Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2113
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: 27783
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Found at i:723 original size:21 final size:21
Alignment explanation
Indices: 694--738 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
684 AAGTTTTCAT
*
694 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
714 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
736 TTT
1 TTT
739 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:2966 original size:13 final size:13
Alignment explanation
Indices: 2948--2973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2938 CAATTTTTTG
2948 TGTATCGATACAT
1 TGTATCGATACAT
2961 TGTATCGATACAT
1 TGTATCGATACAT
2974 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:3038 original size:21 final size:21
Alignment explanation
Indices: 3012--3087 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
3002 CTGCCAAGAA
*
3012 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
* **
3033 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTTTTTC
*
3053 ATGTATCAATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3074 ATGTATCGATACAT
1 ATGTATCGATACAT
3088 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3058 original size:20 final size:20
Alignment explanation
Indices: 3033--3105 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
3023 CATCTTTTTT
3033 ATGTATCGATACATTGTAAC
1 ATGTATCGATACATTGTAAC
* * **
3053 ATGTATCAATACATCTTTTTC
1 ATGTATCGATACAT-TGTAAC
*
3074 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGTAAC
3094 ATGTATCGATAC
1 ATGTATCGATAC
3106 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGTAAC
Found at i:3069 original size:41 final size:41
Alignment explanation
Indices: 3012--3105 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
3002 CTGCCAAGAA
* *
3012 ATGTATCGATACATCTTTTTTATGTATCGATACATTGTAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
*
3053 ATGTATCAATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
3094 ATGTATCGATAC
1 ATGTATCGATAC
3106 TTTGAATTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:6516 original size:78 final size:78
Alignment explanation
Indices: 6406--6611 Score: 243
Period size: 78 Copynumber: 2.6 Consensus size: 78
6396 GAGATAATAA
* * * * * *
6406 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
6471 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
* * *
6484 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
6549 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* *
6563 CGGGGTTGGAGTATTCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
6612 GAAATAACAA
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 54 0.50
79 52 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:6619 original size:28 final size:27
Alignment explanation
Indices: 6563--6634 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
6553 GGAATAAAGC
*
6563 CGGGGTTGGAGTATTCCCTCGGAAGTAA
1 CGGGGTTGGAGTA-TCCCTCGGAAATAA
6591 CGGGGTTGGAGTATCCC-CGATGAAATAA
1 CGGGGTTGGAGTATCCCTCG--GAAATAA
**
6619 CAAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
6635 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 33 0.85
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:6835 original size:51 final size:51
Alignment explanation
Indices: 6622--7007 Score: 253
Period size: 52 Copynumber: 7.4 Consensus size: 51
6612 GAAATAACAA
* * * *
6622 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAATCGG
* * * * * * *
6674 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAATCGG
* * * *
6726 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTATTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAATCGG
* * * * *
6778 GATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
** **** * *
6829 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-CAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTATTTTGGA-AATAAAATCGG
* * * *
6884 GGTTGGAGTATCCCTGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATT--AGTATTTTGGAAATAAAATCGG
* * *
6938 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTATTTTGGAAATAAAATCGG
* *
6989 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
7008 GTGGAGAATT
Statistics
Matches: 256, Mismatches: 60, Indels: 37
0.73 0.17 0.10
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 74 0.29
52 92 0.36
53 27 0.11
54 23 0.09
55 17 0.07
56 7 0.03
57 2 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
Found at i:6890 original size:27 final size:27
Alignment explanation
Indices: 6826--6898 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
6816 GAAATAAAGT
6826 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTAT-CCCTCGGAAATAA
*
6854 CGGGGTTGGAGTATCCC-C-GATGATCAA
1 CGGGGTTGGAGTATCCCTCGGA-AAT-AA
6881 CGGGGTTGGAGTATCCCT
1 CGGGGTTGGAGTATCCCT
6899 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 22 0.54
28 14 0.34
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGGAAATAA
Found at i:7003 original size:263 final size:262
Alignment explanation
Indices: 6512--7012 Score: 783
Period size: 263 Copynumber: 1.9 Consensus size: 262
6502 TCGAAAATAA
* * * *
6512 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* *
6577 TCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACAAGGTTGGAGTATCCTCGACTG
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACAAGGTTGGAGTATCCTCGACTG
*
6642 TGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
130 TGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* *
6707 GTTTCGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTATTTTAGCAATAA
195 GTTTCGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTATTTTAGCAATAA
6772 AAC
260 AAC
* *
6775 CGGGATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
** *
6840 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATCAACGGGGTTGGAGTATCC-CTGATT
66 CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAT-AACAAGGTTGGAGTATCCTC-GACT
* *
6903 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATA-GAAAATT
129 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
*
6967 AGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
192 AGTGTTTCGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
7013 GAATTGATAA
Statistics
Matches: 217, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
261 3 0.01
262 24 0.11
263 150 0.69
264 40 0.18
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (262 bp):
CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACAAGGTTGGAGTATCCTCGACTGT
GAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTG
TTTCGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTATTTTAGCAATAAA
AC
Found at i:9393 original size:13 final size:13
Alignment explanation
Indices: 9375--9400 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9365 ACAAAGATCC
9375 ATGTATCGATACA
1 ATGTATCGATACA
9388 ATGTATCGATACA
1 ATGTATCGATACA
9401 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:9396 original size:33 final size:33
Alignment explanation
Indices: 9354--9420 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
9344 AAAATTTCCA
***
9354 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
9387 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
9420 A
1 A
9421 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:9464 original size:19 final size:18
Alignment explanation
Indices: 9440--9507 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
9430 CAGTAGCTAA
9440 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
*
9459 TTATGTTTCGATAC--A-
1 TTATGTATCGATACAAAC
9474 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
9491 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
9508 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:9484 original size:32 final size:32
Alignment explanation
Indices: 9443--9505 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
9433 TAGCTAATTA
* *
9443 TGTATCGATACAATACTTATGTTTCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
9475 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
9506 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:9608 original size:20 final size:20
Alignment explanation
Indices: 9543--9618 Score: 98
Period size: 21 Copynumber: 3.7 Consensus size: 20
9533 GTTGGGACCC
* **
9543 TGTATCGATACATTTGTAGGA
1 TGTATCGATACA-TTCTACAA
*
9564 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTAC-AA
9585 TGTATCGATACATTCTACAA
1 TGTATCGATACATTCTACAA
9605 TGTATCGATACATT
1 TGTATCGATACATT
9619 TGGATAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 19 0.39
21 30 0.61
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCTACAA
Found at i:10326 original size:55 final size:55
Alignment explanation
Indices: 10231--11263 Score: 1184
Period size: 55 Copynumber: 18.4 Consensus size: 55
10221 ATAAAGTGTA
* * * * * * *
10231 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
10286 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* **
10341 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* ** * *
10402 TCATGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
10457 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGACAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
* *
10518 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * *
10577 TCCCGCTATTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * *
10636 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTTAAAAAAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC-TTT-----GAAAGGTG
*
10696 TCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * * *
10750 TCATGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
10805 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * * *
10859 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
10914 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * * *
10968 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
11023 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
11077 TCCTGCTCTCTGAGGACTGGAAA-ATGCCACCAAATTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
11132 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
11187 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
11242 TCCTGCTCTTTGGGGACTGAAA
1 TCCTGCTCTTTGAGGACTGAAA
11264 AGCGGACGGA
Statistics
Matches: 870, Mismatches: 68, Indels: 81
0.85 0.07 0.08
Matches are distributed among these distances:
53 14 0.02
54 158 0.18
55 419 0.48
56 22 0.03
57 2 0.00
59 100 0.11
60 84 0.10
61 65 0.07
64 6 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:10365 original size:26 final size:26
Alignment explanation
Indices: 10277--10366 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
10267 GTGTGGGCTT
* *
10277 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
10303 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
10330 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
10358 TGAAAGGTG
1 TGAAAGGTG
10367 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:10390 original size:29 final size:29
Alignment explanation
Indices: 10303--10391 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
10293 CTTTGAGGAC
10303 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** *
10332 T-AAGAGGTGTCCTGC-TCTT-TG-GGGAC--
1 TGAA-AGGTG-CCACCAACTTGTGTGGG-CTT
10358 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
10387 TGAAA
1 TGAAA
10392 AGAAAAAGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 3 0.07
26 9 0.20
27 8 0.18
28 8 0.18
29 14 0.31
30 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:10831 original size:109 final size:110
Alignment explanation
Indices: 10254--11262 Score: 1275
Period size: 109 Copynumber: 9.0 Consensus size: 110
10244 GGAGTAAAAA
* * * *
10254 GTGCCACCAACTCGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACC
1 GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACC
*
10317 AACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTGAAAG
65 AACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG-AAG
* ** * *
10364 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGACTGAAAAATGC
1 GTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGTGTCCTGCTCTTTGAGGACTGGAAAATGC
* * *
10429 CACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTGAAAG
61 CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG-AAG
* ** *
10480 GTGCCACCAACTTGTGTGGGCTTTGAAAAGACAAAGCATCCTGCTCTTTGAGGACT--AAAGGTG
1 GTGCCACCAACTTGTGTGGGCTTT--AAAG---AGGTGTCCTGCTCTTTGAGGACTGGAAA-ATG
* * * *
10543 CCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTATTTGAGGACTGAAG
60 CCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTGAAG
* * **
10599 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCCGCTCTTTGAGGACT-GAAGGTGCC
1 GTGCCACCAACTTGTGTGGGCTTT-AAAG---AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCC
* * *
10663 ACCAACTTGTGTGGGCTTTTAAAAAAAAATGTGTCCCGCTCTTTGAGGACTGAAG
62 ACCAACTTGTGTGGGC-TTT-----GAAAGGTGTCCTGCTCTTTGAGGACTGAAG
* *
10718 GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCATGCTCTCTGAGGACTGGAAAATGCCACCA
1 GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
*
10782 ACTTGTGTGGGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAG
66 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAG
*
10827 GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTCTGAGGACTGGAAAATGCCACCA
1 GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
* *
10891 ACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGACTGAAG
66 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAG
*
10936 GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTCTGAGGACTGGAAAATGCCACCA
1 GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
* *
11000 ACTTGTGTGGGCTTTGAAAAGAGTCCTGCTCTTTGAGGACTGAAG
66 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAG
*
11045 GTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTCTGAGGACTGGAAAATGCCACCA
1 GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
* *
11109 AATTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA
66 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAG
* *
11155 ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
1 GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
*
11219 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAA
66 ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAA
11263 AAGCGGACGG
Statistics
Matches: 830, Mismatches: 49, Indels: 41
0.90 0.05 0.04
Matches are distributed among these distances:
109 347 0.42
110 124 0.15
111 2 0.00
112 2 0.00
114 25 0.03
115 44 0.05
116 124 0.15
117 8 0.01
118 46 0.06
119 82 0.10
120 26 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (110 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCA
ACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAG
Found at i:11154 original size:27 final size:27
Alignment explanation
Indices: 11124--11209 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
11114 TGTGGGCTTT
11124 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
11151 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
11179 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
11206 GAAA
1 GAAA
11210 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:12297 original size:12 final size:13
Alignment explanation
Indices: 12260--12296 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
12250 TGTTTTGTTT
*
12260 TTTTGTTTTTTTCC
1 TTTT-TTTTTTTGC
12274 TTTTTTTTTTTGC
1 TTTTTTTTTTTGC
12287 TTTTTTTTTT
1 TTTTTTTTTT
12297 GAAGAGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGC
Found at i:18000 original size:52 final size:52
Alignment explanation
Indices: 17922--18049 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
17912 CGAAATATGA
*
17922 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
17974 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
18026 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
18050 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:18076 original size:13 final size:13
Alignment explanation
Indices: 18058--18082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18048 CAAAGATCAG
18058 TGTATCGATACAA
1 TGTATCGATACAA
18071 TGTATCGATACA
1 TGTATCGATACA
18083 TTTGAGTAAT
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:18160 original size:33 final size:33
Alignment explanation
Indices: 18123--18189 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
18113 AGTAGCTTAA
18123 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
18156 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
18189 A
1 A
18190 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:18163 original size:13 final size:13
Alignment explanation
Indices: 18145--18169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18135 CAAAAAAATA
18145 TGTATCGATACAT
1 TGTATCGATACAT
18158 TGTATCGATACA
1 TGTATCGATACA
18170 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20173 original size:49 final size:49
Alignment explanation
Indices: 20027--20185 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
20017 AAAAGTGATA
* * * *
20027 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT--G
* ** * * *
20078 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAACTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
* *
20131 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
*
20180 ATGATG
1 AAGATG
20186 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
49 44 0.52
50 2 0.02
53 1 0.01
54 2 0.02
55 36 0.42
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
Found at i:20288 original size:45 final size:42
Alignment explanation
Indices: 20236--20368 Score: 117
Period size: 43 Copynumber: 3.1 Consensus size: 42
20226 ACGATATTGG
* *
20236 GCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCA
1 GCTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCA
* *
20281 GCTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCA
1 GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
* * ** *
20323 GC-TATA-TTGGACTTAAAGGTGCCAATGTGCTAATTCAAGGCCA
1 GCTTAAAGATGGA---AAAGGTGCCAACATGCTGATTCAAGGCCA
20366 GCT
1 GCT
20369 ACATTGGACT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 23 0.31
43 33 0.44
44 1 0.01
45 11 0.15
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (42 bp):
GCTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCA
Found at i:20317 original size:42 final size:42
Alignment explanation
Indices: 20265--20368 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
20255 GATGTCAACG
*
20265 TGCTGATTCAAGGCCAGCTTAAAGATGGA-AAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTTAAA-ATGGATAAAGGTGCCAATA
* * *
20307 TGCTGATTCAAGGCCAGC-TATATTGGACTTAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTTAAAATGGA--TAAAGGTGCCAATA
*
20350 TGCTAATTCAAGGCCAGCT
1 TGCTGATTCAAGGCCAGCT
20369 ACATTGGACT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 4 0.08
41 3 0.06
42 18 0.34
43 28 0.53
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
TGCTGATTCAAGGCCAGCTTAAAATGGATAAAGGTGCCAATA
Found at i:20397 original size:49 final size:49
Alignment explanation
Indices: 20298--21208 Score: 1300
Period size: 49 Copynumber: 18.6 Consensus size: 49
20288 GATGGAAAAT
*
20298 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20341 GTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * *
20390 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20439 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
20488 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20537 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * *
20586 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20635 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20684 ATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAG
* *
20733 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20782 ATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAG
* *
20831 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
20880 ATGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAG
* *
20929 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* * * * *
20978 ATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
21027 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAG
* *
21079 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
* *
21128 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAG
21180 GTGCCAATATGCTGATTCAAGGCCAGCTA
1 GTGCCAATATGCTGATTCAAGGCCAGCTA
21209 TATTTGGCTT
Statistics
Matches: 767, Mismatches: 83, Indels: 27
0.87 0.09 0.03
Matches are distributed among these distances:
43 36 0.05
47 1 0.00
48 3 0.00
49 647 0.84
50 5 0.01
51 1 0.00
52 74 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
Found at i:20482 original size:98 final size:98
Alignment explanation
Indices: 20299--21212 Score: 1606
Period size: 98 Copynumber: 9.3 Consensus size: 98
20289 ATGGAAAATG
* * *
20299 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20358 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
20391 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20456 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
20489 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20554 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
20587 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20652 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
20685 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20750 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
20783 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20848 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
*
20881 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
20946 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
* *
20979 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
21044 CAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGA
* *
21080 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
21145 CAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGA
*
21181 TGCCAATATGCTGATTCAAGGCCAGCTATATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATT
21213 TGGCTTAGAG
Statistics
Matches: 801, Mismatches: 12, Indels: 9
0.97 0.01 0.01
Matches are distributed among these distances:
92 37 0.05
98 629 0.79
99 1 0.00
101 134 0.17
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGA
Found at i:21320 original size:32 final size:33
Alignment explanation
Indices: 21224--21316 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
21214 GGCTTAGAGG
21224 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
21257 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
21290 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
21317 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:21365 original size:34 final size:34
Alignment explanation
Indices: 21325--22044 Score: 423
Period size: 34 Copynumber: 20.7 Consensus size: 34
21315 GGGAAGGAAA
*
21325 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
*
21359 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GA
1 AAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGG
21394 AAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* *
21429 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGG
*
21464 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* ** * * *
21500 AAAGAGAGTGCCACAAAGTCGTAGGTGC-CACAGAGTTGTGGG
1 AAAAAGA-TGCCACGGAGTTGT-GG-GCTTA-A-A----AGGG
* *
21542 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 ----AAAA-----AGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
**
21587 AAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA--G
1 AAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGG
* *
21621 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * * *
21655 AAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGG
1 AA-AAAGATGCCACGGA-GT-TGTGGGC-TTAA-AAGGG
* *
21694 AGAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
*
21728 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GA
1 AAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGG
21763 AAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* **
21798 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGG
* * * *
21833 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAA-AGGG
*
21868 AAAAAG-TGCCACGGAATTGTGGGCTTTAAAA-GG
1 AAAAAGATGCCACGGAGTTGTGGGC-TTAAAAGGG
* * *
21901 -----G-TGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAA-AGGG
* *
21930 AAAAAG-TGCCACGGAATTGTGGGCTTTAAA--G
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
* * * * *
21961 AAAAA-ATGCCACTGAGTCGTGGACTT---TGAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
* * * *
21991 ACAAA-ATGCCACTGAGTTGTGGACTTTAAA--G
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
* *
22022 AAAAAGATGCCACTGAGTCGTGG
1 AAAAAGATGCCACGGAGTTGTGG
22045 ACTTTGAGCA
Statistics
Matches: 552, Mismatches: 75, Indels: 120
0.74 0.10 0.16
Matches are distributed among these distances:
27 5 0.01
28 18 0.03
29 1 0.00
30 25 0.05
31 26 0.05
32 16 0.03
33 63 0.11
34 115 0.21
35 111 0.20
36 42 0.08
37 80 0.14
38 14 0.03
39 4 0.01
41 4 0.01
42 3 0.01
45 2 0.00
46 3 0.01
48 2 0.00
49 3 0.01
50 12 0.02
51 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:21398 original size:70 final size:70
Alignment explanation
Indices: 21324--21513 Score: 303
Period size: 71 Copynumber: 2.7 Consensus size: 70
21314 TGGGAAGGAA
*
21324 AAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
21387 TAAAAG
65 TAAAAG
*
21393 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
21458 AAACGG
66 AAA-AG
* *
21464 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCAC
21514 AAAGTCGTAG
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
68 17 0.15
69 9 0.08
70 39 0.35
71 48 0.42
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.18
Consensus pattern (70 bp):
AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
AAAAG
Found at i:21584 original size:87 final size:88
Alignment explanation
Indices: 21436--21605 Score: 288
Period size: 87 Copynumber: 1.9 Consensus size: 88
21426 GGGAAAAAGA
* * *
21436 GTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
*
21501 AAGAGAGTGCCACAAAGTCGTAG
66 AAAAGAGTGCCACAAAGTCGTAG
*
21524 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
21588 AAAAGAGTGCCACAAAGT
66 AAAAGAGTGCCACAAAGT
21606 TGTGGGCTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 53 0.69
88 24 0.31
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTCGTAG
Found at i:21637 original size:70 final size:69
Alignment explanation
Indices: 21524--22051 Score: 509
Period size: 70 Copynumber: 7.8 Consensus size: 69
21514 AAAGTCGTAG
*
21524 GTGCCAC-AGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACGA-AGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG-A
21588 AAAAGA
64 AAAAGA
* * * *
21594 GTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAG
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAAA
21658 AAG-
66 AAGA
** * *
21661 GTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAA
1 G-TGCCA-CGAAGT-TGTGGGCTTTAA-AA--GAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
21724 AGGGAAAAAGA
60 A-GGAAAAAGA
* * *
21735 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-GGAA
21800 AAAGA
65 AAAGA
* *
21805 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAGATGA
1 GTGCCACGAAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA-AGGA
21868 AAAA-A
64 AAAAGA
*
21873 GTGCCACGGAA-TTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGAC-TT-AAAGATGA
1 GTGCCAC-GAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA-AGGA
21930 AAAA-A
64 AAAAGA
* * * *
21935 GTGCCACGGAA-TTGTGGGCTTT-AAAGAAAAA-ATGCCACTGAGTCGTGGACTTTG---A-GAC
1 GTGCCAC-GAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAA
21993 AAA-A
65 AAAGA
* * * *
21997 -TGCCACTG-AGTTGTGGACTTT-AAAGAAAAAGATGCCACTGAGTCGTGGACTTTGA
1 GTGCCAC-GAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGA
22052 GCAGAGATTG
Statistics
Matches: 406, Mismatches: 27, Indels: 57
0.83 0.06 0.12
Matches are distributed among these distances:
60 1 0.00
61 30 0.07
62 86 0.21
63 1 0.00
65 16 0.04
66 2 0.00
67 3 0.01
68 54 0.13
69 17 0.04
70 113 0.28
71 44 0.11
72 5 0.01
73 33 0.08
74 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (69 bp):
GTGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAAA
AAGA
Found at i:21795 original size:62 final size:62
Alignment explanation
Indices: 21588--22114 Score: 313
Period size: 62 Copynumber: 8.0 Consensus size: 62
21578 TGAAAAGGAA
** * * *
21588 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTTG
* * * *
21650 AAAAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGAGAAAGATGCCACGGAGTTGT
1 --AA-AAG-A-G-TGCCACGGA-GT-TGTGGGCTTTAA-AA-GAAAAAAG-TGCCACGGAGTTGT
*
21715 GGACTTAAAAGGG
55 GGACTT-----TG
*
21728 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA
1 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTT---
21793 AAGGG
62 ----G
*
21798 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGACTTAAA
1 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAAGTGCCACGGAGTTGTGGACTT---
21863 GATG
61 --TG
* * *
21867 AAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGACTTAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTT-----
21927 TG
61 TG
* * * *
21929 AAAAAAGTGCCACGGAATTGTGGGCTTT-AAAGAAAAAA-TGCCACTGAGTCGTGGACTTTG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTTG
* * * * *
21989 AGACAA-AATGCCACTGAGTTGTGGACTTT-AAAG-AAAAAGATGCCACTGAGTCGTGGACTTTG
1 A-A-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG-TGCCACGGAGTTGTGGACTTTG
* * * * * * *
22051 AGCAGAGATTGCCACTGAGTCGTGGACTTT-AAAG-AAAAAGATGCCACTGAGTCGTGGACTTTG
1 A--AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG-TGCCACGGAGTTGTGGACTTTG
22114 A
1 A
22115 GCAGAGATTG
Statistics
Matches: 397, Mismatches: 28, Indels: 77
0.79 0.06 0.15
Matches are distributed among these distances:
60 8 0.02
61 28 0.07
62 83 0.21
63 56 0.14
64 2 0.01
65 21 0.05
66 1 0.00
67 3 0.01
68 55 0.14
69 8 0.02
70 47 0.12
71 41 0.10
72 7 0.02
73 27 0.07
74 1 0.00
75 1 0.00
76 4 0.01
77 3 0.01
78 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (62 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGACTTTG
Found at i:21907 original size:28 final size:28
Alignment explanation
Indices: 21867--21959 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 28
21857 CTTAAAGATG
21867 AAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAAAGTGCCACGGAATTGTGGGCTTT
** * *
21895 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAAAAAGTGCCACGGAATTGTGGGCTT-----T
21928 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAAAGTGCCACGGAATTGTGGGCTTT
21957 AAA
1 AAA
21960 GAAAAAATGC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 26 0.51
29 1 0.02
33 1 0.02
34 23 0.45
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (28 bp):
AAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:22010 original size:369 final size:369
Alignment explanation
Indices: 21285--22017 Score: 1015
Period size: 369 Copynumber: 2.0 Consensus size: 369
21275 TGGGCTTTAG
**
21285 GAAGAGTTGCCACCGACTTGTGTGGGCTTTGGGAAGGAAAAAAAAGATGCCACGGAGTTGTGGAC
1 GAAGAGTTGCCACCGACTTGTGTGGGCTTTAAGAAGG-AAAAAAAGATGCCACGGAGTTGTGGAC
21350 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
65 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTG
*
21415 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGA
130 GGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGA
* * *
21480 GTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTCGTAGGTGCCACAGAGTTGTGGGCTT
195 GTTGTGGACTTTAAAAAGGGAAAGAAAGTGCCACAAAGTCGTAGGTGCCACAGAGTTGTGGACTT
* * *
21545 TAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGTG
260 TAAAAGAAAAAAGTGCCACGGAATTGTGGGCTTT-AAAAGGAAAAAAGAGTGCCACAAAGTCGTG
* * *
21610 GGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
324 GACTTTAAAACAAGAA-GTGCCACGGAGTTGTGGACTTTGAAAAGAA
* *
21657 GAAG-GTTGCCACCGACTTGTGTGGGCTTTAAGAAGG-GAGAAAGATGCCACGGAGTTGTGGACT
1 GAAGAGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGAAAAAAAGATGCCACGGAGTTGTGGACT
21720 TAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGG
66 TAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGG
21785 GCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAG
131 GCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAG
* * * * *
21850 TTGTGGAC-TTAAAGA-TGAAA-AAAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGAG
196 TTGTGGACTTTAAAAAGGGAAAGAAAGTGCCAC--AA-AGT---C-GT---A-GGTGCCACAGAG
21912 TTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT-AAA-G-AAAAA-A-TGCC
250 TTGTGGACTTTAAA-A-GAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGAAAAAAGAGTGCC
** * * *
21971 ACTGAGTCGTGGACTTTGAGACAA-AA-TGCCACTGAGTTGTGGACTTT
313 ACAAAGTCGTGGACTTTAAAACAAGAAGTGCCACGGAGTTGTGGACTTT
22018 AAAGAAAAAG
Statistics
Matches: 324, Mismatches: 24, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
366 9 0.03
367 4 0.01
368 8 0.02
369 182 0.56
371 32 0.10
372 26 0.08
373 2 0.01
374 5 0.02
375 1 0.00
376 9 0.03
377 19 0.06
378 27 0.08
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (369 bp):
GAAGAGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGAAAAAAAGATGCCACGGAGTTGTGGACT
TAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGG
GCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAG
TTGTGGACTTTAAAAAGGGAAAGAAAGTGCCACAAAGTCGTAGGTGCCACAGAGTTGTGGACTTT
AAAAGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGAAAAAAGAGTGCCACAAAGTCGTGGA
CTTTAAAACAAGAAGTGCCACGGAGTTGTGGACTTTGAAAAGAA
Found at i:22067 original size:31 final size:31
Alignment explanation
Indices: 21966--22143 Score: 236
Period size: 31 Copynumber: 5.7 Consensus size: 31
21956 TAAAGAAAAA
21966 ATGCCACTGAGTCGTGGACTTTGAGACAAA-
1 ATGCCACTGAGTCGTGGACTTTGAGACAAAG
* * *
21996 ATGCCACTGAGTTGTGGACTTTAAAGAAAAAG
1 ATGCCACTGAGTCGTGGACTTT-GAGACAAAG
*
22028 ATGCCACTGAGTCGTGGACTTTGAG-CAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGACAAAG
* *
22058 ATTGCCACTGAGTCGTGGACTTTAAAGAAAAAG
1 A-TGCCACTGAGTCGTGGACTTT-GAGACAAAG
*
22091 ATGCCACTGAGTCGTGGACTTTGAG-CAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGACAAAG
22121 ATTGCCACTGAGTCGTGGACTTT
1 A-TGCCACTGAGTCGTGGACTTT
22144 TTTTTTTTTT
Statistics
Matches: 129, Mismatches: 13, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
30 29 0.22
31 52 0.40
32 44 0.34
33 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTGAGACAAAG
Found at i:22076 original size:63 final size:63
Alignment explanation
Indices: 21948--22143 Score: 335
Period size: 63 Copynumber: 3.1 Consensus size: 63
21938 CCACGGAATT
* * *
21948 GTGGGCTTTAAAGAAAAA-ATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTT
1 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGATTGCCACTGAGTC
22009 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
22072 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
22135 GTGGACTTT
1 GTGGACTTT
22144 TTTTTTTTTT
Statistics
Matches: 129, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
61 19 0.15
62 26 0.20
63 84 0.65
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (63 bp):
GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
Found at i:23126 original size:17 final size:16
Alignment explanation
Indices: 23094--23124 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23084 TTTCCTCTCT
*
23094 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
23110 TTTTGTTTCTTTTTT
1 TTTTGTTTCTTTTTT
23125 TGGAAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Done.