: 59
180813 AACCTTTTAT
* * * **
180823 CCTTTCAGTCCTCAAAAAGTAGGATGCCTTTTCCTTCTAAAGCCCACATGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
180884 CCTTTCAGTCCTCAAAAAGCAGGACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
180945 CCTTTCAGTCTTCAAAGAGCAGGACATTTTCCTTTTAAAACTCATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
181004 TGTTTCACTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAGGTTAGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGA--CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
181065 CCTTTCAGTCCTTAAAGAGTACGACATTTTCCTTTTAAAGCCCACACAAGTTGGTGTCA
1 CCTTTCAGTCCTCAAAGAGCAGGACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
181124 CCTTTTAGGCCTCAAAGAGCAAGATGCCCCTCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
1 CCTTTCAGTCCTCAAAGAGC-AG--GACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
181186 CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGATA
1 CCTTTCAGTCCTCAAAGAGCAGG--ACC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
181248 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCCTTTAAAGCCCATACGAGTCGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGG--ACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
181309 TCTTTCAATCCTCAAAGAGCAGGGCACCATGT-CTTTTCAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCA-GG-ACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
*
181370 CCTTTTAGTCCT
1 CCTTTCAGTCCT
181382 TGAAGCGTAT
Statistics
Matches: 412, Mismatches: 74, Indels: 24
0.81 0.15 0.05
Matches are distributed among these distances:
59 99 0.24
60 5 0.01
61 204 0.50
62 104 0.25
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (59 bp):
CCTTTCAGTCCTCAAAGAGCAGGACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:181038 original size:120 final size:120
Alignment explanation
Indices: 180823--181381 Score: 568
Period size: 120 Copynumber: 4.6 Consensus size: 120
180813 AACCTTTTAT
* * * * **
180823 CCTTTCAGTCCTCAAAAAGTAGGATGCCTTTTCCTTCTAAAGCCCACATGAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGGA--CATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
180888 TCAGTCCTCAAAAAGCAGGA--CCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
64 TCAGTCCTCAAAGAGCAAGATGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * **
180945 CCTTTCAGTCTTCAAAGAGCAGGACATTTTCCTTTTAAAACTCATACAAGTTGGTGGCATGTTTC
1 CCTTTCAGTCCTCAAAGAGCAGGACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
181010 ACTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAGGTTAGTGGCA
66 AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
181065 CCTTTCAGTCCTTAAAGAGTACGACATTTTCCTTTTAAAGCCCACACAAGTTGGTGTCACCTTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
181130 AGGCCTCAAAGAGCAAGATGCCCCTCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
66 AGTCCTCAAAGAGCAAGATG-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
181186 CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGATACCT
1 CCTTTCAGTCCTCAAAGAGCAGGACA---TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * ** * * * *
181251 TTTAGTCCTCAAAGAGTAGGACACCTTTTCCCTTTAAAGCCCATACGAGTCGGTGGCA
63 TTCAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
181309 TCTTTCAATCCTCAAAGAGCAGGGCACCA-TGT-CTTTTCAAAGCCTACACAAGTTGGTGGCACC
1 CCTTTCAGTCCTCAAAGAGCA-GG-A-CATTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC
*
181372 TTTTAGTCCT
62 TTTCAGTCCT
181382 TGAAGCGTAT
Statistics
Matches: 361, Mismatches: 66, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
120 150 0.42
121 54 0.15
122 57 0.16
123 44 0.12
124 53 0.15
125 1 0.00
126 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (120 bp):
CCTTTCAGTCCTCAAAGAGCAGGACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:181444 original size:185 final size:182
Alignment explanation
Indices: 180823--181453 Score: 506
Period size: 185 Copynumber: 3.5 Consensus size: 182
180813 AACCTTTTAT
* * ** * * ** * *
180823 CCTTTCAGTCCTCAAAAAGTAGGATGCC-TTTTCCTTCTAAAGCCCACATGAGTTGGTGGCACCT
1 CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTACTTTTAAAGCCCACACAAGTTAGTGGTACCT
* * * * * *
180887 TTCAGTCCTCAAAAAGCAGGACCTTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-
66 TT-AGTCCTCAAAGAGTACGA-C-ATTTTCCCTTTAAAGCCCACACAAGTCGGTGGCACCTTTCA
* * * * * * * *
180951 AGTCTTCAAAGAGC---AGG-ACATTTTCCTTTTAAAACTCATACAAGTTGGTGGCA
128 AG-CCTCAAAGAGCAAGAGGCCCA-TCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
** * * * * ** * * *
181004 TGTTTCACTCCTCAAAGAGCAAGATGCC-TTTTCCTTTTAAAGCCCACACAGGTTAGTGGCACCT
1 CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTACTTTTAAAGCCCACACAAGTTAGTGGTACCT
* * * * * *
181068 TTCAGTCCTTAAAGAGTACGACATTTTCCTTTTAAAGCCCACACAAGTTGGTGTCACCTTTTAGG
66 TT-AGTCCTCAAAGAGTACGACATTTTCCCTTTAAAGCCCACACAAGTCGGTGGCACCTTTCAAG
* *
181133 CCTCAAAGAGCAAGATGCCCCTCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
130 CCTCAAAGAGCAAGAGGCCCATCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
* * * *
181186 CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGATACCT
1 CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTACTTTTAAAGCCCACACAAGTTAGTGGTACC-
* * * *
181251 TTTAGTCCTCAAAGAGTAGGACACCTTTTCCCTTTAAAGCCCATACGAGTCGGTGGCATCTTTCA
65 TTTAGTCCTCAAAGAGTACGACA--TTTTCCCTTTAAAGCCCACACAAGTCGGTGGCACCTTTCA
* * * * *
181316 ATCCTCAAAGAGC-AG-GGCACCATGTCTTTTCAAAGCCTACACAAGTTGGTGGCA
128 AGCCTCAAAGAGCAAGAGGC-CCATCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
** ** * * * * *
181370 CCTTTTAGTCCTTGAAGCGTATGACACTTCTTTTATTTTTAAAACCCACACAAGTTAGTGGTACC
1 CCTTTTAGTCCTCAAAAAGCAGGACACCT-TTTTACTTTTAAAGCCCACACAAGTTAGTGGTACC
181435 TTCTAGTCCTCAAAGAGTA
65 TT-TAGTCCTCAAAGAGTA
181454 AGACGCCTCT
Statistics
Matches: 366, Mismatches: 72, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
179 47 0.13
180 2 0.01
181 70 0.19
182 48 0.13
183 51 0.14
184 59 0.16
185 89 0.24
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (182 bp):
CCTTTTAGTCCTCAAAAAGCAGGACACCTTTTTACTTTTAAAGCCCACACAAGTTAGTGGTACCT
TTAGTCCTCAAAGAGTACGACATTTTCCCTTTAAAGCCCACACAAGTCGGTGGCACCTTTCAAGC
CTCAAAGAGCAAGAGGCCCATCTCCTTTCAAAGCCCACACAAGTTGGTCGCA
Found at i:182425 original size:19 final size:19
Alignment explanation
Indices: 182401--182461 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
182391 TTTTGAATTT
182401 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
182420 CAAACAGAAATGTATCGATA
1 CAAACAG-TTTGTATCGATA
*
182440 CATA-AGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
182459 CAA
1 CAA
182462 TGTATCGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:182467 original size:13 final size:13
Alignment explanation
Indices: 182449--182473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
182439 ACATAAGTGT
182449 TGTATCGATACAA
1 TGTATCGATACAA
182462 TGTATCGATACA
1 TGTATCGATACA
182474 TAAATTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:182469 original size:32 final size:32
Alignment explanation
Indices: 182428--182500 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
182418 TACAAACAGA
*
182428 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAATGTTGTATCGATAC
*
182460 AATGTATCGATACATAAATTTTGTATCGATAC
1 AATGTATCGATACATAAATGTTGTATCGATAC
182492 AATGTATCG
1 AATGTATCG
182501 CTACGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAATGTTGTATCGATAC
Found at i:182486 original size:19 final size:18
Alignment explanation
Indices: 182430--182492 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
182420 CAAACAGAAA
*
182430 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAAT-T
182449 TGTATCGATAC---AA--
1 TGTATCGATACATAAATT
182462 TGTATCGATACATAAATTT
1 TGTATCGATACATAAA-TT
182481 TGTATCGATACA
1 TGTATCGATACA
182493 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
16 3 0.08
19 23 0.62
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAATT
Found at i:182543 original size:21 final size:21
Alignment explanation
Indices: 182517--182558 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
182507 AGCTACTGTC
182517 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
182538 AAGGAAATGTATTGATACATT
1 AAGGAAATGTATCGATACATT
182559 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:184998 original size:51 final size:49
Alignment explanation
Indices: 184932--185115 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 49
184922 TAAGTTTCTC
184932 AATTGTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAAT
1 AATT-TTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAA-AAT
* * **
184983 AATTTCTCATGATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACC
1 AATTT-TCATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAA-AAT
* * **
185034 AATTTTCCTTTAATCGGGGATACTCCAACACCAATTTTATTTCCAAAAACACT
1 AATTTT-C-ATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAAA-A-T
* *
185087 AATTTTTCACAATCGAGGATACTCCAACC
1 AA-TTTTCATAATCGGGGATACTCCAACC
185116 TCGTTATTTC
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.02
51 51 0.46
52 50 0.45
53 3 0.03
54 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (49 bp):
AATTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAAAAT
Found at i:185134 original size:28 final size:28
Alignment explanation
Indices: 185098--185174 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
185088 ATTTTTCACA
* * *
185098 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
185126 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
185154 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
185175 GCTTTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:185314 original size:211 final size:211
Alignment explanation
Indices: 184946--185436 Score: 820
Period size: 211 Copynumber: 2.3 Consensus size: 211
184936 GTTCATAATC
* * *
184946 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATAATAATTTCTCATGATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
*
185011 CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACACCAATTTTATTT
66 CCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACACCAATTTTATTT
*
185076 CCAAAAACACTAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
131 CCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
*
185141 ACCCCGTTACTTCCGA
196 ACCCCGTTACCTCCGA
* *
185157 GGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
** * **
185222 CCCGATTTTATTTTCAAAACACCAATTTTTTTTTAATCGGGGATACTCCAACTCTGATTTTATTT
66 CCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACACCAATTTTATTT
* * * *
185287 CCAAAAACACCAATTTTTCATAATCGAGGATACTTCAACTTTGTTATTTCATCGGGGATACTCCA
131 CCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
185352 ACCCCGTTACCTCCGA
196 ACCCCGTTACCTCCGA
*
185368 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
185433 CCCG
66 CCCG
185437 TTATTTTCGA
Statistics
Matches: 260, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
211 260 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (211 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
CCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACACCAATTTTATTT
CCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCA
ACCCCGTTACCTCCGA
Found at i:185326 original size:52 final size:51
Alignment explanation
Indices: 184931--185326 Score: 245
Period size: 52 Copynumber: 7.6 Consensus size: 51
184921 TTAAGTTTCT
* * * * *
184931 CAATTGTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAA
1 CAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * * * *
184982 TAATTTCTCATGATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * *
185033 CAATTTTCCTTTAATCGGGGATACTCCAACACCAATTTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* * * * ***** * *
185086 TAATTTTTCACAATCGAGGATACTCCAAC-CTCGTTATTTCATCGGGGATACTC
1 CAATTTTTCATAATCGGGGATACTCCAACTC-CG--ATTTTATTTCCAAAACAC
** * * **** * ** * * *
185139 CAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATAT
1 CAA---TTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
** * * *
185193 TGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
** *
185244 CAATTTTTTTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAA-TTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* *
185297 CAATTTTTCATAATCGAGGATACTTCAACT
1 CAATTTTTCATAATCGGGGATACTCCAACT
185327 TTGTTATTTC
Statistics
Matches: 254, Mismatches: 80, Indels: 21
0.72 0.23 0.06
Matches are distributed among these distances:
51 87 0.34
52 105 0.41
53 30 0.12
54 13 0.05
56 18 0.07
57 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:185471 original size:79 final size:78
Alignment explanation
Indices: 185339--185573 Score: 274
Period size: 79 Copynumber: 3.0 Consensus size: 78
185329 GTTATTTCAT
** *
185339 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GTTTTATTTCCAAAATAT
*
185404 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * * * *
185418 TGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAATCTCGATTTTATTTCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-TTTTATTTCCAAAAT-A
* * *
185482 TCGATTTTTCACAAC
64 TTGATTTCTCATAAC
* * *
185497 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCGACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTT-TTATTTCCAAAATAT
*
185562 TAAATTTCTCAT
65 T-GATTTCTCAT
185574 CGGGACATAT
Statistics
Matches: 127, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 6 0.05
79 111 0.87
80 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTTTATTTCCAAAATATT
GATTTCTCATAAC
Found at i:193719 original size:1 final size:1
Alignment explanation
Indices: 193713--193783 Score: 61
Period size: 1 Copynumber: 71.0 Consensus size: 1
193703 CTTCTTTTCT
* * * ** * * * *
193713 AAAAAAAAAAAACAAAAAAAAACAACAAAAAAAAACGAACAAAAAAAAAACAAAAAAAACAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
193778 AAAAAA
1 AAAAAA
193784 GGAAAAGGAA
Statistics
Matches: 53, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:193731 original size:13 final size:13
Alignment explanation
Indices: 193713--193783 Score: 83
Period size: 13 Copynumber: 5.5 Consensus size: 13
193703 CTTCTTTTCT
193713 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
*
193726 AAAAAAAAACAAC
1 AAAAAAAAAAAAC
*
193739 AAAAAAAAACGAAC
1 AAAAAAAAA-AAAC
193753 --AAAAAAAAAAC
1 AAAAAAAAAAAAC
* *
193764 AAAAAAAACAAAG
1 AAAAAAAAAAAAC
193777 AAAAAAA
1 AAAAAAA
193784 GGAAAAGGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
11 3 0.06
12 7 0.14
13 37 0.74
14 3 0.06
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:193732 original size:14 final size:14
Alignment explanation
Indices: 193713--193781 Score: 70
Period size: 14 Copynumber: 4.9 Consensus size: 14
193703 CTTCTTTTCT
193713 AAAAAAAAAAAAC-
1 AAAAAAAAAAAACA
*
193726 AAAAAAAAACAACA
1 AAAAAAAAAAAACA
**
193740 AAAAAAAACGAACA
1 AAAAAAAAAAAACA
193754 AAAAAAAAACAAA-A
1 AAAAAAAAA-AAACA
193768 AAAACAAAGAAAAA
1 AAAA-AAA-AAAAA
193782 AAGGAAAAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
13 12 0.26
14 25 0.53
15 8 0.17
16 2 0.04
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Done.